Query 030350
Match_columns 179
No_of_seqs 191 out of 1705
Neff 8.6
Searched_HMMs 46136
Date Fri Mar 29 12:24:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030350.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030350hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.8 2E-18 4.4E-23 139.6 8.3 78 71-152 207-284 (348)
2 PF13639 zf-RING_2: Ring finge 99.6 5.9E-16 1.3E-20 90.3 2.6 44 96-142 1-44 (44)
3 PHA02929 N1R/p28-like protein; 99.4 1E-13 2.2E-18 107.7 4.9 77 72-150 151-231 (238)
4 PF12678 zf-rbx1: RING-H2 zinc 99.4 2.5E-13 5.3E-18 87.6 3.7 47 94-142 18-73 (73)
5 COG5540 RING-finger-containing 99.3 4.9E-13 1.1E-17 105.3 3.2 52 94-147 322-373 (374)
6 COG5243 HRD1 HRD ubiquitin lig 99.2 5.7E-11 1.2E-15 96.1 7.1 69 73-148 269-347 (491)
7 KOG0317 Predicted E3 ubiquitin 99.2 3.3E-11 7.1E-16 94.6 5.4 49 93-147 237-285 (293)
8 PLN03208 E3 ubiquitin-protein 99.2 2.8E-11 6E-16 90.8 3.9 51 93-147 16-80 (193)
9 PF12861 zf-Apc11: Anaphase-pr 99.1 4.4E-11 9.5E-16 78.1 3.2 54 94-147 20-83 (85)
10 smart00504 Ubox Modified RING 99.1 1.1E-10 2.3E-15 72.9 4.7 61 96-172 2-62 (63)
11 TIGR00599 rad18 DNA repair pro 99.1 1.3E-10 2.8E-15 96.6 5.2 65 94-174 25-89 (397)
12 PF13920 zf-C3HC4_3: Zinc fing 99.1 7.6E-11 1.6E-15 70.4 2.8 47 95-147 2-49 (50)
13 PF15227 zf-C3HC4_4: zinc fing 99.1 8.7E-11 1.9E-15 67.5 2.7 40 98-141 1-42 (42)
14 PF13923 zf-C3HC4_2: Zinc fing 99.0 1E-10 2.3E-15 66.2 2.4 39 98-141 1-39 (39)
15 cd00162 RING RING-finger (Real 99.0 1.9E-10 4.1E-15 66.3 3.3 45 97-145 1-45 (45)
16 KOG0823 Predicted E3 ubiquitin 99.0 1.7E-10 3.6E-15 88.2 3.1 53 92-148 44-97 (230)
17 KOG0320 Predicted E3 ubiquitin 99.0 2.9E-10 6.2E-15 83.6 3.3 53 91-147 127-179 (187)
18 PF00097 zf-C3HC4: Zinc finger 99.0 3.2E-10 7E-15 64.7 2.4 41 98-141 1-41 (41)
19 PHA02926 zinc finger-like prot 99.0 4.7E-10 1E-14 85.3 3.5 55 93-147 168-231 (242)
20 PF04564 U-box: U-box domain; 98.9 1.7E-09 3.6E-14 69.7 3.9 64 95-173 4-67 (73)
21 COG5194 APC11 Component of SCF 98.9 9.3E-10 2E-14 70.2 2.5 50 96-147 21-82 (88)
22 KOG0287 Postreplication repair 98.9 1.3E-09 2.8E-14 87.4 2.7 63 95-173 23-85 (442)
23 PF14634 zf-RING_5: zinc-RING 98.8 2.7E-09 5.8E-14 61.9 3.0 44 97-143 1-44 (44)
24 KOG0802 E3 ubiquitin ligase [P 98.8 1.6E-09 3.6E-14 94.3 2.0 51 94-147 290-342 (543)
25 KOG1734 Predicted RING-contain 98.8 2.4E-09 5.3E-14 83.4 2.4 68 93-163 222-296 (328)
26 smart00184 RING Ring finger. E 98.7 1.5E-08 3.3E-13 56.2 2.8 39 98-141 1-39 (39)
27 PF13445 zf-RING_UBOX: RING-ty 98.6 2.4E-08 5.3E-13 57.4 2.6 40 98-139 1-43 (43)
28 COG5432 RAD18 RING-finger-cont 98.6 2.6E-08 5.7E-13 78.5 3.2 63 95-173 25-87 (391)
29 KOG1493 Anaphase-promoting com 98.6 6.7E-09 1.5E-13 65.7 -0.1 52 95-146 20-81 (84)
30 smart00744 RINGv The RING-vari 98.6 6.1E-08 1.3E-12 57.4 3.1 44 97-142 1-49 (49)
31 COG5574 PEX10 RING-finger-cont 98.5 3.7E-08 8E-13 76.8 2.3 50 93-147 213-263 (271)
32 PF14835 zf-RING_6: zf-RING of 98.5 3.8E-08 8.2E-13 60.7 1.5 58 96-170 8-65 (65)
33 KOG2164 Predicted E3 ubiquitin 98.5 5.2E-08 1.1E-12 82.2 2.5 49 95-147 186-237 (513)
34 COG5219 Uncharacterized conser 98.5 3.5E-08 7.7E-13 88.1 1.5 53 94-146 1468-1523(1525)
35 KOG2930 SCF ubiquitin ligase, 98.5 7.7E-08 1.7E-12 64.5 2.3 69 76-146 26-108 (114)
36 KOG0828 Predicted E3 ubiquitin 98.5 5.9E-08 1.3E-12 81.4 1.6 53 94-147 570-635 (636)
37 TIGR00570 cdk7 CDK-activating 98.5 1.6E-07 3.5E-12 75.5 4.0 52 95-147 3-55 (309)
38 KOG0804 Cytoplasmic Zn-finger 98.4 5.8E-08 1.3E-12 80.6 1.2 49 94-146 174-222 (493)
39 PF11793 FANCL_C: FANCL C-term 98.4 7.3E-08 1.6E-12 61.5 0.3 53 95-147 2-67 (70)
40 KOG2177 Predicted E3 ubiquitin 98.3 3.8E-07 8.2E-12 72.7 3.8 64 93-174 11-74 (386)
41 KOG0827 Predicted E3 ubiquitin 98.3 2.1E-07 4.5E-12 76.1 2.1 47 96-142 5-52 (465)
42 PHA02825 LAP/PHD finger-like p 98.2 4.5E-06 9.8E-11 60.6 5.7 68 93-165 6-78 (162)
43 KOG0311 Predicted E3 ubiquitin 98.1 5.2E-07 1.1E-11 73.0 0.1 51 94-148 42-92 (381)
44 KOG0824 Predicted E3 ubiquitin 98.0 2.2E-06 4.8E-11 68.1 2.0 50 95-149 7-56 (324)
45 KOG4265 Predicted E3 ubiquitin 97.9 4.7E-06 1E-10 67.8 2.4 52 93-150 288-340 (349)
46 KOG1645 RING-finger-containing 97.9 5.4E-06 1.2E-10 68.4 2.6 53 95-147 4-57 (463)
47 PF11789 zf-Nse: Zinc-finger o 97.9 5.3E-06 1.2E-10 50.6 1.9 44 94-140 10-53 (57)
48 PHA02862 5L protein; Provision 97.9 7.1E-06 1.5E-10 58.6 2.4 59 96-159 3-66 (156)
49 KOG0825 PHD Zn-finger protein 97.9 3.8E-06 8.2E-11 74.2 1.0 77 95-174 123-201 (1134)
50 KOG4159 Predicted E3 ubiquitin 97.9 8.1E-06 1.7E-10 68.3 2.8 72 94-176 83-154 (398)
51 KOG1039 Predicted E3 ubiquitin 97.8 9.6E-06 2.1E-10 66.6 2.0 54 94-147 160-222 (344)
52 KOG4445 Uncharacterized conser 97.7 2.1E-05 4.5E-10 62.6 1.9 69 93-162 113-202 (368)
53 KOG0978 E3 ubiquitin ligase in 97.7 1.4E-05 3.1E-10 70.6 1.0 49 94-147 642-690 (698)
54 KOG2879 Predicted E3 ubiquitin 97.6 6.2E-05 1.3E-09 59.3 3.8 54 93-149 237-290 (298)
55 KOG4172 Predicted E3 ubiquitin 97.6 1.7E-05 3.8E-10 47.1 0.5 50 95-149 7-57 (62)
56 KOG2660 Locus-specific chromos 97.5 4E-05 8.6E-10 61.8 1.8 69 94-173 14-82 (331)
57 KOG1785 Tyrosine kinase negati 97.4 5.6E-05 1.2E-09 62.4 1.3 46 97-146 371-416 (563)
58 PF12906 RINGv: RING-variant d 97.2 0.00018 3.9E-09 42.1 1.7 42 98-141 1-47 (47)
59 KOG3970 Predicted E3 ubiquitin 97.2 0.00047 1E-08 53.0 4.3 51 95-147 50-106 (299)
60 KOG0297 TNF receptor-associate 97.2 0.00016 3.4E-09 60.9 1.8 51 93-148 19-69 (391)
61 KOG0826 Predicted E3 ubiquitin 97.2 0.0022 4.7E-08 52.0 7.8 49 92-145 297-345 (357)
62 KOG1941 Acetylcholine receptor 97.0 0.00027 5.9E-09 58.3 1.3 49 94-143 364-413 (518)
63 PF14570 zf-RING_4: RING/Ubox 96.9 0.00089 1.9E-08 39.1 2.4 46 98-145 1-47 (48)
64 KOG4692 Predicted E3 ubiquitin 96.9 0.0009 1.9E-08 54.7 3.2 49 93-147 420-468 (489)
65 KOG3039 Uncharacterized conser 96.7 0.0015 3.3E-08 50.9 3.1 51 95-147 221-271 (303)
66 KOG1428 Inhibitor of type V ad 96.7 0.0012 2.7E-08 62.4 2.9 78 68-147 3460-3545(3738)
67 KOG0801 Predicted E3 ubiquitin 96.7 0.00061 1.3E-08 49.8 0.7 29 94-123 176-204 (205)
68 COG5152 Uncharacterized conser 96.7 0.0015 3.3E-08 49.3 2.9 46 95-146 196-241 (259)
69 PF05883 Baculo_RING: Baculovi 96.6 0.00082 1.8E-08 47.8 1.1 37 95-132 26-68 (134)
70 KOG1952 Transcription factor N 96.6 0.0024 5.1E-08 57.5 3.8 54 93-146 189-247 (950)
71 KOG1002 Nucleotide excision re 96.5 0.0012 2.6E-08 56.7 1.7 52 94-149 535-589 (791)
72 KOG1813 Predicted E3 ubiquitin 96.3 0.0028 6E-08 50.7 2.3 48 94-147 240-287 (313)
73 KOG1571 Predicted E3 ubiquitin 96.3 0.0026 5.7E-08 52.1 2.3 45 94-147 304-348 (355)
74 KOG4185 Predicted E3 ubiquitin 96.3 0.0043 9.3E-08 50.2 3.4 71 96-173 4-77 (296)
75 PF10367 Vps39_2: Vacuolar sor 96.2 0.002 4.3E-08 44.0 0.9 32 94-127 77-108 (109)
76 PF08746 zf-RING-like: RING-li 96.2 0.0038 8.2E-08 35.8 1.9 43 98-141 1-43 (43)
77 COG5222 Uncharacterized conser 96.0 0.012 2.6E-07 47.3 4.5 44 96-143 275-318 (427)
78 KOG4739 Uncharacterized protei 95.9 0.0034 7.5E-08 48.8 1.2 45 97-147 5-49 (233)
79 KOG3268 Predicted E3 ubiquitin 95.8 0.0073 1.6E-07 44.9 2.5 32 116-147 189-229 (234)
80 KOG3800 Predicted E3 ubiquitin 95.8 0.0087 1.9E-07 47.8 2.9 50 97-147 2-52 (300)
81 KOG3053 Uncharacterized conser 95.7 0.0075 1.6E-07 47.3 2.4 56 93-148 18-84 (293)
82 KOG0827 Predicted E3 ubiquitin 95.7 0.00084 1.8E-08 55.4 -2.9 51 94-147 195-246 (465)
83 KOG1814 Predicted E3 ubiquitin 95.7 0.006 1.3E-07 50.9 1.9 50 94-144 183-238 (445)
84 COG5236 Uncharacterized conser 95.6 0.0096 2.1E-07 48.7 2.7 54 92-149 58-111 (493)
85 PF04641 Rtf2: Rtf2 RING-finge 95.5 0.018 3.9E-07 45.9 3.9 52 93-147 111-162 (260)
86 KOG2114 Vacuolar assembly/sort 95.4 0.0064 1.4E-07 54.9 1.2 42 96-145 841-882 (933)
87 KOG1940 Zn-finger protein [Gen 95.3 0.01 2.2E-07 47.5 1.7 46 96-143 159-204 (276)
88 KOG0298 DEAD box-containing he 95.2 0.0082 1.8E-07 56.4 1.1 48 94-146 1152-1199(1394)
89 COG5175 MOT2 Transcriptional r 95.2 0.015 3.3E-07 47.4 2.5 53 94-147 13-65 (480)
90 COG5183 SSM4 Protein involved 95.0 0.019 4.1E-07 51.8 3.0 52 93-146 10-66 (1175)
91 PHA03096 p28-like protein; Pro 94.8 0.016 3.4E-07 46.7 1.8 48 96-143 179-231 (284)
92 PF07800 DUF1644: Protein of u 94.7 0.035 7.6E-07 40.6 3.1 38 95-132 2-48 (162)
93 PF14446 Prok-RING_1: Prokaryo 94.4 0.058 1.3E-06 32.3 3.0 33 95-127 5-37 (54)
94 PF14447 Prok-RING_4: Prokaryo 94.4 0.019 4.2E-07 34.4 0.9 43 97-147 9-51 (55)
95 PF03854 zf-P11: P-11 zinc fin 94.2 0.033 7.1E-07 32.3 1.7 30 116-147 17-47 (50)
96 KOG3161 Predicted E3 ubiquitin 94.2 0.022 4.8E-07 50.1 1.4 43 96-143 12-54 (861)
97 KOG1001 Helicase-like transcri 94.2 0.022 4.7E-07 51.2 1.4 48 96-148 455-502 (674)
98 COG5220 TFB3 Cdk activating ki 94.1 0.028 6E-07 43.8 1.6 51 94-145 9-63 (314)
99 KOG3002 Zn finger protein [Gen 93.9 0.068 1.5E-06 43.4 3.6 46 94-147 47-92 (299)
100 KOG1609 Protein involved in mR 93.2 0.062 1.3E-06 43.6 2.2 55 94-148 77-136 (323)
101 KOG2932 E3 ubiquitin ligase in 93.0 0.047 1E-06 44.1 1.3 45 97-148 92-136 (389)
102 PF05290 Baculo_IE-1: Baculovi 92.9 0.1 2.2E-06 37.1 2.7 55 94-148 79-134 (140)
103 KOG4362 Transcriptional regula 92.6 0.055 1.2E-06 48.3 1.3 48 96-147 22-70 (684)
104 KOG4275 Predicted E3 ubiquitin 92.5 0.033 7.1E-07 44.6 -0.2 43 95-147 300-343 (350)
105 PF10272 Tmpp129: Putative tra 92.3 0.09 1.9E-06 43.7 2.1 31 117-147 311-352 (358)
106 KOG2817 Predicted E3 ubiquitin 92.0 0.13 2.8E-06 43.0 2.7 50 94-144 333-383 (394)
107 KOG0309 Conserved WD40 repeat- 92.0 0.096 2.1E-06 47.1 2.0 24 115-140 1046-1069(1081)
108 PF11023 DUF2614: Protein of u 91.7 0.48 1E-05 32.7 4.7 14 135-148 85-98 (114)
109 PF01102 Glycophorin_A: Glycop 91.1 0.43 9.4E-06 33.6 4.2 30 11-40 66-95 (122)
110 KOG0825 PHD Zn-finger protein 90.6 0.22 4.8E-06 45.1 2.9 54 94-147 95-155 (1134)
111 KOG2034 Vacuolar sorting prote 90.6 0.14 3E-06 46.8 1.6 37 94-132 816-852 (911)
112 PF02891 zf-MIZ: MIZ/SP-RING z 90.0 0.3 6.5E-06 28.8 2.3 45 96-144 3-50 (50)
113 KOG3899 Uncharacterized conser 89.5 0.21 4.6E-06 40.1 1.7 32 116-147 324-366 (381)
114 PRK02935 hypothetical protein; 89.1 0.64 1.4E-05 31.7 3.5 14 135-148 86-99 (110)
115 smart00249 PHD PHD zinc finger 88.0 0.25 5.3E-06 27.7 0.9 31 97-128 1-31 (47)
116 KOG4718 Non-SMC (structural ma 86.9 0.33 7E-06 37.3 1.2 47 95-146 181-227 (235)
117 KOG1812 Predicted E3 ubiquitin 86.7 0.26 5.7E-06 41.5 0.7 37 95-132 146-183 (384)
118 KOG1100 Predicted E3 ubiquitin 86.0 0.52 1.1E-05 36.3 2.0 40 98-147 161-201 (207)
119 KOG4367 Predicted Zn-finger pr 84.5 0.69 1.5E-05 39.4 2.1 36 93-132 2-37 (699)
120 TIGR00622 ssl1 transcription f 84.1 1.4 3E-05 30.6 3.1 65 76-142 36-110 (112)
121 PF07975 C1_4: TFIIH C1-like d 83.2 1.8 4E-05 25.6 3.0 43 98-142 2-50 (51)
122 PF12606 RELT: Tumour necrosis 83.1 2 4.2E-05 25.3 3.1 33 13-45 3-35 (50)
123 COG3813 Uncharacterized protei 81.1 2.5 5.4E-05 26.8 3.1 44 98-147 8-53 (84)
124 PF13719 zinc_ribbon_5: zinc-r 80.8 1 2.2E-05 24.6 1.3 26 97-122 4-36 (37)
125 KOG0269 WD40 repeat-containing 80.0 1.4 3.1E-05 39.9 2.5 41 96-140 780-820 (839)
126 KOG2807 RNA polymerase II tran 79.4 2.8 6E-05 34.4 3.8 69 72-143 307-375 (378)
127 PF06844 DUF1244: Protein of u 78.8 1.3 2.7E-05 27.6 1.3 13 120-132 11-23 (68)
128 PF00628 PHD: PHD-finger; Int 78.1 1.3 2.8E-05 25.7 1.2 45 97-142 1-49 (51)
129 COG5109 Uncharacterized conser 78.0 1.7 3.7E-05 35.5 2.2 48 94-142 335-383 (396)
130 PF01034 Syndecan: Syndecan do 78.0 0.66 1.4E-05 28.7 -0.1 34 8-41 8-41 (64)
131 KOG3113 Uncharacterized conser 77.7 2.7 5.9E-05 33.3 3.1 50 94-147 110-159 (293)
132 PF15050 SCIMP: SCIMP protein 77.1 5.1 0.00011 28.0 4.0 41 1-44 1-41 (133)
133 PF13901 DUF4206: Domain of un 75.9 1.6 3.5E-05 33.4 1.5 41 95-143 152-197 (202)
134 KOG3005 GIY-YIG type nuclease 75.7 1.9 4.1E-05 34.4 1.8 51 95-145 182-242 (276)
135 PF05393 Hum_adeno_E3A: Human 75.6 8.6 0.00019 25.4 4.5 32 8-39 31-62 (94)
136 PF15102 TMEM154: TMEM154 prot 74.9 0.71 1.5E-05 33.4 -0.6 8 125-132 129-136 (146)
137 KOG0824 Predicted E3 ubiquitin 74.4 1.3 2.9E-05 35.8 0.7 54 94-152 104-157 (324)
138 PF06906 DUF1272: Protein of u 74.4 4 8.7E-05 24.6 2.6 45 97-147 7-53 (57)
139 PF10571 UPF0547: Uncharacteri 74.1 1.6 3.5E-05 22.0 0.7 23 97-121 2-24 (26)
140 PF00412 LIM: LIM domain; Int 73.4 2.1 4.6E-05 25.3 1.3 38 98-147 1-38 (58)
141 PF13717 zinc_ribbon_4: zinc-r 73.2 2.7 5.8E-05 22.8 1.5 26 97-122 4-36 (36)
142 KOG0802 E3 ubiquitin ligase [P 73.1 1.9 4.1E-05 38.1 1.4 45 94-148 478-522 (543)
143 PF02439 Adeno_E3_CR2: Adenovi 73.1 13 0.00029 20.4 4.3 11 29-39 23-33 (38)
144 KOG1815 Predicted E3 ubiquitin 72.9 2.3 5E-05 36.5 1.9 37 93-132 68-104 (444)
145 PF01363 FYVE: FYVE zinc finge 71.8 1.8 3.8E-05 26.9 0.7 37 94-130 8-44 (69)
146 PF15202 Adipogenin: Adipogeni 71.7 22 0.00048 22.3 5.6 33 9-41 11-43 (81)
147 KOG1829 Uncharacterized conser 71.4 1.2 2.7E-05 39.3 -0.1 43 95-143 511-558 (580)
148 smart00132 LIM Zinc-binding do 71.1 3.5 7.6E-05 21.8 1.8 36 98-145 2-37 (39)
149 KOG1819 FYVE finger-containing 70.7 1.7 3.7E-05 37.8 0.5 31 96-126 902-932 (990)
150 PF06667 PspB: Phage shock pro 69.4 19 0.0004 23.1 5.0 11 31-41 21-31 (75)
151 TIGR02976 phageshock_pspB phag 69.0 18 0.00039 23.2 4.9 15 29-43 19-33 (75)
152 KOG3842 Adaptor protein Pellin 68.6 4.7 0.0001 33.0 2.6 54 94-147 340-415 (429)
153 PLN02436 cellulose synthase A 68.4 5.2 0.00011 38.0 3.2 51 95-146 36-89 (1094)
154 KOG0956 PHD finger protein AF1 68.3 2.5 5.4E-05 38.1 1.1 64 95-158 117-194 (900)
155 PF14569 zf-UDP: Zinc-binding 68.1 8.9 0.00019 24.7 3.3 52 95-147 9-63 (80)
156 PLN02189 cellulose synthase 68.1 5.9 0.00013 37.5 3.4 52 95-147 34-88 (1040)
157 PF05545 FixQ: Cbb3-type cytoc 67.1 7.6 0.00017 22.4 2.7 25 16-40 12-36 (49)
158 PF15069 FAM163: FAM163 family 67.0 8.2 0.00018 27.9 3.3 28 9-36 5-32 (143)
159 PF06024 DUF912: Nucleopolyhed 66.8 2.2 4.8E-05 28.9 0.4 30 10-40 62-91 (101)
160 cd00065 FYVE FYVE domain; Zinc 66.3 4.8 0.0001 23.7 1.8 36 96-131 3-38 (57)
161 KOG2068 MOT2 transcription fac 64.6 5.5 0.00012 32.7 2.3 52 94-147 248-299 (327)
162 smart00064 FYVE Protein presen 64.1 6.3 0.00014 24.2 2.1 38 95-132 10-47 (68)
163 PF05605 zf-Di19: Drought indu 63.1 2.7 5.9E-05 24.8 0.3 38 96-144 3-40 (54)
164 KOG1812 Predicted E3 ubiquitin 61.3 4.7 0.0001 34.1 1.4 44 95-141 306-351 (384)
165 KOG2066 Vacuolar assembly/sort 61.2 3 6.5E-05 38.1 0.3 44 94-141 783-830 (846)
166 PF05568 ASFV_J13L: African sw 61.2 16 0.00034 26.6 3.9 22 12-33 31-52 (189)
167 PRK09458 pspB phage shock prot 61.0 31 0.00066 22.1 4.7 15 29-43 19-33 (75)
168 KOG3039 Uncharacterized conser 60.0 7 0.00015 30.9 2.1 35 94-132 42-76 (303)
169 KOG2041 WD40 repeat protein [G 59.2 30 0.00065 31.9 6.0 46 94-145 1130-1184(1189)
170 PF01102 Glycophorin_A: Glycop 57.1 16 0.00035 25.7 3.3 20 22-41 74-93 (122)
171 PF15145 DUF4577: Domain of un 56.8 13 0.00028 25.7 2.7 30 8-37 60-89 (128)
172 PF12669 P12: Virus attachment 56.1 16 0.00035 22.1 2.8 6 31-36 18-23 (58)
173 PF10497 zf-4CXXC_R1: Zinc-fin 56.0 17 0.00037 24.8 3.3 48 96-143 8-69 (105)
174 KOG3579 Predicted E3 ubiquitin 55.6 8.9 0.00019 31.0 2.0 35 94-132 267-305 (352)
175 PF07191 zinc-ribbons_6: zinc- 55.2 1.1 2.3E-05 28.4 -2.5 42 96-148 2-43 (70)
176 KOG4185 Predicted E3 ubiquitin 55.2 2.2 4.7E-05 34.4 -1.5 47 96-144 208-265 (296)
177 PF04423 Rad50_zn_hook: Rad50 54.8 4 8.7E-05 24.1 -0.0 13 136-148 21-33 (54)
178 COG3492 Uncharacterized protei 54.5 6.6 0.00014 26.1 0.9 13 120-132 42-54 (104)
179 PLN02915 cellulose synthase A 54.3 18 0.0004 34.4 4.1 53 94-147 14-69 (1044)
180 PLN02638 cellulose synthase A 53.1 14 0.00031 35.2 3.2 50 96-146 18-70 (1079)
181 KOG2979 Protein involved in DN 52.7 8.3 0.00018 30.6 1.4 45 96-143 177-221 (262)
182 PF07010 Endomucin: Endomucin; 51.7 50 0.0011 25.9 5.4 34 6-41 185-218 (259)
183 PF15179 Myc_target_1: Myc tar 51.3 34 0.00074 25.8 4.4 12 164-175 183-194 (197)
184 COG5627 MMS21 DNA repair prote 50.1 8.6 0.00019 30.2 1.1 43 95-140 189-231 (275)
185 PTZ00382 Variant-specific surf 50.0 3.2 6.9E-05 27.9 -1.1 20 20-39 76-95 (96)
186 PLN02195 cellulose synthase A 50.0 21 0.00045 33.8 3.7 51 95-146 6-59 (977)
187 PF14311 DUF4379: Domain of un 49.3 13 0.00029 21.9 1.7 26 113-141 30-55 (55)
188 KOG2071 mRNA cleavage and poly 48.9 10 0.00022 33.6 1.5 36 93-130 511-557 (579)
189 PF15330 SIT: SHP2-interacting 47.9 41 0.00089 23.1 4.1 27 15-41 5-31 (107)
190 COG4357 Zinc finger domain con 46.9 18 0.0004 24.3 2.1 29 117-148 65-93 (105)
191 COG1545 Predicted nucleic-acid 46.7 13 0.00028 26.7 1.6 22 114-145 32-53 (140)
192 PF05715 zf-piccolo: Piccolo Z 45.7 13 0.00028 22.6 1.2 12 135-146 2-13 (61)
193 PLN02400 cellulose synthase 45.7 18 0.00039 34.6 2.7 52 95-147 36-90 (1085)
194 PF10717 ODV-E18: Occlusion-de 45.5 72 0.0016 20.8 4.7 17 9-25 20-36 (85)
195 PF04710 Pellino: Pellino; In 43.9 7.6 0.00017 32.8 0.0 53 95-147 328-402 (416)
196 PF03884 DUF329: Domain of unk 43.7 14 0.0003 22.4 1.1 25 136-164 3-27 (57)
197 KOG2231 Predicted E3 ubiquitin 43.4 19 0.0004 32.7 2.3 48 97-148 2-54 (669)
198 PRK11486 flagellar biosynthesi 42.8 66 0.0014 22.7 4.6 34 4-38 10-43 (124)
199 PF05454 DAG1: Dystroglycan (D 42.6 8.2 0.00018 31.3 0.0 14 10-23 148-161 (290)
200 PF04216 FdhE: Protein involve 42.5 3.9 8.4E-05 33.0 -1.9 49 94-145 171-221 (290)
201 PF02318 FYVE_2: FYVE-type zin 42.4 14 0.0003 25.6 1.1 49 94-143 53-102 (118)
202 PF14316 DUF4381: Domain of un 41.5 61 0.0013 23.2 4.5 25 9-33 18-42 (146)
203 KOG2462 C2H2-type Zn-finger pr 39.9 4.6 0.0001 32.4 -1.8 32 116-147 187-227 (279)
204 PF10577 UPF0560: Uncharacteri 39.7 35 0.00075 31.6 3.4 27 10-36 273-299 (807)
205 smart00647 IBR In Between Ring 39.5 8.6 0.00019 22.9 -0.3 19 111-129 40-58 (64)
206 PF07282 OrfB_Zn_ribbon: Putat 39.2 41 0.00089 20.5 2.9 32 95-126 28-61 (69)
207 PRK09174 F0F1 ATP synthase sub 39.2 64 0.0014 24.7 4.4 14 2-15 43-56 (204)
208 COG1622 CyoA Heme/copper-type 38.5 68 0.0015 25.4 4.6 30 12-41 35-64 (247)
209 PRK13454 F0F1 ATP synthase sub 38.0 57 0.0012 24.4 3.9 10 2-11 21-30 (181)
210 PF12768 Rax2: Cortical protei 36.5 50 0.0011 26.7 3.6 21 15-35 236-256 (281)
211 PRK11088 rrmA 23S rRNA methylt 36.1 23 0.00051 28.0 1.7 26 96-122 3-28 (272)
212 KOG1729 FYVE finger containing 35.6 6.8 0.00015 31.8 -1.5 37 96-133 215-251 (288)
213 cd01324 cbb3_Oxidase_CcoQ Cyto 35.5 46 0.00099 19.3 2.4 19 23-41 20-38 (48)
214 PF07649 C1_3: C1-like domain; 35.5 35 0.00076 17.3 1.8 29 97-126 2-30 (30)
215 PF10083 DUF2321: Uncharacteri 35.1 20 0.00044 26.3 1.1 43 100-147 9-51 (158)
216 COG3462 Predicted membrane pro 34.8 1.3E+02 0.0028 20.8 4.8 28 13-40 52-79 (117)
217 PF13832 zf-HC5HC2H_2: PHD-zin 34.5 42 0.0009 22.6 2.5 32 95-128 55-87 (110)
218 PF10873 DUF2668: Protein of u 34.5 33 0.00072 24.9 2.0 34 9-42 60-93 (155)
219 PF06750 DiS_P_DiS: Bacterial 34.4 42 0.0009 22.3 2.4 37 96-147 34-70 (92)
220 PF02038 ATP1G1_PLM_MAT8: ATP1 33.3 51 0.0011 19.3 2.3 25 6-30 10-34 (50)
221 PRK00418 DNA gyrase inhibitor; 33.3 34 0.00073 21.1 1.7 13 135-147 6-18 (62)
222 PF09889 DUF2116: Uncharacteri 33.3 27 0.00058 21.3 1.2 15 134-148 2-16 (59)
223 KOG4080 Mitochondrial ribosoma 33.3 14 0.0003 27.4 -0.1 12 108-119 90-101 (176)
224 KOG3816 Cell differentiation r 33.3 63 0.0014 27.5 3.7 28 99-130 92-119 (526)
225 TIGR02866 CoxB cytochrome c ox 33.1 77 0.0017 24.0 4.0 25 15-39 17-41 (201)
226 COG1592 Rubrerythrin [Energy p 32.2 27 0.00059 26.0 1.3 25 111-144 134-158 (166)
227 PF07423 DUF1510: Protein of u 31.9 57 0.0012 25.4 3.1 23 15-37 14-36 (217)
228 KOG1356 Putative transcription 31.8 18 0.0004 33.5 0.5 51 94-146 228-282 (889)
229 smart00531 TFIIE Transcription 31.6 50 0.0011 23.8 2.6 14 135-148 123-136 (147)
230 COG4847 Uncharacterized protei 31.5 62 0.0013 21.7 2.8 36 95-132 6-41 (103)
231 PF08496 Peptidase_S49_N: Pept 30.8 43 0.00094 24.6 2.2 17 9-25 8-24 (155)
232 KOG1538 Uncharacterized conser 30.7 24 0.00052 32.2 1.0 35 111-147 1044-1078(1081)
233 PF00558 Vpu: Vpu protein; In 30.5 86 0.0019 20.4 3.3 9 17-25 12-20 (81)
234 PF05702 Herpes_UL49_5: Herpes 30.4 1.7E+02 0.0038 19.7 5.2 36 2-37 53-89 (98)
235 PRK05978 hypothetical protein; 30.2 27 0.00059 25.4 1.1 23 118-147 42-64 (148)
236 PRK11827 hypothetical protein; 30.0 17 0.00038 22.2 0.0 19 128-148 3-21 (60)
237 TIGR01433 CyoA cytochrome o ub 29.6 28 0.0006 27.2 1.1 24 16-39 37-60 (226)
238 PRK10525 cytochrome o ubiquino 29.5 22 0.00047 29.3 0.5 30 11-40 44-73 (315)
239 PF06667 PspB: Phage shock pro 29.3 1.6E+02 0.0034 18.8 4.5 31 11-41 5-35 (75)
240 PF12297 EVC2_like: Ellis van 29.3 1.1E+02 0.0024 26.3 4.5 33 9-41 64-96 (429)
241 TIGR01432 QOXA cytochrome aa3 29.0 1.2E+02 0.0026 23.3 4.5 17 24-40 36-52 (217)
242 PF04971 Lysis_S: Lysis protei 28.5 87 0.0019 19.6 2.9 26 16-41 37-62 (68)
243 PRK13415 flagella biosynthesis 28.4 1.2E+02 0.0026 23.7 4.3 24 12-35 68-91 (219)
244 KOG1245 Chromatin remodeling c 28.3 21 0.00045 35.4 0.2 52 93-145 1106-1159(1404)
245 PF13179 DUF4006: Family of un 27.9 1.5E+02 0.0033 18.5 3.9 26 12-37 13-38 (66)
246 PF09723 Zn-ribbon_8: Zinc rib 27.9 13 0.00028 20.8 -0.8 25 116-143 10-34 (42)
247 PF09943 DUF2175: Uncharacteri 27.6 58 0.0012 22.1 2.2 35 96-132 3-37 (101)
248 COG4068 Uncharacterized protei 27.6 36 0.00079 20.7 1.1 16 134-149 7-22 (64)
249 KOG4323 Polycomb-like PHD Zn-f 27.3 49 0.0011 28.7 2.2 53 94-146 167-226 (464)
250 KOG3799 Rab3 effector RIM1 and 27.2 15 0.00032 26.4 -0.7 15 93-107 63-78 (169)
251 PF15048 OSTbeta: Organic solu 27.1 1.3E+02 0.0028 21.3 3.9 11 12-22 37-47 (125)
252 PF13937 DUF4212: Domain of un 26.9 86 0.0019 20.4 2.9 7 1-7 42-48 (81)
253 PHA03286 envelope glycoprotein 26.6 81 0.0018 27.4 3.4 31 11-41 392-422 (492)
254 KOG0314 Predicted E3 ubiquitin 26.6 41 0.0009 29.1 1.7 71 94-175 218-289 (448)
255 PF06937 EURL: EURL protein; 26.5 53 0.0012 26.4 2.1 44 96-140 31-75 (285)
256 PHA03099 epidermal growth fact 26.5 67 0.0015 22.9 2.4 15 10-24 100-114 (139)
257 COG2835 Uncharacterized conser 26.2 29 0.00063 21.2 0.5 13 136-148 9-21 (60)
258 KOG2789 Putative Zn-finger pro 25.9 21 0.00046 30.2 -0.1 33 96-130 75-107 (482)
259 PF12877 DUF3827: Domain of un 25.9 72 0.0016 28.9 3.0 16 29-44 288-303 (684)
260 PF15353 HECA: Headcase protei 25.4 46 0.00099 22.8 1.4 17 116-132 39-55 (107)
261 PF13771 zf-HC5HC2H: PHD-like 25.3 47 0.001 21.4 1.4 32 95-128 36-68 (90)
262 PF15468 DUF4636: Domain of un 25.3 1.9E+02 0.0041 22.6 4.8 25 6-30 32-56 (243)
263 PRK01343 zinc-binding protein; 25.2 42 0.00091 20.3 1.1 12 135-146 9-20 (57)
264 TIGR00686 phnA alkylphosphonat 24.9 42 0.0009 23.1 1.1 24 97-120 4-28 (109)
265 COG4736 CcoQ Cbb3-type cytochr 24.6 98 0.0021 18.9 2.6 15 27-41 23-37 (60)
266 PTZ00186 heat shock 70 kDa pre 24.6 53 0.0012 29.9 2.1 17 45-61 634-650 (657)
267 PF10669 Phage_Gp23: Protein g 24.5 1.4E+02 0.0031 20.1 3.6 19 12-30 13-31 (121)
268 COG5151 SSL1 RNA polymerase II 24.4 1.2E+02 0.0025 25.2 3.7 65 77-143 344-418 (421)
269 PF05084 GRA6: Granule antigen 23.5 2.1E+02 0.0045 21.4 4.6 15 27-41 164-178 (215)
270 PRK03564 formate dehydrogenase 23.3 33 0.00071 28.2 0.5 46 95-143 187-234 (309)
271 PF08113 CoxIIa: Cytochrome c 23.3 1.3E+02 0.0029 16.0 4.3 9 26-34 22-30 (34)
272 KOG3993 Transcription factor ( 23.2 15 0.00032 31.4 -1.5 60 94-165 266-325 (500)
273 PTZ00303 phosphatidylinositol 23.1 51 0.0011 30.8 1.6 35 96-130 461-500 (1374)
274 TIGR03647 Na_symport_sm probab 23.1 1.1E+02 0.0025 19.6 2.9 6 2-7 39-44 (77)
275 PF14654 Epiglycanin_C: Mucin, 22.9 2.1E+02 0.0045 19.4 4.1 22 14-35 23-44 (106)
276 PF06679 DUF1180: Protein of u 22.9 1.9E+02 0.0041 21.4 4.4 20 12-31 96-115 (163)
277 TIGR01562 FdhE formate dehydro 22.8 19 0.00042 29.5 -1.0 46 95-143 184-232 (305)
278 PRK13460 F0F1 ATP synthase sub 22.3 1.7E+02 0.0036 21.5 4.1 7 2-8 8-14 (173)
279 smart00109 C1 Protein kinase C 22.2 58 0.0013 17.8 1.3 34 95-128 11-44 (49)
280 COG3364 Zn-ribbon containing p 22.1 50 0.0011 22.5 1.1 27 116-148 7-33 (112)
281 PF07406 NICE-3: NICE-3 protei 22.1 1.8E+02 0.0039 22.0 4.2 9 122-130 125-133 (186)
282 COG3190 FliO Flagellar biogene 22.0 3E+02 0.0065 19.8 5.1 30 9-39 21-50 (137)
283 PF05568 ASFV_J13L: African sw 21.9 2E+02 0.0044 21.0 4.2 31 10-40 25-55 (189)
284 PRK10220 hypothetical protein; 21.3 66 0.0014 22.2 1.5 23 97-119 5-28 (111)
285 PF02146 SIR2: Sir2 family; I 21.3 1.1E+02 0.0025 22.4 3.1 34 115-148 109-142 (178)
286 PF05454 DAG1: Dystroglycan (D 21.2 32 0.00069 28.0 0.0 17 10-26 144-160 (290)
287 PLN02248 cellulose synthase-li 21.1 72 0.0015 30.9 2.2 29 116-146 149-177 (1135)
288 PF03107 C1_2: C1 domain; Int 20.8 71 0.0015 16.2 1.3 28 97-125 2-29 (30)
289 cd04718 BAH_plant_2 BAH, or Br 20.7 22 0.00048 25.9 -0.9 26 121-146 2-29 (148)
290 KOG4577 Transcription factor L 20.5 25 0.00053 28.6 -0.7 31 97-129 94-124 (383)
291 PF13994 PgaD: PgaD-like prote 20.5 2.1E+02 0.0046 20.2 4.2 7 35-41 88-94 (138)
292 smart00734 ZnF_Rad18 Rad18-lik 20.5 46 0.00099 16.5 0.5 10 137-146 3-12 (26)
293 PF10146 zf-C4H2: Zinc finger- 20.5 68 0.0015 25.2 1.7 22 122-145 197-218 (230)
294 KOG3653 Transforming growth fa 20.4 2E+02 0.0043 25.4 4.6 27 15-41 159-185 (534)
295 PF14991 MLANA: Protein melan- 20.3 21 0.00045 24.8 -1.1 9 29-37 42-50 (118)
296 TIGR02098 MJ0042_CXXC MJ0042 f 20.1 88 0.0019 16.6 1.7 11 97-107 4-14 (38)
297 COG4647 AcxC Acetone carboxyla 20.1 58 0.0013 23.2 1.1 23 98-124 60-82 (165)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.76 E-value=2e-18 Score=139.57 Aligned_cols=78 Identities=32% Similarity=0.635 Sum_probs=63.3
Q ss_pred ChHHHHhhccccccccccccCCCCcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccccccc
Q 030350 71 SSQMIKERLVLASFGDIKVRMPWVPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLTYLQ 150 (179)
Q Consensus 71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~~~ 150 (179)
..+...+.+|...|......... .+|+||+|+|+.++.++.| ||+|.||..||+.|+... +..||+||+++.+...
