Query 027163
Match_columns 227
No_of_seqs 356 out of 1979
Neff 8.4
Searched_HMMs 46136
Date Fri Mar 29 05:54:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027163.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027163hhsearch_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 1.9E-20 4.1E-25 160.5 10.5 76 60-137 206-282 (348)
2 PF13639 zf-RING_2: Ring finge 99.6 7.2E-16 1.6E-20 95.0 2.0 44 85-129 1-44 (44)
3 PHA02929 N1R/p28-like protein; 99.4 2.4E-13 5.3E-18 112.1 4.9 78 58-135 147-229 (238)
4 COG5243 HRD1 HRD ubiquitin lig 99.4 3E-12 6.5E-17 109.4 10.9 51 81-132 284-344 (491)
5 PF12678 zf-rbx1: RING-H2 zinc 99.4 4.6E-13 1E-17 91.3 4.1 46 83-129 18-73 (73)
6 COG5540 RING-finger-containing 99.3 6.7E-13 1.4E-17 110.6 3.7 52 82-134 321-373 (374)
7 KOG0317 Predicted E3 ubiquitin 99.2 2.4E-11 5.1E-16 101.1 4.9 49 82-134 237-285 (293)
8 PLN03208 E3 ubiquitin-protein 99.1 9.6E-11 2.1E-15 93.1 4.3 50 81-134 15-80 (193)
9 PF13920 zf-C3HC4_3: Zinc fing 99.1 7.1E-11 1.5E-15 74.6 2.8 47 84-134 2-49 (50)
10 PF13923 zf-C3HC4_2: Zinc fing 99.1 1.4E-10 3.1E-15 69.3 3.3 39 87-128 1-39 (39)
11 cd00162 RING RING-finger (Real 99.0 2.5E-10 5.4E-15 69.6 3.4 44 86-132 1-45 (45)
12 KOG0823 Predicted E3 ubiquitin 99.0 1.9E-10 4.2E-15 93.0 3.4 50 82-135 45-97 (230)
13 PF12861 zf-Apc11: Anaphase-pr 99.0 2.2E-10 4.9E-15 79.0 3.2 52 82-133 19-82 (85)
14 PHA02926 zinc finger-like prot 99.0 1.9E-10 4.2E-15 92.5 3.3 55 80-134 166-231 (242)
15 KOG0320 Predicted E3 ubiquitin 99.0 2.2E-10 4.7E-15 89.0 2.9 52 81-134 128-179 (187)
16 PF15227 zf-C3HC4_4: zinc fing 99.0 5.2E-10 1.1E-14 67.8 3.0 38 87-128 1-42 (42)
17 KOG0802 E3 ubiquitin ligase [P 98.9 1.2E-09 2.7E-14 101.2 4.6 51 82-133 289-341 (543)
18 PF14634 zf-RING_5: zinc-RING 98.9 2.2E-09 4.8E-14 65.8 3.3 44 86-130 1-44 (44)
19 PF00097 zf-C3HC4: Zinc finger 98.9 1.8E-09 3.9E-14 65.1 2.7 39 87-128 1-41 (41)
20 COG5194 APC11 Component of SCF 98.8 2E-09 4.4E-14 72.5 2.4 50 84-133 20-81 (88)
21 smart00504 Ubox Modified RING 98.8 6.8E-09 1.5E-13 68.4 3.8 45 85-133 2-46 (63)
22 smart00184 RING Ring finger. E 98.7 9.3E-09 2E-13 60.3 3.0 38 87-128 1-39 (39)
23 TIGR00599 rad18 DNA repair pro 98.7 9.6E-09 2.1E-13 90.8 3.9 50 82-135 24-73 (397)
24 KOG1734 Predicted RING-contain 98.6 1.1E-08 2.3E-13 84.4 0.7 51 82-133 222-281 (328)
25 COG5574 PEX10 RING-finger-cont 98.6 2.5E-08 5.4E-13 82.2 2.4 49 82-134 213-263 (271)
26 KOG1493 Anaphase-promoting com 98.5 2E-08 4.3E-13 67.1 0.5 52 82-133 18-81 (84)
27 KOG0287 Postreplication repair 98.4 8.4E-08 1.8E-12 81.6 1.8 51 82-136 21-71 (442)
28 smart00744 RINGv The RING-vari 98.4 2.6E-07 5.6E-12 57.8 2.8 42 86-129 1-49 (49)
29 KOG2164 Predicted E3 ubiquitin 98.4 1.6E-07 3.6E-12 83.9 2.4 47 84-134 186-237 (513)
30 KOG0828 Predicted E3 ubiquitin 98.4 3.8E-07 8.2E-12 81.1 4.4 51 83-134 570-635 (636)
31 KOG2930 SCF ubiquitin ligase, 98.3 2.7E-07 5.8E-12 65.3 2.4 64 69-132 29-107 (114)
32 PF13445 zf-RING_UBOX: RING-ty 98.3 4.3E-07 9.3E-12 55.1 2.8 34 87-122 1-35 (43)
33 COG5432 RAD18 RING-finger-cont 98.3 3.1E-07 6.7E-12 76.7 2.2 49 82-134 23-71 (391)
34 PF04564 U-box: U-box domain; 98.3 6.3E-07 1.4E-11 61.0 3.2 48 83-134 3-51 (73)
35 KOG0804 Cytoplasmic Zn-finger 98.3 3.1E-07 6.7E-12 80.8 1.8 50 81-133 172-222 (493)
36 TIGR00570 cdk7 CDK-activating 98.2 8.4E-07 1.8E-11 75.7 3.5 51 84-135 3-56 (309)
37 COG5219 Uncharacterized conser 98.1 6.4E-07 1.4E-11 85.0 0.8 52 82-133 1467-1523(1525)
38 KOG2177 Predicted E3 ubiquitin 98.1 1.1E-06 2.3E-11 74.5 1.8 45 82-130 11-55 (386)
39 PF11793 FANCL_C: FANCL C-term 98.1 5.9E-07 1.3E-11 60.6 -0.0 50 84-133 2-66 (70)
40 KOG4265 Predicted E3 ubiquitin 98.1 1.6E-06 3.4E-11 74.6 2.6 50 82-135 288-338 (349)
41 KOG0827 Predicted E3 ubiquitin 98.1 2E-06 4.3E-11 74.5 2.2 50 85-134 5-57 (465)
42 PF14835 zf-RING_6: zf-RING of 98.0 2E-06 4.4E-11 56.1 0.3 47 84-135 7-53 (65)
43 KOG1039 Predicted E3 ubiquitin 98.0 4E-06 8.6E-11 73.0 2.2 53 82-134 159-222 (344)
44 KOG0824 Predicted E3 ubiquitin 97.9 5E-06 1.1E-10 70.0 1.8 48 83-134 6-54 (324)
45 KOG0311 Predicted E3 ubiquitin 97.9 1.6E-06 3.6E-11 74.3 -1.8 50 82-134 41-91 (381)
46 KOG0825 PHD Zn-finger protein 97.8 4.9E-06 1.1E-10 77.8 -0.3 52 83-135 122-173 (1134)
47 KOG4172 Predicted E3 ubiquitin 97.7 6.8E-06 1.5E-10 51.5 -0.2 46 85-134 8-55 (62)
48 KOG4445 Uncharacterized conser 97.7 1E-05 2.3E-10 68.0 0.4 51 83-134 114-187 (368)
49 KOG1785 Tyrosine kinase negati 97.6 2.8E-05 6.2E-10 67.8 1.4 47 85-135 370-418 (563)
50 KOG0978 E3 ubiquitin ligase in 97.4 3.7E-05 8E-10 72.1 0.7 47 84-134 643-690 (698)
51 KOG3970 Predicted E3 ubiquitin 97.4 0.00016 3.4E-09 58.6 3.8 55 81-137 47-109 (299)
52 KOG4159 Predicted E3 ubiquitin 97.4 0.0001 2.2E-09 65.5 2.4 51 82-136 82-132 (398)
53 KOG1645 RING-finger-containing 97.3 0.00015 3.3E-09 63.5 3.0 49 83-132 3-55 (463)
54 PF11789 zf-Nse: Zinc-finger o 97.3 0.00013 2.9E-09 47.0 1.8 42 83-127 10-53 (57)
55 KOG1941 Acetylcholine receptor 97.2 0.00013 2.8E-09 63.7 1.0 48 82-130 363-413 (518)
56 KOG2660 Locus-specific chromos 97.0 0.00012 2.6E-09 62.6 -0.5 51 82-135 13-63 (331)
57 KOG0297 TNF receptor-associate 97.0 0.00031 6.7E-09 62.8 2.1 52 81-135 18-69 (391)
58 KOG1428 Inhibitor of type V ad 97.0 0.00047 1E-08 68.7 3.1 68 66-134 3468-3545(3738)
59 PF05883 Baculo_RING: Baculovi 97.0 0.00028 6E-09 53.1 1.2 36 84-120 26-67 (134)
60 KOG1952 Transcription factor N 96.8 0.0007 1.5E-08 64.3 2.0 56 81-136 188-250 (950)
61 COG5152 Uncharacterized conser 96.7 0.00065 1.4E-08 54.1 1.1 44 85-132 197-240 (259)
62 KOG2879 Predicted E3 ubiquitin 96.7 0.0016 3.5E-08 54.5 3.2 51 82-135 237-289 (298)
63 KOG0801 Predicted E3 ubiquitin 96.6 0.00074 1.6E-08 52.1 0.7 31 81-112 174-204 (205)
64 KOG0826 Predicted E3 ubiquitin 96.6 0.0068 1.5E-07 52.0 6.4 48 81-131 297-344 (357)
65 KOG1571 Predicted E3 ubiquitin 96.5 0.00026 5.7E-09 61.2 -2.3 45 82-133 303-347 (355)
66 KOG4692 Predicted E3 ubiquitin 96.4 0.0022 4.7E-08 55.5 2.7 50 81-134 419-468 (489)
67 PF14570 zf-RING_4: RING/Ubox 96.4 0.0027 5.8E-08 39.2 2.3 45 87-132 1-47 (48)
68 PF10367 Vps39_2: Vacuolar sor 96.3 0.0015 3.4E-08 47.2 1.0 33 82-116 76-108 (109)
69 KOG1813 Predicted E3 ubiquitin 96.3 0.0015 3.3E-08 55.2 0.8 46 86-135 243-288 (313)
70 PHA03096 p28-like protein; Pro 96.3 0.0021 4.6E-08 54.9 1.7 46 85-130 179-231 (284)
71 KOG3039 Uncharacterized conser 96.2 0.0047 1E-07 51.0 3.3 52 84-135 221-272 (303)
72 COG5236 Uncharacterized conser 96.1 0.0054 1.2E-07 53.0 3.6 63 69-135 46-110 (493)
73 KOG1814 Predicted E3 ubiquitin 96.1 0.0042 9.1E-08 54.8 2.7 51 83-134 183-241 (445)
74 PHA02825 LAP/PHD finger-like p 96.1 0.0054 1.2E-07 47.4 2.8 49 82-134 6-60 (162)
75 PF12906 RINGv: RING-variant d 96.0 0.0063 1.4E-07 37.5 2.5 40 87-128 1-47 (47)
76 PHA02862 5L protein; Provision 95.9 0.0061 1.3E-07 46.3 2.7 46 84-134 2-54 (156)
77 KOG4275 Predicted E3 ubiquitin 95.9 0.0017 3.8E-08 54.7 -0.6 42 84-133 300-342 (350)
78 KOG1002 Nucleotide excision re 95.7 0.0041 8.8E-08 56.5 0.9 48 82-133 534-586 (791)
79 KOG4739 Uncharacterized protei 95.5 0.0048 1E-07 50.8 0.7 45 86-134 5-49 (233)
80 COG5222 Uncharacterized conser 95.3 0.0097 2.1E-07 50.4 1.8 43 85-130 275-318 (427)
81 PF14447 Prok-RING_4: Prokaryo 95.1 0.011 2.4E-07 37.5 1.3 45 84-134 7-51 (55)
82 PF08746 zf-RING-like: RING-li 95.0 0.015 3.2E-07 35.2 1.7 41 87-128 1-43 (43)
83 PF04641 Rtf2: Rtf2 RING-finge 95.0 0.028 6.1E-07 47.5 3.9 52 82-134 111-162 (260)
84 PF10272 Tmpp129: Putative tra 94.7 0.026 5.5E-07 49.7 2.9 28 106-133 311-351 (358)
85 KOG2114 Vacuolar assembly/sort 94.7 0.018 3.8E-07 55.2 2.0 45 84-134 840-884 (933)
86 KOG2932 E3 ubiquitin ligase in 94.3 0.019 4.1E-07 49.0 1.2 45 85-134 91-135 (389)
87 KOG3268 Predicted E3 ubiquitin 94.3 0.028 6E-07 44.3 1.9 29 105-133 189-228 (234)
88 KOG0827 Predicted E3 ubiquitin 94.2 0.0028 6E-08 55.5 -4.1 53 83-136 195-248 (465)
89 PF07800 DUF1644: Protein of u 94.2 0.041 8.9E-07 42.6 2.7 52 83-137 1-95 (162)
90 COG5175 MOT2 Transcriptional r 94.1 0.032 7E-07 48.2 2.2 52 82-134 12-65 (480)
91 PF02439 Adeno_E3_CR2: Adenovi 94.0 0.15 3.2E-06 29.7 4.1 28 8-35 5-32 (38)
92 KOG1940 Zn-finger protein [Gen 93.2 0.042 9.2E-07 46.6 1.4 50 84-135 158-208 (276)
93 KOG4185 Predicted E3 ubiquitin 93.2 0.082 1.8E-06 45.4 3.1 47 85-132 4-54 (296)
94 KOG1001 Helicase-like transcri 93.0 0.043 9.4E-07 52.4 1.2 45 85-134 455-501 (674)
95 KOG1100 Predicted E3 ubiquitin 92.8 0.051 1.1E-06 44.4 1.3 39 87-133 161-200 (207)
96 COG5220 TFB3 Cdk activating ki 92.0 0.05 1.1E-06 44.8 0.3 51 83-133 9-64 (314)
97 KOG0298 DEAD box-containing he 92.0 0.05 1.1E-06 54.4 0.3 49 82-133 1151-1199(1394)
98 PF03854 zf-P11: P-11 zinc fin 91.9 0.069 1.5E-06 32.7 0.8 29 106-134 18-47 (50)
99 PF14446 Prok-RING_1: Prokaryo 91.8 0.22 4.8E-06 31.5 3.0 35 83-117 4-38 (54)
100 KOG2034 Vacuolar sorting prote 91.0 0.11 2.4E-06 50.2 1.4 36 82-119 815-850 (911)
101 KOG3800 Predicted E3 ubiquitin 90.8 0.25 5.4E-06 41.9 3.3 49 86-135 2-53 (300)
102 KOG2817 Predicted E3 ubiquitin 90.4 0.93 2E-05 40.2 6.5 47 83-130 333-382 (394)
103 KOG3161 Predicted E3 ubiquitin 90.4 0.087 1.9E-06 49.2 0.2 44 84-130 11-54 (861)
104 PF07975 C1_4: TFIIH C1-like d 90.1 0.3 6.5E-06 30.6 2.4 43 87-129 2-50 (51)
105 KOG3002 Zn finger protein [Gen 90.0 0.24 5.1E-06 42.8 2.5 48 82-135 46-93 (299)
106 KOG0309 Conserved WD40 repeat- 89.9 0.18 3.9E-06 48.0 1.9 26 101-127 1044-1069(1081)
107 COG5183 SSM4 Protein involved 89.8 0.23 5.1E-06 47.7 2.5 52 81-133 9-66 (1175)
108 PF01102 Glycophorin_A: Glycop 89.7 0.6 1.3E-05 34.8 4.1 17 7-23 65-81 (122)
109 PF05290 Baculo_IE-1: Baculovi 89.5 0.24 5.3E-06 37.2 1.9 52 83-134 79-133 (140)
110 KOG3053 Uncharacterized conser 89.0 0.18 3.9E-06 42.1 1.0 51 82-133 18-82 (293)
111 PF12273 RCR: Chitin synthesis 88.5 0.45 9.8E-06 35.8 2.9 13 21-33 11-23 (130)
112 KOG3899 Uncharacterized conser 88.2 0.28 6E-06 41.7 1.6 29 106-134 325-366 (381)
113 PRK00523 hypothetical protein; 87.7 1.7 3.7E-05 29.1 4.8 34 2-35 2-35 (72)
114 PRK01844 hypothetical protein; 86.7 2.1 4.6E-05 28.7 4.8 33 3-35 2-34 (72)
115 KOG4367 Predicted Zn-finger pr 86.4 0.33 7.2E-06 43.5 1.2 33 82-118 2-34 (699)
116 TIGR00622 ssl1 transcription f 85.6 0.92 2E-05 33.2 3.0 46 84-129 55-110 (112)
117 KOG1609 Protein involved in mR 85.5 0.48 1.1E-05 40.7 1.8 51 84-135 78-136 (323)
118 PF15050 SCIMP: SCIMP protein 84.0 2.6 5.6E-05 31.1 4.6 20 6-25 8-27 (133)
119 KOG1812 Predicted E3 ubiquitin 84.0 0.37 8.1E-06 43.1 0.4 38 83-121 145-183 (384)
120 KOG4362 Transcriptional regula 82.6 0.36 7.7E-06 45.8 -0.3 49 83-135 20-71 (684)
121 KOG1829 Uncharacterized conser 82.5 0.47 1E-05 44.4 0.4 45 82-130 509-558 (580)
122 PF05568 ASFV_J13L: African sw 81.3 2.3 5E-05 32.5 3.7 19 18-36 39-57 (189)
123 KOG0825 PHD Zn-finger protein 81.1 0.82 1.8E-05 44.0 1.5 54 83-136 95-157 (1134)
124 PF04277 OAD_gamma: Oxaloaceta 80.1 9.4 0.0002 25.7 6.2 23 5-27 4-26 (79)
125 PF08114 PMP1_2: ATPase proteo 78.5 4.6 0.0001 23.9 3.5 25 5-29 9-33 (43)
126 COG3763 Uncharacterized protei 77.9 7.8 0.00017 25.8 4.9 30 4-33 3-32 (71)
127 KOG0269 WD40 repeat-containing 77.8 2.1 4.6E-05 41.1 3.1 42 84-127 779-820 (839)
128 COG3462 Predicted membrane pro 77.8 7 0.00015 28.4 5.0 24 5-28 48-71 (117)
129 PF10571 UPF0547: Uncharacteri 77.4 1.2 2.6E-05 23.7 0.8 23 86-110 2-24 (26)
130 PF02891 zf-MIZ: MIZ/SP-RING z 76.8 2.8 6.1E-05 26.0 2.5 43 85-131 3-50 (50)
131 KOG4718 Non-SMC (structural ma 76.3 1.3 2.9E-05 35.9 1.2 47 83-132 180-226 (235)
132 KOG0824 Predicted E3 ubiquitin 74.5 4.5 9.7E-05 34.8 3.9 50 82-134 103-152 (324)
133 KOG0802 E3 ubiquitin ligase [P 73.2 1.7 3.6E-05 40.8 1.2 45 82-134 477-521 (543)
134 PF13901 DUF4206: Domain of un 73.1 2.6 5.6E-05 34.3 2.1 42 83-130 151-197 (202)
135 PF06679 DUF1180: Protein of u 72.7 4.8 0.0001 31.6 3.4 23 12-34 99-121 (163)
136 PF14991 MLANA: Protein melan- 72.5 0.73 1.6E-05 33.6 -1.1 23 16-38 32-54 (118)
137 PF05393 Hum_adeno_E3A: Human 72.1 7.2 0.00016 27.2 3.7 12 29-40 52-63 (94)
138 KOG1812 Predicted E3 ubiquitin 72.0 1.7 3.6E-05 39.0 0.8 45 83-128 305-351 (384)
139 KOG3113 Uncharacterized conser 71.9 4.9 0.00011 33.7 3.5 50 84-135 111-160 (293)
140 PF14569 zf-UDP: Zinc-binding 71.9 5.6 0.00012 27.1 3.1 53 83-135 8-64 (80)
141 PHA02975 hypothetical protein; 71.8 7.6 0.00016 25.7 3.6 17 13-29 51-67 (69)
142 PF05393 Hum_adeno_E3A: Human 71.3 9 0.00019 26.7 4.1 35 6-40 33-67 (94)
143 PF14979 TMEM52: Transmembrane 70.2 10 0.00022 29.1 4.6 33 4-36 17-51 (154)
144 COG5109 Uncharacterized conser 70.2 19 0.00041 31.3 6.7 46 83-129 335-383 (396)
145 PF11023 DUF2614: Protein of u 69.8 31 0.00066 25.3 6.7 28 104-137 73-100 (114)
146 PF10577 UPF0560: Uncharacteri 69.4 7 0.00015 38.0 4.3 27 10-36 276-302 (807)
147 KOG1815 Predicted E3 ubiquitin 69.2 2.8 6.2E-05 38.2 1.7 50 82-134 68-127 (444)
148 smart00249 PHD PHD zinc finger 69.2 3.3 7.1E-05 24.2 1.5 31 86-117 1-31 (47)
149 KOG2807 RNA polymerase II tran 69.2 4.3 9.2E-05 35.3 2.6 65 65-130 310-375 (378)
150 KOG2066 Vacuolar assembly/sort 68.6 2 4.2E-05 41.5 0.5 44 83-128 783-830 (846)
151 PF13719 zinc_ribbon_5: zinc-r 68.1 3.5 7.7E-05 23.8 1.4 27 85-111 3-36 (37)
152 PF15102 TMEM154: TMEM154 prot 67.0 1.2 2.6E-05 34.2 -1.0 10 112-121 127-136 (146)
153 PF06024 DUF912: Nucleopolyhed 65.6 1.7 3.7E-05 31.2 -0.3 6 8-13 64-69 (101)
154 PF00628 PHD: PHD-finger; Int 65.2 3.8 8.2E-05 25.0 1.2 44 86-130 1-50 (51)
155 COG3630 OadG Na+-transporting 64.8 12 0.00027 25.8 3.7 24 5-28 10-33 (84)
156 PF13908 Shisa: Wnt and FGF in 64.7 2.5 5.5E-05 33.4 0.4 14 9-22 78-91 (179)
157 smart00132 LIM Zinc-binding do 64.1 7.7 0.00017 21.6 2.4 37 86-132 1-37 (39)
158 PF02439 Adeno_E3_CR2: Adenovi 63.9 19 0.0004 21.0 3.8 28 5-32 5-32 (38)
159 PF07406 NICE-3: NICE-3 protei 63.5 8 0.00017 31.0 3.1 33 4-37 9-41 (186)
160 PF01363 FYVE: FYVE zinc finge 62.5 4.4 9.6E-05 26.5 1.2 37 82-118 7-43 (69)
161 PF06906 DUF1272: Protein of u 62.1 12 0.00027 23.8 3.0 47 85-136 6-55 (57)
162 KOG3005 GIY-YIG type nuclease 61.3 5.2 0.00011 33.8 1.7 48 85-132 183-242 (276)
163 PHA02849 putative transmembran 60.8 20 0.00043 24.4 4.0 18 9-26 17-34 (82)
164 KOG3842 Adaptor protein Pellin 60.5 9.6 0.00021 33.0 3.1 51 83-134 340-415 (429)
165 PF03672 UPF0154: Uncharacteri 60.4 18 0.00038 23.8 3.7 24 10-33 2-25 (64)
166 PLN02189 cellulose synthase 60.4 9.2 0.0002 38.4 3.4 52 83-134 33-88 (1040)
167 KOG3039 Uncharacterized conser 60.3 6.7 0.00014 32.8 2.1 35 83-121 42-76 (303)
168 PF06844 DUF1244: Protein of u 59.4 5.4 0.00012 26.2 1.1 11 110-120 12-22 (68)
169 PF08374 Protocadherin: Protoc 59.3 3.9 8.4E-05 33.4 0.6 25 6-30 37-61 (221)
170 KOG2068 MOT2 transcription fac 58.9 6.9 0.00015 34.0 2.1 47 85-132 250-297 (327)
171 PF15330 SIT: SHP2-interacting 57.9 15 0.00032 26.7 3.4 18 18-35 8-25 (107)
172 TIGR01195 oadG_fam sodium pump 55.9 33 0.00071 23.6 4.7 13 8-20 10-22 (82)
173 PF06716 DUF1201: Protein of u 54.0 42 0.0009 20.5 4.2 13 12-24 10-22 (54)
174 PLN02436 cellulose synthase A 52.1 15 0.00033 37.0 3.4 52 83-134 35-90 (1094)
175 KOG3579 Predicted E3 ubiquitin 51.2 8.4 0.00018 32.9 1.3 41 82-122 266-306 (352)
176 KOG0956 PHD finger protein AF1 51.1 4 8.6E-05 38.9 -0.7 51 85-136 118-185 (900)
177 PLN02638 cellulose synthase A 51.0 16 0.00035 36.9 3.4 52 83-134 16-71 (1079)
178 PF12072 DUF3552: Domain of un 50.7 29 0.00064 28.0 4.4 23 7-29 2-24 (201)
179 PF00412 LIM: LIM domain; Int 50.6 16 0.00034 22.6 2.3 38 87-134 1-38 (58)
180 PRK02919 oxaloacetate decarbox 50.2 47 0.001 22.9 4.7 26 5-30 10-35 (82)
181 KOG2041 WD40 repeat protein [G 49.6 10 0.00022 36.7 1.7 46 83-132 1130-1184(1189)
182 cd00065 FYVE FYVE domain; Zinc 49.4 13 0.00028 23.1 1.7 35 85-119 3-37 (57)
183 PF04478 Mid2: Mid2 like cell 48.7 2.1 4.5E-05 33.1 -2.4 22 12-33 55-76 (154)
184 COG4736 CcoQ Cbb3-type cytochr 48.3 43 0.00093 21.7 4.0 24 12-35 10-33 (60)
185 PF05399 EVI2A: Ectropic viral 48.2 22 0.00048 29.0 3.2 21 6-26 128-148 (227)
186 PRK11677 hypothetical protein; 47.4 24 0.00052 26.7 3.2 19 8-26 3-21 (134)
187 smart00064 FYVE Protein presen 46.8 15 0.00033 23.8 1.8 36 84-119 10-45 (68)
188 PRK03814 oxaloacetate decarbox 46.5 31 0.00068 23.9 3.4 6 60-65 63-68 (85)
189 PLN02400 cellulose synthase 45.9 18 0.0004 36.6 2.9 53 83-135 35-91 (1085)
190 PF07649 C1_3: C1-like domain; 45.6 20 0.00044 19.3 1.9 29 86-115 2-30 (30)
191 PF10717 ODV-E18: Occlusion-de 45.3 33 0.00071 23.7 3.2 9 8-16 26-34 (85)
192 PF06305 DUF1049: Protein of u 45.0 43 0.00093 21.6 3.8 10 12-21 25-34 (68)
193 PF01708 Gemini_mov: Geminivir 44.6 17 0.00037 25.4 1.8 19 6-24 37-55 (91)
194 PF05545 FixQ: Cbb3-type cytoc 44.0 58 0.0013 19.7 4.1 18 15-32 13-30 (49)
195 PF04710 Pellino: Pellino; In 43.2 7.9 0.00017 34.6 0.0 50 84-134 328-402 (416)
196 PF10497 zf-4CXXC_R1: Zinc-fin 43.2 32 0.00068 24.9 3.1 48 82-130 5-69 (105)
197 PF10954 DUF2755: Protein of u 43.1 58 0.0012 22.8 4.2 26 2-27 67-92 (100)
198 PF04689 S1FA: DNA binding pro 42.9 22 0.00049 23.2 2.0 24 3-26 11-34 (69)
199 PF13717 zinc_ribbon_4: zinc-r 42.5 14 0.00029 21.2 0.9 27 85-111 3-36 (36)
200 PF07191 zinc-ribbons_6: zinc- 42.5 2.7 5.9E-05 28.1 -2.3 42 85-135 2-43 (70)
201 smart00647 IBR In Between Ring 42.3 7.6 0.00017 24.6 -0.2 20 100-119 40-59 (64)
202 PF07204 Orthoreo_P10: Orthore 42.2 27 0.00058 24.7 2.5 16 18-33 50-65 (98)
203 PF02158 Neuregulin: Neureguli 41.6 8.7 0.00019 34.1 0.0 24 9-32 9-33 (404)
204 PF05605 zf-Di19: Drought indu 41.4 12 0.00027 23.3 0.7 37 84-131 2-40 (54)
205 PF04423 Rad50_zn_hook: Rad50 41.4 7.6 0.00016 24.3 -0.3 12 124-135 22-33 (54)
206 PF01034 Syndecan: Syndecan do 41.2 8.3 0.00018 25.2 -0.1 9 13-21 16-24 (64)
207 PF04216 FdhE: Protein involve 41.0 5.6 0.00012 34.1 -1.3 49 82-131 170-220 (290)
208 PRK11677 hypothetical protein; 40.4 31 0.00068 26.1 2.9 24 5-28 4-27 (134)
209 PF06103 DUF948: Bacterial pro 40.2 50 0.0011 22.7 3.7 22 8-29 3-24 (90)
210 KOG2979 Protein involved in DN 39.9 17 0.00038 30.5 1.5 41 84-127 176-218 (262)
211 PF06305 DUF1049: Protein of u 39.6 70 0.0015 20.5 4.2 21 8-28 25-45 (68)
212 PRK09702 PTS system arbutin-sp 39.5 43 0.00093 26.2 3.6 29 7-35 7-35 (161)
213 PF06143 Baculo_11_kDa: Baculo 39.4 74 0.0016 22.1 4.3 20 10-29 38-57 (84)
214 COG3105 Uncharacterized protei 38.8 58 0.0013 24.5 3.9 28 1-29 1-28 (138)
215 COG3813 Uncharacterized protei 38.6 45 0.00099 22.4 3.0 50 86-138 7-57 (84)
216 PF14311 DUF4379: Domain of un 38.1 22 0.00048 22.2 1.5 23 105-128 33-55 (55)
217 PF15179 Myc_target_1: Myc tar 37.9 69 0.0015 25.6 4.5 21 13-33 27-47 (197)
218 cd00350 rubredoxin_like Rubred 37.7 19 0.00041 20.0 1.0 21 105-131 6-26 (33)
219 KOG1815 Predicted E3 ubiquitin 37.3 10 0.00022 34.6 -0.3 37 84-121 226-267 (444)
220 PLN02915 cellulose synthase A 36.8 38 0.00082 34.3 3.5 52 83-134 14-69 (1044)
221 PF04277 OAD_gamma: Oxaloaceta 35.7 82 0.0018 21.0 4.2 7 15-21 10-16 (79)
222 PF07423 DUF1510: Protein of u 35.6 36 0.00078 28.0 2.7 23 7-30 13-35 (217)
223 PRK14584 hmsS hemin storage sy 35.3 1.3E+02 0.0028 23.4 5.5 10 60-69 109-118 (153)
224 PF06365 CD34_antigen: CD34/Po 35.2 21 0.00046 29.0 1.3 13 21-33 114-126 (202)
225 PF09723 Zn-ribbon_8: Zinc rib 34.9 8.2 0.00018 22.9 -0.9 25 105-130 10-34 (42)
226 PF14851 FAM176: FAM176 family 34.5 52 0.0011 25.6 3.3 23 9-31 24-47 (153)
227 PHA03105 EEV glycoprotein; Pro 34.3 48 0.001 25.8 3.0 24 6-29 6-29 (188)
228 PF02318 FYVE_2: FYVE-type zin 34.0 28 0.0006 25.5 1.7 46 83-130 53-102 (118)
229 PRK09039 hypothetical protein; 34.0 80 0.0017 27.8 4.8 31 2-32 15-45 (343)
230 PLN02195 cellulose synthase A 34.0 50 0.0011 33.2 3.8 51 83-133 5-59 (977)
231 KOG3799 Rab3 effector RIM1 and 33.4 12 0.00025 28.4 -0.4 18 80-97 61-79 (169)
232 COG3492 Uncharacterized protei 33.1 21 0.00046 25.1 0.8 13 109-121 42-54 (104)
233 PHA02902 putative IMV membrane 33.1 67 0.0014 21.0 3.1 8 61-68 54-61 (70)
234 PF11119 DUF2633: Protein of u 32.9 1.4E+02 0.003 19.3 5.1 16 5-20 8-23 (59)
235 PF01788 PsbJ: PsbJ; InterPro 32.7 1E+02 0.0022 18.1 3.5 21 6-26 10-30 (40)
236 PRK03554 tatA twin arginine tr 32.4 53 0.0012 23.0 2.7 9 1-9 1-9 (89)
237 PRK14585 pgaD putative PGA bio 31.7 1.9E+02 0.0042 21.9 5.8 11 60-70 100-110 (137)
238 COG5627 MMS21 DNA repair prote 31.3 21 0.00046 29.7 0.7 45 84-131 189-237 (275)
239 PF05510 Sarcoglycan_2: Sarcog 31.3 54 0.0012 29.4 3.3 25 16-40 293-317 (386)
240 PF10083 DUF2321: Uncharacteri 31.1 23 0.0005 27.5 0.8 42 89-133 9-50 (158)
241 PF15050 SCIMP: SCIMP protein 30.5 1.2E+02 0.0026 22.6 4.4 6 11-16 10-15 (133)
242 PF13771 zf-HC5HC2H: PHD-like 30.5 33 0.00071 23.5 1.5 34 83-117 35-68 (90)
243 COG3071 HemY Uncharacterized e 29.9 74 0.0016 28.6 3.9 25 4-28 39-63 (400)
244 KOG1245 Chromatin remodeling c 29.2 21 0.00044 37.5 0.4 50 82-132 1106-1159(1404)
245 PF07213 DAP10: DAP10 membrane 29.1 1E+02 0.0022 21.1 3.6 17 20-36 46-62 (79)
246 PF06295 DUF1043: Protein of u 29.1 63 0.0014 24.1 2.9 8 12-19 3-10 (128)
247 PF14584 DUF4446: Protein of u 28.9 96 0.0021 24.0 4.0 13 82-94 95-107 (151)
248 PF06676 DUF1178: Protein of u 28.7 19 0.00041 27.8 0.0 21 106-131 10-41 (148)
249 PF10146 zf-C4H2: Zinc finger- 28.5 39 0.00084 28.1 1.8 24 111-134 197-220 (230)
250 PRK14762 membrane protein; Pro 28.0 1E+02 0.0022 16.2 3.1 6 13-18 10-15 (27)
251 PRK11088 rrmA 23S rRNA methylt 28.0 39 0.00084 28.4 1.8 26 85-111 3-28 (272)
252 COG4847 Uncharacterized protei 28.0 53 0.0011 23.3 2.1 35 84-120 6-40 (103)
253 PRK05978 hypothetical protein; 27.7 37 0.0008 26.2 1.4 23 108-135 43-65 (148)
254 PRK04598 tatA twin arginine tr 27.5 74 0.0016 21.9 2.7 8 1-8 1-8 (81)
255 PF00430 ATP-synt_B: ATP synth 27.5 98 0.0021 22.5 3.8 10 23-32 13-22 (132)
256 PF12877 DUF3827: Domain of un 27.3 29 0.00063 33.1 1.0 6 7-12 270-275 (684)
257 KOG4451 Uncharacterized conser 27.3 46 0.001 27.6 2.0 25 110-134 251-275 (286)
258 PRK07353 F0F1 ATP synthase sub 27.3 1E+02 0.0022 23.0 3.8 16 2-17 2-17 (140)
259 PF13240 zinc_ribbon_2: zinc-r 26.6 11 0.00024 19.3 -1.1 7 124-130 15-21 (23)
260 KOG1729 FYVE finger containing 26.3 13 0.00028 32.0 -1.4 34 86-120 216-249 (288)
261 PF07069 PRRSV_2b: Porcine rep 26.2 1.9E+02 0.0041 18.7 4.6 11 23-33 46-56 (73)
262 PF13832 zf-HC5HC2H_2: PHD-zin 26.0 40 0.00088 24.0 1.4 33 83-117 54-87 (110)
263 PLN02248 cellulose synthase-li 25.9 78 0.0017 32.4 3.7 52 83-134 123-178 (1135)
264 PF13994 PgaD: PgaD-like prote 25.7 2.8E+02 0.0061 20.8 6.0 10 60-69 111-120 (138)
265 KOG1025 Epidermal growth facto 25.6 77 0.0017 31.7 3.4 27 7-33 629-655 (1177)
266 PRK14859 tatA twin arginine tr 25.2 86 0.0019 20.5 2.6 9 1-9 1-9 (63)
267 PRK01741 cell division protein 25.0 97 0.0021 27.2 3.7 23 6-28 3-25 (332)
268 PF12877 DUF3827: Domain of un 24.6 41 0.0009 32.1 1.4 22 10-31 270-291 (684)
269 PF15069 FAM163: FAM163 family 24.4 1.2E+02 0.0026 23.2 3.6 7 122-128 91-97 (143)
270 PRK13454 F0F1 ATP synthase sub 24.1 1.3E+02 0.0029 23.7 4.2 10 23-32 45-54 (181)
271 PRK00720 tatA twin arginine tr 23.9 94 0.002 21.2 2.7 8 1-8 1-8 (78)
272 KOG4482 Sarcoglycan complex, a 23.9 1.4E+02 0.0031 26.7 4.5 19 22-40 311-329 (449)
273 KOG2071 mRNA cleavage and poly 23.8 42 0.00091 31.6 1.3 35 82-118 511-556 (579)
274 PF06937 EURL: EURL protein; 23.7 61 0.0013 27.5 2.1 44 83-126 29-74 (285)
275 TIGR03038 PS_II_psbM photosyst 23.7 1.5E+02 0.0032 16.7 3.0 6 13-18 13-18 (33)
276 KOG2231 Predicted E3 ubiquitin 23.7 54 0.0012 31.6 2.0 46 86-135 2-54 (669)
277 PF09943 DUF2175: Uncharacteri 23.6 75 0.0016 22.9 2.3 34 85-120 3-36 (101)
278 PRK01833 tatA twin arginine tr 23.4 99 0.0021 20.9 2.7 9 1-9 1-9 (74)
279 PRK11827 hypothetical protein; 23.4 25 0.00053 22.8 -0.2 18 117-134 3-20 (60)
280 PRK04023 DNA polymerase II lar 23.3 67 0.0015 32.5 2.6 66 82-153 624-694 (1121)
281 PHA02898 virion envelope prote 23.3 1.2E+02 0.0026 21.2 3.1 10 12-21 49-58 (92)
282 TIGR01562 FdhE formate dehydro 23.0 23 0.0005 30.7 -0.5 46 84-130 184-232 (305)
283 PF15048 OSTbeta: Organic solu 22.9 1.6E+02 0.0035 22.0 4.0 15 6-20 35-49 (125)
284 PF05151 PsbM: Photosystem II 22.9 1.5E+02 0.0033 16.4 3.8 12 10-21 10-21 (31)
285 PF11980 DUF3481: Domain of un 22.8 1E+02 0.0022 21.3 2.7 15 23-37 32-46 (87)
286 PF15168 TRIQK: Triple QxxK/R 22.8 2E+02 0.0043 19.6 4.0 17 5-21 47-63 (79)
287 PHA02650 hypothetical protein; 22.7 2.3E+02 0.0051 19.3 4.4 13 18-30 58-70 (81)
288 KOG1094 Discoidin domain recep 22.5 1.1E+02 0.0024 29.4 3.7 22 16-37 397-418 (807)
289 PRK14860 tatA twin arginine tr 22.3 89 0.0019 20.5 2.3 9 1-9 1-9 (64)
290 PF12292 DUF3624: Protein of u 22.2 2.4E+02 0.0053 19.2 4.4 22 7-28 49-70 (77)
291 PF11014 DUF2852: Protein of u 22.2 2.4E+02 0.0053 20.7 4.8 16 3-18 7-22 (115)
292 PF11057 Cortexin: Cortexin of 22.0 1.1E+02 0.0024 20.7 2.7 8 29-36 46-53 (81)
293 KOG1512 PHD Zn-finger protein 21.9 49 0.0011 28.4 1.2 33 83-116 313-345 (381)
294 PF07282 OrfB_Zn_ribbon: Putat 21.7 1E+02 0.0022 19.8 2.6 33 84-116 28-62 (69)
295 KOG2113 Predicted RNA binding 21.7 42 0.00091 29.2 0.8 46 83-132 135-182 (394)
296 PRK03564 formate dehydrogenase 21.7 46 0.00099 29.0 1.1 47 83-130 186-234 (309)
297 PF15122 TMEM206: TMEM206 prot 21.7 1.5E+02 0.0033 24.9 4.0 12 100-112 70-81 (298)
298 PHA03048 IMV membrane protein; 21.6 1.1E+02 0.0023 21.5 2.7 24 8-31 48-71 (93)
299 PF05454 DAG1: Dystroglycan (D 21.5 31 0.00067 29.7 0.0 12 22-33 163-174 (290)
300 PF07423 DUF1510: Protein of u 21.3 75 0.0016 26.2 2.2 13 6-18 16-28 (217)
301 PF15298 AJAP1_PANP_C: AJAP1/P 21.3 89 0.0019 25.3 2.5 15 18-32 112-126 (205)
302 COG0711 AtpF F0F1-type ATP syn 21.0 1.5E+02 0.0032 23.0 3.8 9 8-16 9-17 (161)
303 PF13120 DUF3974: Domain of un 20.9 93 0.002 22.1 2.3 21 7-27 5-25 (126)
304 PF03107 C1_2: C1 domain; Int 20.7 75 0.0016 17.1 1.5 28 86-114 2-29 (30)
305 CHL00118 atpG ATP synthase CF0 20.7 1.6E+02 0.0034 22.6 3.8 10 22-31 35-44 (156)
306 smart00834 CxxC_CXXC_SSSS Puta 20.7 50 0.0011 18.8 0.8 11 122-132 26-36 (41)
307 COG3115 ZipA Cell division pro 20.5 1.3E+02 0.0028 26.1 3.5 12 6-17 4-15 (324)
308 PRK08476 F0F1 ATP synthase sub 20.5 2.3E+02 0.005 21.3 4.7 11 8-18 10-20 (141)
309 PRK01614 tatE twin arginine tr 20.5 1.2E+02 0.0026 21.0 2.7 7 1-7 1-7 (85)
310 PF12297 EVC2_like: Ellis van 20.4 1.6E+02 0.0036 26.7 4.3 19 5-23 64-82 (429)
311 COG5151 SSL1 RNA polymerase II 20.4 89 0.0019 27.2 2.5 64 67-130 344-418 (421)
312 PF12768 Rax2: Cortical protei 20.2 64 0.0014 27.6 1.7 9 13-21 234-242 (281)
313 PF15361 RIC3: Resistance to i 20.2 1.2E+02 0.0026 23.5 3.0 21 9-30 85-105 (152)
314 PRK14858 tatA twin arginine tr 20.2 96 0.0021 22.6 2.3 11 1-11 1-11 (108)
315 PHA02680 ORF090 IMV phosphoryl 20.1 1.2E+02 0.0026 21.2 2.6 9 12-20 50-58 (91)
316 COG4768 Uncharacterized protei 20.1 2E+02 0.0043 21.9 4.0 8 8-15 8-15 (139)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.83 E-value=1.9e-20 Score=160.46 Aligned_cols=76 Identities=39% Similarity=0.864 Sum_probs=64.7
Q ss_pred CCCHHHHhhCCceecchhhhcCCcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCC-CccccccCccCch
Q 027163 60 GVEPVVVANFPMKKFSDEYFAAAEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHST-CPVCRVSLRELPE 137 (227)
Q Consensus 60 ~l~~~~~~~lp~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~-CP~Cr~~~~~~~~ 137 (227)
.+.+..++++|...|......... ..|+||||+|+.+++++.|| |+|.||..||++||...++ ||+||.++.....
