Query 035743
Match_columns 216
No_of_seqs 186 out of 1730
Neff 7.3
Searched_HMMs 46136
Date Fri Mar 29 06:00:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035743.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035743hhsearch_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 1.7E-20 3.6E-25 165.1 10.6 78 99-178 204-282 (348)
2 PF13639 zf-RING_2: Ring finge 99.6 9.3E-17 2E-21 101.7 1.0 44 126-170 1-44 (44)
3 PHA02929 N1R/p28-like protein; 99.4 7.9E-14 1.7E-18 118.0 4.3 75 100-174 148-227 (238)
4 COG5540 RING-finger-containing 99.4 7.1E-14 1.5E-18 119.9 2.4 50 125-175 323-373 (374)
5 COG5243 HRD1 HRD ubiquitin lig 99.4 1E-12 2.2E-17 115.6 9.3 70 106-179 271-350 (491)
6 PF12678 zf-rbx1: RING-H2 zinc 99.4 2.5E-13 5.3E-18 95.2 3.0 45 125-170 19-73 (73)
7 KOG0317 Predicted E3 ubiquitin 99.2 7.2E-12 1.6E-16 107.1 5.0 51 121-175 235-285 (293)
8 cd00162 RING RING-finger (Real 99.1 5.6E-11 1.2E-15 73.8 2.6 44 127-173 1-45 (45)
9 PF13920 zf-C3HC4_3: Zinc fing 99.0 8.1E-11 1.8E-15 76.3 2.2 46 125-174 2-48 (50)
10 PLN03208 E3 ubiquitin-protein 99.0 2.4E-10 5.2E-15 93.5 5.0 49 123-175 16-80 (193)
11 PF13923 zf-C3HC4_2: Zinc fing 99.0 1.2E-10 2.5E-15 71.8 2.1 39 128-169 1-39 (39)
12 PHA02926 zinc finger-like prot 98.9 3.8E-10 8.3E-15 93.6 2.5 52 123-174 168-230 (242)
13 PF12861 zf-Apc11: Anaphase-pr 98.9 4.8E-10 1E-14 80.1 2.6 50 125-174 21-82 (85)
14 KOG0802 E3 ubiquitin ligase [P 98.9 3.3E-10 7.1E-15 106.9 1.2 53 123-176 289-343 (543)
15 PF14634 zf-RING_5: zinc-RING 98.9 8.9E-10 1.9E-14 69.6 2.6 44 127-171 1-44 (44)
16 KOG0320 Predicted E3 ubiquitin 98.9 6.6E-10 1.4E-14 89.1 2.4 54 121-176 127-180 (187)
17 KOG0823 Predicted E3 ubiquitin 98.8 1.2E-09 2.6E-14 91.0 2.5 49 122-174 44-95 (230)
18 PF00097 zf-C3HC4: Zinc finger 98.8 2.4E-09 5.1E-14 66.3 1.7 39 128-169 1-41 (41)
19 smart00184 RING Ring finger. E 98.8 3.2E-09 6.9E-14 63.6 2.1 38 128-169 1-39 (39)
20 KOG0828 Predicted E3 ubiquitin 98.7 8.6E-09 1.9E-13 93.8 3.3 50 125-175 571-635 (636)
21 KOG1734 Predicted RING-contain 98.7 1.9E-08 4E-13 85.6 4.7 50 124-174 223-281 (328)
22 PF15227 zf-C3HC4_4: zinc fing 98.7 9.9E-09 2.1E-13 64.2 2.2 38 128-169 1-42 (42)
23 smart00504 Ubox Modified RING 98.6 2.4E-08 5.1E-13 67.2 3.1 45 126-174 2-46 (63)
24 COG5194 APC11 Component of SCF 98.6 1.7E-08 3.6E-13 70.7 1.9 32 146-177 53-84 (88)
25 TIGR00599 rad18 DNA repair pro 98.5 3.9E-08 8.5E-13 89.0 2.7 48 123-174 24-71 (397)
26 COG5574 PEX10 RING-finger-cont 98.5 4.5E-08 9.7E-13 83.1 1.8 50 123-176 213-264 (271)
27 smart00744 RINGv The RING-vari 98.4 1.5E-07 3.1E-12 60.9 1.9 42 127-170 1-49 (49)
28 PF11793 FANCL_C: FANCL C-term 98.4 7.8E-08 1.7E-12 66.8 0.4 50 125-174 2-66 (70)
29 KOG1493 Anaphase-promoting com 98.4 4.6E-08 1E-12 68.0 -1.2 49 126-174 21-81 (84)
30 PF13445 zf-RING_UBOX: RING-ty 98.3 2.4E-07 5.2E-12 58.2 1.4 34 128-163 1-35 (43)
31 COG5219 Uncharacterized conser 98.3 1.4E-07 3E-12 91.6 -0.5 51 124-174 1468-1523(1525)
32 KOG0804 Cytoplasmic Zn-finger 98.2 3E-07 6.5E-12 83.1 1.0 48 125-175 175-223 (493)
33 KOG2164 Predicted E3 ubiquitin 98.1 8.2E-07 1.8E-11 81.6 1.7 47 125-175 186-237 (513)
34 TIGR00570 cdk7 CDK-activating 98.1 2.2E-06 4.7E-11 75.1 3.2 51 125-176 3-56 (309)
35 COG5432 RAD18 RING-finger-cont 98.1 1.2E-06 2.6E-11 75.5 1.5 48 126-177 26-73 (391)
36 KOG0287 Postreplication repair 98.1 9.7E-07 2.1E-11 77.5 0.5 47 126-176 24-70 (442)
37 KOG3970 Predicted E3 ubiquitin 98.0 1.4E-06 3.1E-11 72.5 0.8 63 114-178 39-109 (299)
38 PF04564 U-box: U-box domain; 98.0 2.9E-06 6.3E-11 59.2 2.3 47 125-175 4-51 (73)
39 KOG2177 Predicted E3 ubiquitin 98.0 1.8E-06 3.8E-11 73.1 1.1 44 123-170 11-54 (386)
40 KOG2930 SCF ubiquitin ligase, 98.0 2.1E-06 4.7E-11 63.1 1.2 49 126-174 47-108 (114)
41 KOG0827 Predicted E3 ubiquitin 98.0 2E-06 4.4E-11 76.6 1.1 45 126-170 5-52 (465)
42 KOG1645 RING-finger-containing 98.0 4.1E-06 8.9E-11 75.1 2.4 47 125-171 4-53 (463)
43 KOG4265 Predicted E3 ubiquitin 97.8 1.2E-05 2.7E-10 71.1 2.7 52 123-178 288-340 (349)
44 PF14835 zf-RING_6: zf-RING of 97.7 1.6E-05 3.5E-10 53.8 1.7 49 126-179 8-56 (65)
45 KOG1039 Predicted E3 ubiquitin 97.7 2.2E-05 4.8E-10 70.0 2.2 51 123-173 159-220 (344)
46 KOG4445 Uncharacterized conser 97.7 7.3E-06 1.6E-10 71.0 -0.9 52 126-178 116-190 (368)
47 KOG0825 PHD Zn-finger protein 97.6 7.6E-06 1.6E-10 78.5 -1.1 49 125-174 123-171 (1134)
48 KOG0311 Predicted E3 ubiquitin 97.5 7.2E-06 1.6E-10 72.4 -2.8 52 125-179 43-95 (381)
49 PF05883 Baculo_RING: Baculovi 97.5 2.8E-05 6.1E-10 60.2 0.0 35 125-160 26-66 (134)
50 KOG4172 Predicted E3 ubiquitin 97.4 3.1E-05 6.7E-10 50.6 -0.5 46 125-174 7-54 (62)
51 KOG1785 Tyrosine kinase negati 97.3 0.00011 2.4E-09 66.0 2.2 52 126-181 370-423 (563)
52 KOG0978 E3 ubiquitin ligase in 97.3 4.9E-05 1.1E-09 73.0 -0.3 45 126-174 644-689 (698)
53 KOG0824 Predicted E3 ubiquitin 97.3 9.8E-05 2.1E-09 64.1 1.5 45 126-174 8-53 (324)
54 KOG0297 TNF receptor-associate 97.2 0.00032 6.9E-09 64.0 3.3 53 122-177 18-70 (391)
55 PF11789 zf-Nse: Zinc-finger o 97.1 0.00022 4.7E-09 47.5 1.1 41 125-168 11-53 (57)
56 KOG1941 Acetylcholine receptor 97.0 0.00015 3.2E-09 65.1 -0.2 45 125-170 365-412 (518)
57 KOG0801 Predicted E3 ubiquitin 97.0 0.00028 6.1E-09 56.2 1.1 42 111-154 164-205 (205)
58 KOG1428 Inhibitor of type V ad 97.0 0.0004 8.6E-09 70.8 2.3 64 110-174 3471-3544(3738)
59 KOG4159 Predicted E3 ubiquitin 96.8 0.00051 1.1E-08 62.5 1.4 49 123-175 82-130 (398)
60 KOG1952 Transcription factor N 96.7 0.00051 1.1E-08 66.8 0.9 49 123-171 189-244 (950)
61 PF12906 RINGv: RING-variant d 96.7 0.0011 2.3E-08 42.3 1.9 40 128-169 1-47 (47)
62 PF10367 Vps39_2: Vacuolar sor 96.6 0.00097 2.1E-08 49.1 1.7 31 125-157 78-108 (109)
63 KOG0826 Predicted E3 ubiquitin 96.6 0.0039 8.4E-08 54.9 5.2 48 122-172 297-344 (357)
64 KOG1571 Predicted E3 ubiquitin 96.4 0.0011 2.4E-08 58.9 0.9 45 124-175 304-348 (355)
65 PHA02825 LAP/PHD finger-like p 96.1 0.0045 9.7E-08 49.3 2.8 50 124-176 7-61 (162)
66 PHA02862 5L protein; Provision 96.1 0.0039 8.4E-08 48.9 2.1 45 126-175 3-54 (156)
67 PHA03096 p28-like protein; Pro 96.0 0.0024 5.2E-08 55.8 0.7 37 126-162 179-219 (284)
68 KOG1002 Nucleotide excision re 95.9 0.0024 5.3E-08 59.5 0.4 49 123-175 534-587 (791)
69 KOG2879 Predicted E3 ubiquitin 95.7 0.043 9.3E-07 47.4 7.3 50 122-174 236-287 (298)
70 PF14570 zf-RING_4: RING/Ubox 95.6 0.0083 1.8E-07 38.4 2.0 45 128-173 1-47 (48)
71 COG5152 Uncharacterized conser 95.5 0.0038 8.3E-08 51.4 0.2 43 126-172 197-239 (259)
72 KOG4739 Uncharacterized protei 95.4 0.006 1.3E-07 51.6 0.9 42 127-173 5-47 (233)
73 COG5236 Uncharacterized conser 95.3 0.016 3.5E-07 51.6 3.3 60 109-172 45-106 (493)
74 KOG3039 Uncharacterized conser 95.2 0.012 2.7E-07 50.0 2.3 52 125-176 221-272 (303)
75 PF08746 zf-RING-like: RING-li 95.2 0.0095 2.1E-07 37.2 1.2 41 128-169 1-43 (43)
76 KOG0827 Predicted E3 ubiquitin 95.2 0.001 2.2E-08 59.8 -4.5 49 125-174 196-245 (465)
77 KOG1814 Predicted E3 ubiquitin 95.1 0.0083 1.8E-07 54.4 0.9 46 125-171 184-237 (445)
78 KOG3268 Predicted E3 ubiquitin 95.1 0.011 2.3E-07 48.1 1.5 31 146-176 189-230 (234)
79 COG5222 Uncharacterized conser 95.0 0.015 3.2E-07 50.9 2.2 44 125-171 274-318 (427)
80 KOG2660 Locus-specific chromos 94.8 0.005 1.1E-07 54.3 -1.2 47 125-174 15-61 (331)
81 KOG4692 Predicted E3 ubiquitin 94.4 0.024 5.2E-07 50.6 2.0 49 123-175 420-468 (489)
82 KOG4185 Predicted E3 ubiquitin 94.3 0.027 5.8E-07 49.1 2.1 47 126-173 4-54 (296)
83 PF14446 Prok-RING_1: Prokaryo 93.8 0.062 1.3E-06 35.2 2.6 32 126-157 6-37 (54)
84 KOG1813 Predicted E3 ubiquitin 93.8 0.031 6.7E-07 48.7 1.5 44 126-173 242-285 (313)
85 KOG2932 E3 ubiquitin ligase in 93.5 0.034 7.4E-07 48.8 1.4 44 126-174 91-134 (389)
86 KOG2114 Vacuolar assembly/sort 93.5 0.031 6.6E-07 54.9 1.1 42 126-173 841-882 (933)
87 KOG4275 Predicted E3 ubiquitin 93.5 0.019 4.1E-07 50.0 -0.4 43 125-174 300-342 (350)
88 PF04641 Rtf2: Rtf2 RING-finge 93.2 0.072 1.6E-06 45.9 2.9 51 123-174 111-161 (260)
89 KOG2034 Vacuolar sorting prote 92.9 0.036 7.8E-07 54.6 0.5 35 124-160 816-850 (911)
90 KOG0309 Conserved WD40 repeat- 92.7 0.047 1E-06 53.1 1.0 23 146-168 1047-1069(1081)
91 PF14447 Prok-RING_4: Prokaryo 92.2 0.088 1.9E-06 34.6 1.5 43 126-174 8-50 (55)
92 PF07800 DUF1644: Protein of u 92.0 0.13 2.9E-06 41.0 2.6 35 125-160 2-46 (162)
93 KOG1940 Zn-finger protein [Gen 91.8 0.08 1.7E-06 46.1 1.3 45 126-171 159-204 (276)
94 KOG1001 Helicase-like transcri 91.6 0.053 1.2E-06 52.8 0.1 48 126-178 455-504 (674)
95 PF10272 Tmpp129: Putative tra 90.8 0.14 3.1E-06 46.2 1.9 27 147-173 311-350 (358)
96 KOG0825 PHD Zn-finger protein 90.6 0.13 2.9E-06 50.3 1.6 55 125-179 96-159 (1134)
97 COG5175 MOT2 Transcriptional r 90.5 0.12 2.5E-06 46.2 1.1 53 123-176 12-66 (480)
98 KOG3053 Uncharacterized conser 90.2 0.1 2.2E-06 44.8 0.4 52 123-174 18-82 (293)