T Consensus 207 ~~k~~l~~~p~~~f~~~~~~~~~--~~CaIClEdY~~GdklRiL-PC~H~FH~~CIDpWL~~~-r~~CPvCK~di~~~~~ 282 (348)
T KOG4628|consen 207 LIKRLLKKLPVRTFTKGDDEDAT--DTCAICLEDYEKGDKLRIL-PCSHKFHVNCIDPWLTQT-RTFCPVCKRDIRTDSG 282 (348)
T ss_pred hHHHHHhhCCcEEeccccccCCC--ceEEEeecccccCCeeeEe-cCCCchhhccchhhHhhc-CccCCCCCCcCCCCCC
Confidence 45666677888888876654322 6999999999999999999 899999999999999983 3559999999877654
Q ss_pred cc
Q 030350 151 SK 152 (179)
Q Consensus 151 ~~ 152 (179)
..
T Consensus 283 ~~ 284 (348)
T KOG4628|consen 283 SE 284 (348)
T ss_pred CC
Confidence 43
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=99.59 E-value=5.9e-16 Score=90.28 Aligned_cols=44 Identities=45% Similarity=1.204 Sum_probs=39.3
Q ss_pred ccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccc
Q 030350 96 DTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCR 142 (179)
Q Consensus 96 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR 142 (179)
++|+||++++..++.+..+ +|+|.||.+||.+|++. +.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l-~C~H~fh~~Ci~~~~~~--~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKL-PCGHVFHRSCIKEWLKR--NNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEE-TTSEEEEHHHHHHHHHH--SSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEc-cCCCeeCHHHHHHHHHh--CCcCCccC
Confidence 3799999999988888888 69999999999999998 78999997
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.44 E-value=1e-13 Score=107.75 Aligned_cols=77 Identities=27% Similarity=0.585 Sum_probs=55.0
Q ss_pred hHHHHhhccccccccccccCCCCcccccccccccccCC----eeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 72 SQMIKERLVLASFGDIKVRMPWVPDTCAVCLNHMEEDD----LVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 72 ~~~~~~~~~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~----~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
.+.+.+.+|....+-........+.+|+||++.+.++. .+..+++|+|.||..||.+|+.. +.+||+||.++..
T Consensus 151 ~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~--~~tCPlCR~~~~~ 228 (238)
T PHA02929 151 YKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE--KNTCPVCRTPFIS 228 (238)
T ss_pred hHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc--CCCCCCCCCEeeE
Confidence 45556666665433222222234679999999987653 23456689999999999999987 8899999999876
Q ss_pred ccc
Q 030350 148 YLQ 150 (179)
Q Consensus 148 ~~~ 150 (179)
...
T Consensus 229 v~~ 231 (238)
T PHA02929 229 VIK 231 (238)
T ss_pred Eee
Confidence 544
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=99.39 E-value=2.5e-13 Score=87.60 Aligned_cols=47 Identities=38% Similarity=0.967 Sum_probs=36.4
Q ss_pred CcccccccccccccC---------CeeeEccCCCCcccHHhHHHHHhcCCCCCCcccc
Q 030350 94 VPDTCAVCLNHMEED---------DLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCR 142 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~---------~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR 142 (179)
.++.|+||++.+.++ +....+++|||.||..||.+|+.. +.+||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~--~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQ--NNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTT--SSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhc--CCcCCCCC
Confidence 455799999999442 223344589999999999999998 77999998
No 5
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.34 E-value=4.9e-13 Score=105.31 Aligned_cols=52 Identities=33% Similarity=0.824 Sum_probs=46.2
Q ss_pred CcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
...+|+||++.|...+.++++ ||.|.||..|+++|+... +..||+||.++++
T Consensus 322 ~GveCaICms~fiK~d~~~vl-PC~H~FH~~Cv~kW~~~y-~~~CPvCrt~iPP 373 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVL-PCDHRFHVGCVDKWLLGY-SNKCPVCRTAIPP 373 (374)
T ss_pred CCceEEEEhhhhcccceEEEe-ccCceechhHHHHHHhhh-cccCCccCCCCCC
Confidence 346999999999999999999 899999999999999842 5679999999875
No 6
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.18 E-value=5.7e-11 Score=96.15 Aligned_cols=69 Identities=25% Similarity=0.704 Sum_probs=50.0
Q ss_pred HHHHhhccccccccccccCCCCcccccccccc-cccCC---------eeeEccCCCCcccHHhHHHHHhcCCCCCCcccc
Q 030350 73 QMIKERLVLASFGDIKVRMPWVPDTCAVCLNH-MEEDD---------LVRELRNCCHVFHRECIDRWVDYDHHKTCPLCR 142 (179)
Q Consensus 73 ~~~~~~~~~~~~~~~~~~~~~~~~~C~ICl~~-~~~~~---------~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR 142 (179)
++..+.++....+.+ ..++..|.||+++ |+.+. .-.++ ||||.+|.+|+..|+.+ +.+||.||
T Consensus 269 kdl~~~~~t~t~eql----~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrL-pCGHilHl~CLknW~ER--qQTCPICr 341 (491)
T COG5243 269 KDLNAMYPTATEEQL----TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRL-PCGHILHLHCLKNWLER--QQTCPICR 341 (491)
T ss_pred hHHHhhcchhhhhhh----cCCCCeEEEecccccCCCCccCcccccCCcccc-cccceeeHHHHHHHHHh--ccCCCccc
Confidence 444555555554444 2456699999999 44441 12345 89999999999999999 88999999
Q ss_pred cccccc
Q 030350 143 APLLTY 148 (179)
Q Consensus 143 ~~~~~~ 148 (179)
.++.-+
T Consensus 342 ~p~ifd 347 (491)
T COG5243 342 RPVIFD 347 (491)
T ss_pred Cccccc
Confidence 995443
No 7
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.18 E-value=3.3e-11 Score=94.65 Aligned_cols=49 Identities=29% Similarity=0.754 Sum_probs=44.1
Q ss_pred CCcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 93 WVPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 93 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
.....|.+||+..+++..+ ||||+||..||..|... +..||+||..+.+
T Consensus 237 ~a~~kC~LCLe~~~~pSaT----pCGHiFCWsCI~~w~~e--k~eCPlCR~~~~p 285 (293)
T KOG0317|consen 237 EATRKCSLCLENRSNPSAT----PCGHIFCWSCILEWCSE--KAECPLCREKFQP 285 (293)
T ss_pred CCCCceEEEecCCCCCCcC----cCcchHHHHHHHHHHcc--ccCCCcccccCCC
Confidence 4567899999999998877 89999999999999998 7789999998876
No 8
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.16 E-value=2.8e-11 Score=90.81 Aligned_cols=51 Identities=24% Similarity=0.678 Sum_probs=40.9
Q ss_pred CCcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcC--------------CCCCCccccccccc
Q 030350 93 WVPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYD--------------HHKTCPLCRAPLLT 147 (179)
Q Consensus 93 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~--------------~~~~CP~CR~~~~~ 147 (179)
.++.+|+||++.+.++..+ +|||.||..||.+|+... ....||+||.++..
T Consensus 16 ~~~~~CpICld~~~dPVvT----~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 16 GGDFDCNICLDQVRDPVVT----LCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred CCccCCccCCCcCCCcEEc----CCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 3567999999998877443 799999999999998531 23579999998865
No 9
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.12 E-value=4.4e-11 Score=78.12 Aligned_cols=54 Identities=30% Similarity=0.738 Sum_probs=40.9
Q ss_pred Cccccccccccccc--------CC-eeeEccCCCCcccHHhHHHHHhcC-CCCCCccccccccc
Q 030350 94 VPDTCAVCLNHMEE--------DD-LVRELRNCCHVFHRECIDRWVDYD-HHKTCPLCRAPLLT 147 (179)
Q Consensus 94 ~~~~C~ICl~~~~~--------~~-~~~~l~~C~H~Fh~~Ci~~wl~~~-~~~~CP~CR~~~~~ 147 (179)
.++.|.||...|.. ++ --.++..|+|.||..||.+|+... .+..||+||+++.-
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 36689999998874 11 122345899999999999999873 25679999998753
No 10
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=99.11 E-value=1.1e-10 Score=72.91 Aligned_cols=61 Identities=23% Similarity=0.438 Sum_probs=52.2
Q ss_pred ccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccccccccccCCCCCCCCCcHHHHHHHHH
Q 030350 96 DTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLTYLQSKSLNNWPKNEPNWAVERILYI 172 (179)
Q Consensus 96 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 172 (179)
..|+||.+.+.++... +|||+|++.||.+|+.. +..||.|+.++.. ..+.+|..+++.+..
T Consensus 2 ~~Cpi~~~~~~~Pv~~----~~G~v~~~~~i~~~~~~--~~~cP~~~~~~~~----------~~l~~~~~l~~~i~~ 62 (63)
T smart00504 2 FLCPISLEVMKDPVIL----PSGQTYERRAIEKWLLS--HGTDPVTGQPLTH----------EDLIPNLALKSAIQE 62 (63)
T ss_pred cCCcCCCCcCCCCEEC----CCCCEEeHHHHHHHHHH--CCCCCCCcCCCCh----------hhceeCHHHHHHHHh
Confidence 4799999999987433 89999999999999988 7889999998866 678888888887764
No 11
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.08 E-value=1.3e-10 Score=96.56 Aligned_cols=65 Identities=32% Similarity=0.671 Sum_probs=56.3
Q ss_pred CcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccccccccccCCCCCCCCCcHHHHHHHHHh
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLTYLQSKSLNNWPKNEPNWAVERILYIF 173 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 173 (179)
....|+||++.|..+..+ +|+|.||..||..|+.. ...||+||..+.. ..+..|+.+++|+..|
T Consensus 25 ~~l~C~IC~d~~~~Pvit----pCgH~FCs~CI~~~l~~--~~~CP~Cr~~~~~----------~~Lr~N~~L~~iVe~~ 88 (397)
T TIGR00599 25 TSLRCHICKDFFDVPVLT----SCSHTFCSLCIRRCLSN--QPKCPLCRAEDQE----------SKLRSNWLVSEIVESF 88 (397)
T ss_pred cccCCCcCchhhhCccCC----CCCCchhHHHHHHHHhC--CCCCCCCCCcccc----------ccCccchHHHHHHHHH
Confidence 456999999999887533 89999999999999987 6689999999876 5788999999999887
Q ss_pred c
Q 030350 174 G 174 (179)
Q Consensus 174 ~ 174 (179)
-
T Consensus 89 ~ 89 (397)
T TIGR00599 89 K 89 (397)
T ss_pred H
Confidence 3
No 12
>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=99.08 E-value=7.6e-11 Score=70.40 Aligned_cols=47 Identities=34% Similarity=0.926 Sum_probs=37.5
Q ss_pred cccccccccccccCCeeeEccCCCCc-ccHHhHHHHHhcCCCCCCccccccccc
Q 030350 95 PDTCAVCLNHMEEDDLVRELRNCCHV-FHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 95 ~~~C~ICl~~~~~~~~~~~l~~C~H~-Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
+..|.||++...+ +..+ +|||. |+..|+.+|+.. ...||+||+++..
T Consensus 2 ~~~C~iC~~~~~~---~~~~-pCgH~~~C~~C~~~~~~~--~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLL-PCGHLCFCEECAERLLKR--KKKCPICRQPIES 49 (50)
T ss_dssp HSB-TTTSSSBSS---EEEE-TTCEEEEEHHHHHHHHHT--TSBBTTTTBB-SE
T ss_pred cCCCccCCccCCc---eEEe-CCCChHHHHHHhHHhccc--CCCCCcCChhhcC
Confidence 4589999998654 3333 89999 999999999997 8899999998854
No 13
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.07 E-value=8.7e-11 Score=67.48 Aligned_cols=40 Identities=30% Similarity=0.803 Sum_probs=31.2
Q ss_pred ccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCC--CCCccc
Q 030350 98 CAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHH--KTCPLC 141 (179)
Q Consensus 98 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~--~~CP~C 141 (179)
|+||++.|.++..+ +|||.|+..||.+|++.... ..||.|
T Consensus 1 CpiC~~~~~~Pv~l----~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSL----PCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE-----SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCcccc----CCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999999877 79999999999999987433 369987
No 14
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=99.05 E-value=1e-10 Score=66.16 Aligned_cols=39 Identities=33% Similarity=1.070 Sum_probs=31.6
Q ss_pred ccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccc
Q 030350 98 CAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLC 141 (179)
Q Consensus 98 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~C 141 (179)
|+||++.+.++..+ + +|||.||..|+.+|++. +..||+|
T Consensus 1 C~iC~~~~~~~~~~--~-~CGH~fC~~C~~~~~~~--~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVV--T-PCGHSFCKECIEKYLEK--NPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEE--C-TTSEEEEHHHHHHHHHC--TSB-TTT
T ss_pred CCCCCCcccCcCEE--C-CCCCchhHHHHHHHHHC--cCCCcCC
Confidence 89999998884322 3 89999999999999998 6899988
No 15
>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=99.04 E-value=1.9e-10 Score=66.32 Aligned_cols=45 Identities=47% Similarity=1.139 Sum_probs=35.4
Q ss_pred cccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccc
Q 030350 97 TCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPL 145 (179)
Q Consensus 97 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~ 145 (179)
+|+||++.+.... .+++|+|.||..|+..|+..+ ...||.||..+
T Consensus 1 ~C~iC~~~~~~~~---~~~~C~H~~c~~C~~~~~~~~-~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFREPV---VLLPCGHVFCRSCIDKWLKSG-KNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhCce---EecCCCChhcHHHHHHHHHhC-cCCCCCCCCcC
Confidence 5999999984322 233799999999999999863 56799999764
No 16
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.02 E-value=1.7e-10 Score=88.22 Aligned_cols=53 Identities=25% Similarity=0.604 Sum_probs=43.1
Q ss_pred CCCcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCC-CCCCcccccccccc
Q 030350 92 PWVPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDH-HKTCPLCRAPLLTY 148 (179)
Q Consensus 92 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~-~~~CP~CR~~~~~~ 148 (179)
+....+|.|||+.-+++..+ .|||.||+.||.+|+.... ...||+||..+...
T Consensus 44 ~~~~FdCNICLd~akdPVvT----lCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~ 97 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDPVVT----LCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSID 97 (230)
T ss_pred CCCceeeeeeccccCCCEEe----ecccceehHHHHHHHhhcCCCeeCCccccccccc
Confidence 35677999999998877655 5999999999999998732 44589999988653
No 17
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.99 E-value=2.9e-10 Score=83.56 Aligned_cols=53 Identities=28% Similarity=0.607 Sum_probs=44.0
Q ss_pred CCCCcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 91 MPWVPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 91 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
..++-..|+|||+.+.....+ -++|||+||..||...++. ...||+||+.+..
T Consensus 127 ~~~~~~~CPiCl~~~sek~~v--sTkCGHvFC~~Cik~alk~--~~~CP~C~kkIt~ 179 (187)
T KOG0320|consen 127 RKEGTYKCPICLDSVSEKVPV--STKCGHVFCSQCIKDALKN--TNKCPTCRKKITH 179 (187)
T ss_pred ccccccCCCceecchhhcccc--ccccchhHHHHHHHHHHHh--CCCCCCcccccch
Confidence 334567899999999876543 2379999999999999998 7889999997766
No 18
>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=98.97 E-value=3.2e-10 Score=64.74 Aligned_cols=41 Identities=37% Similarity=1.102 Sum_probs=34.6
Q ss_pred ccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccc
Q 030350 98 CAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLC 141 (179)
Q Consensus 98 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~C 141 (179)
|+||++.+..+..+ + +|||.||..|+.+|+.......||+|
T Consensus 1 C~iC~~~~~~~~~~--~-~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVIL--L-PCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEE--T-TTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCCEE--e-cCCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999998887623 2 89999999999999995447779998
No 19
>PHA02926 zinc finger-like protein; Provisional
Probab=98.96 E-value=4.7e-10 Score=85.32 Aligned_cols=55 Identities=24% Similarity=0.641 Sum_probs=41.3
Q ss_pred CCcccccccccccccC-----CeeeEccCCCCcccHHhHHHHHhcC----CCCCCccccccccc
Q 030350 93 WVPDTCAVCLNHMEED-----DLVRELRNCCHVFHRECIDRWVDYD----HHKTCPLCRAPLLT 147 (179)
Q Consensus 93 ~~~~~C~ICl~~~~~~-----~~~~~l~~C~H~Fh~~Ci~~wl~~~----~~~~CP~CR~~~~~ 147 (179)
..+.+|+||++..-++ ..-..+++|+|.||..||.+|.... ...+||+||..+..
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 3567999999986432 1234566999999999999999752 13459999998764
No 20
>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=98.90 E-value=1.7e-09 Score=69.71 Aligned_cols=64 Identities=23% Similarity=0.449 Sum_probs=51.4
Q ss_pred cccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccccccccccCCCCCCCCCcHHHHHHHHHh
Q 030350 95 PDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLTYLQSKSLNNWPKNEPNWAVERILYIF 173 (179)
Q Consensus 95 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 173 (179)
...|+|+.+.|.++..+ ++||+|.+.||.+|+..+ +..||+|+.++.. ..+.+|+.++..+..|
T Consensus 4 ~f~CpIt~~lM~dPVi~----~~G~tyer~~I~~~l~~~-~~~~P~t~~~l~~----------~~l~pn~~Lk~~I~~~ 67 (73)
T PF04564_consen 4 EFLCPITGELMRDPVIL----PSGHTYERSAIERWLEQN-GGTDPFTRQPLSE----------SDLIPNRALKSAIEEW 67 (73)
T ss_dssp GGB-TTTSSB-SSEEEE----TTSEEEEHHHHHHHHCTT-SSB-TTT-SB-SG----------GGSEE-HHHHHHHHHH
T ss_pred ccCCcCcCcHhhCceeC----CcCCEEcHHHHHHHHHcC-CCCCCCCCCcCCc----------ccceECHHHHHHHHHH
Confidence 45899999999998766 799999999999999873 6789999999988 6899999999998876
No 21
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.89 E-value=9.3e-10 Score=70.21 Aligned_cols=50 Identities=40% Similarity=0.814 Sum_probs=37.4
Q ss_pred ccccccccccc-----------cCCe-eeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 96 DTCAVCLNHME-----------EDDL-VRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 96 ~~C~ICl~~~~-----------~~~~-~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
+.|+||...+. .+++ ......|+|.||..||.+||.. +..||++|+++.-
T Consensus 21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~T--k~~CPld~q~w~~ 82 (88)
T COG5194 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDT--KGVCPLDRQTWVL 82 (88)
T ss_pred chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhh--CCCCCCCCceeEE
Confidence 45666665543 3332 3345579999999999999999 8899999998754
No 22
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.85 E-value=1.3e-09 Score=87.42 Aligned_cols=63 Identities=21% Similarity=0.561 Sum_probs=57.0
Q ss_pred cccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccccccccccCCCCCCCCCcHHHHHHHHHh
Q 030350 95 PDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLTYLQSKSLNNWPKNEPNWAVERILYIF 173 (179)
Q Consensus 95 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 173 (179)
...|-||.+.|..+..+ ||+|.||.-||...|.. +..||.|+.++.+ ..+..|..+++|+..|
T Consensus 23 lLRC~IC~eyf~ip~it----pCsHtfCSlCIR~~L~~--~p~CP~C~~~~~E----------s~Lr~n~il~Eiv~S~ 85 (442)
T KOG0287|consen 23 LLRCGICFEYFNIPMIT----PCSHTFCSLCIRKFLSY--KPQCPTCCVTVTE----------SDLRNNRILDEIVKSL 85 (442)
T ss_pred HHHHhHHHHHhcCceec----cccchHHHHHHHHHhcc--CCCCCceecccch----------hhhhhhhHHHHHHHHH
Confidence 34899999999987655 89999999999999998 8999999999999 7899999999999876
No 23
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.84 E-value=2.7e-09 Score=61.95 Aligned_cols=44 Identities=30% Similarity=0.873 Sum_probs=35.1
Q ss_pred cccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccc
Q 030350 97 TCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRA 143 (179)
Q Consensus 97 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~ 143 (179)
.|+||++.|.+..... ++.|||+|+..|+.++... ...||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~-l~~CgH~~C~~C~~~~~~~--~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPR-LTSCGHIFCEKCLKKLKGK--SVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeE-EcccCCHHHHHHHHhhcCC--CCCCcCCCC
Confidence 5899999994444444 4499999999999999833 678999985
No 24
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.80 E-value=1.6e-09 Score=94.32 Aligned_cols=51 Identities=31% Similarity=0.902 Sum_probs=43.0
Q ss_pred CcccccccccccccCCe--eeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 94 VPDTCAVCLNHMEEDDL--VRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~--~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
.+..|+||++++..+.. ..++ +|+|+||..|+..|+++ ..+||+||..+..
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL-~C~Hifh~~CL~~W~er--~qtCP~CR~~~~~ 342 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRL-PCGHIFHDSCLRSWFER--QQTCPTCRTVLYD 342 (543)
T ss_pred cCCeeeeechhhcccccccccee-ecccchHHHHHHHHHHH--hCcCCcchhhhhc
Confidence 46799999999998643 3444 89999999999999999 8899999995554
No 25
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.80 E-value=2.4e-09 Score=83.39 Aligned_cols=68 Identities=29% Similarity=0.599 Sum_probs=53.6
Q ss_pred CCcccccccccccccCC-------eeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccccccccccCCCCCCCCCc
Q 030350 93 WVPDTCAVCLNHMEEDD-------LVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLTYLQSKSLNNWPKNEPN 163 (179)
Q Consensus 93 ~~~~~C~ICl~~~~~~~-------~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~~~~~~~~~~~~~~~~ 163 (179)
.++.-|+||-..+.... .+-.+ .|+|+||..||..|..-+++.+||+|+..+.. ++-..|+|.+...=
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~L-sCnHvFHEfCIrGWcivGKkqtCPYCKekVdl--~rmfsnpWekph~~ 296 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKL-SCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDL--KRMFSNPWEKPHVW 296 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheee-ecccchHHHhhhhheeecCCCCCchHHHHhhH--hhhccCccccchhH
Confidence 36678999988876544 45566 79999999999999999889999999887643 34456889877653
No 26
>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=98.68 E-value=1.5e-08 Score=56.17 Aligned_cols=39 Identities=38% Similarity=1.073 Sum_probs=30.4
Q ss_pred ccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccc
Q 030350 98 CAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLC 141 (179)
Q Consensus 98 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~C 141 (179)
|+||++... ....+ +|+|.||..|++.|+..+ ...||+|
T Consensus 1 C~iC~~~~~---~~~~~-~C~H~~c~~C~~~~~~~~-~~~CP~C 39 (39)
T smart00184 1 CPICLEELK---DPVVL-PCGHTFCRSCIRKWLKSG-NNTCPIC 39 (39)
T ss_pred CCcCccCCC---CcEEe-cCCChHHHHHHHHHHHhC-cCCCCCC
Confidence 789998833 23333 899999999999999832 6679987
No 27
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.63 E-value=2.4e-08 Score=57.41 Aligned_cols=40 Identities=25% Similarity=0.748 Sum_probs=22.6
Q ss_pred ccccccccccCCee-eEccCCCCcccHHhHHHHHhcC--CCCCCc
Q 030350 98 CAVCLNHMEEDDLV-RELRNCCHVFHRECIDRWVDYD--HHKTCP 139 (179)
Q Consensus 98 C~ICl~~~~~~~~~-~~l~~C~H~Fh~~Ci~~wl~~~--~~~~CP 139 (179)
|+||.+ |.+++.. .+| +|||+|+.+|+.+++.++ ....||
T Consensus 1 CpIc~e-~~~~~n~P~~L-~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVL-PCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE--SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEE-eCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 7765544 345 799999999999999863 244576
No 28
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.61 E-value=2.6e-08 Score=78.52 Aligned_cols=63 Identities=21% Similarity=0.366 Sum_probs=51.3
Q ss_pred cccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccccccccccCCCCCCCCCcHHHHHHHHHh
Q 030350 95 PDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLTYLQSKSLNNWPKNEPNWAVERILYIF 173 (179)
Q Consensus 95 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 173 (179)
-..|.||-+.+..+-.+ +|||.||.-||...|.. +..||+||.+... ..++-+-.+++++..|
T Consensus 25 ~lrC~IC~~~i~ip~~T----tCgHtFCslCIR~hL~~--qp~CP~Cr~~~~e----------srlr~~s~~~ei~es~ 87 (391)
T COG5432 25 MLRCRICDCRISIPCET----TCGHTFCSLCIRRHLGT--QPFCPVCREDPCE----------SRLRGSSGSREINESH 87 (391)
T ss_pred HHHhhhhhheeecceec----ccccchhHHHHHHHhcC--CCCCccccccHHh----------hhcccchhHHHHHHhh
Confidence 34899999998877666 79999999999999998 8999999999887 4555565566665544
No 29
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.61 E-value=6.7e-09 Score=65.74 Aligned_cols=52 Identities=31% Similarity=0.784 Sum_probs=38.4
Q ss_pred ccccccccccccc---------CCeeeEccCCCCcccHHhHHHHHhcC-CCCCCcccccccc
Q 030350 95 PDTCAVCLNHMEE---------DDLVRELRNCCHVFHRECIDRWVDYD-HHKTCPLCRAPLL 146 (179)
Q Consensus 95 ~~~C~ICl~~~~~---------~~~~~~l~~C~H~Fh~~Ci~~wl~~~-~~~~CP~CR~~~~ 146 (179)
++.|-||.-.|.. ++--.++..|.|.||..||.+|+... .+..||+||+++.
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 4488898888854 12222345799999999999999773 2456999999875
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=98.56 E-value=6.1e-08 Score=57.44 Aligned_cols=44 Identities=32% Similarity=0.881 Sum_probs=32.8
Q ss_pred cccccccccccCCeeeEccCCC-----CcccHHhHHHHHhcCCCCCCcccc
Q 030350 97 TCAVCLNHMEEDDLVRELRNCC-----HVFHRECIDRWVDYDHHKTCPLCR 142 (179)
Q Consensus 97 ~C~ICl~~~~~~~~~~~l~~C~-----H~Fh~~Ci~~wl~~~~~~~CP~CR 142 (179)
.|.||++...+++. ... ||. |.+|..|+.+|+....+.+||+|+
T Consensus 1 ~CrIC~~~~~~~~~-l~~-PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDP-LVS-PCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCe-eEe-ccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 48999994333333 334 785 889999999999875566899995
No 31
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.54 E-value=3.7e-08 Score=76.75 Aligned_cols=50 Identities=30% Similarity=0.683 Sum_probs=40.8
Q ss_pred CCcccccccccccccCCeeeEccCCCCcccHHhHHH-HHhcCCCCCCccccccccc
Q 030350 93 WVPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDR-WVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 93 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~-wl~~~~~~~CP~CR~~~~~ 147 (179)
..+..|+||++....+..+ +|||+||..||.. |-.+ +...||+||+...+
T Consensus 213 ~~d~kC~lC~e~~~~ps~t----~CgHlFC~~Cl~~~~t~~-k~~~CplCRak~~p 263 (271)
T COG5574 213 LADYKCFLCLEEPEVPSCT----PCGHLFCLSCLLISWTKK-KYEFCPLCRAKVYP 263 (271)
T ss_pred ccccceeeeecccCCcccc----cccchhhHHHHHHHHHhh-ccccCchhhhhccc
Confidence 3577999999998877665 8999999999999 7665 23449999997765
No 32
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.52 E-value=3.8e-08 Score=60.69 Aligned_cols=58 Identities=22% Similarity=0.667 Sum_probs=30.9
Q ss_pred ccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccccccccccCCCCCCCCCcHHHHHHH
Q 030350 96 DTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLTYLQSKSLNNWPKNEPNWAVERIL 170 (179)
Q Consensus 96 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 170 (179)
..|++|.+.+..+..+. .|.|.||..||.+-+. ..||+|+.+.-. .+.+.|+.+.+|+
T Consensus 8 LrCs~C~~~l~~pv~l~---~CeH~fCs~Ci~~~~~----~~CPvC~~Paw~----------qD~~~NrqLd~~i 65 (65)
T PF14835_consen 8 LRCSICFDILKEPVCLG---GCEHIFCSSCIRDCIG----SECPVCHTPAWI----------QDIQINRQLDSMI 65 (65)
T ss_dssp TS-SSS-S--SS-B------SSS--B-TTTGGGGTT----TB-SSS--B-S-----------SS----HHHHHHH
T ss_pred cCCcHHHHHhcCCceec---cCccHHHHHHhHHhcC----CCCCCcCChHHH----------HHHHhhhhhhccC
Confidence 48999999999886554 8999999999977554 349999998877 7888898888775
No 33
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.51 E-value=5.2e-08 Score=82.18 Aligned_cols=49 Identities=29% Similarity=0.707 Sum_probs=40.4
Q ss_pred cccccccccccccCCeeeEccCCCCcccHHhHHHHHhcC---CCCCCccccccccc
Q 030350 95 PDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYD---HHKTCPLCRAPLLT 147 (179)
Q Consensus 95 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~---~~~~CP~CR~~~~~ 147 (179)
+..|||||+....+..+ .|||+||..||-+++..+ ....||+||..+..
T Consensus 186 ~~~CPICL~~~~~p~~t----~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRT----NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCCccccc----ccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 66899999997766555 599999999999999764 24569999998866
No 34
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.50 E-value=3.5e-08 Score=88.14 Aligned_cols=53 Identities=26% Similarity=0.749 Sum_probs=41.5
Q ss_pred CcccccccccccccCC---eeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccc
Q 030350 94 VPDTCAVCLNHMEEDD---LVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLL 146 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~---~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~ 146 (179)
...+|+||......-+ .-..++-|+|.||..|+.+|++...+.+||+||.+++
T Consensus 1468 G~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1468 GHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 5679999998876211 1123446999999999999999977888999998764
No 35
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.48 E-value=7.7e-08 Score=64.49 Aligned_cols=69 Identities=30% Similarity=0.693 Sum_probs=47.2
Q ss_pred HhhccccccccccccC-CCCccccccccccccc-------------CCeeeEccCCCCcccHHhHHHHHhcCCCCCCccc
Q 030350 76 KERLVLASFGDIKVRM-PWVPDTCAVCLNHMEE-------------DDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLC 141 (179)
Q Consensus 76 ~~~~~~~~~~~~~~~~-~~~~~~C~ICl~~~~~-------------~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~C 141 (179)
.+++...++....... +..-+.|+||..-+-+ ++-+...+.|+|.||..||.+|+++ +..||+|
T Consensus 26 ~krF~lKKWnAvAlWaWDi~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlkt--r~vCPLd 103 (114)
T KOG2930|consen 26 KKRFELKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKT--RNVCPLD 103 (114)
T ss_pred CcceEEeeeeeeeeeeeeeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhh--cCcCCCc
Confidence 3455555555443322 1245689998755421 2334556689999999999999999 8899999
Q ss_pred ccccc
Q 030350 142 RAPLL 146 (179)
Q Consensus 142 R~~~~ 146 (179)
.++..