T Consensus 206 r~~k~~l~~~p~~~f~~~~~~~~~-~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~ 282 (348)
T KOG4628|consen 206 RLIKRLLKKLPVRTFTKGDDEDAT-DTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSG 282 (348)
T ss_pred hhHHHHHhhCCcEEeccccccCCC-ceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCCCCC
Confidence 567889999999999876543333 69999999999999999999 9999999999999988754 9999998865443
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=99.57 E-value=7.2e-16 Score=94.97 Aligned_cols=44 Identities=45% Similarity=1.252 Sum_probs=40.1
Q ss_pred cccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCcccc
Q 027163 85 TQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCR 129 (227)
Q Consensus 85 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr 129 (227)
++|+||++.|..++.++.++ |+|.||..||..|++.+.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence 37999999999888999998 999999999999999999999997
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.40 E-value=2.4e-13 Score=112.07 Aligned_cols=78 Identities=28% Similarity=0.634 Sum_probs=58.9
Q ss_pred CCCCCHHHHhhCCceecchhh-hcCCcccccccccccccCCce----eEEcCCCCCcccHhhHHHHHcCCCCCccccccC
Q 027163 58 LHGVEPVVVANFPMKKFSDEY-FAAAEDTQCAVCLAEYHGEDT----LRILPYCGHSFHATCIDIWLHQHSTCPVCRVSL 132 (227)
Q Consensus 58 ~~~l~~~~~~~lp~~~~~~~~-~~~~~~~~C~ICl~~~~~~~~----~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~ 132 (227)
..+..+..+..+|........ .....+.+|+||++.+..+.. +.+++.|+|.||..||..|+..+.+||+||..+
T Consensus 147 k~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~ 226 (238)
T PHA02929 147 KGKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPF 226 (238)
T ss_pred hcchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEe
Confidence 356678899999987544322 233457899999999865431 234445999999999999999999999999988
Q ss_pred ccC
Q 027163 133 REL 135 (227)
Q Consensus 133 ~~~ 135 (227)
...
T Consensus 227 ~~v 229 (238)
T PHA02929 227 ISV 229 (238)
T ss_pred eEE
Confidence 643
No 4
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.39 E-value=3e-12 Score=109.40 Aligned_cols=51 Identities=39% Similarity=1.026 Sum_probs=43.5
Q ss_pred CCcccccccccccc-cCC---------ceeEEcCCCCCcccHhhHHHHHcCCCCCccccccC
Q 027163 81 AAEDTQCAVCLAEY-HGE---------DTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSL 132 (227)
Q Consensus 81 ~~~~~~C~ICl~~~-~~~---------~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~ 132 (227)
..++..|.||++++ ..+ .+.+.+| |||+||.+|++.|++++.+||+||.++
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCcc
Confidence 46778999999994 333 2457888 999999999999999999999999994
No 5
>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=99.37 E-value=4.6e-13 Score=91.31 Aligned_cols=46 Identities=43% Similarity=1.016 Sum_probs=36.3
Q ss_pred cccccccccccccCC----------ceeEEcCCCCCcccHhhHHHHHcCCCCCcccc
Q 027163 83 EDTQCAVCLAEYHGE----------DTLRILPYCGHSFHATCIDIWLHQHSTCPVCR 129 (227)
Q Consensus 83 ~~~~C~ICl~~~~~~----------~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr 129 (227)
.+..|+||++.|.++ -.+...+ |+|.||..||.+||..+.+||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence 355699999999332 2444555 999999999999999999999998
No 6
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.34 E-value=6.7e-13 Score=110.59 Aligned_cols=52 Identities=40% Similarity=1.087 Sum_probs=47.0
Q ss_pred CcccccccccccccCCceeEEcCCCCCcccHhhHHHHHc-CCCCCccccccCcc
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLH-QHSTCPVCRVSLRE 134 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~-~~~~CP~Cr~~~~~ 134 (227)
..+.+|+|||++|...++++++| |+|.||..|+++|+. -+..||+||.++++
T Consensus 321 ~~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 45679999999999999999999 999999999999998 46679999999864
No 7
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.18 E-value=2.4e-11 Score=101.07 Aligned_cols=49 Identities=31% Similarity=0.844 Sum_probs=43.1
Q ss_pred CcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCcc
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLRE 134 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 134 (227)
.....|.+||+...++ ..+| |||+||+.||..|...+..||+||..+.+
T Consensus 237 ~a~~kC~LCLe~~~~p---SaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~p 285 (293)
T KOG0317|consen 237 EATRKCSLCLENRSNP---SATP-CGHIFCWSCILEWCSEKAECPLCREKFQP 285 (293)
T ss_pred CCCCceEEEecCCCCC---CcCc-CcchHHHHHHHHHHccccCCCcccccCCC
Confidence 4557899999998777 5677 99999999999999999999999998864
No 8
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.08 E-value=9.6e-11 Score=93.10 Aligned_cols=50 Identities=32% Similarity=0.808 Sum_probs=41.0
Q ss_pred CCcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcC----------------CCCCccccccCcc
Q 027163 81 AAEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQ----------------HSTCPVCRVSLRE 134 (227)
Q Consensus 81 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~----------------~~~CP~Cr~~~~~ 134 (227)
..++.+|+||++.+.++ ++++ |+|.||+.||..|+.. ...||+||..+..
T Consensus 15 ~~~~~~CpICld~~~dP---VvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 15 SGGDFDCNICLDQVRDP---VVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred CCCccCCccCCCcCCCc---EEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 34678999999998766 4566 9999999999999842 2479999999865
No 9
>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=7.1e-11 Score=74.55 Aligned_cols=47 Identities=32% Similarity=0.941 Sum_probs=39.2
Q ss_pred ccccccccccccCCceeEEcCCCCCc-ccHhhHHHHHcCCCCCccccccCcc
Q 027163 84 DTQCAVCLAEYHGEDTLRILPYCGHS-FHATCIDIWLHQHSTCPVCRVSLRE 134 (227)
Q Consensus 84 ~~~C~ICl~~~~~~~~~~~l~~C~H~-fh~~Ci~~wl~~~~~CP~Cr~~~~~ 134 (227)
+..|.||++... .+..+| |||. ||..|+..|+.....||+||.++..
T Consensus 2 ~~~C~iC~~~~~---~~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 2 DEECPICFENPR---DVVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIES 49 (50)
T ss_dssp HSB-TTTSSSBS---SEEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred cCCCccCCccCC---ceEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence 568999999854 357788 9999 9999999999999999999998853
No 10
>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=99.06 E-value=1.4e-10 Score=69.29 Aligned_cols=39 Identities=44% Similarity=1.169 Sum_probs=32.5
Q ss_pred cccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccc
Q 027163 87 CAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVC 128 (227)
Q Consensus 87 C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~C 128 (227)
|+||++.+.+ .++.++ |||.||..|+..|++.+..||+|
T Consensus 1 C~iC~~~~~~--~~~~~~-CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTP-CGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--cCEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence 8999999865 445676 99999999999999998899998
No 11
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=99.02 E-value=2.5e-10 Score=69.55 Aligned_cols=44 Identities=45% Similarity=1.282 Sum_probs=36.2
Q ss_pred ccccccccccCCceeEEcCCCCCcccHhhHHHHHcC-CCCCccccccC
Q 027163 86 QCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQ-HSTCPVCRVSL 132 (227)
Q Consensus 86 ~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~~ 132 (227)
+|+||++.+. ..+...+ |+|.||..|+..|+.. +..||+||..+
T Consensus 1 ~C~iC~~~~~--~~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFR--EPVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhh--CceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 5999999983 3445555 9999999999999987 67899998754
No 12
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.01 E-value=1.9e-10 Score=93.03 Aligned_cols=50 Identities=28% Similarity=0.679 Sum_probs=41.1
Q ss_pred CcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCC---CCCccccccCccC
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQH---STCPVCRVSLREL 135 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~---~~CP~Cr~~~~~~ 135 (227)
....+|.|||+.-+++ +++. |||.||+.||.+||+.+ +.||+||..+...
T Consensus 45 ~~~FdCNICLd~akdP---VvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~ 97 (230)
T KOG0823|consen 45 GGFFDCNICLDLAKDP---VVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSID 97 (230)
T ss_pred CCceeeeeeccccCCC---EEee-cccceehHHHHHHHhhcCCCeeCCccccccccc
Confidence 5567999999997766 4555 99999999999999864 5699999988653
No 13
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.01 E-value=2.2e-10 Score=79.05 Aligned_cols=52 Identities=35% Similarity=0.860 Sum_probs=39.2
Q ss_pred CcccccccccccccCC---------ceeEEcCCCCCcccHhhHHHHHcC---CCCCccccccCc
Q 027163 82 AEDTQCAVCLAEYHGE---------DTLRILPYCGHSFHATCIDIWLHQ---HSTCPVCRVSLR 133 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~---------~~~~~l~~C~H~fh~~Ci~~wl~~---~~~CP~Cr~~~~ 133 (227)
.+++.|.||+..|+.. +...++..|+|.||.+||.+|+.. +..||+||+.+.
T Consensus 19 ~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 19 ANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 3578999999988621 112233359999999999999985 467999999763
No 14
>PHA02926 zinc finger-like protein; Provisional
Probab=99.01 E-value=1.9e-10 Score=92.49 Aligned_cols=55 Identities=29% Similarity=0.835 Sum_probs=41.3
Q ss_pred cCCcccccccccccccCC-----ceeEEcCCCCCcccHhhHHHHHcCC------CCCccccccCcc
Q 027163 80 AAAEDTQCAVCLAEYHGE-----DTLRILPYCGHSFHATCIDIWLHQH------STCPVCRVSLRE 134 (227)
Q Consensus 80 ~~~~~~~C~ICl~~~~~~-----~~~~~l~~C~H~fh~~Ci~~wl~~~------~~CP~Cr~~~~~ 134 (227)
....+.+|+||++..-.+ ...-+|+.|+|.||..||..|...+ .+||+||..+..
T Consensus 166 ~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 166 RVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred hccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 345678999999986322 2233555699999999999998753 459999998754
No 15
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.99 E-value=2.2e-10 Score=89.03 Aligned_cols=52 Identities=27% Similarity=0.675 Sum_probs=42.5
Q ss_pred CCcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCcc
Q 027163 81 AAEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLRE 134 (227)
Q Consensus 81 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 134 (227)
......|+|||+.+..... +..+|||+||..||+..++....||+|+..|..
T Consensus 128 ~~~~~~CPiCl~~~sek~~--vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~ 179 (187)
T KOG0320|consen 128 KEGTYKCPICLDSVSEKVP--VSTKCGHVFCSQCIKDALKNTNKCPTCRKKITH 179 (187)
T ss_pred cccccCCCceecchhhccc--cccccchhHHHHHHHHHHHhCCCCCCcccccch
Confidence 3455789999999975543 323699999999999999999999999987754
No 16
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.96 E-value=5.2e-10 Score=67.85 Aligned_cols=38 Identities=37% Similarity=1.009 Sum_probs=29.0
Q ss_pred cccccccccCCceeEEcCCCCCcccHhhHHHHHcCC----CCCccc
Q 027163 87 CAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQH----STCPVC 128 (227)
Q Consensus 87 C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~----~~CP~C 128 (227)
|+||++.|.++ +.++ |||.|+..||..|.+.. ..||.|
T Consensus 1 CpiC~~~~~~P---v~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP---VSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE---EE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc---cccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999887 5676 99999999999998653 369987
No 17
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.90 E-value=1.2e-09 Score=101.19 Aligned_cols=51 Identities=41% Similarity=1.033 Sum_probs=44.4
Q ss_pred CcccccccccccccCCce--eEEcCCCCCcccHhhHHHHHcCCCCCccccccCc
Q 027163 82 AEDTQCAVCLAEYHGEDT--LRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLR 133 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~--~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 133 (227)
..+..|+||++.+..+.. .+.++ |+|+||..|+..|+++..+||+||..+.
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLY 341 (543)
T ss_pred hcCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhh
Confidence 457899999999987544 57888 9999999999999999999999999543
No 18
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.86 E-value=2.2e-09 Score=65.81 Aligned_cols=44 Identities=32% Similarity=0.894 Sum_probs=37.3
Q ss_pred ccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccc
Q 027163 86 QCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRV 130 (227)
Q Consensus 86 ~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 130 (227)
.|.||++.|......++++ |+|+||..|+..+......||+||.
T Consensus 1 ~C~~C~~~~~~~~~~~l~~-CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTS-CGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcc-cCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 4899999995555677776 9999999999998866678999984
No 19
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.85 E-value=1.8e-09 Score=65.08 Aligned_cols=39 Identities=41% Similarity=1.163 Sum_probs=33.2
Q ss_pred cccccccccCCceeEEcCCCCCcccHhhHHHHHc--CCCCCccc
Q 027163 87 CAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLH--QHSTCPVC 128 (227)
Q Consensus 87 C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~--~~~~CP~C 128 (227)
|+||++.+..+. .+++ |+|.||..|+..|+. ....||+|
T Consensus 1 C~iC~~~~~~~~--~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPV--ILLP-CGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEE--EETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCC--EEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999987653 5776 999999999999998 45679988
No 20
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.82 E-value=2e-09 Score=72.46 Aligned_cols=50 Identities=32% Similarity=0.703 Sum_probs=37.9
Q ss_pred ccccccccccccC-----------Cc-eeEEcCCCCCcccHhhHHHHHcCCCCCccccccCc
Q 027163 84 DTQCAVCLAEYHG-----------ED-TLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLR 133 (227)
Q Consensus 84 ~~~C~ICl~~~~~-----------~~-~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 133 (227)
.+.|+||...+.. ++ .....-.|+|.||.+||.+||..+..||++|+++.
T Consensus 20 id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~ 81 (88)
T COG5194 20 IDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWV 81 (88)
T ss_pred cchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence 4678888876532 22 22233359999999999999999999999999874
No 21
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.78 E-value=6.8e-09 Score=68.43 Aligned_cols=45 Identities=31% Similarity=0.597 Sum_probs=40.1
Q ss_pred cccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCc
Q 027163 85 TQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLR 133 (227)
Q Consensus 85 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 133 (227)
..|+||++.+.++ .+++ |||+|+..||..|+..+..||+|+..+.
T Consensus 2 ~~Cpi~~~~~~~P---v~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~ 46 (63)
T smart00504 2 FLCPISLEVMKDP---VILP-SGQTYERRAIEKWLLSHGTDPVTGQPLT 46 (63)
T ss_pred cCCcCCCCcCCCC---EECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence 4799999999887 5667 9999999999999998889999998874
No 22
>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=98.73 E-value=9.3e-09 Score=60.32 Aligned_cols=38 Identities=47% Similarity=1.281 Sum_probs=31.7
Q ss_pred cccccccccCCceeEEcCCCCCcccHhhHHHHHc-CCCCCccc
Q 027163 87 CAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLH-QHSTCPVC 128 (227)
Q Consensus 87 C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~-~~~~CP~C 128 (227)
|+||++.. .....++ |+|.||..|++.|+. .+..||+|
T Consensus 1 C~iC~~~~---~~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL---KDPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCC---CCcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence 78999883 3456777 999999999999998 56679987
No 23
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.71 E-value=9.6e-09 Score=90.77 Aligned_cols=50 Identities=26% Similarity=0.668 Sum_probs=43.1
Q ss_pred CcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCccC
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLREL 135 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 135 (227)
.....|+||++.|..+ ++++ |+|.||..||..|+.....||+||..+...
T Consensus 24 e~~l~C~IC~d~~~~P---vitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 24 DTSLRCHICKDFFDVP---VLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQES 73 (397)
T ss_pred ccccCCCcCchhhhCc---cCCC-CCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence 4567999999999776 3566 999999999999999888899999988653
No 24
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.60 E-value=1.1e-08 Score=84.42 Aligned_cols=51 Identities=33% Similarity=0.710 Sum_probs=42.1
Q ss_pred CcccccccccccccCCc-------eeEEcCCCCCcccHhhHHHHHc--CCCCCccccccCc
Q 027163 82 AEDTQCAVCLAEYHGED-------TLRILPYCGHSFHATCIDIWLH--QHSTCPVCRVSLR 133 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~-------~~~~l~~C~H~fh~~Ci~~wl~--~~~~CP~Cr~~~~ 133 (227)
-++..|+||-..+.... +...|. |+|+||..||+.|.. ++.+||.|+..+.
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 45678999999886554 667887 999999999999964 5678999998774
No 25
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.58 E-value=2.5e-08 Score=82.22 Aligned_cols=49 Identities=35% Similarity=0.846 Sum_probs=40.2
Q ss_pred CcccccccccccccCCceeEEcCCCCCcccHhhHHH-HHcCCCC-CccccccCcc
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDI-WLHQHST-CPVCRVSLRE 134 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~-wl~~~~~-CP~Cr~~~~~ 134 (227)
..+..|+||++....+ ..++ |||+||..||.. |-.++.- ||+||+.+..
T Consensus 213 ~~d~kC~lC~e~~~~p---s~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~p 263 (271)
T COG5574 213 LADYKCFLCLEEPEVP---SCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYP 263 (271)
T ss_pred ccccceeeeecccCCc---cccc-ccchhhHHHHHHHHHhhccccCchhhhhccc
Confidence 4578899999997655 5666 999999999988 8776655 9999998754
No 26
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.53 E-value=2e-08 Score=67.13 Aligned_cols=52 Identities=38% Similarity=0.947 Sum_probs=38.0
Q ss_pred CcccccccccccccC---------CceeEEcCCCCCcccHhhHHHHHcCC---CCCccccccCc
Q 027163 82 AEDTQCAVCLAEYHG---------EDTLRILPYCGHSFHATCIDIWLHQH---STCPVCRVSLR 133 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~---------~~~~~~l~~C~H~fh~~Ci~~wl~~~---~~CP~Cr~~~~ 133 (227)
..+..|.||.-.|.. ++...++-.|.|.||.+||.+|+... ..||+||..+.
T Consensus 18 ~~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 18 APDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 345699999998853 12222333699999999999999753 46999998763
No 27
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.43 E-value=8.4e-08 Score=81.59 Aligned_cols=51 Identities=29% Similarity=0.750 Sum_probs=44.9
Q ss_pred CcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCccCc
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLRELP 136 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 136 (227)
+.-..|.||.+.|..+ .++| |+|.||.-||..+|..+..||.|+.++.+..
T Consensus 21 D~lLRC~IC~eyf~ip---~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~ 71 (442)
T KOG0287|consen 21 DDLLRCGICFEYFNIP---MITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTESD 71 (442)
T ss_pred HHHHHHhHHHHHhcCc---eecc-ccchHHHHHHHHHhccCCCCCceecccchhh
Confidence 4457899999999877 5777 9999999999999999999999999987643
No 28
>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=98.38 E-value=2.6e-07 Score=57.85 Aligned_cols=42 Identities=26% Similarity=0.836 Sum_probs=32.4
Q ss_pred ccccccccccCCceeEEcCCCC-----CcccHhhHHHHHcCC--CCCcccc
Q 027163 86 QCAVCLAEYHGEDTLRILPYCG-----HSFHATCIDIWLHQH--STCPVCR 129 (227)
Q Consensus 86 ~C~ICl~~~~~~~~~~~l~~C~-----H~fh~~Ci~~wl~~~--~~CP~Cr 129 (227)
.|.||++ ...++.....| |. |.+|..|+..|+..+ .+||+|+
T Consensus 1 ~CrIC~~-~~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EGDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC-CCCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4899998 33444555778 75 899999999999654 5799995
No 29
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.37 E-value=1.6e-07 Score=83.92 Aligned_cols=47 Identities=32% Similarity=0.729 Sum_probs=37.0
Q ss_pred ccccccccccccCCceeEEcCCCCCcccHhhHHHHHcC-----CCCCccccccCcc
Q 027163 84 DTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQ-----HSTCPVCRVSLRE 134 (227)
Q Consensus 84 ~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-----~~~CP~Cr~~~~~ 134 (227)
+..|+|||+....+ ..+ .|||+||..||-+++.. ...||+||..|..
T Consensus 186 ~~~CPICL~~~~~p---~~t-~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP---VRT-NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCCcc---ccc-ccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 78999999986544 333 49999999999876653 3569999998865
No 30
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.36 E-value=3.8e-07 Score=81.09 Aligned_cols=51 Identities=29% Similarity=0.830 Sum_probs=38.8
Q ss_pred cccccccccccccCCc--------------eeEEcCCCCCcccHhhHHHHHcC-CCCCccccccCcc
Q 027163 83 EDTQCAVCLAEYHGED--------------TLRILPYCGHSFHATCIDIWLHQ-HSTCPVCRVSLRE 134 (227)
Q Consensus 83 ~~~~C~ICl~~~~~~~--------------~~~~l~~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~~~~ 134 (227)
....|+||+.+++-.. .-...| |.|+||..|+..|+.. +-.||+||.+++.
T Consensus 570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred ccccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 3458999999864211 122457 9999999999999995 4589999999864
No 31
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.34 E-value=2.7e-07 Score=65.35 Aligned_cols=64 Identities=28% Similarity=0.594 Sum_probs=44.2
Q ss_pred CCceecchhhhcC--Cccccccccccccc-------------CCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccC
Q 027163 69 FPMKKFSDEYFAA--AEDTQCAVCLAEYH-------------GEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSL 132 (227)
Q Consensus 69 lp~~~~~~~~~~~--~~~~~C~ICl~~~~-------------~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~ 132 (227)
+..+++....+.. ...+.|+||...+- ..+..+..-.|+|.||.+||.+||+.+..||+|..+.
T Consensus 29 F~lKKWnAvAlWaWDi~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW 107 (114)
T KOG2930|consen 29 FELKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEW 107 (114)
T ss_pred eEEeeeeeeeeeeeeeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence 3344555444332 34568999987541 1233334446999999999999999999999998765
No 32
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.33 E-value=4.3e-07 Score=55.13 Aligned_cols=34 Identities=29% Similarity=0.841 Sum_probs=21.1
Q ss_pred cccccccccCCc-eeEEcCCCCCcccHhhHHHHHcCC
Q 027163 87 CAVCLAEYHGED-TLRILPYCGHSFHATCIDIWLHQH 122 (227)
Q Consensus 87 C~ICl~~~~~~~-~~~~l~~C~H~fh~~Ci~~wl~~~ 122 (227)
|+||++ |..++ ..++|+ |||+|+.+|+.+++..+
T Consensus 1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~ 35 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKS 35 (43)
T ss_dssp -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-
T ss_pred CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcC
Confidence 899999 75533 457788 99999999999998743
No 33
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.30 E-value=3.1e-07 Score=76.69 Aligned_cols=49 Identities=31% Similarity=0.606 Sum_probs=42.1
Q ss_pred CcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCcc
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLRE 134 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 134 (227)
+.-..|-||-+.|..+ ..++ |||.||.-||...|..+..||+||.+..+
T Consensus 23 Ds~lrC~IC~~~i~ip---~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~e 71 (391)
T COG5432 23 DSMLRCRICDCRISIP---CETT-CGHTFCSLCIRRHLGTQPFCPVCREDPCE 71 (391)
T ss_pred hhHHHhhhhhheeecc---eecc-cccchhHHHHHHHhcCCCCCccccccHHh
Confidence 4457899999998766 4555 99999999999999999999999997754
No 34
>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=98.29 E-value=6.3e-07 Score=60.98 Aligned_cols=48 Identities=31% Similarity=0.595 Sum_probs=37.6
Q ss_pred cccccccccccccCCceeEEcCCCCCcccHhhHHHHHcC-CCCCccccccCcc
Q 027163 83 EDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQ-HSTCPVCRVSLRE 134 (227)
Q Consensus 83 ~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~~~~ 134 (227)
+...|+|+.+.|.++ ++++ +||.|...||..|+.. +..||+|+..+..
T Consensus 3 ~~f~CpIt~~lM~dP---Vi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~ 51 (73)
T PF04564_consen 3 DEFLCPITGELMRDP---VILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSE 51 (73)
T ss_dssp GGGB-TTTSSB-SSE---EEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred cccCCcCcCcHhhCc---eeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence 457899999999877 5677 9999999999999998 7899999988865
No 35
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.27 E-value=3.1e-07 Score=80.81 Aligned_cols=50 Identities=36% Similarity=0.841 Sum_probs=40.2
Q ss_pred CCcccccccccccccCCc-eeEEcCCCCCcccHhhHHHHHcCCCCCccccccCc
Q 027163 81 AAEDTQCAVCLAEYHGED-TLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLR 133 (227)
Q Consensus 81 ~~~~~~C~ICl~~~~~~~-~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 133 (227)
..+-.+|+|||+.+.... .++... |.|.||..|+..| ...+||+||....
T Consensus 172 ~tELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w--~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 172 LTELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKW--WDSSCPVCRYCQS 222 (493)
T ss_pred cccCCCcchhHhhcCccccceeeee-cccccchHHHhhc--ccCcChhhhhhcC
Confidence 345678999999997654 445555 9999999999999 4578999998654
No 36
>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=98.24 E-value=8.4e-07 Score=75.69 Aligned_cols=51 Identities=29% Similarity=0.774 Sum_probs=36.9
Q ss_pred cccccccccc-ccCCc-eeEEcCCCCCcccHhhHHHHHc-CCCCCccccccCccC
Q 027163 84 DTQCAVCLAE-YHGED-TLRILPYCGHSFHATCIDIWLH-QHSTCPVCRVSLREL 135 (227)
Q Consensus 84 ~~~C~ICl~~-~~~~~-~~~~l~~C~H~fh~~Ci~~wl~-~~~~CP~Cr~~~~~~ 135 (227)
+..|++|..+ +-.+. .+.+.+ |||.||..|++..+. ....||.|+..+...