99 KOG0298 DEAD box-containing he 90.0 0.071 1.5E-06 54.5 -0.7 43 126-171 1154-1196(1394)
100 KOG1609 Protein involved in mR 90.0 0.15 3.3E-06 44.4 1.4 50 125-175 78-135 (323)
101 KOG0802 E3 ubiquitin ligase [P 89.1 0.17 3.7E-06 48.1 1.1 51 121-179 475-525 (543)
102 PF13901 DUF4206: Domain of un 87.2 0.44 9.6E-06 39.6 2.3 40 125-170 152-196 (202)
103 PF03854 zf-P11: P-11 zinc fin 87.1 0.2 4.2E-06 32.0 0.1 43 127-175 4-47 (50)
104 KOG3161 Predicted E3 ubiquitin 86.7 0.16 3.5E-06 48.7 -0.6 43 126-171 12-54 (861)
105 COG5220 TFB3 Cdk activating ki 86.5 0.19 4.1E-06 42.8 -0.2 46 125-170 10-60 (314)
106 PF02439 Adeno_E3_CR2: Adenovi 85.9 1.7 3.7E-05 26.3 3.7 27 51-77 5-31 (38)
107 PF07975 C1_4: TFIIH C1-like d 85.7 0.66 1.4E-05 30.1 2.0 42 128-170 2-50 (51)
108 PF01102 Glycophorin_A: Glycop 85.3 1.6 3.4E-05 33.5 4.3 7 46-52 59-65 (122)
109 KOG3002 Zn finger protein [Gen 85.2 0.59 1.3E-05 41.3 2.2 45 126-176 49-93 (299)
110 KOG3800 Predicted E3 ubiquitin 84.0 0.73 1.6E-05 40.3 2.1 47 127-173 2-50 (300)
111 KOG1812 Predicted E3 ubiquitin 83.9 0.36 7.9E-06 44.0 0.3 38 125-163 146-184 (384)
112 PF10571 UPF0547: Uncharacteri 83.8 0.62 1.3E-05 25.9 1.1 23 127-151 2-24 (26)
113 PF12273 RCR: Chitin synthesis 83.7 1.4 2.9E-05 33.9 3.4 7 74-80 23-29 (130)
114 PF00628 PHD: PHD-finger; Int 83.2 0.86 1.9E-05 28.7 1.8 43 127-170 1-49 (51)
115 smart00249 PHD PHD zinc finger 82.5 1 2.2E-05 27.1 1.9 31 127-158 1-31 (47)
116 KOG1829 Uncharacterized conser 82.5 0.35 7.6E-06 46.2 -0.4 40 126-169 512-556 (580)
117 KOG0269 WD40 repeat-containing 82.5 0.7 1.5E-05 45.2 1.6 41 126-168 780-820 (839)
118 PF03229 Alpha_GJ: Alphavirus 81.4 4.8 0.0001 30.5 5.4 36 47-82 81-116 (126)
119 PF13719 zinc_ribbon_5: zinc-r 80.1 1.1 2.4E-05 26.8 1.4 27 126-152 3-36 (37)
120 KOG4362 Transcriptional regula 79.2 0.5 1.1E-05 45.9 -0.6 45 126-174 22-69 (684)
121 COG5183 SSM4 Protein involved 79.2 1.3 2.8E-05 43.8 2.2 50 123-174 10-66 (1175)
122 PF13717 zinc_ribbon_4: zinc-r 78.7 1.5 3.3E-05 26.1 1.6 27 126-152 3-36 (36)
123 KOG1100 Predicted E3 ubiquitin 76.3 1.7 3.6E-05 36.4 1.8 39 128-174 161-200 (207)
124 TIGR00622 ssl1 transcription f 76.2 4.8 0.0001 30.4 4.1 45 126-170 56-110 (112)
125 KOG2817 Predicted E3 ubiquitin 75.7 1.7 3.7E-05 39.5 1.8 43 126-169 335-380 (394)
126 PRK01844 hypothetical protein; 75.6 14 0.00031 25.6 6.0 25 52-77 5-29 (72)
127 KOG3899 Uncharacterized conser 75.5 1 2.2E-05 39.5 0.3 28 147-174 325-365 (381)
128 PF14979 TMEM52: Transmembrane 75.5 6.8 0.00015 30.9 4.8 32 49-80 19-50 (154)
129 KOG2066 Vacuolar assembly/sort 75.3 1.2 2.6E-05 43.8 0.8 43 125-169 784-830 (846)
130 smart00132 LIM Zinc-binding do 74.6 3.5 7.5E-05 23.7 2.5 36 128-173 2-37 (39)
131 PF05393 Hum_adeno_E3A: Human 72.2 7.4 0.00016 28.1 4.0 15 71-85 51-65 (94)
132 KOG3005 GIY-YIG type nuclease 71.5 2 4.3E-05 37.2 1.1 48 126-173 183-242 (276)
133 PF05290 Baculo_IE-1: Baculovi 71.4 2.1 4.5E-05 33.3 1.1 51 125-175 80-133 (140)
134 KOG3799 Rab3 effector RIM1 and 71.1 1.6 3.5E-05 34.0 0.5 72 123-206 63-149 (169)
135 PF12877 DUF3827: Domain of un 71.1 3.6 7.8E-05 39.8 2.8 28 50-77 267-294 (684)
136 PF15050 SCIMP: SCIMP protein 70.2 11 0.00023 28.9 4.7 13 51-63 7-19 (133)
137 KOG4718 Non-SMC (structural ma 69.2 2.1 4.6E-05 35.8 0.8 44 124-170 180-223 (235)
138 PF00412 LIM: LIM domain; Int 67.2 4.7 0.0001 25.7 2.0 39 128-176 1-39 (58)
139 PF15176 LRR19-TM: Leucine-ric 66.7 27 0.00058 25.8 6.0 27 51-77 16-42 (102)
140 KOG2071 mRNA cleavage and poly 66.7 3.4 7.4E-05 39.5 1.7 35 123-159 511-556 (579)
141 PF08114 PMP1_2: ATPase proteo 66.4 8.9 0.00019 23.6 2.9 26 52-77 10-35 (43)
142 PF01363 FYVE: FYVE zinc finge 66.1 3.7 8E-05 27.5 1.4 36 126-161 10-45 (69)
143 PRK00523 hypothetical protein; 65.9 30 0.00065 24.0 5.8 16 62-77 15-30 (72)
144 COG3763 Uncharacterized protei 64.5 35 0.00076 23.5 5.9 20 58-77 10-29 (71)
145 KOG4367 Predicted Zn-finger pr 63.9 2.5 5.4E-05 39.1 0.2 34 124-161 3-36 (699)
146 TIGR01478 STEVOR variant surfa 63.7 9.8 0.00021 33.3 3.8 17 66-82 273-289 (295)
147 KOG3113 Uncharacterized conser 63.3 4.7 0.0001 34.8 1.8 48 125-174 111-158 (293)
148 PTZ00370 STEVOR; Provisional 63.2 10 0.00023 33.2 3.9 17 67-83 270-286 (296)
149 PF11057 Cortexin: Cortexin of 63.1 11 0.00024 26.3 3.3 8 70-77 43-50 (81)
150 KOG2041 WD40 repeat protein [G 60.7 7.6 0.00017 38.4 2.9 49 120-172 1126-1183(1189)
151 KOG1815 Predicted E3 ubiquitin 60.5 4 8.8E-05 37.8 1.0 38 123-163 68-105 (444)
152 PRK05978 hypothetical protein; 60.3 5.6 0.00012 31.5 1.6 27 148-179 42-68 (148)
153 PF05568 ASFV_J13L: African sw 59.9 22 0.00048 28.2 4.8 10 15-24 5-14 (189)
154 cd00350 rubredoxin_like Rubred 59.8 9 0.00019 22.1 2.1 20 146-171 6-25 (33)
155 PF04639 Baculo_E56: Baculovir 59.5 6.4 0.00014 34.5 2.0 19 12-30 244-262 (305)
156 PF01708 Gemini_mov: Geminivir 57.7 15 0.00033 26.5 3.3 30 44-73 30-59 (91)
157 KOG1812 Predicted E3 ubiquitin 56.9 6.1 0.00013 36.1 1.5 43 126-169 307-351 (384)
158 smart00064 FYVE Protein presen 56.3 6.1 0.00013 26.4 1.1 36 126-161 11-46 (68)
159 PF02891 zf-MIZ: MIZ/SP-RING z 54.6 5.3 0.00012 25.5 0.5 41 126-172 3-50 (50)
160 KOG3842 Adaptor protein Pellin 54.5 12 0.00027 33.3 2.9 53 123-176 339-416 (429)
161 KOG2807 RNA polymerase II tran 54.5 13 0.00027 33.4 3.0 68 102-171 306-375 (378)
162 cd00065 FYVE FYVE domain; Zinc 54.4 8.7 0.00019 24.5 1.6 36 126-161 3-38 (57)
163 PF10717 ODV-E18: Occlusion-de 54.4 35 0.00076 24.4 4.7 20 45-64 19-38 (85)
164 PF15330 SIT: SHP2-interacting 52.6 22 0.00047 26.6 3.6 23 55-77 3-25 (107)
165 PF06679 DUF1180: Protein of u 52.1 25 0.00053 28.3 4.1 30 50-79 91-120 (163)
166 PF15050 SCIMP: SCIMP protein 52.0 30 0.00065 26.5 4.2 16 47-62 7-22 (133)
167 PF02480 Herpes_gE: Alphaherpe 51.3 5 0.00011 37.4 0.0 7 71-77 374-380 (439)
168 KOG1815 Predicted E3 ubiquitin 50.7 6.7 0.00015 36.4 0.8 37 126-163 227-268 (444)
169 PF09723 Zn-ribbon_8: Zinc rib 50.6 7.6 0.00016 23.8 0.8 25 146-171 10-34 (42)
170 KOG1729 FYVE finger containing 50.5 3.8 8.2E-05 36.0 -0.9 38 126-164 215-252 (288)
171 PF13908 Shisa: Wnt and FGF in 50.4 8.9 0.00019 30.9 1.4 7 54-60 80-86 (179)
172 PF11027 DUF2615: Protein of u 49.8 18 0.00038 26.9 2.7 11 18-28 15-25 (103)
173 PF04689 S1FA: DNA binding pro 49.7 13 0.00028 25.2 1.8 33 45-77 7-39 (69)
174 PF08374 Protocadherin: Protoc 49.5 19 0.00041 30.3 3.1 10 15-24 7-16 (221)
175 COG1545 Predicted nucleic-acid 49.1 11 0.00025 29.3 1.8 23 143-173 31-53 (140)
176 smart00647 IBR In Between Ring 47.7 11 0.00023 24.4 1.2 21 139-159 38-58 (64)
177 KOG2068 MOT2 transcription fac 46.8 14 0.00031 32.9 2.2 46 126-172 250-296 (327)
178 PF15065 NCU-G1: Lysosomal tra 46.5 11 0.00024 34.1 1.4 34 44-77 311-344 (350)
179 PF11023 DUF2614: Protein of u 46.3 17 0.00037 27.4 2.2 21 160-180 82-102 (114)
180 KOG1538 Uncharacterized conser 46.3 8.7 0.00019 37.7 0.8 37 138-174 1041-1077(1081)
181 PHA02849 putative transmembran 45.0 54 0.0012 23.1 4.3 21 45-65 9-29 (82)
182 PF04710 Pellino: Pellino; In 44.8 7.2 0.00016 35.7 0.0 49 125-174 328-401 (416)
183 PF07649 C1_3: C1-like domain; 44.6 13 0.00028 20.8 1.0 29 127-156 2-30 (30)
184 PF14311 DUF4379: Domain of un 44.2 18 0.00038 23.3 1.8 25 144-169 31-55 (55)
185 PF05191 ADK_lid: Adenylate ki 43.6 16 0.00034 21.7 1.4 31 143-175 3-33 (36)
186 PF07191 zinc-ribbons_6: zinc- 43.6 8.6 0.00019 26.6 0.2 40 126-174 2-41 (70)
187 PRK11827 hypothetical protein; 43.4 9.3 0.0002 25.6 0.4 20 157-176 2-21 (60)
188 PF07406 NICE-3: NICE-3 protei 43.1 26 0.00056 28.8 3.0 16 153-168 126-143 (186)
189 PHA02657 hypothetical protein; 42.9 62 0.0013 23.3 4.5 27 46-72 22-48 (95)
190 PF04423 Rad50_zn_hook: Rad50 42.8 8.9 0.00019 24.6 0.2 14 165-178 22-35 (54)
191 PF06906 DUF1272: Protein of u 42.2 26 0.00056 23.2 2.3 48 126-176 6-54 (57)
192 KOG4482 Sarcoglycan complex, a 41.4 49 0.0011 30.3 4.7 42 37-78 282-323 (449)
193 PF02480 Herpes_gE: Alphaherpe 39.3 9.9 0.00022 35.4 0.0 31 53-83 352-382 (439)
194 PF07282 OrfB_Zn_ribbon: Putat 39.1 23 0.0005 23.6 1.8 34 126-159 29-64 (69)
195 KOG4218 Nuclear hormone recept 38.5 14 0.0003 33.4 0.8 47 124-171 14-75 (475)
196 PF01299 Lamp: Lysosome-associ 38.5 22 0.00049 31.1 2.1 14 51-64 272-285 (306)
197 KOG0956 PHD finger protein AF1 38.5 12 0.00025 36.8 0.3 51 124-174 116-182 (900)
198 PF13807 GNVR: G-rich domain o 37.9 1.1E+02 0.0024 21.1 5.3 9 50-58 58-66 (82)
199 PF04216 FdhE: Protein involve 37.9 5.9 0.00013 34.5 -1.6 46 125-171 172-219 (290)
200 KOG4443 Putative transcription 37.9 15 0.00032 35.8 0.9 49 126-174 19-73 (694)
201 PF06305 DUF1049: Protein of u 37.8 98 0.0021 20.3 4.8 14 49-62 19-32 (68)
202 PHA02819 hypothetical protein; 37.6 1.1E+02 0.0025 21.0 5.0 9 47-55 43-51 (71)
203 KOG3579 Predicted E3 ubiquitin 37.4 16 0.00034 32.2 0.9 36 124-163 267-306 (352)
204 PHA02692 hypothetical protein; 37.4 97 0.0021 21.4 4.6 11 46-56 41-51 (70)