T Consensus 104 n~eW~ 108 (114)
T KOG2930|consen 104 NKEWV 108 (114)
T ss_pred Cccee
Confidence 88764
No 36
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.46 E-value=5.9e-08 Score=81.41 Aligned_cols=53 Identities=34% Similarity=0.903 Sum_probs=39.8
Q ss_pred CcccccccccccccCCe----------e---eEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 94 VPDTCAVCLNHMEEDDL----------V---RELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~----------~---~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
...+|+||+....--.+ + -+++||.|+||..|+.+|.... +-.||+||.+++.
T Consensus 570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~y-kl~CPvCR~pLPp 635 (636)
T KOG0828|consen 570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTY-KLICPVCRCPLPP 635 (636)
T ss_pred ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhh-cccCCccCCCCCC
Confidence 34579999988643211 1 2356999999999999999952 4579999999865
No 37
>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=98.46 E-value=1.6e-07 Score=75.50 Aligned_cols=52 Identities=23% Similarity=0.539 Sum_probs=39.3
Q ss_pred cccccccccc-cccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 95 PDTCAVCLNH-MEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 95 ~~~C~ICl~~-~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
+..||+|... +..++......+|||.||..|++..+..+ ...||.|+.++..
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~-~~~CP~C~~~lrk 55 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRG-SGSCPECDTPLRK 55 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCC-CCCCCCCCCccch
Confidence 4589999996 44444332333799999999999987653 5679999998866
No 38
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.44 E-value=5.8e-08 Score=80.57 Aligned_cols=49 Identities=35% Similarity=0.726 Sum_probs=39.2
Q ss_pred CcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccc
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLL 146 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~ 146 (179)
+..+|+|||+.+.....-.....|.|.||..|+.+|.. .+||+||.-..
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~----~scpvcR~~q~ 222 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD----SSCPVCRYCQS 222 (493)
T ss_pred cCCCcchhHhhcCccccceeeeecccccchHHHhhccc----CcChhhhhhcC
Confidence 56799999999988663333337999999999999975 48999997554
No 39
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.38 E-value=7.3e-08 Score=61.47 Aligned_cols=53 Identities=25% Similarity=0.598 Sum_probs=25.3
Q ss_pred cccccccccccccCC-e---eeEccCCCCcccHHhHHHHHhcC--C-------CCCCccccccccc
Q 030350 95 PDTCAVCLNHMEEDD-L---VRELRNCCHVFHRECIDRWVDYD--H-------HKTCPLCRAPLLT 147 (179)
Q Consensus 95 ~~~C~ICl~~~~~~~-~---~~~l~~C~H~Fh~~Ci~~wl~~~--~-------~~~CP~CR~~~~~ 147 (179)
+.+|.||.+...+.+ . +.....|++.||..||.+|+... . ...||.|+.++.-
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~ 67 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW 67 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence 348999999876322 2 22223799999999999999751 1 1249999998754
No 40
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.35 E-value=3.8e-07 Score=72.68 Aligned_cols=64 Identities=28% Similarity=0.525 Sum_probs=50.2
Q ss_pred CCcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccccccccccCCCCCCCCCcHHHHHHHHH
Q 030350 93 WVPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLTYLQSKSLNNWPKNEPNWAVERILYI 172 (179)
Q Consensus 93 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 172 (179)
.+...|+||++.|..+ ..+ +|+|.||..|+..++.. ...||.||. ... .+.+|..+.+++..
T Consensus 11 ~~~~~C~iC~~~~~~p---~~l-~C~H~~c~~C~~~~~~~--~~~Cp~cr~-~~~-----------~~~~n~~l~~~~~~ 72 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP---VLL-PCGHNFCRACLTRSWEG--PLSCPVCRP-PSR-----------NLRPNVLLANLVER 72 (386)
T ss_pred cccccChhhHHHhhcC---ccc-cccchHhHHHHHHhcCC--CcCCcccCC-chh-----------ccCccHHHHHHHHH
Confidence 3566999999999998 223 89999999999999983 678999993 111 44588888888877
Q ss_pred hc
Q 030350 173 FG 174 (179)
Q Consensus 173 ~~ 174 (179)
+.
T Consensus 73 ~~ 74 (386)
T KOG2177|consen 73 LR 74 (386)
T ss_pred HH
Confidence 64
No 41
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.34 E-value=2.1e-07 Score=76.11 Aligned_cols=47 Identities=28% Similarity=0.936 Sum_probs=39.6
Q ss_pred ccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCC-CCCcccc
Q 030350 96 DTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHH-KTCPLCR 142 (179)
Q Consensus 96 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~-~~CP~CR 142 (179)
..|.||.+.+.....+..+.-|||+||..|+.+|+...+. +.||.||
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence 3899997777777777777569999999999999998655 5899999
No 42
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=98.17 E-value=4.5e-06 Score=60.64 Aligned_cols=68 Identities=19% Similarity=0.609 Sum_probs=53.0
Q ss_pred CCcccccccccccccCCeeeEccCCCC-----cccHHhHHHHHhcCCCCCCcccccccccccccccCCCCCCCCCcHH
Q 030350 93 WVPDTCAVCLNHMEEDDLVRELRNCCH-----VFHRECIDRWVDYDHHKTCPLCRAPLLTYLQSKSLNNWPKNEPNWA 165 (179)
Q Consensus 93 ~~~~~C~ICl~~~~~~~~~~~l~~C~H-----~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~~~~~~~~~~~~~~~~~~ 165 (179)
..+..|-||.++-. +... ||.. ..|.+|+.+|+..++...|++|+.+.......++..+|+-......
T Consensus 6 ~~~~~CRIC~~~~~--~~~~---PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~~~~kpl~~W~~~~~dc~ 78 (162)
T PHA02825 6 LMDKCCWICKDEYD--VVTN---YCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIKKNYKKCTKWRCSFRDCH 78 (162)
T ss_pred CCCCeeEecCCCCC--CccC---CcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEEEecCCCccccccCcchh
Confidence 45669999998843 2333 5653 5699999999998777889999999988878888899987776533
No 43
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.13 E-value=5.2e-07 Score=73.02 Aligned_cols=51 Identities=25% Similarity=0.665 Sum_probs=43.1
Q ss_pred CcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccccc
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLTY 148 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~ 148 (179)
.+..|+|||+.+.....+. .|.|.||..||..-++.+ ...||.||+.+...
T Consensus 42 ~~v~c~icl~llk~tmttk---eClhrfc~~ci~~a~r~g-n~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 42 IQVICPICLSLLKKTMTTK---ECLHRFCFDCIWKALRSG-NNECPTCRKKLVSK 92 (381)
T ss_pred hhhccHHHHHHHHhhcccH---HHHHHHHHHHHHHHHHhc-CCCCchHHhhcccc
Confidence 4568999999988755444 899999999999999876 67899999998774
No 44
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.04 E-value=2.2e-06 Score=68.10 Aligned_cols=50 Identities=30% Similarity=0.598 Sum_probs=42.1
Q ss_pred cccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccccc
Q 030350 95 PDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLTYL 149 (179)
Q Consensus 95 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~~ 149 (179)
..+|+||+.....+..+ .|+|.||.-||+.-...+ ..+|++||.++....
T Consensus 7 ~~eC~IC~nt~n~Pv~l----~C~HkFCyiCiKGsy~nd-k~~CavCR~pids~i 56 (324)
T KOG0824|consen 7 KKECLICYNTGNCPVNL----YCFHKFCYICIKGSYKND-KKTCAVCRFPIDSTI 56 (324)
T ss_pred CCcceeeeccCCcCccc----cccchhhhhhhcchhhcC-CCCCceecCCCCcch
Confidence 34999999998777444 799999999999988875 577999999998754
No 45
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.95 E-value=4.7e-06 Score=67.76 Aligned_cols=52 Identities=25% Similarity=0.621 Sum_probs=41.0
Q ss_pred CCcccccccccccccCCeeeEccCCCC-cccHHhHHHHHhcCCCCCCcccccccccccc
Q 030350 93 WVPDTCAVCLNHMEEDDLVRELRNCCH-VFHRECIDRWVDYDHHKTCPLCRAPLLTYLQ 150 (179)
Q Consensus 93 ~~~~~C~ICl~~~~~~~~~~~l~~C~H-~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~~~ 150 (179)
+...+|.||+.+-.+ +..| ||+| ..|..|.+..--+ ++.||+||+++...++
T Consensus 288 ~~gkeCVIClse~rd---t~vL-PCRHLCLCs~Ca~~Lr~q--~n~CPICRqpi~~ll~ 340 (349)
T KOG4265|consen 288 ESGKECVICLSESRD---TVVL-PCRHLCLCSGCAKSLRYQ--TNNCPICRQPIEELLE 340 (349)
T ss_pred cCCCeeEEEecCCcc---eEEe-cchhhehhHhHHHHHHHh--hcCCCccccchHhhhe
Confidence 346689999999554 3345 8999 5899998877755 7889999999988654
No 46
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.94 E-value=5.4e-06 Score=68.40 Aligned_cols=53 Identities=28% Similarity=0.739 Sum_probs=40.5
Q ss_pred cccccccccccccCCeee-EccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 95 PDTCAVCLNHMEEDDLVR-ELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 95 ~~~C~ICl~~~~~~~~~~-~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
..+|+||++.+..+...+ ..+.|||.|...||++|+-+.-...||.|...-..
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katk 57 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATK 57 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHH
Confidence 458999999987755433 23489999999999999964334569999876554
No 47
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.93 E-value=5.3e-06 Score=50.64 Aligned_cols=44 Identities=25% Similarity=0.639 Sum_probs=30.4
Q ss_pred CcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcc
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPL 140 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~ 140 (179)
....|+|.+..|+++..-. .|+|+|-++.|.+|+..++...||.
T Consensus 10 ~~~~CPiT~~~~~~PV~s~---~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFEDPVKSK---KCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SSEEEES---SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhCCcCcC---CCCCeecHHHHHHHHHhcCCCCCCC
Confidence 4558999999999886654 7999999999999996544667998
No 48
>PHA02862 5L protein; Provisional
Probab=97.91 E-value=7.1e-06 Score=58.59 Aligned_cols=59 Identities=27% Similarity=0.679 Sum_probs=46.9
Q ss_pred ccccccccccccCCeeeEccCCC-----CcccHHhHHHHHhcCCCCCCcccccccccccccccCCCCCC
Q 030350 96 DTCAVCLNHMEEDDLVRELRNCC-----HVFHRECIDRWVDYDHHKTCPLCRAPLLTYLQSKSLNNWPK 159 (179)
Q Consensus 96 ~~C~ICl~~~~~~~~~~~l~~C~-----H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~~~~~~~~~~~~ 159 (179)
+.|-||+++-.++ .. ||+ ...|.+|+.+|+...++..|++|+.+......-++...|+-
T Consensus 3 diCWIC~~~~~e~--~~---PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~~yKpf~kW~~ 66 (156)
T PHA02862 3 DICWICNDVCDER--NN---FCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKKTYVSFKKWNW 66 (156)
T ss_pred CEEEEecCcCCCC--cc---cccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEEccccHHHhhc
Confidence 4899999985433 33 664 57999999999988767889999999987777777788863
No 49
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.89 E-value=3.8e-06 Score=74.21 Aligned_cols=77 Identities=26% Similarity=0.453 Sum_probs=51.4
Q ss_pred cccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccccc--cccccCCCCCCCCCcHHHHHHHHH
Q 030350 95 PDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLTY--LQSKSLNNWPKNEPNWAVERILYI 172 (179)
Q Consensus 95 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~ 172 (179)
...|++|+..+.+....... +|+|.||..||..|-+. -.+||+||..+... +++....+|-...+.---+.++..
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k-~c~H~FC~~Ci~sWsR~--aqTCPiDR~EF~~v~V~eS~~~~~~vR~lP~EEs~~~~e~ 199 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEK-HTAHYFCEECVGSWSRC--AQTCPVDRGEFGEVKVLESTGIEANVRCLPSEESENILEK 199 (1134)
T ss_pred hhhhhHHHHHHHHHhhcccc-ccccccHHHHhhhhhhh--cccCchhhhhhheeeeeccccccceeEecchhhhhhhhhh
Confidence 44688888888776555444 79999999999999998 78999999988543 333333344444343333333444
Q ss_pred hc
Q 030350 173 FG 174 (179)
Q Consensus 173 ~~ 174 (179)
-|
T Consensus 200 ~~ 201 (1134)
T KOG0825|consen 200 GG 201 (1134)
T ss_pred cc
Confidence 33
No 50
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.88 E-value=8.1e-06 Score=68.28 Aligned_cols=72 Identities=26% Similarity=0.496 Sum_probs=55.5
Q ss_pred CcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccccccccccCCCCCCCCCcHHHHHHHHHh
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLTYLQSKSLNNWPKNEPNWAVERILYIF 173 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 173 (179)
.+.+|.||...+..+..+ +|||.||..||++-+.. ...||.||.++....... ....+|+....++..|
T Consensus 83 sef~c~vc~~~l~~pv~t----pcghs~c~~Cl~r~ld~--~~~cp~Cr~~l~e~~~~~-----~~~~~~r~~~~li~~F 151 (398)
T KOG4159|consen 83 SEFECCVCSRALYPPVVT----PCGHSFCLECLDRSLDQ--ETECPLCRDELVELPALE-----QALSLNRLLCKLITKF 151 (398)
T ss_pred chhhhhhhHhhcCCCccc----cccccccHHHHHHHhcc--CCCCcccccccccchHHH-----HHHHHHHHHHHHHHHh
Confidence 567999999999888776 89999999999998876 788999999998644333 1222566677777776
Q ss_pred cCC
Q 030350 174 GDD 176 (179)
Q Consensus 174 ~~~ 176 (179)
-.+
T Consensus 152 ~~~ 154 (398)
T KOG4159|consen 152 LEG 154 (398)
T ss_pred hhh
Confidence 543
No 51
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.81 E-value=9.6e-06 Score=66.56 Aligned_cols=54 Identities=31% Similarity=0.799 Sum_probs=41.5
Q ss_pred CcccccccccccccCC----eeeEccCCCCcccHHhHHHHHhcCC-----CCCCccccccccc
Q 030350 94 VPDTCAVCLNHMEEDD----LVRELRNCCHVFHRECIDRWVDYDH-----HKTCPLCRAPLLT 147 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~----~~~~l~~C~H~Fh~~Ci~~wl~~~~-----~~~CP~CR~~~~~ 147 (179)
.+.+|.||++..-+.. ....+++|.|.||..||..|-...+ .+.||.||....-
T Consensus 160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~ 222 (344)
T KOG1039|consen 160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF 222 (344)
T ss_pred ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence 4678999999876544 1334578999999999999996543 4679999986644
No 52
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.67 E-value=2.1e-05 Score=62.61 Aligned_cols=69 Identities=20% Similarity=0.470 Sum_probs=51.1
Q ss_pred CCcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcC---------------------CCCCCccccccccccccc
Q 030350 93 WVPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYD---------------------HHKTCPLCRAPLLTYLQS 151 (179)
Q Consensus 93 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~---------------------~~~~CP~CR~~~~~~~~~ 151 (179)
.....|.|||--|.+++...+. .|-|.||..|+.+++..- ....||+||..+....++
T Consensus 113 ~p~gqCvICLygfa~~~~ft~T-~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~~s 191 (368)
T KOG4445|consen 113 HPNGQCVICLYGFASSPAFTVT-ACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEENS 191 (368)
T ss_pred CCCCceEEEEEeecCCCceeee-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccccc
Confidence 3456899999999999877666 899999999999887320 123499999999887765
Q ss_pred ccCCCCCCCCC
Q 030350 152 KSLNNWPKNEP 162 (179)
Q Consensus 152 ~~~~~~~~~~~ 162 (179)
-.-..++...+
T Consensus 192 lk~a~~Pt~~l 202 (368)
T KOG4445|consen 192 LKIAEFPTYPM 202 (368)
T ss_pred eeccCCCcccc
Confidence 55444444433
No 53
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.66 E-value=1.4e-05 Score=70.57 Aligned_cols=49 Identities=27% Similarity=0.655 Sum_probs=39.3
Q ss_pred CcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
+-..|+.|-..+.+-..+ .|+|+||..|+..-+... ++.||.|...+..
T Consensus 642 ~~LkCs~Cn~R~Kd~vI~----kC~H~FC~~Cvq~r~etR-qRKCP~Cn~aFga 690 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKDAVIT----KCGHVFCEECVQTRYETR-QRKCPKCNAAFGA 690 (698)
T ss_pred hceeCCCccCchhhHHHH----hcchHHHHHHHHHHHHHh-cCCCCCCCCCCCc
Confidence 345899999766553333 799999999999999874 6789999998865
No 54
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.61 E-value=6.2e-05 Score=59.28 Aligned_cols=54 Identities=24% Similarity=0.475 Sum_probs=43.3
Q ss_pred CCcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccccc
Q 030350 93 WVPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLTYL 149 (179)
Q Consensus 93 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~~ 149 (179)
..+.+|++|-+.-..|.... +|+|+||..|+..-...+...+||.|-.+..+..
T Consensus 237 t~~~~C~~Cg~~PtiP~~~~---~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~lq 290 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTIPHVIG---KCGHIYCYYCIATSRLWDASFTCPLCGENVEPLQ 290 (298)
T ss_pred cCCceeeccCCCCCCCeeec---cccceeehhhhhhhhcchhhcccCccCCCCcchh
Confidence 35679999998866665554 7999999999999887655678999988877543
No 55
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.61 E-value=1.7e-05 Score=47.12 Aligned_cols=50 Identities=32% Similarity=0.710 Sum_probs=36.1
Q ss_pred cccccccccccccCCeeeEccCCCC-cccHHhHHHHHhcCCCCCCccccccccccc
Q 030350 95 PDTCAVCLNHMEEDDLVRELRNCCH-VFHRECIDRWVDYDHHKTCPLCRAPLLTYL 149 (179)
Q Consensus 95 ~~~C~ICl~~~~~~~~~~~l~~C~H-~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~~ 149 (179)
+++|.||.+.-.+...- -||| ..|..|-.+.++.. +..||+||+++.+..
T Consensus 7 ~dECTICye~pvdsVlY----tCGHMCmCy~Cg~rl~~~~-~g~CPiCRapi~dvI 57 (62)
T KOG4172|consen 7 SDECTICYEHPVDSVLY----TCGHMCMCYACGLRLKKAL-HGCCPICRAPIKDVI 57 (62)
T ss_pred ccceeeeccCcchHHHH----HcchHHhHHHHHHHHHHcc-CCcCcchhhHHHHHH
Confidence 36999999875543222 5999 47888876666532 788999999987643
No 56
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.54 E-value=4e-05 Score=61.82 Aligned_cols=69 Identities=20% Similarity=0.512 Sum_probs=52.4
Q ss_pred CcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccccccccccCCCCCCCCCcHHHHHHHHHh
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLTYLQSKSLNNWPKNEPNWAVERILYIF 173 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 173 (179)
...+|.+|-+.|.+...+. .|-|.||+.||.+.+.. ...||.|...+-.. ++ =........+..++..+
T Consensus 14 ~~itC~LC~GYliDATTI~---eCLHTFCkSCivk~l~~--~~~CP~C~i~ih~t---~p---l~ni~~DrtlqdiVyKL 82 (331)
T KOG2660|consen 14 PHITCRLCGGYLIDATTIT---ECLHTFCKSCIVKYLEE--SKYCPTCDIVIHKT---HP---LLNIRSDRTLQDIVYKL 82 (331)
T ss_pred cceehhhccceeecchhHH---HHHHHHHHHHHHHHHHH--hccCCccceeccCc---cc---cccCCcchHHHHHHHHH
Confidence 4569999999999987776 89999999999999998 88999998877552 10 02444555666665543
No 57
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.42 E-value=5.6e-05 Score=62.45 Aligned_cols=46 Identities=28% Similarity=0.843 Sum_probs=35.9
Q ss_pred cccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccc
Q 030350 97 TCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLL 146 (179)
Q Consensus 97 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~ 146 (179)
-|-||-+.-.+ .++. ||||..|..|+..|-..+...+||.||.++.
T Consensus 371 LCKICaendKd-vkIE---PCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK 416 (563)
T KOG1785|consen 371 LCKICAENDKD-VKIE---PCGHLLCTSCLAAWQDSDEGQTCPFCRCEIK 416 (563)
T ss_pred HHHHhhccCCC-cccc---cccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence 59999877332 2232 9999999999999987654678999999874
No 58
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.23 E-value=0.00018 Score=42.12 Aligned_cols=42 Identities=33% Similarity=0.966 Sum_probs=28.5
Q ss_pred ccccccccccCCeeeEccCCC-----CcccHHhHHHHHhcCCCCCCccc
Q 030350 98 CAVCLNHMEEDDLVRELRNCC-----HVFHRECIDRWVDYDHHKTCPLC 141 (179)
Q Consensus 98 C~ICl~~~~~~~~~~~l~~C~-----H~Fh~~Ci~~wl~~~~~~~CP~C 141 (179)
|-||++.-.+...+. .||+ ...|..|+.+|+....+..|++|
T Consensus 1 CrIC~~~~~~~~~li--~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLI--SPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE---SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCcee--cccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 779999877665222 2664 36899999999987556779887
No 59
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.23 E-value=0.00047 Score=52.99 Aligned_cols=51 Identities=24% Similarity=0.649 Sum_probs=42.8
Q ss_pred cccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCC------CCCCccccccccc
Q 030350 95 PDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDH------HKTCPLCRAPLLT 147 (179)
Q Consensus 95 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~------~~~CP~CR~~~~~ 147 (179)
..-|..|-..+..++.++.. |-|.||.+|+..|-.+=. .-.||-|..++.+
T Consensus 50 ~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP 106 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP 106 (299)
T ss_pred CCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence 44799999999999988755 999999999999986521 2349999999987
No 60
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.22 E-value=0.00016 Score=60.92 Aligned_cols=51 Identities=24% Similarity=0.565 Sum_probs=44.4
Q ss_pred CCcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccccc
Q 030350 93 WVPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLTY 148 (179)
Q Consensus 93 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~ 148 (179)
.++..|++|...+.++.... .|||.||..|+..|+.. +..||.|+..+...
T Consensus 19 ~~~l~C~~C~~vl~~p~~~~---~cgh~fC~~C~~~~~~~--~~~cp~~~~~~~~~ 69 (391)
T KOG0297|consen 19 DENLLCPICMSVLRDPVQTT---TCGHRFCAGCLLESLSN--HQKCPVCRQELTQA 69 (391)
T ss_pred cccccCccccccccCCCCCC---CCCCcccccccchhhcc--CcCCcccccccchh
Confidence 45679999999999987742 69999999999999998 88999999988763
No 61
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=97.18 E-value=0.0022 Score=51.95 Aligned_cols=49 Identities=27% Similarity=0.493 Sum_probs=39.6
Q ss_pred CCCcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccc
Q 030350 92 PWVPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPL 145 (179)
Q Consensus 92 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~ 145 (179)
+.....|++|+..-.++..+. --|-+||..|+-.++.+ +..||+=..+.
T Consensus 297 ~~~~~~CpvClk~r~Nptvl~---vSGyVfCY~Ci~~Yv~~--~~~CPVT~~p~ 345 (357)
T KOG0826|consen 297 PPDREVCPVCLKKRQNPTVLE---VSGYVFCYPCIFSYVVN--YGHCPVTGYPA 345 (357)
T ss_pred CCccccChhHHhccCCCceEE---ecceEEeHHHHHHHHHh--cCCCCccCCcc
Confidence 345568999999988887665 57999999999999998 89999764443
No 62
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.01 E-value=0.00027 Score=58.32 Aligned_cols=49 Identities=24% Similarity=0.727 Sum_probs=39.3
Q ss_pred CcccccccccccccC-CeeeEccCCCCcccHHhHHHHHhcCCCCCCccccc
Q 030350 94 VPDTCAVCLNHMEED-DLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRA 143 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~-~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~ 143 (179)
.+.-|-.|-+.+-.. +.+..+ ||.|+||..|+...+.++...+||-||+
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqAL-pCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQAL-PCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HhhhhhhhhhhhcCCccccccc-chhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 345799998887554 455566 8999999999999998866778999993
No 63
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.89 E-value=0.00089 Score=39.15 Aligned_cols=46 Identities=26% Similarity=0.642 Sum_probs=23.0
Q ss_pred ccccccccccCC-eeeEccCCCCcccHHhHHHHHhcCCCCCCccccccc
Q 030350 98 CAVCLNHMEEDD-LVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPL 145 (179)
Q Consensus 98 C~ICl~~~~~~~-~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~ 145 (179)
|++|.+++...+ ...-. +|++.++..|...-+... ...||-||.+.
T Consensus 1 cp~C~e~~d~~d~~~~PC-~Cgf~IC~~C~~~i~~~~-~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPC-ECGFQICRFCYHDILENE-GGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SS-TTS----HHHHHHHTTSS--SB-TTT--B-
T ss_pred CCCcccccccCCCccccC-cCCCcHHHHHHHHHHhcc-CCCCCCCCCCC
Confidence 788999984333 33333 688999999999988742 67899999864
No 64
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.88 E-value=0.0009 Score=54.70 Aligned_cols=49 Identities=18% Similarity=0.435 Sum_probs=40.2
Q ss_pred CCcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 93 WVPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 93 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
.++..|+||...-. ..+..||+|.-|+.||.+-+.+ .+.|=+|+..+.+
T Consensus 420 sEd~lCpICyA~pi----~Avf~PC~H~SC~~CI~qHlmN--~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 420 SEDNLCPICYAGPI----NAVFAPCSHRSCYGCITQHLMN--CKRCFFCKTTVID 468 (489)
T ss_pred cccccCcceecccc----hhhccCCCCchHHHHHHHHHhc--CCeeeEecceeee
Confidence 46778999987633 3334499999999999999998 8899999998764
No 65
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.70 E-value=0.0015 Score=50.88 Aligned_cols=51 Identities=22% Similarity=0.418 Sum_probs=45.9
Q ss_pred cccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 95 PDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 95 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
-.-|++|.+.+.+......|.+|||+|+.+|+++.... ...||+|-.++.+
T Consensus 221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~--D~v~pv~d~plkd 271 (303)
T KOG3039|consen 221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRK--DMVDPVTDKPLKD 271 (303)
T ss_pred ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccc--cccccCCCCcCcc
Confidence 45799999999998888888899999999999999988 7899999888866
No 66
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.68 E-value=0.0012 Score=62.41 Aligned_cols=78 Identities=18% Similarity=0.405 Sum_probs=54.5
Q ss_pred CCCChHHHHhhccccccccccccCCCCcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcC---C-----CCCCc
Q 030350 68 CSISSQMIKERLVLASFGDIKVRMPWVPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYD---H-----HKTCP 139 (179)
Q Consensus 68 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~---~-----~~~CP 139 (179)
+-.-.+..++-+|-...++.... ...++-|.||+.+--.......+ .|+|.||..|..+-+.+. . -..||
T Consensus 3460 ~CGGvkNEE~CLPCl~Cdks~tk-QD~DDmCmICFTE~L~AAP~IqL-~C~HiFHlqC~R~vLE~RW~GPRItF~FisCP 3537 (3738)
T KOG1428|consen 3460 PCGGVKNEEHCLPCLHCDKSATK-QDADDMCMICFTEALSAAPAIQL-DCSHIFHLQCCRRVLENRWLGPRITFGFISCP 3537 (3738)
T ss_pred cccCccchhhcccccccChhhhh-cccCceEEEEehhhhCCCcceec-CCccchhHHHHHHHHHhcccCCeeEEeeeecc
Confidence 33444455566676666555443 35677899999987666666667 899999999998877652 1 23499
Q ss_pred cccccccc
Q 030350 140 LCRAPLLT 147 (179)
Q Consensus 140 ~CR~~~~~ 147 (179)
+|+.++..
T Consensus 3538 iC~n~InH 3545 (3738)
T KOG1428|consen 3538 ICKNKINH 3545 (3738)
T ss_pred cccchhhh
Confidence 99987754
No 67
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.67 E-value=0.00061 Score=49.75 Aligned_cols=29 Identities=28% Similarity=0.799 Sum_probs=26.2
Q ss_pred CcccccccccccccCCeeeEccCCCCcccH
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHR 123 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~ 123 (179)
...+|.||||+++.++.+.+| ||-.+||+
T Consensus 176 dkGECvICLEdL~~GdtIARL-PCLCIYHK 204 (205)
T KOG0801|consen 176 DKGECVICLEDLEAGDTIARL-PCLCIYHK 204 (205)
T ss_pred cCCcEEEEhhhccCCCceecc-ceEEEeec
Confidence 345899999999999999999 89999996
No 68
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.67 E-value=0.0015 Score=49.27 Aligned_cols=46 Identities=24% Similarity=0.530 Sum_probs=39.0
Q ss_pred cccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccc
Q 030350 95 PDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLL 146 (179)
Q Consensus 95 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~ 146 (179)
...|-||-.+|+.+..+ .|||.||..|..+-++. ...|-+|-+...
T Consensus 196 PF~C~iCKkdy~spvvt----~CGH~FC~~Cai~~y~k--g~~C~~Cgk~t~ 241 (259)
T COG5152 196 PFLCGICKKDYESPVVT----ECGHSFCSLCAIRKYQK--GDECGVCGKATY 241 (259)
T ss_pred ceeehhchhhccchhhh----hcchhHHHHHHHHHhcc--CCcceecchhhc
Confidence 45799999999998766 69999999999888887 678999976543
No 69
>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=96.62 E-value=0.00082 Score=47.78 Aligned_cols=37 Identities=22% Similarity=0.580 Sum_probs=28.1
Q ss_pred cccccccccccccCCeeeEccCCC------CcccHHhHHHHHhc
Q 030350 95 PDTCAVCLNHMEEDDLVRELRNCC------HVFHRECIDRWVDY 132 (179)
Q Consensus 95 ~~~C~ICl~~~~~~~~~~~l~~C~------H~Fh~~Ci~~wl~~ 132 (179)
..+|+||++.....+-+..+ .|+ |.||..|+.+|-+.
T Consensus 26 ~~EC~IC~~~I~~~~GvV~v-t~~g~lnLEkmfc~~C~~rw~~~ 68 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYV-TDGGTLNLEKMFCADCDKRWRRE 68 (134)
T ss_pred CeeehhhhhhhhcCCCEEEE-ecCCeehHHHHHHHHHHHHHHhh
Confidence 45999999999883334444 465 89999999999543
No 70
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=96.56 E-value=0.0024 Score=57.51 Aligned_cols=54 Identities=26% Similarity=0.672 Sum_probs=42.5
Q ss_pred CCcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCC-----CCCcccccccc
Q 030350 93 WVPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHH-----KTCPLCRAPLL 146 (179)
Q Consensus 93 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~-----~~CP~CR~~~~ 146 (179)
....+|.||.+.+.....+.....|-|+||..||.+|-+.... =.||.|+....
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~ 247 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSK 247 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhc
Confidence 3567999999999988888776678899999999999976211 23999985433
No 71
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.54 E-value=0.0012 Score=56.67 Aligned_cols=52 Identities=31% Similarity=0.636 Sum_probs=41.6
Q ss_pred CcccccccccccccCCeeeEccCCCCcccHHhHHHHHhc---CCCCCCccccccccccc
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDY---DHHKTCPLCRAPLLTYL 149 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~---~~~~~CP~CR~~~~~~~ 149 (179)
+..+|-+|.+.-++..+. .|.|.||+.|+..++.. +.+.+||.|-..+.-++
T Consensus 535 ~~~~C~lc~d~aed~i~s----~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDl 589 (791)
T KOG1002|consen 535 GEVECGLCHDPAEDYIES----SCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDL 589 (791)
T ss_pred CceeecccCChhhhhHhh----hhhHHHHHHHHHHHHHhhhcccCCCCccccccccccc
Confidence 566899999998776666 59999999999888854 23577999988876654
No 72
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.29 E-value=0.0028 Score=50.66 Aligned_cols=48 Identities=19% Similarity=0.424 Sum_probs=40.4
Q ss_pred CcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
....|-||...|..+... .|+|.||..|...-++. ...|.+|.+...-
T Consensus 240 ~Pf~c~icr~~f~~pVvt----~c~h~fc~~ca~~~~qk--~~~c~vC~~~t~g 287 (313)
T KOG1813|consen 240 LPFKCFICRKYFYRPVVT----KCGHYFCEVCALKPYQK--GEKCYVCSQQTHG 287 (313)
T ss_pred CCccccccccccccchhh----cCCceeehhhhcccccc--CCcceeccccccc
Confidence 345699999999998777 69999999999888887 6789999876654
No 73
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.28 E-value=0.0026 Score=52.08 Aligned_cols=45 Identities=33% Similarity=0.686 Sum_probs=33.8
Q ss_pred CcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
..+-|.||+++..+-+.+ +|||.-| |..-... ...||+||+.+..
T Consensus 304 ~p~lcVVcl~e~~~~~fv----pcGh~cc--ct~cs~~---l~~CPvCR~rI~~ 348 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKSAVFV----PCGHVCC--CTLCSKH---LPQCPVCRQRIRL 348 (355)
T ss_pred CCCceEEecCCccceeee----cCCcEEE--chHHHhh---CCCCchhHHHHHH
Confidence 456899999998875555 8999866 6654443 4569999998755
No 74
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.26 E-value=0.0043 Score=50.17 Aligned_cols=71 Identities=20% Similarity=0.492 Sum_probs=52.1
Q ss_pred ccccccccccccCC--ee-eEccCCCCcccHHhHHHHHhcCCCCCCcccccccccccccccCCCCCCCCCcHHHHHHHHH
Q 030350 96 DTCAVCLNHMEEDD--LV-RELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLTYLQSKSLNNWPKNEPNWAVERILYI 172 (179)
Q Consensus 96 ~~C~ICl~~~~~~~--~~-~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 172 (179)
.+|-||-++|...+ .+ +.+ .|||.|+..|+.+.+... ...||.||..... +...-+.+..|.++..++..
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l-~c~h~~c~~c~~~l~~~~-~i~cpfcR~~~~~-----~~~~~~~l~kNf~ll~~~~~ 76 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVL-KCGHTICQNCASKLLGNS-RILCPFCRETTEI-----PDGDVKSLQKNFALLQAIEH 76 (296)
T ss_pred CceeecCccccccCcccCCccc-ccCceehHhHHHHHhcCc-eeeccCCCCcccC-----CchhHhhhhhhHHHHHHHHH
Confidence 48999999998763 22 344 799999999998888764 5669999998622 33444777888777766655
Q ss_pred h
Q 030350 173 F 173 (179)
Q Consensus 173 ~ 173 (179)
.
T Consensus 77 ~ 77 (296)
T KOG4185|consen 77 M 77 (296)
T ss_pred H
Confidence 3
No 75
>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=96.17 E-value=0.002 Score=43.97 Aligned_cols=32 Identities=28% Similarity=0.660 Sum_probs=25.2
Q ss_pred CcccccccccccccCCeeeEccCCCCcccHHhHH
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHRECID 127 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~ 127 (179)
++..|++|-..+..+ ..... ||||+||..|+.