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~ 56 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRKN 56 (309)
T ss_pred CCCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccchh
Confidence 4689999996 22333 334445 999999999998554 456799999877543
No 37
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.13 E-value=6.4e-07 Score=84.97 Aligned_cols=52 Identities=27% Similarity=0.751 Sum_probs=38.4
Q ss_pred CcccccccccccccCCc---eeEEcCCCCCcccHhhHHHHHcC--CCCCccccccCc
Q 027163 82 AEDTQCAVCLAEYHGED---TLRILPYCGHSFHATCIDIWLHQ--HSTCPVCRVSLR 133 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~---~~~~l~~C~H~fh~~Ci~~wl~~--~~~CP~Cr~~~~ 133 (227)
....+|+||...+..-+ .-...+.|+|.||..|+.+|++. +.+||+||..++
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 45679999998764111 11233359999999999999986 467999998764
No 38
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.11 E-value=1.1e-06 Score=74.55 Aligned_cols=45 Identities=36% Similarity=0.907 Sum_probs=39.2
Q ss_pred CcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccc
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRV 130 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 130 (227)
.+...|+||++.|..+ .+++ |+|.||..|+..++.....||.||.
T Consensus 11 ~~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred cccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccCC
Confidence 5678999999999888 6777 9999999999988775567999994
No 39
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.10 E-value=5.9e-07 Score=60.61 Aligned_cols=50 Identities=24% Similarity=0.763 Sum_probs=23.2
Q ss_pred cccccccccccc-CCce-eEEc--CCCCCcccHhhHHHHHcC---C--------CCCccccccCc
Q 027163 84 DTQCAVCLAEYH-GEDT-LRIL--PYCGHSFHATCIDIWLHQ---H--------STCPVCRVSLR 133 (227)
Q Consensus 84 ~~~C~ICl~~~~-~~~~-~~~l--~~C~H~fh~~Ci~~wl~~---~--------~~CP~Cr~~~~ 133 (227)
+.+|.||+..+. .+.. ..+- +.|++.||..|+..||.. . ..||.|+.+|.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 468999999865 3221 2222 269999999999999863 1 14999998874
No 40
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.10 E-value=1.6e-06 Score=74.64 Aligned_cols=50 Identities=32% Similarity=0.783 Sum_probs=41.1
Q ss_pred CcccccccccccccCCceeEEcCCCCCc-ccHhhHHHHHcCCCCCccccccCccC
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILPYCGHS-FHATCIDIWLHQHSTCPVCRVSLREL 135 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~-fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 135 (227)
+...+|.|||.+. ....+|| |.|. .|..|-+...-....||+||.++...
T Consensus 288 ~~gkeCVIClse~---rdt~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~l 338 (349)
T KOG4265|consen 288 ESGKECVICLSES---RDTVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEEL 338 (349)
T ss_pred cCCCeeEEEecCC---cceEEec-chhhehhHhHHHHHHHhhcCCCccccchHhh
Confidence 4468999999985 4457899 9995 89999988766678899999998653
No 41
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.06 E-value=2e-06 Score=74.55 Aligned_cols=50 Identities=32% Similarity=0.955 Sum_probs=36.9
Q ss_pred cccccccccccCCceeEEcCCCCCcccHhhHHHHHcC---CCCCccccccCcc
Q 027163 85 TQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQ---HSTCPVCRVSLRE 134 (227)
Q Consensus 85 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~---~~~CP~Cr~~~~~ 134 (227)
..|.||.+-+.....+.-...|||+||..|+..|+.. ++.||.|+-.+..
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~ 57 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQE 57 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccc
Confidence 5899995555444444444359999999999999975 3579999955543
No 42
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.95 E-value=2e-06 Score=56.05 Aligned_cols=47 Identities=28% Similarity=0.582 Sum_probs=23.8
Q ss_pred ccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCccC
Q 027163 84 DTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLREL 135 (227)
Q Consensus 84 ~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 135 (227)
-..|++|.+.++.+ +.+..|.|+||..||..-+. ..||+|+.+....
T Consensus 7 lLrCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~q 53 (65)
T PF14835_consen 7 LLRCSICFDILKEP---VCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQ 53 (65)
T ss_dssp TTS-SSS-S--SS----B---SSS--B-TTTGGGGTT--TB-SSS--B-S-S
T ss_pred hcCCcHHHHHhcCC---ceeccCccHHHHHHhHHhcC--CCCCCcCChHHHH
Confidence 46799999999776 33346999999999987544 4599999876543
No 43
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.95 E-value=4e-06 Score=72.98 Aligned_cols=53 Identities=34% Similarity=0.866 Sum_probs=40.7
Q ss_pred CcccccccccccccCCc----eeEEcCCCCCcccHhhHHHHH--cC-----CCCCccccccCcc
Q 027163 82 AEDTQCAVCLAEYHGED----TLRILPYCGHSFHATCIDIWL--HQ-----HSTCPVCRVSLRE 134 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~----~~~~l~~C~H~fh~~Ci~~wl--~~-----~~~CP~Cr~~~~~ 134 (227)
..+.+|.||++...... ....+|+|.|.||..||..|- .+ .+.||.||....-
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~ 222 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF 222 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence 45789999999875443 133457799999999999997 33 4679999987654
No 44
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.90 E-value=5e-06 Score=69.98 Aligned_cols=48 Identities=27% Similarity=0.566 Sum_probs=38.4
Q ss_pred cccccccccccccCCceeEEcCCCCCcccHhhHHHHHcC-CCCCccccccCcc
Q 027163 83 EDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQ-HSTCPVCRVSLRE 134 (227)
Q Consensus 83 ~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~~~~ 134 (227)
...+|+||+....-+ ..++ |+|.||..||+.-... ..+|++||.++..
T Consensus 6 ~~~eC~IC~nt~n~P---v~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids 54 (324)
T KOG0824|consen 6 KKKECLICYNTGNCP---VNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDS 54 (324)
T ss_pred cCCcceeeeccCCcC---cccc-ccchhhhhhhcchhhcCCCCCceecCCCCc
Confidence 457899999987555 5666 9999999999865544 4669999999865
No 45
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.85 E-value=1.6e-06 Score=74.28 Aligned_cols=50 Identities=28% Similarity=0.539 Sum_probs=40.0
Q ss_pred CcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcC-CCCCccccccCcc
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQ-HSTCPVCRVSLRE 134 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~~~~ 134 (227)
..+..|+|||+.++.. ++.+.|.|.||..||..-++. +..||.||..+..
T Consensus 41 ~~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~S 91 (381)
T KOG0311|consen 41 DIQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVS 91 (381)
T ss_pred hhhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccc
Confidence 4567899999998654 445579999999999877764 6789999987743
No 46
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.77 E-value=4.9e-06 Score=77.75 Aligned_cols=52 Identities=27% Similarity=0.517 Sum_probs=42.8
Q ss_pred cccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCccC
Q 027163 83 EDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLREL 135 (227)
Q Consensus 83 ~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 135 (227)
....|++|+..+.+.......+ |+|.||.+||..|-+...+||+||..+...
T Consensus 122 ~~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v 173 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGEV 173 (1134)
T ss_pred hhhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhhee
Confidence 3457889988887665555555 999999999999999999999999988654
No 47
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.71 E-value=6.8e-06 Score=51.50 Aligned_cols=46 Identities=24% Similarity=0.704 Sum_probs=34.2
Q ss_pred cccccccccccCCceeEEcCCCCCc-ccHhhHH-HHHcCCCCCccccccCcc
Q 027163 85 TQCAVCLAEYHGEDTLRILPYCGHS-FHATCID-IWLHQHSTCPVCRVSLRE 134 (227)
Q Consensus 85 ~~C~ICl~~~~~~~~~~~l~~C~H~-fh~~Ci~-~wl~~~~~CP~Cr~~~~~ 134 (227)
++|.||++.-.+. ++.. |||. .|..|-. .|-..+..||+||+++..
T Consensus 8 dECTICye~pvds---VlYt-CGHMCmCy~Cg~rl~~~~~g~CPiCRapi~d 55 (62)
T KOG4172|consen 8 DECTICYEHPVDS---VLYT-CGHMCMCYACGLRLKKALHGCCPICRAPIKD 55 (62)
T ss_pred cceeeeccCcchH---HHHH-cchHHhHHHHHHHHHHccCCcCcchhhHHHH
Confidence 7999999874322 3444 9995 7899964 555578899999998854
No 48
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.68 E-value=1e-05 Score=67.99 Aligned_cols=51 Identities=27% Similarity=0.799 Sum_probs=41.4
Q ss_pred cccccccccccccCCceeEEcCCCCCcccHhhHHHHHc------------------C-----CCCCccccccCcc
Q 027163 83 EDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLH------------------Q-----HSTCPVCRVSLRE 134 (227)
Q Consensus 83 ~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~------------------~-----~~~CP~Cr~~~~~ 134 (227)
....|.|||.-|...+.+.+++ |.|.||..|+..+|. . ...||+||..+..
T Consensus 114 p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~ 187 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI 187 (368)
T ss_pred CCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence 3468999999999998888887 999999999987753 1 1359999987753
No 49
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.56 E-value=2.8e-05 Score=67.79 Aligned_cols=47 Identities=30% Similarity=0.933 Sum_probs=38.8
Q ss_pred cccccccccccCCceeEEcCCCCCcccHhhHHHHHcC--CCCCccccccCccC
Q 027163 85 TQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQ--HSTCPVCRVSLREL 135 (227)
Q Consensus 85 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~--~~~CP~Cr~~~~~~ 135 (227)
..|-||-+. +..+++-| |||..|..|+..|-.. ..+||.||..+...
T Consensus 370 eLCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGt 418 (563)
T KOG1785|consen 370 ELCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGT 418 (563)
T ss_pred HHHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEeccc
Confidence 359999886 45678888 9999999999999643 57899999988653
No 50
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.45 E-value=3.7e-05 Score=72.13 Aligned_cols=47 Identities=26% Similarity=0.720 Sum_probs=36.4
Q ss_pred ccccccccccccCCceeEEcCCCCCcccHhhHHHHHc-CCCCCccccccCcc
Q 027163 84 DTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLH-QHSTCPVCRVSLRE 134 (227)
Q Consensus 84 ~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~-~~~~CP~Cr~~~~~ 134 (227)
-..|++|-..+++. ++. +|+|+||..|+..-+. +++.||.|...|..
T Consensus 643 ~LkCs~Cn~R~Kd~---vI~-kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga 690 (698)
T KOG0978|consen 643 LLKCSVCNTRWKDA---VIT-KCGHVFCEECVQTRYETRQRKCPKCNAAFGA 690 (698)
T ss_pred ceeCCCccCchhhH---HHH-hcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence 35799999665433 233 5999999999998875 46789999998854
No 51
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.41 E-value=0.00016 Score=58.64 Aligned_cols=55 Identities=24% Similarity=0.541 Sum_probs=44.8
Q ss_pred CCcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcC--------CCCCccccccCccCch
Q 027163 81 AAEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQ--------HSTCPVCRVSLRELPE 137 (227)
Q Consensus 81 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~--------~~~CP~Cr~~~~~~~~ 137 (227)
++....|..|-..+..++.+++. |-|+||+.|+..|-.. ...||.|..+|+...+
T Consensus 47 sDY~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~N 109 (299)
T KOG3970|consen 47 SDYNPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPIN 109 (299)
T ss_pred cCCCCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCcc
Confidence 45567899999999999888763 9999999999999642 3569999999876543
No 52
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.37 E-value=0.0001 Score=65.53 Aligned_cols=51 Identities=41% Similarity=0.873 Sum_probs=43.8
Q ss_pred CcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCccCc
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLRELP 136 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 136 (227)
..+.+|.||+..+..+ +.+| |||.||..||+.-+....-||.||..+....
T Consensus 82 ~sef~c~vc~~~l~~p---v~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e~~ 132 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPP---VVTP-CGHSFCLECLDRSLDQETECPLCRDELVELP 132 (398)
T ss_pred cchhhhhhhHhhcCCC---cccc-ccccccHHHHHHHhccCCCCcccccccccch
Confidence 4568999999998777 5667 9999999999998888888999999998644
No 53
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.33 E-value=0.00015 Score=63.54 Aligned_cols=49 Identities=35% Similarity=0.868 Sum_probs=37.2
Q ss_pred cccccccccccccCCc--eeEEcCCCCCcccHhhHHHHHcC--CCCCccccccC
Q 027163 83 EDTQCAVCLAEYHGED--TLRILPYCGHSFHATCIDIWLHQ--HSTCPVCRVSL 132 (227)
Q Consensus 83 ~~~~C~ICl~~~~~~~--~~~~l~~C~H~fh~~Ci~~wl~~--~~~CP~Cr~~~ 132 (227)
...+|+|||+.+..+- .+..+ .|+|.|-..||+.||.+ ...||.|..+-
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl-~cghlFgs~cie~wl~k~~~~~cp~c~~ka 55 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSL-QCGHLFGSQCIEKWLGKKTKMQCPLCSGKA 55 (463)
T ss_pred ccccCceeeeeeeecCceEEeee-cccccccHHHHHHHHhhhhhhhCcccCChh
Confidence 3568999999986443 34445 59999999999999963 24599997644
No 54
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.31 E-value=0.00013 Score=47.00 Aligned_cols=42 Identities=24% Similarity=0.653 Sum_probs=27.4
Q ss_pred cccccccccccccCCceeEEcCCCCCcccHhhHHHHHcC--CCCCcc
Q 027163 83 EDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQ--HSTCPV 127 (227)
Q Consensus 83 ~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~--~~~CP~ 127 (227)
-...|+|.+..|+++ ++-. .|+|+|-+..|..|++. ...||+
T Consensus 10 ~~~~CPiT~~~~~~P--V~s~-~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFEDP--VKSK-KCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SSE--EEES-SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhCC--cCcC-CCCCeecHHHHHHHHHhcCCCCCCC
Confidence 357899999999876 4444 49999999999999944 345998
No 55
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.18 E-value=0.00013 Score=63.66 Aligned_cols=48 Identities=31% Similarity=0.773 Sum_probs=39.2
Q ss_pred CcccccccccccccC-CceeEEcCCCCCcccHhhHHHHHcCC--CCCccccc
Q 027163 82 AEDTQCAVCLAEYHG-EDTLRILPYCGHSFHATCIDIWLHQH--STCPVCRV 130 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~-~~~~~~l~~C~H~fh~~Ci~~wl~~~--~~CP~Cr~ 130 (227)
+.+..|..|-+.+.. ++.+..|| |.|+||..|+...|.++ ++||-||.
T Consensus 363 e~~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 363 ETELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HHhhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 345679999998843 45777898 99999999999998765 67999994
No 56
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.04 E-value=0.00012 Score=62.56 Aligned_cols=51 Identities=24% Similarity=0.606 Sum_probs=43.3
Q ss_pred CcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCccC
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLREL 135 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 135 (227)
....+|.+|-..|.+...+. .|-|.||+.||...|.....||+|...+...
T Consensus 13 n~~itC~LC~GYliDATTI~---eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 13 NPHITCRLCGGYLIDATTIT---ECLHTFCKSCIVKYLEESKYCPTCDIVIHKT 63 (331)
T ss_pred ccceehhhccceeecchhHH---HHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence 35678999999998775443 6999999999999999999999999888654
No 57
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.04 E-value=0.00031 Score=62.81 Aligned_cols=52 Identities=33% Similarity=0.707 Sum_probs=43.2
Q ss_pred CCcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCccC
Q 027163 81 AAEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLREL 135 (227)
Q Consensus 81 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 135 (227)
..++..|++|...+.++... . .|+|.||..|+..|+..+..||.|+..+...
T Consensus 18 ~~~~l~C~~C~~vl~~p~~~--~-~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~ 69 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQT--T-TCGHRFCAGCLLESLSNHQKCPVCRQELTQA 69 (391)
T ss_pred CcccccCccccccccCCCCC--C-CCCCcccccccchhhccCcCCcccccccchh
Confidence 35678999999999877432 3 4999999999999999999999998877543
No 58
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.01 E-value=0.00047 Score=68.65 Aligned_cols=68 Identities=22% Similarity=0.507 Sum_probs=48.2
Q ss_pred HhhCCceecchhhhcCCcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCC----------CCCccccccCcc
Q 027163 66 VANFPMKKFSDEYFAAAEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQH----------STCPVCRVSLRE 134 (227)
Q Consensus 66 ~~~lp~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~----------~~CP~Cr~~~~~ 134 (227)
..-||...-.+.....+.++.|.||+.+--.....+.|. |+|+||..|...-|.++ -+||+|+.++..
T Consensus 3468 E~CLPCl~Cdks~tkQD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3468 EHCLPCLHCDKSATKQDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred hhcccccccChhhhhcccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 344666554444445577889999998754445566776 99999999987655432 359999998854
No 59
>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=97.00 E-value=0.00028 Score=53.06 Aligned_cols=36 Identities=22% Similarity=0.597 Sum_probs=30.0
Q ss_pred ccccccccccccCCceeEEcCCCC------CcccHhhHHHHHc
Q 027163 84 DTQCAVCLAEYHGEDTLRILPYCG------HSFHATCIDIWLH 120 (227)
Q Consensus 84 ~~~C~ICl~~~~~~~~~~~l~~C~------H~fh~~Ci~~wl~ 120 (227)
..+|+||++.+...+.++.++ |+ |.||..|+.+|-+
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHh
Confidence 579999999998856677776 76 8899999999943
No 60
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=96.76 E-value=0.0007 Score=64.32 Aligned_cols=56 Identities=23% Similarity=0.643 Sum_probs=42.3
Q ss_pred CCcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCC-------CCCccccccCccCc
Q 027163 81 AAEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQH-------STCPVCRVSLRELP 136 (227)
Q Consensus 81 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~-------~~CP~Cr~~~~~~~ 136 (227)
.....+|.||.+.+.....+.--..|.|+||..||..|-+.. -.||.|.......+
T Consensus 188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~~~~ 250 (950)
T KOG1952|consen 188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSKTVP 250 (950)
T ss_pred hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhccCC
Confidence 455689999999998776665544688999999999997542 24999986554443
No 61
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.69 E-value=0.00065 Score=54.14 Aligned_cols=44 Identities=27% Similarity=0.641 Sum_probs=37.3
Q ss_pred cccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccC
Q 027163 85 TQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSL 132 (227)
Q Consensus 85 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~ 132 (227)
..|.||-.+|+.+ ++. .|||.||..|...-++....|-+|....
T Consensus 197 F~C~iCKkdy~sp---vvt-~CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 197 FLCGICKKDYESP---VVT-ECGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred eeehhchhhccch---hhh-hcchhHHHHHHHHHhccCCcceecchhh
Confidence 3799999999877 444 4999999999988888889999997654
No 62
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.66 E-value=0.0016 Score=54.45 Aligned_cols=51 Identities=31% Similarity=0.540 Sum_probs=38.2
Q ss_pred CcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcC--CCCCccccccCccC
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQ--HSTCPVCRVSLREL 135 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~--~~~CP~Cr~~~~~~ 135 (227)
..+.+|++|-+.-..|- ...+ |+|+||+-||..-+.. ..+||.|-.++..+
T Consensus 237 t~~~~C~~Cg~~PtiP~--~~~~-C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~l 289 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTIPH--VIGK-CGHIYCYYCIATSRLWDASFTCPLCGENVEPL 289 (298)
T ss_pred cCCceeeccCCCCCCCe--eecc-ccceeehhhhhhhhcchhhcccCccCCCCcch
Confidence 56789999998855442 3344 9999999999875543 46899998887643
No 63
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.58 E-value=0.00074 Score=52.10 Aligned_cols=31 Identities=29% Similarity=0.746 Sum_probs=27.7
Q ss_pred CCcccccccccccccCCceeEEcCCCCCcccH
Q 027163 81 AAEDTQCAVCLAEYHGEDTLRILPYCGHSFHA 112 (227)
Q Consensus 81 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~ 112 (227)
.++..+|.||||++..++.+..|| |--+||+
T Consensus 174 ~ddkGECvICLEdL~~GdtIARLP-CLCIYHK 204 (205)
T KOG0801|consen 174 KDDKGECVICLEDLEAGDTIARLP-CLCIYHK 204 (205)
T ss_pred cccCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence 355679999999999999999999 9999986
No 64
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=96.57 E-value=0.0068 Score=51.98 Aligned_cols=48 Identities=25% Similarity=0.548 Sum_probs=38.0
Q ss_pred CCcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCcccccc
Q 027163 81 AAEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVS 131 (227)
Q Consensus 81 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~ 131 (227)
..+...|++|+..-.++..+.+ -|-+||+.|+-+.+.....||+=..+
T Consensus 297 ~~~~~~CpvClk~r~Nptvl~v---SGyVfCY~Ci~~Yv~~~~~CPVT~~p 344 (357)
T KOG0826|consen 297 PPDREVCPVCLKKRQNPTVLEV---SGYVFCYPCIFSYVVNYGHCPVTGYP 344 (357)
T ss_pred CCccccChhHHhccCCCceEEe---cceEEeHHHHHHHHHhcCCCCccCCc
Confidence 3456789999999887754432 68999999999999999999974433
No 65
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.51 E-value=0.00026 Score=61.21 Aligned_cols=45 Identities=36% Similarity=0.792 Sum_probs=31.9
Q ss_pred CcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCc
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLR 133 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 133 (227)
.....|.||++...+ ...+| |||.-| |..-- +....||+||..+.
T Consensus 303 ~~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs-~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCS-KHLPQCPVCRQRIR 347 (355)
T ss_pred CCCCceEEecCCccc---eeeec-CCcEEE--chHHH-hhCCCCchhHHHHH
Confidence 445789999998654 56777 999865 55332 23355999999874
No 66
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.42 E-value=0.0022 Score=55.46 Aligned_cols=50 Identities=26% Similarity=0.581 Sum_probs=42.6
Q ss_pred CCcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCcc
Q 027163 81 AAEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLRE 134 (227)
Q Consensus 81 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 134 (227)
..++..|+||... +......| |+|.=|+.||.+.+-..+.|=.|+..+..
T Consensus 419 ~sEd~lCpICyA~---pi~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 419 DSEDNLCPICYAG---PINAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred CcccccCcceecc---cchhhccC-CCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 3678899999876 45556778 99999999999999999999999998754
No 67
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.41 E-value=0.0027 Score=39.22 Aligned_cols=45 Identities=27% Similarity=0.581 Sum_probs=21.8
Q ss_pred cccccccccCCc-eeEEcCCCCCcccHhhHHHHHc-CCCCCccccccC
Q 027163 87 CAVCLAEYHGED-TLRILPYCGHSFHATCIDIWLH-QHSTCPVCRVSL 132 (227)
Q Consensus 87 C~ICl~~~~~~~-~~~~l~~C~H~fh~~Ci~~wl~-~~~~CP~Cr~~~ 132 (227)
|++|.+++...+ .+.-- .|++.++..|...-+. ....||-||.++
T Consensus 1 cp~C~e~~d~~d~~~~PC-~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPC-ECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SS-TTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccC-cCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 789999984333 33333 4889999999888775 467899999875
No 68
>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=96.31 E-value=0.0015 Score=47.18 Aligned_cols=33 Identities=36% Similarity=0.884 Sum_probs=27.2
Q ss_pred CcccccccccccccCCceeEEcCCCCCcccHhhHH
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCID 116 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~ 116 (227)
.++..|++|-..+.. ..+.+.| |||+||..|+.
T Consensus 76 ~~~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence 456789999999977 4566777 99999999975
No 69
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.26 E-value=0.0015 Score=55.16 Aligned_cols=46 Identities=22% Similarity=0.482 Sum_probs=38.7
Q ss_pred ccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCccC
Q 027163 86 QCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLREL 135 (227)
Q Consensus 86 ~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 135 (227)
.|-||...|..+ ++. .|+|.||..|-..-++....|.+|.......
T Consensus 243 ~c~icr~~f~~p---Vvt-~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~ 288 (313)
T KOG1813|consen 243 KCFICRKYFYRP---VVT-KCGHYFCEVCALKPYQKGEKCYVCSQQTHGS 288 (313)
T ss_pred cccccccccccc---hhh-cCCceeehhhhccccccCCcceecccccccc
Confidence 599999999877 344 4999999999988888889999998876543
No 70
>PHA03096 p28-like protein; Provisional
Probab=96.26 E-value=0.0021 Score=54.86 Aligned_cols=46 Identities=30% Similarity=0.640 Sum_probs=33.2
Q ss_pred cccccccccccCC----ceeEEcCCCCCcccHhhHHHHHcCC---CCCccccc
Q 027163 85 TQCAVCLAEYHGE----DTLRILPYCGHSFHATCIDIWLHQH---STCPVCRV 130 (227)
Q Consensus 85 ~~C~ICl~~~~~~----~~~~~l~~C~H~fh~~Ci~~wl~~~---~~CP~Cr~ 130 (227)
..|.||++..... ..--.|+.|.|.||..|+..|.... .+||.||.
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 6899999986543 2334677899999999999997542 34555543
No 71
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.20 E-value=0.0047 Score=50.95 Aligned_cols=52 Identities=17% Similarity=0.331 Sum_probs=45.1
Q ss_pred ccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCccC
Q 027163 84 DTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLREL 135 (227)
Q Consensus 84 ~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 135 (227)
...|++|.+.+.+...+.+|..|||+|+.+|....+.....||+|-.++.+.
T Consensus 221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdr 272 (303)
T KOG3039|consen 221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDR 272 (303)
T ss_pred ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCccc
Confidence 4579999999988887777667999999999999999999999998887653
No 72
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.14 E-value=0.0054 Score=52.99 Aligned_cols=63 Identities=24% Similarity=0.465 Sum_probs=44.3
Q ss_pred CCceecchhhhcCCcccccccccccccCCceeEEcCCCCCcccHhhHH--HHHcCCCCCccccccCccC
Q 027163 69 FPMKKFSDEYFAAAEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCID--IWLHQHSTCPVCRVSLREL 135 (227)
Q Consensus 69 lp~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~--~wl~~~~~CP~Cr~~~~~~ 135 (227)
-|....+......++...|.||.+.+ ....++| |+|..|-.|-- ..|...+.||+||.....+
T Consensus 46 EPnlttsSaddtDEen~~C~ICA~~~---TYs~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~V 110 (493)
T COG5236 46 EPNLTTSSADDTDEENMNCQICAGST---TYSARYP-CGHQICHACAVRLRALYMQKGCPLCRTETEAV 110 (493)
T ss_pred CCccccccccccccccceeEEecCCc---eEEEecc-CCchHHHHHHHHHHHHHhccCCCccccccceE
Confidence 34443333333345567899999886 4557888 99999999964 3466788999999876543
No 73
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.09 E-value=0.0042 Score=54.77 Aligned_cols=51 Identities=24% Similarity=0.634 Sum_probs=39.6
Q ss_pred cccccccccccccCCceeEEcCCCCCcccHhhHHHHHcC--------CCCCccccccCcc
Q 027163 83 EDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQ--------HSTCPVCRVSLRE 134 (227)
Q Consensus 83 ~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~--------~~~CP~Cr~~~~~ 134 (227)
.-..|.||++.......++.+| |+|+||+.|+..++.. .-.||-+...-..
T Consensus 183 slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a 241 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVA 241 (445)
T ss_pred hcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccC
Confidence 3468999999987667888998 9999999999988752 2358877654433
No 74
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.05 E-value=0.0054 Score=47.42 Aligned_cols=49 Identities=22% Similarity=0.609 Sum_probs=35.5
Q ss_pred CcccccccccccccCCceeEEcC-CCCC---cccHhhHHHHHcCC--CCCccccccCcc
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILP-YCGH---SFHATCIDIWLHQH--STCPVCRVSLRE 134 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~-~C~H---~fh~~Ci~~wl~~~--~~CP~Cr~~~~~ 134 (227)
..+..|-||.++-.. . ..| .|.. ..|.+|+..|+..+ ..|++|+.++.-
T Consensus 6 ~~~~~CRIC~~~~~~--~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i 60 (162)
T PHA02825 6 LMDKCCWICKDEYDV--V--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNI 60 (162)
T ss_pred CCCCeeEecCCCCCC--c--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEE
Confidence 456799999988532 1 234 3544 56999999999754 569999988753
No 75
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=96.00 E-value=0.0063 Score=37.55 Aligned_cols=40 Identities=28% Similarity=0.939 Sum_probs=26.4
Q ss_pred cccccccccCCceeEEcCCCC-----CcccHhhHHHHHcC--CCCCccc
Q 027163 87 CAVCLAEYHGEDTLRILPYCG-----HSFHATCIDIWLHQ--HSTCPVC 128 (227)
Q Consensus 87 C~ICl~~~~~~~~~~~l~~C~-----H~fh~~Ci~~wl~~--~~~CP~C 128 (227)
|-||++.-.... ..+.| |+ ...|..|+..|+.. +..|++|
T Consensus 1 CrIC~~~~~~~~-~li~p-C~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISP-CRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-S-SS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecc-cccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 779999876555 33455 54 36899999999974 4669887
No 76
>PHA02862 5L protein; Provisional
Probab=95.94 E-value=0.0061 Score=46.27 Aligned_cols=46 Identities=20% Similarity=0.638 Sum_probs=34.2
Q ss_pred ccccccccccccCCceeEEcCCCC-----CcccHhhHHHHHcC--CCCCccccccCcc
Q 027163 84 DTQCAVCLAEYHGEDTLRILPYCG-----HSFHATCIDIWLHQ--HSTCPVCRVSLRE 134 (227)
Q Consensus 84 ~~~C~ICl~~~~~~~~~~~l~~C~-----H~fh~~Ci~~wl~~--~~~CP~Cr~~~~~ 134 (227)
...|-||++.-++. ..| |. ...|..|+..|+.. +..|++|+.++.-
T Consensus 2 ~diCWIC~~~~~e~----~~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I 54 (156)
T PHA02862 2 SDICWICNDVCDER----NNF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI 54 (156)
T ss_pred CCEEEEecCcCCCC----ccc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence 35799999985332 244 53 46899999999965 4579999998753
No 77
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.87 E-value=0.0017 Score=54.68 Aligned_cols=42 Identities=29% Similarity=0.712 Sum_probs=32.6
Q ss_pred ccccccccccccCCceeEEcCCCCCc-ccHhhHHHHHcCCCCCccccccCc
Q 027163 84 DTQCAVCLAEYHGEDTLRILPYCGHS-FHATCIDIWLHQHSTCPVCRVSLR 133 (227)
Q Consensus 84 ~~~C~ICl~~~~~~~~~~~l~~C~H~-fh~~Ci~~wl~~~~~CP~Cr~~~~ 133 (227)
...|+||++. +...+.|+ |||. -|..|-... ..||+||..+.
T Consensus 300 ~~LC~ICmDa---P~DCvfLe-CGHmVtCt~CGkrm----~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDA---PRDCVFLE-CGHMVTCTKCGKRM----NECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcC---CcceEEee-cCcEEeehhhcccc----ccCchHHHHHH
Confidence 5689999987 56678887 9995 588886543 37999998764
No 78
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=95.67 E-value=0.0041 Score=56.51 Aligned_cols=48 Identities=27% Similarity=0.675 Sum_probs=36.6
Q ss_pred CcccccccccccccCCceeEEcCCCCCcccHhhHHHHHc-----CCCCCccccccCc
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLH-----QHSTCPVCRVSLR 133 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~-----~~~~CP~Cr~~~~ 133 (227)
.+..+|.+|-+.-++. +.. .|.|.||..||..++. .+-+||+|...+.
T Consensus 534 k~~~~C~lc~d~aed~---i~s-~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls 586 (791)
T KOG1002|consen 534 KGEVECGLCHDPAEDY---IES-SCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS 586 (791)
T ss_pred cCceeecccCChhhhh---Hhh-hhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence 4567899999886544 333 4999999999988764 2467999987664
No 79
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=95.50 E-value=0.0048 Score=50.82 Aligned_cols=45 Identities=27% Similarity=0.707 Sum_probs=32.6
Q ss_pred ccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCcc
Q 027163 86 QCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLRE 134 (227)
Q Consensus 86 ~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 134 (227)
.|-.|...-. ++..+++. |.|+||..|...- ....||+|+..+..
T Consensus 5 hCn~C~~~~~-~~~f~LTa-C~HvfC~~C~k~~--~~~~C~lCkk~ir~ 49 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLTA-CRHVFCEPCLKAS--SPDVCPLCKKSIRI 49 (233)
T ss_pred EeccccccCC-CCceeeee-chhhhhhhhcccC--Cccccccccceeee
Confidence 5777765433 66777775 9999999998652 22389999987643
No 80
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.28 E-value=0.0097 Score=50.44 Aligned_cols=43 Identities=30% Similarity=0.722 Sum_probs=34.0
Q ss_pred cccccccccccCCceeEEcCCCCCcccHhhHHHHH-cCCCCCccccc
Q 027163 85 TQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWL-HQHSTCPVCRV 130 (227)
Q Consensus 85 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl-~~~~~CP~Cr~ 130 (227)
..|+.|-..+..+. .++.|+|.||.+||...| .....||.|..
T Consensus 275 LkCplc~~Llrnp~---kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNPM---KTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCcc---cCccccchHHHHHHhhhhhhccccCCCccc
Confidence 57999998887663 335699999999998665 45678999965
No 81
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=95.12 E-value=0.011 Score=37.46 Aligned_cols=45 Identities=24% Similarity=0.563 Sum_probs=32.1
Q ss_pred ccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCcc
Q 027163 84 DTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLRE 134 (227)
Q Consensus 84 ~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 134 (227)
...|..|...- .+-.++| |+|+.+..|.+.+ +-.-||.|..++..
T Consensus 7 ~~~~~~~~~~~---~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~ 51 (55)
T PF14447_consen 7 EQPCVFCGFVG---TKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEF 51 (55)
T ss_pred ceeEEEccccc---ccccccc-ccceeeccccChh--hccCCCCCCCcccC
Confidence 34566666552 3336777 9999999998764 44679999888743
No 82
>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=95.05 E-value=0.015 Score=35.18 Aligned_cols=41 Identities=22% Similarity=0.600 Sum_probs=22.3
Q ss_pred cccccccccCCceeEEcCCCCCcccHhhHHHHHcCCC--CCccc
Q 027163 87 CAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHS--TCPVC 128 (227)
Q Consensus 87 C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~--~CP~C 128 (227)
|.+|.+....+...... .|+=.+|..|+..+++... .||.|
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 66777766555433222 3888999999999987755 79987
No 83
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.01 E-value=0.028 Score=47.52 Aligned_cols=52 Identities=25% Similarity=0.542 Sum_probs=40.0
Q ss_pred CcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCcc
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLRE 134 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 134 (227)
.....|+|....|......+.+..|||+|...++... .....||+|-.++..