205 COG5109 Uncharacterized conser 37.3 19 0.00041 32.2 1.4 43 126-169 337-382 (396)
206 KOG3039 Uncharacterized conser 36.6 15 0.00032 31.7 0.6 31 126-160 44-74 (303)
207 PF06143 Baculo_11_kDa: Baculo 36.6 63 0.0014 23.1 3.7 30 44-73 28-57 (84)
208 PF13314 DUF4083: Domain of un 35.8 1.2E+02 0.0026 20.1 4.7 6 72-77 26-31 (58)
209 PHA03240 envelope glycoprotein 35.7 58 0.0012 27.6 3.9 14 51-64 213-226 (258)
210 PF02318 FYVE_2: FYVE-type zin 35.2 27 0.00059 26.2 1.8 46 124-170 53-101 (118)
211 PRK04778 septation ring format 35.1 56 0.0012 31.3 4.4 24 54-77 5-28 (569)
212 PF13832 zf-HC5HC2H_2: PHD-zin 35.0 26 0.00057 25.5 1.7 34 125-159 55-88 (110)
213 PF03107 C1_2: C1 domain; Int 35.0 35 0.00076 19.1 1.9 29 127-156 2-30 (30)
214 PF06676 DUF1178: Protein of u 34.8 30 0.00065 27.4 2.1 24 147-175 10-44 (148)
215 PF03672 UPF0154: Uncharacteri 34.4 1.1E+02 0.0023 20.8 4.4 10 67-76 13-22 (64)
216 PF05510 Sarcoglycan_2: Sarcog 34.3 1.1E+02 0.0024 28.1 5.9 34 44-77 277-310 (386)
217 TIGR00686 phnA alkylphosphonat 34.2 22 0.00048 26.6 1.2 26 126-151 3-29 (109)
218 KOG3457 Sec61 protein transloc 34.1 36 0.00078 24.4 2.2 33 42-76 52-84 (88)
219 PF01485 IBR: IBR domain; Int 34.0 9.6 0.00021 24.6 -0.7 34 126-159 19-58 (64)
220 PF08274 PhnA_Zn_Ribbon: PhnA 33.9 19 0.00041 20.6 0.6 25 126-150 3-28 (30)
221 COG3190 FliO Flagellar biogene 33.1 1.3E+02 0.0028 23.6 5.3 32 46-77 18-49 (137)
222 PHA02844 putative transmembran 33.0 90 0.0019 21.8 3.9 8 47-54 45-52 (75)
223 KOG4323 Polycomb-like PHD Zn-f 32.9 24 0.00052 33.1 1.4 48 124-171 167-223 (464)
224 PF14914 LRRC37AB_C: LRRC37A/B 32.7 81 0.0018 25.0 4.1 15 46-60 115-129 (154)
225 PF06844 DUF1244: Protein of u 32.6 16 0.00036 24.9 0.2 12 150-161 11-22 (68)
226 PF09943 DUF2175: Uncharacteri 32.2 26 0.00056 26.0 1.2 33 126-160 3-35 (101)
227 KOG2979 Protein involved in DN 32.2 23 0.00049 30.6 1.0 41 125-168 176-218 (262)
228 PRK07021 fliL flagellar basal 32.1 1.2E+02 0.0026 23.9 5.2 9 47-55 14-22 (162)
229 PF02038 ATP1G1_PLM_MAT8: ATP1 31.9 71 0.0015 20.6 3.1 26 47-72 8-33 (50)
230 PF10577 UPF0560: Uncharacteri 31.4 1E+02 0.0022 30.9 5.5 25 53-77 273-297 (807)
231 PF03119 DNA_ligase_ZBD: NAD-d 31.2 20 0.00043 20.0 0.4 15 165-179 1-15 (28)
232 smart00834 CxxC_CXXC_SSSS Puta 30.9 30 0.00066 20.3 1.2 10 163-172 26-35 (41)
233 COG4847 Uncharacterized protei 30.7 27 0.00058 25.6 1.1 35 126-162 7-41 (103)
234 PF12877 DUF3827: Domain of un 30.4 58 0.0013 31.8 3.5 42 36-77 257-298 (684)
235 PRK11088 rrmA 23S rRNA methylt 29.5 34 0.00074 29.2 1.8 27 126-153 3-29 (272)
236 PF11446 DUF2897: Protein of u 29.2 80 0.0017 20.7 3.1 15 50-64 3-17 (55)
237 smart00531 TFIIE Transcription 29.0 50 0.0011 25.7 2.5 15 164-178 124-138 (147)
238 PF14169 YdjO: Cold-inducible 29.0 30 0.00064 23.1 1.0 14 163-176 39-52 (59)
239 PF15048 OSTbeta: Organic solu 28.9 68 0.0015 24.7 3.1 12 66-77 48-59 (125)
240 PHA03054 IMV membrane protein; 28.9 1.7E+02 0.0037 20.2 4.7 10 47-56 45-54 (72)
241 KOG3352 Cytochrome c oxidase, 28.8 32 0.00068 27.4 1.3 7 127-134 113-119 (153)
242 KOG0955 PHD finger protein BR1 28.6 38 0.00083 35.0 2.1 56 122-179 216-273 (1051)
243 TIGR02300 FYDLN_acid conserved 28.4 71 0.0015 24.7 3.1 11 165-175 28-38 (129)
244 PF10497 zf-4CXXC_R1: Zinc-fin 28.4 52 0.0011 24.3 2.4 24 148-171 37-69 (105)
245 PHA02975 hypothetical protein; 28.4 1.9E+02 0.0042 19.8 4.8 7 48-54 42-48 (69)
246 KOG1512 PHD Zn-finger protein 28.3 29 0.00064 30.6 1.1 32 126-158 315-346 (381)
247 PF07204 Orthoreo_P10: Orthore 28.1 87 0.0019 22.9 3.3 9 52-60 41-49 (98)
248 cd00730 rubredoxin Rubredoxin; 27.9 49 0.0011 21.2 1.8 10 162-171 33-42 (50)
249 PRK10220 hypothetical protein; 27.6 41 0.00089 25.3 1.6 25 126-150 4-29 (111)
250 PF05283 MGC-24: Multi-glycosy 27.6 1.4E+02 0.003 24.6 4.9 22 44-65 154-175 (186)
251 PLN02189 cellulose synthase 27.2 63 0.0014 33.4 3.4 49 126-174 35-87 (1040)
252 KOG1701 Focal adhesion adaptor 27.2 8.4 0.00018 35.6 -2.5 29 126-158 335-363 (468)
253 TIGR01562 FdhE formate dehydro 27.0 29 0.00063 30.8 0.9 41 125-171 184-232 (305)
254 PRK11486 flagellar biosynthesi 26.9 2.1E+02 0.0046 21.9 5.5 22 52-73 18-39 (124)
255 PRK03564 formate dehydrogenase 26.6 53 0.0011 29.2 2.4 47 124-171 186-234 (309)
256 TIGR02605 CxxC_CxxC_SSSS putat 26.4 33 0.00073 21.5 0.9 26 145-171 9-34 (52)
257 PF01299 Lamp: Lysosome-associ 26.4 43 0.00092 29.4 1.8 29 53-81 270-298 (306)
258 PF13771 zf-HC5HC2H: PHD-like 25.9 39 0.00084 23.6 1.2 32 126-158 37-68 (90)
259 PF14205 Cys_rich_KTR: Cystein 25.9 45 0.00098 21.9 1.4 11 164-174 29-39 (55)
260 PF03911 Sec61_beta: Sec61beta 25.7 97 0.0021 18.9 2.8 24 44-67 14-37 (41)
261 PF07438 DUF1514: Protein of u 25.7 62 0.0013 22.0 2.0 12 53-64 2-13 (66)
262 PHA02947 S-S bond formation pa 25.4 73 0.0016 26.8 2.9 26 52-77 179-204 (215)
263 PF06677 Auto_anti-p27: Sjogre 25.3 42 0.0009 20.6 1.1 20 157-176 11-30 (41)
264 cd00729 rubredoxin_SM Rubredox 25.1 42 0.00091 19.5 1.1 8 164-171 19-26 (34)
265 PF06667 PspB: Phage shock pro 25.0 1.4E+02 0.003 20.8 3.8 24 51-74 4-27 (75)
266 COG5627 MMS21 DNA repair prote 24.9 29 0.00063 29.7 0.5 40 125-167 189-230 (275)
267 PF07219 HemY_N: HemY protein 24.5 1.2E+02 0.0026 22.2 3.7 14 50-63 14-27 (108)
268 KOG1244 Predicted transcriptio 24.4 30 0.00065 30.3 0.5 45 126-171 282-330 (336)
269 KOG1245 Chromatin remodeling c 24.2 24 0.00051 37.7 -0.2 49 124-173 1107-1159(1404)
270 PF14569 zf-UDP: Zinc-binding 24.2 72 0.0016 22.5 2.2 49 126-174 10-62 (80)
271 PHA03286 envelope glycoprotein 23.8 1.3E+02 0.0029 28.2 4.5 30 54-83 392-421 (492)
272 PRK14762 membrane protein; Pro 23.5 1.4E+02 0.0031 16.4 3.6 17 53-69 6-22 (27)
273 PTZ00370 STEVOR; Provisional 23.4 1.1E+02 0.0023 27.1 3.6 13 64-76 270-282 (296)
274 TIGR01478 STEVOR variant surfa 23.4 1.1E+02 0.0023 27.0 3.7 12 64-75 274-285 (295)
275 PF05715 zf-piccolo: Piccolo Z 23.3 40 0.00087 22.5 0.8 12 163-174 2-13 (61)
276 PRK04023 DNA polymerase II lar 23.3 60 0.0013 33.5 2.4 48 123-176 624-676 (1121)
277 COG2835 Uncharacterized conser 23.2 35 0.00077 22.8 0.5 16 164-179 9-24 (60)
278 PF14584 DUF4446: Protein of u 23.1 2E+02 0.0043 22.7 4.9 33 110-144 83-115 (151)
279 PRK14710 hypothetical protein; 23.1 62 0.0013 22.4 1.7 23 46-68 6-28 (86)
280 KOG4577 Transcription factor L 23.1 19 0.00041 31.7 -1.0 55 124-180 91-157 (383)
281 PF05605 zf-Di19: Drought indu 22.8 17 0.00038 23.2 -1.0 37 126-171 3-39 (54)
282 KOG0824 Predicted E3 ubiquitin 22.6 35 0.00077 30.2 0.6 46 123-171 103-148 (324)
283 KOG4185 Predicted E3 ubiquitin 22.6 15 0.00031 31.9 -1.9 49 126-174 208-267 (296)
284 PF09835 DUF2062: Uncharacteri 22.5 1.8E+02 0.0039 22.5 4.6 10 20-29 81-90 (154)
285 PF03966 Trm112p: Trm112p-like 22.4 55 0.0012 21.9 1.4 7 127-133 9-15 (68)
286 PF06750 DiS_P_DiS: Bacterial 22.3 42 0.00091 24.2 0.8 37 126-175 34-70 (92)
287 PF07245 Phlebovirus_G2: Phleb 21.9 1.3E+02 0.0028 28.7 4.1 22 55-76 473-494 (507)
288 PRK09039 hypothetical protein; 21.8 1.9E+02 0.0042 25.9 5.1 33 45-77 12-44 (343)
289 PF06679 DUF1180: Protein of u 21.6 1.7E+02 0.0037 23.5 4.3 24 55-78 99-122 (163)
290 cd04718 BAH_plant_2 BAH, or Br 21.6 37 0.00081 26.9 0.5 24 150-173 1-28 (148)
291 PF06937 EURL: EURL protein; 21.4 56 0.0012 28.5 1.5 21 150-170 56-77 (285)
292 PF07406 NICE-3: NICE-3 protei 21.3 1.4E+02 0.003 24.5 3.8 15 63-77 22-36 (186)
293 PF09753 Use1: Membrane fusion 21.2 1.1E+02 0.0024 25.9 3.3 7 50-56 228-234 (251)
294 PRK00420 hypothetical protein; 21.0 74 0.0016 24.0 1.9 11 126-136 24-34 (112)
295 PF15179 Myc_target_1: Myc tar 20.9 2.7E+02 0.0058 23.0 5.2 10 71-80 41-50 (197)
296 COG5574 PEX10 RING-finger-cont 20.6 69 0.0015 27.8 1.9 37 125-161 95-132 (271)
297 PHA02662 ORF131 putative membr 20.5 1.1E+02 0.0023 26.0 2.9 17 61-77 196-212 (226)
298 PF05808 Podoplanin: Podoplani 20.5 33 0.00073 27.5 0.0 26 50-75 130-155 (162)
299 PF09237 GAGA: GAGA factor; I 20.5 37 0.0008 22.1 0.2 12 165-176 26-37 (54)
300 PLN02436 cellulose synthase A 20.2 1.1E+02 0.0023 32.0 3.4 49 126-174 37-89 (1094)
301 TIGR03142 cytochro_ccmI cytoch 20.1 2.3E+02 0.0051 21.0 4.6 10 20-29 69-78 (117)
302 PF10661 EssA: WXG100 protein 20.1 1.9E+02 0.0041 22.7 4.2 9 22-30 88-96 (145)
303 COG0675 Transposase and inacti 20.1 65 0.0014 27.6 1.7 27 126-155 310-336 (364)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.83 E-value=1.7e-20 Score=165.11 Aligned_cols=78 Identities=31% Similarity=0.765 Sum_probs=66.4
Q ss_pred cCCCChhHHhhCCccccCccccCCCCCcccccccccccCCcceeecCCCCCccCccchHHHhccC-CCCccCCccccchh
Q 035743 99 SSGIKNNAIKTFPVVKYSAELKIPGLDAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLH-SSCPKCRHCLIETC 177 (216)
Q Consensus 99 ~~~~~~~~i~~lp~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~-~~CP~CR~~l~~~~ 177 (216)
..++.++.++++|...|....+.... ..|+||||+|+++|++|+|| |+|.||..|||.||..+ ..||+||+++....