T Consensus 77 ~~~~C~vC~k~l~~~-~f~~~-p~~~v~H~~C~~ 108 (109)
T PF10367_consen 77 ESTKCSVCGKPLGNS-VFVVF-PCGHVVHYSCIK 108 (109)
T ss_pred CCCCccCcCCcCCCc-eEEEe-CCCeEEeccccc
Confidence 345799999998874 44445 899999999974
No 76
>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=96.15 E-value=0.0038 Score=35.75 Aligned_cols=43 Identities=19% Similarity=0.649 Sum_probs=23.7
Q ss_pred ccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccc
Q 030350 98 CAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLC 141 (179)
Q Consensus 98 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~C 141 (179)
|.+|.+....+..-..- .|+=.+|..|+..++.......||.|
T Consensus 1 C~~C~~iv~~G~~C~~~-~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNR-DCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCC-ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 56777776666544322 58889999999999998544479987
No 77
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.98 E-value=0.012 Score=47.30 Aligned_cols=44 Identities=25% Similarity=0.508 Sum_probs=36.9
Q ss_pred ccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccc
Q 030350 96 DTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRA 143 (179)
Q Consensus 96 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~ 143 (179)
..|+.|......+..+. -|+|.||.+||...|... ...||.|..
T Consensus 275 LkCplc~~Llrnp~kT~---cC~~~fc~eci~~al~ds-Df~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNPMKTP---CCGHTFCDECIGTALLDS-DFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCcccCc---cccchHHHHHHhhhhhhc-cccCCCccc
Confidence 68999999998887762 599999999999888652 678999966
No 78
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=95.90 E-value=0.0034 Score=48.79 Aligned_cols=45 Identities=27% Similarity=0.648 Sum_probs=30.8
Q ss_pred cccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 97 TCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 97 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
.|.-|...-. ++..... .|+|+||..|...-. ...||+||.++..
T Consensus 5 hCn~C~~~~~-~~~f~LT-aC~HvfC~~C~k~~~----~~~C~lCkk~ir~ 49 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLT-ACRHVFCEPCLKASS----PDVCPLCKKSIRI 49 (233)
T ss_pred EeccccccCC-CCceeee-echhhhhhhhcccCC----ccccccccceeee
Confidence 4666655433 5555434 899999999974332 2379999999654
No 79
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.79 E-value=0.0073 Score=44.92 Aligned_cols=32 Identities=28% Similarity=0.838 Sum_probs=25.5
Q ss_pred CCCCcccHHhHHHHHhcC----CC-----CCCccccccccc
Q 030350 116 NCCHVFHRECIDRWVDYD----HH-----KTCPLCRAPLLT 147 (179)
Q Consensus 116 ~C~H~Fh~~Ci~~wl~~~----~~-----~~CP~CR~~~~~ 147 (179)
.||.-||.-|+..||+.- ++ ..||+|..++.-
T Consensus 189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence 799999999999999651 11 239999988865
No 80
>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=95.75 E-value=0.0087 Score=47.76 Aligned_cols=50 Identities=26% Similarity=0.579 Sum_probs=41.1
Q ss_pred cccccccc-cccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 97 TCAVCLNH-MEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 97 ~C~ICl~~-~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
.|++|-.. |..++...+..+|+|..|.+|++..+..+ ...||-|...+..
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g-~~~CpeC~~iLRk 52 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLG-PAQCPECMVILRK 52 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcC-CCCCCcccchhhh
Confidence 58899866 66777666666999999999999999886 5779999877655
No 81
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.73 E-value=0.0075 Score=47.31 Aligned_cols=56 Identities=23% Similarity=0.672 Sum_probs=39.3
Q ss_pred CCcccccccccccccCCeeeEccCCC-----CcccHHhHHHHHhcCC------CCCCcccccccccc
Q 030350 93 WVPDTCAVCLNHMEEDDLVRELRNCC-----HVFHRECIDRWVDYDH------HKTCPLCRAPLLTY 148 (179)
Q Consensus 93 ~~~~~C~ICl~~~~~~~~~~~l~~C~-----H~Fh~~Ci~~wl~~~~------~~~CP~CR~~~~~~ 148 (179)
+.+..|=||+..-++...-.-..||. |..|..|+..|+..+. ...||.|+.+....
T Consensus 18 e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv 84 (293)
T KOG3053|consen 18 ELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIV 84 (293)
T ss_pred ccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheee
Confidence 45567999999866643221222663 8899999999997642 23499999988763
No 82
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.72 E-value=0.00084 Score=55.42 Aligned_cols=51 Identities=20% Similarity=0.675 Sum_probs=42.6
Q ss_pred CcccccccccccccC-CeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 94 VPDTCAVCLNHMEED-DLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~-~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
....|+||.+.+... +.+..+ .|||.+|..|+.+|+.. ...||.||+++..
T Consensus 195 lv~sl~I~~~slK~~y~k~~~~-~~g~~~~~~kL~k~L~~--~~kl~~~~rel~~ 246 (465)
T KOG0827|consen 195 LVGSLSICFESLKQNYDKISAI-VCGHIYHHGKLSKWLAT--KRKLPSCRRELPK 246 (465)
T ss_pred HHhhhHhhHHHHHHHHHHHHHH-hhcccchhhHHHHHHHH--HHHhHHHHhhhhh
Confidence 345799999998876 445445 79999999999999998 7789999998865
No 83
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.71 E-value=0.006 Score=50.86 Aligned_cols=50 Identities=20% Similarity=0.525 Sum_probs=37.7
Q ss_pred CcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcC------CCCCCcccccc
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYD------HHKTCPLCRAP 144 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~------~~~~CP~CR~~ 144 (179)
....|.||+++....+....+ ||+|+||+.|+..++... +.-.||-+.-.
T Consensus 183 slf~C~ICf~e~~G~~c~~~l-pC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~ 238 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFL-PCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCG 238 (445)
T ss_pred hcccceeeehhhcCcceeeec-ccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCc
Confidence 445899999998776777667 999999999999999551 12347766543
No 84
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.61 E-value=0.0096 Score=48.72 Aligned_cols=54 Identities=22% Similarity=0.420 Sum_probs=37.8
Q ss_pred CCCcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccccc
Q 030350 92 PWVPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLTYL 149 (179)
Q Consensus 92 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~~ 149 (179)
+++..-|.||-+...-... + ||+|..|.-|-.+.-.-.+.+.||+||.+....+
T Consensus 58 DEen~~C~ICA~~~TYs~~---~-PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~V~ 111 (493)
T COG5236 58 DEENMNCQICAGSTTYSAR---Y-PCGHQICHACAVRLRALYMQKGCPLCRTETEAVV 111 (493)
T ss_pred ccccceeEEecCCceEEEe---c-cCCchHHHHHHHHHHHHHhccCCCccccccceEE
Confidence 3455679999887554322 3 9999999999755432222678999999876554
No 85
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.49 E-value=0.018 Score=45.88 Aligned_cols=52 Identities=23% Similarity=0.409 Sum_probs=42.2
Q ss_pred CCcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 93 WVPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 93 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
.....|||...+|........+-+|||+|...++...- . ...||+|-.++..
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~--~~~Cp~c~~~f~~ 162 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-K--SKKCPVCGKPFTE 162 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-c--cccccccCCcccc
Confidence 35668999999997666666666999999999999884 2 5679999988764
No 86
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.40 E-value=0.0064 Score=54.85 Aligned_cols=42 Identities=26% Similarity=0.725 Sum_probs=33.5
Q ss_pred ccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccc
Q 030350 96 DTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPL 145 (179)
Q Consensus 96 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~ 145 (179)
..|..|-..+.-|..-- .|||.||.+|+. .+ ...||-|+.++
T Consensus 841 skCs~C~~~LdlP~VhF---~CgHsyHqhC~e---~~--~~~CP~C~~e~ 882 (933)
T KOG2114|consen 841 SKCSACEGTLDLPFVHF---LCGHSYHQHCLE---DK--EDKCPKCLPEL 882 (933)
T ss_pred eeecccCCccccceeee---ecccHHHHHhhc---cC--cccCCccchhh
Confidence 48999999988775433 699999999997 32 67799998844
No 87
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=95.26 E-value=0.01 Score=47.49 Aligned_cols=46 Identities=22% Similarity=0.509 Sum_probs=38.3
Q ss_pred ccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccc
Q 030350 96 DTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRA 143 (179)
Q Consensus 96 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~ 143 (179)
..|+||.+.+..........+|||.-|..|+...... +-+||+|.+
T Consensus 159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~--~y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICE--GYTCPICSK 204 (276)
T ss_pred CCCchhHHHhccccccCCccCcccchHHHHHHHHhcc--CCCCCcccc
Confidence 3599999998776655444489999999999999887 588999988
No 88
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=95.17 E-value=0.0082 Score=56.41 Aligned_cols=48 Identities=21% Similarity=0.546 Sum_probs=38.8
Q ss_pred CcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccc
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLL 146 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~ 146 (179)
....|.||++.+..-..+. .|||.+|..|...|+.. +..||.|+....
T Consensus 1152 ~~~~c~ic~dil~~~~~I~---~cgh~~c~~c~~~~l~~--~s~~~~~ksi~~ 1199 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQGGIA---GCGHEPCCRCDELWLYA--SSRCPICKSIKG 1199 (1394)
T ss_pred cccchHHHHHHHHhcCCee---eechhHhhhHHHHHHHH--hccCcchhhhhh
Confidence 4458999999998543333 69999999999999998 889999985333
No 89
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=95.15 E-value=0.015 Score=47.44 Aligned_cols=53 Identities=21% Similarity=0.374 Sum_probs=37.0
Q ss_pred CcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
+++-|+.|++++...+.--.--+||-..|.-|...--+. -+..||-||+...+
T Consensus 13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~-lngrcpacrr~y~d 65 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQN-LNGRCPACRRKYDD 65 (480)
T ss_pred ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhh-ccCCChHhhhhccc
Confidence 444599999999876654322278987777776554433 25679999997665
No 90
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=95.04 E-value=0.019 Score=51.80 Aligned_cols=52 Identities=25% Similarity=0.602 Sum_probs=41.1
Q ss_pred CCcccccccccccccCCeeeEccCCC-----CcccHHhHHHHHhcCCCCCCcccccccc
Q 030350 93 WVPDTCAVCLNHMEEDDLVRELRNCC-----HVFHRECIDRWVDYDHHKTCPLCRAPLL 146 (179)
Q Consensus 93 ~~~~~C~ICl~~~~~~~~~~~l~~C~-----H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~ 146 (179)
+++..|.||..+=..++.+- .||+ ...|.+|+..|+..++...|-+|..++.
T Consensus 10 ~d~~~CRICr~e~~~d~pLf--hPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~ 66 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLF--HPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK 66 (1175)
T ss_pred ccchhceeecCCCCCCCcCc--ccccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence 45568999999877766653 3565 3589999999999877788999998764
No 91
>PHA03096 p28-like protein; Provisional
Probab=94.83 E-value=0.016 Score=46.74 Aligned_cols=48 Identities=25% Similarity=0.485 Sum_probs=33.3
Q ss_pred ccccccccccccCC----eeeEccCCCCcccHHhHHHHHhcCC-CCCCccccc
Q 030350 96 DTCAVCLNHMEEDD----LVRELRNCCHVFHRECIDRWVDYDH-HKTCPLCRA 143 (179)
Q Consensus 96 ~~C~ICl~~~~~~~----~~~~l~~C~H~Fh~~Ci~~wl~~~~-~~~CP~CR~ 143 (179)
..|.||++...... .-..|+.|.|.||..|+..|-.... ...||.||.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence 48999999876532 2234668999999999999986531 233554444
No 92
>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=94.70 E-value=0.035 Score=40.59 Aligned_cols=38 Identities=24% Similarity=0.558 Sum_probs=24.5
Q ss_pred cccccccccccccCCeeeEc---cC-----CC-CcccHHhHHHHHhc
Q 030350 95 PDTCAVCLNHMEEDDLVREL---RN-----CC-HVFHRECIDRWVDY 132 (179)
Q Consensus 95 ~~~C~ICl~~~~~~~~~~~l---~~-----C~-H~Fh~~Ci~~wl~~ 132 (179)
+..|+||++.-.+...+..- .+ |+ -.-|..|++++-+.
T Consensus 2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka 48 (162)
T PF07800_consen 2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKA 48 (162)
T ss_pred CccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHH
Confidence 45899999987665544311 12 32 23578899998754
No 93
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=94.38 E-value=0.058 Score=32.28 Aligned_cols=33 Identities=24% Similarity=0.615 Sum_probs=28.5
Q ss_pred cccccccccccccCCeeeEccCCCCcccHHhHH
Q 030350 95 PDTCAVCLNHMEEDDLVRELRNCCHVFHRECID 127 (179)
Q Consensus 95 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~ 127 (179)
...|++|-+.|.+++.+.+.+.|+-.+|+.|.+
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~ 37 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWE 37 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHh
Confidence 447999999999878787888999999999953
No 94
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=94.35 E-value=0.019 Score=34.39 Aligned_cols=43 Identities=23% Similarity=0.536 Sum_probs=29.6
Q ss_pred cccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 97 TCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 97 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
.|..|...-..+. .+ +|+|..+..|+.-+= .+.||+|-+++..
T Consensus 9 ~~~~~~~~~~~~~---~~-pCgH~I~~~~f~~~r----YngCPfC~~~~~~ 51 (55)
T PF14447_consen 9 PCVFCGFVGTKGT---VL-PCGHLICDNCFPGER----YNGCPFCGTPFEF 51 (55)
T ss_pred eEEEccccccccc---cc-cccceeeccccChhh----ccCCCCCCCcccC
Confidence 4555554423222 23 899999999987663 4579999988765
No 95
>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=94.24 E-value=0.033 Score=32.28 Aligned_cols=30 Identities=30% Similarity=0.802 Sum_probs=21.8
Q ss_pred CCC-CcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 116 NCC-HVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 116 ~C~-H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
.|. |..|..|+...+.. ...||+|..++++
T Consensus 17 ~C~dHYLCl~CLt~ml~~--s~~C~iC~~~LPt 47 (50)
T PF03854_consen 17 KCSDHYLCLNCLTLMLSR--SDRCPICGKPLPT 47 (50)
T ss_dssp E-SS-EEEHHHHHHT-SS--SSEETTTTEE---
T ss_pred eecchhHHHHHHHHHhcc--ccCCCcccCcCcc
Confidence 475 99999999999988 8899999999876
No 96
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.22 E-value=0.022 Score=50.12 Aligned_cols=43 Identities=23% Similarity=0.548 Sum_probs=32.4
Q ss_pred ccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccc
Q 030350 96 DTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRA 143 (179)
Q Consensus 96 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~ 143 (179)
..|.||+..|......-+...|||+.|..|+..-.. .+|| |+.
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn----~scp-~~~ 54 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN----ASCP-TKR 54 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh----ccCC-CCc
Confidence 479999988877655444448999999999987764 4788 544
No 97
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=94.20 E-value=0.022 Score=51.25 Aligned_cols=48 Identities=27% Similarity=0.679 Sum_probs=37.0
Q ss_pred ccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccccc
Q 030350 96 DTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLTY 148 (179)
Q Consensus 96 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~ 148 (179)
..|.||++ ......+ +|+|.||..|+..-+.......||.||..+...
T Consensus 455 ~~c~ic~~-~~~~~it----~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~ 502 (674)
T KOG1001|consen 455 HWCHICCD-LDSFFIT----RCGHDFCVECLKKSIQQSENAPCPLCRNVLKEK 502 (674)
T ss_pred cccccccc-cccceee----cccchHHHHHHHhccccccCCCCcHHHHHHHHH
Confidence 69999999 2222222 799999999999999875445699999988664
No 98
>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=94.12 E-value=0.028 Score=43.85 Aligned_cols=51 Identities=25% Similarity=0.553 Sum_probs=38.1
Q ss_pred Ccccccccccc-cccCCeeeEccC-CCCcccHHhHHHHHhcCCCCCCc--cccccc
Q 030350 94 VPDTCAVCLNH-MEEDDLVRELRN-CCHVFHRECIDRWVDYDHHKTCP--LCRAPL 145 (179)
Q Consensus 94 ~~~~C~ICl~~-~~~~~~~~~l~~-C~H~Fh~~Ci~~wl~~~~~~~CP--~CR~~~ 145 (179)
.+..||+|..+ |-.++......| |-|..|.+|+++-+..+ ...|| -|..-+
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~G-pAqCP~~gC~kIL 63 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRG-PAQCPYKGCGKIL 63 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCC-CCCCCCccHHHHH
Confidence 45589999876 556665444434 99999999999999886 56799 775533
No 99
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=93.93 E-value=0.068 Score=43.45 Aligned_cols=46 Identities=24% Similarity=0.510 Sum_probs=35.4
Q ss_pred CcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
+-.+||||.+.+..+..-. +=||.-|..|=.+- ...||.||.++..
T Consensus 47 ~lleCPvC~~~l~~Pi~QC---~nGHlaCssC~~~~-----~~~CP~Cr~~~g~ 92 (299)
T KOG3002|consen 47 DLLDCPVCFNPLSPPIFQC---DNGHLACSSCRTKV-----SNKCPTCRLPIGN 92 (299)
T ss_pred hhccCchhhccCcccceec---CCCcEehhhhhhhh-----cccCCcccccccc
Confidence 4568999999999886542 23799999985422 5679999999875
No 100
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=93.15 E-value=0.062 Score=43.55 Aligned_cols=55 Identities=22% Similarity=0.647 Sum_probs=38.5
Q ss_pred CcccccccccccccCCeeeEccCCC-----CcccHHhHHHHHhcCCCCCCcccccccccc
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCC-----HVFHRECIDRWVDYDHHKTCPLCRAPLLTY 148 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~-----H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~ 148 (179)
++..|.||..+...........+|. +..|+.|++.|+..+....|..|.......
T Consensus 77 ~~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 77 SGPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred CCCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence 3468999999876543111122564 567999999999965577899998866543
No 101
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=93.00 E-value=0.047 Score=44.13 Aligned_cols=45 Identities=33% Similarity=0.620 Sum_probs=28.8
Q ss_pred cccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccccc
Q 030350 97 TCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLTY 148 (179)
Q Consensus 97 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~ 148 (179)
.|.-|= |-...--|++ +|+|+||.+|... .. .+.||.|-..+...
T Consensus 92 fCd~Cd--~PI~IYGRmI-PCkHvFCl~CAr~--~~--dK~Cp~C~d~VqrI 136 (389)
T KOG2932|consen 92 FCDRCD--FPIAIYGRMI-PCKHVFCLECARS--DS--DKICPLCDDRVQRI 136 (389)
T ss_pred eecccC--Ccceeeeccc-ccchhhhhhhhhc--Cc--cccCcCcccHHHHH
Confidence 466663 3333334555 9999999999532 22 45799997766543
No 102
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=92.88 E-value=0.1 Score=37.07 Aligned_cols=55 Identities=15% Similarity=0.462 Sum_probs=40.1
Q ss_pred CcccccccccccccCCeeeEccCCCCcccHHhHHHHHhc-CCCCCCcccccccccc
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDY-DHHKTCPLCRAPLLTY 148 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~-~~~~~CP~CR~~~~~~ 148 (179)
.-.+|.||.|...++.-+.----||-..|..|-...++. .-+..||.|+..+...
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 456999999987665544322248999999988777765 2367799999988763
No 103
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=92.63 E-value=0.055 Score=48.25 Aligned_cols=48 Identities=29% Similarity=0.836 Sum_probs=38.9
Q ss_pred ccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCC-CCCCccccccccc
Q 030350 96 DTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDH-HKTCPLCRAPLLT 147 (179)
Q Consensus 96 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~-~~~CP~CR~~~~~ 147 (179)
.+|+||+..+..+..+ .|.|.|+..|+..-+...+ ...||+|+..+..
T Consensus 22 lEc~ic~~~~~~p~~~----kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK 70 (684)
T KOG4362|consen 22 LECPICLEHVKEPSLL----KCDHIFLKFCLNKLFESKKGPKQCALCKSDIEK 70 (684)
T ss_pred ccCCceeEEeeccchh----hhhHHHHhhhhhceeeccCccccchhhhhhhhh
Confidence 4999999999988444 7999999999888776532 4569999987766
No 104
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.47 E-value=0.033 Score=44.63 Aligned_cols=43 Identities=28% Similarity=0.753 Sum_probs=29.2
Q ss_pred cccccccccccccCCeeeEccCCCCc-ccHHhHHHHHhcCCCCCCccccccccc
Q 030350 95 PDTCAVCLNHMEEDDLVRELRNCCHV-FHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 95 ~~~C~ICl~~~~~~~~~~~l~~C~H~-Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
..-|+||++.-.+-.. | +|||. -|.+|=.+ ...||+||+-+..
T Consensus 300 ~~LC~ICmDaP~DCvf---L-eCGHmVtCt~CGkr------m~eCPICRqyi~r 343 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVF---L-ECGHMVTCTKCGKR------MNECPICRQYIVR 343 (350)
T ss_pred HHHHHHHhcCCcceEE---e-ecCcEEeehhhccc------cccCchHHHHHHH
Confidence 4569999988554433 4 79994 56667311 3469999987654
No 105
>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=92.33 E-value=0.09 Score=43.73 Aligned_cols=31 Identities=29% Similarity=0.827 Sum_probs=23.0
Q ss_pred CCCcccHHhHHHHHhcCC-----------CCCCccccccccc
Q 030350 117 CCHVFHRECIDRWVDYDH-----------HKTCPLCRAPLLT 147 (179)
Q Consensus 117 C~H~Fh~~Ci~~wl~~~~-----------~~~CP~CR~~~~~ 147 (179)
|....|.+|+.+|+...+ +-.||+||+.+.-
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi 352 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI 352 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence 445678899999997632 3459999998743
No 106
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.04 E-value=0.13 Score=42.95 Aligned_cols=50 Identities=20% Similarity=0.434 Sum_probs=38.6
Q ss_pred CcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCC-CCCCcccccc
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDH-HKTCPLCRAP 144 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~-~~~CP~CR~~ 144 (179)
+-..|||=.+.-.+...-.+| .|||+..++.+.+..+++. ...||+|-.+
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L-~CGHVISkdAlnrLS~ng~~sfKCPYCP~e 383 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMML-ICGHVISKDALNRLSKNGSQSFKCPYCPVE 383 (394)
T ss_pred ceeecccchhhccCCCCCeee-eccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence 445799988777766655666 7999999999999998752 2569999543
No 107
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=92.03 E-value=0.096 Score=47.14 Aligned_cols=24 Identities=33% Similarity=0.816 Sum_probs=20.9
Q ss_pred cCCCCcccHHhHHHHHhcCCCCCCcc
Q 030350 115 RNCCHVFHRECIDRWVDYDHHKTCPL 140 (179)
Q Consensus 115 ~~C~H~Fh~~Ci~~wl~~~~~~~CP~ 140 (179)
..|+|+.|..|...|+.. ...||.
T Consensus 1046 g~C~Hv~H~sc~~eWf~~--gd~Cps 1069 (1081)
T KOG0309|consen 1046 GTCGHVGHTSCMMEWFRT--GDVCPS 1069 (1081)
T ss_pred ccccccccHHHHHHHHhc--CCcCCC
Confidence 369999999999999999 568874
No 108
>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=91.67 E-value=0.48 Score=32.67 Aligned_cols=14 Identities=29% Similarity=0.636 Sum_probs=11.6
Q ss_pred CCCCcccccccccc
Q 030350 135 HKTCPLCRAPLLTY 148 (179)
Q Consensus 135 ~~~CP~CR~~~~~~ 148 (179)
...|+.|+++++-+
T Consensus 85 ~D~CM~C~~pLTLd 98 (114)
T PF11023_consen 85 VDACMHCKEPLTLD 98 (114)
T ss_pred hhccCcCCCcCccC
Confidence 56799999999765
No 109
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=91.09 E-value=0.43 Score=33.60 Aligned_cols=30 Identities=27% Similarity=0.478 Sum_probs=16.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 030350 11 ITSQFLYRAAVVIALLRWVLFCIIRFRNRN 40 (179)
Q Consensus 11 ~i~~~i~~~~i~i~v~~~i~~~~~~~~~~~ 40 (179)
++.+++..++.+|+++.+|.|++.|++++.
T Consensus 66 i~~Ii~gv~aGvIg~Illi~y~irR~~Kk~ 95 (122)
T PF01102_consen 66 IIGIIFGVMAGVIGIILLISYCIRRLRKKS 95 (122)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHS---
T ss_pred eeehhHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 455556666666666666666665555553
No 110
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=90.60 E-value=0.22 Score=45.11 Aligned_cols=54 Identities=17% Similarity=0.260 Sum_probs=38.5
Q ss_pred CcccccccccccccCCeeeE---ccCCCCcccHHhHHHHHhc----CCCCCCccccccccc
Q 030350 94 VPDTCAVCLNHMEEDDLVRE---LRNCCHVFHRECIDRWVDY----DHHKTCPLCRAPLLT 147 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~---l~~C~H~Fh~~Ci~~wl~~----~~~~~CP~CR~~~~~ 147 (179)
+..+|.+|.-++..++.-.- +..|+|.||..||..|... .++-.|++|..-+..
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~s 155 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGS 155 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhh
Confidence 45678899888887443222 2249999999999999965 234558999876654
No 111
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=90.58 E-value=0.14 Score=46.82 Aligned_cols=37 Identities=30% Similarity=0.570 Sum_probs=27.7
Q ss_pred CcccccccccccccCCeeeEccCCCCcccHHhHHHHHhc
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDY 132 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~ 132 (179)
.+++|.+|-..+....-. +.+|||.||+.|+.+-...
T Consensus 816 p~d~C~~C~~~ll~~pF~--vf~CgH~FH~~Cl~~~v~~ 852 (911)
T KOG2034|consen 816 PQDSCDHCGRPLLIKPFY--VFPCGHCFHRDCLIRHVLS 852 (911)
T ss_pred CccchHHhcchhhcCcce--eeeccchHHHHHHHHHHHc
Confidence 556999998887654322 2289999999999887743
No 112
>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=90.03 E-value=0.3 Score=28.75 Aligned_cols=45 Identities=18% Similarity=0.527 Sum_probs=20.4
Q ss_pred ccccccccccccCCeeeEccCCCCcccHHhHHHHHhc---CCCCCCcccccc
Q 030350 96 DTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDY---DHHKTCPLCRAP 144 (179)
Q Consensus 96 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~---~~~~~CP~CR~~ 144 (179)
..|+|....+..+.+.. .|.|.-+.+ ++.|+.. ...-.||+|.++
T Consensus 3 L~CPls~~~i~~P~Rg~---~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIPVRGK---NCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSEEEET---T--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeCccCC---cCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 36889888888776655 899973322 3344433 123459999764
No 113
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=89.47 E-value=0.21 Score=40.13 Aligned_cols=32 Identities=22% Similarity=0.529 Sum_probs=24.4
Q ss_pred CCCCcccHHhHHHHHhcC-----------CCCCCccccccccc
Q 030350 116 NCCHVFHRECIDRWVDYD-----------HHKTCPLCRAPLLT 147 (179)
Q Consensus 116 ~C~H~Fh~~Ci~~wl~~~-----------~~~~CP~CR~~~~~ 147 (179)
-|....|.+|+.+|+... ++-+||+||+.+.-
T Consensus 324 ~crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci 366 (381)
T KOG3899|consen 324 ICRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI 366 (381)
T ss_pred ccccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence 366788999999999652 24569999998753
No 114
>PRK02935 hypothetical protein; Provisional
Probab=89.08 E-value=0.64 Score=31.67 Aligned_cols=14 Identities=29% Similarity=0.574 Sum_probs=10.9
Q ss_pred CCCCcccccccccc
Q 030350 135 HKTCPLCRAPLLTY 148 (179)
Q Consensus 135 ~~~CP~CR~~~~~~ 148 (179)
-..|..|+.+++-+
T Consensus 86 vD~CM~C~~PLTLd 99 (110)
T PRK02935 86 VDACMHCNQPLTLD 99 (110)
T ss_pred eeecCcCCCcCCcC
Confidence 55699999988764
No 115
>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 KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=86.92 E-value=0.33 Score=37.28 Aligned_cols=47 Identities=21% Similarity=0.554 Sum_probs=37.1
Q ss_pred cccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccc
Q 030350 95 PDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLL 146 (179)
Q Consensus 95 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~ 146 (179)
-..|.+|......+...- .|+-.+|..|+..++.. ...||.|..-++
T Consensus 181 lk~Cn~Ch~LvIqg~rCg---~c~i~~h~~c~qty~q~--~~~cphc~d~w~ 227 (235)
T KOG4718|consen 181 LKNCNLCHCLVIQGIRCG---SCNIQYHRGCIQTYLQR--RDICPHCGDLWT 227 (235)
T ss_pred HHHHhHhHHHhheeeccC---cccchhhhHHHHHHhcc--cCcCCchhcccC
Confidence 348999998877654333 78889999999999998 888999955443
No 117
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.68 E-value=0.26 Score=41.50 Aligned_cols=37 Identities=22% Similarity=0.734 Sum_probs=27.6
Q ss_pred cccccccccccccC-CeeeEccCCCCcccHHhHHHHHhc
Q 030350 95 PDTCAVCLNHMEED-DLVRELRNCCHVFHRECIDRWVDY 132 (179)
Q Consensus 95 ~~~C~ICl~~~~~~-~~~~~l~~C~H~Fh~~Ci~~wl~~ 132 (179)
..+|.||..+.... .... ...|+|.||..|+.+.+..
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 55899999554444 3333 3389999999999998874
No 118
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.00 E-value=0.52 Score=36.30 Aligned_cols=40 Identities=30% Similarity=0.733 Sum_probs=26.6
Q ss_pred ccccccccccCCeeeEccCCCC-cccHHhHHHHHhcCCCCCCccccccccc
Q 030350 98 CAVCLNHMEEDDLVRELRNCCH-VFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 98 C~ICl~~~~~~~~~~~l~~C~H-~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
|-.|-+. +..+..+ ||.| .+|..|=.. -..||+|+.....
T Consensus 161 Cr~C~~~---~~~Vlll-PCrHl~lC~~C~~~------~~~CPiC~~~~~s 201 (207)
T KOG1100|consen 161 CRKCGER---EATVLLL-PCRHLCLCGICDES------LRICPICRSPKTS 201 (207)
T ss_pred ceecCcC---CceEEee-cccceEeccccccc------CccCCCCcChhhc
Confidence 7777665 3444444 9997 677778432 3459999886654
No 119
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=84.52 E-value=0.69 Score=39.37 Aligned_cols=36 Identities=19% Similarity=0.364 Sum_probs=30.2
Q ss_pred CCcccccccccccccCCeeeEccCCCCcccHHhHHHHHhc
Q 030350 93 WVPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDY 132 (179)
Q Consensus 93 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~ 132 (179)
+++..|+||...|+++..+ +|+|..|..|...-+..
T Consensus 2 eeelkc~vc~~f~~epiil----~c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREPIIL----PCSHNLCQACARNILVQ 37 (699)
T ss_pred cccccCceehhhccCceEe----ecccHHHHHHHHhhccc
Confidence 3566899999999998766 79999999998776654
No 120
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=84.09 E-value=1.4 Score=30.56 Aligned_cols=65 Identities=18% Similarity=0.245 Sum_probs=40.5
Q ss_pred HhhccccccccccccCCCCcccccccccccccCC----------eeeEccCCCCcccHHhHHHHHhcCCCCCCcccc
Q 030350 76 KERLVLASFGDIKVRMPWVPDTCAVCLNHMEEDD----------LVRELRNCCHVFHRECIDRWVDYDHHKTCPLCR 142 (179)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~----------~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR 142 (179)
-...|...|.+...........|.-|+..|..+. ..-..+.|++.|+.+|=.-+-.. -..||-|.
T Consensus 36 HHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~--Lh~CPGC~ 110 (112)
T TIGR00622 36 HHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHES--LHCCPGCI 110 (112)
T ss_pred hccCCCcccccccccccCCCCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhh--ccCCcCCC
Confidence 3355666666554333333457999999887531 12235589999999995444333 45699985
No 121
>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=83.18 E-value=1.8 Score=25.59 Aligned_cols=43 Identities=19% Similarity=0.438 Sum_probs=22.0
Q ss_pred ccccccccccCC------eeeEccCCCCcccHHhHHHHHhcCCCCCCcccc
Q 030350 98 CAVCLNHMEEDD------LVRELRNCCHVFHRECIDRWVDYDHHKTCPLCR 142 (179)
Q Consensus 98 C~ICl~~~~~~~------~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR 142 (179)
|.-|+..|..+. ..-..+.|++.|+.+| .-+....-..||-|.
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dC--D~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDC--DVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHH--HHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCc--ChhhhccccCCcCCC
Confidence 555666766642 3445668999999999 344333244599883
No 122
>PF12606 RELT: Tumour necrosis factor receptor superfamily member 19; InterPro: IPR022248 The members of tumor necrosis factor receptor (TNFR) superfamily have been designated as the "guardians of the immune system" due to their roles in immune cell proliferation, differentiation, activation, and death (apoptosis). RELT (receptor expressed in lymphoid tissues) is a member of the TNFR superfamily. The messenger RNA of RELT is especially abundant in hematologic tissues such as spleen, lymph node, and peripheral blood leukocytes as well as in leukemias and lymphomas. RELT is able to activate the NF-kappaB pathway and selectively binds tumor necrosis factor receptor-associated factor 1 []. RELT like proteins 1 and 2 (RELL1 and RELL2) are two RELT homologues that bind to RELT. The expression of RELL1 at the mRNA level is ubiquitous, whereas expression of RELL2 mRNA is more restricted to particular tissues [].
Probab=83.08 E-value=2 Score=25.34 Aligned_cols=33 Identities=9% Similarity=0.123 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCC
Q 030350 13 SQFLYRAAVVIALLRWVLFCIIRFRNRNSYSPS 45 (179)
Q Consensus 13 ~~~i~~~~i~i~v~~~i~~~~~~~~~~~~~~~~ 45 (179)
.++++.++++++++.+.++-..+..+.+...+.
T Consensus 3 ~~~iV~i~iv~~lLg~~I~~~~K~ygYkht~d~ 35 (50)
T PF12606_consen 3 AFLIVSIFIVMGLLGLSICTTLKAYGYKHTVDP 35 (50)
T ss_pred ehHHHHHHHHHHHHHHHHHHHhhccccccccCC
Confidence 345566666666666667777777777764433
No 123
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=81.06 E-value=2.5 Score=26.81 Aligned_cols=44 Identities=25% Similarity=0.705 Sum_probs=29.4
Q ss_pred ccccccccccCCeeeEccCCC--CcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 98 CAVCLNHMEEDDLVRELRNCC--HVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 98 C~ICl~~~~~~~~~~~l~~C~--H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
|--|-.++..+..-.++ |. |.||..|.+.-| +..||.|-.++..
T Consensus 8 CECCDrDLpp~s~dA~I--CtfEcTFCadCae~~l----~g~CPnCGGelv~ 53 (84)
T COG3813 8 CECCDRDLPPDSTDARI--CTFECTFCADCAENRL----HGLCPNCGGELVA 53 (84)
T ss_pred CcccCCCCCCCCCceeE--EEEeeehhHhHHHHhh----cCcCCCCCchhhc
Confidence 44455555443322222 64 899999998776 4589999988877
No 124
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=80.81 E-value=1 Score=24.62 Aligned_cols=26 Identities=31% Similarity=0.575 Sum_probs=16.4
Q ss_pred cccccccccccCCe-------eeEccCCCCccc
Q 030350 97 TCAVCLNHMEEDDL-------VRELRNCCHVFH 122 (179)
Q Consensus 97 ~C~ICl~~~~~~~~-------~~~l~~C~H~Fh 122 (179)
+|+-|...|..++. ....+.|+|.|.
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 68888888766543 223456777764
No 125
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=80.01 E-value=1.4 Score=39.93 Aligned_cols=41 Identities=20% Similarity=0.341 Sum_probs=30.2
Q ss_pred ccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcc
Q 030350 96 DTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPL 140 (179)
Q Consensus 96 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~ 140 (179)
..|.+|-..... .....+.|+|.-|..|+.+|+.. +..||.