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~ 162 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTE 162 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCcccc
Confidence 4567899999999655544444349999999999886 335679999998864
No 84
>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=94.69 E-value=0.026 Score=49.71 Aligned_cols=28 Identities=25% Similarity=0.865 Sum_probs=21.6
Q ss_pred CCCcccHhhHHHHHcC-------------CCCCccccccCc
Q 027163 106 CGHSFHATCIDIWLHQ-------------HSTCPVCRVSLR 133 (227)
Q Consensus 106 C~H~fh~~Ci~~wl~~-------------~~~CP~Cr~~~~ 133 (227)
|...+|.+|+.+|+.. +-.||+||+.+-
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence 4566789999999853 235999999874
No 85
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.67 E-value=0.018 Score=55.18 Aligned_cols=45 Identities=29% Similarity=0.759 Sum_probs=34.5
Q ss_pred ccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCcc
Q 027163 84 DTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLRE 134 (227)
Q Consensus 84 ~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 134 (227)
...|..|-..++-|.. .- .|+|.||.+|+. .....||.|+.....
T Consensus 840 ~skCs~C~~~LdlP~V--hF-~CgHsyHqhC~e---~~~~~CP~C~~e~~~ 884 (933)
T KOG2114|consen 840 VSKCSACEGTLDLPFV--HF-LCGHSYHQHCLE---DKEDKCPKCLPELRG 884 (933)
T ss_pred eeeecccCCcccccee--ee-ecccHHHHHhhc---cCcccCCccchhhhh
Confidence 3589999999877743 23 399999999998 345679999885544
No 86
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=94.33 E-value=0.019 Score=48.98 Aligned_cols=45 Identities=24% Similarity=0.561 Sum_probs=31.0
Q ss_pred cccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCcc
Q 027163 85 TQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLRE 134 (227)
Q Consensus 85 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 134 (227)
..|--|--. ....-++.| |+|+||.+|-.. ...+.||.|-..+..
T Consensus 91 HfCd~Cd~P--I~IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~Vqr 135 (389)
T KOG2932|consen 91 HFCDRCDFP--IAIYGRMIP-CKHVFCLECARS--DSDKICPLCDDRVQR 135 (389)
T ss_pred EeecccCCc--ceeeecccc-cchhhhhhhhhc--CccccCcCcccHHHH
Confidence 356666433 234457888 999999999754 345789999776643
No 87
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.26 E-value=0.028 Score=44.26 Aligned_cols=29 Identities=34% Similarity=1.015 Sum_probs=23.7
Q ss_pred CCCCcccHhhHHHHHcC-----C------CCCccccccCc
Q 027163 105 YCGHSFHATCIDIWLHQ-----H------STCPVCRVSLR 133 (227)
Q Consensus 105 ~C~H~fh~~Ci~~wl~~-----~------~~CP~Cr~~~~ 133 (227)
.|+.-||.-|+..||+. + ..||.|..++.
T Consensus 189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia 228 (234)
T KOG3268|consen 189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA 228 (234)
T ss_pred ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence 49999999999999863 1 24999988774
No 88
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.22 E-value=0.0028 Score=55.47 Aligned_cols=53 Identities=23% Similarity=0.535 Sum_probs=43.9
Q ss_pred cccccccccccccCC-ceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCccCc
Q 027163 83 EDTQCAVCLAEYHGE-DTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLRELP 136 (227)
Q Consensus 83 ~~~~C~ICl~~~~~~-~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 136 (227)
-...|+||.+.++.. +++..+- |+|.+|.+|+.+||.....||.|+..+....
T Consensus 195 lv~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~~~ 248 (465)
T KOG0827|consen 195 LVGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPKNG 248 (465)
T ss_pred HHhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhhhh
Confidence 346899999998765 5555564 9999999999999999888999999887544
No 89
>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=94.18 E-value=0.041 Score=42.55 Aligned_cols=52 Identities=27% Similarity=0.676 Sum_probs=32.7
Q ss_pred cccccccccccccCCceeEEcC------C-----CCC-cccHhhHHHHHcC-----------------------------
Q 027163 83 EDTQCAVCLAEYHGEDTLRILP------Y-----CGH-SFHATCIDIWLHQ----------------------------- 121 (227)
Q Consensus 83 ~~~~C~ICl~~~~~~~~~~~l~------~-----C~H-~fh~~Ci~~wl~~----------------------------- 121 (227)
++..|+|||+.--+ .++|- . |+- .-|..|++++-+.
T Consensus 1 ed~~CpICme~PHN---AVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 77 (162)
T PF07800_consen 1 EDVTCPICMEHPHN---AVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQE 77 (162)
T ss_pred CCccCceeccCCCc---eEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCcccccccccc
Confidence 35789999997432 23332 1 332 2478899987431
Q ss_pred --CCCCccccccCccCch
Q 027163 122 --HSTCPVCRVSLRELPE 137 (227)
Q Consensus 122 --~~~CP~Cr~~~~~~~~ 137 (227)
...||+||..|.....
T Consensus 78 ~~~L~CPLCRG~V~GWtv 95 (162)
T PF07800_consen 78 QPELACPLCRGEVKGWTV 95 (162)
T ss_pred cccccCccccCceeceEE
Confidence 1249999999976443
No 90
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=94.14 E-value=0.032 Score=48.18 Aligned_cols=52 Identities=23% Similarity=0.583 Sum_probs=36.0
Q ss_pred CcccccccccccccCCce-eEEcCCCCCcccHhhHHHHHc-CCCCCccccccCcc
Q 027163 82 AEDTQCAVCLAEYHGEDT-LRILPYCGHSFHATCIDIWLH-QHSTCPVCRVSLRE 134 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~-~~~l~~C~H~fh~~Ci~~wl~-~~~~CP~Cr~~~~~ 134 (227)
++++-|+.|++.+...++ ..-.| ||-..|.-|...--+ .+..||-||+.+.+
T Consensus 12 deed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~d 65 (480)
T COG5175 12 DEEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDD 65 (480)
T ss_pred cccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhccc
Confidence 455669999999876553 34455 998777777543222 35679999997754
No 91
>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=94.03 E-value=0.15 Score=29.70 Aligned_cols=28 Identities=11% Similarity=0.300 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027163 8 LVMTVIGFAVSIMFIVFVCTRLICARIH 35 (227)
Q Consensus 8 l~~~~i~~~~~~~~i~~~~~~~~~~r~~ 35 (227)
++.++.++.++++++++..+.|.|.+++
T Consensus 5 ~IaIIv~V~vg~~iiii~~~~YaCcykk 32 (38)
T PF02439_consen 5 TIAIIVAVVVGMAIIIICMFYYACCYKK 32 (38)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 4555666666666666666666565543
No 92
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=93.23 E-value=0.042 Score=46.57 Aligned_cols=50 Identities=24% Similarity=0.646 Sum_probs=38.7
Q ss_pred ccccccccccccCCc-eeEEcCCCCCcccHhhHHHHHcCCCCCccccccCccC
Q 027163 84 DTQCAVCLAEYHGED-TLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLREL 135 (227)
Q Consensus 84 ~~~C~ICl~~~~~~~-~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 135 (227)
...|+||.+.+-... .+..++ |+|..|..|+......+.+||+|.. +.+.
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~-~~d~ 208 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK-PGDM 208 (276)
T ss_pred cCCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc-hHHH
Confidence 345999999875543 345566 9999999999988877799999988 5443
No 93
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.15 E-value=0.082 Score=45.37 Aligned_cols=47 Identities=34% Similarity=0.850 Sum_probs=36.8
Q ss_pred cccccccccccCCc---eeEEcCCCCCcccHhhHHHHHcCC-CCCccccccC
Q 027163 85 TQCAVCLAEYHGED---TLRILPYCGHSFHATCIDIWLHQH-STCPVCRVSL 132 (227)
Q Consensus 85 ~~C~ICl~~~~~~~---~~~~l~~C~H~fh~~Ci~~wl~~~-~~CP~Cr~~~ 132 (227)
..|-||-++|...+ ..+.|. |||.||..|+.+.+... ..||.||...
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~-c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLK-CGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccc-cCceehHhHHHHHhcCceeeccCCCCcc
Confidence 57999999997653 235554 99999999998776554 4699999985
No 94
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=92.95 E-value=0.043 Score=52.37 Aligned_cols=45 Identities=36% Similarity=0.859 Sum_probs=34.7
Q ss_pred cccccccccccCCceeEEcCCCCCcccHhhHHHHHcCC--CCCccccccCcc
Q 027163 85 TQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQH--STCPVCRVSLRE 134 (227)
Q Consensus 85 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~--~~CP~Cr~~~~~ 134 (227)
..|.||++ .+.....+ |+|.||..|+..-+... ..||.||..+..
T Consensus 455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~ 501 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKE 501 (674)
T ss_pred cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHH
Confidence 79999999 24445565 99999999998766542 359999987754
No 95
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.84 E-value=0.051 Score=44.38 Aligned_cols=39 Identities=33% Similarity=0.813 Sum_probs=29.8
Q ss_pred cccccccccCCceeEEcCCCCC-cccHhhHHHHHcCCCCCccccccCc
Q 027163 87 CAVCLAEYHGEDTLRILPYCGH-SFHATCIDIWLHQHSTCPVCRVSLR 133 (227)
Q Consensus 87 C~ICl~~~~~~~~~~~l~~C~H-~fh~~Ci~~wl~~~~~CP~Cr~~~~ 133 (227)
|-.|-+. ...+.++| |.| .+|..|-.. -..||+|+....
T Consensus 161 Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLP-CRHLCLCGICDES----LRICPICRSPKT 200 (207)
T ss_pred ceecCcC---CceEEeec-ccceEeccccccc----CccCCCCcChhh
Confidence 7788766 56788999 998 588889654 345999988653
No 96
>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=92.04 E-value=0.05 Score=44.83 Aligned_cols=51 Identities=31% Similarity=0.693 Sum_probs=38.4
Q ss_pred cccccccccccc--cCCceeEEcCCCCCcccHhhHHHHHcCC-CCCc--cccccCc
Q 027163 83 EDTQCAVCLAEY--HGEDTLRILPYCGHSFHATCIDIWLHQH-STCP--VCRVSLR 133 (227)
Q Consensus 83 ~~~~C~ICl~~~--~~~~~~~~l~~C~H~fh~~Ci~~wl~~~-~~CP--~Cr~~~~ 133 (227)
.+..|+||..+- ..+.++.+-|.|-|..|..|++.-+... ..|| .|-.-+.
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILR 64 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILR 64 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHH
Confidence 456899999873 3344666677899999999999988775 4699 7865443
No 97
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=92.00 E-value=0.05 Score=54.44 Aligned_cols=49 Identities=27% Similarity=0.713 Sum_probs=39.5
Q ss_pred CcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCc
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLR 133 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 133 (227)
.....|.||++.+..-..+. .|+|.+|..|+..|+..+..||.|+....
T Consensus 1151 ~~~~~c~ic~dil~~~~~I~---~cgh~~c~~c~~~~l~~~s~~~~~ksi~~ 1199 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRNQGGIA---GCGHEPCCRCDELWLYASSRCPICKSIKG 1199 (1394)
T ss_pred hcccchHHHHHHHHhcCCee---eechhHhhhHHHHHHHHhccCcchhhhhh
Confidence 34458999999987443333 49999999999999999999999986443
No 98
>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=91.95 E-value=0.069 Score=32.67 Aligned_cols=29 Identities=28% Similarity=0.826 Sum_probs=21.6
Q ss_pred CC-CcccHhhHHHHHcCCCCCccccccCcc
Q 027163 106 CG-HSFHATCIDIWLHQHSTCPVCRVSLRE 134 (227)
Q Consensus 106 C~-H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 134 (227)
|. |..|..|+...+.....||+|..+++.
T Consensus 18 C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 18 CSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp -SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred ecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 75 999999999999999999999998854
No 99
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=91.84 E-value=0.22 Score=31.51 Aligned_cols=35 Identities=29% Similarity=0.793 Sum_probs=29.9
Q ss_pred cccccccccccccCCceeEEcCCCCCcccHhhHHH
Q 027163 83 EDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDI 117 (227)
Q Consensus 83 ~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~ 117 (227)
....|.+|-+.|.+++.+++-|.|+-.+|..|.+.
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 45689999999988888888889999999999543
No 100
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=90.95 E-value=0.11 Score=50.20 Aligned_cols=36 Identities=25% Similarity=0.642 Sum_probs=28.1
Q ss_pred CcccccccccccccCCceeEEcCCCCCcccHhhHHHHH
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWL 119 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl 119 (227)
+.+..|.+|...+... ...+-| |||.||+.|+..-.
T Consensus 815 ep~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV 850 (911)
T ss_pred cCccchHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence 4567899999887544 445666 99999999997654
No 101
>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=90.84 E-value=0.25 Score=41.93 Aligned_cols=49 Identities=33% Similarity=0.701 Sum_probs=35.1
Q ss_pred ccccccccc-cCCc-eeEEcCCCCCcccHhhHHHHHcCC-CCCccccccCccC
Q 027163 86 QCAVCLAEY-HGED-TLRILPYCGHSFHATCIDIWLHQH-STCPVCRVSLREL 135 (227)
Q Consensus 86 ~C~ICl~~~-~~~~-~~~~l~~C~H~fh~~Ci~~wl~~~-~~CP~Cr~~~~~~ 135 (227)
.|++|-.+. -+++ .+.+-+ |+|..|..|++.-+..+ ..||.|-..+...
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~-C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~ 53 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINE-CGHRLCESCVDRIFSLGPAQCPECMVILRKN 53 (300)
T ss_pred CCcccccceecCccceeeecc-ccchHHHHHHHHHHhcCCCCCCcccchhhhc
Confidence 588887653 3333 344445 99999999999987665 5799998766543
No 102
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.41 E-value=0.93 Score=40.18 Aligned_cols=47 Identities=26% Similarity=0.485 Sum_probs=36.6
Q ss_pred cccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCC---CCccccc
Q 027163 83 EDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHS---TCPVCRV 130 (227)
Q Consensus 83 ~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~---~CP~Cr~ 130 (227)
....|||=.+.-.+......|. |||+..++-+.+..+... .||+|-.
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP~ 382 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCPV 382 (394)
T ss_pred ceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence 3468999888776666677887 999999999998766543 5999943
No 103
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.36 E-value=0.087 Score=49.21 Aligned_cols=44 Identities=20% Similarity=0.588 Sum_probs=30.8
Q ss_pred ccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccc
Q 027163 84 DTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRV 130 (227)
Q Consensus 84 ~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 130 (227)
-..|.||+..|-.....-+.+.|||..|.+|+..- .+.+|| |+.
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp-~~~ 54 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP-TKR 54 (861)
T ss_pred HhhchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC-CCc
Confidence 35799999888654433222359999999999774 356788 543
No 104
>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=90.08 E-value=0.3 Score=30.60 Aligned_cols=43 Identities=21% Similarity=0.487 Sum_probs=22.3
Q ss_pred cccccccccCC------ceeEEcCCCCCcccHhhHHHHHcCCCCCcccc
Q 027163 87 CAVCLAEYHGE------DTLRILPYCGHSFHATCIDIWLHQHSTCPVCR 129 (227)
Q Consensus 87 C~ICl~~~~~~------~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr 129 (227)
|--|+..|... .....-|+|++.||.+|=.---..-.+||.|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence 55677776654 24556678999999999533223335799884
No 105
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=89.98 E-value=0.24 Score=42.77 Aligned_cols=48 Identities=21% Similarity=0.477 Sum_probs=35.0
Q ss_pred CcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCccC
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLREL 135 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 135 (227)
.+-.+|+||.+.+..+. ..-+ =||..|..|-.+ ....||.||.++...
T Consensus 46 ~~lleCPvC~~~l~~Pi--~QC~-nGHlaCssC~~~---~~~~CP~Cr~~~g~~ 93 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSPPI--FQCD-NGHLACSSCRTK---VSNKCPTCRLPIGNI 93 (299)
T ss_pred hhhccCchhhccCcccc--eecC-CCcEehhhhhhh---hcccCCccccccccH
Confidence 45578999999998773 3211 368888888653 467799999999743
No 106
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=89.95 E-value=0.18 Score=48.01 Aligned_cols=26 Identities=31% Similarity=0.765 Sum_probs=22.7
Q ss_pred EEcCCCCCcccHhhHHHHHcCCCCCcc
Q 027163 101 RILPYCGHSFHATCIDIWLHQHSTCPV 127 (227)
Q Consensus 101 ~~l~~C~H~fh~~Ci~~wl~~~~~CP~ 127 (227)
+... |+|+.|..|...|+.....||.
T Consensus 1044 ~Cg~-C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1044 FCGT-CGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred hhcc-ccccccHHHHHHHHhcCCcCCC
Confidence 3444 9999999999999999999985
No 107
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=89.82 E-value=0.23 Score=47.66 Aligned_cols=52 Identities=23% Similarity=0.671 Sum_probs=37.4
Q ss_pred CCcccccccccccccCCceeEEcC-CCC---CcccHhhHHHHHcCC--CCCccccccCc
Q 027163 81 AAEDTQCAVCLAEYHGEDTLRILP-YCG---HSFHATCIDIWLHQH--STCPVCRVSLR 133 (227)
Q Consensus 81 ~~~~~~C~ICl~~~~~~~~~~~l~-~C~---H~fh~~Ci~~wl~~~--~~CP~Cr~~~~ 133 (227)
.+++..|-||..+=..++.+. -| +|. ...|.+|+..|+.-. ..|-+|+.++.
T Consensus 9 N~d~~~CRICr~e~~~d~pLf-hPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~ 66 (1175)
T COG5183 9 NEDKRSCRICRTEDIRDDPLF-HPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK 66 (1175)
T ss_pred CccchhceeecCCCCCCCcCc-ccccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence 356689999998865555543 34 333 348999999999754 45999998763
No 108
>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=89.66 E-value=0.6 Score=34.82 Aligned_cols=17 Identities=12% Similarity=0.385 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHH
Q 027163 7 NLVMTVIGFAVSIMFIV 23 (227)
Q Consensus 7 ~l~~~~i~~~~~~~~i~ 23 (227)
.++.+++|++.++++++
T Consensus 65 ~i~~Ii~gv~aGvIg~I 81 (122)
T PF01102_consen 65 AIIGIIFGVMAGVIGII 81 (122)
T ss_dssp CHHHHHHHHHHHHHHHH
T ss_pred ceeehhHHHHHHHHHHH
Confidence 34555555555554444
No 109
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=89.48 E-value=0.24 Score=37.19 Aligned_cols=52 Identities=27% Similarity=0.663 Sum_probs=36.7
Q ss_pred cccccccccccccCCceeEEcCCCCCcccHhhHH-HHH--cCCCCCccccccCcc
Q 027163 83 EDTQCAVCLAEYHGEDTLRILPYCGHSFHATCID-IWL--HQHSTCPVCRVSLRE 134 (227)
Q Consensus 83 ~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~-~wl--~~~~~CP~Cr~~~~~ 134 (227)
.-.+|-||.|...+..-++--.-||-..|..|-. -|- .....||+|+..+..
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs 133 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS 133 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence 5579999999865543332222489999999875 453 235789999998864
No 110
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=88.98 E-value=0.18 Score=42.06 Aligned_cols=51 Identities=22% Similarity=0.675 Sum_probs=35.6
Q ss_pred CcccccccccccccCCcee-EEcCCCC-----CcccHhhHHHHHcCC--------CCCccccccCc
Q 027163 82 AEDTQCAVCLAEYHGEDTL-RILPYCG-----HSFHATCIDIWLHQH--------STCPVCRVSLR 133 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~-~~l~~C~-----H~fh~~Ci~~wl~~~--------~~CP~Cr~~~~ 133 (227)
+.+..|-||+..=++...- -+-| |. |-.|..|+..|+..+ -+||-|+....
T Consensus 18 e~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 18 ELERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred ccceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 4567899999875444322 3445 53 789999999998642 24999998764
No 111
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=88.50 E-value=0.45 Score=35.77 Aligned_cols=13 Identities=15% Similarity=0.309 Sum_probs=6.1
Q ss_pred HHHHHHHHHHHHH
Q 027163 21 FIVFVCTRLICAR 33 (227)
Q Consensus 21 ~i~~~~~~~~~~r 33 (227)
+|+++++.++|..
T Consensus 11 ~i~l~~~~~~~~~ 23 (130)
T PF12273_consen 11 AILLFLFLFYCHN 23 (130)
T ss_pred HHHHHHHHHHHHH
Confidence 3444455555543
No 112
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=88.19 E-value=0.28 Score=41.73 Aligned_cols=29 Identities=21% Similarity=0.599 Sum_probs=22.7
Q ss_pred CCCcccHhhHHHHHcC-------------CCCCccccccCcc
Q 027163 106 CGHSFHATCIDIWLHQ-------------HSTCPVCRVSLRE 134 (227)
Q Consensus 106 C~H~fh~~Ci~~wl~~-------------~~~CP~Cr~~~~~ 134 (227)
|...+|.+|+.+|+.. +-+||+||+.+.-
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci 366 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI 366 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence 6678899999999742 3469999998753
No 113
>PRK00523 hypothetical protein; Provisional
Probab=87.71 E-value=1.7 Score=29.14 Aligned_cols=34 Identities=18% Similarity=0.277 Sum_probs=25.4
Q ss_pred CcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027163 2 ISSGMNLVMTVIGFAVSIMFIVFVCTRLICARIH 35 (227)
Q Consensus 2 ~~~~~~l~~~~i~~~~~~~~i~~~~~~~~~~r~~ 35 (227)
.|.++++.+++++++++++.-+|+..+++-...+
T Consensus 2 ~~~~l~I~l~i~~li~G~~~Gffiark~~~k~l~ 35 (72)
T PRK00523 2 LAIGLALGLGIPLLIVGGIIGYFVSKKMFKKQIR 35 (72)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4677888888888888888878887777655443
No 114
>PRK01844 hypothetical protein; Provisional
Probab=86.74 E-value=2.1 Score=28.69 Aligned_cols=33 Identities=6% Similarity=0.295 Sum_probs=22.6
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027163 3 SSGMNLVMTVIGFAVSIMFIVFVCTRLICARIH 35 (227)
Q Consensus 3 ~~~~~l~~~~i~~~~~~~~i~~~~~~~~~~r~~ 35 (227)
+.++++++.+++++++++.-+|+..+++-...+
T Consensus 2 ~~~~~I~l~I~~li~G~~~Gff~ark~~~k~lk 34 (72)
T PRK01844 2 PIWLGILVGVVALVAGVALGFFIARKYMMNYLQ 34 (72)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345667777788888887777777776654443
No 115
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=86.42 E-value=0.33 Score=43.50 Aligned_cols=33 Identities=33% Similarity=0.727 Sum_probs=27.2
Q ss_pred CcccccccccccccCCceeEEcCCCCCcccHhhHHHH
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIW 118 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~w 118 (227)
+++..|+||..-|+++ ++|| |+|..|..|-..-
T Consensus 2 eeelkc~vc~~f~~ep---iil~-c~h~lc~~ca~~~ 34 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREP---IILP-CSHNLCQACARNI 34 (699)
T ss_pred cccccCceehhhccCc---eEee-cccHHHHHHHHhh
Confidence 3567899999999877 6788 9999999887643
No 116
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=85.57 E-value=0.92 Score=33.23 Aligned_cols=46 Identities=17% Similarity=0.389 Sum_probs=34.3
Q ss_pred ccccccccccccCC----------ceeEEcCCCCCcccHhhHHHHHcCCCCCcccc
Q 027163 84 DTQCAVCLAEYHGE----------DTLRILPYCGHSFHATCIDIWLHQHSTCPVCR 129 (227)
Q Consensus 84 ~~~C~ICl~~~~~~----------~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr 129 (227)
...|--|+..|..+ .....-+.|++.||.+|=.-+...=..||.|-
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 35699999988643 12234557999999999877766667799995
No 117
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=85.53 E-value=0.48 Score=40.69 Aligned_cols=51 Identities=25% Similarity=0.717 Sum_probs=36.2
Q ss_pred ccccccccccccCCce-eEEcCCCC-----CcccHhhHHHHHc--CCCCCccccccCccC
Q 027163 84 DTQCAVCLAEYHGEDT-LRILPYCG-----HSFHATCIDIWLH--QHSTCPVCRVSLREL 135 (227)
Q Consensus 84 ~~~C~ICl~~~~~~~~-~~~l~~C~-----H~fh~~Ci~~wl~--~~~~CP~Cr~~~~~~ 135 (227)
+..|-||..+...... ....| |. +..|..|++.|+. .+..|.+|...+...
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence 5789999997643321 23444 54 5679999999997 456799998866543
No 118
>PF15050 SCIMP: SCIMP protein
Probab=84.02 E-value=2.6 Score=31.14 Aligned_cols=20 Identities=15% Similarity=0.295 Sum_probs=10.5
Q ss_pred hHHHHHHHHHHHHHHHHHHH
Q 027163 6 MNLVMTVIGFAVSIMFIVFV 25 (227)
Q Consensus 6 ~~l~~~~i~~~~~~~~i~~~ 25 (227)
+++++++.++++++.+.+++
T Consensus 8 FWiiLAVaII~vS~~lglIl 27 (133)
T PF15050_consen 8 FWIILAVAIILVSVVLGLIL 27 (133)
T ss_pred hHHHHHHHHHHHHHHHHHHH
Confidence 55666665555555444333
No 119
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.01 E-value=0.37 Score=43.08 Aligned_cols=38 Identities=26% Similarity=0.732 Sum_probs=27.3
Q ss_pred cccccccccccccCC-ceeEEcCCCCCcccHhhHHHHHcC
Q 027163 83 EDTQCAVCLAEYHGE-DTLRILPYCGHSFHATCIDIWLHQ 121 (227)
Q Consensus 83 ~~~~C~ICl~~~~~~-~~~~~l~~C~H~fh~~Ci~~wl~~ 121 (227)
...+|.||..+.... ....+. .|+|.||.+|..+.+..
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~-~C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVL-KCGHRFCKDCVKQHIEV 183 (384)
T ss_pred ccccCccCccccccHhhhHHHh-cccchhhhHHhHHHhhh
Confidence 356899999444333 333434 59999999999988764
No 120
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=82.63 E-value=0.36 Score=45.83 Aligned_cols=49 Identities=20% Similarity=0.642 Sum_probs=36.9
Q ss_pred cccccccccccccCCceeEEcCCCCCcccHhhHHHHHcC---CCCCccccccCccC
Q 027163 83 EDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQ---HSTCPVCRVSLREL 135 (227)
Q Consensus 83 ~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~---~~~CP~Cr~~~~~~ 135 (227)
...+|+||+..+..+ ..+ +|.|.|+..|+-.-+.. ...||+|+..+...
T Consensus 20 k~lEc~ic~~~~~~p---~~~-kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~ 71 (684)
T KOG4362|consen 20 KILECPICLEHVKEP---SLL-KCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKR 71 (684)
T ss_pred hhccCCceeEEeecc---chh-hhhHHHHhhhhhceeeccCccccchhhhhhhhhh
Confidence 457899999998777 344 59999999998654433 35699999776543
No 121
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=82.50 E-value=0.47 Score=44.37 Aligned_cols=45 Identities=24% Similarity=0.635 Sum_probs=27.6
Q ss_pred Cccccccccccc-----ccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccc
Q 027163 82 AEDTQCAVCLAE-----YHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRV 130 (227)
Q Consensus 82 ~~~~~C~ICl~~-----~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 130 (227)
.....|.+|-.. |+.....+.. .|+++||..|... .+..||.|-.
T Consensus 509 ~~gfiCe~Cq~~~iiyPF~~~~~~rC~-~C~avfH~~C~~r---~s~~CPrC~R 558 (580)
T KOG1829|consen 509 GKGFICELCQHNDIIYPFETRNTRRCS-TCLAVFHKKCLRR---KSPCCPRCER 558 (580)
T ss_pred cCeeeeeeccCCCcccccccccceeHH-HHHHHHHHHHHhc---cCCCCCchHH
Confidence 345677788332 3322223344 4999999999644 4455999943
No 122
>PF05568 ASFV_J13L: African swine fever virus J13L protein; InterPro: IPR008385 This family consists of several African swine fever virus (ASFV) j13L proteins [, , ].
Probab=81.31 E-value=2.3 Score=32.50 Aligned_cols=19 Identities=11% Similarity=0.434 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHHhhh
Q 027163 18 SIMFIVFVCTRLICARIHL 36 (227)
Q Consensus 18 ~~~~i~~~~~~~~~~r~~~ 36 (227)
.+++++|+++.++|.++++
T Consensus 39 vVliiiiivli~lcssRKk 57 (189)
T PF05568_consen 39 VVLIIIIIVLIYLCSSRKK 57 (189)
T ss_pred HHHHHHHHHHHHHHhhhhH
Confidence 3344555555556655443
No 123
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=81.10 E-value=0.82 Score=43.97 Aligned_cols=54 Identities=15% Similarity=0.212 Sum_probs=36.9
Q ss_pred cccccccccccccCCc---eeEEcCCCCCcccHhhHHHHHcC------CCCCccccccCccCc
Q 027163 83 EDTQCAVCLAEYHGED---TLRILPYCGHSFHATCIDIWLHQ------HSTCPVCRVSLRELP 136 (227)
Q Consensus 83 ~~~~C~ICl~~~~~~~---~~~~l~~C~H~fh~~Ci~~wl~~------~~~CP~Cr~~~~~~~ 136 (227)
+...|.+|.-++..++ .+..+..|.|.||..||..|... +-.|+.|..-|....
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWs 157 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWS 157 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhh
Confidence 3457888888776632 22223359999999999999753 234888887775543
No 124
>PF04277 OAD_gamma: Oxaloacetate decarboxylase, gamma chain ; InterPro: IPR005899 This family comprises distantly related, low complexity, hydrophobic small subunits of several related sodium ion-pumping decarboxylases. These include oxaloacetate decarboxylase gamma subunit and methylmalonyl-CoA decarboxylase delta subunit [].; GO: 0008948 oxaloacetate decarboxylase activity, 0015081 sodium ion transmembrane transporter activity, 0071436 sodium ion export, 0016020 membrane
Probab=80.06 E-value=9.4 Score=25.72 Aligned_cols=23 Identities=9% Similarity=0.508 Sum_probs=9.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHH
Q 027163 5 GMNLVMTVIGFAVSIMFIVFVCT 27 (227)
Q Consensus 5 ~~~l~~~~i~~~~~~~~i~~~~~ 27 (227)
|+.+.++.+++++.+++++++++
T Consensus 4 gl~i~i~Gm~iVF~~L~lL~~~i 26 (79)
T PF04277_consen 4 GLQIMIIGMGIVFLVLILLILVI 26 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444433333333
No 125
>PF08114 PMP1_2: ATPase proteolipid family; InterPro: IPR012589 This family consists of small proteolipids associated with the plasma membrane H+ ATPase. Two proteolipids (PMP1 and PMP2) are associated with the ATPase and both genes are similarly expressed in the wild-type strain of yeast. No modification of the level of transcription of one PMP gene is detected in a strain deleted of the other. Though both proteolipids show similarity with other small proteolipids associated with other cation -transporting ATPases, their functions remain unclear [].
Probab=78.46 E-value=4.6 Score=23.87 Aligned_cols=25 Identities=20% Similarity=0.440 Sum_probs=10.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHH
Q 027163 5 GMNLVMTVIGFAVSIMFIVFVCTRL 29 (227)
Q Consensus 5 ~~~l~~~~i~~~~~~~~i~~~~~~~ 29 (227)
|..+++.+++++...++.+|++.+|
T Consensus 9 GVIlVF~lVglv~i~iva~~iYRKw 33 (43)
T PF08114_consen 9 GVILVFCLVGLVGIGIVALFIYRKW 33 (43)
T ss_pred CeeeehHHHHHHHHHHHHHHHHHHH
Confidence 4445555444444333344444333
No 126
>COG3763 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=77.88 E-value=7.8 Score=25.81 Aligned_cols=30 Identities=7% Similarity=0.215 Sum_probs=17.9
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027163 4 SGMNLVMTVIGFAVSIMFIVFVCTRLICAR 33 (227)
Q Consensus 4 ~~~~l~~~~i~~~~~~~~i~~~~~~~~~~r 33 (227)
..+++++++++++++++.-+|+..+++-..
T Consensus 3 l~lail~ivl~ll~G~~~G~fiark~~~k~ 32 (71)
T COG3763 3 LWLAILLIVLALLAGLIGGFFIARKQMKKQ 32 (71)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345556666666666666666666655443
No 127
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=77.82 E-value=2.1 Score=41.07 Aligned_cols=42 Identities=24% Similarity=0.509 Sum_probs=30.7
Q ss_pred ccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCcc
Q 027163 84 DTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPV 127 (227)
Q Consensus 84 ~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~ 127 (227)
...|.+|-..+. +. ....+.|+|.-|..|+.+|+....-||.
T Consensus 779 ~~~CtVC~~vi~-G~-~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 779 SAKCTVCDLVIR-GV-DVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred hcCceeecceee-ee-EeecccccccccHHHHHHHHhcCCCCcc
Confidence 346888876653 22 2233469999999999999998887765
No 128
>COG3462 Predicted membrane protein [Function unknown]
Probab=77.81 E-value=7 Score=28.37 Aligned_cols=24 Identities=33% Similarity=0.495 Sum_probs=15.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHH
Q 027163 5 GMNLVMTVIGFAVSIMFIVFVCTR 28 (227)
Q Consensus 5 ~~~l~~~~i~~~~~~~~i~~~~~~ 28 (227)
|+.+++.+..+++.+++++|++..