T Consensus 204 ~~r~~k~~l~~~p~~~f~~~~~~~~~-~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~ 281 (348)
T KOG4628|consen 204 RNRLIKRLLKKLPVRTFTKGDDEDAT-DTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS 281 (348)
T ss_pred hhhhHHHHHhhCCcEEeccccccCCC-ceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence 44578889999999999886665444 69999999999999999999 99999999999999766 55999999776444
Q ss_pred h
Q 035743 178 E 178 (216)
Q Consensus 178 ~ 178 (216)
.
T Consensus 282 ~ 282 (348)
T KOG4628|consen 282 G 282 (348)
T ss_pred C
Confidence 3
No 2
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.62 E-value=9.3e-17 Score=101.70 Aligned_cols=44 Identities=57% Similarity=1.226 Sum_probs=40.5
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCC
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCR 170 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR 170 (216)
++|+||+++|..++.+..++ |||+||.+||..|++.+.+||+||
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 47999999999999999999 999999999999999999999997
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.43 E-value=7.9e-14 Score=117.95 Aligned_cols=75 Identities=33% Similarity=0.644 Sum_probs=57.0
Q ss_pred CCCChhHHhhCCccccCcccc-CCCCCcccccccccccCCc----ceeecCCCCCccCccchHHHhccCCCCccCCcccc
Q 035743 100 SGIKNNAIKTFPVVKYSAELK-IPGLDAECVICLSEFASGE----LVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLI 174 (216)
Q Consensus 100 ~~~~~~~i~~lp~~~~~~~~~-~~~~~~~C~ICl~~~~~~~----~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 174 (216)
++..++.++.+|.+....+.. ....+.+|+||++++.+++ .+.+++.|+|.||.+||..|++.+.+||+||..+.
T Consensus 148 ~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 148 GKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred cchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 445677888899887554322 2344579999999987643 12345559999999999999999999999998775
No 4
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.41 E-value=7.1e-14 Score=119.92 Aligned_cols=50 Identities=46% Similarity=1.137 Sum_probs=45.9
Q ss_pred CcccccccccccCCcceeecCCCCCccCccchHHHhc-cCCCCccCCccccc
Q 035743 125 DAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLR-LHSSCPKCRHCLIE 175 (216)
Q Consensus 125 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~ 175 (216)
.-+|+|||++|.++|.++++| |+|.||..|+++|+. .+..||+||..+++
T Consensus 323 GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 323 GVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 378999999999999999999 999999999999997 55679999998875
No 5
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.40 E-value=1e-12 Score=115.60 Aligned_cols=70 Identities=29% Similarity=0.709 Sum_probs=52.6
Q ss_pred HHhhCCccccCccccCCCCCccccccccc-ccCC---------cceeecCCCCCccCccchHHHhccCCCCccCCccccc
Q 035743 106 AIKTFPVVKYSAELKIPGLDAECVICLSE-FASG---------ELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLIE 175 (216)
Q Consensus 106 ~i~~lp~~~~~~~~~~~~~~~~C~ICl~~-~~~~---------~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 175 (216)
.-+.++++.-. +...+|..|+||+++ |+.+ .+.+.+| |||+||-+|++.|+.++++||+||.+++-
T Consensus 271 l~~~~~t~t~e---ql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~if 346 (491)
T COG5243 271 LNAMYPTATEE---QLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVIF 346 (491)
T ss_pred HHhhcchhhhh---hhcCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCcccc
Confidence 33445544432 334567899999999 5543 3667899 99999999999999999999999999664
Q ss_pred hhhh
Q 035743 176 TCEK 179 (216)
Q Consensus 176 ~~~~ 179 (216)
...+
T Consensus 347 d~~~ 350 (491)
T COG5243 347 DQSS 350 (491)
T ss_pred ccCC
Confidence 4433
No 6
>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=99.38 E-value=2.5e-13 Score=95.25 Aligned_cols=45 Identities=38% Similarity=0.967 Sum_probs=35.7
Q ss_pred CcccccccccccC----------CcceeecCCCCCccCccchHHHhccCCCCccCC
Q 035743 125 DAECVICLSEFAS----------GELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCR 170 (216)
Q Consensus 125 ~~~C~ICl~~~~~----------~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR 170 (216)
++.|+||++++.+ +-.+...+ |||.||..||..||+.+.+||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence 4569999999932 12444455 999999999999999999999998
No 7
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.24 E-value=7.2e-12 Score=107.13 Aligned_cols=51 Identities=31% Similarity=0.739 Sum_probs=44.1
Q ss_pred CCCCCcccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCccccc
Q 035743 121 IPGLDAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLIE 175 (216)
Q Consensus 121 ~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 175 (216)
.......|.+||+..++ ...+| |||+||+.||..|...+..||+||....+
T Consensus 235 i~~a~~kC~LCLe~~~~---pSaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~p 285 (293)
T KOG0317|consen 235 IPEATRKCSLCLENRSN---PSATP-CGHIFCWSCILEWCSEKAECPLCREKFQP 285 (293)
T ss_pred CCCCCCceEEEecCCCC---CCcCc-CcchHHHHHHHHHHccccCCCcccccCCC
Confidence 34566899999998765 46888 99999999999999999999999987764
No 8
>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=99.09 E-value=5.6e-11 Score=73.85 Aligned_cols=44 Identities=57% Similarity=1.186 Sum_probs=36.8
Q ss_pred ccccccccccCCcceeecCCCCCccCccchHHHhcc-CCCCccCCccc
Q 035743 127 ECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRL-HSSCPKCRHCL 173 (216)
Q Consensus 127 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~l 173 (216)
+|+||++.+ .+.....+ |||.||..|++.|++. +..||.||..+
T Consensus 1 ~C~iC~~~~--~~~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEF--REPVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhh--hCceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 599999998 34455666 9999999999999987 67899999764
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=99.05 E-value=8.1e-11 Score=76.33 Aligned_cols=46 Identities=39% Similarity=0.865 Sum_probs=39.1
Q ss_pred CcccccccccccCCcceeecCCCCCc-cCccchHHHhccCCCCccCCcccc
Q 035743 125 DAECVICLSEFASGELVRLLPKCNHG-FHVRCIDKWLRLHSSCPKCRHCLI 174 (216)
Q Consensus 125 ~~~C~ICl~~~~~~~~~~~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~l~ 174 (216)
+..|.||++...+ +..+| |||. |+..|+..|++.+..||+||+++.
T Consensus 2 ~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSS---EEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCc---eEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 4689999998654 67888 9999 999999999999999999999874
No 10
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.04 E-value=2.4e-10 Score=93.48 Aligned_cols=49 Identities=35% Similarity=0.739 Sum_probs=39.4
Q ss_pred CCCcccccccccccCCcceeecCCCCCccCccchHHHhcc----------------CCCCccCCccccc
Q 035743 123 GLDAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRL----------------HSSCPKCRHCLIE 175 (216)
Q Consensus 123 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~----------------~~~CP~CR~~l~~ 175 (216)
+.+.+|+||++.+++ ..+++ |||.||+.||..|+.. +..||+||..+..
T Consensus 16 ~~~~~CpICld~~~d---PVvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 16 GGDFDCNICLDQVRD---PVVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred CCccCCccCCCcCCC---cEEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 345789999998865 35566 9999999999999842 3479999998864
No 11
>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=99.03 E-value=1.2e-10 Score=71.75 Aligned_cols=39 Identities=44% Similarity=1.054 Sum_probs=32.9
Q ss_pred cccccccccCCcceeecCCCCCccCccchHHHhccCCCCccC
Q 035743 128 CVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKC 169 (216)
Q Consensus 128 C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~C 169 (216)
|+||++.+.+ .+..++ |||.|+.+||..|++.+..||+|
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 8999998877 346777 99999999999999998899998
No 12
>PHA02926 zinc finger-like protein; Provisional
Probab=98.94 E-value=3.8e-10 Score=93.62 Aligned_cols=52 Identities=37% Similarity=0.776 Sum_probs=39.4
Q ss_pred CCCcccccccccccCC-----cceeecCCCCCccCccchHHHhccC------CCCccCCcccc
Q 035743 123 GLDAECVICLSEFASG-----ELVRLLPKCNHGFHVRCIDKWLRLH------SSCPKCRHCLI 174 (216)
Q Consensus 123 ~~~~~C~ICl~~~~~~-----~~~~~lp~C~H~FH~~CI~~Wl~~~------~~CP~CR~~l~ 174 (216)
..+.+|+||||..-++ ....+|+.|+|.||..||..|.+.+ .+||+||..+.
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 4458999999986332 1234676799999999999998653 35999998654
No 13
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.93 E-value=4.8e-10 Score=80.05 Aligned_cols=50 Identities=40% Similarity=0.860 Sum_probs=38.1
Q ss_pred CcccccccccccC--------Ccc-eeecCCCCCccCccchHHHhcc---CCCCccCCcccc
Q 035743 125 DAECVICLSEFAS--------GEL-VRLLPKCNHGFHVRCIDKWLRL---HSSCPKCRHCLI 174 (216)
Q Consensus 125 ~~~C~ICl~~~~~--------~~~-~~~lp~C~H~FH~~CI~~Wl~~---~~~CP~CR~~l~ 174 (216)
++.|.||...|.. ++. ..+.-.|+|.||..||.+|+.. +..||+||+...