T Consensus 780 ~~CtVC~~vi~G--~~~~c~~C~H~gH~sh~~sw~~~--~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIRG--VDVWCQVCGHGGHDSHLKSWFFK--ASPCAK 820 (839)
T ss_pred cCceeecceeee--eEeecccccccccHHHHHHHHhc--CCCCcc
Confidence 368888665443 22234489999999999999998 667776
No 126
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=79.42 E-value=2.8 Score=34.44 Aligned_cols=69 Identities=19% Similarity=0.317 Sum_probs=45.6
Q ss_pred hHHHHhhccccccccccccCCCCcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccc
Q 030350 72 SQMIKERLVLASFGDIKVRMPWVPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRA 143 (179)
Q Consensus 72 ~~~~~~~~~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~ 143 (179)
.......+|...|.+...........|-.|.++.......+ ...|++.||.+|= -+..+.-..||.|..
T Consensus 307 ARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y~-C~~Ck~~FCldCD--v~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 307 ARSYHHLFPLKPFVEIPETEYNGSRFCFACQGELLSSGRYR-CESCKNVFCLDCD--VFIHESLHNCPGCEH 375 (378)
T ss_pred HHHHHhhcCCcchhhccccccCCCcceeeeccccCCCCcEE-chhccceeeccch--HHHHhhhhcCCCcCC
Confidence 34455567788888776555445556999987777665554 3379999999993 222211345999963
No 127
>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=78.78 E-value=1.3 Score=27.58 Aligned_cols=13 Identities=31% Similarity=0.912 Sum_probs=9.4
Q ss_pred cccHHhHHHHHhc
Q 030350 120 VFHRECIDRWVDY 132 (179)
Q Consensus 120 ~Fh~~Ci~~wl~~ 132 (179)
.||+.|+.+|+..
T Consensus 11 gFCRNCLskWy~~ 23 (68)
T PF06844_consen 11 GFCRNCLSKWYRE 23 (68)
T ss_dssp S--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 3999999999965
No 128
>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=78.09 E-value=1.3 Score=25.67 Aligned_cols=45 Identities=24% Similarity=0.555 Sum_probs=28.6
Q ss_pred cccccccccccCCeeeEccCCCCcccHHhHHHHHhc----CCCCCCcccc
Q 030350 97 TCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDY----DHHKTCPLCR 142 (179)
Q Consensus 97 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~----~~~~~CP~CR 142 (179)
.|.||...... ..+.....|+..||..|+..-... ...-.||.|+
T Consensus 1 ~C~vC~~~~~~-~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDD-GDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTT-SSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCC-CCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 37888884444 344445589999999998655432 1134577775
No 129
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=77.98 E-value=1.7 Score=35.47 Aligned_cols=48 Identities=21% Similarity=0.387 Sum_probs=35.4
Q ss_pred CcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCC-CCCCcccc
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDH-HKTCPLCR 142 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~-~~~CP~CR 142 (179)
.-..||+=-+.-.+...-.++ .|||+.-.+.+++..++|. ...||+|-
T Consensus 335 s~FiCPVlKe~~t~ENpP~ml-~CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 335 SLFICPVLKELCTDENPPVML-ECGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred ceeeccccHhhhcccCCCeee-eccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 445788876666555555555 7999999999999988753 34599993
No 130
>PF01034 Syndecan: Syndecan domain; InterPro: IPR001050 The syndecans are transmembrane proteoglycans which are involved in the organisation of cytoskeleton and/or actin microfilaments, and have important roles as cell surface receptors during cell-cell and/or cell-matrix interactions [, ]. Structurally, these proteins consist of four separate domains: A signal sequence; An extracellular domain (ectodomain) of variable length whose sequence is not evolutionary conserved in the various forms of syndecans. The ectodomain contains the sites of attachment of the heparan sulphate glycosaminoglycan side chains; A transmembrane region; A highly conserved cytoplasmic domain of about 30 to 35 residues, which could interact with cytoskeletal proteins. The proteins known to belong to this family are: Syndecan 1. Syndecan 2 or fibroglycan. Syndecan 3 or neuroglycan or N-syndecan. Syndecan 4 or amphiglycan or ryudocan. Drosophila syndecan. Caenorhabditis elegans probable syndecan (F57C7.3). Syndecan-4, a transmembrane heparan sulphate proteoglycan, is a coreceptor with integrins in cell adhesion. It has been suggested to form a ternary signalling complex with protein kinase Calpha and phosphatidylinositol 4,5-bisphosphate (PIP2). Structural studies have demonstrated that the cytoplasmic domain undergoes a conformational transition and forms a symmetric dimer in the presence of phospholipid activator PIP2, and whose overall structure in solution exhibits a twisted clamp shape having a cavity in the centre of dimeric interface. In addition, it has been observed that the syndecan-4 variable domain interacts, strongly, not only with fatty acyl groups but also the anionic head group of PIP2. These findings indicate that PIP2 promotes oligomerisation of the syndecan-4 cytoplasmic domain for transmembrane signalling and cell-matrix adhesion [, ].; GO: 0008092 cytoskeletal protein binding, 0016020 membrane; PDB: 1EJQ_B 1EJP_B 1YBO_C 1OBY_Q.
Probab=77.97 E-value=0.66 Score=28.73 Aligned_cols=34 Identities=15% Similarity=0.301 Sum_probs=0.7
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 030350 8 PTLITSQFLYRAAVVIALLRWVLFCIIRFRNRNS 41 (179)
Q Consensus 8 ~~~~i~~~i~~~~i~i~v~~~i~~~~~~~~~~~~ 41 (179)
++++...+...++.++..+.+|++++.|+++++.
T Consensus 8 ~~vlaavIaG~Vvgll~ailLIlf~iyR~rkkdE 41 (64)
T PF01034_consen 8 SEVLAAVIAGGVVGLLFAILLILFLIYRMRKKDE 41 (64)
T ss_dssp -----------------------------S----
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 3455556666666666666667777777776654
No 131
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=77.68 E-value=2.7 Score=33.27 Aligned_cols=50 Identities=22% Similarity=0.331 Sum_probs=39.3
Q ss_pred CcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
....|+|---+|........+-+|||+|-...+.+.- ...|++|.+.+..
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik----as~C~~C~a~y~~ 159 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK----ASVCHVCGAAYQE 159 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHhh----hccccccCCcccc
Confidence 4567999888887777666666999999999887663 4579999988765
No 132
>PF15050 SCIMP: SCIMP protein
Probab=77.12 E-value=5.1 Score=28.03 Aligned_cols=41 Identities=20% Similarity=0.395 Sum_probs=18.2
Q ss_pred CCccCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCC
Q 030350 1 MGFFEDDPTLITSQFLYRAAVVIALLRWVLFCIIRFRNRNSYSP 44 (179)
Q Consensus 1 ~gf~~~~~~~~i~~~i~~~~i~i~v~~~i~~~~~~~~~~~~~~~ 44 (179)
|..+.+++.+++...|+.+ -.++.+|++++.|+..|.+..+
T Consensus 1 M~WWr~nFWiiLAVaII~v---S~~lglIlyCvcR~~lRqGkkw 41 (133)
T PF15050_consen 1 MSWWRDNFWIILAVAIILV---SVVLGLILYCVCRWQLRQGKKW 41 (133)
T ss_pred CchHHhchHHHHHHHHHHH---HHHHHHHHHHHHHHHHHccccc
Confidence 3444444444443332222 2333445666666555554333
No 133
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=75.90 E-value=1.6 Score=33.43 Aligned_cols=41 Identities=29% Similarity=0.741 Sum_probs=28.3
Q ss_pred cccccccccc-----cccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccc
Q 030350 95 PDTCAVCLNH-----MEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRA 143 (179)
Q Consensus 95 ~~~C~ICl~~-----~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~ 143 (179)
...|.+|-+. |+. +.+...+.|+-+||..|+. ...||-|.+
T Consensus 152 GfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~-------~~~CpkC~R 197 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFR-------KKSCPKCAR 197 (202)
T ss_pred CCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcC-------CCCCCCcHh
Confidence 4578888753 222 2556667999999999974 245999944
No 134
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=75.68 E-value=1.9 Score=34.38 Aligned_cols=51 Identities=24% Similarity=0.453 Sum_probs=35.5
Q ss_pred cccccccccccccCCeeeE---ccCCCCcccHHhHHHHHhcCC-------CCCCccccccc
Q 030350 95 PDTCAVCLNHMEEDDLVRE---LRNCCHVFHRECIDRWVDYDH-------HKTCPLCRAPL 145 (179)
Q Consensus 95 ~~~C~ICl~~~~~~~~~~~---l~~C~H~Fh~~Ci~~wl~~~~-------~~~CP~CR~~~ 145 (179)
..+|-+|-.++.+.+..+. .+.|+-.+|..|+..-+.... ...||.|++-+
T Consensus 182 ~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 182 NVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred chhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 3689999999955554433 246888999999999554321 23499998843
No 135
>PF05393 Hum_adeno_E3A: Human adenovirus early E3A glycoprotein; InterPro: IPR008652 This family consists of several early glycoproteins (E3A), from human adenovirus type 2.; GO: 0016021 integral to membrane
Probab=75.60 E-value=8.6 Score=25.37 Aligned_cols=32 Identities=22% Similarity=0.451 Sum_probs=16.3
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 030350 8 PTLITSQFLYRAAVVIALLRWVLFCIIRFRNR 39 (179)
Q Consensus 8 ~~~~i~~~i~~~~i~i~v~~~i~~~~~~~~~~ 39 (179)
.++-+.++++..+.++.++.++++|..|.+.|
T Consensus 31 ~~Lgm~~lvI~~iFil~VilwfvCC~kRkrsR 62 (94)
T PF05393_consen 31 PNLGMWFLVICGIFILLVILWFVCCKKRKRSR 62 (94)
T ss_pred CccchhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 34445555554444455555555666555544
No 136
>PF15102 TMEM154: TMEM154 protein family
Probab=74.95 E-value=0.71 Score=33.44 Aligned_cols=8 Identities=25% Similarity=0.970 Sum_probs=4.1
Q ss_pred hHHHHHhc
Q 030350 125 CIDRWVDY 132 (179)
Q Consensus 125 Ci~~wl~~ 132 (179)
=+++|...
T Consensus 129 eldkwm~s 136 (146)
T PF15102_consen 129 ELDKWMNS 136 (146)
T ss_pred HHHhHHHh
Confidence 45555544
No 137
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.41 E-value=1.3 Score=35.84 Aligned_cols=54 Identities=22% Similarity=0.514 Sum_probs=44.5
Q ss_pred CcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccccccccc
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLTYLQSK 152 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~~~~~ 152 (179)
....|-||...+..+.... .|.|.|+..|...|... ...||-|+......+.+.
T Consensus 104 ~~~~~~~~~g~l~vpt~~q---g~w~qf~~~~p~~~~~~--~~~~~d~~~~~~pv~aG~ 157 (324)
T KOG0824|consen 104 DHDICYICYGKLTVPTRIQ---GCWHQFCYVCPKSNFAM--GNDCPDCRGKISPVLAGM 157 (324)
T ss_pred CccceeeeeeeEEeccccc---CceeeeeecCCchhhhh--hhccchhhcCcCceeccC
Confidence 4568999999998887765 79999999999999988 678999998776655444
No 138
>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=74.41 E-value=4 Score=24.55 Aligned_cols=45 Identities=22% Similarity=0.655 Sum_probs=32.4
Q ss_pred cccccccccccCCeeeEccCCC--CcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 97 TCAVCLNHMEEDDLVRELRNCC--HVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 97 ~C~ICl~~~~~~~~~~~l~~C~--H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
.|-.|-.++..+..-..+ |. ..||..|.+..+. ..||.|-.++..
T Consensus 7 nCE~C~~dLp~~s~~A~I--CSfECTFC~~C~e~~l~----~~CPNCgGelv~ 53 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYI--CSFECTFCADCAETMLN----GVCPNCGGELVR 53 (57)
T ss_pred CccccCCCCCCCCCcceE--EeEeCcccHHHHHHHhc----CcCcCCCCcccc
Confidence 566677776665522222 65 5899999999884 479999888876
No 139
>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=74.08 E-value=1.6 Score=21.98 Aligned_cols=23 Identities=26% Similarity=0.417 Sum_probs=12.7
Q ss_pred cccccccccccCCeeeEccCCCCcc
Q 030350 97 TCAVCLNHMEEDDLVRELRNCCHVF 121 (179)
Q Consensus 97 ~C~ICl~~~~~~~~~~~l~~C~H~F 121 (179)
.|+-|-........ ..+.|||.|
T Consensus 2 ~CP~C~~~V~~~~~--~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPESAK--FCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhhcC--cCCCCCCCC
Confidence 46667666544332 233477766
No 140
>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=73.36 E-value=2.1 Score=25.26 Aligned_cols=38 Identities=29% Similarity=0.670 Sum_probs=26.3
Q ss_pred ccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 98 CAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 98 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
|+-|-..+...+.+.. .-+..||..|+ .|-.|+.++..
T Consensus 1 C~~C~~~I~~~~~~~~--~~~~~~H~~Cf----------~C~~C~~~l~~ 38 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIK--AMGKFWHPECF----------KCSKCGKPLND 38 (58)
T ss_dssp BTTTSSBESSSSEEEE--ETTEEEETTTS----------BETTTTCBTTT
T ss_pred CCCCCCCccCcEEEEE--eCCcEEEcccc----------ccCCCCCccCC
Confidence 6667777776555422 26778888774 68888888765
No 141
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=73.20 E-value=2.7 Score=22.84 Aligned_cols=26 Identities=38% Similarity=0.657 Sum_probs=16.3
Q ss_pred cccccccccccCCee-------eEccCCCCccc
Q 030350 97 TCAVCLNHMEEDDLV-------RELRNCCHVFH 122 (179)
Q Consensus 97 ~C~ICl~~~~~~~~~-------~~l~~C~H~Fh 122 (179)
+|+=|...|..++.. ...+.|+|.|+
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 688888888765531 22346777664
No 142
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.12 E-value=1.9 Score=38.06 Aligned_cols=45 Identities=29% Similarity=0.828 Sum_probs=35.2
Q ss_pred CcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccccc
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLTY 148 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~ 148 (179)
..+.|++|+.++ ...+ ++|. |..|+..|+.. +..||+|+..+..+
T Consensus 478 ~~~~~~~~~~~~--~~~~---~~~~---~~~~l~~~~~~--~~~~pl~~~~~~~~ 522 (543)
T KOG0802|consen 478 PNDVCAICYQEM--SARI---TPCS---HALCLRKWLYV--QEVCPLCHTYMKED 522 (543)
T ss_pred ccCcchHHHHHH--Hhcc---cccc---chhHHHhhhhh--ccccCCCchhhhcc
Confidence 456899999998 2222 2677 89999999998 88999998877654
No 143
>PF02439 Adeno_E3_CR2: Adenovirus E3 region protein CR2; InterPro: IPR003470 Early region 3 (E3) of human adenoviruses (Ads) codes for proteins that appear to control viral interactions with the host []. This region called CR1 (conserved region 1) [] is found three times in Human adenovirus 19 (a subgroup D adenovirus) 49 kDa protein in the E3 region. CR1 is also found in the 20.1 Kd protein of subgroup B adenoviruses. The function of this 80 amino acid region is unknown. This region is probably a divergent immunoglobulin domain.
Probab=73.09 E-value=13 Score=20.44 Aligned_cols=11 Identities=0% Similarity=0.404 Sum_probs=4.7
Q ss_pred HHHHHHHHhcC
Q 030350 29 VLFCIIRFRNR 39 (179)
Q Consensus 29 i~~~~~~~~~~ 39 (179)
+++++..+++.
T Consensus 23 ~~~YaCcykk~ 33 (38)
T PF02439_consen 23 MFYYACCYKKH 33 (38)
T ss_pred HHHHHHHHccc
Confidence 44444444433
No 144
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.87 E-value=2.3 Score=36.54 Aligned_cols=37 Identities=19% Similarity=0.476 Sum_probs=29.8
Q ss_pred CCcccccccccccccCCeeeEccCCCCcccHHhHHHHHhc
Q 030350 93 WVPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDY 132 (179)
Q Consensus 93 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~ 132 (179)
....+|-||.+.+.. .+..+ .|+|.|+..|+...+.+
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~-~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGL-GCGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcc--hhhhc-CCCcHHHHHHHHHHhhh
Confidence 355699999999876 33334 79999999999999876
No 145
>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=71.83 E-value=1.8 Score=26.88 Aligned_cols=37 Identities=19% Similarity=0.409 Sum_probs=19.5
Q ss_pred CcccccccccccccCCeeeEccCCCCcccHHhHHHHH
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWV 130 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl 130 (179)
+...|.+|...|.--..-.....||++|+..|.....
T Consensus 8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp G-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 3458999999996654444455799999999976544
No 146
>PF15202 Adipogenin: Adipogenin
Probab=71.70 E-value=22 Score=22.28 Aligned_cols=33 Identities=21% Similarity=0.362 Sum_probs=21.0
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 030350 9 TLITSQFLYRAAVVIALLRWVLFCIIRFRNRNS 41 (179)
Q Consensus 9 ~~~i~~~i~~~~i~i~v~~~i~~~~~~~~~~~~ 41 (179)
.+.+.++++.+.+-++++.++++..+|+.-..+
T Consensus 11 dltfsflvfwlclpv~lllfl~ivwlrfllsqd 43 (81)
T PF15202_consen 11 DLTFSFLVFWLCLPVGLLLFLLIVWLRFLLSQD 43 (81)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
Confidence 355666777766666766666666666665444
No 147
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=71.45 E-value=1.2 Score=39.34 Aligned_cols=43 Identities=30% Similarity=0.746 Sum_probs=27.0
Q ss_pred cccccccccc-----cccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccc
Q 030350 95 PDTCAVCLNH-----MEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRA 143 (179)
Q Consensus 95 ~~~C~ICl~~-----~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~ 143 (179)
...|.+|-.. |+ .+.++....|+++||..|+..- ...||-|-+
T Consensus 511 gfiCe~Cq~~~iiyPF~-~~~~~rC~~C~avfH~~C~~r~-----s~~CPrC~R 558 (580)
T KOG1829|consen 511 GFICELCQHNDIIYPFE-TRNTRRCSTCLAVFHKKCLRRK-----SPCCPRCER 558 (580)
T ss_pred eeeeeeccCCCcccccc-cccceeHHHHHHHHHHHHHhcc-----CCCCCchHH
Confidence 3467777321 22 2344555589999999996432 445999944
No 148
>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=71.14 E-value=3.5 Score=21.78 Aligned_cols=36 Identities=36% Similarity=0.782 Sum_probs=23.0
Q ss_pred ccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccc
Q 030350 98 CAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPL 145 (179)
Q Consensus 98 C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~ 145 (179)
|..|-..+...+.... .=+..||..|+ .|..|+.++
T Consensus 2 C~~C~~~i~~~~~~~~--~~~~~~H~~Cf----------~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGELVLR--ALGKVWHPECF----------KCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcEEEE--eCCccccccCC----------CCcccCCcC
Confidence 6777777766523221 24678888874 588887665
No 149
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=70.66 E-value=1.7 Score=37.78 Aligned_cols=31 Identities=23% Similarity=0.522 Sum_probs=19.9
Q ss_pred ccccccccccccCCeeeEccCCCCcccHHhH
Q 030350 96 DTCAVCLNHMEEDDLVRELRNCCHVFHRECI 126 (179)
Q Consensus 96 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci 126 (179)
..|-.|...|..-..-..+..||-+||..|-
T Consensus 902 ~~cmacq~pf~afrrrhhcrncggifcg~cs 932 (990)
T KOG1819|consen 902 EQCMACQMPFNAFRRRHHCRNCGGIFCGKCS 932 (990)
T ss_pred hhhhhccCcHHHHHHhhhhcccCceeecccc
Confidence 3577777776543222223389999999984
No 150
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=69.39 E-value=19 Score=23.11 Aligned_cols=11 Identities=18% Similarity=0.588 Sum_probs=4.9
Q ss_pred HHHHHHhcCCC
Q 030350 31 FCIIRFRNRNS 41 (179)
Q Consensus 31 ~~~~~~~~~~~ 41 (179)
..++.|+.+++
T Consensus 21 WL~lHY~sk~~ 31 (75)
T PF06667_consen 21 WLILHYRSKWK 31 (75)
T ss_pred HHHHHHHHhcc
Confidence 33444554443
No 151
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=69.03 E-value=18 Score=23.15 Aligned_cols=15 Identities=20% Similarity=0.549 Sum_probs=7.4
Q ss_pred HHHHHHHHhcCCCCC
Q 030350 29 VLFCIIRFRNRNSYS 43 (179)
Q Consensus 29 i~~~~~~~~~~~~~~ 43 (179)
.+..+++|+.+++.+
T Consensus 19 p~wl~lHY~~k~~~~ 33 (75)
T TIGR02976 19 PLWLILHYRSKRKTA 33 (75)
T ss_pred HHHHHHHHHhhhccC
Confidence 344455565554433
No 152
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=68.62 E-value=4.7 Score=33.04 Aligned_cols=54 Identities=20% Similarity=0.505 Sum_probs=35.0
Q ss_pred Cccccccccccccc---------------CCeeeEccCCCCcccHHhHHHHHhcC-------CCCCCccccccccc
Q 030350 94 VPDTCAVCLNHMEE---------------DDLVRELRNCCHVFHRECIDRWVDYD-------HHKTCPLCRAPLLT 147 (179)
Q Consensus 94 ~~~~C~ICl~~~~~---------------~~~~~~l~~C~H~Fh~~Ci~~wl~~~-------~~~~CP~CR~~~~~ 147 (179)
.+.+|++|+..=.. +.......||||.--.+-..-|.+.. -+..||.|-..+..
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~g 415 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG 415 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence 35689999965211 11222345999988888888887542 14559999776543
No 153
>PLN02436 cellulose synthase A
Probab=68.40 E-value=5.2 Score=37.98 Aligned_cols=51 Identities=18% Similarity=0.521 Sum_probs=37.4
Q ss_pred ccccccccccc---ccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccc
Q 030350 95 PDTCAVCLNHM---EEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLL 146 (179)
Q Consensus 95 ~~~C~ICl~~~---~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~ 146 (179)
...|.||-++. .+++.-..+..|+--.|+.|.+-=-+ ..+..||.|+....
T Consensus 36 ~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~-eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 36 GQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERR-EGNQACPQCKTRYK 89 (1094)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhh-cCCccCcccCCchh
Confidence 34899999985 44555555557887899999944433 34788999999876
No 154
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=68.32 E-value=2.5 Score=38.07 Aligned_cols=64 Identities=22% Similarity=0.400 Sum_probs=39.9
Q ss_pred cccccccccccccC-CeeeE-----ccCCCCcccHHhHHHHHh--------cCCCCCCcccccccccccccccCCCCC
Q 030350 95 PDTCAVCLNHMEED-DLVRE-----LRNCCHVFHRECIDRWVD--------YDHHKTCPLCRAPLLTYLQSKSLNNWP 158 (179)
Q Consensus 95 ~~~C~ICl~~~~~~-~~~~~-----l~~C~H~Fh~~Ci~~wl~--------~~~~~~CP~CR~~~~~~~~~~~~~~~~ 158 (179)
..+|.||-|+=.+. ...-. -..|+..||..|-...-. .+.-+.|-+|+..+.....+......+
T Consensus 117 nKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~HfsKlkk~~~~k~ip 194 (900)
T KOG0956|consen 117 NKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYHFSKLKKSPAIKVIP 194 (900)
T ss_pred cceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceeccccccccceechhHHHHHHHhhcCCCcccCC
Confidence 45899999883332 22111 126788999999754321 011345999999888877666555554
No 155
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=68.15 E-value=8.9 Score=24.73 Aligned_cols=52 Identities=15% Similarity=0.484 Sum_probs=22.4
Q ss_pred cccccccccccc---cCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 95 PDTCAVCLNHME---EDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 95 ~~~C~ICl~~~~---~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
...|.||-++.- +++.......|+--.|+.|.+-=.+.+ +..||.|+.+...
T Consensus 9 ~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg-~q~CpqCkt~ykr 63 (80)
T PF14569_consen 9 GQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEG-NQVCPQCKTRYKR 63 (80)
T ss_dssp S-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS--SB-TTT--B---
T ss_pred CcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcC-cccccccCCCccc
Confidence 348999988763 344444444788888999987666654 7789999987765
No 156
>PLN02189 cellulose synthase
Probab=68.14 E-value=5.9 Score=37.54 Aligned_cols=52 Identities=19% Similarity=0.529 Sum_probs=37.3
Q ss_pred cccccccccccc---cCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 95 PDTCAVCLNHME---EDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 95 ~~~C~ICl~~~~---~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
...|.||-++.. +++.-..+..|+--.|+.|.+-=-+ ..+..||.|+.....
T Consensus 34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~-eg~q~CpqCkt~Y~r 88 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERR-EGTQNCPQCKTRYKR 88 (1040)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhh-cCCccCcccCCchhh
Confidence 348999999864 3444454556887899999944433 347889999998763
No 157
>PF05545 FixQ: Cbb3-type cytochrome oxidase component FixQ; InterPro: IPR008621 This family consists of several Cbb3-type cytochrome oxidase components (FixQ/CcoQ). FixQ is found in nitrogen fixing bacteria. Since nitrogen fixation is an energy-consuming process, effective symbioses depend on operation of a respiratory chain with a high affinity for O2, closely coupled to ATP production. This requirement is fulfilled by a special three-subunit terminal oxidase (cytochrome terminal oxidase cbb3), which was first identified in Bradyrhizobium japonicum as the product of the fixNOQP operon [].
Probab=67.08 E-value=7.6 Score=22.45 Aligned_cols=25 Identities=12% Similarity=0.186 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCC
Q 030350 16 LYRAAVVIALLRWVLFCIIRFRNRN 40 (179)
Q Consensus 16 i~~~~i~i~v~~~i~~~~~~~~~~~ 40 (179)
++.++++++++..++.|+.+.++++
T Consensus 12 ~~~~v~~~~~F~gi~~w~~~~~~k~ 36 (49)
T PF05545_consen 12 SIGTVLFFVFFIGIVIWAYRPRNKK 36 (49)
T ss_pred HHHHHHHHHHHHHHHHHHHcccchh
Confidence 4445555566666777776555443
No 158
>PF15069 FAM163: FAM163 family
Probab=67.00 E-value=8.2 Score=27.85 Aligned_cols=28 Identities=7% Similarity=0.471 Sum_probs=20.1
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030350 9 TLITSQFLYRAAVVIALLRWVLFCIIRF 36 (179)
Q Consensus 9 ~~~i~~~i~~~~i~i~v~~~i~~~~~~~ 36 (179)
.++|.--||+++|++.++..+.++-+++
T Consensus 5 TvVItGgILAtVILLcIIaVLCYCRLQY 32 (143)
T PF15069_consen 5 TVVITGGILATVILLCIIAVLCYCRLQY 32 (143)
T ss_pred eEEEechHHHHHHHHHHHHHHHHHhhHH
Confidence 3556667788888888777777666665
No 159
>PF06024 DUF912: Nucleopolyhedrovirus protein of unknown function (DUF912); InterPro: IPR009261 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf78; it is a family of uncharacterised viral proteins.
Probab=66.76 E-value=2.2 Score=28.95 Aligned_cols=30 Identities=17% Similarity=0.223 Sum_probs=13.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 030350 10 LITSQFLYRAAVVIALLRWVLFCIIRFRNRN 40 (179)
Q Consensus 10 ~~i~~~i~~~~i~i~v~~~i~~~~~~~~~~~ 40 (179)
.++...++++++++++++.|. +++..|.++
T Consensus 62 ~iili~lls~v~IlVily~Iy-YFVILRer~ 91 (101)
T PF06024_consen 62 NIILISLLSFVCILVILYAIY-YFVILRERQ 91 (101)
T ss_pred cchHHHHHHHHHHHHHHhhhe-EEEEEeccc
Confidence 344444444444444444443 333344443
No 160
>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=66.25 E-value=4.8 Score=23.74 Aligned_cols=36 Identities=19% Similarity=0.461 Sum_probs=25.9
Q ss_pred ccccccccccccCCeeeEccCCCCcccHHhHHHHHh
Q 030350 96 DTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVD 131 (179)
Q Consensus 96 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~ 131 (179)
..|.+|-..|.....-.....||++|+..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 378899888776544344447999999999865554
No 161
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=64.58 E-value=5.5 Score=32.74 Aligned_cols=52 Identities=25% Similarity=0.481 Sum_probs=36.6
Q ss_pred CcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
....|+||-+.....+....=.+|++..|..|+..-... +..||.||.+...
T Consensus 248 v~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~--~~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 248 VPPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDG--DGRCPGCRKPYER 299 (327)
T ss_pred cCCCCCCCCCcccccccccccccccccchhhhhhccccc--CCCCCccCCcccc
Confidence 346899999987443332221267888888888777776 8899999966544
No 162
>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 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=63.08 E-value=2.7 Score=24.83 Aligned_cols=38 Identities=26% Similarity=0.608 Sum_probs=20.8
Q ss_pred ccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccc
Q 030350 96 DTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAP 144 (179)
Q Consensus 96 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~ 144 (179)
..||.|-+.+.... + +.| |.+.=....+...||+|...
T Consensus 3 f~CP~C~~~~~~~~-L-----~~H-----~~~~H~~~~~~v~CPiC~~~ 40 (54)
T PF05605_consen 3 FTCPYCGKGFSESS-L-----VEH-----CEDEHRSESKNVVCPICSSR 40 (54)
T ss_pred cCCCCCCCccCHHH-H-----HHH-----HHhHCcCCCCCccCCCchhh
Confidence 47999988655432 2 333 22222222224669999764
No 164
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.26 E-value=4.7 Score=34.07 Aligned_cols=44 Identities=23% Similarity=0.443 Sum_probs=29.7
Q ss_pred cccccccccccccCC--eeeEccCCCCcccHHhHHHHHhcCCCCCCccc
Q 030350 95 PDTCAVCLNHMEEDD--LVRELRNCCHVFHRECIDRWVDYDHHKTCPLC 141 (179)
Q Consensus 95 ~~~C~ICl~~~~~~~--~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~C 141 (179)
...|+.|.-.++... ..... .|||.|+..|...|... +..|..|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~C-rC~~~fcy~C~~~~~~~--~~~~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTC-RCGHQFCYMCGGDWKTH--NGECYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEe-eccccchhhcCcchhhC--CccccCc
Confidence 347888877654432 22334 49999999999999886 4555443
No 165
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=61.17 E-value=3 Score=38.08 Aligned_cols=44 Identities=25% Similarity=0.567 Sum_probs=30.8
Q ss_pred CcccccccccccccC----CeeeEccCCCCcccHHhHHHHHhcCCCCCCccc
Q 030350 94 VPDTCAVCLNHMEED----DLVRELRNCCHVFHRECIDRWVDYDHHKTCPLC 141 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~----~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~C 141 (179)
.+..|.-|++..... +.+.++ .|+|.||..|+..-..+ +. |-.|
T Consensus 783 ~e~rc~~c~~~~l~~~~~~~~~~v~-~c~h~yhk~c~~~~~~~--~~-~~~~ 830 (846)
T KOG2066|consen 783 VEERCSSCFEPNLPSGAAFDSVVVF-HCGHMYHKECLMMESLR--NA-CNIE 830 (846)
T ss_pred ehhhhhhhcccccccCcccceeeEE-EccchhhhcccccHHHh--cc-cChh
Confidence 344799998876532 344555 79999999999887775 22 6555
No 166
>PF05568 ASFV_J13L: African swine fever virus J13L protein; InterPro: IPR008385 This family consists of several African swine fever virus (ASFV) j13L proteins [, , ].
Probab=61.15 E-value=16 Score=26.56 Aligned_cols=22 Identities=14% Similarity=0.253 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 030350 12 TSQFLYRAAVVIALLRWVLFCI 33 (179)
Q Consensus 12 i~~~i~~~~i~i~v~~~i~~~~ 33 (179)
...|++.+++++.+++.+++|.
T Consensus 31 m~tILiaIvVliiiiivli~lc 52 (189)
T PF05568_consen 31 MYTILIAIVVLIIIIIVLIYLC 52 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3344445555444444443333
No 167
>PRK09458 pspB phage shock protein B; Provisional
Probab=61.00 E-value=31 Score=22.12 Aligned_cols=15 Identities=13% Similarity=0.374 Sum_probs=7.8
Q ss_pred HHHHHHHHhcCCCCC
Q 030350 29 VLFCIIRFRNRNSYS 43 (179)
Q Consensus 29 i~~~~~~~~~~~~~~ 43 (179)
-+..++.|+.+++.+
T Consensus 19 PiWL~LHY~sk~~~~ 33 (75)
T PRK09458 19 PIWLWLHYRSKRQGS 33 (75)
T ss_pred HHHHHHhhcccccCC
Confidence 344455666655533
No 168
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=60.01 E-value=7 Score=30.94 Aligned_cols=35 Identities=20% Similarity=0.274 Sum_probs=29.2
Q ss_pred CcccccccccccccCCeeeEccCCCCcccHHhHHHHHhc
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDY 132 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~ 132 (179)
.-+.|..||..+.++... +=||+|+++||.+++..
T Consensus 42 ~FdcCsLtLqPc~dPvit----~~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 42 PFDCCSLTLQPCRDPVIT----PDGYLFDREAILEYILA 76 (303)
T ss_pred CcceeeeecccccCCccC----CCCeeeeHHHHHHHHHH
Confidence 345899999999988655 68999999999998854
No 169
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=59.21 E-value=30 Score=31.91 Aligned_cols=46 Identities=24% Similarity=0.494 Sum_probs=31.0
Q ss_pred Cccccccccccccc---------CCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccc
Q 030350 94 VPDTCAVCLNHMEE---------DDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPL 145 (179)
Q Consensus 94 ~~~~C~ICl~~~~~---------~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~ 145 (179)
.+..|+-|...|.. ......++.|+|.-|..=| .+...||+|....
T Consensus 1130 ~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EI------s~y~~CPLCHs~~ 1184 (1189)
T KOG2041|consen 1130 YDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEI------SKYNCCPLCHSME 1184 (1189)
T ss_pred cCCCChhhcCcCceeeccCCccccceEEEccccccccccccc------cccccCccccChh
Confidence 45567777776643 2235566789998887765 2367899996654
No 170
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=57.14 E-value=16 Score=25.69 Aligned_cols=20 Identities=10% Similarity=0.179 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHHHhcCCC
Q 030350 22 VIALLRWVLFCIIRFRNRNS 41 (179)
Q Consensus 22 ~i~v~~~i~~~~~~~~~~~~ 41 (179)
+.+++..|+++++..++++.
T Consensus 74 ~aGvIg~Illi~y~irR~~K 93 (122)
T PF01102_consen 74 MAGVIGIILLISYCIRRLRK 93 (122)
T ss_dssp HHHHHHHHHHHHHHHHHHS-
T ss_pred HHHHHHHHHHHHHHHHHHhc
Confidence 33444444444444444444
No 171
>PF15145 DUF4577: Domain of unknown function (DUF4577)
Probab=56.78 E-value=13 Score=25.68 Aligned_cols=30 Identities=27% Similarity=0.404 Sum_probs=22.2
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030350 8 PTLITSQFLYRAAVVIALLRWVLFCIIRFR 37 (179)
Q Consensus 8 ~~~~i~~~i~~~~i~i~v~~~i~~~~~~~~ 37 (179)
..+++..+++.++++++++.+++|.+++-.
T Consensus 60 ~~lffvglii~LivSLaLVsFvIFLiiQTg 89 (128)
T PF15145_consen 60 RSLFFVGLIIVLIVSLALVSFVIFLIIQTG 89 (128)
T ss_pred eeehHHHHHHHHHHHHHHHHHHHHheeecc
Confidence 457777888888888888888877765543
No 172
>PF12669 P12: Virus attachment protein p12 family
Probab=56.11 E-value=16 Score=22.10 Aligned_cols=6 Identities=17% Similarity=-0.153 Sum_probs=2.5
Q ss_pred HHHHHH
Q 030350 31 FCIIRF 36 (179)
Q Consensus 31 ~~~~~~ 36 (179)
+.+++.