T Consensus 48 Gm~lImpI~~~vvli~lvvfm~~~ 71 (117)
T COG3462 48 GMWLIMPIFWAVVLIFLVVFMFYI 71 (117)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHH
Confidence 566777777777666666655543
No 129
>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=77.41 E-value=1.2 Score=23.74 Aligned_cols=23 Identities=35% Similarity=0.794 Sum_probs=11.5
Q ss_pred ccccccccccCCceeEEcCCCCCcc
Q 027163 86 QCAVCLAEYHGEDTLRILPYCGHSF 110 (227)
Q Consensus 86 ~C~ICl~~~~~~~~~~~l~~C~H~f 110 (227)
.|+-|...+. ...+.-|.|||.|
T Consensus 2 ~CP~C~~~V~--~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVP--ESAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCch--hhcCcCCCCCCCC
Confidence 4666655542 2233344566655
No 130
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=76.75 E-value=2.8 Score=25.99 Aligned_cols=43 Identities=19% Similarity=0.467 Sum_probs=18.7
Q ss_pred cccccccccccCCceeEEcCCCCCcccHhhHHHHHcC-----CCCCcccccc
Q 027163 85 TQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQ-----HSTCPVCRVS 131 (227)
Q Consensus 85 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-----~~~CP~Cr~~ 131 (227)
..|+|....+..+ ++-.. |.|.-|.+ +..|+.. .-.||+|.++
T Consensus 3 L~CPls~~~i~~P--~Rg~~-C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIP--VRGKN-CKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSE--EEETT---SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeC--ccCCc-CcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 4688888887655 45554 99974322 2344432 2359999753
No 131
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=76.31 E-value=1.3 Score=35.93 Aligned_cols=47 Identities=23% Similarity=0.577 Sum_probs=36.0
Q ss_pred cccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccC
Q 027163 83 EDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSL 132 (227)
Q Consensus 83 ~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~ 132 (227)
.-..|.+|..-.-.+ ++.- .|+-.+|..|+...+++...||.|..-+
T Consensus 180 nlk~Cn~Ch~LvIqg--~rCg-~c~i~~h~~c~qty~q~~~~cphc~d~w 226 (235)
T KOG4718|consen 180 NLKNCNLCHCLVIQG--IRCG-SCNIQYHRGCIQTYLQRRDICPHCGDLW 226 (235)
T ss_pred HHHHHhHhHHHhhee--eccC-cccchhhhHHHHHHhcccCcCCchhccc
Confidence 456899999876544 2323 4888899999999999988999995433
No 132
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.50 E-value=4.5 Score=34.76 Aligned_cols=50 Identities=20% Similarity=0.488 Sum_probs=40.2
Q ss_pred CcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCcc
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLRE 134 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 134 (227)
.....|-||...+..+... ..|.|.|+..|...|....+.||.|+.....
T Consensus 103 ~~~~~~~~~~g~l~vpt~~---qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~p 152 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTRI---QGCWHQFCYVCPKSNFAMGNDCPDCRGKISP 152 (324)
T ss_pred CCccceeeeeeeEEecccc---cCceeeeeecCCchhhhhhhccchhhcCcCc
Confidence 4456899999988666433 2599999999999999999999999886654
No 133
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.18 E-value=1.7 Score=40.76 Aligned_cols=45 Identities=38% Similarity=0.993 Sum_probs=36.4
Q ss_pred CcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCcc
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLRE 134 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 134 (227)
.....|.+|+.++ ..+..+ |. |..|+..|+..+..||+|+..+..
T Consensus 477 ~~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~ 521 (543)
T KOG0802|consen 477 EPNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKE 521 (543)
T ss_pred cccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhc
Confidence 4457899999997 345555 87 899999999999999999887644
No 134
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=73.07 E-value=2.6 Score=34.26 Aligned_cols=42 Identities=29% Similarity=0.757 Sum_probs=28.9
Q ss_pred ccccccccccc-----ccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccc
Q 027163 83 EDTQCAVCLAE-----YHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRV 130 (227)
Q Consensus 83 ~~~~C~ICl~~-----~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 130 (227)
.+..|.+|-++ |+. +.+..-+.|+-+||..|.. ...||-|..
T Consensus 151 kGfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~-----~~~CpkC~R 197 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFR-----KKSCPKCAR 197 (202)
T ss_pred CCCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcC-----CCCCCCcHh
Confidence 45678888753 333 2445556799999999975 267999943
No 135
>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=72.67 E-value=4.8 Score=31.57 Aligned_cols=23 Identities=17% Similarity=0.228 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 027163 12 VIGFAVSIMFIVFVCTRLICARI 34 (227)
Q Consensus 12 ~i~~~~~~~~i~~~~~~~~~~r~ 34 (227)
++.+++.+++++|++++.+..|+
T Consensus 99 ~Vl~g~s~l~i~yfvir~~R~r~ 121 (163)
T PF06679_consen 99 YVLVGLSALAILYFVIRTFRLRR 121 (163)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcc
Confidence 33344444555566666655554
No 136
>PF14991 MLANA: Protein melan-A; PDB: 2GTZ_F 2GT9_F 3MRO_P 2GUO_C 3MRQ_P 2GTW_C 3L6F_C 3MRP_P.
Probab=72.50 E-value=0.73 Score=33.62 Aligned_cols=23 Identities=17% Similarity=0.202 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcc
Q 027163 16 AVSIMFIVFVCTRLICARIHLNS 38 (227)
Q Consensus 16 ~~~~~~i~~~~~~~~~~r~~~~~ 38 (227)
+++|+-+++++-+|||+|+...+
T Consensus 32 L~VILgiLLliGCWYckRRSGYk 54 (118)
T PF14991_consen 32 LIVILGILLLIGCWYCKRRSGYK 54 (118)
T ss_dssp -----------------------
T ss_pred HHHHHHHHHHHhheeeeecchhh
Confidence 33334445566678888766553
No 137
>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=72.07 E-value=7.2 Score=27.18 Aligned_cols=12 Identities=25% Similarity=0.645 Sum_probs=5.2
Q ss_pred HHHHHhhhcccC
Q 027163 29 LICARIHLNSSR 40 (227)
Q Consensus 29 ~~~~r~~~~~~r 40 (227)
+.|++.|++.+|
T Consensus 52 fvCC~kRkrsRr 63 (94)
T PF05393_consen 52 FVCCKKRKRSRR 63 (94)
T ss_pred HHHHHHhhhccC
Confidence 344444444434
No 138
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=71.98 E-value=1.7 Score=38.96 Aligned_cols=45 Identities=24% Similarity=0.505 Sum_probs=31.9
Q ss_pred cccccccccccccCCc--eeEEcCCCCCcccHhhHHHHHcCCCCCccc
Q 027163 83 EDTQCAVCLAEYHGED--TLRILPYCGHSFHATCIDIWLHQHSTCPVC 128 (227)
Q Consensus 83 ~~~~C~ICl~~~~~~~--~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~C 128 (227)
.-..|+.|.-.++... ...+-. |+|.||+.|...|...+..|..|
T Consensus 305 ~wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 305 RWRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred hcCcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCc
Confidence 3457888877664433 223343 99999999999998877777554
No 139
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=71.91 E-value=4.9 Score=33.66 Aligned_cols=50 Identities=26% Similarity=0.447 Sum_probs=36.6
Q ss_pred ccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCccC
Q 027163 84 DTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLREL 135 (227)
Q Consensus 84 ~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 135 (227)
...|+|=--+|........+..|||+|-..-+... ...+|++|...+...
T Consensus 111 ~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~ 160 (293)
T KOG3113|consen 111 RFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQED 160 (293)
T ss_pred eeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCccccc
Confidence 45799887777655544444459999998877664 367899999988654
No 140
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=71.86 E-value=5.6 Score=27.07 Aligned_cols=53 Identities=13% Similarity=0.424 Sum_probs=20.3
Q ss_pred ccccccccccccc---CCceeEEcCCCCCcccHhhHHHHH-cCCCCCccccccCccC
Q 027163 83 EDTQCAVCLAEYH---GEDTLRILPYCGHSFHATCIDIWL-HQHSTCPVCRVSLREL 135 (227)
Q Consensus 83 ~~~~C~ICl~~~~---~~~~~~~l~~C~H~fh~~Ci~~wl-~~~~~CP~Cr~~~~~~ 135 (227)
....|-||-+++. +++..+....|+--.|+.|..-=. ..++.||-|+..+...
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr~ 64 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKRH 64 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B----
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcccc
Confidence 4578999999873 233222222466667899986443 3467899999877543
No 141
>PHA02975 hypothetical protein; Provisional
Probab=71.79 E-value=7.6 Score=25.70 Aligned_cols=17 Identities=29% Similarity=0.469 Sum_probs=7.0
Q ss_pred HHHHHHHHHHHHHHHHH
Q 027163 13 IGFAVSIMFIVFVCTRL 29 (227)
Q Consensus 13 i~~~~~~~~i~~~~~~~ 29 (227)
+.+++.++++.|+++..
T Consensus 51 i~~v~~~~~~~flYLK~ 67 (69)
T PHA02975 51 IIFITCIAVFTFLYLKL 67 (69)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 33343344444444433
No 142
>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=71.35 E-value=9 Score=26.71 Aligned_cols=35 Identities=14% Similarity=0.083 Sum_probs=15.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccC
Q 027163 6 MNLVMTVIGFAVSIMFIVFVCTRLICARIHLNSSR 40 (227)
Q Consensus 6 ~~l~~~~i~~~~~~~~i~~~~~~~~~~r~~~~~~r 40 (227)
+.|.+++++.++.+++++++.......|.|+-.-|
T Consensus 33 Lgm~~lvI~~iFil~VilwfvCC~kRkrsRrPIYr 67 (94)
T PF05393_consen 33 LGMWFLVICGIFILLVILWFVCCKKRKRSRRPIYR 67 (94)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHHHhhhccCCccc
Confidence 33444444444333344444444444454444433
No 143
>PF14979 TMEM52: Transmembrane 52
Probab=70.16 E-value=10 Score=29.05 Aligned_cols=33 Identities=15% Similarity=0.412 Sum_probs=16.6
Q ss_pred chhHHHHHHHHHHHHHHH--HHHHHHHHHHHHhhh
Q 027163 4 SGMNLVMTVIGFAVSIMF--IVFVCTRLICARIHL 36 (227)
Q Consensus 4 ~~~~l~~~~i~~~~~~~~--i~~~~~~~~~~r~~~ 36 (227)
+..+-|.+++.+++++++ +..+|+++.|.|++.
T Consensus 17 ~~LWyIwLill~~~llLLCG~ta~C~rfCClrk~~ 51 (154)
T PF14979_consen 17 SSLWYIWLILLIGFLLLLCGLTASCVRFCCLRKQA 51 (154)
T ss_pred ehhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 344444444444444443 345666666666543
No 144
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=70.16 E-value=19 Score=31.27 Aligned_cols=46 Identities=22% Similarity=0.448 Sum_probs=32.4
Q ss_pred cccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCC---CCCcccc
Q 027163 83 EDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQH---STCPVCR 129 (227)
Q Consensus 83 ~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~---~~CP~Cr 129 (227)
.-..|++=-+.-.+......+. |||+.-++-++..-+.. ..||.|-
T Consensus 335 s~FiCPVlKe~~t~ENpP~ml~-CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 335 SLFICPVLKELCTDENPPVMLE-CGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred ceeeccccHhhhcccCCCeeee-ccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 3467888666554445556775 99999999988765443 3599994
No 145
>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=69.79 E-value=31 Score=25.29 Aligned_cols=28 Identities=29% Similarity=0.567 Sum_probs=17.9
Q ss_pred CCCCCcccHhhHHHHHcCCCCCccccccCccCch
Q 027163 104 PYCGHSFHATCIDIWLHQHSTCPVCRVSLRELPE 137 (227)
Q Consensus 104 ~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~ 137 (227)
|.|+|.. ..+.+...|+.|+.++.-.+.
T Consensus 73 P~C~K~T------KmLGr~D~CM~C~~pLTLd~~ 100 (114)
T PF11023_consen 73 PNCGKQT------KMLGRVDACMHCKEPLTLDPS 100 (114)
T ss_pred CCCCChH------hhhchhhccCcCCCcCccCch
Confidence 3576632 334555679999999865443
No 146
>PF10577 UPF0560: Uncharacterised protein family UPF0560; InterPro: IPR018890 This family of proteins has no known function.
Probab=69.40 E-value=7 Score=38.01 Aligned_cols=27 Identities=22% Similarity=0.435 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 027163 10 MTVIGFAVSIMFIVFVCTRLICARIHL 36 (227)
Q Consensus 10 ~~~i~~~~~~~~i~~~~~~~~~~r~~~ 36 (227)
++|++..++++++++.++.|||+|...
T Consensus 276 l~ILG~~~livl~lL~vLl~yCrrkc~ 302 (807)
T PF10577_consen 276 LAILGGTALIVLILLCVLLCYCRRKCL 302 (807)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhcccC
Confidence 344444444444444444556765443
No 147
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=69.19 E-value=2.8 Score=38.20 Aligned_cols=50 Identities=34% Similarity=0.787 Sum_probs=36.0
Q ss_pred CcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCC--------CCCc--cccccCcc
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQH--------STCP--VCRVSLRE 134 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~--------~~CP--~Cr~~~~~ 134 (227)
....+|-||.+.+.. .+..+. |+|.||..|....+..+ .+|| -|+..+..
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~~-c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~ 127 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGLG-CGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGE 127 (444)
T ss_pred CccccCCcccCCCcc--hhhhcC-CCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCC
Confidence 456799999999865 445555 99999999998887642 2454 46665543
No 148
>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 KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=69.15 E-value=4.3 Score=35.27 Aligned_cols=65 Identities=22% Similarity=0.370 Sum_probs=39.4
Q ss_pred HHhhCCceecchhhhcC-CcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccc
Q 027163 65 VVANFPMKKFSDEYFAA-AEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRV 130 (227)
Q Consensus 65 ~~~~lp~~~~~~~~~~~-~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 130 (227)
...-+|...|.+..... .....|-.|.+........+.- .|+|.||.+|=.---..=..||.|..
T Consensus 310 yhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y~C~-~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 310 YHHLFPLKPFVEIPETEYNGSRFCFACQGELLSSGRYRCE-SCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred HHhhcCCcchhhccccccCCCcceeeeccccCCCCcEEch-hccceeeccchHHHHhhhhcCCCcCC
Confidence 33345555554433221 2334599997776655555444 59999999995443333356999964
No 150
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=68.56 E-value=2 Score=41.47 Aligned_cols=44 Identities=20% Similarity=0.616 Sum_probs=29.8
Q ss_pred cccccccccccccC----CceeEEcCCCCCcccHhhHHHHHcCCCCCccc
Q 027163 83 EDTQCAVCLAEYHG----EDTLRILPYCGHSFHATCIDIWLHQHSTCPVC 128 (227)
Q Consensus 83 ~~~~C~ICl~~~~~----~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~C 128 (227)
.+..|.-|.+..-. ...+.++. |+|.||+.|+..-..++. |-.|
T Consensus 783 ~e~rc~~c~~~~l~~~~~~~~~~v~~-c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 783 VEERCSSCFEPNLPSGAAFDSVVVFH-CGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred ehhhhhhhcccccccCcccceeeEEE-ccchhhhcccccHHHhcc-cChh
Confidence 34589999987542 14556665 999999999975544433 5555
No 151
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=68.11 E-value=3.5 Score=23.77 Aligned_cols=27 Identities=30% Similarity=0.675 Sum_probs=14.7
Q ss_pred cccccccccccCCce-------eEEcCCCCCccc
Q 027163 85 TQCAVCLAEYHGEDT-------LRILPYCGHSFH 111 (227)
Q Consensus 85 ~~C~ICl~~~~~~~~-------~~~l~~C~H~fh 111 (227)
.+|+-|...|..++. ...-++|+|+|.
T Consensus 3 i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence 357777777654432 223335777664
No 152
>PF15102 TMEM154: TMEM154 protein family
Probab=67.00 E-value=1.2 Score=34.16 Aligned_cols=10 Identities=20% Similarity=0.667 Sum_probs=6.0
Q ss_pred HhhHHHHHcC
Q 027163 112 ATCIDIWLHQ 121 (227)
Q Consensus 112 ~~Ci~~wl~~ 121 (227)
.+=+++|+..
T Consensus 127 meeldkwm~s 136 (146)
T PF15102_consen 127 MEELDKWMNS 136 (146)
T ss_pred HHHHHhHHHh
Confidence 4556777653
No 153
>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=65.63 E-value=1.7 Score=31.21 Aligned_cols=6 Identities=0% Similarity=0.733 Sum_probs=2.1
Q ss_pred HHHHHH
Q 027163 8 LVMTVI 13 (227)
Q Consensus 8 l~~~~i 13 (227)
+++.++
T Consensus 64 ili~ll 69 (101)
T PF06024_consen 64 ILISLL 69 (101)
T ss_pred hHHHHH
Confidence 333333
No 154
>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=65.15 E-value=3.8 Score=25.02 Aligned_cols=44 Identities=25% Similarity=0.526 Sum_probs=28.4
Q ss_pred ccccccccccCCceeEEcCCCCCcccHhhHHHHHc------CCCCCccccc
Q 027163 86 QCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLH------QHSTCPVCRV 130 (227)
Q Consensus 86 ~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~------~~~~CP~Cr~ 130 (227)
.|.||.........+.-- .|+..||..|+..-.. ..-.||.|+.
T Consensus 1 ~C~vC~~~~~~~~~i~C~-~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCD-SCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBS-TTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcC-CCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 388998854444444444 5999999999854322 2346888753
No 155
>COG3630 OadG Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, gamma subunit [Energy production and conversion]
Probab=64.76 E-value=12 Score=25.83 Aligned_cols=24 Identities=25% Similarity=0.524 Sum_probs=10.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHH
Q 027163 5 GMNLVMTVIGFAVSIMFIVFVCTR 28 (227)
Q Consensus 5 ~~~l~~~~i~~~~~~~~i~~~~~~ 28 (227)
|+.+.++-.+|++++++++.++.+
T Consensus 10 g~~L~vlGmg~VflfL~iLi~~~~ 33 (84)
T COG3630 10 GITLMVLGMGFVFLFLSILIYAMR 33 (84)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444444444444444433333
No 156
>PF13908 Shisa: Wnt and FGF inhibitory regulator
Probab=64.65 E-value=2.5 Score=33.44 Aligned_cols=14 Identities=14% Similarity=0.375 Sum_probs=5.7
Q ss_pred HHHHHHHHHHHHHH
Q 027163 9 VMTVIGFAVSIMFI 22 (227)
Q Consensus 9 ~~~~i~~~~~~~~i 22 (227)
+.+++++++++++|
T Consensus 78 ~~iivgvi~~Vi~I 91 (179)
T PF13908_consen 78 TGIIVGVICGVIAI 91 (179)
T ss_pred eeeeeehhhHHHHH
Confidence 33444444433333
No 157
>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=64.08 E-value=7.7 Score=21.60 Aligned_cols=37 Identities=27% Similarity=0.648 Sum_probs=23.2
Q ss_pred ccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccC
Q 027163 86 QCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSL 132 (227)
Q Consensus 86 ~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~ 132 (227)
.|..|-+.+...+..... =+..||..|+ .|..|...+
T Consensus 1 ~C~~C~~~i~~~~~~~~~--~~~~~H~~Cf--------~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGELVLRA--LGKVWHPECF--------KCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCcEEEEe--CCccccccCC--------CCcccCCcC
Confidence 377888877665233222 4677888773 577777665
No 158
>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=63.91 E-value=19 Score=21.03 Aligned_cols=28 Identities=11% Similarity=0.135 Sum_probs=13.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027163 5 GMNLVMTVIGFAVSIMFIVFVCTRLICA 32 (227)
Q Consensus 5 ~~~l~~~~i~~~~~~~~i~~~~~~~~~~ 32 (227)
-++++..++.....+++.++.+...+.+
T Consensus 5 ~IaIIv~V~vg~~iiii~~~~YaCcykk 32 (38)
T PF02439_consen 5 TIAIIVAVVVGMAIIIICMFYYACCYKK 32 (38)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 3455555554444444444444444443
No 159
>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=63.49 E-value=8 Score=31.03 Aligned_cols=33 Identities=24% Similarity=0.551 Sum_probs=15.6
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 027163 4 SGMNLVMTVIGFAVSIMFIVFVCTRLICARIHLN 37 (227)
Q Consensus 4 ~~~~l~~~~i~~~~~~~~i~~~~~~~~~~r~~~~ 37 (227)
+|++++++ ++.++.+++++|+++.--..|+..+
T Consensus 9 sGv~vvlv-~a~g~l~~vllfIfaKRQI~Rf~lr 41 (186)
T PF07406_consen 9 SGVNVVLV-IAYGSLVFVLLFIFAKRQIMRFALR 41 (186)
T ss_pred cceeeehh-hHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45565544 4444444555555544333344433
No 160
>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=62.47 E-value=4.4 Score=26.52 Aligned_cols=37 Identities=16% Similarity=0.386 Sum_probs=18.2
Q ss_pred CcccccccccccccCCceeEEcCCCCCcccHhhHHHH
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIW 118 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~w 118 (227)
.+...|.+|...|..-..-..-..||++||..|....
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~ 43 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQR 43 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCE
Confidence 3457899999999654332333359999999887544
No 161
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=62.12 E-value=12 Score=23.78 Aligned_cols=47 Identities=28% Similarity=0.661 Sum_probs=32.4
Q ss_pred cccccccccccCCc-eeEEcCCCC--CcccHhhHHHHHcCCCCCccccccCccCc
Q 027163 85 TQCAVCLAEYHGED-TLRILPYCG--HSFHATCIDIWLHQHSTCPVCRVSLRELP 136 (227)
Q Consensus 85 ~~C~ICl~~~~~~~-~~~~l~~C~--H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 136 (227)
..|-.|-.++.... ..++ |. ..||..|.+..| +..||.|-..+...|
T Consensus 6 pnCE~C~~dLp~~s~~A~I---CSfECTFC~~C~e~~l--~~~CPNCgGelv~RP 55 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYI---CSFECTFCADCAETML--NGVCPNCGGELVRRP 55 (57)
T ss_pred CCccccCCCCCCCCCcceE---EeEeCcccHHHHHHHh--cCcCcCCCCccccCC
Confidence 35777777776554 2222 54 379999999876 578999988775543
No 162
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=61.29 E-value=5.2 Score=33.79 Aligned_cols=48 Identities=31% Similarity=0.556 Sum_probs=33.4
Q ss_pred cccccccccccCCceeEEc---CCCCCcccHhhHHHHHc-C--------CCCCccccccC
Q 027163 85 TQCAVCLAEYHGEDTLRIL---PYCGHSFHATCIDIWLH-Q--------HSTCPVCRVSL 132 (227)
Q Consensus 85 ~~C~ICl~~~~~~~~~~~l---~~C~H~fh~~Ci~~wl~-~--------~~~CP~Cr~~~ 132 (227)
.+|-+|..++...+..+.. +.|+-++|..|+..-+. . ...||.|+..+
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 5899999999544443331 25777899999987432 2 24699998844
No 163
>PHA02849 putative transmembrane protein; Provisional
Probab=60.75 E-value=20 Score=24.39 Aligned_cols=18 Identities=28% Similarity=0.610 Sum_probs=6.8
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 027163 9 VMTVIGFAVSIMFIVFVC 26 (227)
Q Consensus 9 ~~~~i~~~~~~~~i~~~~ 26 (227)
++++..|++.+.+++|+.
T Consensus 17 v~vi~v~v~vI~i~~flL 34 (82)
T PHA02849 17 VTVILVFVLVISFLAFML 34 (82)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333333333333333333
No 164
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=60.49 E-value=9.6 Score=33.04 Aligned_cols=51 Identities=25% Similarity=0.664 Sum_probs=33.1
Q ss_pred ccccccccccccc---------C------C-ceeEEcCCCCCcccHhhHHHHHcC---------CCCCccccccCcc
Q 027163 83 EDTQCAVCLAEYH---------G------E-DTLRILPYCGHSFHATCIDIWLHQ---------HSTCPVCRVSLRE 134 (227)
Q Consensus 83 ~~~~C~ICl~~~~---------~------~-~~~~~l~~C~H~fh~~Ci~~wl~~---------~~~CP~Cr~~~~~ 134 (227)
.+.+|++|+..-. . + -.-...| |||+--..-..-|-+. +..||.|-..+..
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~P-CGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~g 415 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNP-CGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG 415 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCC-cccccchhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence 4678999998521 0 0 0112356 9998777778888653 3469999776643
No 165
>PF03672 UPF0154: Uncharacterised protein family (UPF0154); InterPro: IPR005359 The proteins in this entry are functionally uncharacterised.
Probab=60.41 E-value=18 Score=23.79 Aligned_cols=24 Identities=8% Similarity=0.344 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 027163 10 MTVIGFAVSIMFIVFVCTRLICAR 33 (227)
Q Consensus 10 ~~~i~~~~~~~~i~~~~~~~~~~r 33 (227)
++++++++|+++-+|+..+++-..
T Consensus 2 ~iilali~G~~~Gff~ar~~~~k~ 25 (64)
T PF03672_consen 2 LIILALIVGAVIGFFIARKYMEKQ 25 (64)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555566665666665554443
No 166
>PLN02189 cellulose synthase
Probab=60.40 E-value=9.2 Score=38.42 Aligned_cols=52 Identities=19% Similarity=0.504 Sum_probs=35.5
Q ss_pred ccccccccccccc---CCceeEEcCCCCCcccHhhHHHH-HcCCCCCccccccCcc
Q 027163 83 EDTQCAVCLAEYH---GEDTLRILPYCGHSFHATCIDIW-LHQHSTCPVCRVSLRE 134 (227)
Q Consensus 83 ~~~~C~ICl~~~~---~~~~~~~l~~C~H~fh~~Ci~~w-l~~~~~CP~Cr~~~~~ 134 (227)
....|.||-+++. +++..+....|+--.|..|.+-= -..++.||-|+..+..
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~r 88 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYKR 88 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhh
Confidence 4568999999974 33333333347777899998532 2346789999988763
No 167
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=60.34 E-value=6.7 Score=32.80 Aligned_cols=35 Identities=20% Similarity=0.251 Sum_probs=28.0
Q ss_pred cccccccccccccCCceeEEcCCCCCcccHhhHHHHHcC
Q 027163 83 EDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQ 121 (227)
Q Consensus 83 ~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~ 121 (227)
.-..|..||..+.++ ++.| =||+|+.+||..++..
T Consensus 42 ~FdcCsLtLqPc~dP---vit~-~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 42 PFDCCSLTLQPCRDP---VITP-DGYLFDREAILEYILA 76 (303)
T ss_pred CcceeeeecccccCC---ccCC-CCeeeeHHHHHHHHHH
Confidence 346799999999877 4555 7999999999887643
No 168
>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=59.36 E-value=5.4 Score=26.23 Aligned_cols=11 Identities=27% Similarity=1.002 Sum_probs=8.4
Q ss_pred ccHhhHHHHHc
Q 027163 110 FHATCIDIWLH 120 (227)
Q Consensus 110 fh~~Ci~~wl~ 120 (227)
||..|+..|+.
T Consensus 12 FCRNCLskWy~ 22 (68)
T PF06844_consen 12 FCRNCLSKWYR 22 (68)
T ss_dssp --HHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99999999986
No 169
>PF08374 Protocadherin: Protocadherin; InterPro: IPR013585 The structure of protocadherins is similar to that of classic cadherins (IPR002126 from INTERPRO), but they also have some unique features associated with the cytoplasmic domains. They are expressed in a variety of organisms and are found in high concentrations in the brain where they seem to be localised mainly at cell-cell contact sites. Their expression seems to be developmentally regulated [].
Probab=59.31 E-value=3.9 Score=33.43 Aligned_cols=25 Identities=4% Similarity=0.465 Sum_probs=14.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Q 027163 6 MNLVMTVIGFAVSIMFIVFVCTRLI 30 (227)
Q Consensus 6 ~~l~~~~i~~~~~~~~i~~~~~~~~ 30 (227)
+++++.+++.+++++++||+.+.+.
T Consensus 37 ~~I~iaiVAG~~tVILVI~i~v~vR 61 (221)
T PF08374_consen 37 VKIMIAIVAGIMTVILVIFIVVLVR 61 (221)
T ss_pred eeeeeeeecchhhhHHHHHHHHHHH
Confidence 3455555555556666666555554
No 170
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=58.95 E-value=6.9 Score=34.04 Aligned_cols=47 Identities=23% Similarity=0.603 Sum_probs=34.9
Q ss_pred cccccccccccCCc-eeEEcCCCCCcccHhhHHHHHcCCCCCccccccC
Q 027163 85 TQCAVCLAEYHGED-TLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSL 132 (227)
Q Consensus 85 ~~C~ICl~~~~~~~-~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~ 132 (227)
..|+||-+.....+ ...-.| |++..|..|+..-...+..||.||.+.
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~-~~~~~~l~~~~t~~~~~~~~~~~rk~~ 297 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCP-CGFRLCLFCHKTISDGDGRCPGCRKPY 297 (327)
T ss_pred CCCCCCCCccccccccccccc-ccccchhhhhhcccccCCCCCccCCcc
Confidence 68999999874333 223344 888888888887777788999999554
No 171
>PF15330 SIT: SHP2-interacting transmembrane adaptor protein, SIT
Probab=57.87 E-value=15 Score=26.74 Aligned_cols=18 Identities=11% Similarity=0.458 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHHHhh
Q 027163 18 SIMFIVFVCTRLICARIH 35 (227)
Q Consensus 18 ~~~~i~~~~~~~~~~r~~ 35 (227)
++++++.+++.+.++|..
T Consensus 8 ~llLll~l~asl~~wr~~ 25 (107)
T PF15330_consen 8 ALLLLLSLAASLLAWRMK 25 (107)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 334444455555555443
No 172
>TIGR01195 oadG_fam sodium pump decarboxylases, gamma subunit. Most sequences scoring between the noise and trusted cutoffs are eukaryotic sodium channel proteins.
Probab=55.94 E-value=33 Score=23.59 Aligned_cols=13 Identities=15% Similarity=0.335 Sum_probs=4.7
Q ss_pred HHHHHHHHHHHHH
Q 027163 8 LVMTVIGFAVSIM 20 (227)
Q Consensus 8 l~~~~i~~~~~~~ 20 (227)
+.++..+++++++
T Consensus 10 l~v~GM~~VF~fL 22 (82)
T TIGR01195 10 LTVLGMGIVFLFL 22 (82)
T ss_pred HHHHHHHHHHHHH
Confidence 3333333333333
No 173
>PF06716 DUF1201: Protein of unknown function (DUF1201); InterPro: IPR009591 This entry consists of several Beet yellows virus (BYV) putative membrane-binding proteins of around 54 residues in length. The function of this currently unknown.
Probab=54.00 E-value=42 Score=20.46 Aligned_cols=13 Identities=23% Similarity=0.654 Sum_probs=5.1
Q ss_pred HHHHHHHHHHHHH
Q 027163 12 VIGFAVSIMFIVF 24 (227)
Q Consensus 12 ~i~~~~~~~~i~~ 24 (227)
.++|++.+-+.++
T Consensus 10 ~~~F~~lIC~Fl~ 22 (54)
T PF06716_consen 10 LLAFGFLICLFLF 22 (54)
T ss_pred HHHHHHHHHHHHH
Confidence 3444444333333
No 174
>PLN02436 cellulose synthase A
Probab=52.05 E-value=15 Score=37.05 Aligned_cols=52 Identities=15% Similarity=0.460 Sum_probs=35.1
Q ss_pred cccccccccccc---cCCceeEEcCCCCCcccHhhHHHHH-cCCCCCccccccCcc
Q 027163 83 EDTQCAVCLAEY---HGEDTLRILPYCGHSFHATCIDIWL-HQHSTCPVCRVSLRE 134 (227)
Q Consensus 83 ~~~~C~ICl~~~---~~~~~~~~l~~C~H~fh~~Ci~~wl-~~~~~CP~Cr~~~~~ 134 (227)
....|.||-+++ .+++..+....|+--.|..|.+-=. ..++.||-|+..+..
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~r 90 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYKR 90 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhh
Confidence 446899999986 3444333333466668999985322 336789999988763
No 175
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.18 E-value=8.4 Score=32.87 Aligned_cols=41 Identities=15% Similarity=0.294 Sum_probs=28.5
Q ss_pred CcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCC
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQH 122 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~ 122 (227)
..-..|.+|.|.+++...|..-.-=.|.||..|-..-++.+
T Consensus 266 ~apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 266 SAPLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred CCceeehhhhhhhccCceeecCCCcccceecccCHHHHHhh
Confidence 34478999999998765542111115999999998877653
No 176
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=51.13 E-value=4 Score=38.93 Aligned_cols=51 Identities=24% Similarity=0.494 Sum_probs=32.4
Q ss_pred cccccccccccCCce-------eEEcCCCCCcccHhhHHHH--H--------cCCCCCccccccCccCc
Q 027163 85 TQCAVCLAEYHGEDT-------LRILPYCGHSFHATCIDIW--L--------HQHSTCPVCRVSLRELP 136 (227)
Q Consensus 85 ~~C~ICl~~~~~~~~-------~~~l~~C~H~fh~~Ci~~w--l--------~~~~~CP~Cr~~~~~~~ 136 (227)
.+|=||-|.=+..+. +-.- .|+..||..|-... | ..-+.|-+|+..+..+.
T Consensus 118 KtCYIC~E~GrpnkA~~GACMtCNKs-~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~HfsKlk 185 (900)
T KOG0956|consen 118 KTCYICNEEGRPNKAAKGACMTCNKS-GCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYHFSKLK 185 (900)
T ss_pred ceeeeecccCCccccccccceecccc-cchhhhhhhHhhhhccceeccccccccceechhHHHHHHHhh
Confidence 589999987433221 1112 47788999997643 1 12367999998776544
No 177
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=51.04 E-value=16 Score=36.92 Aligned_cols=52 Identities=13% Similarity=0.452 Sum_probs=34.7
Q ss_pred ccccccccccccc---CCceeEEcCCCCCcccHhhHH-HHHcCCCCCccccccCcc
Q 027163 83 EDTQCAVCLAEYH---GEDTLRILPYCGHSFHATCID-IWLHQHSTCPVCRVSLRE 134 (227)
Q Consensus 83 ~~~~C~ICl~~~~---~~~~~~~l~~C~H~fh~~Ci~-~wl~~~~~CP~Cr~~~~~ 134 (227)
....|-||-+++. +++..+....|+--.|..|.+ ..-..++.||-|+..+..