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 5789999998863 222 2233359999999999999975 467999998764
No 14
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.91 E-value=3.3e-10 Score=106.87 Aligned_cols=53 Identities=40% Similarity=0.911 Sum_probs=45.4
Q ss_pred CCCcccccccccccCCcc--eeecCCCCCccCccchHHHhccCCCCccCCccccch
Q 035743 123 GLDAECVICLSEFASGEL--VRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLIET 176 (216)
Q Consensus 123 ~~~~~C~ICl~~~~~~~~--~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~ 176 (216)
..+..|+||+|++..++. .+.++ |+|+||..|+..|++++++||+||..+...
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~~~ 343 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLYDY 343 (543)
T ss_pred hcCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhhcc
Confidence 346899999999987654 77888 999999999999999999999999955433
No 15
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.90 E-value=8.9e-10 Score=69.60 Aligned_cols=44 Identities=32% Similarity=0.781 Sum_probs=38.6
Q ss_pred ccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCc
Q 035743 127 ECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRH 171 (216)
Q Consensus 127 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~ 171 (216)
+|.||+++|.++....+++ |||+|+..|++.+......||+||+
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 5999999996666788888 9999999999999866778999985
No 16
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.90 E-value=6.6e-10 Score=89.14 Aligned_cols=54 Identities=28% Similarity=0.580 Sum_probs=43.4
Q ss_pred CCCCCcccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCccccch
Q 035743 121 IPGLDAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLIET 176 (216)
Q Consensus 121 ~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~ 176 (216)
.++.-..|+|||+.+.+... +-.+|||+||..||+.-++....||+||..+..+
T Consensus 127 ~~~~~~~CPiCl~~~sek~~--vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k 180 (187)
T KOG0320|consen 127 RKEGTYKCPICLDSVSEKVP--VSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHK 180 (187)
T ss_pred ccccccCCCceecchhhccc--cccccchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence 34455889999999987533 3234999999999999999999999999866543
No 17
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.85 E-value=1.2e-09 Score=91.04 Aligned_cols=49 Identities=29% Similarity=0.626 Sum_probs=39.2
Q ss_pred CCCCcccccccccccCCcceeecCCCCCccCccchHHHhccC---CCCccCCcccc
Q 035743 122 PGLDAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLH---SSCPKCRHCLI 174 (216)
Q Consensus 122 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~---~~CP~CR~~l~ 174 (216)
++...+|.|||+.-++ ..++. |||.|||-||-+||..+ +.||+||..+.
T Consensus 44 ~~~~FdCNICLd~akd---PVvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs 95 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKD---PVVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVS 95 (230)
T ss_pred CCCceeeeeeccccCC---CEEee-cccceehHHHHHHHhhcCCCeeCCccccccc
Confidence 4556899999998554 34555 99999999999999764 46999998665
No 18
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.78 E-value=2.4e-09 Score=66.30 Aligned_cols=39 Identities=49% Similarity=1.126 Sum_probs=33.1
Q ss_pred cccccccccCCcceeecCCCCCccCccchHHHhc--cCCCCccC
Q 035743 128 CVICLSEFASGELVRLLPKCNHGFHVRCIDKWLR--LHSSCPKC 169 (216)
Q Consensus 128 C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~--~~~~CP~C 169 (216)
|+||++.+.+. .++++ |||.|+..||..|++ ....||+|
T Consensus 1 C~iC~~~~~~~--~~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDP--VILLP-CGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSE--EEETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCC--CEEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999998764 35777 999999999999998 45579998
No 19
>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=98.78 E-value=3.2e-09 Score=63.57 Aligned_cols=38 Identities=47% Similarity=1.131 Sum_probs=32.1
Q ss_pred cccccccccCCcceeecCCCCCccCccchHHHhc-cCCCCccC
Q 035743 128 CVICLSEFASGELVRLLPKCNHGFHVRCIDKWLR-LHSSCPKC 169 (216)
Q Consensus 128 C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~-~~~~CP~C 169 (216)
|+||++.. .....++ |||.||..|++.|++ .+..||+|
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 3467787 999999999999998 56679987
No 20
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.70 E-value=8.6e-09 Score=93.83 Aligned_cols=50 Identities=34% Similarity=0.806 Sum_probs=39.6
Q ss_pred CcccccccccccCC---c-----------ceeecCCCCCccCccchHHHhc-cCCCCccCCccccc
Q 035743 125 DAECVICLSEFASG---E-----------LVRLLPKCNHGFHVRCIDKWLR-LHSSCPKCRHCLIE 175 (216)
Q Consensus 125 ~~~C~ICl~~~~~~---~-----------~~~~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~ 175 (216)
...|+||+.++.-- . ...++| |+|+||..|+..|+. .+..||+||.+|++
T Consensus 571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred cccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 36899999997521 1 233568 999999999999998 45589999999874
No 21
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.69 E-value=1.9e-08 Score=85.61 Aligned_cols=50 Identities=30% Similarity=0.688 Sum_probs=40.3
Q ss_pred CCcccccccccccCCc-------ceeecCCCCCccCccchHHH--hccCCCCccCCcccc
Q 035743 124 LDAECVICLSEFASGE-------LVRLLPKCNHGFHVRCIDKW--LRLHSSCPKCRHCLI 174 (216)
Q Consensus 124 ~~~~C~ICl~~~~~~~-------~~~~lp~C~H~FH~~CI~~W--l~~~~~CP~CR~~l~ 174 (216)
++..|+||-..+.... .+-.|. |+|+||..||..| +.++++||.|+..+-
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 3478999998886543 566787 9999999999999 467889999986543
No 22
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.68 E-value=9.9e-09 Score=64.24 Aligned_cols=38 Identities=39% Similarity=0.962 Sum_probs=28.9
Q ss_pred cccccccccCCcceeecCCCCCccCccchHHHhccC----CCCccC
Q 035743 128 CVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLH----SSCPKC 169 (216)
Q Consensus 128 C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~----~~CP~C 169 (216)
|+||++-|.+ ...++ |||.|+..||..|++.. ..||.|
T Consensus 1 CpiC~~~~~~---Pv~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD---PVSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS---EEE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCC---ccccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999977 46677 99999999999998654 359988
No 23
>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=98.63 E-value=2.4e-08 Score=67.24 Aligned_cols=45 Identities=29% Similarity=0.499 Sum_probs=39.1
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCcccc
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLI 174 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 174 (216)
..|+||++.+.+. .+++ |||+|...||..|++.+..||+|+..+.
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 4699999998763 4567 9999999999999998889999998763
No 24
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.61 E-value=1.7e-08 Score=70.73 Aligned_cols=32 Identities=38% Similarity=0.823 Sum_probs=28.4
Q ss_pred CCCCccCccchHHHhccCCCCccCCccccchh
Q 035743 146 KCNHGFHVRCIDKWLRLHSSCPKCRHCLIETC 177 (216)
Q Consensus 146 ~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~ 177 (216)
.|+|.||..||..||..+..||++|+..+.+.
T Consensus 53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~~ 84 (88)
T COG5194 53 VCNHAFHDHCIYRWLDTKGVCPLDRQTWVLAD 84 (88)
T ss_pred ecchHHHHHHHHHHHhhCCCCCCCCceeEEec
Confidence 39999999999999999999999998876443
No 25
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.53 E-value=3.9e-08 Score=89.00 Aligned_cols=48 Identities=31% Similarity=0.597 Sum_probs=40.8
Q ss_pred CCCcccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCcccc
Q 035743 123 GLDAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLI 174 (216)
Q Consensus 123 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 174 (216)
+....|+||++.|... .+++ |||.||..||..|+..+..||+||..+.
T Consensus 24 e~~l~C~IC~d~~~~P---vitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~ 71 (397)
T TIGR00599 24 DTSLRCHICKDFFDVP---VLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQ 71 (397)
T ss_pred ccccCCCcCchhhhCc---cCCC-CCCchhHHHHHHHHhCCCCCCCCCCccc
Confidence 3457899999998653 4677 9999999999999988888999998765
No 26
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.49 E-value=4.5e-08 Score=83.13 Aligned_cols=50 Identities=30% Similarity=0.677 Sum_probs=41.4
Q ss_pred CCCcccccccccccCCcceeecCCCCCccCccchHH-HhccCCC-CccCCccccch
Q 035743 123 GLDAECVICLSEFASGELVRLLPKCNHGFHVRCIDK-WLRLHSS-CPKCRHCLIET 176 (216)
Q Consensus 123 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~-Wl~~~~~-CP~CR~~l~~~ 176 (216)
..+.+|+||++.... ...++ |||+|++.||-. |-+++.. ||+||+...++
T Consensus 213 ~~d~kC~lC~e~~~~---ps~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk 264 (271)
T COG5574 213 LADYKCFLCLEEPEV---PSCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPK 264 (271)
T ss_pred ccccceeeeecccCC---ccccc-ccchhhHHHHHHHHHhhccccCchhhhhccch
Confidence 456899999998765 45777 999999999999 9777665 99999877654
No 27
>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=98.40 E-value=1.5e-07 Score=60.90 Aligned_cols=42 Identities=24% Similarity=0.697 Sum_probs=32.3
Q ss_pred ccccccccccCCcceeecCCCC-----CccCccchHHHhccC--CCCccCC
Q 035743 127 ECVICLSEFASGELVRLLPKCN-----HGFHVRCIDKWLRLH--SSCPKCR 170 (216)
Q Consensus 127 ~C~ICl~~~~~~~~~~~lp~C~-----H~FH~~CI~~Wl~~~--~~CP~CR 170 (216)
.|.||++ ...++...+.| |. |.+|..|+..|+..+ .+||+|+
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 3899998 33444555778 85 899999999999554 4799995
No 28
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.38 E-value=7.8e-08 Score=66.79 Aligned_cols=50 Identities=32% Similarity=0.763 Sum_probs=23.6
Q ss_pred Cccccccccccc-CCc-ceeecC--CCCCccCccchHHHhcc----C-------CCCccCCcccc
Q 035743 125 DAECVICLSEFA-SGE-LVRLLP--KCNHGFHVRCIDKWLRL----H-------SSCPKCRHCLI 174 (216)
Q Consensus 125 ~~~C~ICl~~~~-~~~-~~~~lp--~C~H~FH~~CI~~Wl~~----~-------~~CP~CR~~l~ 174 (216)
+.+|.||++.+. .++ ...+.+ .|++.||..||..||.. + ..||.|+.+|.
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 368999999876 322 233443 69999999999999853 1 14999998875
No 29
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.35 E-value=4.6e-08 Score=67.95 Aligned_cols=49 Identities=37% Similarity=0.798 Sum_probs=35.5
Q ss_pred cccccccccccC--------Ccc-eeecCCCCCccCccchHHHhccC---CCCccCCcccc
Q 035743 126 AECVICLSEFAS--------GEL-VRLLPKCNHGFHVRCIDKWLRLH---SSCPKCRHCLI 174 (216)
Q Consensus 126 ~~C~ICl~~~~~--------~~~-~~~lp~C~H~FH~~CI~~Wl~~~---~~CP~CR~~l~ 174 (216)
+.|-||.-.|.. +|. ..++-.|.|.||..||.+|+..+ ..||+||+...
T Consensus 21 e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 21 ETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 478888888853 221 11233499999999999999654 45999998754
No 30
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.31 E-value=2.4e-07 Score=58.21 Aligned_cols=34 Identities=35% Similarity=0.761 Sum_probs=21.5
Q ss_pred cccccccccCCc-ceeecCCCCCccCccchHHHhccC
Q 035743 128 CVICLSEFASGE-LVRLLPKCNHGFHVRCIDKWLRLH 163 (216)
Q Consensus 128 C~ICl~~~~~~~-~~~~lp~C~H~FH~~CI~~Wl~~~ 163 (216)
|+||.+ |...+ ...+|+ |||+|..+||+.|++..
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 75543 567898 99999999999999754
No 31
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.27 E-value=1.4e-07 Score=91.58 Aligned_cols=51 Identities=33% Similarity=0.759 Sum_probs=39.0
Q ss_pred CCcccccccccccCCc---ceeecCCCCCccCccchHHHhccC--CCCccCCcccc
Q 035743 124 LDAECVICLSEFASGE---LVRLLPKCNHGFHVRCIDKWLRLH--SSCPKCRHCLI 174 (216)
Q Consensus 124 ~~~~C~ICl~~~~~~~---~~~~lp~C~H~FH~~CI~~Wl~~~--~~CP~CR~~l~ 174 (216)
+.+||+||..-+..-| .-..+++|+|.||..|+.+|++.. .+||+||..+.