T Consensus 18 r~~~k~ 23 (58)
T PF12669_consen 18 RKFIKD 23 (58)
T ss_pred HHHHHH
Confidence 444433
No 173
>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=56.03 E-value=17 Score=24.78 Aligned_cols=48 Identities=21% Similarity=0.475 Sum_probs=28.9
Q ss_pred ccccccccccccCCeee----EccCC---CCcccHHhHHHHHhcC-------CCCCCccccc
Q 030350 96 DTCAVCLNHMEEDDLVR----ELRNC---CHVFHRECIDRWVDYD-------HHKTCPLCRA 143 (179)
Q Consensus 96 ~~C~ICl~~~~~~~~~~----~l~~C---~H~Fh~~Ci~~wl~~~-------~~~~CP~CR~ 143 (179)
..|-.|...-.+....- ....| .-.||..||..++... ..-.||.||.
T Consensus 8 ~~CHqCrqKt~~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 8 KTCHQCRQKTLDFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred CCchhhcCCCCCCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 35666666433222111 12356 6789999998888541 2345999987
No 174
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=55.59 E-value=8.9 Score=30.99 Aligned_cols=35 Identities=26% Similarity=0.668 Sum_probs=29.8
Q ss_pred CcccccccccccccCCeeeEccCC----CCcccHHhHHHHHhc
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNC----CHVFHRECIDRWVDY 132 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C----~H~Fh~~Ci~~wl~~ 132 (179)
....|.+|.|.+++-..+ .| .|.||..|-.+..+.
T Consensus 267 apLcCTLC~ERLEDTHFV----QCPSVp~HKFCFPCSResIK~ 305 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTHFV----QCPSVPSHKFCFPCSRESIKQ 305 (352)
T ss_pred CceeehhhhhhhccCcee----ecCCCcccceecccCHHHHHh
Confidence 557899999999998777 47 699999998888876
No 175
>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=55.19 E-value=1.1 Score=28.35 Aligned_cols=42 Identities=26% Similarity=0.600 Sum_probs=21.4
Q ss_pred ccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccccc
Q 030350 96 DTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLTY 148 (179)
Q Consensus 96 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~ 148 (179)
..||.|..++.... +|.+|..|-..... ...||-|..++...
T Consensus 2 ~~CP~C~~~L~~~~--------~~~~C~~C~~~~~~---~a~CPdC~~~Le~L 43 (70)
T PF07191_consen 2 NTCPKCQQELEWQG--------GHYHCEACQKDYKK---EAFCPDCGQPLEVL 43 (70)
T ss_dssp -B-SSS-SBEEEET--------TEEEETTT--EEEE---EEE-TTT-SB-EEE
T ss_pred CcCCCCCCccEEeC--------CEEECcccccccee---cccCCCcccHHHHH
Confidence 47999988765432 45555666544322 46699998887654
No 176
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=55.15 E-value=2.2 Score=34.40 Aligned_cols=47 Identities=28% Similarity=0.565 Sum_probs=36.1
Q ss_pred ccccccccccccC--Cee-eEccC--------CCCcccHHhHHHHHhcCCCCCCcccccc
Q 030350 96 DTCAVCLNHMEED--DLV-RELRN--------CCHVFHRECIDRWVDYDHHKTCPLCRAP 144 (179)
Q Consensus 96 ~~C~ICl~~~~~~--~~~-~~l~~--------C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~ 144 (179)
..|.||...+... ..+ +++ . |+|..+..|++.-+... ...||.|+..
T Consensus 208 ~~c~ic~~~~~~n~~~~~p~vl-~~~~~~~~~c~htlc~~c~~~~l~~~-~~~cp~~~~~ 265 (296)
T KOG4185|consen 208 KLCEICERIYSENDEKLAPLVL-SLSRLKEKIEGHTLCKECIDTILLQA-GIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHhhccccccchhHH-HHHHHHHHHHHHHHHhcchHHHHHHh-hhcCCcccce
Confidence 5799999999842 222 233 4 99999999999998874 3679999875
No 177
>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=54.82 E-value=4 Score=24.12 Aligned_cols=13 Identities=46% Similarity=0.928 Sum_probs=7.0
Q ss_pred CCCcccccccccc
Q 030350 136 KTCPLCRAPLLTY 148 (179)
Q Consensus 136 ~~CP~CR~~~~~~ 148 (179)
..||+|.+++.+.
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 3799999998773
No 178
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=54.47 E-value=6.6 Score=26.07 Aligned_cols=13 Identities=31% Similarity=0.851 Sum_probs=11.5
Q ss_pred cccHHhHHHHHhc
Q 030350 120 VFHRECIDRWVDY 132 (179)
Q Consensus 120 ~Fh~~Ci~~wl~~ 132 (179)
.||+.|+..|+..
T Consensus 42 gFCRNCLs~Wy~e 54 (104)
T COG3492 42 GFCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHHH
Confidence 4999999999975
No 179
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=54.28 E-value=18 Score=34.40 Aligned_cols=53 Identities=17% Similarity=0.389 Sum_probs=37.1
Q ss_pred Cccccccccccccc---CCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 94 VPDTCAVCLNHMEE---DDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 94 ~~~~C~ICl~~~~~---~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
....|.||-++... ++.-..+..|+--.|+.|.+-=-+ ..+..||.|+.....
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~-~g~~~cp~c~t~y~~ 69 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERS-EGNQCCPQCNTRYKR 69 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhh-cCCccCCccCCchhh
Confidence 34479999988643 444444557777799999944333 347889999998763
No 180
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=53.08 E-value=14 Score=35.20 Aligned_cols=50 Identities=18% Similarity=0.583 Sum_probs=35.7
Q ss_pred ccccccccccc---cCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccc
Q 030350 96 DTCAVCLNHME---EDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLL 146 (179)
Q Consensus 96 ~~C~ICl~~~~---~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~ 146 (179)
..|.||=++.. +++.-..+..|+-=.|+.|.+ +=++..+..||.|+....
T Consensus 18 qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYE-YEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 18 QVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYE-YERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred ceeeecccccCcCCCCCEEEEeccCCCccccchhh-hhhhcCCccCCccCCchh
Confidence 38999998863 344444455777779999984 433334788999998776
No 181
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=52.73 E-value=8.3 Score=30.63 Aligned_cols=45 Identities=16% Similarity=0.359 Sum_probs=33.7
Q ss_pred ccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccc
Q 030350 96 DTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRA 143 (179)
Q Consensus 96 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~ 143 (179)
..|||=...+..+..-+ .|||+|-+.-|...+.......||+=-.
T Consensus 177 ~rdPis~~~I~nPviSk---kC~HvydrDsI~~~l~~~~~i~CPv~gC 221 (262)
T KOG2979|consen 177 NRDPISKKPIVNPVISK---KCGHVYDRDSIMQILCDEITIRCPVLGC 221 (262)
T ss_pred ccCchhhhhhhchhhhc---CcCcchhhhhHHHHhccCceeecccccC
Confidence 47888877777776555 8999999999999997643445886433
No 182
>PF07010 Endomucin: Endomucin; InterPro: IPR010740 This family consists of several mammalian endomucin proteins. Endomucin is an early endothelial-specific antigen that is also expressed on putative hematopoietic progenitor cells.
Probab=51.65 E-value=50 Score=25.89 Aligned_cols=34 Identities=9% Similarity=0.198 Sum_probs=18.5
Q ss_pred CCCchhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 030350 6 DDPTLITSQFLYRAAVVIALLRWVLFCIIRFRNRNS 41 (179)
Q Consensus 6 ~~~~~~i~~~i~~~~i~i~v~~~i~~~~~~~~~~~~ 41 (179)
.|+.++++++|..+++.+.+| ++..++|.+...+
T Consensus 185 S~S~vilpvvIaliVitl~vf--~LvgLyr~C~k~d 218 (259)
T PF07010_consen 185 SYSSVILPVVIALIVITLSVF--TLVGLYRMCWKTD 218 (259)
T ss_pred cccchhHHHHHHHHHHHHHHH--HHHHHHHHhhcCC
Confidence 567777666665555544443 4444445554443
No 183
>PF15179 Myc_target_1: Myc target protein 1
Probab=51.29 E-value=34 Score=25.83 Aligned_cols=12 Identities=33% Similarity=0.326 Sum_probs=7.2
Q ss_pred HHHHHHHHHhcC
Q 030350 164 WAVERILYIFGD 175 (179)
Q Consensus 164 ~~~~~~~~~~~~ 175 (179)
.+-+.+++.|-+
T Consensus 183 PAYeSIIkAF~e 194 (197)
T PF15179_consen 183 PAYESIIKAFPE 194 (197)
T ss_pred chHHHHHHhccc
Confidence 344667777754
No 184
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=50.15 E-value=8.6 Score=30.21 Aligned_cols=43 Identities=21% Similarity=0.395 Sum_probs=33.1
Q ss_pred cccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcc
Q 030350 95 PDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPL 140 (179)
Q Consensus 95 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~ 140 (179)
+..|+|-+..+..+..-+ .|+|.|-.+-|...++......||.
T Consensus 189 ~nrCpitl~p~~~pils~---kcnh~~e~D~I~~~lq~~~trvcp~ 231 (275)
T COG5627 189 SNRCPITLNPDFYPILSS---KCNHKPEMDLINKKLQVECTRVCPR 231 (275)
T ss_pred cccCCcccCcchhHHHHh---hhcccccHHHHHHHhcCCceeecch
Confidence 458999888877765554 8999999999999998633455764
No 185
>PTZ00382 Variant-specific surface protein (VSP); Provisional
Probab=49.99 E-value=3.2 Score=27.92 Aligned_cols=20 Identities=20% Similarity=0.124 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHHHHHhcC
Q 030350 20 AVVIALLRWVLFCIIRFRNR 39 (179)
Q Consensus 20 ~i~i~v~~~i~~~~~~~~~~ 39 (179)
++++.++..+++|++.+|++
T Consensus 76 ~~~v~~lv~~l~w~f~~r~k 95 (96)
T PTZ00382 76 VAVVGGLVGFLCWWFVCRGK 95 (96)
T ss_pred hhHHHHHHHHHhheeEEeec
Confidence 34444444445555555543
No 186
>PLN02195 cellulose synthase A
Probab=49.97 E-value=21 Score=33.82 Aligned_cols=51 Identities=18% Similarity=0.449 Sum_probs=36.6
Q ss_pred ccccccccccccc---CCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccc
Q 030350 95 PDTCAVCLNHMEE---DDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLL 146 (179)
Q Consensus 95 ~~~C~ICl~~~~~---~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~ 146 (179)
...|.||-++... ++.-..+..|+--.|+.|. ++=++..+..||.|+....
T Consensus 6 ~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCy-eyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 6 APICATCGEEVGVDSNGEAFVACHECSYPLCKACL-EYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CccceecccccCcCCCCCeEEEeccCCCccccchh-hhhhhcCCccCCccCCccc
Confidence 3479999887643 4444445578888999998 4444444788999999877
No 187
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=49.27 E-value=13 Score=21.88 Aligned_cols=26 Identities=23% Similarity=0.636 Sum_probs=14.9
Q ss_pred EccCCCCcccHHhHHHHHhcCCCCCCccc
Q 030350 113 ELRNCCHVFHRECIDRWVDYDHHKTCPLC 141 (179)
Q Consensus 113 ~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~C 141 (179)
..+.|||.|-.. +..-... ...||.|
T Consensus 30 ~C~~Cgh~w~~~-v~~R~~~--~~~CP~C 55 (55)
T PF14311_consen 30 KCPKCGHEWKAS-VNDRTRR--GKGCPYC 55 (55)
T ss_pred ECCCCCCeeEcc-HhhhccC--CCCCCCC
Confidence 344677766644 3333233 5679988
No 188
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=48.93 E-value=10 Score=33.59 Aligned_cols=36 Identities=25% Similarity=0.571 Sum_probs=24.0
Q ss_pred CCccccccccccccc----C-------CeeeEccCCCCcccHHhHHHHH
Q 030350 93 WVPDTCAVCLNHMEE----D-------DLVRELRNCCHVFHRECIDRWV 130 (179)
Q Consensus 93 ~~~~~C~ICl~~~~~----~-------~~~~~l~~C~H~Fh~~Ci~~wl 130 (179)
+....|+||.+.|+. . +.+. + .=|.+||..|+..--
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~-l-e~G~ifH~~Cl~e~~ 557 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVY-L-EFGRIFHSKCLSEKR 557 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceee-e-ccCceeeccccchHH
Confidence 345589999999865 1 1222 2 148899999986554
No 189
>PF15330 SIT: SHP2-interacting transmembrane adaptor protein, SIT
Probab=47.92 E-value=41 Score=23.07 Aligned_cols=27 Identities=11% Similarity=0.171 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 030350 15 FLYRAAVVIALLRWVLFCIIRFRNRNS 41 (179)
Q Consensus 15 ~i~~~~i~i~v~~~i~~~~~~~~~~~~ 41 (179)
.+++++++|.+++.++.|....+....
T Consensus 5 ~il~llLll~l~asl~~wr~~~rq~k~ 31 (107)
T PF15330_consen 5 GILALLLLLSLAASLLAWRMKQRQKKA 31 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhccc
Confidence 445555566666666666665554443
No 190
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=46.91 E-value=18 Score=24.28 Aligned_cols=29 Identities=17% Similarity=0.345 Sum_probs=21.1
Q ss_pred CCCcccHHhHHHHHhcCCCCCCcccccccccc
Q 030350 117 CCHVFHRECIDRWVDYDHHKTCPLCRAPLLTY 148 (179)
Q Consensus 117 C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~ 148 (179)
||+.-|.--+.++.. ...||.|+.++.+.
T Consensus 65 CGvC~~~LT~~EY~~---~~~Cp~C~spFNp~ 93 (105)
T COG4357 65 CGVCRKLLTRAEYGM---CGSCPYCQSPFNPG 93 (105)
T ss_pred hhhhhhhhhHHHHhh---cCCCCCcCCCCCcc
Confidence 777666666666655 35699999988763
No 191
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=46.66 E-value=13 Score=26.74 Aligned_cols=22 Identities=23% Similarity=0.661 Sum_probs=17.2
Q ss_pred ccCCCCcccHHhHHHHHhcCCCCCCccccccc
Q 030350 114 LRNCCHVFHRECIDRWVDYDHHKTCPLCRAPL 145 (179)
Q Consensus 114 l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~ 145 (179)
+..|||.|+. .+..||.|..+.
T Consensus 32 C~~CG~v~~P----------Pr~~Cp~C~~~~ 53 (140)
T COG1545 32 CKKCGRVYFP----------PRAYCPKCGSET 53 (140)
T ss_pred cCCCCeEEcC----------CcccCCCCCCCC
Confidence 4489999983 367899998874
No 192
>PF05715 zf-piccolo: Piccolo Zn-finger; InterPro: IPR008899 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 (predicted) zinc finger is found in the bassoon and piccolo proteins, both of which are components of the presynaptic cytoskeletal matrix (PCM) assembled at the active zone of neurotransmitter release, where Piccolo plays a role in the trafficking of synaptic vesicles (SVs) [, , ]. The Piccolo zinc fingers were found to interact with the dual prenylated rab3A and VAMP2/Synaptobrevin II receptor PRA1. There are eight conserved cysteines in Piccolo-type zinc fingers, suggesting that they coordinates two zinc ligands. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding, 0045202 synapse
Probab=45.69 E-value=13 Score=22.64 Aligned_cols=12 Identities=42% Similarity=1.065 Sum_probs=9.2
Q ss_pred CCCCcccccccc
Q 030350 135 HKTCPLCRAPLL 146 (179)
Q Consensus 135 ~~~CP~CR~~~~ 146 (179)
+..||+|+..+.
T Consensus 2 k~~CPlCkt~~n 13 (61)
T PF05715_consen 2 KSLCPLCKTTLN 13 (61)
T ss_pred CccCCcccchhh
Confidence 467999988773
No 193
>PLN02400 cellulose synthase
Probab=45.69 E-value=18 Score=34.59 Aligned_cols=52 Identities=19% Similarity=0.560 Sum_probs=36.2
Q ss_pred cccccccccccc---cCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 95 PDTCAVCLNHME---EDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 95 ~~~C~ICl~~~~---~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
...|.||-++.. +++.-..+..|+-=.|+.|.+ +=++..+..||.|+....-
T Consensus 36 gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYE-YERkeGnq~CPQCkTrYkR 90 (1085)
T PLN02400 36 GQICQICGDDVGVTETGDVFVACNECAFPVCRPCYE-YERKDGTQCCPQCKTRYRR 90 (1085)
T ss_pred CceeeecccccCcCCCCCEEEEEccCCCccccchhh-eecccCCccCcccCCcccc
Confidence 348999998863 344444455777779999983 3333347789999998763
No 194
>PF10717 ODV-E18: Occlusion-derived virus envelope protein ODV-E18; InterPro: IPR019655 Baculovirus occlusion-derived virus (ODV) derives its envelope from an intranuclear membrane source. Occlusion-derived viral envelope proteins that are detected in viral-induced intranuclear microvesicles, but not detected in the plasma membrane, cytoplasmic membranes, or the nuclear envelope. This entry represents ODV-E18 protein which is encoded by baculovirus late genes with transcription initiating from a TAAG motif. ODV-E18 exists as a dimer in the ODV envelope, which contains a hydrophobic domain that putatively acts as a target or retention signal for intranuclear microvesicles []. ; GO: 0019031 viral envelope
Probab=45.55 E-value=72 Score=20.85 Aligned_cols=17 Identities=12% Similarity=0.239 Sum_probs=6.9
Q ss_pred chhHHHHHHHHHHHHHH
Q 030350 9 TLITSQFLYRAAVVIAL 25 (179)
Q Consensus 9 ~~~i~~~i~~~~i~i~v 25 (179)
..+-+..++.+++.+++
T Consensus 20 ~~l~pn~lMtILivLVI 36 (85)
T PF10717_consen 20 NGLNPNTLMTILIVLVI 36 (85)
T ss_pred cccChhHHHHHHHHHHH
Confidence 33334444444444433
No 195
>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=43.89 E-value=7.6 Score=32.79 Aligned_cols=53 Identities=25% Similarity=0.575 Sum_probs=0.0
Q ss_pred ccccccccccccc---------------CCeeeEccCCCCcccHHhHHHHHhcC-------CCCCCccccccccc
Q 030350 95 PDTCAVCLNHMEE---------------DDLVRELRNCCHVFHRECIDRWVDYD-------HHKTCPLCRAPLLT 147 (179)
Q Consensus 95 ~~~C~ICl~~~~~---------------~~~~~~l~~C~H~Fh~~Ci~~wl~~~-------~~~~CP~CR~~~~~ 147 (179)
..+|++|+..=.- +.......||||+--.+...-|-+.. -+..||.|-.+|.-
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g 402 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDG 402 (416)
T ss_dssp ---------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCcccC
Confidence 5689999965211 11122334999998888888887541 12459999777653
No 196
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=43.74 E-value=14 Score=22.37 Aligned_cols=25 Identities=20% Similarity=0.399 Sum_probs=12.5
Q ss_pred CCCcccccccccccccccCCCCCCCCCcH
Q 030350 136 KTCPLCRAPLLTYLQSKSLNNWPKNEPNW 164 (179)
Q Consensus 136 ~~CP~CR~~~~~~~~~~~~~~~~~~~~~~ 164 (179)
..||.|++++.. ...|.+.++.-.+
T Consensus 3 v~CP~C~k~~~~----~~~n~~rPFCS~R 27 (57)
T PF03884_consen 3 VKCPICGKPVEW----SPENPFRPFCSER 27 (57)
T ss_dssp EE-TTT--EEE-----SSSSS--SSSSHH
T ss_pred ccCCCCCCeecc----cCCCCcCCcccHh
Confidence 469999988876 3456667666553
No 197
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=43.37 E-value=19 Score=32.71 Aligned_cols=48 Identities=25% Similarity=0.468 Sum_probs=34.0
Q ss_pred cccccccccccCCeeeEccCCCC-cccHHhHHHHHhcCC----CCCCcccccccccc
Q 030350 97 TCAVCLNHMEEDDLVRELRNCCH-VFHRECIDRWVDYDH----HKTCPLCRAPLLTY 148 (179)
Q Consensus 97 ~C~ICl~~~~~~~~~~~l~~C~H-~Fh~~Ci~~wl~~~~----~~~CP~CR~~~~~~ 148 (179)
.|+||-....-. ....||| ..+..|..+...... ...||.||..+...
T Consensus 2 ~c~ic~~s~~~~----~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~~ 54 (669)
T KOG2231|consen 2 SCAICAFSPDFV----GRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVETK 54 (669)
T ss_pred CcceeecCcccc----ccccccccccchhhhhhhhhhcccccccccCcccccceeee
Confidence 688987664332 2337999 899999988775432 45589999977654
No 198
>PRK11486 flagellar biosynthesis protein FliO; Provisional
Probab=42.80 E-value=66 Score=22.73 Aligned_cols=34 Identities=12% Similarity=-0.129 Sum_probs=19.8
Q ss_pred cCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030350 4 FEDDPTLITSQFLYRAAVVIALLRWVLFCIIRFRN 38 (179)
Q Consensus 4 ~~~~~~~~i~~~i~~~~i~i~v~~~i~~~~~~~~~ 38 (179)
|+..++-.+..++.+++++++++.++ .|++|+.+
T Consensus 10 ~~~~~~~~l~qv~~~L~lVl~lI~~~-aWLlkR~~ 43 (124)
T PRK11486 10 SAPVSGSPLLQVSGALIGIIALILAA-AWLVKRLG 43 (124)
T ss_pred CCCCCcchHHHHHHHHHHHHHHHHHH-HHHHHHcC
Confidence 34445566777777776666655444 45655554
No 199
>PF05454 DAG1: Dystroglycan (Dystrophin-associated glycoprotein 1); InterPro: IPR008465 Dystroglycan is one of the dystrophin-associated glycoproteins, which is encoded by a 5.5 kb transcript in Homo sapiens. The protein product is cleaved into two non-covalently associated subunits, [alpha] (N-terminal) and [beta] (C-terminal). In skeletal muscle the dystroglycan complex works as a transmembrane linkage between the extracellular matrix and the cytoskeleton [alpha]-dystroglycan is extracellular and binds to merosin ([alpha]-2 laminin) in the basement membrane, while [beta]-dystroglycan is a transmembrane protein and binds to dystrophin, which is a large rod-like cytoskeletal protein, absent in Duchenne muscular dystrophy patients. Dystrophin binds to intracellular actin cables. In this way, the dystroglycan complex, which links the extracellular matrix to the intracellular actin cables, is thought to provide structural integrity in muscle tissues. The dystroglycan complex is also known to serve as an agrin receptor in muscle, where it may regulate agrin-induced acetylcholine receptor clustering at the neuromuscular junction. There is also evidence which suggests the function of dystroglycan as a part of the signal transduction pathway because it is shown that Grb2, a mediator of the Ras-related signal pathway, can interact with the cytoplasmic domain of dystroglycan. In general, aberrant expression of dystrophin-associated protein complex underlies the pathogenesis of Duchenne muscular dystrophy, Becker muscular dystrophy and severe childhood autosomal recessive muscular dystrophy. Interestingly, no genetic disease has been described for either [alpha]- or [beta]-dystroglycan. Dystroglycan is widely distributed in non-muscle tissues as well as in muscle tissues. During epithelial morphogenesis of kidney, the dystroglycan complex is shown to act as a receptor for the basement membrane. Dystroglycan expression in Mus musculus brain and neural retina has also been reported. However, the physiological role of dystroglycan in non-muscle tissues has remained unclear [].; PDB: 1EG4_P.
Probab=42.61 E-value=8.2 Score=31.35 Aligned_cols=14 Identities=14% Similarity=0.218 Sum_probs=0.0
Q ss_pred hhHHHHHHHHHHHH
Q 030350 10 LITSQFLYRAAVVI 23 (179)
Q Consensus 10 ~~i~~~i~~~~i~i 23 (179)
.+++.+++.++++|
T Consensus 148 T~IpaVVI~~iLLI 161 (290)
T PF05454_consen 148 TFIPAVVIAAILLI 161 (290)
T ss_dssp --------------
T ss_pred HHHHHHHHHHHHHH
Confidence 33333333333333
No 200
>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=42.51 E-value=3.9 Score=33.03 Aligned_cols=49 Identities=18% Similarity=0.233 Sum_probs=20.5
Q ss_pred CcccccccccccccCCeeeEcc--CCCCcccHHhHHHHHhcCCCCCCccccccc
Q 030350 94 VPDTCAVCLNHMEEDDLVRELR--NCCHVFHRECIDRWVDYDHHKTCPLCRAPL 145 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~--~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~ 145 (179)
....||||=..-.-..... -. +=.|.+|.-|-..|-.. +..||.|-..-
T Consensus 171 ~~g~CPvCGs~P~~s~l~~-~~~~G~R~L~Cs~C~t~W~~~--R~~Cp~Cg~~~ 221 (290)
T PF04216_consen 171 QRGYCPVCGSPPVLSVLRG-GEREGKRYLHCSLCGTEWRFV--RIKCPYCGNTD 221 (290)
T ss_dssp T-SS-TTT---EEEEEEE-------EEEEEETTT--EEE----TTS-TTT---S
T ss_pred cCCcCCCCCCcCceEEEec-CCCCccEEEEcCCCCCeeeec--CCCCcCCCCCC
Confidence 3458999977633221111 10 12466777788888776 77899996543
No 201
>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=42.41 E-value=14 Score=25.64 Aligned_cols=49 Identities=18% Similarity=0.231 Sum_probs=27.6
Q ss_pred CcccccccccccccCC-eeeEccCCCCcccHHhHHHHHhcCCCCCCccccc
Q 030350 94 VPDTCAVCLNHMEEDD-LVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRA 143 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~-~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~ 143 (179)
.+..|++|...|.--. .-.....|+|.+|..|-.. ..+...-.|.+|..
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhHH
Confidence 4568999998764321 2234448999999998533 11111113888855
No 202
>PF14316 DUF4381: Domain of unknown function (DUF4381)
Probab=41.54 E-value=61 Score=23.20 Aligned_cols=25 Identities=16% Similarity=0.154 Sum_probs=11.4
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHH
Q 030350 9 TLITSQFLYRAAVVIALLRWVLFCI 33 (179)
Q Consensus 9 ~~~i~~~i~~~~i~i~v~~~i~~~~ 33 (179)
.....-.++.++++++++..+++..
T Consensus 18 P~a~GWwll~~lll~~~~~~~~~~~ 42 (146)
T PF14316_consen 18 PLAPGWWLLLALLLLLLILLLWRLW 42 (146)
T ss_pred CccHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344445555554544444443333
No 203
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=39.91 E-value=4.6 Score=32.35 Aligned_cols=32 Identities=16% Similarity=0.423 Sum_probs=21.4
Q ss_pred CCCCcccHHhHH-HHHhcC--------CCCCCccccccccc
Q 030350 116 NCCHVFHRECID-RWVDYD--------HHKTCPLCRAPLLT 147 (179)
Q Consensus 116 ~C~H~Fh~~Ci~-~wl~~~--------~~~~CP~CR~~~~~ 147 (179)
+|...+|.+-+. .||.++ +-..||.|++.+-+
T Consensus 187 ~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFAD 227 (279)
T KOG2462|consen 187 PCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFAD 227 (279)
T ss_pred CcccccccccccchHHhhcccccccCCCCccCCcccchhcc
Confidence 555555555443 798765 23459999998877
No 204
>PF10577 UPF0560: Uncharacterised protein family UPF0560; InterPro: IPR018890 This family of proteins has no known function.
Probab=39.75 E-value=35 Score=31.62 Aligned_cols=27 Identities=26% Similarity=0.411 Sum_probs=14.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030350 10 LITSQFLYRAAVVIALLRWVLFCIIRF 36 (179)
Q Consensus 10 ~~i~~~i~~~~i~i~v~~~i~~~~~~~ 36 (179)
+++..|+..+++++.++..++.|+.|.
T Consensus 273 ~fLl~ILG~~~livl~lL~vLl~yCrr 299 (807)
T PF10577_consen 273 VFLLAILGGTALIVLILLCVLLCYCRR 299 (807)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 445555555555555555555554444
No 205
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=39.45 E-value=8.6 Score=22.94 Aligned_cols=19 Identities=21% Similarity=0.447 Sum_probs=14.4
Q ss_pred eeEccCCCCcccHHhHHHH
Q 030350 111 VRELRNCCHVFHRECIDRW 129 (179)
Q Consensus 111 ~~~l~~C~H~Fh~~Ci~~w 129 (179)
....+.|+|.|+..|...|
T Consensus 40 ~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 40 RVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred eeECCCCCCeECCCCCCcC
Confidence 3444468999999998777
No 206
>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=39.18 E-value=41 Score=20.53 Aligned_cols=32 Identities=22% Similarity=0.384 Sum_probs=20.9
Q ss_pred ccccccccccccc--CCeeeEccCCCCcccHHhH
Q 030350 95 PDTCAVCLNHMEE--DDLVRELRNCCHVFHRECI 126 (179)
Q Consensus 95 ~~~C~ICl~~~~~--~~~~~~l~~C~H~Fh~~Ci 126 (179)
..+|+.|-..... .......+.||+.+|.+-.
T Consensus 28 Sq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~n 61 (69)
T PF07282_consen 28 SQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVN 61 (69)
T ss_pred ccCccCcccccccccccceEEcCCCCCEECcHHH
Confidence 3479888877766 3444555567877776643
No 207
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=39.16 E-value=64 Score=24.72 Aligned_cols=14 Identities=36% Similarity=0.178 Sum_probs=7.2
Q ss_pred CccCCCCchhHHHH
Q 030350 2 GFFEDDPTLITSQF 15 (179)
Q Consensus 2 gf~~~~~~~~i~~~ 15 (179)
|||.-+...+...+
T Consensus 43 ~~p~~~~~~~~~~l 56 (204)
T PRK09174 43 VFPPFDSTHYASQL 56 (204)
T ss_pred CCCCCcchhccHHH
Confidence 47766555443333
No 208
>COG1622 CyoA Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]
Probab=38.49 E-value=68 Score=25.43 Aligned_cols=30 Identities=13% Similarity=0.335 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 030350 12 TSQFLYRAAVVIALLRWVLFCIIRFRNRNS 41 (179)
Q Consensus 12 i~~~i~~~~i~i~v~~~i~~~~~~~~~~~~ 41 (179)
+..+++.+++.+.|+..+++++.++|.++.
T Consensus 35 ~~~~~~~~~I~~~V~~~~~~~~~k~R~~~~ 64 (247)
T COG1622 35 ILSTLLMLVIVLPVIVLLVYFAWKYRASNN 64 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhhcCC
Confidence 333444444555556666666667766555
No 209
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=37.97 E-value=57 Score=24.39 Aligned_cols=10 Identities=20% Similarity=0.142 Sum_probs=4.8
Q ss_pred CccCCCCchh
Q 030350 2 GFFEDDPTLI 11 (179)
Q Consensus 2 gf~~~~~~~~ 11 (179)
|+|.-+...+
T Consensus 21 gmp~ld~~t~ 30 (181)
T PRK13454 21 GMPQLDFSTF 30 (181)
T ss_pred CCCCCcHHhc
Confidence 5555554433
No 210
>PF12768 Rax2: Cortical protein marker for cell polarity
Probab=36.49 E-value=50 Score=26.71 Aligned_cols=21 Identities=19% Similarity=0.301 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 030350 15 FLYRAAVVIALLRWVLFCIIR 35 (179)
Q Consensus 15 ~i~~~~i~i~v~~~i~~~~~~ 35 (179)
+.+.++.+|+++.+|+.+++|
T Consensus 236 iALG~v~ll~l~Gii~~~~~r 256 (281)
T PF12768_consen 236 IALGTVFLLVLIGIILAYIRR 256 (281)
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 444444444444444444433
No 211
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=36.07 E-value=23 Score=28.02 Aligned_cols=26 Identities=15% Similarity=0.288 Sum_probs=18.5
Q ss_pred ccccccccccccCCeeeEccCCCCccc
Q 030350 96 DTCAVCLNHMEEDDLVRELRNCCHVFH 122 (179)
Q Consensus 96 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh 122 (179)
..||+|.+.+........+ ..+|.|-
T Consensus 3 ~~CP~C~~~l~~~~~~~~C-~~~h~fd 28 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWIC-PQNHQFD 28 (272)
T ss_pred ccCCCCCcchhcCCCEEEc-CCCCCCc
Confidence 3799999999765554444 4588873
No 212
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=35.60 E-value=6.8 Score=31.79 Aligned_cols=37 Identities=22% Similarity=0.621 Sum_probs=28.0
Q ss_pred ccccccccccccCCeeeEccCCCCcccHHhHHHHHhcC
Q 030350 96 DTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYD 133 (179)
Q Consensus 96 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~ 133 (179)
..|.+|++++..+...... .|...||..|+-.|+...
T Consensus 215 rvC~~CF~el~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDRE-DSLPVFHGKCYPNWLTTG 251 (288)
T ss_pred eecHHHHHHHhcccccchh-hccccccccccccccccc
Confidence 3899999999864444333 466699999999999873
No 213
>cd01324 cbb3_Oxidase_CcoQ Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. Found exclusively in proteobacteria, cbb3 is believed to be a modern enzyme that has evolved independently to perform a specialized function in microaerobic energy metabolism. The cbb3 operon contains four genes (ccoNOQP or fixNOQP), with ccoN coding for subunit I. Instead of a CuA-containing subunit II analogous to other cytochrome oxidases, cbb3 utilizes subunits ccoO and ccoP, which contain one and two hemes, respectively, to transfer electrons to the binuclear center. ccoQ, the fourth subunit, is a single transmembrane helix protein. It has been shown to protect the core complex from proteolytic degradation by serine proteases. See cd00919, cd01322
Probab=35.54 E-value=46 Score=19.26 Aligned_cols=19 Identities=11% Similarity=0.091 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHhcCCC
Q 030350 23 IALLRWVLFCIIRFRNRNS 41 (179)
Q Consensus 23 i~v~~~i~~~~~~~~~~~~ 41 (179)
++++..++.|.++.+++.+
T Consensus 20 ~~~Figiv~wa~~p~~k~~ 38 (48)
T cd01324 20 ALFFLGVVVWAFRPGRKKA 38 (48)
T ss_pred HHHHHHHHHHHhCCCcchh
Confidence 3445556667766555544
No 214
>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=35.49 E-value=35 Score=17.29 Aligned_cols=29 Identities=21% Similarity=0.548 Sum_probs=9.6
Q ss_pred cccccccccccCCeeeEccCCCCcccHHhH
Q 030350 97 TCAVCLNHMEEDDLVRELRNCCHVFHRECI 126 (179)
Q Consensus 97 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci 126 (179)
.|.+|-..... ...-....|.-.+|..|+
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 47777777655 233334478888888885
No 215
>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=35.08 E-value=20 Score=26.27 Aligned_cols=43 Identities=23% Similarity=0.454 Sum_probs=26.1
Q ss_pred ccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 100 VCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 100 ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
||+.--...+....-+.=.+.||.+|=.+-... ||.|..++.-
T Consensus 9 iC~NGH~~t~~~~~~p~~~~~fC~kCG~~tI~~-----Cp~C~~~IrG 51 (158)
T PF10083_consen 9 ICLNGHVITDSYDKNPELREKFCSKCGAKTITS-----CPNCSTPIRG 51 (158)
T ss_pred HccCccccccccccCchHHHHHHHHhhHHHHHH-----CcCCCCCCCC
Confidence 555554443333322233567888897777654 9999887753
No 216
>COG3462 Predicted membrane protein [Function unknown]
Probab=34.79 E-value=1.3e+02 Score=20.80 Aligned_cols=28 Identities=18% Similarity=0.320 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 030350 13 SQFLYRAAVVIALLRWVLFCIIRFRNRN 40 (179)
Q Consensus 13 ~~~i~~~~i~i~v~~~i~~~~~~~~~~~ 40 (179)
..-++.++++++++.++.+++-+.++.+
T Consensus 52 ImpI~~~vvli~lvvfm~~~~g~~r~~~ 79 (117)
T COG3462 52 IMPIFWAVVLIFLVVFMFYILGAVRRGS 79 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 3344445555555555555555444433
No 217
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=34.49 E-value=42 Score=22.58 Aligned_cols=32 Identities=19% Similarity=0.554 Sum_probs=21.6
Q ss_pred cccccccccccccCCeeeEc-cCCCCcccHHhHHH
Q 030350 95 PDTCAVCLNHMEEDDLVREL-RNCCHVFHRECIDR 128 (179)
Q Consensus 95 ~~~C~ICl~~~~~~~~~~~l-~~C~H~Fh~~Ci~~ 128 (179)
...|.||... .|..+.-. +.|...||..|...