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYkr 71 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYKR 71 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhh
Confidence 4468999999873 333333322466668999985 233446789999988763
No 178
>PF12072 DUF3552: Domain of unknown function (DUF3552); InterPro: IPR022711 This presumed domain is functionally uncharacterised. This domain is found in bacteria, archaea and eukaryotes. This domain is about 200 amino acids in length. This domain is found associated with PF00013 from PFAM, PF01966 from PFAM. This domain has a single completely conserved residue A that may be functionally important. ; GO: 0008663 2',3'-cyclic-nucleotide 2'-phosphodiesterase activity
Probab=50.72 E-value=29 Score=27.98 Aligned_cols=23 Identities=13% Similarity=0.329 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 027163 7 NLVMTVIGFAVSIMFIVFVCTRL 29 (227)
Q Consensus 7 ~l~~~~i~~~~~~~~i~~~~~~~ 29 (227)
.++++++++++|+++.+++....
T Consensus 2 ~ii~~i~~~~vG~~~G~~~~~~~ 24 (201)
T PF12072_consen 2 IIIIAIVALIVGIGIGYLVRKKI 24 (201)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555566666655555554433
No 179
>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=50.64 E-value=16 Score=22.60 Aligned_cols=38 Identities=26% Similarity=0.600 Sum_probs=24.0
Q ss_pred cccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCcc
Q 027163 87 CAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLRE 134 (227)
Q Consensus 87 C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 134 (227)
|+.|-..+.....+... -+..||..| ..|-.|+..+..
T Consensus 1 C~~C~~~I~~~~~~~~~--~~~~~H~~C--------f~C~~C~~~l~~ 38 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKA--MGKFWHPEC--------FKCSKCGKPLND 38 (58)
T ss_dssp BTTTSSBESSSSEEEEE--TTEEEETTT--------SBETTTTCBTTT
T ss_pred CCCCCCCccCcEEEEEe--CCcEEEccc--------cccCCCCCccCC
Confidence 66677777655444221 567788777 367788777754
No 180
>PRK02919 oxaloacetate decarboxylase subunit gamma; Provisional
Probab=50.17 E-value=47 Score=22.89 Aligned_cols=26 Identities=23% Similarity=0.636 Sum_probs=11.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHH
Q 027163 5 GMNLVMTVIGFAVSIMFIVFVCTRLI 30 (227)
Q Consensus 5 ~~~l~~~~i~~~~~~~~i~~~~~~~~ 30 (227)
|+++.++-.++++.++.++++++.+.
T Consensus 10 gl~lMvlGMg~VfvFL~lLI~~i~~m 35 (82)
T PRK02919 10 GFTLMFLGMGFVLAFLFLLIFAIRGM 35 (82)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444444444333343444433
No 181
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=49.59 E-value=10 Score=36.72 Aligned_cols=46 Identities=26% Similarity=0.577 Sum_probs=29.6
Q ss_pred cccccccccccccC----C-----ceeEEcCCCCCcccHhhHHHHHcCCCCCccccccC
Q 027163 83 EDTQCAVCLAEYHG----E-----DTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSL 132 (227)
Q Consensus 83 ~~~~C~ICl~~~~~----~-----~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~ 132 (227)
.+..|+-|...|.. + ...-+.|.|+|.-|..-|.+ ...||+|...+
T Consensus 1130 ~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs~----y~~CPLCHs~~ 1184 (1189)
T KOG2041|consen 1130 YDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEISK----YNCCPLCHSME 1184 (1189)
T ss_pred cCCCChhhcCcCceeeccCCccccceEEEccccccccccccccc----cccCccccChh
Confidence 45567777776632 1 12334557999888766543 47899998765
No 182
>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=49.42 E-value=13 Score=23.15 Aligned_cols=35 Identities=17% Similarity=0.382 Sum_probs=22.9
Q ss_pred cccccccccccCCceeEEcCCCCCcccHhhHHHHH
Q 027163 85 TQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWL 119 (227)
Q Consensus 85 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl 119 (227)
..|.+|-..|..-..-..-..||++|+..|.....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 46888888775433222222599999999976543
No 183
>PF04478 Mid2: Mid2 like cell wall stress sensor; InterPro: IPR007567 This family represents a region near the C terminus of Mid2, which contains a transmembrane region. The remainder of the protein sequence is serine-rich and of low complexity, and is therefore impossible to align accurately. Mid2 is thought to act as a mechanosensor of cell wall stress. The C-terminal cytoplasmic region of Mid2 is known to interact with Rom2, a guanine nucleotide exchange factor (GEF) for Rho1, which is part of the cell wall integrity signalling pathway [].
Probab=48.70 E-value=2.1 Score=33.08 Aligned_cols=22 Identities=23% Similarity=0.528 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 027163 12 VIGFAVSIMFIVFVCTRLICAR 33 (227)
Q Consensus 12 ~i~~~~~~~~i~~~~~~~~~~r 33 (227)
++|+++.+++++.+++.++|.|
T Consensus 55 VVGVGg~ill~il~lvf~~c~r 76 (154)
T PF04478_consen 55 VVGVGGPILLGILALVFIFCIR 76 (154)
T ss_pred EecccHHHHHHHHHhheeEEEe
Confidence 3444444444444444444444
No 184
>COG4736 CcoQ Cbb3-type cytochrome oxidase, subunit 3 [Posttranslational modification, protein turnover, chaperones]
Probab=48.27 E-value=43 Score=21.66 Aligned_cols=24 Identities=8% Similarity=0.124 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Q 027163 12 VIGFAVSIMFIVFVCTRLICARIH 35 (227)
Q Consensus 12 ~i~~~~~~~~i~~~~~~~~~~r~~ 35 (227)
+-.+++.+++++|+++.++-.|.+
T Consensus 10 a~a~~t~~~~l~fiavi~~ayr~~ 33 (60)
T COG4736 10 ADAWGTIAFTLFFIAVIYFAYRPG 33 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccc
Confidence 334445555556666555555443
No 185
>PF05399 EVI2A: Ectropic viral integration site 2A protein (EVI2A); InterPro: IPR008608 This family contains several mammalian ectropic viral integration site 2A (EVI2A) proteins. The function of this protein is unknown although it is thought to be a membrane protein and may function as an oncogene in retrovirus induced myeloid tumours [, ].; GO: 0016021 integral to membrane
Probab=48.17 E-value=22 Score=29.00 Aligned_cols=21 Identities=19% Similarity=0.371 Sum_probs=9.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHH
Q 027163 6 MNLVMTVIGFAVSIMFIVFVC 26 (227)
Q Consensus 6 ~~l~~~~i~~~~~~~~i~~~~ 26 (227)
+.|.+.+|+|++++++..+++
T Consensus 128 ~amLIClIIIAVLfLICT~Lf 148 (227)
T PF05399_consen 128 MAMLICLIIIAVLFLICTLLF 148 (227)
T ss_pred hhHHHHHHHHHHHHHHHHHHH
Confidence 444445555555544443333
No 186
>PRK11677 hypothetical protein; Provisional
Probab=47.39 E-value=24 Score=26.74 Aligned_cols=19 Identities=21% Similarity=0.326 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 027163 8 LVMTVIGFAVSIMFIVFVC 26 (227)
Q Consensus 8 l~~~~i~~~~~~~~i~~~~ 26 (227)
+++++++|++|+++.+++.
T Consensus 3 W~~a~i~livG~iiG~~~~ 21 (134)
T PRK11677 3 WEYALIGLVVGIIIGAVAM 21 (134)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4555566666655444333
No 187
>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 PRK03814 oxaloacetate decarboxylase subunit gamma; Provisional
Probab=46.54 E-value=31 Score=23.94 Aligned_cols=6 Identities=50% Similarity=0.756 Sum_probs=2.4
Q ss_pred CCCHHH
Q 027163 60 GVEPVV 65 (227)
Q Consensus 60 ~l~~~~ 65 (227)
+.+++.
T Consensus 63 ~~~~~~ 68 (85)
T PRK03814 63 AVSPQV 68 (85)
T ss_pred CCCHHH
Confidence 334443
No 189
>PLN02400 cellulose synthase
Probab=45.88 E-value=18 Score=36.56 Aligned_cols=53 Identities=17% Similarity=0.446 Sum_probs=34.8
Q ss_pred ccccccccccccc---CCceeEEcCCCCCcccHhhHHH-HHcCCCCCccccccCccC
Q 027163 83 EDTQCAVCLAEYH---GEDTLRILPYCGHSFHATCIDI-WLHQHSTCPVCRVSLREL 135 (227)
Q Consensus 83 ~~~~C~ICl~~~~---~~~~~~~l~~C~H~fh~~Ci~~-wl~~~~~CP~Cr~~~~~~ 135 (227)
....|-||-+++. +++..+..-.|+--.|..|.+- .-..++.||-|+..+...
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYkR~ 91 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYRRH 91 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccccc
Confidence 4568999999873 3333332224666689999842 223467899999988643
No 190
>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=45.57 E-value=20 Score=19.33 Aligned_cols=29 Identities=21% Similarity=0.535 Sum_probs=10.0
Q ss_pred ccccccccccCCceeEEcCCCCCcccHhhH
Q 027163 86 QCAVCLAEYHGEDTLRILPYCGHSFHATCI 115 (227)
Q Consensus 86 ~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci 115 (227)
.|.+|...... .....-..|+-.+|..|+
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 57788887655 233443458888999885
No 191
>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=45.31 E-value=33 Score=23.71 Aligned_cols=9 Identities=22% Similarity=0.283 Sum_probs=3.5
Q ss_pred HHHHHHHHH
Q 027163 8 LVMTVIGFA 16 (227)
Q Consensus 8 l~~~~i~~~ 16 (227)
+.+++++++
T Consensus 26 ~lMtILivL 34 (85)
T PF10717_consen 26 TLMTILIVL 34 (85)
T ss_pred HHHHHHHHH
Confidence 344444333
No 192
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=45.00 E-value=43 Score=21.55 Aligned_cols=10 Identities=20% Similarity=0.610 Sum_probs=4.2
Q ss_pred HHHHHHHHHH
Q 027163 12 VIGFAVSIMF 21 (227)
Q Consensus 12 ~i~~~~~~~~ 21 (227)
+++|++|+++
T Consensus 25 l~~f~~G~ll 34 (68)
T PF06305_consen 25 LIAFLLGALL 34 (68)
T ss_pred HHHHHHHHHH
Confidence 3344444443
No 193
>PF01708 Gemini_mov: Geminivirus putative movement protein ; InterPro: IPR002621 This family consists of putative movement proteins from Maize streak virus and Wheat dwarf virus [].; GO: 0046740 spread of virus in host, cell to cell, 0016021 integral to membrane
Probab=44.61 E-value=17 Score=25.45 Aligned_cols=19 Identities=16% Similarity=0.263 Sum_probs=8.4
Q ss_pred hHHHHHHHHHHHHHHHHHH
Q 027163 6 MNLVMTVIGFAVSIMFIVF 24 (227)
Q Consensus 6 ~~l~~~~i~~~~~~~~i~~ 24 (227)
+..+++++.++++++++++
T Consensus 37 vv~v~i~~lvaVg~~YL~y 55 (91)
T PF01708_consen 37 VVEVAIFTLVAVGCLYLAY 55 (91)
T ss_pred EeeeeehHHHHHHHHHHHH
Confidence 3344444444444444433
No 194
>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=44.03 E-value=58 Score=19.74 Aligned_cols=18 Identities=11% Similarity=0.370 Sum_probs=7.7
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 027163 15 FAVSIMFIVFVCTRLICA 32 (227)
Q Consensus 15 ~~~~~~~i~~~~~~~~~~ 32 (227)
++..+++++|+.+.++..
T Consensus 13 ~~~v~~~~~F~gi~~w~~ 30 (49)
T PF05545_consen 13 IGTVLFFVFFIGIVIWAY 30 (49)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333444444444444333
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=43.23 E-value=7.9 Score=34.57 Aligned_cols=50 Identities=26% Similarity=0.598 Sum_probs=0.0
Q ss_pred ccccccccccccC----------------CceeEEcCCCCCcccHhhHHHHHcC---------CCCCccccccCcc
Q 027163 84 DTQCAVCLAEYHG----------------EDTLRILPYCGHSFHATCIDIWLHQ---------HSTCPVCRVSLRE 134 (227)
Q Consensus 84 ~~~C~ICl~~~~~----------------~~~~~~l~~C~H~fh~~Ci~~wl~~---------~~~CP~Cr~~~~~ 134 (227)
..+|++|+..-.. +-.....| |||+--.....-|-+. +..||.|-..+..
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~P-CGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g 402 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNP-CGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDG 402 (416)
T ss_dssp ----------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecc-cccccchhhhhhhhcCCCCCCcccccccCCcccCcccC
Confidence 6789999975210 01122456 9999888888889653 2469999888764
No 196
>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=43.15 E-value=32 Score=24.87 Aligned_cols=48 Identities=19% Similarity=0.396 Sum_probs=28.4
Q ss_pred CcccccccccccccCCceeEE-----cCCC---CCcccHhhHHHHHcC---------CCCCccccc
Q 027163 82 AEDTQCAVCLAEYHGEDTLRI-----LPYC---GHSFHATCIDIWLHQ---------HSTCPVCRV 130 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~-----l~~C---~H~fh~~Ci~~wl~~---------~~~CP~Cr~ 130 (227)
.....|-.|...-.+.. +.- .+.| .=.||..||..++.. .-.||.||.
T Consensus 5 ~~g~~CHqCrqKt~~~~-~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 5 VNGKTCHQCRQKTLDFK-TICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred CCCCCchhhcCCCCCCc-eEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 34556777776433221 111 1236 567999999877643 235999886
No 197
>PF10954 DUF2755: Protein of unknown function (DUF2755); InterPro: IPR020513 This entry contains membrane proteins with no known function.; GO: 0016021 integral to membrane
Probab=43.08 E-value=58 Score=22.83 Aligned_cols=26 Identities=15% Similarity=0.348 Sum_probs=15.3
Q ss_pred CcchhHHHHHHHHHHHHHHHHHHHHH
Q 027163 2 ISSGMNLVMTVIGFAVSIMFIVFVCT 27 (227)
Q Consensus 2 ~~~~~~l~~~~i~~~~~~~~i~~~~~ 27 (227)
|+.+..-++-++-|..+.+++-.+.+
T Consensus 67 igl~VgTlFgLiPFL~Gc~~~~v~~l 92 (100)
T PF10954_consen 67 IGLGVGTLFGLIPFLAGCLILGVIAL 92 (100)
T ss_pred EeehhHHHHHHHHHHHHHHHHHHHHH
Confidence 45566666666667666665544443
No 198
>PF04689 S1FA: DNA binding protein S1FA; InterPro: IPR006779 S1FA is an unusual small plant peptide of only 70 amino acids with a basic domain which contains a nuclear localization signal and a putative DNA binding helix. S1FA is highly conserved between dicotyledonous and monocotyledonous plants and may be a DNA-binding protein that specifically recognises the negative promoter element S1F [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=42.89 E-value=22 Score=23.20 Aligned_cols=24 Identities=17% Similarity=0.408 Sum_probs=10.8
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHH
Q 027163 3 SSGMNLVMTVIGFAVSIMFIVFVC 26 (227)
Q Consensus 3 ~~~~~l~~~~i~~~~~~~~i~~~~ 26 (227)
+.|+.+++++.++++.+++.-|+.
T Consensus 11 nPGlIVLlvV~g~ll~flvGnyvl 34 (69)
T PF04689_consen 11 NPGLIVLLVVAGLLLVFLVGNYVL 34 (69)
T ss_pred CCCeEEeehHHHHHHHHHHHHHHH
Confidence 344555555554444444333333
No 199
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=42.53 E-value=14 Score=21.20 Aligned_cols=27 Identities=33% Similarity=0.664 Sum_probs=14.5
Q ss_pred cccccccccccCCce-------eEEcCCCCCccc
Q 027163 85 TQCAVCLAEYHGEDT-------LRILPYCGHSFH 111 (227)
Q Consensus 85 ~~C~ICl~~~~~~~~-------~~~l~~C~H~fh 111 (227)
.+|+=|...|..++. ...-+.|+|.|+
T Consensus 3 i~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVFF 36 (36)
T ss_pred EECCCCCCEEeCCHHHCCCCCcEEECCCCCCEeC
Confidence 357777777654432 112234777663
No 200
>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=42.52 E-value=2.7 Score=28.08 Aligned_cols=42 Identities=26% Similarity=0.554 Sum_probs=21.2
Q ss_pred cccccccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCccC
Q 027163 85 TQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLREL 135 (227)
Q Consensus 85 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 135 (227)
..|+.|..++... =+|.+|..|-.. +.....||-|..++..+
T Consensus 2 ~~CP~C~~~L~~~--------~~~~~C~~C~~~-~~~~a~CPdC~~~Le~L 43 (70)
T PF07191_consen 2 NTCPKCQQELEWQ--------GGHYHCEACQKD-YKKEAFCPDCGQPLEVL 43 (70)
T ss_dssp -B-SSS-SBEEEE--------TTEEEETTT--E-EEEEEE-TTT-SB-EEE
T ss_pred CcCCCCCCccEEe--------CCEEECcccccc-ceecccCCCcccHHHHH
Confidence 4689998876433 255556666544 34456799998887543
No 201
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=42.29 E-value=7.6 Score=24.59 Aligned_cols=20 Identities=35% Similarity=0.647 Sum_probs=15.2
Q ss_pred eEEcCCCCCcccHhhHHHHH
Q 027163 100 LRILPYCGHSFHATCIDIWL 119 (227)
Q Consensus 100 ~~~l~~C~H~fh~~Ci~~wl 119 (227)
.+.-+.|+|.||..|...|-
T Consensus 40 ~v~C~~C~~~fC~~C~~~~H 59 (64)
T smart00647 40 RVTCPKCGFSFCFRCKVPWH 59 (64)
T ss_pred eeECCCCCCeECCCCCCcCC
Confidence 34444599999999988883
No 202
>PF07204 Orthoreo_P10: Orthoreovirus membrane fusion protein p10; InterPro: IPR009854 This family consists of several Orthoreovirus membrane fusion protein p10 sequences. p10 is thought to be a multifunctional protein that plays a key role in virus-host interaction [].
Probab=42.16 E-value=27 Score=24.71 Aligned_cols=16 Identities=19% Similarity=0.673 Sum_probs=6.2
Q ss_pred HHHHHHHHHHHHHHHH
Q 027163 18 SIMFIVFVCTRLICAR 33 (227)
Q Consensus 18 ~~~~i~~~~~~~~~~r 33 (227)
+++++++++..++|.+
T Consensus 50 G~iLilIii~Lv~CC~ 65 (98)
T PF07204_consen 50 GLILILIIIALVCCCR 65 (98)
T ss_pred hhhhHHHHHHHHHHhh
Confidence 3333333333444443
No 203
>PF02158 Neuregulin: Neuregulin family; InterPro: IPR002154 Neuregulins are a sub-family of EGF-like molecules that have been shown to play multiple essential roles in vertebrate embryogenesis including: cardiac development, Schwann cell and oligodendrocyte differentiation, some aspects of neuronal development, as well as the formation of neuromuscular synapses [, ]. Included in the family are heregulin; neu differentiation factor; acetylcholine receptor synthesis stimulator; glial growth factor; and sensory and motor-neuron derived factor []. Multiple family members are generated by alternate splicing or by use of several cell type-specific transcription initiation sites. In general, they bind to and activate the erbB family of receptor tyrosine kinases (erbB2 (HER2), erbB3 (HER3), and erbB4 (HER4)), functioning both as heterodimers and homodimers. The transmembrane forms of neuregulin 1 (NRG1) are present within synaptic vesicles, including those containing glutamate []. After exocytosis, NRG1 is in the presynaptic membrane, where the ectodomain of NRG1 may be cleaved off. The ectodomain then migrates across the synaptic cleft and binds to and activates a member of the EGF-receptor family on the postsynaptic membrane. This has been shown to increase the expression of certain glutamate-receptor subunits. NRG1 appears to signal for glutamate-receptor subunit expression, localisation, and /or phosphorylation facilitating subsequent glutamate transmission. The NRG1 gene has been identified as a potential gene determining susceptibility to schizophrenia by a combination of genetic linkage and association approaches []. ; GO: 0005102 receptor binding, 0009790 embryo development; PDB: 1HRE_A 1HAE_A 1HAF_A 1HRF_A.
Probab=41.58 E-value=8.7 Score=34.14 Aligned_cols=24 Identities=29% Similarity=0.728 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHH-HHHH
Q 027163 9 VMTVIGFAVSIMFIVFVCTR-LICA 32 (227)
Q Consensus 9 ~~~~i~~~~~~~~i~~~~~~-~~~~ 32 (227)
|++|-+|+|+++++-++|+. +||.
T Consensus 9 VLTITgIcvaLlVVGi~Cvv~aYCK 33 (404)
T PF02158_consen 9 VLTITGICVALLVVGIVCVVDAYCK 33 (404)
T ss_dssp -------------------------
T ss_pred hhhhhhhhHHHHHHHHHHHHHHHHH
Confidence 56667777777777777777 7776
No 204
>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=41.40 E-value=12 Score=23.25 Aligned_cols=37 Identities=22% Similarity=0.542 Sum_probs=19.9
Q ss_pred ccccccccccccCCceeEEcCCCCCcccHhhHHHHHc--CCCCCcccccc
Q 027163 84 DTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLH--QHSTCPVCRVS 131 (227)
Q Consensus 84 ~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~--~~~~CP~Cr~~ 131 (227)
...|+.|-+.|... .+ +.|+ .+.-.. ..-.||+|...
T Consensus 2 ~f~CP~C~~~~~~~-~L-----~~H~-----~~~H~~~~~~v~CPiC~~~ 40 (54)
T PF05605_consen 2 SFTCPYCGKGFSES-SL-----VEHC-----EDEHRSESKNVVCPICSSR 40 (54)
T ss_pred CcCCCCCCCccCHH-HH-----HHHH-----HhHCcCCCCCccCCCchhh
Confidence 35799998865432 11 3342 222111 23469999764
No 205
>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=41.37 E-value=7.6 Score=24.27 Aligned_cols=12 Identities=42% Similarity=0.938 Sum_probs=6.3
Q ss_pred CCccccccCccC
Q 027163 124 TCPVCRVSLREL 135 (227)
Q Consensus 124 ~CP~Cr~~~~~~ 135 (227)
.||+|.+++...
T Consensus 22 ~CPlC~r~l~~e 33 (54)
T PF04423_consen 22 CCPLCGRPLDEE 33 (54)
T ss_dssp E-TTT--EE-HH
T ss_pred cCCCCCCCCCHH
Confidence 799999988653
No 206
>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=41.25 E-value=8.3 Score=25.25 Aligned_cols=9 Identities=33% Similarity=0.634 Sum_probs=0.0
Q ss_pred HHHHHHHHH
Q 027163 13 IGFAVSIMF 21 (227)
Q Consensus 13 i~~~~~~~~ 21 (227)
.+.++++++
T Consensus 16 aG~Vvgll~ 24 (64)
T PF01034_consen 16 AGGVVGLLF 24 (64)
T ss_dssp ---------
T ss_pred HHHHHHHHH
Confidence 333333333
No 207
>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=40.96 E-value=5.6 Score=34.07 Aligned_cols=49 Identities=20% Similarity=0.244 Sum_probs=20.3
Q ss_pred CcccccccccccccCCceeEEcC--CCCCcccHhhHHHHHcCCCCCcccccc
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILP--YCGHSFHATCIDIWLHQHSTCPVCRVS 131 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~--~C~H~fh~~Ci~~wl~~~~~CP~Cr~~ 131 (227)
+....|+||-..-... .++.-. .-.|.+|..|-..|-.....||.|-..
T Consensus 170 w~~g~CPvCGs~P~~s-~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 170 WQRGYCPVCGSPPVLS-VLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp TT-SS-TTT---EEEE-EEE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred ccCCcCCCCCCcCceE-EEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 3446899998762111 011000 124567778888897778889999653
No 208
>PRK11677 hypothetical protein; Provisional
Probab=40.38 E-value=31 Score=26.12 Aligned_cols=24 Identities=17% Similarity=0.296 Sum_probs=14.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHH
Q 027163 5 GMNLVMTVIGFAVSIMFIVFVCTR 28 (227)
Q Consensus 5 ~~~l~~~~i~~~~~~~~i~~~~~~ 28 (227)
-+.++.+++|+++|+++.-+.--.
T Consensus 4 ~~a~i~livG~iiG~~~~R~~~~~ 27 (134)
T PRK11677 4 EYALIGLVVGIIIGAVAMRFGNRK 27 (134)
T ss_pred HHHHHHHHHHHHHHHHHHhhccch
Confidence 355666677777776666655433
No 209
>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins.
Probab=40.20 E-value=50 Score=22.73 Aligned_cols=22 Identities=32% Similarity=0.602 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 027163 8 LVMTVIGFAVSIMFIVFVCTRL 29 (227)
Q Consensus 8 l~~~~i~~~~~~~~i~~~~~~~ 29 (227)
.+++.++|++++++++.....+
T Consensus 3 ~lI~Aiaf~vLvi~l~~~l~~l 24 (90)
T PF06103_consen 3 GLIAAIAFAVLVIFLIKVLKKL 24 (90)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555555555544444443
No 210
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=39.88 E-value=17 Score=30.53 Aligned_cols=41 Identities=22% Similarity=0.352 Sum_probs=30.5
Q ss_pred ccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCC--CCCcc
Q 027163 84 DTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQH--STCPV 127 (227)
Q Consensus 84 ~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~--~~CP~ 127 (227)
...|+|=...+..+. +-.+|+|+|-..-|...+... ..||+
T Consensus 176 s~rdPis~~~I~nPv---iSkkC~HvydrDsI~~~l~~~~~i~CPv 218 (262)
T KOG2979|consen 176 SNRDPISKKPIVNPV---ISKKCGHVYDRDSIMQILCDEITIRCPV 218 (262)
T ss_pred cccCchhhhhhhchh---hhcCcCcchhhhhHHHHhccCceeeccc
Confidence 357998877776662 223699999999999988764 45887
No 211
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=39.65 E-value=70 Score=20.49 Aligned_cols=21 Identities=14% Similarity=0.216 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 027163 8 LVMTVIGFAVSIMFIVFVCTR 28 (227)
Q Consensus 8 l~~~~i~~~~~~~~i~~~~~~ 28 (227)
++.+++|++++.++.+...++
T Consensus 25 l~~f~~G~llg~l~~~~~~~~ 45 (68)
T PF06305_consen 25 LIAFLLGALLGWLLSLPSRLR 45 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344555555555554444433
No 212
>PRK09702 PTS system arbutin-specific transporter subunit IIB; Provisional
Probab=39.52 E-value=43 Score=26.21 Aligned_cols=29 Identities=17% Similarity=0.440 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027163 7 NLVMTVIGFAVSIMFIVFVCTRLICARIH 35 (227)
Q Consensus 7 ~l~~~~i~~~~~~~~i~~~~~~~~~~r~~ 35 (227)
.+.+.++.+++..+++.|+.++|+..++.
T Consensus 7 ~~~~~~i~iGl~~f~iYyfvF~flI~kfn 35 (161)
T PRK09702 7 DMMLTQIAIGLCFTLLYFVVFRTLILQFN 35 (161)
T ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 34455566666666666666666665543
No 213
>PF06143 Baculo_11_kDa: Baculovirus 11 kDa family; InterPro: IPR009313 This is a family of uncharacterised Baculovirus proteins that are all about 11 kDa in size.
Probab=39.37 E-value=74 Score=22.06 Aligned_cols=20 Identities=15% Similarity=0.431 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 027163 10 MTVIGFAVSIMFIVFVCTRL 29 (227)
Q Consensus 10 ~~~i~~~~~~~~i~~~~~~~ 29 (227)
+++.++++.+++++|+.+.+
T Consensus 38 LVic~~lVfVii~lFi~ll~ 57 (84)
T PF06143_consen 38 LVICCFLVFVIIVLFILLLY 57 (84)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33444433333344444333
No 214
>COG3105 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.77 E-value=58 Score=24.51 Aligned_cols=28 Identities=29% Similarity=0.326 Sum_probs=18.4
Q ss_pred CCcchhHHHHHHHHHHHHHHHHHHHHHHH
Q 027163 1 MISSGMNLVMTVIGFAVSIMFIVFVCTRL 29 (227)
Q Consensus 1 ~~~~~~~l~~~~i~~~~~~~~i~~~~~~~ 29 (227)
|=|+-+..+.++|++++|+++ -|++.|+
T Consensus 1 ~nwt~~~W~~a~igLvvGi~I-G~li~Rl 28 (138)
T COG3105 1 MNWTFMTWEYALIGLVVGIII-GALIARL 28 (138)
T ss_pred CchhHHHHHHHHHHHHHHHHH-HHHHHHH
Confidence 346667778888888877664 4455554
No 215
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.60 E-value=45 Score=22.39 Aligned_cols=50 Identities=32% Similarity=0.597 Sum_probs=30.3
Q ss_pred ccccccccccCCce-eEEcCCCCCcccHhhHHHHHcCCCCCccccccCccCchh
Q 027163 86 QCAVCLAEYHGEDT-LRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLRELPER 138 (227)
Q Consensus 86 ~C~ICl~~~~~~~~-~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~ 138 (227)
.|--|-.++..+.. .++.. =.|.||..|...-| +..||.|-..+...|..
T Consensus 7 nCECCDrDLpp~s~dA~ICt-fEcTFCadCae~~l--~g~CPnCGGelv~RP~R 57 (84)
T COG3813 7 NCECCDRDLPPDSTDARICT-FECTFCADCAENRL--HGLCPNCGGELVARPIR 57 (84)
T ss_pred CCcccCCCCCCCCCceeEEE-EeeehhHhHHHHhh--cCcCCCCCchhhcCcCC
Confidence 35556566543321 12211 24789999987644 47899998888665544
No 216
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=38.05 E-value=22 Score=22.16 Aligned_cols=23 Identities=35% Similarity=0.836 Sum_probs=12.8
Q ss_pred CCCCcccHhhHHHHHcCCCCCccc
Q 027163 105 YCGHSFHATCIDIWLHQHSTCPVC 128 (227)
Q Consensus 105 ~C~H~fh~~Ci~~wl~~~~~CP~C 128 (227)
.|+|.|-..=-.. ......||.|
T Consensus 33 ~Cgh~w~~~v~~R-~~~~~~CP~C 55 (55)
T PF14311_consen 33 KCGHEWKASVNDR-TRRGKGCPYC 55 (55)
T ss_pred CCCCeeEccHhhh-ccCCCCCCCC
Confidence 4777665432222 2455679988
No 217
>PF15179 Myc_target_1: Myc target protein 1
Probab=37.94 E-value=69 Score=25.61 Aligned_cols=21 Identities=10% Similarity=0.248 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 027163 13 IGFAVSIMFIVFVCTRLICAR 33 (227)
Q Consensus 13 i~~~~~~~~i~~~~~~~~~~r 33 (227)
+.+++++++..++.+.+.|.-
T Consensus 27 vSm~iGLviG~li~~LltwlS 47 (197)
T PF15179_consen 27 VSMAIGLVIGALIWALLTWLS 47 (197)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444443
No 218
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=37.67 E-value=19 Score=20.04 Aligned_cols=21 Identities=29% Similarity=0.711 Sum_probs=12.3
Q ss_pred CCCCcccHhhHHHHHcCCCCCcccccc
Q 027163 105 YCGHSFHATCIDIWLHQHSTCPVCRVS 131 (227)
Q Consensus 105 ~C~H~fh~~Ci~~wl~~~~~CP~Cr~~ 131 (227)
.|||++-..- ....||+|..+
T Consensus 6 ~CGy~y~~~~------~~~~CP~Cg~~ 26 (33)
T cd00350 6 VCGYIYDGEE------APWVCPVCGAP 26 (33)
T ss_pred CCCCEECCCc------CCCcCcCCCCc
Confidence 3776654322 34479999663
No 219
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=37.32 E-value=10 Score=34.65 Aligned_cols=37 Identities=16% Similarity=0.426 Sum_probs=27.1
Q ss_pred ccccccccccccCCcee-----EEcCCCCCcccHhhHHHHHcC
Q 027163 84 DTQCAVCLAEYHGEDTL-----RILPYCGHSFHATCIDIWLHQ 121 (227)
Q Consensus 84 ~~~C~ICl~~~~~~~~~-----~~l~~C~H~fh~~Ci~~wl~~ 121 (227)
-..|+.|....+..... ... .|+|.||+.|+..|-..
T Consensus 226 tk~CP~c~~~iek~~gc~~~~~~~~-~c~~~FCw~Cl~~~~~h 267 (444)
T KOG1815|consen 226 TKECPKCKVPIEKDGGCNHMTCKSA-SCKHEFCWVCLASLSDH 267 (444)
T ss_pred CccCCCcccchhccCCccccccccC-CcCCeeceeeecccccc
Confidence 34599999988765522 122 39999999999898665
No 220
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=36.79 E-value=38 Score=34.28 Aligned_cols=52 Identities=19% Similarity=0.491 Sum_probs=34.8
Q ss_pred ccccccccccccc---CCceeEEcCCCCCcccHhhHHHH-HcCCCCCccccccCcc
Q 027163 83 EDTQCAVCLAEYH---GEDTLRILPYCGHSFHATCIDIW-LHQHSTCPVCRVSLRE 134 (227)
Q Consensus 83 ~~~~C~ICl~~~~---~~~~~~~l~~C~H~fh~~Ci~~w-l~~~~~CP~Cr~~~~~ 134 (227)
....|.||-++.. +++..+....|+--.|..|.+-= -..++.||-|+..+..