T Consensus 1468 G~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1468 GHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 4579999998775211 223566799999999999999764 57999997654
No 32
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.24 E-value=3e-07 Score=83.12 Aligned_cols=48 Identities=40% Similarity=0.908 Sum_probs=39.5
Q ss_pred CcccccccccccCCc-ceeecCCCCCccCccchHHHhccCCCCccCCccccc
Q 035743 125 DAECVICLSEFASGE-LVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLIE 175 (216)
Q Consensus 125 ~~~C~ICl~~~~~~~-~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 175 (216)
-.+|+||||.+...- .++... |.|.||..|+..| ...+||+||....+
T Consensus 175 LPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w--~~~scpvcR~~q~p 223 (493)
T KOG0804|consen 175 LPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKW--WDSSCPVCRYCQSP 223 (493)
T ss_pred CCCcchhHhhcCccccceeeee-cccccchHHHhhc--ccCcChhhhhhcCc
Confidence 468999999997654 445555 9999999999999 56789999987764
No 33
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.14 E-value=8.2e-07 Score=81.61 Aligned_cols=47 Identities=32% Similarity=0.628 Sum_probs=37.0
Q ss_pred CcccccccccccCCcceeecCCCCCccCccchHHHhccC-----CCCccCCccccc
Q 035743 125 DAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLH-----SSCPKCRHCLIE 175 (216)
Q Consensus 125 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~-----~~CP~CR~~l~~ 175 (216)
+..|+|||++.... .++. |||+||..||-.++... ..||+||..+..
T Consensus 186 ~~~CPICL~~~~~p---~~t~-CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP---VRTN-CGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCCcc---cccc-cCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 57899999986553 3444 99999999999987543 479999987664
No 34
>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=98.09 E-value=2.2e-06 Score=75.09 Aligned_cols=51 Identities=25% Similarity=0.581 Sum_probs=37.0
Q ss_pred Cccccccccc-ccCCc-ceeecCCCCCccCccchHHHh-ccCCCCccCCccccch
Q 035743 125 DAECVICLSE-FASGE-LVRLLPKCNHGFHVRCIDKWL-RLHSSCPKCRHCLIET 176 (216)
Q Consensus 125 ~~~C~ICl~~-~~~~~-~~~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~l~~~ 176 (216)
+..|++|.++ +...+ .+.+-+ |||.||..||+..+ .....||.|+..+-..
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 3579999997 33333 333334 99999999999965 4455799999877644
No 35
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.09 E-value=1.2e-06 Score=75.54 Aligned_cols=48 Identities=29% Similarity=0.559 Sum_probs=40.2
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCccccchh
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLIETC 177 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~ 177 (216)
..|-||-+-|... -.++ |||.||.-||...|..+..||+||.+..+..
T Consensus 26 lrC~IC~~~i~ip---~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~esr 73 (391)
T COG5432 26 LRCRICDCRISIP---CETT-CGHTFCSLCIRRHLGTQPFCPVCREDPCESR 73 (391)
T ss_pred HHhhhhhheeecc---eecc-cccchhHHHHHHHhcCCCCCccccccHHhhh
Confidence 6899998887652 3455 9999999999999999999999998765443
No 36
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.06 E-value=9.7e-07 Score=77.46 Aligned_cols=47 Identities=34% Similarity=0.794 Sum_probs=41.6
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCccccch
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLIET 176 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~ 176 (216)
..|-||.+=|.. ..++| |+|.||.-||..+|..+..||.|+..+.+.
T Consensus 24 LRC~IC~eyf~i---p~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es 70 (442)
T KOG0287|consen 24 LRCGICFEYFNI---PMITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTES 70 (442)
T ss_pred HHHhHHHHHhcC---ceecc-ccchHHHHHHHHHhccCCCCCceecccchh
Confidence 679999998876 35778 999999999999999999999999887654
No 37
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.03 E-value=1.4e-06 Score=72.54 Aligned_cols=63 Identities=27% Similarity=0.613 Sum_probs=50.9
Q ss_pred ccCccccCCCCCcccccccccccCCcceeecCCCCCccCccchHHHhcc--------CCCCccCCccccchhh
Q 035743 114 KYSAELKIPGLDAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRL--------HSSCPKCRHCLIETCE 178 (216)
Q Consensus 114 ~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~--------~~~CP~CR~~l~~~~~ 178 (216)
.|-+.....+....|..|-..+..+|.+|+. |-|+||++|+++|-.. ...||.|...+++.-+
T Consensus 39 SYLqWL~DsDY~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~N 109 (299)
T KOG3970|consen 39 SYLQWLQDSDYNPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPIN 109 (299)
T ss_pred HHHHHHhhcCCCCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCcc
Confidence 4555566666678899999999999999876 9999999999999643 3469999999886544
No 38
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.03 E-value=2.9e-06 Score=59.23 Aligned_cols=47 Identities=26% Similarity=0.435 Sum_probs=36.3
Q ss_pred CcccccccccccCCcceeecCCCCCccCccchHHHhcc-CCCCccCCccccc
Q 035743 125 DAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRL-HSSCPKCRHCLIE 175 (216)
Q Consensus 125 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~ 175 (216)
...|+|+.+-+.+ ..+++ +||.|...||..|++. +.+||+|+..+..
T Consensus 4 ~f~CpIt~~lM~d---PVi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~ 51 (73)
T PF04564_consen 4 EFLCPITGELMRD---PVILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSE 51 (73)
T ss_dssp GGB-TTTSSB-SS---EEEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred ccCCcCcCcHhhC---ceeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence 3689999999977 45677 9999999999999988 7899999987764
No 39
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.01 E-value=1.8e-06 Score=73.10 Aligned_cols=44 Identities=39% Similarity=0.802 Sum_probs=38.6
Q ss_pred CCCcccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCC
Q 035743 123 GLDAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCR 170 (216)
Q Consensus 123 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR 170 (216)
.....|+||++.|... .+++ |+|.|+..||..|+.....||.||
T Consensus 11 ~~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr 54 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCR 54 (386)
T ss_pred cccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccC
Confidence 3457899999999886 7888 999999999999988556799999
No 40
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.00 E-value=2.1e-06 Score=63.05 Aligned_cols=49 Identities=31% Similarity=0.784 Sum_probs=35.9
Q ss_pred ccccccccccc------------CCcceeec-CCCCCccCccchHHHhccCCCCccCCcccc
Q 035743 126 AECVICLSEFA------------SGELVRLL-PKCNHGFHVRCIDKWLRLHSSCPKCRHCLI 174 (216)
Q Consensus 126 ~~C~ICl~~~~------------~~~~~~~l-p~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 174 (216)
+.|+||...+- ..++..+. -.|+|.||..||..||+.+..||+|.+.-.
T Consensus 47 DnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~ 108 (114)
T KOG2930|consen 47 DNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWV 108 (114)
T ss_pred chhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCccee
Confidence 67999876551 12222221 139999999999999999999999976543
No 41
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.99 E-value=2e-06 Score=76.64 Aligned_cols=45 Identities=31% Similarity=0.843 Sum_probs=34.6
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhccC---CCCccCC
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLH---SSCPKCR 170 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~---~~CP~CR 170 (216)
.+|.||.+-+.....+.-+..|||+||..|+..|+..- .+||.||
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence 58999944344444555565699999999999999764 3699998
No 42
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.95 E-value=4.1e-06 Score=75.12 Aligned_cols=47 Identities=34% Similarity=0.849 Sum_probs=38.4
Q ss_pred Cccccccccccc-CCcceeecCCCCCccCccchHHHhcc--CCCCccCCc
Q 035743 125 DAECVICLSEFA-SGELVRLLPKCNHGFHVRCIDKWLRL--HSSCPKCRH 171 (216)
Q Consensus 125 ~~~C~ICl~~~~-~~~~~~~lp~C~H~FH~~CI~~Wl~~--~~~CP~CR~ 171 (216)
...|+|||+.++ .++...+.+.|||.|-.+||+.||.+ ...||.|..
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ 53 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSG 53 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCC
Confidence 468999999987 56666677779999999999999952 236999965
No 43
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.80 E-value=1.2e-05 Score=71.06 Aligned_cols=52 Identities=37% Similarity=0.664 Sum_probs=41.3
Q ss_pred CCCcccccccccccCCcceeecCCCCCc-cCccchHHHhccCCCCccCCccccchhh
Q 035743 123 GLDAECVICLSEFASGELVRLLPKCNHG-FHVRCIDKWLRLHSSCPKCRHCLIETCE 178 (216)
Q Consensus 123 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~l~~~~~ 178 (216)
+...+|.|||++-.+ +.+|| |.|. .|..|.+.-.-.+..||+||+++.+.-+
T Consensus 288 ~~gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ll~ 340 (349)
T KOG4265|consen 288 ESGKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEELLE 340 (349)
T ss_pred cCCCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchHhhhe
Confidence 335799999999766 67899 9996 6778888865567789999998876544
No 44
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.72 E-value=1.6e-05 Score=53.76 Aligned_cols=49 Identities=27% Similarity=0.503 Sum_probs=24.0
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCccccchhhh
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLIETCEK 179 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~~ 179 (216)
..|++|.+-+... +.+. .|.|+|+..||..-+.. .||+|+.+.-.+.-+
T Consensus 8 LrCs~C~~~l~~p--v~l~-~CeH~fCs~Ci~~~~~~--~CPvC~~Paw~qD~~ 56 (65)
T PF14835_consen 8 LRCSICFDILKEP--VCLG-GCEHIFCSSCIRDCIGS--ECPVCHTPAWIQDIQ 56 (65)
T ss_dssp TS-SSS-S--SS---B----SSS--B-TTTGGGGTTT--B-SSS--B-S-SS--
T ss_pred cCCcHHHHHhcCC--ceec-cCccHHHHHHhHHhcCC--CCCCcCChHHHHHHH
Confidence 4699999887552 4344 49999999999986653 599999887655544
No 45
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.66 E-value=2.2e-05 Score=69.99 Aligned_cols=51 Identities=37% Similarity=0.834 Sum_probs=38.7
Q ss_pred CCCcccccccccccCCc----ceeecCCCCCccCccchHHHh--cc-----CCCCccCCccc
Q 035743 123 GLDAECVICLSEFASGE----LVRLLPKCNHGFHVRCIDKWL--RL-----HSSCPKCRHCL 173 (216)
Q Consensus 123 ~~~~~C~ICl~~~~~~~----~~~~lp~C~H~FH~~CI~~Wl--~~-----~~~CP~CR~~l 173 (216)
..+.+|.||++...+.. -..++|.|.|.|+..||+.|- +. .+.||.||...
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 34689999999876532 133457799999999999996 33 46799999754
No 46
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.66 E-value=7.3e-06 Score=70.98 Aligned_cols=52 Identities=33% Similarity=0.754 Sum_probs=43.7
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhcc-----------------------CCCCccCCccccchhh
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRL-----------------------HSSCPKCRHCLIETCE 178 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~-----------------------~~~CP~CR~~l~~~~~ 178 (216)
..|.|||--|.+++...+++ |.|.||..|+..+|.. +..||+||..+....+
T Consensus 116 gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~~ 190 (368)
T KOG4445|consen 116 GQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEEN 190 (368)
T ss_pred CceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccccc
Confidence 57999999999999999998 9999999999988631 1259999998876554
No 47
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.64 E-value=7.6e-06 Score=78.49 Aligned_cols=49 Identities=22% Similarity=0.409 Sum_probs=41.9
Q ss_pred CcccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCcccc
Q 035743 125 DAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLI 174 (216)
Q Consensus 125 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 174 (216)
...|++||..+.++......+ |+|.||..||+.|-+.-.+||+||..+.
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~ 171 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFG 171 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhh
Confidence 467999999988876666666 9999999999999999999999997543
No 48
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.52 E-value=7.2e-06 Score=72.42 Aligned_cols=52 Identities=35% Similarity=0.636 Sum_probs=42.3
Q ss_pred CcccccccccccCCcceeecCCCCCccCccchHHHhcc-CCCCccCCccccchhhh
Q 035743 125 DAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRL-HSSCPKCRHCLIETCEK 179 (216)
Q Consensus 125 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~~~~~ 179 (216)
+..|+|||+-++. .+.++.|.|-||.+||..-++. +++||.||+.+..+..-
T Consensus 43 ~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsL 95 (381)
T KOG0311|consen 43 QVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSL 95 (381)
T ss_pred hhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccC
Confidence 4679999998876 3566679999999999998865 56899999988855443
No 49
>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=97.45 E-value=2.8e-05 Score=60.16 Aligned_cols=35 Identities=23% Similarity=0.557 Sum_probs=31.3
Q ss_pred CcccccccccccCCcceeecCCCC------CccCccchHHHh
Q 035743 125 DAECVICLSEFASGELVRLLPKCN------HGFHVRCIDKWL 160 (216)
Q Consensus 125 ~~~C~ICl~~~~~~~~~~~lp~C~------H~FH~~CI~~Wl 160 (216)
..||+||++.+.+++++..++ || |+||.+|+++|-
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHH
Confidence 479999999999877888888 76 999999999994
No 50
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.38 E-value=3.1e-05 Score=50.61 Aligned_cols=46 Identities=30% Similarity=0.604 Sum_probs=31.3
Q ss_pred CcccccccccccCCcceeecCCCCCc-cCccch-HHHhccCCCCccCCcccc
Q 035743 125 DAECVICLSEFASGELVRLLPKCNHG-FHVRCI-DKWLRLHSSCPKCRHCLI 174 (216)
Q Consensus 125 ~~~C~ICl~~~~~~~~~~~lp~C~H~-FH~~CI-~~Wl~~~~~CP~CR~~l~ 174 (216)
++||.||+|.-.+. ++-.|||+ .+-+|- ..|-..+..||+||+++.