T Consensus 55 ~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 55 KLKCSICGKS--GGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred CCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHH
Confidence 4589999888 34333211 24888999999744
No 218
>PF10873 DUF2668: Protein of unknown function (DUF2668); InterPro: IPR022640 Members in this family of proteins are annotated as cysteine and tyrosine-rich protein 1, however currently no function is known [].
Probab=34.48 E-value=33 Score=24.88 Aligned_cols=34 Identities=3% Similarity=0.175 Sum_probs=21.3
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCC
Q 030350 9 TLITSQFLYRAAVVIALLRWVLFCIIRFRNRNSY 42 (179)
Q Consensus 9 ~~~i~~~i~~~~i~i~v~~~i~~~~~~~~~~~~~ 42 (179)
+..|.-++++++.++.++..|..++....+.++.
T Consensus 60 gtAIaGIVfgiVfimgvva~i~icvCmc~kn~rg 93 (155)
T PF10873_consen 60 GTAIAGIVFGIVFIMGVVAGIAICVCMCMKNSRG 93 (155)
T ss_pred cceeeeeehhhHHHHHHHHHHHHHHhhhhhcCCC
Confidence 3445556666667777777776666666665543
No 219
>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=34.43 E-value=42 Score=22.26 Aligned_cols=37 Identities=24% Similarity=0.490 Sum_probs=29.1
Q ss_pred ccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 96 DTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 96 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
..|+-|.....--+.+- +-.|+.. +..|..|++++..
T Consensus 34 S~C~~C~~~L~~~~lIP-------------i~S~l~l--rGrCr~C~~~I~~ 70 (92)
T PF06750_consen 34 SHCPHCGHPLSWWDLIP-------------ILSYLLL--RGRCRYCGAPIPP 70 (92)
T ss_pred CcCcCCCCcCcccccch-------------HHHHHHh--CCCCcccCCCCCh
Confidence 47988888877766653 6688888 7899999988765
No 220
>PF02038 ATP1G1_PLM_MAT8: ATP1G1/PLM/MAT8 family; InterPro: IPR000272 The FXYD protein family contains at least seven members in mammals []. Two other family members that are not obvious orthologs of any identified mammalian FXYD protein exist in zebrafish. All these proteins share a signature sequence of six conserved amino acids comprising the FXYD motif in the NH2-terminus, and two glycines and one serine residue in the transmembrane domain. FXYD proteins are widely distributed in mammalian tissues with prominent expression in tissues that perform fluid and solute transport or that are electrically excitable. Initial functional characterisation suggested that FXYD proteins act as channels or as modulators of ion channels however studies have revealed that most FXYD proteins have another specific function and act as tissue-specific regulatory subunits of the Na,K-ATPase. Each of these auxiliary subunits produces a distinct functional effect on the transport characteristics of the Na,K-ATPase that is adjusted to the specific functional demands of the tissue in which the FXYD protein is expressed. FXYD proteins appear to preferentially associate with Na,K-ATPase alpha1-beta isozymes, and affect their function in a way that render them operationally complementary or supplementary to coexisting isozymes.; GO: 0005216 ion channel activity, 0006811 ion transport, 0016020 membrane; PDB: 2JO1_A 2JP3_A 2ZXE_G 3A3Y_G 3N23_E 3B8E_H 3KDP_G 3N2F_E.
Probab=33.32 E-value=51 Score=19.35 Aligned_cols=25 Identities=20% Similarity=0.274 Sum_probs=12.6
Q ss_pred CCCchhHHHHHHHHHHHHHHHHHHH
Q 030350 6 DDPTLITSQFLYRAAVVIALLRWVL 30 (179)
Q Consensus 6 ~~~~~~i~~~i~~~~i~i~v~~~i~ 30 (179)
+|-.+-+.-+++++++.+..+..++
T Consensus 10 Dy~tLrigGLi~A~vlfi~Gi~iil 34 (50)
T PF02038_consen 10 DYETLRIGGLIFAGVLFILGILIIL 34 (50)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred chhHhhccchHHHHHHHHHHHHHHH
Confidence 3444445556666555555444443
No 221
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=33.30 E-value=34 Score=21.10 Aligned_cols=13 Identities=31% Similarity=0.756 Sum_probs=9.6
Q ss_pred CCCCccccccccc
Q 030350 135 HKTCPLCRAPLLT 147 (179)
Q Consensus 135 ~~~CP~CR~~~~~ 147 (179)
...||.|++++.-
T Consensus 6 ~v~CP~C~k~~~w 18 (62)
T PRK00418 6 TVNCPTCGKPVEW 18 (62)
T ss_pred cccCCCCCCcccc
Confidence 3469999998753
No 222
>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=33.29 E-value=27 Score=21.29 Aligned_cols=15 Identities=40% Similarity=0.981 Sum_probs=11.9
Q ss_pred CCCCCcccccccccc
Q 030350 134 HHKTCPLCRAPLLTY 148 (179)
Q Consensus 134 ~~~~CP~CR~~~~~~ 148 (179)
+|+.||.|-.++.++
T Consensus 2 ~HkHC~~CG~~Ip~~ 16 (59)
T PF09889_consen 2 PHKHCPVCGKPIPPD 16 (59)
T ss_pred CCCcCCcCCCcCCcc
Confidence 377899998888764
No 223
>KOG4080 consensus Mitochondrial ribosomal protein L32 [Translation, ribosomal structure and biogenesis]
Probab=33.28 E-value=14 Score=27.43 Aligned_cols=12 Identities=25% Similarity=0.473 Sum_probs=7.2
Q ss_pred CCeeeEccCCCC
Q 030350 108 DDLVRELRNCCH 119 (179)
Q Consensus 108 ~~~~~~l~~C~H 119 (179)
.+.+..++.|||
T Consensus 90 k~nl~~CP~CGh 101 (176)
T KOG4080|consen 90 KDNLNTCPACGH 101 (176)
T ss_pred hhccccCcccCc
Confidence 344556667776
No 224
>KOG3816 consensus Cell differentiation regulator of the Headcase family [Signal transduction mechanisms]
Probab=33.26 E-value=63 Score=27.51 Aligned_cols=28 Identities=18% Similarity=0.548 Sum_probs=21.0
Q ss_pred cccccccccCCeeeEccCCCCcccHHhHHHHH
Q 030350 99 AVCLNHMEEDDLVRELRNCCHVFHRECIDRWV 130 (179)
Q Consensus 99 ~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl 130 (179)
.||.-.....+.. +|+-..|..|+..|=
T Consensus 92 ~~C~~VvCNNE~C----~~~~~MH~qCF~~WE 119 (526)
T KOG3816|consen 92 LICSFVVCNNEHC----PCSTWMHLQCFYEWE 119 (526)
T ss_pred hhceEEeecCCCC----ChhhHHHHHHHHHHH
Confidence 3666665555554 799999999999885
No 225
>TIGR02866 CoxB cytochrome c oxidase, subunit II. Cytochrome c oxidase is the terminal electron acceptor of mitochondria (and one of several possible acceptors in prokaryotes) in the electron transport chain of aerobic respiration. The enzyme couples the oxidation of reduced cytochrome c with the reduction of molecular oxygen to water. This process results in the pumping of four protons across the membrane which are used in the proton gradient powered synthesis of ATP. The oxidase contains two heme a cofactors and three copper atoms as well as other bound ions.
Probab=33.11 E-value=77 Score=24.02 Aligned_cols=25 Identities=8% Similarity=0.371 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcC
Q 030350 15 FLYRAAVVIALLRWVLFCIIRFRNR 39 (179)
Q Consensus 15 ~i~~~~i~i~v~~~i~~~~~~~~~~ 39 (179)
+.+.+++++.+...+++.++|+|++
T Consensus 17 ~~i~~iI~v~V~~~l~~~~~k~r~~ 41 (201)
T TIGR02866 17 LAVATTISLLVAALLAYVVWKFRRK 41 (201)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhhcc
Confidence 3334444444545555555555543
No 226
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=32.22 E-value=27 Score=25.96 Aligned_cols=25 Identities=28% Similarity=0.618 Sum_probs=15.1
Q ss_pred eeEccCCCCcccHHhHHHHHhcCCCCCCcccccc
Q 030350 111 VRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAP 144 (179)
Q Consensus 111 ~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~ 144 (179)
+.+++.|||.+-. . .-..||+|.++
T Consensus 134 ~~vC~vCGy~~~g-------e--~P~~CPiCga~ 158 (166)
T COG1592 134 VWVCPVCGYTHEG-------E--APEVCPICGAP 158 (166)
T ss_pred EEEcCCCCCcccC-------C--CCCcCCCCCCh
Confidence 5555678885332 1 14569999764
No 227
>PF07423 DUF1510: Protein of unknown function (DUF1510); InterPro: IPR009988 This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown.
Probab=31.92 E-value=57 Score=25.39 Aligned_cols=23 Identities=17% Similarity=0.128 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 030350 15 FLYRAAVVIALLRWVLFCIIRFR 37 (179)
Q Consensus 15 ~i~~~~i~i~v~~~i~~~~~~~~ 37 (179)
.+|.++|.|+++.+|++.+..+.
T Consensus 14 ~iLNiaI~IV~lLIiiva~~lf~ 36 (217)
T PF07423_consen 14 KILNIAIGIVSLLIIIVAYQLFF 36 (217)
T ss_pred hhHHHHHHHHHHHHHHHhhhhee
Confidence 45555555555544444444444
No 228
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=31.75 E-value=18 Score=33.49 Aligned_cols=51 Identities=12% Similarity=0.371 Sum_probs=33.4
Q ss_pred CcccccccccccccCCeeeEccCCCCcccHHhHHHHHhc----CCCCCCcccccccc
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDY----DHHKTCPLCRAPLL 146 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~----~~~~~CP~CR~~~~ 146 (179)
....|..|..... ....+++.|++.+|..|+..|..+ .....|++|+..-.
T Consensus 228 ~~~mC~~C~~tlf--n~hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~~C~ 282 (889)
T KOG1356|consen 228 IREMCDRCETTLF--NIHWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWLKCN 282 (889)
T ss_pred cchhhhhhccccc--ceeEEccccCCeeeecchhhccccchHhHhhhhhhHHHHhcC
Confidence 4457888876633 234556689999999999999622 11234777765443
No 229
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=31.59 E-value=50 Score=23.77 Aligned_cols=14 Identities=36% Similarity=0.574 Sum_probs=11.3
Q ss_pred CCCCcccccccccc
Q 030350 135 HKTCPLCRAPLLTY 148 (179)
Q Consensus 135 ~~~CP~CR~~~~~~ 148 (179)
...||.|...+...
T Consensus 123 ~f~Cp~Cg~~l~~~ 136 (147)
T smart00531 123 TFTCPRCGEELEED 136 (147)
T ss_pred cEECCCCCCEEEEc
Confidence 47799999988764
No 230
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=31.49 E-value=62 Score=21.73 Aligned_cols=36 Identities=19% Similarity=0.204 Sum_probs=29.2
Q ss_pred cccccccccccccCCeeeEccCCCCcccHHhHHHHHhc
Q 030350 95 PDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDY 132 (179)
Q Consensus 95 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~ 132 (179)
...|.||-+....+...... + .-..|.+|+..-..+
T Consensus 6 ewkC~VCg~~iieGqkFTF~-~-kGsVH~eCl~~s~~~ 41 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFT-K-KGSVHYECLAESKRK 41 (103)
T ss_pred eeeEeeeCCEeeeccEEEEe-e-CCcchHHHHHHHHhc
Confidence 45899999999999877655 5 556899999887765
No 231
>PF08496 Peptidase_S49_N: Peptidase family S49 N-terminal; InterPro: IPR013703 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. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This domain is found to the N terminus of bacterial signal peptidases that belong to the MEROPS peptidase family S49 (protease IV family, clan SK) (see also IPR002142 from INTERPRO) [, ]. ; GO: 0004252 serine-type endopeptidase activity, 0005886 plasma membrane
Probab=30.81 E-value=43 Score=24.55 Aligned_cols=17 Identities=12% Similarity=0.286 Sum_probs=7.2
Q ss_pred chhHHHHHHHHHHHHHH
Q 030350 9 TLITSQFLYRAAVVIAL 25 (179)
Q Consensus 9 ~~~i~~~i~~~~i~i~v 25 (179)
++|+...+..++.++++
T Consensus 8 glFlaK~vTvVvaI~~v 24 (155)
T PF08496_consen 8 GLFLAKIVTVVVAILAV 24 (155)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 44444444433333333
No 232
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=30.75 E-value=24 Score=32.21 Aligned_cols=35 Identities=26% Similarity=0.534 Sum_probs=24.6
Q ss_pred eeEccCCCCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 111 VRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 111 ~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
+..++.|.-.||.+=++--..+ +..||.||..-.+
T Consensus 1044 it~Cp~C~~~F~~eDFEl~vLq--KGHCPFCrTS~dd 1078 (1081)
T KOG1538|consen 1044 ITMCPSCFQMFHSEDFELLVLQ--KGHCPFCRTSKDD 1078 (1081)
T ss_pred hhhCchHHhhhccchhhHHHHh--cCCCCcccccccC
Confidence 3345577778887766666665 6789999986554
No 233
>PF00558 Vpu: Vpu protein; InterPro: IPR008187 The Human immunodeficiency virus 1 (HIV-1) Vpu protein acts in the degradation of CD4 in the endoplasmic reticulum and in the enhancement of virion release from the plasma membrane of infected cells [].; GO: 0019076 release of virus from host; PDB: 2JPX_A 1PI8_A 2GOH_A 2GOF_A 1PI7_A 1PJE_A 1VPU_A 2K7Y_A.
Probab=30.49 E-value=86 Score=20.41 Aligned_cols=9 Identities=33% Similarity=0.527 Sum_probs=3.3
Q ss_pred HHHHHHHHH
Q 030350 17 YRAAVVIAL 25 (179)
Q Consensus 17 ~~~~i~i~v 25 (179)
+.+++++++
T Consensus 12 liv~~iiaI 20 (81)
T PF00558_consen 12 LIVALIIAI 20 (81)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
Confidence 333333333
No 234
>PF05702 Herpes_UL49_5: Herpesvirus UL49.5 envelope/tegument protein; InterPro: IPR008647 UL49.5 protein consists of 98 amino acids with a calculated molecular mass of 10,155 Da. It contains putative signal peptide and transmembrane domains but lacks a consensus sequence for N glycosylation. UL49.5 protein is an O-glycosylated structural component of the viral envelope [].
Probab=30.42 E-value=1.7e+02 Score=19.70 Aligned_cols=36 Identities=25% Similarity=0.275 Sum_probs=19.9
Q ss_pred CccCCCCchhH-HHHHHHHHHHHHHHHHHHHHHHHHh
Q 030350 2 GFFEDDPTLIT-SQFLYRAAVVIALLRWVLFCIIRFR 37 (179)
Q Consensus 2 gf~~~~~~~~i-~~~i~~~~i~i~v~~~i~~~~~~~~ 37 (179)
|+|+..+.... .+++-.+.+.++++.......+|..
T Consensus 53 Gv~i~~~s~asV~FY~sL~aV~vall~~aY~aCfRlf 89 (98)
T PF05702_consen 53 GVPIDFPSAASVLFYVSLLAVCVALLAYAYRACFRLF 89 (98)
T ss_pred ceecCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 78887765553 4444445555555555544444544
No 235
>PRK05978 hypothetical protein; Provisional
Probab=30.16 E-value=27 Score=25.43 Aligned_cols=23 Identities=13% Similarity=0.424 Sum_probs=17.6
Q ss_pred CCcccHHhHHHHHhcCCCCCCccccccccc
Q 030350 118 CHVFHRECIDRWVDYDHHKTCPLCRAPLLT 147 (179)
Q Consensus 118 ~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~ 147 (179)
|+.|+ .+++- +..||.|-.++..
T Consensus 42 G~LF~-----g~Lkv--~~~C~~CG~~~~~ 64 (148)
T PRK05978 42 GKLFR-----AFLKP--VDHCAACGEDFTH 64 (148)
T ss_pred Ccccc-----ccccc--CCCccccCCcccc
Confidence 36675 67777 8899999888865
No 236
>PRK11827 hypothetical protein; Provisional
Probab=29.95 E-value=17 Score=22.19 Aligned_cols=19 Identities=21% Similarity=0.405 Sum_probs=13.0
Q ss_pred HHHhcCCCCCCcccccccccc
Q 030350 128 RWVDYDHHKTCPLCRAPLLTY 148 (179)
Q Consensus 128 ~wl~~~~~~~CP~CR~~~~~~ 148 (179)
+|+.. --.||.|+.++.-.
T Consensus 3 ~~LLe--ILaCP~ckg~L~~~ 21 (60)
T PRK11827 3 HRLLE--IIACPVCNGKLWYN 21 (60)
T ss_pred hHHHh--heECCCCCCcCeEc
Confidence 44444 45699999988654
No 237
>TIGR01433 CyoA cytochrome o ubiquinol oxidase subunit II. This enzyme catalyzes the oxidation of ubiquinol with the concomitant reduction of molecular oxygen to water. This acts as the terminal electron acceptor in the respiratory chain. Subunit II is responsible for binding and oxidation of the ubiquinone substrate. This sequence is closely related to QoxA, which oxidizes quinol in gram positive bacteria but which is in complex with subunits which utilize cytochromes a in the reduction of molecular oxygen. Slightly more distantly related is subunit II of cytochrome c oxidase which uses cyt. c as the oxidant.
Probab=29.64 E-value=28 Score=27.18 Aligned_cols=24 Identities=25% Similarity=0.329 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcC
Q 030350 16 LYRAAVVIALLRWVLFCIIRFRNR 39 (179)
Q Consensus 16 i~~~~i~i~v~~~i~~~~~~~~~~ 39 (179)
++.+++++.++..++++++|+|++
T Consensus 37 ~~~~ii~v~v~~~~~~~~~r~r~~ 60 (226)
T TIGR01433 37 GLMLLVVIPVILMTLFFAWKYRAT 60 (226)
T ss_pred HHHHHHHHHHHHHHheeeEEEecc
Confidence 333344444444445555555544
No 238
>PRK10525 cytochrome o ubiquinol oxidase subunit II; Provisional
Probab=29.50 E-value=22 Score=29.29 Aligned_cols=30 Identities=23% Similarity=0.241 Sum_probs=15.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 030350 11 ITSQFLYRAAVVIALLRWVLFCIIRFRNRN 40 (179)
Q Consensus 11 ~i~~~i~~~~i~i~v~~~i~~~~~~~~~~~ 40 (179)
++..+.+.+++++.++..++++++|+|.++
T Consensus 44 i~~~~~~~liv~i~V~~l~~~f~~ryR~~~ 73 (315)
T PRK10525 44 ILTAFGLMLIVVIPAILMAVGFAWKYRASN 73 (315)
T ss_pred HHHHHHHHHhhHHHHHHHHheeEEEEecCC
Confidence 333344444455555545555566666543
No 239
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=29.29 E-value=1.6e+02 Score=18.84 Aligned_cols=31 Identities=10% Similarity=0.109 Sum_probs=16.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 030350 11 ITSQFLYRAAVVIALLRWVLFCIIRFRNRNS 41 (179)
Q Consensus 11 ~i~~~i~~~~i~i~v~~~i~~~~~~~~~~~~ 41 (179)
++...+..++++++.+..++.+.-+.+..++
T Consensus 5 fl~~plivf~ifVap~WL~lHY~sk~~~~~g 35 (75)
T PF06667_consen 5 FLFVPLIVFMIFVAPIWLILHYRSKWKSSQG 35 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcccCCC
Confidence 3444444445555555556666655544444
No 240
>PF12297 EVC2_like: Ellis van Creveld protein 2 like protein; InterPro: IPR022076 This family of proteins is found in eukaryotes. Proteins in this family are typically between 571 and 1310 amino acids in length. There are two conserved sequence motifs: LPA and ELH. EVC2 is implicated in Ellis van Creveld chondrodysplastic dwarfism in humans. Mutations in this protein can give rise to this congenital condition. LIMBIN is a protein which shares around 80% sequence homology with EVC2 and it is implicated in a similar condition in bovine chondrodysplastic dwarfism.
Probab=29.28 E-value=1.1e+02 Score=26.31 Aligned_cols=33 Identities=21% Similarity=0.251 Sum_probs=23.4
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 030350 9 TLITSQFLYRAAVVIALLRWVLFCIIRFRNRNS 41 (179)
Q Consensus 9 ~~~i~~~i~~~~i~i~v~~~i~~~~~~~~~~~~ 41 (179)
|+....+++++++.+++.+..++++.+.++...
T Consensus 64 GlhaagFfvaflvslVL~~l~~f~l~r~~~l~~ 96 (429)
T PF12297_consen 64 GLHAAGFFVAFLVSLVLTWLCFFLLARTRCLQG 96 (429)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHccccc
Confidence 456667777777777777777777777766654
No 241
>TIGR01432 QOXA cytochrome aa3 quinol oxidase, subunit II. This enzyme catalyzes the oxidation of quinol with the concomitant reduction of molecular oxygen to water. This acts as the terminal electron acceptor in the respiratory chain. This subunit contains two transmembrane helices and a large external domain responsible for the binding and oxidation of quinol. QuoX is (presently) only found in gram positive bacteria of the Bacillus/Staphylococcus group. Like CyoA, the ubiquinol oxidase found in proteobacteria, the residues responsible for the ligation of Cu(a) and cytochrome c (found in the related cyt. c oxidases) are absent. Unlike CyoA, QoxA is in complex with a subunit I which contains cytochromes a similar to the cyt. c oxidases (as opposed to cytochromes b).
Probab=28.96 E-value=1.2e+02 Score=23.33 Aligned_cols=17 Identities=12% Similarity=0.446 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHhcCC
Q 030350 24 ALLRWVLFCIIRFRNRN 40 (179)
Q Consensus 24 ~v~~~i~~~~~~~~~~~ 40 (179)
.++..+++++.|+++++
T Consensus 36 vv~~lli~~~~kyr~r~ 52 (217)
T TIGR01432 36 VVFVLFTIFLVKYRYRK 52 (217)
T ss_pred HHHHHHHHHHHHHHhcc
Confidence 33334445555665443
No 242
>PF04971 Lysis_S: Lysis protein S ; InterPro: IPR007054 The lysis S protein is a cytotoxic protein forming holes in membranes causing cell lysis. The action of Lysis S is independent of the proportion of acidic phospholipids in the membrane [].
Probab=28.47 E-value=87 Score=19.64 Aligned_cols=26 Identities=8% Similarity=0.169 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCC
Q 030350 16 LYRAAVVIALLRWVLFCIIRFRNRNS 41 (179)
Q Consensus 16 i~~~~i~i~v~~~i~~~~~~~~~~~~ 41 (179)
-+...++++++.++..++++.+..+|
T Consensus 37 Gvi~gi~~~~lt~ltN~YFK~k~drr 62 (68)
T PF04971_consen 37 GVIGGIFFGLLTYLTNLYFKIKEDRR 62 (68)
T ss_pred HHHHHHHHHHHHHHhHhhhhhhHhhh
Confidence 33344555666677777776665544
No 243
>PRK13415 flagella biosynthesis protein FliZ; Provisional
Probab=28.42 E-value=1.2e+02 Score=23.68 Aligned_cols=24 Identities=13% Similarity=0.092 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 030350 12 TSQFLYRAAVVIALLRWVLFCIIR 35 (179)
Q Consensus 12 i~~~i~~~~i~i~v~~~i~~~~~~ 35 (179)
+..++++++++|++++++..|+.+
T Consensus 68 l~qmi~aL~~VI~Liy~l~rwL~r 91 (219)
T PRK13415 68 FVKLIGATLFVIFLIYALVKWLNK 91 (219)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555555555555555445544
No 244
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=28.25 E-value=21 Score=35.36 Aligned_cols=52 Identities=23% Similarity=0.453 Sum_probs=38.9
Q ss_pred CCcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCC--CCCCccccccc
Q 030350 93 WVPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDH--HKTCPLCRAPL 145 (179)
Q Consensus 93 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~--~~~CP~CR~~~ 145 (179)
.....|.+|.....+...+... .|.-.||..|+..-+.... .=.||-||..-
T Consensus 1106 ~~~~~c~~cr~k~~~~~m~lc~-~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1106 AVNALCKVCRRKKQDEKMLLCD-ECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred cchhhhhhhhhcccchhhhhhH-hhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 3566899999998875554333 6889999999999887631 23499998765
No 245
>PF13179 DUF4006: Family of unknown function (DUF4006)
Probab=27.93 E-value=1.5e+02 Score=18.46 Aligned_cols=26 Identities=12% Similarity=0.434 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030350 12 TSQFLYRAAVVIALLRWVLFCIIRFR 37 (179)
Q Consensus 12 i~~~i~~~~i~i~v~~~i~~~~~~~~ 37 (179)
+.-.+++++++++++.++-++.+...
T Consensus 13 i~G~LIAvvLLLsIl~~lt~~ai~~Q 38 (66)
T PF13179_consen 13 ITGMLIAVVLLLSILAFLTYWAIKVQ 38 (66)
T ss_pred hHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556666666666666666665543
No 246
>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=27.91 E-value=13 Score=20.78 Aligned_cols=25 Identities=28% Similarity=0.575 Sum_probs=14.2
Q ss_pred CCCCcccHHhHHHHHhcCCCCCCccccc
Q 030350 116 NCCHVFHRECIDRWVDYDHHKTCPLCRA 143 (179)
Q Consensus 116 ~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~ 143 (179)
.|||.|-...- --. .....||.|..
T Consensus 10 ~Cg~~fe~~~~--~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQS--ISE-DDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEE--cCC-CCCCcCCCCCC
Confidence 57777664321 111 12556999987
No 247
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=27.62 E-value=58 Score=22.15 Aligned_cols=35 Identities=20% Similarity=0.316 Sum_probs=27.2
Q ss_pred ccccccccccccCCeeeEccCCCCcccHHhHHHHHhc
Q 030350 96 DTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDY 132 (179)
Q Consensus 96 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~ 132 (179)
..|.||-.++..|........ -..|..|+..-...
T Consensus 3 WkC~iCg~~I~~gqlFTF~~k--G~VH~~C~~~~~~~ 37 (101)
T PF09943_consen 3 WKCYICGKPIYEGQLFTFTKK--GPVHYECFREKASK 37 (101)
T ss_pred eEEEecCCeeeecceEEEecC--CcEeHHHHHHHHhh
Confidence 379999999999887665533 55899999877654
No 248
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=27.58 E-value=36 Score=20.68 Aligned_cols=16 Identities=19% Similarity=0.505 Sum_probs=13.2
Q ss_pred CCCCCccccccccccc
Q 030350 134 HHKTCPLCRAPLLTYL 149 (179)
Q Consensus 134 ~~~~CP~CR~~~~~~~ 149 (179)
.|+.|++|-+.++++.
T Consensus 7 PH~HC~VCg~aIp~de 22 (64)
T COG4068 7 PHRHCVVCGKAIPPDE 22 (64)
T ss_pred CCccccccCCcCCCcc
Confidence 3778999999998864
No 249
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=27.30 E-value=49 Score=28.74 Aligned_cols=53 Identities=19% Similarity=0.415 Sum_probs=33.2
Q ss_pred Ccccccccccc-cccCCeeeEccCCCCcccHHhHHHHHhc----CC--CCCCcccccccc
Q 030350 94 VPDTCAVCLNH-MEEDDLVRELRNCCHVFHRECIDRWVDY----DH--HKTCPLCRAPLL 146 (179)
Q Consensus 94 ~~~~C~ICl~~-~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~----~~--~~~CP~CR~~~~ 146 (179)
.+..|.+|... .-....+..+..|+-.||..|....... +. ...|-.|+....
T Consensus 167 ~n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~~ 226 (464)
T KOG4323|consen 167 VNLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGPK 226 (464)
T ss_pred ccceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccchh
Confidence 45569999954 3444455555688899999996544422 11 123888876543
No 250
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=27.24 E-value=15 Score=26.37 Aligned_cols=15 Identities=20% Similarity=0.536 Sum_probs=10.6
Q ss_pred CCcccccccccc-ccc
Q 030350 93 WVPDTCAVCLNH-MEE 107 (179)
Q Consensus 93 ~~~~~C~ICl~~-~~~ 107 (179)
+.+.+|-||+.. |.+
T Consensus 63 ~ddatC~IC~KTKFAD 78 (169)
T KOG3799|consen 63 GDDATCGICHKTKFAD 78 (169)
T ss_pred CcCcchhhhhhccccc
Confidence 356699999876 444
No 251
>PF15048 OSTbeta: Organic solute transporter subunit beta protein
Probab=27.09 E-value=1.3e+02 Score=21.26 Aligned_cols=11 Identities=18% Similarity=0.063 Sum_probs=4.2
Q ss_pred HHHHHHHHHHH
Q 030350 12 TSQFLYRAAVV 22 (179)
Q Consensus 12 i~~~i~~~~i~ 22 (179)
+..+.++++++
T Consensus 37 ysiL~Ls~vvl 47 (125)
T PF15048_consen 37 YSILALSFVVL 47 (125)
T ss_pred hHHHHHHHHHH
Confidence 33333333333
No 252
>PF13937 DUF4212: Domain of unknown function (DUF4212)
Probab=26.88 E-value=86 Score=20.35 Aligned_cols=7 Identities=29% Similarity=-0.040 Sum_probs=4.3
Q ss_pred CCccCCC
Q 030350 1 MGFFEDD 7 (179)
Q Consensus 1 ~gf~~~~ 7 (179)
.|||.+|
T Consensus 42 ~GfPlgf 48 (81)
T PF13937_consen 42 GGFPLGF 48 (81)
T ss_pred CCCChHH
Confidence 3677666
No 253
>PHA03286 envelope glycoprotein E; Provisional
Probab=26.57 E-value=81 Score=27.36 Aligned_cols=31 Identities=23% Similarity=0.309 Sum_probs=13.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 030350 11 ITSQFLYRAAVVIALLRWVLFCIIRFRNRNS 41 (179)
Q Consensus 11 ~i~~~i~~~~i~i~v~~~i~~~~~~~~~~~~ 41 (179)
++..+.+.+++++.++.+.+.+++|.+++++
T Consensus 392 l~~s~~~~~~~~~~~~~~~~~~~~~r~~~~r 422 (492)
T PHA03286 392 LVSSMAAGAILVVLLFALCIAGLYRRRRRHR 422 (492)
T ss_pred HHHHHHHHHHHHHHHHHHHhHhHhhhhhhhh
Confidence 3334444444444444444445555444433
No 254
>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=26.56 E-value=41 Score=29.05 Aligned_cols=71 Identities=14% Similarity=0.191 Sum_probs=42.5
Q ss_pred Cccccccc-ccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccccccccccCCCCCCCCCcHHHHHHHHH
Q 030350 94 VPDTCAVC-LNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLTYLQSKSLNNWPKNEPNWAVERILYI 172 (179)
Q Consensus 94 ~~~~C~IC-l~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 172 (179)
++..|++| .+.|.+...+.. -|.-.|+..||.+-+..+....|.-|...-... ..+.+++-.++.+..
T Consensus 218 e~~~c~~~~~~~~~~~~l~~~--~~~~~~~~~~i~~~l~~~~~~~c~~~~~~~~~~---------~~p~~~r~~~n~~~a 286 (448)
T KOG0314|consen 218 EGLQCPLCGKEVMLDAALLSK--CCLKSFCDKCIRDALISKSMCVCGASNVLADDL---------LPPKTLRDTINRILA 286 (448)
T ss_pred ccccCceecchhhHHHHHhhh--hhcccCCccccccccccccCCcchhhccccccc---------CCchhhHHHHHHHHh
Confidence 66789999 666665444433 378999999998888753323344443222111 345555666666666
Q ss_pred hcC
Q 030350 173 FGD 175 (179)
Q Consensus 173 ~~~ 175 (179)
++.
T Consensus 287 ~~n 289 (448)
T KOG0314|consen 287 SGN 289 (448)
T ss_pred hhc
Confidence 554
No 255
>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=26.53 E-value=53 Score=26.39 Aligned_cols=44 Identities=20% Similarity=0.430 Sum_probs=25.7
Q ss_pred ccccccccccccCCeeeEccCCC-CcccHHhHHHHHhcCCCCCCcc
Q 030350 96 DTCAVCLNHMEEDDLVRELRNCC-HVFHRECIDRWVDYDHHKTCPL 140 (179)
Q Consensus 96 ~~C~ICl~~~~~~~~~~~l~~C~-H~Fh~~Ci~~wl~~~~~~~CP~ 140 (179)
..|.||++.-..+..-..|..=+ =.=|++|+++|=..- +..||-
T Consensus 31 sfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIa-nQ~~pr 75 (285)
T PF06937_consen 31 SFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIA-NQDCPR 75 (285)
T ss_pred eecceeeccccccCccccccccccccchHHHHHHHHHHH-cCCCCc
Confidence 45788877765554322111111 146899999996542 456883
No 256
>PHA03099 epidermal growth factor-like protein (EGF-like protein); Provisional
Probab=26.48 E-value=67 Score=22.87 Aligned_cols=15 Identities=27% Similarity=0.060 Sum_probs=5.7
Q ss_pred hhHHHHHHHHHHHHH
Q 030350 10 LITSQFLYRAAVVIA 24 (179)
Q Consensus 10 ~~i~~~i~~~~i~i~ 24 (179)
++...+++.+++.|.
T Consensus 100 Yia~~~il~il~~i~ 114 (139)
T PHA03099 100 YIPSPGIVLVLVGII 114 (139)
T ss_pred hhhhhHHHHHHHHHH
Confidence 333333344333333
No 257
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=26.20 E-value=29 Score=21.21 Aligned_cols=13 Identities=38% Similarity=1.096 Sum_probs=9.9
Q ss_pred CCCcccccccccc
Q 030350 136 KTCPLCRAPLLTY 148 (179)
Q Consensus 136 ~~CP~CR~~~~~~ 148 (179)
-.||.||.++.-.
T Consensus 9 LaCP~~kg~L~~~ 21 (60)
T COG2835 9 LACPVCKGPLVYD 21 (60)
T ss_pred eeccCcCCcceEe
Confidence 3599999997554
No 258
>KOG2789 consensus Putative Zn-finger protein [General function prediction only]
Probab=25.92 E-value=21 Score=30.24 Aligned_cols=33 Identities=15% Similarity=0.446 Sum_probs=24.3
Q ss_pred ccccccccccccCCeeeEccCCCCcccHHhHHHHH
Q 030350 96 DTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWV 130 (179)
Q Consensus 96 ~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl 130 (179)
.+|+||+-.+.......+ -|.-..|..|+.+.-
T Consensus 75 ~ecpicflyyps~~n~~r--cC~~~Ic~ecf~~~~ 107 (482)
T KOG2789|consen 75 TECPICFLYYPSAKNLVR--CCSETICGECFAPFG 107 (482)
T ss_pred ccCceeeeecccccchhh--hhccchhhhheeccc
Confidence 489999999877444333 388888888876654
No 259
>PF12877 DUF3827: Domain of unknown function (DUF3827); InterPro: IPR024606 The function of the proteins in this entry is not currently known, but one of the human proteins (Q9HCM3 from SWISSPROT) has been implicated in pilocytic astrocytomas [, , ]. In the majority of cases of pilocytic astrocytomas a tandem duplication produces an in-frame fusion of the gene encoding this protein and the BRAF oncogene. The resulting fusion protein has constitutive BRAF kinase activity and is capable of transforming cells.