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~~ 69 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYKR 69 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhh
Confidence 4578999999874 33333332246666899998532 2346789999988763
No 221
>PF04277 OAD_gamma: Oxaloacetate decarboxylase, gamma chain ; InterPro: IPR005899 This family comprises distantly related, low complexity, hydrophobic small subunits of several related sodium ion-pumping decarboxylases. These include oxaloacetate decarboxylase gamma subunit and methylmalonyl-CoA decarboxylase delta subunit [].; GO: 0008948 oxaloacetate decarboxylase activity, 0015081 sodium ion transmembrane transporter activity, 0071436 sodium ion export, 0016020 membrane
Probab=35.65 E-value=82 Score=20.98 Aligned_cols=7 Identities=29% Similarity=0.767 Sum_probs=2.6
Q ss_pred HHHHHHH
Q 027163 15 FAVSIMF 21 (227)
Q Consensus 15 ~~~~~~~ 21 (227)
++++++|
T Consensus 10 ~Gm~iVF 16 (79)
T PF04277_consen 10 IGMGIVF 16 (79)
T ss_pred HHHHHHH
Confidence 3333333
No 222
>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=35.65 E-value=36 Score=28.04 Aligned_cols=23 Identities=17% Similarity=0.326 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 027163 7 NLVMTVIGFAVSIMFIVFVCTRLI 30 (227)
Q Consensus 7 ~l~~~~i~~~~~~~~i~~~~~~~~ 30 (227)
+++|-+++. ++++||+++.+.+|
T Consensus 13 N~iLNiaI~-IV~lLIiiva~~lf 35 (217)
T PF07423_consen 13 NKILNIAIG-IVSLLIIIVAYQLF 35 (217)
T ss_pred hhhHHHHHH-HHHHHHHHHhhhhe
Confidence 344433333 33344444444443
No 223
>PRK14584 hmsS hemin storage system protein; Provisional
Probab=35.27 E-value=1.3e+02 Score=23.40 Aligned_cols=10 Identities=20% Similarity=0.607 Sum_probs=4.7
Q ss_pred CCCHHHHhhC
Q 027163 60 GVEPVVVANF 69 (227)
Q Consensus 60 ~l~~~~~~~l 69 (227)
+++.+.++.+
T Consensus 109 ~l~~e~i~qL 118 (153)
T PRK14584 109 ALSPELIAQL 118 (153)
T ss_pred CCCHHHHHHH
Confidence 4445444443
No 224
>PF06365 CD34_antigen: CD34/Podocalyxin family; InterPro: IPR013836 This family consists of several mammalian CD34 antigen proteins. The CD34 antigen is a human leukocyte membrane protein expressed specifically by lymphohematopoietic progenitor cells. CD34 is a phosphoprotein. Activation of protein kinase C (PKC) has been found to enhance CD34 phosphorylation [, ]. This family contains several eukaryotic podocalyxin proteins. Podocalyxin is a major membrane protein of the glomerular epithelium and is thought to be involved in maintenance of the architecture of the foot processes and filtration slits characteristic of this unique epithelium by virtue of its high negative charge. Podocalyxin functions as an anti-adhesin that maintains an open filtration pathway between neighbouring foot processes in the glomerular epithelium by charge repulsion [].
Probab=35.22 E-value=21 Score=28.99 Aligned_cols=13 Identities=8% Similarity=0.432 Sum_probs=5.3
Q ss_pred HHHHHHHHHHHHH
Q 027163 21 FIVFVCTRLICAR 33 (227)
Q Consensus 21 ~i~~~~~~~~~~r 33 (227)
+++.+...|+|+.
T Consensus 114 la~~~~~~Y~~~~ 126 (202)
T PF06365_consen 114 LAILLGAGYCCHQ 126 (202)
T ss_pred HHHHHHHHHHhhh
Confidence 3333444444443
No 225
>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=34.87 E-value=8.2 Score=22.87 Aligned_cols=25 Identities=28% Similarity=0.530 Sum_probs=14.4
Q ss_pred CCCCcccHhhHHHHHcCCCCCccccc
Q 027163 105 YCGHSFHATCIDIWLHQHSTCPVCRV 130 (227)
Q Consensus 105 ~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 130 (227)
.|||.|-...-..= .....||.|..
T Consensus 10 ~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 48887765321110 23456999987
No 226
>PF14851 FAM176: FAM176 family
Probab=34.51 E-value=52 Score=25.55 Aligned_cols=23 Identities=17% Similarity=0.509 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHH-HHHHHH
Q 027163 9 VMTVIGFAVSIMFIVFV-CTRLIC 31 (227)
Q Consensus 9 ~~~~i~~~~~~~~i~~~-~~~~~~ 31 (227)
.+++.++++|++|.+++ ++++.|
T Consensus 24 LYFv~gVC~GLlLtLcllV~risc 47 (153)
T PF14851_consen 24 LYFVSGVCAGLLLTLCLLVIRISC 47 (153)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhee
Confidence 34556666666554443 334444
No 227
>PHA03105 EEV glycoprotein; Provisional
Probab=34.29 E-value=48 Score=25.84 Aligned_cols=24 Identities=29% Similarity=0.694 Sum_probs=14.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHH
Q 027163 6 MNLVMTVIGFAVSIMFIVFVCTRL 29 (227)
Q Consensus 6 ~~l~~~~i~~~~~~~~i~~~~~~~ 29 (227)
+..+++.+.|++++++++|++-..
T Consensus 6 v~Y~vv~~SfiiLi~Yll~i~K~~ 29 (188)
T PHA03105 6 VVYVVVPLSFIVLILYIFFICKNT 29 (188)
T ss_pred EEeeehHHHHHHHHHHHHHHHHHH
Confidence 344555666777777777776554
No 228
>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=34.04 E-value=28 Score=25.54 Aligned_cols=46 Identities=20% Similarity=0.406 Sum_probs=27.7
Q ss_pred cccccccccccccC--CceeEEcCCCCCcccHhhHHHHHcCCC--CCccccc
Q 027163 83 EDTQCAVCLAEYHG--EDTLRILPYCGHSFHATCIDIWLHQHS--TCPVCRV 130 (227)
Q Consensus 83 ~~~~C~ICl~~~~~--~~~~~~l~~C~H~fh~~Ci~~wl~~~~--~CP~Cr~ 130 (227)
++..|++|...|.. +...... .|+|.+|..|-.. ..... .|-+|..
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~-~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCV-DCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEET-TTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCC-cCCccccCccCCc-CCCCCCEEChhhHH
Confidence 56799999987632 2334444 5999999998643 11112 3888855
No 229
>PRK09039 hypothetical protein; Validated
Probab=33.99 E-value=80 Score=27.83 Aligned_cols=31 Identities=13% Similarity=0.310 Sum_probs=19.6
Q ss_pred CcchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027163 2 ISSGMNLVMTVIGFAVSIMFIVFVCTRLICA 32 (227)
Q Consensus 2 ~~~~~~l~~~~i~~~~~~~~i~~~~~~~~~~ 32 (227)
||+|+.=.+.-+.+++.+++.+|++.-+|..
T Consensus 15 ~wpg~vd~~~~ll~~~~f~l~~f~~~q~fLs 45 (343)
T PRK09039 15 YWPGFVDALSTLLLVIMFLLTVFVVAQFFLS 45 (343)
T ss_pred CCchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6788766666666666666666666655543
No 230
>PLN02195 cellulose synthase A
Probab=33.96 E-value=50 Score=33.22 Aligned_cols=51 Identities=16% Similarity=0.370 Sum_probs=34.4
Q ss_pred ccccccccccccc---CCceeEEcCCCCCcccHhhHHHHH-cCCCCCccccccCc
Q 027163 83 EDTQCAVCLAEYH---GEDTLRILPYCGHSFHATCIDIWL-HQHSTCPVCRVSLR 133 (227)
Q Consensus 83 ~~~~C~ICl~~~~---~~~~~~~l~~C~H~fh~~Ci~~wl-~~~~~CP~Cr~~~~ 133 (227)
....|.||-+++. +++..+....|+--.|..|.+-=. ..++.||-|+..+.
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 4568999999764 333333333477778999985322 23578999998886
No 231
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=33.35 E-value=12 Score=28.38 Aligned_cols=18 Identities=17% Similarity=0.684 Sum_probs=12.6
Q ss_pred cCCccccccccccc-ccCC
Q 027163 80 AAAEDTQCAVCLAE-YHGE 97 (227)
Q Consensus 80 ~~~~~~~C~ICl~~-~~~~ 97 (227)
...++.+|.||+.. |.++
T Consensus 61 Gv~ddatC~IC~KTKFADG 79 (169)
T KOG3799|consen 61 GVGDDATCGICHKTKFADG 79 (169)
T ss_pred ccCcCcchhhhhhcccccc
Confidence 34678899999874 4443
No 232
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.12 E-value=21 Score=25.05 Aligned_cols=13 Identities=23% Similarity=0.884 Sum_probs=11.1
Q ss_pred cccHhhHHHHHcC
Q 027163 109 SFHATCIDIWLHQ 121 (227)
Q Consensus 109 ~fh~~Ci~~wl~~ 121 (227)
-||..|+..|+..
T Consensus 42 gFCRNCLs~Wy~e 54 (104)
T COG3492 42 GFCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHHH
Confidence 3999999999864
No 233
>PHA02902 putative IMV membrane protein; Provisional
Probab=33.11 E-value=67 Score=21.05 Aligned_cols=8 Identities=13% Similarity=0.306 Sum_probs=3.6
Q ss_pred CCHHHHhh
Q 027163 61 VEPVVVAN 68 (227)
Q Consensus 61 l~~~~~~~ 68 (227)
+.++.+++
T Consensus 54 lTpDQirA 61 (70)
T PHA02902 54 LTPDQIKA 61 (70)
T ss_pred CCHHHHHH
Confidence 44444444
No 234
>PF11119 DUF2633: Protein of unknown function (DUF2633); InterPro: IPR022576 This family is conserved largely in Proteobacteria. Several members are named as YfgG. The function is not known.
Probab=32.86 E-value=1.4e+02 Score=19.26 Aligned_cols=16 Identities=19% Similarity=0.333 Sum_probs=8.7
Q ss_pred hhHHHHHHHHHHHHHH
Q 027163 5 GMNLVMTVIGFAVSIM 20 (227)
Q Consensus 5 ~~~l~~~~i~~~~~~~ 20 (227)
.+..++++|.|++.+.
T Consensus 8 ~mtriVLLISfiIlfg 23 (59)
T PF11119_consen 8 RMTRIVLLISFIILFG 23 (59)
T ss_pred hHHHHHHHHHHHHHHH
Confidence 3445555666655554
No 235
>PF01788 PsbJ: PsbJ; InterPro: IPR002682 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbJ found in PSII. PsbJ is one of the most hydrophobic proteins in the thylakoid membrane, and is located in a gene cluster with PsbE, PsbF and PsbL (PsbEFJL). Both PsbJ and PsbL (IPR003372 from INTERPRO) are essential for proper assembly of the OEC. Mutations in PsbJ cause the light-harvesting antenna to remain detached from the PSII dimers []. In addition, both PsbJ and PsbL are involved in the unidirectional flow of electrons, where PsbJ regulates the forward electron flow from D2 (Qa) to the plastoquinone pool, and PsbL prevents the reduction of PSII by back electron flow from plastoquinol protecting PSII from photo-inactivation [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3A0H_J 3ARC_J 3A0B_J 3KZI_J 2AXT_J 3PRQ_J 4FBY_b 3BZ2_J 1S5L_j 3PRR_J ....
Probab=32.74 E-value=1e+02 Score=18.10 Aligned_cols=21 Identities=38% Similarity=0.352 Sum_probs=10.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHH
Q 027163 6 MNLVMTVIGFAVSIMFIVFVC 26 (227)
Q Consensus 6 ~~l~~~~i~~~~~~~~i~~~~ 26 (227)
++++-++.++++..++-+|++
T Consensus 10 LWlVgtv~G~~vi~lvglFfY 30 (40)
T PF01788_consen 10 LWLVGTVAGIAVIGLVGLFFY 30 (40)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred chHHHHHHHHHHHHHHHHhee
Confidence 345555555555444444443
No 236
>PRK03554 tatA twin arginine translocase protein A; Provisional
Probab=32.45 E-value=53 Score=22.99 Aligned_cols=9 Identities=11% Similarity=-0.075 Sum_probs=4.1
Q ss_pred CCcchhHHH
Q 027163 1 MISSGMNLV 9 (227)
Q Consensus 1 ~~~~~~~l~ 9 (227)
|.+.|+.-+
T Consensus 1 M~glG~~eL 9 (89)
T PRK03554 1 MGGISIWQL 9 (89)
T ss_pred CCCccHHHH
Confidence 444554433
No 237
>PRK14585 pgaD putative PGA biosynthesis protein; Provisional
Probab=31.72 E-value=1.9e+02 Score=21.94 Aligned_cols=11 Identities=0% Similarity=0.108 Sum_probs=6.4
Q ss_pred CCCHHHHhhCC
Q 027163 60 GVEPVVVANFP 70 (227)
Q Consensus 60 ~l~~~~~~~lp 70 (227)
+++++.++.|.
T Consensus 100 ~is~el~~qL~ 110 (137)
T PRK14585 100 AIPDELYQQLQ 110 (137)
T ss_pred CCCHHHHHHHh
Confidence 55666665554
No 238
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=31.30 E-value=21 Score=29.68 Aligned_cols=45 Identities=20% Similarity=0.395 Sum_probs=32.3
Q ss_pred ccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCC--CCCcc--cccc
Q 027163 84 DTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQH--STCPV--CRVS 131 (227)
Q Consensus 84 ~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~--~~CP~--Cr~~ 131 (227)
+..|+|-+..+..+ .+..+|+|.|-.+-|...++.. ..||. |.+.
T Consensus 189 ~nrCpitl~p~~~p---ils~kcnh~~e~D~I~~~lq~~~trvcp~~~Csq~ 237 (275)
T COG5627 189 SNRCPITLNPDFYP---ILSSKCNHKPEMDLINKKLQVECTRVCPRLICSQK 237 (275)
T ss_pred cccCCcccCcchhH---HHHhhhcccccHHHHHHHhcCCceeecchhhcchh
Confidence 45799988776544 2333699999999999998854 55774 6443
No 239
>PF05510 Sarcoglycan_2: Sarcoglycan alpha/epsilon; InterPro: IPR008908 Sarcoglycans are a subcomplex of transmembrane proteins which are part of the dystrophin-glycoprotein complex. They are expressed in the skeletal, cardiac and smooth muscle. Although numerous studies have been conducted on the sarcoglycan subcomplex in skeletal and cardiac muscle, the manner of the distribution and localisation of these proteins along the nonjunctional sarcolemma is not clear []. This family contains alpha and epsilon members.; GO: 0016012 sarcoglycan complex
Probab=31.25 E-value=54 Score=29.43 Aligned_cols=25 Identities=12% Similarity=0.388 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcccC
Q 027163 16 AVSIMFIVFVCTRLICARIHLNSSR 40 (227)
Q Consensus 16 ~~~~~~i~~~~~~~~~~r~~~~~~r 40 (227)
++++++++++...++|.++.+...|
T Consensus 293 l~i~llL~llLs~Imc~rREG~~~r 317 (386)
T PF05510_consen 293 LIIALLLLLLLSYIMCCRREGVKKR 317 (386)
T ss_pred HHHHHHHHHHHHHHheechHHhhcc
Confidence 3333444445555666665554433
No 240
>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=31.06 E-value=23 Score=27.48 Aligned_cols=42 Identities=24% Similarity=0.481 Sum_probs=24.7
Q ss_pred cccccccCCceeEEcCCCCCcccHhhHHHHHcCCCCCccccccCc
Q 027163 89 VCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQHSTCPVCRVSLR 133 (227)
Q Consensus 89 ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 133 (227)
||+.--...+....-|.=.+-||..|-..-+. .||.|..++.
T Consensus 9 iC~NGH~~t~~~~~~p~~~~~fC~kCG~~tI~---~Cp~C~~~Ir 50 (158)
T PF10083_consen 9 ICLNGHVITDSYDKNPELREKFCSKCGAKTIT---SCPNCSTPIR 50 (158)
T ss_pred HccCccccccccccCchHHHHHHHHhhHHHHH---HCcCCCCCCC
Confidence 56665443333333333445688888766433 4888888774
No 241
>PF15050 SCIMP: SCIMP protein
Probab=30.54 E-value=1.2e+02 Score=22.55 Aligned_cols=6 Identities=17% Similarity=0.462 Sum_probs=2.4
Q ss_pred HHHHHH
Q 027163 11 TVIGFA 16 (227)
Q Consensus 11 ~~i~~~ 16 (227)
++++++
T Consensus 10 iiLAVa 15 (133)
T PF15050_consen 10 IILAVA 15 (133)
T ss_pred HHHHHH
Confidence 334443
No 242
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=30.50 E-value=33 Score=23.45 Aligned_cols=34 Identities=24% Similarity=0.492 Sum_probs=22.5
Q ss_pred cccccccccccccCCceeEEcCCCCCcccHhhHHH
Q 027163 83 EDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDI 117 (227)
Q Consensus 83 ~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~ 117 (227)
....|.+|............ +.|.-.||..|...
T Consensus 35 ~~~~C~~C~~~~Ga~i~C~~-~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 35 RKLKCSICKKKGGACIGCSH-PGCSRSFHVPCARK 68 (90)
T ss_pred hCCCCcCCCCCCCeEEEEeC-CCCCcEEChHHHcc
Confidence 45689999977332223322 35899999999743
No 243
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=29.87 E-value=74 Score=28.58 Aligned_cols=25 Identities=8% Similarity=0.234 Sum_probs=11.1
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHH
Q 027163 4 SGMNLVMTVIGFAVSIMFIVFVCTR 28 (227)
Q Consensus 4 ~~~~l~~~~i~~~~~~~~i~~~~~~ 28 (227)
++++.+++.++++++++++++.+++
T Consensus 39 ~Sl~~lv~~~ii~lvv~~~l~~~l~ 63 (400)
T COG3071 39 MSLTTLVIFLIIALVVLYLLEWLLR 63 (400)
T ss_pred eeHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444444443
No 244
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=29.24 E-value=21 Score=37.50 Aligned_cols=50 Identities=30% Similarity=0.511 Sum_probs=37.6
Q ss_pred CcccccccccccccCCceeEEcCCCCCcccHhhHHHHHcCC----CCCccccccC
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLHQH----STCPVCRVSL 132 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~----~~CP~Cr~~~ 132 (227)
.....|.+|+........+... .|.-.||..|++.-+... -.||-||..-
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 4557899999988765544444 488889999999887653 3699998765
No 245
>PF07213 DAP10: DAP10 membrane protein; InterPro: IPR009861 This family consists of several mammalian DAP10 membrane proteins. In activated mouse natural killer (NK) cells, the NKG2D receptor associates with two intracellular adaptors, DAP10 and DAP12, which trigger phosphatidyl inositol 3 kinase (PI3K) and Syk family protein tyrosine kinases, respectively. It has been suggested that the DAP10-PI3K pathway is sufficient to initiate NKG2D-mediated killing of target cells [].
Probab=29.13 E-value=1e+02 Score=21.07 Aligned_cols=17 Identities=24% Similarity=0.389 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHhhh
Q 027163 20 MFIVFVCTRLICARIHL 36 (227)
Q Consensus 20 ~~i~~~~~~~~~~r~~~ 36 (227)
+-++++.+-|+|.|.++
T Consensus 46 lTLLIv~~vy~car~r~ 62 (79)
T PF07213_consen 46 LTLLIVLVVYYCARPRR 62 (79)
T ss_pred HHHHHHHHHHhhccccc
Confidence 33444555566766544
No 246
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=29.10 E-value=63 Score=24.10 Aligned_cols=8 Identities=38% Similarity=0.933 Sum_probs=3.2
Q ss_pred HHHHHHHH
Q 027163 12 VIGFAVSI 19 (227)
Q Consensus 12 ~i~~~~~~ 19 (227)
+++|++|+
T Consensus 3 ~i~lvvG~ 10 (128)
T PF06295_consen 3 IIGLVVGL 10 (128)
T ss_pred HHHHHHHH
Confidence 33444443
No 247
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=28.95 E-value=96 Score=23.96 Aligned_cols=13 Identities=15% Similarity=0.222 Sum_probs=8.8
Q ss_pred Ccccccccccccc
Q 027163 82 AEDTQCAVCLAEY 94 (227)
Q Consensus 82 ~~~~~C~ICl~~~ 94 (227)
..+...++|+-+-
T Consensus 95 Gg~LSFslAlLD~ 107 (151)
T PF14584_consen 95 GGDLSFSLALLDD 107 (151)
T ss_pred cccceeeeEEEeC
Confidence 4566788877663
No 248
>PF06676 DUF1178: Protein of unknown function (DUF1178); InterPro: IPR009562 This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown.
Probab=28.66 E-value=19 Score=27.79 Aligned_cols=21 Identities=38% Similarity=1.062 Sum_probs=14.5
Q ss_pred CCCcccHhhHHHHHcCC-----------CCCcccccc
Q 027163 106 CGHSFHATCIDIWLHQH-----------STCPVCRVS 131 (227)
Q Consensus 106 C~H~fh~~Ci~~wl~~~-----------~~CP~Cr~~ 131 (227)
++|.| +.||... -+||+|-..
T Consensus 10 ~gH~F-----EgWF~ss~~fd~Q~~~glv~CP~Cgs~ 41 (148)
T PF06676_consen 10 NGHEF-----EGWFRSSAAFDRQQARGLVSCPVCGST 41 (148)
T ss_pred CCCcc-----ceecCCHHHHHHHHHcCCccCCCCCCC
Confidence 56887 4698642 469999653
No 249
>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=28.54 E-value=39 Score=28.09 Aligned_cols=24 Identities=21% Similarity=0.598 Sum_probs=17.3
Q ss_pred cHhhHHHHHcCCCCCccccccCcc
Q 027163 111 HATCIDIWLHQHSTCPVCRVSLRE 134 (227)
Q Consensus 111 h~~Ci~~wl~~~~~CP~Cr~~~~~ 134 (227)
|..|...--+.-..||+|+..-..
T Consensus 197 C~sC~qqIHRNAPiCPlCK~KsRS 220 (230)
T PF10146_consen 197 CQSCHQQIHRNAPICPLCKAKSRS 220 (230)
T ss_pred hHhHHHHHhcCCCCCccccccccc
Confidence 566766655666889999987644
No 250
>PRK14762 membrane protein; Provisional
Probab=28.04 E-value=1e+02 Score=16.19 Aligned_cols=6 Identities=33% Similarity=0.490 Sum_probs=2.3
Q ss_pred HHHHHH
Q 027163 13 IGFAVS 18 (227)
Q Consensus 13 i~~~~~ 18 (227)
++|.++
T Consensus 10 iiflig 15 (27)
T PRK14762 10 IIFLIG 15 (27)
T ss_pred HHHHHH
Confidence 333333
No 251
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=27.97 E-value=39 Score=28.40 Aligned_cols=26 Identities=31% Similarity=0.557 Sum_probs=18.3
Q ss_pred cccccccccccCCceeEEcCCCCCccc
Q 027163 85 TQCAVCLAEYHGEDTLRILPYCGHSFH 111 (227)
Q Consensus 85 ~~C~ICl~~~~~~~~~~~l~~C~H~fh 111 (227)
..|++|...+.....-...+ .+|.|-
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~-~~h~fd 28 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICP-QNHQFD 28 (272)
T ss_pred ccCCCCCcchhcCCCEEEcC-CCCCCc
Confidence 47999999997555444444 689883
No 252
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=27.96 E-value=53 Score=23.30 Aligned_cols=35 Identities=17% Similarity=0.271 Sum_probs=27.2
Q ss_pred ccccccccccccCCceeEEcCCCCCcccHhhHHHHHc
Q 027163 84 DTQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLH 120 (227)
Q Consensus 84 ~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~ 120 (227)
...|.||-+.+..++.....+ .-..|++|+..=..
T Consensus 6 ewkC~VCg~~iieGqkFTF~~--kGsVH~eCl~~s~~ 40 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFTK--KGSVHYECLAESKR 40 (103)
T ss_pred eeeEeeeCCEeeeccEEEEee--CCcchHHHHHHHHh
Confidence 457999999999998877665 44689999976433
No 253
>PRK05978 hypothetical protein; Provisional
Probab=27.66 E-value=37 Score=26.22 Aligned_cols=23 Identities=17% Similarity=0.476 Sum_probs=18.4
Q ss_pred CcccHhhHHHHHcCCCCCccccccCccC
Q 027163 108 HSFHATCIDIWLHQHSTCPVCRVSLREL 135 (227)
Q Consensus 108 H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 135 (227)
+.|+ .+++.+..||.|-.++...
T Consensus 43 ~LF~-----g~Lkv~~~C~~CG~~~~~~ 65 (148)
T PRK05978 43 KLFR-----AFLKPVDHCAACGEDFTHH 65 (148)
T ss_pred cccc-----cccccCCCccccCCccccC
Confidence 6675 6788899999999888654
No 254
>PRK04598 tatA twin arginine translocase protein A; Provisional
Probab=27.48 E-value=74 Score=21.92 Aligned_cols=8 Identities=13% Similarity=-0.159 Sum_probs=3.5
Q ss_pred CCcchhHH
Q 027163 1 MISSGMNL 8 (227)
Q Consensus 1 ~~~~~~~l 8 (227)
|.+.|+.-
T Consensus 1 m~glg~~e 8 (81)
T PRK04598 1 MGGISIWQ 8 (81)
T ss_pred CCCccHHH
Confidence 33444443
No 255
>PF00430 ATP-synt_B: ATP synthase B/B' CF(0); InterPro: IPR002146 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunits B and B' from the F0 complex in F-ATPases found in chloroplasts and in bacterial plasma membranes. The B subunits are part of the peripheral stalk that links the F1 and F0 complexes together, and which acts as a stator to prevent certain subunits from rotating with the central rotary element. The peripheral stalk differs in subunit composition between mitochondrial, chloroplast and bacterial F-ATPases. In bacterial and chloroplast F-ATPases, the peripheral stalk is composed of one copy of the delta subunit (homologous to OSCP in mitochondria), and two copies of subunit B in bacteria, or one copy each of subunits B and B' in chloroplasts and photosynthetic bacteria []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0045263 proton-transporting ATP synthase complex, coupling factor F(o); PDB: 1L2P_A 2KHK_A 1B9U_A.
Probab=27.47 E-value=98 Score=22.52 Aligned_cols=10 Identities=10% Similarity=0.484 Sum_probs=3.7
Q ss_pred HHHHHHHHHH
Q 027163 23 VFVCTRLICA 32 (227)
Q Consensus 23 ~~~~~~~~~~ 32 (227)
+|++.++++.
T Consensus 13 ~~~l~~~~~~ 22 (132)
T PF00430_consen 13 FFLLNKFLYK 22 (132)
T ss_dssp HHHHHHHTHH
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 256
>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=27.32 E-value=29 Score=33.07 Aligned_cols=6 Identities=17% Similarity=0.219 Sum_probs=2.3
Q ss_pred HHHHHH
Q 027163 7 NLVMTV 12 (227)
Q Consensus 7 ~l~~~~ 12 (227)
|||+.+
T Consensus 270 WII~gV 275 (684)
T PF12877_consen 270 WIIAGV 275 (684)
T ss_pred EEEehH
Confidence 343333
No 257
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=27.27 E-value=46 Score=27.56 Aligned_cols=25 Identities=20% Similarity=0.562 Sum_probs=17.6
Q ss_pred ccHhhHHHHHcCCCCCccccccCcc
Q 027163 110 FHATCIDIWLHQHSTCPVCRVSLRE 134 (227)
Q Consensus 110 fh~~Ci~~wl~~~~~CP~Cr~~~~~ 134 (227)
.|..|...--+....||+|+..-..
T Consensus 251 ~ClsChqqIHRNAPiCPlCKaKsRS 275 (286)
T KOG4451|consen 251 VCLSCHQQIHRNAPICPLCKAKSRS 275 (286)
T ss_pred HHHHHHHHHhcCCCCCcchhhcccc
Confidence 3566666655667889999887644
No 258
>PRK07353 F0F1 ATP synthase subunit B'; Validated
Probab=27.25 E-value=1e+02 Score=22.98 Aligned_cols=16 Identities=13% Similarity=0.295 Sum_probs=6.9
Q ss_pred CcchhHHHHHHHHHHH
Q 027163 2 ISSGMNLVMTVIGFAV 17 (227)
Q Consensus 2 ~~~~~~l~~~~i~~~~ 17 (227)
+..-.++++.++.|++
T Consensus 2 ~~~~~t~~~~~i~fli 17 (140)
T PRK07353 2 FDFDATLPLMAVQFVL 17 (140)
T ss_pred cccchhHHHHHHHHHH
Confidence 3334444444444443
No 259
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=26.61 E-value=11 Score=19.29 Aligned_cols=7 Identities=43% Similarity=1.198 Sum_probs=3.1
Q ss_pred CCccccc
Q 027163 124 TCPVCRV 130 (227)
Q Consensus 124 ~CP~Cr~ 130 (227)
.||.|-.
T Consensus 15 fC~~CG~ 21 (23)
T PF13240_consen 15 FCPNCGT 21 (23)
T ss_pred chhhhCC
Confidence 3555433
No 260
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=26.34 E-value=13 Score=31.95 Aligned_cols=34 Identities=24% Similarity=0.488 Sum_probs=16.4
Q ss_pred ccccccccccCCceeEEcCCCCCcccHhhHHHHHc
Q 027163 86 QCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLH 120 (227)
Q Consensus 86 ~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~ 120 (227)
.|.+|+++|..+....... |.-+||..|+-.|+.
T Consensus 216 vC~~CF~el~~~~~~~~~~-~~~~~~~~~~~~~~~ 249 (288)
T KOG1729|consen 216 VCDICFEELEKGARGDRED-SLPVFHGKCYPNWLT 249 (288)
T ss_pred ecHHHHHHHhcccccchhh-ccccccccccccccc
Confidence 5666666554332222222 444555555555544
No 261
>PF07069 PRRSV_2b: Porcine reproductive and respiratory syndrome virus 2b ; InterPro: IPR009775 This family consists of several Porcine reproductive and respiratory syndrome virus (PRRSV) ORF2b proteins. The function of this family is unknown however it is known that large amounts of 2b protein are present in the virion and it is thought that this protein may be an integral component of the virion [].
Probab=26.17 E-value=1.9e+02 Score=18.73 Aligned_cols=11 Identities=45% Similarity=1.159 Sum_probs=5.8
Q ss_pred HHHHHHHHHHH
Q 027163 23 VFVCTRLICAR 33 (227)
Q Consensus 23 ~~~~~~~~~~r 33 (227)
+.+|+++.|.-
T Consensus 46 vvfcirlv~sa 56 (73)
T PF07069_consen 46 VVFCIRLVCSA 56 (73)
T ss_pred HHHHHHHHHHH
Confidence 34455666654
No 262
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=26.01 E-value=40 Score=24.03 Aligned_cols=33 Identities=24% Similarity=0.573 Sum_probs=21.4
Q ss_pred cccccccccccccCCceeEE-cCCCCCcccHhhHHH
Q 027163 83 EDTQCAVCLAEYHGEDTLRI-LPYCGHSFHATCIDI 117 (227)
Q Consensus 83 ~~~~C~ICl~~~~~~~~~~~-l~~C~H~fh~~Ci~~ 117 (227)
....|.||.... +..+.- -+.|...||..|...
T Consensus 54 ~~~~C~iC~~~~--G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 54 FKLKCSICGKSG--GACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred cCCcCcCCCCCC--ceeEEcCCCCCCcCCCHHHHHH
Confidence 356899999873 322211 113778999999755
No 263
>PLN02248 cellulose synthase-like protein
Probab=25.92 E-value=78 Score=32.38 Aligned_cols=52 Identities=23% Similarity=0.535 Sum_probs=34.5
Q ss_pred ccccccc--cccccc-CCceeEEcC-CCCCcccHhhHHHHHcCCCCCccccccCcc
Q 027163 83 EDTQCAV--CLAEYH-GEDTLRILP-YCGHSFHATCIDIWLHQHSTCPVCRVSLRE 134 (227)
Q Consensus 83 ~~~~C~I--Cl~~~~-~~~~~~~l~-~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 134 (227)
....|++ |-.... +.....++| .|++..|.+|...-+.....||-|+.++..
T Consensus 123 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 178 (1135)
T PLN02248 123 KGSSCAMPGCDGKVMRDERGEDLLPCECGFKICRDCYIDAVKSGGICPGCKEPYKV 178 (1135)
T ss_pred CCCcccccCcccccccccccccCCcccccchhHHhHhhhhhhcCCCCCCCcccccc
Confidence 4466775 544322 111222333 477889999998888888899999998743
No 264
>PF13994 PgaD: PgaD-like protein
Probab=25.69 E-value=2.8e+02 Score=20.78 Aligned_cols=10 Identities=20% Similarity=0.571 Sum_probs=5.0
Q ss_pred CCCHHHHhhC
Q 027163 60 GVEPVVVANF 69 (227)
Q Consensus 60 ~l~~~~~~~l 69 (227)
+++++.++.+
T Consensus 111 ~l~~~~l~~l 120 (138)
T PF13994_consen 111 GLSPEQLQQL 120 (138)
T ss_pred CCCHHHHHHH
Confidence 4555555544
No 265
>KOG1025 consensus Epidermal growth factor receptor EGFR and related tyrosine kinases [Signal transduction mechanisms]
Probab=25.61 E-value=77 Score=31.75 Aligned_cols=27 Identities=22% Similarity=0.435 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027163 7 NLVMTVIGFAVSIMFIVFVCTRLICAR 33 (227)
Q Consensus 7 ~l~~~~i~~~~~~~~i~~~~~~~~~~r 33 (227)
++++++++..+.+++.++.+..++|+|
T Consensus 629 ~~~~~viG~~Ll~~~~~~~~~~~~~~r 655 (1177)
T KOG1025|consen 629 ATAIAVIGGLLLAFFVFLGFSLYMCRR 655 (1177)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence 555556665555555555555555554
No 266
>PRK14859 tatA twin arginine translocase protein A; Provisional
Probab=25.17 E-value=86 Score=20.45 Aligned_cols=9 Identities=33% Similarity=0.479 Sum_probs=4.0
Q ss_pred CCcchhHHH
Q 027163 1 MISSGMNLV 9 (227)
Q Consensus 1 ~~~~~~~l~ 9 (227)
|++.|+.=+
T Consensus 1 MfgiG~~El 9 (63)
T PRK14859 1 MFGIGMPEL 9 (63)
T ss_pred CCCccHHHH
Confidence 444444433
No 267
>PRK01741 cell division protein ZipA; Provisional
Probab=24.96 E-value=97 Score=27.19 Aligned_cols=23 Identities=9% Similarity=0.296 Sum_probs=13.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Q 027163 6 MNLVMTVIGFAVSIMFIVFVCTR 28 (227)
Q Consensus 6 ~~l~~~~i~~~~~~~~i~~~~~~ 28 (227)
++.|++|+|++.+++++.+-+|.