T Consensus 7 ~dECTICye~pvds----VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPVDS----VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCcchH----HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 47999999875442 33349997 234443 344446789999998874
No 51
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.33 E-value=0.00011 Score=66.02 Aligned_cols=52 Identities=29% Similarity=0.660 Sum_probs=40.8
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhcc--CCCCccCCccccchhhhhh
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRL--HSSCPKCRHCLIETCEKIM 181 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~--~~~CP~CR~~l~~~~~~~~ 181 (216)
..|-||-|. +..+++-| |||..|..|+..|-.. .++||.||..+-.+..-++
T Consensus 370 eLCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~vii 423 (563)
T KOG1785|consen 370 ELCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPVII 423 (563)
T ss_pred HHHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEeccccceee
Confidence 469999765 45588888 9999999999999633 5789999998775554433
No 52
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.30 E-value=4.9e-05 Score=72.99 Aligned_cols=45 Identities=24% Similarity=0.736 Sum_probs=35.1
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhcc-CCCCccCCcccc
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRL-HSSCPKCRHCLI 174 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~l~ 174 (216)
..|++|-+.+.+ .++++|+|+||..||..-+.. +..||.|...+-
T Consensus 644 LkCs~Cn~R~Kd----~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFg 689 (698)
T KOG0978|consen 644 LKCSVCNTRWKD----AVITKCGHVFCEECVQTRYETRQRKCPKCNAAFG 689 (698)
T ss_pred eeCCCccCchhh----HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCC
Confidence 579999876655 244459999999999999865 457999976653
No 53
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.30 E-value=9.8e-05 Score=64.11 Aligned_cols=45 Identities=29% Similarity=0.537 Sum_probs=36.4
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhccC-CCCccCCcccc
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLH-SSCPKCRHCLI 174 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~-~~CP~CR~~l~ 174 (216)
.+|+||+....- ...++ |+|.|+..||+.=.+.. .+|++||.++.
T Consensus 8 ~eC~IC~nt~n~---Pv~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pid 53 (324)
T KOG0824|consen 8 KECLICYNTGNC---PVNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPID 53 (324)
T ss_pred CcceeeeccCCc---Ccccc-ccchhhhhhhcchhhcCCCCCceecCCCC
Confidence 689999987543 24566 99999999999876554 56999999876
No 54
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.16 E-value=0.00032 Score=63.98 Aligned_cols=53 Identities=30% Similarity=0.602 Sum_probs=42.4
Q ss_pred CCCCcccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCccccchh
Q 035743 122 PGLDAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLIETC 177 (216)
Q Consensus 122 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~ 177 (216)
.+.+..|++|...+.+. +..+ .|||.|+..|+..|+..+..||.|+..+....
T Consensus 18 ~~~~l~C~~C~~vl~~p--~~~~-~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~ 70 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDP--VQTT-TCGHRFCAGCLLESLSNHQKCPVCRQELTQAE 70 (391)
T ss_pred CcccccCccccccccCC--CCCC-CCCCcccccccchhhccCcCCcccccccchhh
Confidence 34557899999998774 2223 49999999999999999999999988776443
No 55
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.08 E-value=0.00022 Score=47.49 Aligned_cols=41 Identities=27% Similarity=0.587 Sum_probs=27.7
Q ss_pred CcccccccccccCCcceeecCCCCCccCccchHHHhcc--CCCCcc
Q 035743 125 DAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRL--HSSCPK 168 (216)
Q Consensus 125 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~--~~~CP~ 168 (216)
...|+|.+..|++ .++-.. |||+|-.+.|..|+++ ...||+
T Consensus 11 ~~~CPiT~~~~~~--PV~s~~-C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 11 SLKCPITLQPFED--PVKSKK-CGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp -SB-TTTSSB-SS--EEEESS-S--EEEHHHHHHHCTTTS-EE-SC
T ss_pred ccCCCCcCChhhC--CcCcCC-CCCeecHHHHHHHHHhcCCCCCCC
Confidence 4789999999876 355555 9999999999999944 346998
No 56
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.02 E-value=0.00015 Score=65.08 Aligned_cols=45 Identities=38% Similarity=0.911 Sum_probs=37.9
Q ss_pred Cccccccccccc-CCcceeecCCCCCccCccchHHHhccC--CCCccCC
Q 035743 125 DAECVICLSEFA-SGELVRLLPKCNHGFHVRCIDKWLRLH--SSCPKCR 170 (216)
Q Consensus 125 ~~~C~ICl~~~~-~~~~~~~lp~C~H~FH~~CI~~Wl~~~--~~CP~CR 170 (216)
+..|-.|-+.+. .++.+..+| |.|+||..|+.+.|.++ .+||.||
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Cr 412 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCR 412 (518)
T ss_pred hhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHH
Confidence 367999998885 456788899 99999999999999655 4799998
No 57
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.98 E-value=0.00028 Score=56.19 Aligned_cols=42 Identities=31% Similarity=0.744 Sum_probs=32.6
Q ss_pred CccccCccccCCCCCcccccccccccCCcceeecCCCCCccCcc
Q 035743 111 PVVKYSAELKIPGLDAECVICLSEFASGELVRLLPKCNHGFHVR 154 (216)
Q Consensus 111 p~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~ 154 (216)
|...|..+ .+.+...||.||||+++.++++-.|| |-.+||+.
T Consensus 164 PrlsYNdD-VL~ddkGECvICLEdL~~GdtIARLP-CLCIYHK~ 205 (205)
T KOG0801|consen 164 PRLSYNDD-VLKDDKGECVICLEDLEAGDTIARLP-CLCIYHKQ 205 (205)
T ss_pred cccccccc-hhcccCCcEEEEhhhccCCCceeccc-eEEEeecC
Confidence 45555432 23345579999999999999999999 99999973
No 58
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.98 E-value=0.0004 Score=70.76 Aligned_cols=64 Identities=28% Similarity=0.595 Sum_probs=46.2
Q ss_pred CCccccCccccCCCCCcccccccccccCCcceeecCCCCCccCccchHHHhccC----------CCCccCCcccc
Q 035743 110 FPVVKYSAELKIPGLDAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLH----------SSCPKCRHCLI 174 (216)
Q Consensus 110 lp~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~----------~~CP~CR~~l~ 174 (216)
+|-..-+.+....+.++.|.||+.+--.....+.|. |+|+||-+|...-|.++ .+||+|+..+-
T Consensus 3471 LPCl~Cdks~tkQD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3471 LPCLHCDKSATKQDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred ccccccChhhhhcccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 333333333334466789999999877777788887 99999999998755432 26999998664
No 59
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.80 E-value=0.00051 Score=62.53 Aligned_cols=49 Identities=33% Similarity=0.811 Sum_probs=41.6
Q ss_pred CCCcccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCccccc
Q 035743 123 GLDAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLIE 175 (216)
Q Consensus 123 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 175 (216)
..+.+|.||+.-+.. ...+| |||.|+..||+.-+.....||.||..+.+
T Consensus 82 ~sef~c~vc~~~l~~---pv~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYP---PVVTP-CGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCC---Ccccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence 345899999888766 45678 99999999999988877889999999885
No 60
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=96.73 E-value=0.00051 Score=66.79 Aligned_cols=49 Identities=35% Similarity=0.770 Sum_probs=39.3
Q ss_pred CCCcccccccccccCCcceeecCCCCCccCccchHHHhccC-------CCCccCCc
Q 035743 123 GLDAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLH-------SSCPKCRH 171 (216)
Q Consensus 123 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~-------~~CP~CR~ 171 (216)
....+|.||++.+...+.+--...|.|+||..||..|-+.. -.||.|..
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 44579999999998877666666699999999999997432 15999973
No 61
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=96.68 E-value=0.0011 Score=42.34 Aligned_cols=40 Identities=33% Similarity=0.875 Sum_probs=26.6
Q ss_pred cccccccccCCcceeecCCCC-----CccCccchHHHhcc--CCCCccC
Q 035743 128 CVICLSEFASGELVRLLPKCN-----HGFHVRCIDKWLRL--HSSCPKC 169 (216)
Q Consensus 128 C~ICl~~~~~~~~~~~lp~C~-----H~FH~~CI~~Wl~~--~~~CP~C 169 (216)
|-||+++-..++ ..+.| |+ ..-|..|+..|+.. +..|++|
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 779999877655 23455 54 47899999999864 4569887
No 62
>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=96.63 E-value=0.00097 Score=49.07 Aligned_cols=31 Identities=26% Similarity=0.784 Sum_probs=26.5
Q ss_pred CcccccccccccCCcceeecCCCCCccCccchH
Q 035743 125 DAECVICLSEFASGELVRLLPKCNHGFHVRCID 157 (216)
Q Consensus 125 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~ 157 (216)
+..|++|-..+.. ....+.| |||+||..|++
T Consensus 78 ~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~ 108 (109)
T PF10367_consen 78 STKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK 108 (109)
T ss_pred CCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence 4679999999977 5677888 99999999985
No 63
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=96.58 E-value=0.0039 Score=54.94 Aligned_cols=48 Identities=21% Similarity=0.327 Sum_probs=37.5
Q ss_pred CCCCcccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCcc
Q 035743 122 PGLDAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHC 172 (216)
Q Consensus 122 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~ 172 (216)
+.....|+||+...+++ . ++..-|-+||..||-.++.++..||+=-.+
T Consensus 297 ~~~~~~CpvClk~r~Np-t--vl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p 344 (357)
T KOG0826|consen 297 PPDREVCPVCLKKRQNP-T--VLEVSGYVFCYPCIFSYVVNYGHCPVTGYP 344 (357)
T ss_pred CCccccChhHHhccCCC-c--eEEecceEEeHHHHHHHHHhcCCCCccCCc
Confidence 45558999999887764 2 232269999999999999999999985443
No 64
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.41 E-value=0.0011 Score=58.90 Aligned_cols=45 Identities=31% Similarity=0.578 Sum_probs=33.1
Q ss_pred CCcccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCccccc
Q 035743 124 LDAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLIE 175 (216)
Q Consensus 124 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 175 (216)
....|.||+++..+ ...+| |||+=+ |...-. ....||+||+.+..
T Consensus 304 ~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs~-~l~~CPvCR~rI~~ 348 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCSK-HLPQCPVCRQRIRL 348 (355)
T ss_pred CCCceEEecCCccc---eeeec-CCcEEE--chHHHh-hCCCCchhHHHHHH
Confidence 34789999999766 67888 999944 766643 33459999987653
No 65
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.11 E-value=0.0045 Score=49.31 Aligned_cols=50 Identities=24% Similarity=0.626 Sum_probs=34.4
Q ss_pred CCcccccccccccCCcceeecCCCCC---ccCccchHHHhccC--CCCccCCccccch
Q 035743 124 LDAECVICLSEFASGELVRLLPKCNH---GFHVRCIDKWLRLH--SSCPKCRHCLIET 176 (216)
Q Consensus 124 ~~~~C~ICl~~~~~~~~~~~lp~C~H---~FH~~CI~~Wl~~~--~~CP~CR~~l~~~ 176 (216)
.+.+|-||.++-. +...-.. |.. .-|.+|++.|+..+ ..|+.|++...-.
T Consensus 7 ~~~~CRIC~~~~~--~~~~PC~-CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 7 MDKCCWICKDEYD--VVTNYCN-CKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred CCCeeEecCCCCC--CccCCcc-cCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 4478999998843 2222222 444 56999999998654 4699998876533
No 66
>PHA02862 5L protein; Provisional
Probab=96.05 E-value=0.0039 Score=48.87 Aligned_cols=45 Identities=20% Similarity=0.527 Sum_probs=33.7
Q ss_pred cccccccccccCCcceeecCCCC-----CccCccchHHHhcc--CCCCccCCccccc
Q 035743 126 AECVICLSEFASGELVRLLPKCN-----HGFHVRCIDKWLRL--HSSCPKCRHCLIE 175 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~-----H~FH~~CI~~Wl~~--~~~CP~CR~~l~~ 175 (216)
+.|-||+++-++ .. -| |+ ..-|.+|+.+|++. +..|++|+....-
T Consensus 3 diCWIC~~~~~e--~~--~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I 54 (156)
T PHA02862 3 DICWICNDVCDE--RN--NF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI 54 (156)
T ss_pred CEEEEecCcCCC--Cc--cc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence 679999998433 23 44 54 67899999999954 4579999987753
No 67
>PHA03096 p28-like protein; Provisional
Probab=95.98 E-value=0.0024 Score=55.79 Aligned_cols=37 Identities=27% Similarity=0.673 Sum_probs=29.7
Q ss_pred cccccccccccCC----cceeecCCCCCccCccchHHHhcc
Q 035743 126 AECVICLSEFASG----ELVRLLPKCNHGFHVRCIDKWLRL 162 (216)
Q Consensus 126 ~~C~ICl~~~~~~----~~~~~lp~C~H~FH~~CI~~Wl~~ 162 (216)
.+|.||++..... ..-..|+.|.|.|+..||..|...