Probab=25.86 E-value=72 Score=28.94 Aligned_cols=16 Identities=19% Similarity=0.538 Sum_probs=7.3
Q ss_pred HHHHHHHHhcCCCCCC
Q 030350 29 VLFCIIRFRNRNSYSP 44 (179)
Q Consensus 29 i~~~~~~~~~~~~~~~ 44 (179)
|++|.+-.+++..+.+
T Consensus 288 il~~~LCRk~K~eFqp 303 (684)
T PF12877_consen 288 ILYWKLCRKNKLEFQP 303 (684)
T ss_pred HHHHHHhcccccCCCc
Confidence 4445544444444443
No 260
>PF15353 HECA: Headcase protein family homologue
Probab=25.41 E-value=46 Score=22.81 Aligned_cols=17 Identities=35% Similarity=0.888 Sum_probs=13.8
Q ss_pred CCCCcccHHhHHHHHhc
Q 030350 116 NCCHVFHRECIDRWVDY 132 (179)
Q Consensus 116 ~C~H~Fh~~Ci~~wl~~ 132 (179)
+.++..|..|++.|=..
T Consensus 39 p~~~~MH~~CF~~wE~~ 55 (107)
T PF15353_consen 39 PFGQYMHRECFEKWEDS 55 (107)
T ss_pred CCCCchHHHHHHHHHHH
Confidence 45789999999999643
No 261
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=25.34 E-value=47 Score=21.35 Aligned_cols=32 Identities=19% Similarity=0.565 Sum_probs=21.4
Q ss_pred cccccccccccccCCeee-EccCCCCcccHHhHHH
Q 030350 95 PDTCAVCLNHMEEDDLVR-ELRNCCHVFHRECIDR 128 (179)
Q Consensus 95 ~~~C~ICl~~~~~~~~~~-~l~~C~H~Fh~~Ci~~ 128 (179)
...|.+|-.. .|..+. ..+.|...||..|...
T Consensus 36 ~~~C~~C~~~--~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 36 KLKCSICKKK--GGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred CCCCcCCCCC--CCeEEEEeCCCCCcEEChHHHcc
Confidence 3489999866 333332 2337899999999643
No 262
>PF15468 DUF4636: Domain of unknown function (DUF4636)
Probab=25.27 E-value=1.9e+02 Score=22.56 Aligned_cols=25 Identities=28% Similarity=0.321 Sum_probs=16.7
Q ss_pred CCCchhHHHHHHHHHHHHHHHHHHH
Q 030350 6 DDPTLITSQFLYRAAVVIALLRWVL 30 (179)
Q Consensus 6 ~~~~~~i~~~i~~~~i~i~v~~~i~ 30 (179)
++++-++..|++..+++|.||.++.
T Consensus 32 Ddsc~~iG~fLlWyfviilvLm~~~ 56 (243)
T PF15468_consen 32 DDSCGAIGSFLLWYFVIILVLMFFS 56 (243)
T ss_pred CCccchhhhHHHHHHHHHHHHHHHH
Confidence 4566777788888777666655443
No 263
>PRK01343 zinc-binding protein; Provisional
Probab=25.24 E-value=42 Score=20.30 Aligned_cols=12 Identities=33% Similarity=0.919 Sum_probs=9.5
Q ss_pred CCCCcccccccc
Q 030350 135 HKTCPLCRAPLL 146 (179)
Q Consensus 135 ~~~CP~CR~~~~ 146 (179)
...||.|++++.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 467999999864
No 264
>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=24.87 E-value=42 Score=23.10 Aligned_cols=24 Identities=17% Similarity=0.263 Sum_probs=14.4
Q ss_pred cccccccccccCC-eeeEccCCCCc
Q 030350 97 TCAVCLNHMEEDD-LVRELRNCCHV 120 (179)
Q Consensus 97 ~C~ICl~~~~~~~-~~~~l~~C~H~ 120 (179)
.||-|-.+|.-.+ .+..++.|+|.
T Consensus 4 ~CP~C~seytY~dg~~~iCpeC~~E 28 (109)
T TIGR00686 4 PCPKCNSEYTYHDGTQLICPSCLYE 28 (109)
T ss_pred cCCcCCCcceEecCCeeECcccccc
Confidence 6888888865433 23344456663
No 265
>COG4736 CcoQ Cbb3-type cytochrome oxidase, subunit 3 [Posttranslational modification, protein turnover, chaperones]
Probab=24.63 E-value=98 Score=18.90 Aligned_cols=15 Identities=13% Similarity=0.157 Sum_probs=7.0
Q ss_pred HHHHHHHHHHhcCCC
Q 030350 27 RWVLFCIIRFRNRNS 41 (179)
Q Consensus 27 ~~i~~~~~~~~~~~~ 41 (179)
..++++++|..++.+
T Consensus 23 iavi~~ayr~~~K~~ 37 (60)
T COG4736 23 IAVIYFAYRPGKKGE 37 (60)
T ss_pred HHHHHHHhcccchhh
Confidence 334455555444433
No 266
>PTZ00186 heat shock 70 kDa precursor protein; Provisional
Probab=24.55 E-value=53 Score=29.87 Aligned_cols=17 Identities=82% Similarity=0.761 Sum_probs=7.4
Q ss_pred CCCCCchhHHHHHHhhc
Q 030350 45 SSSSSSQQQQQQQQQQQ 61 (179)
Q Consensus 45 ~~~~~~~~~~~~~~q~~ 61 (179)
+++.+.+++|+|+|||+
T Consensus 634 ~~~~~~~~~~~~~~~~~ 650 (657)
T PTZ00186 634 SSSNSGEQQQQQQQQQQ 650 (657)
T ss_pred CCCCchHHHHHHHHHHh
Confidence 33444444444444443
No 267
>PF10669 Phage_Gp23: Protein gp23 (Bacteriophage A118); InterPro: IPR018926 This entry is represented by the major tail subunit protein, Gp23 of Listeria phage A118 and prophage found in Bacilli. The function is currently unknown.
Probab=24.46 E-value=1.4e+02 Score=20.09 Aligned_cols=19 Identities=16% Similarity=0.333 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 030350 12 TSQFLYRAAVVIALLRWVL 30 (179)
Q Consensus 12 i~~~i~~~~i~i~v~~~i~ 30 (179)
+..+.+.++++++++..++
T Consensus 13 l~K~~~FA~L~i~~FiILL 31 (121)
T PF10669_consen 13 LTKIMFFAFLFIVVFIILL 31 (121)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4444455555555444433
No 268
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=24.44 E-value=1.2e+02 Score=25.17 Aligned_cols=65 Identities=15% Similarity=0.199 Sum_probs=38.1
Q ss_pred hhccccccccccccCCCCcccccccccccccCCe----------eeEccCCCCcccHHhHHHHHhcCCCCCCccccc
Q 030350 77 ERLVLASFGDIKVRMPWVPDTCAVCLNHMEEDDL----------VRELRNCCHVFHRECIDRWVDYDHHKTCPLCRA 143 (179)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~----------~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~ 143 (179)
..+|...|.+......-....|-.|...|..+.. --....|+..||..|=.---.. -..|+.|..
T Consensus 344 hL~PLk~f~E~p~~~~~ks~~Cf~CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~--Lh~C~gCe~ 418 (421)
T COG5151 344 HLYPLKPFVEKPEGTNPKSTHCFVCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCDVFIHET--LHFCIGCEL 418 (421)
T ss_pred hhccCcccccccCCCCCCCccceeccCCCCCCCCCcccccccccceechhhhhhhhhhhHHHHHHH--HhhCCCCcC
Confidence 3556666666554433344579999998865321 1123368888999993322222 334888853
No 269
>PF05084 GRA6: Granule antigen protein (GRA6); InterPro: IPR008119 Toxoplasma gondii is an obligate intracellular apicomplexan protozoan parasite, with a complex lifestyle involving varied hosts []. It has two phases of growth: an intestinal phase in feline hosts, and an extra-intestinal phase in other mammals. Oocysts from infected cats develop into tachyzoites, and eventually, bradyzoites and zoitocysts in the extraintestinal host []. Transmission of the parasite occurs through contact with infected cats or raw/undercooked meat; in immunocompromised individuals, it can cause severe and often lethal toxoplasmosis. Acute infection in healthy humans can sometimes also cause tissue damage []. The protozoan utilises a variety of secretory and antigenic proteins to invade a host and gain access to the intracellular environment []. These originate from distinct organelles in the T. gondii cell termed micronemes, rhoptries, and dense granules. They are released at specific times during invasion to ensure the proteins are allocated to their correct target destinations []. Dense granule antigens (GRAs) are released from the T. gondii tachyzoite while still encapsulated in a host vacuole. Gra6, one of these moieties, is associated with the parasitophorous vacuole []. It possesses a hydrophobic central region flanked by two hydrophilic domains, and is present as a single copy gene in the Toxoplasma gondii genome []. Gra6 shares a similar function with Gra2, in that it is rapidly targeted to a network of membranous tubules that connect with the vacuolar membrane []. Indeed, these two proteins, together with Gra4, form a multimeric complex that stabilises the parasite within the vacuole.
Probab=23.53 E-value=2.1e+02 Score=21.36 Aligned_cols=15 Identities=20% Similarity=0.321 Sum_probs=6.9
Q ss_pred HHHHHHHHHHhcCCC
Q 030350 27 RWVLFCIIRFRNRNS 41 (179)
Q Consensus 27 ~~i~~~~~~~~~~~~ 41 (179)
..++.+++|.+++++
T Consensus 164 A~L~~~F~RR~~rrs 178 (215)
T PF05084_consen 164 AMLTWFFLRRTGRRS 178 (215)
T ss_pred HHHHHHHHHhhccCC
Confidence 344444445444443
No 270
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=23.31 E-value=33 Score=28.21 Aligned_cols=46 Identities=17% Similarity=0.331 Sum_probs=26.9
Q ss_pred cccccccccccccCCeeeE--ccCCCCcccHHhHHHHHhcCCCCCCccccc
Q 030350 95 PDTCAVCLNHMEEDDLVRE--LRNCCHVFHRECIDRWVDYDHHKTCPLCRA 143 (179)
Q Consensus 95 ~~~C~ICl~~~~~~~~~~~--l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~ 143 (179)
...||+|=..=.... ++. -.+=.+.+|.-|-..|-.. +..||.|-.
T Consensus 187 ~~~CPvCGs~P~~s~-v~~~~~~G~RyL~CslC~teW~~~--R~~C~~Cg~ 234 (309)
T PRK03564 187 RQFCPVCGSMPVSSV-VQIGTTQGLRYLHCNLCESEWHVV--RVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCcchhhe-eeccCCCCceEEEcCCCCCccccc--CccCCCCCC
Confidence 458999977632110 100 0012345666677788776 778999965
No 271
>PF08113 CoxIIa: Cytochrome c oxidase subunit IIa family; InterPro: IPR012538 This family consists of the cytochrome c oxidase subunit IIa family. The bax-type cytochrome c oxidase from Thermus thermophilus is known as a two subunit enzyme. From its crystal structure, it was discovered that an additional transmembrane helix, subunit IIa, spans the membrane. This subunit consists of 34 residues forming one helix across the membrane. The presence of this subunit seems to be important for the function of cytochrome c oxidases [].; PDB: 2QPD_C 3QJR_C 3EH5_C 3BVD_C 3S39_C 3QJU_C 3QJS_C 4EV3_C 3QJT_C 4FA7_C ....
Probab=23.28 E-value=1.3e+02 Score=16.00 Aligned_cols=9 Identities=11% Similarity=0.512 Sum_probs=3.7
Q ss_pred HHHHHHHHH
Q 030350 26 LRWVLFCII 34 (179)
Q Consensus 26 ~~~i~~~~~ 34 (179)
+.+-+++++
T Consensus 22 FWfgvf~~f 30 (34)
T PF08113_consen 22 FWFGVFALF 30 (34)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHhh
Confidence 344444443
No 272
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=23.18 E-value=15 Score=31.44 Aligned_cols=60 Identities=23% Similarity=0.435 Sum_probs=42.3
Q ss_pred CcccccccccccccCCeeeEccCCCCcccHHhHHHHHhcCCCCCCcccccccccccccccCCCCCCCCCcHH
Q 030350 94 VPDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLTYLQSKSLNNWPKNEPNWA 165 (179)
Q Consensus 94 ~~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~~~~~~~~~~~~~~~~~~ 165 (179)
.+..|..|.+.|.+.-.+... .|..+.|.+ -.||-|-+.+.=.-...+...|.+..+..+
T Consensus 266 GdyiCqLCK~kYeD~F~LAQH-rC~RIV~vE-----------YrCPEC~KVFsCPANLASHRRWHKPR~eaa 325 (500)
T KOG3993|consen 266 GDYICQLCKEKYEDAFALAQH-RCPRIVHVE-----------YRCPECDKVFSCPANLASHRRWHKPRPEAA 325 (500)
T ss_pred HHHHHHHHHHhhhhHHHHhhc-cCCeeEEee-----------ecCCcccccccCchhhhhhhcccCCchhhh
Confidence 567899999999998777655 788887744 358888776654444455577777666543
No 273
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=23.11 E-value=51 Score=30.79 Aligned_cols=35 Identities=23% Similarity=0.386 Sum_probs=24.4
Q ss_pred ccccccccccccCC---eeeE--ccCCCCcccHHhHHHHH
Q 030350 96 DTCAVCLNHMEEDD---LVRE--LRNCCHVFHRECIDRWV 130 (179)
Q Consensus 96 ~~C~ICl~~~~~~~---~~~~--l~~C~H~Fh~~Ci~~wl 130 (179)
..|..|-..|..-. .+|+ +..||.+||..|-....
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnRs 500 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKRA 500 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCccccCccccCCcc
Confidence 46999999995321 1122 33799999999976654
No 274
>TIGR03647 Na_symport_sm probable solute:sodium symporter small subunit. Members of this family are highly hydrophobic bacterial proteins of about 90 amino acids in length. Members usually are found immediately upstream (sometimes fused to) a member of the solute:sodium symporter family, and therefore are a putative sodium:solute symporter small subunit. Members tend to be found in aquatic species, especially those from marine or other high salt environments.
Probab=23.08 E-value=1.1e+02 Score=19.56 Aligned_cols=6 Identities=33% Similarity=0.146 Sum_probs=3.9
Q ss_pred CccCCC
Q 030350 2 GFFEDD 7 (179)
Q Consensus 2 gf~~~~ 7 (179)
|||.+|
T Consensus 39 GfPlgf 44 (77)
T TIGR03647 39 GFPLGF 44 (77)
T ss_pred CCChHH
Confidence 666666
No 275
>PF14654 Epiglycanin_C: Mucin, catalytic, TM and cytoplasmic tail region
Probab=22.89 E-value=2.1e+02 Score=19.36 Aligned_cols=22 Identities=23% Similarity=0.448 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 030350 14 QFLYRAAVVIALLRWVLFCIIR 35 (179)
Q Consensus 14 ~~i~~~~i~i~v~~~i~~~~~~ 35 (179)
+-+.++++.+.++..+.+++..
T Consensus 23 ItLasVvvavGl~aGLfFcvR~ 44 (106)
T PF14654_consen 23 ITLASVVVAVGLFAGLFFCVRN 44 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHhhh
Confidence 3334445555555556666533
No 276
>PF06679 DUF1180: Protein of unknown function (DUF1180); InterPro: IPR009565 This entry consists of several hypothetical eukaryotic proteins thought to be membrane proteins. Their function is unknown.
Probab=22.87 E-value=1.9e+02 Score=21.43 Aligned_cols=20 Identities=15% Similarity=0.325 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 030350 12 TSQFLYRAAVVIALLRWVLF 31 (179)
Q Consensus 12 i~~~i~~~~i~i~v~~~i~~ 31 (179)
-.++++..+..++++++++.
T Consensus 96 R~~~Vl~g~s~l~i~yfvir 115 (163)
T PF06679_consen 96 RALYVLVGLSALAILYFVIR 115 (163)
T ss_pred hhHHHHHHHHHHHHHHHHHH
Confidence 34445555555555454443
No 277
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=22.81 E-value=19 Score=29.47 Aligned_cols=46 Identities=17% Similarity=0.324 Sum_probs=26.6
Q ss_pred cccccccccccccCCeeeEc---cCCCCcccHHhHHHHHhcCCCCCCccccc
Q 030350 95 PDTCAVCLNHMEEDDLVREL---RNCCHVFHRECIDRWVDYDHHKTCPLCRA 143 (179)
Q Consensus 95 ~~~C~ICl~~~~~~~~~~~l---~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~ 143 (179)
...||+|-..=.... ++.. .+=.+.+|.-|-..|-.. +..||.|-.
T Consensus 184 ~~~CPvCGs~P~~s~-~~~~~~~~G~RyL~CslC~teW~~~--R~~C~~Cg~ 232 (305)
T TIGR01562 184 RTLCPACGSPPVASM-VRQGGKETGLRYLSCSLCATEWHYV--RVKCSHCEE 232 (305)
T ss_pred CCcCCCCCChhhhhh-hcccCCCCCceEEEcCCCCCccccc--CccCCCCCC
Confidence 348999977632111 1100 012344566677788766 778999965
No 278
>PRK13460 F0F1 ATP synthase subunit B; Provisional
Probab=22.35 E-value=1.7e+02 Score=21.55 Aligned_cols=7 Identities=29% Similarity=0.093 Sum_probs=3.2
Q ss_pred CccCCCC
Q 030350 2 GFFEDDP 8 (179)
Q Consensus 2 gf~~~~~ 8 (179)
|+|.-+.
T Consensus 8 ~~~~l~~ 14 (173)
T PRK13460 8 GLSLLDV 14 (173)
T ss_pred CCCccCC
Confidence 4454443
No 279
>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=22.19 E-value=58 Score=17.84 Aligned_cols=34 Identities=21% Similarity=0.438 Sum_probs=22.8
Q ss_pred cccccccccccccCCeeeEccCCCCcccHHhHHH
Q 030350 95 PDTCAVCLNHMEEDDLVRELRNCCHVFHRECIDR 128 (179)
Q Consensus 95 ~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~ 128 (179)
...|.+|.+.+.....-.....|+=..|..|...
T Consensus 11 ~~~C~~C~~~i~~~~~~~~C~~C~~~~H~~C~~~ 44 (49)
T smart00109 11 PTKCCVCRKSIWGSFQGLRCSWCKVKCHKKCAEK 44 (49)
T ss_pred CCCccccccccCcCCCCcCCCCCCchHHHHHHhh
Confidence 3479999888775321122337888999999865
No 280
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=22.09 E-value=50 Score=22.52 Aligned_cols=27 Identities=26% Similarity=0.594 Sum_probs=17.0
Q ss_pred CCCCcccHHhHHHHHhcCCCCCCcccccccccc
Q 030350 116 NCCHVFHRECIDRWVDYDHHKTCPLCRAPLLTY 148 (179)
Q Consensus 116 ~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~ 148 (179)
.|||+|-.. +.-+. ..||-|-......
T Consensus 7 rCG~vf~~g--~~~il----~GCp~CG~nkF~y 33 (112)
T COG3364 7 RCGEVFDDG--SEEIL----SGCPKCGCNKFLY 33 (112)
T ss_pred ccccccccc--cHHHH----ccCccccchheEe
Confidence 799988865 33333 2488887665443
No 281
>PF07406 NICE-3: NICE-3 protein; InterPro: IPR010876 This family consists of several eukaryotic NICE-3 and related proteins. The gene coding for NICE-3 is part of the epidermal differentiation complex (EDC), which comprises a large number of genes that are of crucial importance for the maturation of the human epidermis []. The function of NICE-3 is unknown.
Probab=22.06 E-value=1.8e+02 Score=22.02 Aligned_cols=9 Identities=11% Similarity=0.228 Sum_probs=5.0
Q ss_pred cHHhHHHHH
Q 030350 122 HRECIDRWV 130 (179)
Q Consensus 122 h~~Ci~~wl 130 (179)
..+-+..||
T Consensus 125 ~G~~~R~~L 133 (186)
T PF07406_consen 125 PGENFRSYL 133 (186)
T ss_pred ccccHHHHH
Confidence 344566666
No 282
>COG3190 FliO Flagellar biogenesis protein [Cell motility and secretion]
Probab=22.03 E-value=3e+02 Score=19.81 Aligned_cols=30 Identities=17% Similarity=0.312 Sum_probs=15.9
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 030350 9 TLITSQFLYRAAVVIALLRWVLFCIIRFRNR 39 (179)
Q Consensus 9 ~~~i~~~i~~~~i~i~v~~~i~~~~~~~~~~ 39 (179)
...+.+.++.++.+++++.+.. |++++..+
T Consensus 21 ~~~~~~~~gsL~~iL~lil~~~-wl~kr~~~ 50 (137)
T COG3190 21 ALELAQMFGSLILILALILFLA-WLVKRLGR 50 (137)
T ss_pred hhHHHHHHHHHHHHHHHHHHHH-HHHHHHhh
Confidence 4445666666666666554444 44444443
No 283
>PF05568 ASFV_J13L: African swine fever virus J13L protein; InterPro: IPR008385 This family consists of several African swine fever virus (ASFV) j13L proteins [, , ].
Probab=21.87 E-value=2e+02 Score=20.95 Aligned_cols=31 Identities=16% Similarity=0.311 Sum_probs=16.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 030350 10 LITSQFLYRAAVVIALLRWVLFCIIRFRNRN 40 (179)
Q Consensus 10 ~~i~~~i~~~~i~i~v~~~i~~~~~~~~~~~ 40 (179)
.++....+.+++.|+++..+++.++.+..++
T Consensus 25 sffsthm~tILiaIvVliiiiivli~lcssR 55 (189)
T PF05568_consen 25 SFFSTHMYTILIAIVVLIIIIIVLIYLCSSR 55 (189)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 3455555566666666555554444444333
No 284
>PRK10220 hypothetical protein; Provisional
Probab=21.31 E-value=66 Score=22.19 Aligned_cols=23 Identities=22% Similarity=0.482 Sum_probs=13.2
Q ss_pred cccccccccccCC-eeeEccCCCC
Q 030350 97 TCAVCLNHMEEDD-LVRELRNCCH 119 (179)
Q Consensus 97 ~C~ICl~~~~~~~-~~~~l~~C~H 119 (179)
.||-|-.+|.-.+ .+..++.|+|
T Consensus 5 ~CP~C~seytY~d~~~~vCpeC~h 28 (111)
T PRK10220 5 HCPKCNSEYTYEDNGMYICPECAH 28 (111)
T ss_pred cCCCCCCcceEcCCCeEECCcccC
Confidence 6888888765443 2333445555
No 285
>PF02146 SIR2: Sir2 family; InterPro: IPR003000 These sequences represent the Sirtuin (Sir2-related) family of NAD+-dependent deacetylases. This family of enzymes is broadly conserved from bacteria to humans. In yeast, Sir2 proteins form complexes with other proteins to silence chromatin by accessing histones and deacetylating them. Sir2 proteins have been proposed to play a role in silencing, chromosome stability and ageing []. The bacterial enzyme CobB, an homologue of Sir2, is a phosphoribosyltransferase []. An in vitro ADP ribosyltransferase activity has also been associated with human members of this family []. Sir2-like enzymes employ NAD+ as a cosubstrate in deacetylation reactions [] and catalyse a reaction in which the cleavage of NAD(+)and histone and/or protein deacetylation are coupled to the formation of O-acetyl-ADP-ribose, a novel metabolite. The dependence of the reaction on both NAD(+) and the generation of this potential second messenger offers new clues to understanding the function and regulation of nuclear, cytoplasmic and mitochondrial Sir2-like enzymes []. Silent Information Regulator protein of Saccharomyces cerevisiae (Sir2) is one of several factors critical for silencing at least three loci. Among them, it is unique because it silences the rDNA as well as the mating type loci and telomeres []. Sir2 interacts in a complex with itself and with Sir3 and Sir4, two proteins that are able to interact with nucleosomes. In addition Sir2 also interacts with ubiquitination factors and/or complexes []. Homologues of Sir2 share a core domain including the GAG and NID motifs and a putative C4 Zinc finger. The regions containing these three conserved motifs are individually essential for Sir2 silencing function, as are the four cysteins []. In addition, the conserved residues HG next to the putative Zn finger have been shown to be essential for the ADP ribosyltransferase activity []. ; GO: 0008270 zinc ion binding, 0070403 NAD+ binding, 0006476 protein deacetylation; PDB: 1S5P_A 3PKI_E 3PKJ_F 3K35_A 1ICI_A 1M2K_A 1M2G_A 1M2N_B 1M2H_A 1M2J_A ....
Probab=21.28 E-value=1.1e+02 Score=22.37 Aligned_cols=34 Identities=26% Similarity=0.471 Sum_probs=24.4
Q ss_pred cCCCCcccHHhHHHHHhcCCCCCCcccccccccc
Q 030350 115 RNCCHVFHRECIDRWVDYDHHKTCPLCRAPLLTY 148 (179)
Q Consensus 115 ~~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~~~ 148 (179)
..|++.+...-+...........||.|...+.+.
T Consensus 109 ~~C~~~~~~~~~~~~~~~~~~~~C~~C~~~lrp~ 142 (178)
T PF02146_consen 109 SKCGKEYDREDIVDSIDEEEPPRCPKCGGLLRPD 142 (178)
T ss_dssp TTTSBEEEGHHHHHHHHTTSSCBCTTTSCBEEEE
T ss_pred cCCCccccchhhcccccccccccccccCccCCCC
Confidence 3799888877666665554356799999977664
No 286
>PF05454 DAG1: Dystroglycan (Dystrophin-associated glycoprotein 1); InterPro: IPR008465 Dystroglycan is one of the dystrophin-associated glycoproteins, which is encoded by a 5.5 kb transcript in Homo sapiens. The protein product is cleaved into two non-covalently associated subunits, [alpha] (N-terminal) and [beta] (C-terminal). In skeletal muscle the dystroglycan complex works as a transmembrane linkage between the extracellular matrix and the cytoskeleton [alpha]-dystroglycan is extracellular and binds to merosin ([alpha]-2 laminin) in the basement membrane, while [beta]-dystroglycan is a transmembrane protein and binds to dystrophin, which is a large rod-like cytoskeletal protein, absent in Duchenne muscular dystrophy patients. Dystrophin binds to intracellular actin cables. In this way, the dystroglycan complex, which links the extracellular matrix to the intracellular actin cables, is thought to provide structural integrity in muscle tissues. The dystroglycan complex is also known to serve as an agrin receptor in muscle, where it may regulate agrin-induced acetylcholine receptor clustering at the neuromuscular junction. There is also evidence which suggests the function of dystroglycan as a part of the signal transduction pathway because it is shown that Grb2, a mediator of the Ras-related signal pathway, can interact with the cytoplasmic domain of dystroglycan. In general, aberrant expression of dystrophin-associated protein complex underlies the pathogenesis of Duchenne muscular dystrophy, Becker muscular dystrophy and severe childhood autosomal recessive muscular dystrophy. Interestingly, no genetic disease has been described for either [alpha]- or [beta]-dystroglycan. Dystroglycan is widely distributed in non-muscle tissues as well as in muscle tissues. During epithelial morphogenesis of kidney, the dystroglycan complex is shown to act as a receptor for the basement membrane. Dystroglycan expression in Mus musculus brain and neural retina has also been reported. However, the physiological role of dystroglycan in non-muscle tissues has remained unclear [].; PDB: 1EG4_P.
Probab=21.20 E-value=32 Score=28.00 Aligned_cols=17 Identities=18% Similarity=0.192 Sum_probs=0.0
Q ss_pred hhHHHHHHHHHHHHHHH
Q 030350 10 LITSQFLYRAAVVIALL 26 (179)
Q Consensus 10 ~~i~~~i~~~~i~i~v~ 26 (179)
..+..+|.++++++.++
T Consensus 144 ~yL~T~IpaVVI~~iLL 160 (290)
T PF05454_consen 144 DYLHTFIPAVVIAAILL 160 (290)
T ss_dssp -----------------
T ss_pred chHHHHHHHHHHHHHHH
Confidence 34444444444333333
No 287
>PLN02248 cellulose synthase-like protein
Probab=21.11 E-value=72 Score=30.90 Aligned_cols=29 Identities=28% Similarity=0.599 Sum_probs=25.1
Q ss_pred CCCCcccHHhHHHHHhcCCCCCCcccccccc
Q 030350 116 NCCHVFHRECIDRWVDYDHHKTCPLCRAPLL 146 (179)
Q Consensus 116 ~C~H~Fh~~Ci~~wl~~~~~~~CP~CR~~~~ 146 (179)
.|++..|++|...-++. ...||-|+.+..
T Consensus 149 ~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~ 177 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKS--GGICPGCKEPYK 177 (1135)
T ss_pred cccchhHHhHhhhhhhc--CCCCCCCccccc
Confidence 57889999999999988 678999988773
No 288
>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=20.82 E-value=71 Score=16.21 Aligned_cols=28 Identities=25% Similarity=0.680 Sum_probs=16.1
Q ss_pred cccccccccccCCeeeEccCCCCcccHHh
Q 030350 97 TCAVCLNHMEEDDLVRELRNCCHVFHREC 125 (179)
Q Consensus 97 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~C 125 (179)
.|.+|-.+..... .-....|.-.+|..|
T Consensus 2 ~C~~C~~~~~~~~-~Y~C~~c~f~lh~~C 29 (30)
T PF03107_consen 2 WCDVCRRKIDGFY-FYHCSECCFTLHVRC 29 (30)
T ss_pred CCCCCCCCcCCCE-eEEeCCCCCeEcCcc
Confidence 5778866655442 322235666777666
No 289
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=20.68 E-value=22 Score=25.90 Aligned_cols=26 Identities=23% Similarity=0.465 Sum_probs=17.6
Q ss_pred ccHHhHHHHHhcCC--CCCCcccccccc
Q 030350 121 FHRECIDRWVDYDH--HKTCPLCRAPLL 146 (179)
Q Consensus 121 Fh~~Ci~~wl~~~~--~~~CP~CR~~~~ 146 (179)
||..|+++=|..-. .=.||.|+..-.
T Consensus 2 ~H~~CL~Ppl~~~P~g~W~Cp~C~~~~~ 29 (148)
T cd04718 2 FHLCCLRPPLKEVPEGDWICPFCEVEKS 29 (148)
T ss_pred cccccCCCCCCCCCCCCcCCCCCcCCCC
Confidence 78889887776522 234999986543
No 290
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=20.49 E-value=25 Score=28.59 Aligned_cols=31 Identities=23% Similarity=0.593 Sum_probs=20.2
Q ss_pred cccccccccccCCeeeEccCCCCcccHHhHHHH
Q 030350 97 TCAVCLNHMEEDDLVRELRNCCHVFHRECIDRW 129 (179)
Q Consensus 97 ~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~w 129 (179)
.|.-|.+.+.....+|+- =.|+||..|+.=.
T Consensus 94 KCsaC~~GIpPtqVVRkA--qd~VYHl~CF~C~ 124 (383)
T KOG4577|consen 94 KCSACQEGIPPTQVVRKA--QDFVYHLHCFACF 124 (383)
T ss_pred cchhhcCCCChHHHHHHh--hcceeehhhhhhH
Confidence 677777776655555533 4688888887433
No 291
>PF13994 PgaD: PgaD-like protein
Probab=20.49 E-value=2.1e+02 Score=20.22 Aligned_cols=7 Identities=57% Similarity=1.028 Sum_probs=3.1
Q ss_pred HHhcCCC
Q 030350 35 RFRNRNS 41 (179)
Q Consensus 35 ~~~~~~~ 41 (179)
|++++++
T Consensus 88 Rf~~~~r 94 (138)
T PF13994_consen 88 RFRGRRR 94 (138)
T ss_pred Hhcchhh
Confidence 4444443
No 292
>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=20.48 E-value=46 Score=16.49 Aligned_cols=10 Identities=30% Similarity=0.919 Sum_probs=7.6
Q ss_pred CCcccccccc
Q 030350 137 TCPLCRAPLL 146 (179)
Q Consensus 137 ~CP~CR~~~~ 146 (179)
.||+|.+.+.
T Consensus 3 ~CPiC~~~v~ 12 (26)
T smart00734 3 QCPVCFREVP 12 (26)
T ss_pred cCCCCcCccc
Confidence 5999977763
No 293
>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=20.45 E-value=68 Score=25.17 Aligned_cols=22 Identities=27% Similarity=0.631 Sum_probs=13.3
Q ss_pred cHHhHHHHHhcCCCCCCccccccc
Q 030350 122 HRECIDRWVDYDHHKTCPLCRAPL 145 (179)
Q Consensus 122 h~~Ci~~wl~~~~~~~CP~CR~~~ 145 (179)
|..|-..-=++ ...||+|++.-
T Consensus 197 C~sC~qqIHRN--APiCPlCK~Ks 218 (230)
T PF10146_consen 197 CQSCHQQIHRN--APICPLCKAKS 218 (230)
T ss_pred hHhHHHHHhcC--CCCCccccccc
Confidence 34454444333 67899998744
No 294
>KOG3653 consensus Transforming growth factor beta/activin receptor subfamily of serine/threonine kinases [Signal transduction mechanisms]
Probab=20.43 E-value=2e+02 Score=25.38 Aligned_cols=27 Identities=19% Similarity=0.110 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 030350 15 FLYRAAVVIALLRWVLFCIIRFRNRNS 41 (179)
Q Consensus 15 ~i~~~~i~i~v~~~i~~~~~~~~~~~~ 41 (179)
+.+.++++++++.+..++..|+++..+
T Consensus 159 ~~~~~v~~l~~lvi~~~~~~r~~k~~~ 185 (534)
T KOG3653|consen 159 IPLLLVSLLAALVILAFLGYRQRKNAR 185 (534)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 333334444444445555555555444
No 295
>PF14991 MLANA: Protein melan-A; PDB: 2GTZ_F 2GT9_F 3MRO_P 2GUO_C 3MRQ_P 2GTW_C 3L6F_C 3MRP_P.
Probab=20.26 E-value=21 Score=24.80 Aligned_cols=9 Identities=11% Similarity=-0.024 Sum_probs=0.0
Q ss_pred HHHHHHHHh
Q 030350 29 VLFCIIRFR 37 (179)
Q Consensus 29 i~~~~~~~~ 37 (179)
+-+|+.+.|
T Consensus 42 iGCWYckRR 50 (118)
T PF14991_consen 42 IGCWYCKRR 50 (118)
T ss_dssp ---------
T ss_pred Hhheeeeec
Confidence 334554433
No 296
>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=20.15 E-value=88 Score=16.56 Aligned_cols=11 Identities=18% Similarity=0.588 Sum_probs=6.0
Q ss_pred ccccccccccc
Q 030350 97 TCAVCLNHMEE 107 (179)
Q Consensus 97 ~C~ICl~~~~~ 107 (179)
+|+-|-..|..
T Consensus 4 ~CP~C~~~~~v 14 (38)
T TIGR02098 4 QCPNCKTSFRV 14 (38)
T ss_pred ECCCCCCEEEe
Confidence 46666555543
No 297
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=20.06 E-value=58 Score=23.22 Aligned_cols=23 Identities=22% Similarity=0.384 Sum_probs=14.0
Q ss_pred ccccccccccCCeeeEccCCCCcccHH
Q 030350 98 CAVCLNHMEEDDLVRELRNCCHVFHRE 124 (179)
Q Consensus 98 C~ICl~~~~~~~~~~~l~~C~H~Fh~~ 124 (179)
=-||.+. ...+.++ .|||.|+..
T Consensus 60 lfi~qs~---~~rv~rc-ecghsf~d~ 82 (165)
T COG4647 60 LFICQSA---QKRVIRC-ECGHSFGDY 82 (165)
T ss_pred EEEEecc---cccEEEE-eccccccCh
Confidence 3456554 2235555 799999854
Done!