T Consensus 3 Ln~iliILg~lal~~Lv~hgiWs 25 (332)
T PRK01741 3 LNTILIILGILALVALVAHGIWS 25 (332)
T ss_pred ceehHHHHHHHHHHHHHHhhhhh
Confidence 45566666666655555554443
No 268
>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=24.65 E-value=41 Score=32.10 Aligned_cols=22 Identities=14% Similarity=0.368 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 027163 10 MTVIGFAVSIMFIVFVCTRLIC 31 (227)
Q Consensus 10 ~~~i~~~~~~~~i~~~~~~~~~ 31 (227)
.+++++++.+++++++++.++|
T Consensus 270 WII~gVlvPv~vV~~Iiiil~~ 291 (684)
T PF12877_consen 270 WIIAGVLVPVLVVLLIIIILYW 291 (684)
T ss_pred EEEehHhHHHHHHHHHHHHHHH
Confidence 3455555555544444444433
No 269
>PF15069 FAM163: FAM163 family
Probab=24.38 E-value=1.2e+02 Score=23.25 Aligned_cols=7 Identities=57% Similarity=1.497 Sum_probs=5.1
Q ss_pred CCCCccc
Q 027163 122 HSTCPVC 128 (227)
Q Consensus 122 ~~~CP~C 128 (227)
+..||.|
T Consensus 91 ~~~CptC 97 (143)
T PF15069_consen 91 RSYCPTC 97 (143)
T ss_pred CCcCCCC
Confidence 4568888
No 270
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=24.07 E-value=1.3e+02 Score=23.69 Aligned_cols=10 Identities=40% Similarity=0.494 Sum_probs=3.7
Q ss_pred HHHHHHHHHH
Q 027163 23 VFVCTRLICA 32 (227)
Q Consensus 23 ~~~~~~~~~~ 32 (227)
+|++.++++.
T Consensus 45 ~~ll~k~l~~ 54 (181)
T PRK13454 45 YFVLTRVALP 54 (181)
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 271
>PRK00720 tatA twin arginine translocase protein A; Provisional
Probab=23.90 E-value=94 Score=21.23 Aligned_cols=8 Identities=25% Similarity=-0.138 Sum_probs=3.4
Q ss_pred CCcchhHH
Q 027163 1 MISSGMNL 8 (227)
Q Consensus 1 ~~~~~~~l 8 (227)
|.+.|.+-
T Consensus 1 Mgg~g~~e 8 (78)
T PRK00720 1 MGSFSIWH 8 (78)
T ss_pred CCCCcHHH
Confidence 33444443
No 272
>KOG4482 consensus Sarcoglycan complex, alpha/epsilon subunits [Function unknown]
Probab=23.88 E-value=1.4e+02 Score=26.71 Aligned_cols=19 Identities=21% Similarity=0.471 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHhhhcccC
Q 027163 22 IVFVCTRLICARIHLNSSR 40 (227)
Q Consensus 22 i~~~~~~~~~~r~~~~~~r 40 (227)
++++...++|.|+.+...|
T Consensus 311 l~~~La~imc~rrEg~~~r 329 (449)
T KOG4482|consen 311 LVLALAYIMCCRREGQKKR 329 (449)
T ss_pred HHHHHHHHHhhhhhccccc
Confidence 3444455566665554444
No 273
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=23.79 E-value=42 Score=31.65 Aligned_cols=35 Identities=20% Similarity=0.634 Sum_probs=23.6
Q ss_pred CcccccccccccccC-----------CceeEEcCCCCCcccHhhHHHH
Q 027163 82 AEDTQCAVCLAEYHG-----------EDTLRILPYCGHSFHATCIDIW 118 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~-----------~~~~~~l~~C~H~fh~~Ci~~w 118 (227)
+....|+||.+.|+. .+.|.+ . =|-+||..|+..-
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~l-e-~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYL-E-FGRIFHSKCLSEK 556 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeee-c-cCceeeccccchH
Confidence 456789999999853 122222 1 4789999998653
No 274
>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=23.73 E-value=61 Score=27.52 Aligned_cols=44 Identities=16% Similarity=0.280 Sum_probs=25.2
Q ss_pred cccccccccccccCCceeEEcCCCCC-cccHhhHHHHH-cCCCCCc
Q 027163 83 EDTQCAVCLAEYHGEDTLRILPYCGH-SFHATCIDIWL-HQHSTCP 126 (227)
Q Consensus 83 ~~~~C~ICl~~~~~~~~~~~l~~C~H-~fh~~Ci~~wl-~~~~~CP 126 (227)
.-..|.||++....+..-.-|..-+- .=|++|+.+|- ..+..||
T Consensus 29 tLsfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~p 74 (285)
T PF06937_consen 29 TLSFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCP 74 (285)
T ss_pred ceeecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCC
Confidence 34568888876544322111111111 34799999994 5677898
No 275
>TIGR03038 PS_II_psbM photosystem II reaction center protein PsbM. Members of this protein family are the photosystem II reaction center M protein, product of the psbM gene, in Cyanobacteria and their derived organelles in plants. This model resembles Pfam model pfam05151 but has cutoffs set to avoid false-positive matches to similar (not necessarily homologous) sequences in species that are not photosynthetic.
Probab=23.70 E-value=1.5e+02 Score=16.69 Aligned_cols=6 Identities=17% Similarity=0.069 Sum_probs=2.2
Q ss_pred HHHHHH
Q 027163 13 IGFAVS 18 (227)
Q Consensus 13 i~~~~~ 18 (227)
+++.+.
T Consensus 13 Lfi~iP 18 (33)
T TIGR03038 13 LFILVP 18 (33)
T ss_pred HHHHHH
Confidence 333333
No 276
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.68 E-value=54 Score=31.61 Aligned_cols=46 Identities=33% Similarity=0.657 Sum_probs=31.5
Q ss_pred ccccccccccCCceeEEcCCCCC-cccHhhHHHHH--cC----CCCCccccccCccC
Q 027163 86 QCAVCLAEYHGEDTLRILPYCGH-SFHATCIDIWL--HQ----HSTCPVCRVSLREL 135 (227)
Q Consensus 86 ~C~ICl~~~~~~~~~~~l~~C~H-~fh~~Ci~~wl--~~----~~~CP~Cr~~~~~~ 135 (227)
.|+||-... +... ...|+| ..|..|..... .. ...||+||..+...
T Consensus 2 ~c~ic~~s~---~~~~-~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~~ 54 (669)
T KOG2231|consen 2 SCAICAFSP---DFVG-RGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVETK 54 (669)
T ss_pred CcceeecCc---cccc-cccccccccchhhhhhhhhhcccccccccCcccccceeee
Confidence 589998774 2233 336999 89999987653 23 34589999977543
No 277
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=23.65 E-value=75 Score=22.86 Aligned_cols=34 Identities=12% Similarity=0.177 Sum_probs=26.0
Q ss_pred cccccccccccCCceeEEcCCCCCcccHhhHHHHHc
Q 027163 85 TQCAVCLAEYHGEDTLRILPYCGHSFHATCIDIWLH 120 (227)
Q Consensus 85 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~ 120 (227)
-.|.||-.++..++....+.+ -..|+.|+..=..
T Consensus 3 WkC~iCg~~I~~gqlFTF~~k--G~VH~~C~~~~~~ 36 (101)
T PF09943_consen 3 WKCYICGKPIYEGQLFTFTKK--GPVHYECFREKAS 36 (101)
T ss_pred eEEEecCCeeeecceEEEecC--CcEeHHHHHHHHh
Confidence 369999999988887766653 5689999976443
No 278
>PRK01833 tatA twin arginine translocase protein A; Provisional
Probab=23.43 E-value=99 Score=20.89 Aligned_cols=9 Identities=11% Similarity=-0.075 Sum_probs=3.9
Q ss_pred CCcchhHHH
Q 027163 1 MISSGMNLV 9 (227)
Q Consensus 1 ~~~~~~~l~ 9 (227)
|.+.|..=+
T Consensus 1 m~g~g~~el 9 (74)
T PRK01833 1 MGGISIWQL 9 (74)
T ss_pred CCCccHHHH
Confidence 344444433
No 279
>PRK11827 hypothetical protein; Provisional
Probab=23.36 E-value=25 Score=22.79 Aligned_cols=18 Identities=33% Similarity=0.508 Sum_probs=12.9
Q ss_pred HHHcCCCCCccccccCcc
Q 027163 117 IWLHQHSTCPVCRVSLRE 134 (227)
Q Consensus 117 ~wl~~~~~CP~Cr~~~~~ 134 (227)
+||..--.||.|+.++..
T Consensus 3 ~~LLeILaCP~ckg~L~~ 20 (60)
T PRK11827 3 HRLLEIIACPVCNGKLWY 20 (60)
T ss_pred hHHHhheECCCCCCcCeE
Confidence 455555679999888754
No 280
>PRK04023 DNA polymerase II large subunit; Validated
Probab=23.27 E-value=67 Score=32.50 Aligned_cols=66 Identities=20% Similarity=0.400 Sum_probs=40.0
Q ss_pred CcccccccccccccCCceeEEcCCCCC-----cccHhhHHHHHcCCCCCccccccCccCchhhccchhhhhhhhhcC
Q 027163 82 AEDTQCAVCLAEYHGEDTLRILPYCGH-----SFHATCIDIWLHQHSTCPVCRVSLRELPERKRLMQPIFSSAIRSH 153 (227)
Q Consensus 82 ~~~~~C~ICl~~~~~~~~~~~l~~C~H-----~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~~ 153 (227)
.....|+-|=... .....|.||. .||..|- +......||-|.................+..+..+.
T Consensus 624 Vg~RfCpsCG~~t----~~frCP~CG~~Te~i~fCP~CG--~~~~~y~CPKCG~El~~~s~~~i~l~~~~~~A~~~l 694 (1121)
T PRK04023 624 IGRRKCPSCGKET----FYRRCPFCGTHTEPVYRCPRCG--IEVEEDECEKCGREPTPYSKRKIDLKELYDRALENL 694 (1121)
T ss_pred ccCccCCCCCCcC----CcccCCCCCCCCCcceeCcccc--CcCCCCcCCCCCCCCCccceEEecHHHHHHHHHHHh
Confidence 3445788887764 2234556873 5999993 334456799998888765544443444444444443
No 281
>PHA02898 virion envelope protein; Provisional
Probab=23.26 E-value=1.2e+02 Score=21.24 Aligned_cols=10 Identities=30% Similarity=0.836 Sum_probs=4.1
Q ss_pred HHHHHHHHHH
Q 027163 12 VIGFAVSIMF 21 (227)
Q Consensus 12 ~i~~~~~~~~ 21 (227)
+++|++++++
T Consensus 49 ii~FIlgivl 58 (92)
T PHA02898 49 IISFILAIIL 58 (92)
T ss_pred HHHHHHHHHH
Confidence 3444444433
No 282
>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=23.02 E-value=23 Score=30.72 Aligned_cols=46 Identities=17% Similarity=0.267 Sum_probs=27.9
Q ss_pred ccccccccccccCCceeEEc---CCCCCcccHhhHHHHHcCCCCCccccc
Q 027163 84 DTQCAVCLAEYHGEDTLRIL---PYCGHSFHATCIDIWLHQHSTCPVCRV 130 (227)
Q Consensus 84 ~~~C~ICl~~~~~~~~~~~l---~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 130 (227)
...|+||-..-... .++.. ..=.|.+|..|-..|-..+..||.|-.
T Consensus 184 ~~~CPvCGs~P~~s-~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 184 RTLCPACGSPPVAS-MVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CCcCCCCCChhhhh-hhcccCCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 45899998762111 01110 012245566677889878888999965
No 283
>PF15048 OSTbeta: Organic solute transporter subunit beta protein
Probab=22.92 E-value=1.6e+02 Score=21.96 Aligned_cols=15 Identities=20% Similarity=0.452 Sum_probs=7.1
Q ss_pred hHHHHHHHHHHHHHH
Q 027163 6 MNLVMTVIGFAVSIM 20 (227)
Q Consensus 6 ~~l~~~~i~~~~~~~ 20 (227)
-+..+++++++++++
T Consensus 35 WNysiL~Ls~vvlvi 49 (125)
T PF15048_consen 35 WNYSILALSFVVLVI 49 (125)
T ss_pred cchHHHHHHHHHHHH
Confidence 344555555554433
No 284
>PF05151 PsbM: Photosystem II reaction centre M protein (PsbM); InterPro: IPR007826 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbM found in PSII. PsbM is one of the most hydrophobic proteins in the thylakoid membrane. The function of this protein is unknown.; GO: 0015979 photosynthesis, 0019684 photosynthesis, light reaction, 0009523 photosystem II, 0016021 integral to membrane; PDB: 3A0H_m 3ARC_m 3A0B_M 3PRR_M 3PRQ_M 1S5L_M 4FBY_e 3BZ2_M 3BZ1_M 2AXT_M ....
Probab=22.90 E-value=1.5e+02 Score=16.44 Aligned_cols=12 Identities=17% Similarity=0.238 Sum_probs=4.6
Q ss_pred HHHHHHHHHHHH
Q 027163 10 MTVIGFAVSIMF 21 (227)
Q Consensus 10 ~~~i~~~~~~~~ 21 (227)
.+++++.+...|
T Consensus 10 AtaLfi~iPt~F 21 (31)
T PF05151_consen 10 ATALFILIPTAF 21 (31)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 333333433333
No 285
>PF11980 DUF3481: Domain of unknown function (DUF3481); InterPro: IPR022579 This domain of unknown function is located in the C terminus of the eukaryotic neuropilin receptor family of proteins. It is found in association with PF00754 from PFAM, PF00431 from PFAM and PF00629 from PFAM. There are two completely conserved residues (Y and E) that may be functionally important.
Probab=22.81 E-value=1e+02 Score=21.33 Aligned_cols=15 Identities=33% Similarity=0.558 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHhhhc
Q 027163 23 VFVCTRLICARIHLN 37 (227)
Q Consensus 23 ~~~~~~~~~~r~~~~ 37 (227)
+.+.+.++|.|.+..
T Consensus 32 v~l~vvL~C~r~~~a 46 (87)
T PF11980_consen 32 VCLGVVLYCHRFHWA 46 (87)
T ss_pred HHHHHHHhhhhhccc
Confidence 333455667776654
No 286
>PF15168 TRIQK: Triple QxxK/R motif-containing protein family
Probab=22.77 E-value=2e+02 Score=19.55 Aligned_cols=17 Identities=18% Similarity=0.403 Sum_probs=6.5
Q ss_pred hhHHHHHHHHHHHHHHH
Q 027163 5 GMNLVMTVIGFAVSIMF 21 (227)
Q Consensus 5 ~~~l~~~~i~~~~~~~~ 21 (227)
|+-=+.+++..++.+++
T Consensus 47 gikev~l~l~ail~lL~ 63 (79)
T PF15168_consen 47 GIKEVALVLAAILVLLL 63 (79)
T ss_pred hhHHHHHHHHHHHHHHH
Confidence 33333444433333333
No 287
>PHA02650 hypothetical protein; Provisional
Probab=22.75 E-value=2.3e+02 Score=19.35 Aligned_cols=13 Identities=8% Similarity=0.291 Sum_probs=5.9
Q ss_pred HHHHHHHHHHHHH
Q 027163 18 SIMFIVFVCTRLI 30 (227)
Q Consensus 18 ~~~~i~~~~~~~~ 30 (227)
.++++++++..|+
T Consensus 58 ~v~i~~l~~flYL 70 (81)
T PHA02650 58 SLIIVALFSFFVF 70 (81)
T ss_pred HHHHHHHHHHHHH
Confidence 3344455554443
No 288
>KOG1094 consensus Discoidin domain receptor DDR1 [Signal transduction mechanisms]
Probab=22.51 E-value=1.1e+02 Score=29.40 Aligned_cols=22 Identities=27% Similarity=0.215 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhhc
Q 027163 16 AVSIMFIVFVCTRLICARIHLN 37 (227)
Q Consensus 16 ~~~~~~i~~~~~~~~~~r~~~~ 37 (227)
.+.+++++.+++.++.+|.++.
T Consensus 397 f~~if~iva~ii~~~L~R~rr~ 418 (807)
T KOG1094|consen 397 FVAIFLIVALIIALMLWRWRRL 418 (807)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444554443
No 289
>PRK14860 tatA twin arginine translocase protein A; Provisional
Probab=22.25 E-value=89 Score=20.46 Aligned_cols=9 Identities=33% Similarity=0.442 Sum_probs=4.2
Q ss_pred CCcchhHHH
Q 027163 1 MISSGMNLV 9 (227)
Q Consensus 1 ~~~~~~~l~ 9 (227)
|++.|..=+
T Consensus 1 MfgiG~~El 9 (64)
T PRK14860 1 MFGFGMPEL 9 (64)
T ss_pred CCCccHHHH
Confidence 455554433
No 290
>PF12292 DUF3624: Protein of unknown function (DUF3624); InterPro: IPR022072 This family of proteins is found in bacteria. Proteins in this family are approximately 90 amino acids in length. There is a conserved GRC sequence motif.
Probab=22.24 E-value=2.4e+02 Score=19.17 Aligned_cols=22 Identities=14% Similarity=0.270 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 027163 7 NLVMTVIGFAVSIMFIVFVCTR 28 (227)
Q Consensus 7 ~l~~~~i~~~~~~~~i~~~~~~ 28 (227)
++.++..++++..++++.+++.
T Consensus 49 SIALl~~~~AfsgLL~lHLvv~ 70 (77)
T PF12292_consen 49 SIALLFFCFAFSGLLFLHLVVF 70 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3444445555555555555433
No 291
>PF11014 DUF2852: Protein of unknown function (DUF2852); InterPro: IPR021273 This bacterial family of proteins has no known function.
Probab=22.24 E-value=2.4e+02 Score=20.75 Aligned_cols=16 Identities=25% Similarity=0.254 Sum_probs=10.0
Q ss_pred cchhHHHHHHHHHHHH
Q 027163 3 SSGMNLVMTVIGFAVS 18 (227)
Q Consensus 3 ~~~~~l~~~~i~~~~~ 18 (227)
|.+.+|.+.|++|++-
T Consensus 7 ~~~a~Ia~mVlGFi~f 22 (115)
T PF11014_consen 7 WKPAWIAAMVLGFIVF 22 (115)
T ss_pred CchHHHHHHHHHHHHH
Confidence 4456677777776653
No 292
>PF11057 Cortexin: Cortexin of kidney; InterPro: IPR020066 Cortexin is a neuron-specific, 82-residue membrane protein which is found especially in vertebrate brain cortex tissue. It may mediate extracellular or intracellular signalling of cortical neurons during forebrain development. Cortexin is present at significant levels in the foetal brain, suggesting that it may be important to neurons of both the developing and adult cerebral cortex. Cortexin has a conserved single membrane-spanning region in the middle of each sequence []. In humans, there is selective expression of Cortexin 3 (CTXN3) in the kidney as well as the brain []. This entry contains Cortexins 1, 2 and 3.; GO: 0031224 intrinsic to membrane
Probab=22.00 E-value=1.1e+02 Score=20.75 Aligned_cols=8 Identities=50% Similarity=0.808 Sum_probs=3.5
Q ss_pred HHHHHhhh
Q 027163 29 LICARIHL 36 (227)
Q Consensus 29 ~~~~r~~~ 36 (227)
..|.|+-.
T Consensus 46 VRCfrIll 53 (81)
T PF11057_consen 46 VRCFRILL 53 (81)
T ss_pred HHHHHHHc
Confidence 34445433
No 293
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=21.92 E-value=49 Score=28.43 Aligned_cols=33 Identities=21% Similarity=0.466 Sum_probs=24.9
Q ss_pred cccccccccccccCCceeEEcCCCCCcccHhhHH
Q 027163 83 EDTQCAVCLAEYHGEDTLRILPYCGHSFHATCID 116 (227)
Q Consensus 83 ~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~ 116 (227)
+-..|.||+......+.+..-- |..-||.-|+.
T Consensus 313 ~C~lC~IC~~P~~E~E~~FCD~-CDRG~HT~CVG 345 (381)
T KOG1512|consen 313 SCELCRICLGPVIESEHLFCDV-CDRGPHTLCVG 345 (381)
T ss_pred ccHhhhccCCcccchheecccc-ccCCCCccccc
Confidence 4567999999887776665554 88888888874
No 294
>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=21.73 E-value=1e+02 Score=19.83 Aligned_cols=33 Identities=15% Similarity=0.349 Sum_probs=21.1
Q ss_pred ccccccccccccC--CceeEEcCCCCCcccHhhHH
Q 027163 84 DTQCAVCLAEYHG--EDTLRILPYCGHSFHATCID 116 (227)
Q Consensus 84 ~~~C~ICl~~~~~--~~~~~~l~~C~H~fh~~Ci~ 116 (227)
...|+.|-..... .......+.||+.+|.+-..
T Consensus 28 Sq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~na 62 (69)
T PF07282_consen 28 SQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVNA 62 (69)
T ss_pred ccCccCcccccccccccceEEcCCCCCEECcHHHH
Confidence 4579988877665 33445555677777765543
No 295
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=21.69 E-value=42 Score=29.21 Aligned_cols=46 Identities=11% Similarity=0.203 Sum_probs=30.3
Q ss_pred cccccccccccccCCceeEEcCCCCC-cccHhhHHHH-HcCCCCCccccccC
Q 027163 83 EDTQCAVCLAEYHGEDTLRILPYCGH-SFHATCIDIW-LHQHSTCPVCRVSL 132 (227)
Q Consensus 83 ~~~~C~ICl~~~~~~~~~~~l~~C~H-~fh~~Ci~~w-l~~~~~CP~Cr~~~ 132 (227)
....|.+|.+. ..+..+-.|+| +|+..|.-.- +++...|++|-..+
T Consensus 135 ~ti~~iqq~tn----t~I~T~v~~~~~Vf~Vtg~~~nC~kra~s~eie~ta~ 182 (394)
T KOG2113|consen 135 ATIKRIQQFTN----TYIATPVRCGEPVFCVTGAPKNCVKRARSCEIEQTAV 182 (394)
T ss_pred Cccchheeccc----ceEeeeccCCCceEEEecCCcchhhhccccchhhhhh
Confidence 34568888765 33333335998 7998886443 56677899997644
No 296
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=21.67 E-value=46 Score=28.98 Aligned_cols=47 Identities=17% Similarity=0.306 Sum_probs=28.9
Q ss_pred cccccccccccccCCceeEE--cCCCCCcccHhhHHHHHcCCCCCccccc
Q 027163 83 EDTQCAVCLAEYHGEDTLRI--LPYCGHSFHATCIDIWLHQHSTCPVCRV 130 (227)
Q Consensus 83 ~~~~C~ICl~~~~~~~~~~~--l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 130 (227)
....|++|-..-... .++. ...=.|.+|..|-..|-..+..||.|-.
T Consensus 186 ~~~~CPvCGs~P~~s-~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSS-VVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhh-eeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 457899998762111 0100 0012345666788889888888999964
No 297
>PF15122 TMEM206: TMEM206 protein family
Probab=21.65 E-value=1.5e+02 Score=24.91 Aligned_cols=12 Identities=25% Similarity=0.730 Sum_probs=8.1
Q ss_pred eEEcCCCCCcccH
Q 027163 100 LRILPYCGHSFHA 112 (227)
Q Consensus 100 ~~~l~~C~H~fh~ 112 (227)
...+. |.|.||.
T Consensus 70 a~lls-Ckhhyyd 81 (298)
T PF15122_consen 70 AQLLS-CKHHYYD 81 (298)
T ss_pred chhcc-ccccccc
Confidence 34554 9998875
No 298
>PHA03048 IMV membrane protein; Provisional
Probab=21.64 E-value=1.1e+02 Score=21.48 Aligned_cols=24 Identities=17% Similarity=0.391 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 027163 8 LVMTVIGFAVSIMFIVFVCTRLIC 31 (227)
Q Consensus 8 l~~~~i~~~~~~~~i~~~~~~~~~ 31 (227)
++-+++++++.+-+++|-.+..+|
T Consensus 48 ii~FIlgivl~lG~~ifsmy~r~C 71 (93)
T PHA03048 48 GIAFVLGIVMTIGMLIYSMWGRYC 71 (93)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccc
Confidence 333333333333333333333333
No 299
>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=21.51 E-value=31 Score=29.71 Aligned_cols=12 Identities=17% Similarity=0.227 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHH
Q 027163 22 IVFVCTRLICAR 33 (227)
Q Consensus 22 i~~~~~~~~~~r 33 (227)
.+++|++|..+|
T Consensus 163 ~iIa~icyrrkR 174 (290)
T PF05454_consen 163 GIIACICYRRKR 174 (290)
T ss_dssp ------------
T ss_pred HHHHHHhhhhhh
Confidence 344444555555
No 300
>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=21.28 E-value=75 Score=26.17 Aligned_cols=13 Identities=8% Similarity=0.503 Sum_probs=5.5
Q ss_pred hHHHHHHHHHHHH
Q 027163 6 MNLVMTVIGFAVS 18 (227)
Q Consensus 6 ~~l~~~~i~~~~~ 18 (227)
+|+.|+|+.++|+
T Consensus 16 LNiaI~IV~lLIi 28 (217)
T PF07423_consen 16 LNIAIGIVSLLII 28 (217)
T ss_pred HHHHHHHHHHHHH
Confidence 3444444443333
No 301
>PF15298 AJAP1_PANP_C: AJAP1/PANP C-terminus
Probab=21.28 E-value=89 Score=25.31 Aligned_cols=15 Identities=20% Similarity=0.301 Sum_probs=6.1
Q ss_pred HHHHHHHHHHHHHHH
Q 027163 18 SIMFIVFVCTRLICA 32 (227)
Q Consensus 18 ~~~~i~~~~~~~~~~ 32 (227)
++++|.-+++++.|.
T Consensus 112 iaAliTtlvlK~C~~ 126 (205)
T PF15298_consen 112 IAALITTLVLKNCCA 126 (205)
T ss_pred HHHhhhhhhhhhhhh
Confidence 333344444444333
No 302
>COG0711 AtpF F0F1-type ATP synthase, subunit b [Energy production and conversion]
Probab=20.97 E-value=1.5e+02 Score=22.97 Aligned_cols=9 Identities=22% Similarity=0.630 Sum_probs=3.3
Q ss_pred HHHHHHHHH
Q 027163 8 LVMTVIGFA 16 (227)
Q Consensus 8 l~~~~i~~~ 16 (227)
++..++.|+
T Consensus 9 ~~~~~i~F~ 17 (161)
T COG0711 9 ILWQLIAFV 17 (161)
T ss_pred HHHHHHHHH
Confidence 333333333
No 303
>PF13120 DUF3974: Domain of unknown function (DUF3974)
Probab=20.89 E-value=93 Score=22.12 Aligned_cols=21 Identities=29% Similarity=0.444 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 027163 7 NLVMTVIGFAVSIMFIVFVCT 27 (227)
Q Consensus 7 ~l~~~~i~~~~~~~~i~~~~~ 27 (227)
-+++++++..+.+.|-+.+.+
T Consensus 5 ~~vl~l~g~llligftivvl~ 25 (126)
T PF13120_consen 5 KMVLLLIGTLLLIGFTIVVLL 25 (126)
T ss_pred HHHHHHHHHHHHHHHHHHhhh
Confidence 345555555544444443333
No 304
>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=20.74 E-value=75 Score=17.09 Aligned_cols=28 Identities=25% Similarity=0.547 Sum_probs=16.5
Q ss_pred ccccccccccCCceeEEcCCCCCcccHhh
Q 027163 86 QCAVCLAEYHGEDTLRILPYCGHSFHATC 114 (227)
Q Consensus 86 ~C~ICl~~~~~~~~~~~l~~C~H~fh~~C 114 (227)
.|.+|.+...... ...-..|.-.+|..|
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 4788877765442 333234666677666
No 305
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=20.68 E-value=1.6e+02 Score=22.61 Aligned_cols=10 Identities=0% Similarity=0.268 Sum_probs=3.9
Q ss_pred HHHHHHHHHH
Q 027163 22 IVFVCTRLIC 31 (227)
Q Consensus 22 i~~~~~~~~~ 31 (227)
++|++.++++
T Consensus 35 L~~lL~k~l~ 44 (156)
T CHL00118 35 LMVLLNIILY 44 (156)
T ss_pred HHHHHHHHHH
Confidence 3333334433
No 306
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS 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=20.67 E-value=50 Score=18.78 Aligned_cols=11 Identities=36% Similarity=0.860 Sum_probs=7.9
Q ss_pred CCCCccccccC
Q 027163 122 HSTCPVCRVSL 132 (227)
Q Consensus 122 ~~~CP~Cr~~~ 132 (227)
...||.|...+
T Consensus 26 ~~~CP~Cg~~~ 36 (41)
T smart00834 26 LATCPECGGDV 36 (41)
T ss_pred CCCCCCCCCcc
Confidence 35699998754
No 307
>COG3115 ZipA Cell division protein [Cell division and chromosome partitioning]
Probab=20.55 E-value=1.3e+02 Score=26.07 Aligned_cols=12 Identities=17% Similarity=0.617 Sum_probs=5.1
Q ss_pred hHHHHHHHHHHH
Q 027163 6 MNLVMTVIGFAV 17 (227)
Q Consensus 6 ~~l~~~~i~~~~ 17 (227)
++.|++++|++.
T Consensus 4 Lr~ILIIvG~IA 15 (324)
T COG3115 4 LRLILIIVGAIA 15 (324)
T ss_pred hhhHHHHHHHHH
Confidence 344444444433
No 308
>PRK08476 F0F1 ATP synthase subunit B'; Validated
Probab=20.51 E-value=2.3e+02 Score=21.30 Aligned_cols=11 Identities=18% Similarity=0.359 Sum_probs=4.5
Q ss_pred HHHHHHHHHHH
Q 027163 8 LVMTVIGFAVS 18 (227)
Q Consensus 8 l~~~~i~~~~~ 18 (227)
+++.++.|++.
T Consensus 10 ~~~qli~Flil 20 (141)
T PRK08476 10 MLATFVVFLLL 20 (141)
T ss_pred HHHHHHHHHHH
Confidence 33444444443
No 309
>PRK01614 tatE twin arginine translocase protein A; Validated
Probab=20.45 E-value=1.2e+02 Score=21.01 Aligned_cols=7 Identities=14% Similarity=0.159 Sum_probs=3.0
Q ss_pred CCcchhH
Q 027163 1 MISSGMN 7 (227)
Q Consensus 1 ~~~~~~~ 7 (227)
|.+.|..
T Consensus 1 M~GlG~~ 7 (85)
T PRK01614 1 MEGLSIT 7 (85)
T ss_pred CCCccHH
Confidence 3444444
No 310
>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=20.42 E-value=1.6e+02 Score=26.69 Aligned_cols=19 Identities=21% Similarity=0.389 Sum_probs=9.9
Q ss_pred hhHHHHHHHHHHHHHHHHH
Q 027163 5 GMNLVMTVIGFAVSIMFIV 23 (227)
Q Consensus 5 ~~~l~~~~i~~~~~~~~i~ 23 (227)
|+....++++|++++++..
T Consensus 64 GlhaagFfvaflvslVL~~ 82 (429)
T PF12297_consen 64 GLHAAGFFVAFLVSLVLTW 82 (429)
T ss_pred chHHHHHHHHHHHHHHHHH
Confidence 3444455566666655443
No 311
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=20.35 E-value=89 Score=27.23 Aligned_cols=64 Identities=19% Similarity=0.388 Sum_probs=36.3
Q ss_pred hhCCceecchhhhc-CCcccccccccccccCCc----------eeEEcCCCCCcccHhhHHHHHcCCCCCccccc
Q 027163 67 ANFPMKKFSDEYFA-AAEDTQCAVCLAEYHGED----------TLRILPYCGHSFHATCIDIWLHQHSTCPVCRV 130 (227)
Q Consensus 67 ~~lp~~~~~~~~~~-~~~~~~C~ICl~~~~~~~----------~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 130 (227)
.-+|.+.|.+.... ......|-.|...|..+. .-+..+.|+..||..|-.---..-..|+.|..
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 HLYPLKPFVEKPEGTNPKSTHCFVCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCDVFIHETLHFCIGCEL 418 (421)
T ss_pred hhccCcccccccCCCCCCCccceeccCCCCCCCCCcccccccccceechhhhhhhhhhhHHHHHHHHhhCCCCcC
Confidence 33455555443221 123456999999875432 11233358888999995443333356998854
No 312
>PF12768 Rax2: Cortical protein marker for cell polarity
Probab=20.22 E-value=64 Score=27.61 Aligned_cols=9 Identities=22% Similarity=0.626 Sum_probs=3.5
Q ss_pred HHHHHHHHH
Q 027163 13 IGFAVSIMF 21 (227)
Q Consensus 13 i~~~~~~~~ 21 (227)
++++++++|
T Consensus 234 lAiALG~v~ 242 (281)
T PF12768_consen 234 LAIALGTVF 242 (281)
T ss_pred hHHHHHHHH
Confidence 334444333
No 313
>PF15361 RIC3: Resistance to inhibitors of cholinesterase homologue 3
Probab=20.20 E-value=1.2e+02 Score=23.46 Aligned_cols=21 Identities=14% Similarity=0.501 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 027163 9 VMTVIGFAVSIMFIVFVCTRLI 30 (227)
Q Consensus 9 ~~~~i~~~~~~~~i~~~~~~~~ 30 (227)
++=+.+|+|+ +|++|.++.+.
T Consensus 85 imPlYtiGI~-~f~lY~l~Ki~ 105 (152)
T PF15361_consen 85 IMPLYTIGIV-LFILYTLFKIK 105 (152)
T ss_pred HhHHHHHHHH-HHHHHHHHHHH
Confidence 3334444443 33444444443
No 314
>PRK14858 tatA twin arginine translocase protein A; Provisional
Probab=20.18 E-value=96 Score=22.58 Aligned_cols=11 Identities=27% Similarity=0.468 Sum_probs=5.5
Q ss_pred CCcchhHHHHH
Q 027163 1 MISSGMNLVMT 11 (227)
Q Consensus 1 ~~~~~~~l~~~ 11 (227)
|++.|+.=+++
T Consensus 1 MF~iG~~Elli 11 (108)
T PRK14858 1 MFGIGMPELIV 11 (108)
T ss_pred CCCccHHHHHH
Confidence 55555544333
No 315
>PHA02680 ORF090 IMV phosphorylated membrane protein; Provisional
Probab=20.11 E-value=1.2e+02 Score=21.17 Aligned_cols=9 Identities=33% Similarity=0.431 Sum_probs=3.5
Q ss_pred HHHHHHHHH
Q 027163 12 VIGFAVSIM 20 (227)
Q Consensus 12 ~i~~~~~~~ 20 (227)
+++|+++++
T Consensus 50 ii~FIlG~v 58 (91)
T PHA02680 50 VTCFIVGAV 58 (91)
T ss_pred HHHHHHHHH
Confidence 334444433
No 316
>COG4768 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]
Probab=20.11 E-value=2e+02 Score=21.86 Aligned_cols=8 Identities=38% Similarity=0.733 Sum_probs=2.9
Q ss_pred HHHHHHHH
Q 027163 8 LVMTVIGF 15 (227)
Q Consensus 8 l~~~~i~~ 15 (227)
++++.++|
T Consensus 8 ~~iiAiAf 15 (139)
T COG4768 8 LAIIAIAF 15 (139)
T ss_pred HHHHHHHH
Confidence 33333333
Done!