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~ 219 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTE 219 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHh
Confidence 6899999987643 244468889999999999999744
No 68
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=95.88 E-value=0.0024 Score=59.48 Aligned_cols=49 Identities=24% Similarity=0.530 Sum_probs=37.8
Q ss_pred CCCcccccccccccCCcceeecCCCCCccCccchHHHhc-----cCCCCccCCccccc
Q 035743 123 GLDAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLR-----LHSSCPKCRHCLIE 175 (216)
Q Consensus 123 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~-----~~~~CP~CR~~l~~ 175 (216)
.++.+|-+|.++-++ ..... |.|.||.-||.+++. .+.+||+|...|.-
T Consensus 534 k~~~~C~lc~d~aed---~i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Lsi 587 (791)
T KOG1002|consen 534 KGEVECGLCHDPAED---YIESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSI 587 (791)
T ss_pred cCceeecccCChhhh---hHhhh-hhHHHHHHHHHHHHHhhhcccCCCCccccccccc
Confidence 445789999988554 45565 999999999999863 34689999877653
No 69
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.74 E-value=0.043 Score=47.41 Aligned_cols=50 Identities=22% Similarity=0.372 Sum_probs=36.0
Q ss_pred CCCCcccccccccccCCcceeecCCCCCccCccchHHHhccC--CCCccCCcccc
Q 035743 122 PGLDAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLH--SSCPKCRHCLI 174 (216)
Q Consensus 122 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~--~~CP~CR~~l~ 174 (216)
...+.+|++|-+.=.. .-...+ |+|+||--||..=+... -+||.|-.+..
T Consensus 236 ~t~~~~C~~Cg~~Pti--P~~~~~-C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 236 GTSDTECPVCGEPPTI--PHVIGK-CGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred ccCCceeeccCCCCCC--Ceeecc-ccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 3455899999776333 233444 99999999999875433 57999976655
No 70
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=95.63 E-value=0.0083 Score=38.42 Aligned_cols=45 Identities=22% Similarity=0.478 Sum_probs=20.4
Q ss_pred cccccccccCCc-ceeecCCCCCccCccchHHHhc-cCCCCccCCccc
Q 035743 128 CVICLSEFASGE-LVRLLPKCNHGFHVRCIDKWLR-LHSSCPKCRHCL 173 (216)
Q Consensus 128 C~ICl~~~~~~~-~~~~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~l 173 (216)
|++|.+++...+ ...-.+ ||+..+..|...-++ ....||-||.+.
T Consensus 1 cp~C~e~~d~~d~~~~PC~-Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCE-CGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SST-TS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCc-CCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 789999984332 333444 778777777666664 366899999763
No 71
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=95.52 E-value=0.0038 Score=51.45 Aligned_cols=43 Identities=23% Similarity=0.531 Sum_probs=36.2
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCcc
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHC 172 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~ 172 (216)
..|.||-.+|+.. .++. |||.|+..|...=++....|-+|-..
T Consensus 197 F~C~iCKkdy~sp---vvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk~ 239 (259)
T COG5152 197 FLCGICKKDYESP---VVTE-CGHSFCSLCAIRKYQKGDECGVCGKA 239 (259)
T ss_pred eeehhchhhccch---hhhh-cchhHHHHHHHHHhccCCcceecchh
Confidence 5799999999873 4554 99999999999988888999999643
No 72
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=95.38 E-value=0.006 Score=51.60 Aligned_cols=42 Identities=29% Similarity=0.731 Sum_probs=32.7
Q ss_pred ccccccccccCCcceeecCCCCCccCccchHHHhccCC-CCccCCccc
Q 035743 127 ECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHS-SCPKCRHCL 173 (216)
Q Consensus 127 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~-~CP~CR~~l 173 (216)
.|-.|.- +..+++..++. |+|+||..|...- +. .||+||.++
T Consensus 5 hCn~C~~-~~~~~~f~LTa-C~HvfC~~C~k~~---~~~~C~lCkk~i 47 (233)
T KOG4739|consen 5 HCNKCFR-FPSQDPFFLTA-CRHVFCEPCLKAS---SPDVCPLCKKSI 47 (233)
T ss_pred Eeccccc-cCCCCceeeee-chhhhhhhhcccC---Ccccccccccee
Confidence 4777764 44477888887 9999999998773 33 899999874
No 73
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.30 E-value=0.016 Score=51.61 Aligned_cols=60 Identities=23% Similarity=0.473 Sum_probs=42.5
Q ss_pred hCCccccCccccCCCCCcccccccccccCCcceeecCCCCCccCccchHHH--hccCCCCccCCcc
Q 035743 109 TFPVVKYSAELKIPGLDAECVICLSEFASGELVRLLPKCNHGFHVRCIDKW--LRLHSSCPKCRHC 172 (216)
Q Consensus 109 ~lp~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~W--l~~~~~CP~CR~~ 172 (216)
.-|...-++.....++...|.||-+.+.- .-++| |+|..+.-|--.- |-.++.||+||..
T Consensus 45 aEPnlttsSaddtDEen~~C~ICA~~~TY---s~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE 106 (493)
T COG5236 45 AEPNLTTSSADDTDEENMNCQICAGSTTY---SARYP-CGHQICHACAVRLRALYMQKGCPLCRTE 106 (493)
T ss_pred cCCccccccccccccccceeEEecCCceE---EEecc-CCchHHHHHHHHHHHHHhccCCCccccc
Confidence 34554444444444555789999887654 45788 9999999997664 4567899999973
No 74
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.24 E-value=0.012 Score=49.99 Aligned_cols=52 Identities=15% Similarity=0.243 Sum_probs=45.9
Q ss_pred CcccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCccccch
Q 035743 125 DAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLIET 176 (216)
Q Consensus 125 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~ 176 (216)
...|+||.+.+.+.-.+-+|..|||+|..+|++..++....||+|-.++-+.
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 3679999999999888888888999999999999999999999997776543
No 75
>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=95.21 E-value=0.0095 Score=37.25 Aligned_cols=41 Identities=32% Similarity=0.767 Sum_probs=23.4
Q ss_pred cccccccccCCcceeecCCCCCccCccchHHHhccCC--CCccC
Q 035743 128 CVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHS--SCPKC 169 (216)
Q Consensus 128 C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~--~CP~C 169 (216)
|.+|-+-...+...... .|+=.+|..|++.+++.+. .||.|
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 66777776666444333 3888999999999997766 79988
No 76
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.20 E-value=0.001 Score=59.77 Aligned_cols=49 Identities=24% Similarity=0.559 Sum_probs=43.4
Q ss_pred CcccccccccccCC-cceeecCCCCCccCccchHHHhccCCCCccCCcccc
Q 035743 125 DAECVICLSEFASG-ELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLI 174 (216)
Q Consensus 125 ~~~C~ICl~~~~~~-~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 174 (216)
...|+||.+.+... +.+..+- |||++|.+||..||..+..||.||+.|.
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~ 245 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELP 245 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhh
Confidence 46899999999876 6777776 9999999999999999888999999876
No 77
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.09 E-value=0.0083 Score=54.37 Aligned_cols=46 Identities=26% Similarity=0.729 Sum_probs=36.8
Q ss_pred CcccccccccccCCcceeecCCCCCccCccchHHHhccC--------CCCccCCc
Q 035743 125 DAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLH--------SSCPKCRH 171 (216)
Q Consensus 125 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~--------~~CP~CR~ 171 (216)
-..|.||+++.....-...+| |+|+|+..|+..++..+ ..||-+.-
T Consensus 184 lf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 184 LFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred cccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 368999999987777788899 99999999999997432 25876643
No 78
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.09 E-value=0.011 Score=48.08 Aligned_cols=31 Identities=32% Similarity=0.839 Sum_probs=24.8
Q ss_pred CCCCccCccchHHHhccC-----------CCCccCCccccch
Q 035743 146 KCNHGFHVRCIDKWLRLH-----------SSCPKCRHCLIET 176 (216)
Q Consensus 146 ~C~H~FH~~CI~~Wl~~~-----------~~CP~CR~~l~~~ 176 (216)
.||.-||.-|+..||+.- ..||.|..++.-+
T Consensus 189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 399999999999998641 2599998887643
No 79
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.03 E-value=0.015 Score=50.89 Aligned_cols=44 Identities=27% Similarity=0.643 Sum_probs=34.3
Q ss_pred CcccccccccccCCcceeecCCCCCccCccchHHHhc-cCCCCccCCc
Q 035743 125 DAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLR-LHSSCPKCRH 171 (216)
Q Consensus 125 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~ 171 (216)
...|+.|..-..+. + .++.|+|.|+.+||..-|. ....||.|.+
T Consensus 274 ~LkCplc~~Llrnp--~-kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 274 SLKCPLCHCLLRNP--M-KTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred cccCcchhhhhhCc--c-cCccccchHHHHHHhhhhhhccccCCCccc
Confidence 37899998877664 3 3466999999999998864 5568999954
No 80
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=94.80 E-value=0.005 Score=54.27 Aligned_cols=47 Identities=26% Similarity=0.610 Sum_probs=38.2
Q ss_pred CcccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCcccc
Q 035743 125 DAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLI 174 (216)
Q Consensus 125 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 174 (216)
..+|.+|-.=|.+..++ . .|-|.||..||...|.....||.|...+-
T Consensus 15 ~itC~LC~GYliDATTI--~-eCLHTFCkSCivk~l~~~~~CP~C~i~ih 61 (331)
T KOG2660|consen 15 HITCRLCGGYLIDATTI--T-ECLHTFCKSCIVKYLEESKYCPTCDIVIH 61 (331)
T ss_pred ceehhhccceeecchhH--H-HHHHHHHHHHHHHHHHHhccCCccceecc
Confidence 36899998777664332 2 49999999999999999999999987665
No 81
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.39 E-value=0.024 Score=50.65 Aligned_cols=49 Identities=27% Similarity=0.499 Sum_probs=41.0
Q ss_pred CCCcccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCccccc
Q 035743 123 GLDAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLIE 175 (216)
Q Consensus 123 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 175 (216)
.++..|+||...- ......| |+|.=|..||...+.+.+.|=.|++.+..
T Consensus 420 sEd~lCpICyA~p---i~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 420 SEDNLCPICYAGP---INAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred cccccCcceeccc---chhhccC-CCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 4568899998652 2345677 99999999999999999999999998874
No 82
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.29 E-value=0.027 Score=49.13 Aligned_cols=47 Identities=34% Similarity=0.749 Sum_probs=37.9
Q ss_pred cccccccccccCCc---ceeecCCCCCccCccchHHHhccC-CCCccCCccc
Q 035743 126 AECVICLSEFASGE---LVRLLPKCNHGFHVRCIDKWLRLH-SSCPKCRHCL 173 (216)
Q Consensus 126 ~~C~ICl~~~~~~~---~~~~lp~C~H~FH~~CI~~Wl~~~-~~CP~CR~~l 173 (216)
.+|-||-++|...+ ..+++. |||.|+..|+..-+... ..||.||...
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 57999999998764 455565 99999999999877554 4699999883
No 83
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=93.85 E-value=0.062 Score=35.24 Aligned_cols=32 Identities=25% Similarity=0.794 Sum_probs=29.1
Q ss_pred cccccccccccCCcceeecCCCCCccCccchH
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCID 157 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~ 157 (216)
..|.+|-++|.+++.+.+.|.||=.+|.+|-+
T Consensus 6 ~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~ 37 (54)
T PF14446_consen 6 CKCPVCGKKFKDGDDIVVCPECGAPYHRDCWE 37 (54)
T ss_pred ccChhhCCcccCCCCEEECCCCCCcccHHHHh
Confidence 67999999999889999999999999999943
No 84
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.81 E-value=0.031 Score=48.72 Aligned_cols=44 Identities=25% Similarity=0.429 Sum_probs=37.0
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCccc
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCL 173 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l 173 (216)
..|-||-..|... .++. |+|.|+..|...-++....|.+|-+..
T Consensus 242 f~c~icr~~f~~p---Vvt~-c~h~fc~~ca~~~~qk~~~c~vC~~~t 285 (313)
T KOG1813|consen 242 FKCFICRKYFYRP---VVTK-CGHYFCEVCALKPYQKGEKCYVCSQQT 285 (313)
T ss_pred ccccccccccccc---hhhc-CCceeehhhhccccccCCcceeccccc
Confidence 5699999999874 3454 999999999999898889999996544
No 85
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=93.55 E-value=0.034 Score=48.84 Aligned_cols=44 Identities=27% Similarity=0.628 Sum_probs=30.9
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCcccc
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLI 174 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 174 (216)
..|--|- |-...--|++| |+|+||.+|... ...+.||.|-..+.
T Consensus 91 HfCd~Cd--~PI~IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 91 HFCDRCD--FPIAIYGRMIP-CKHVFCLECARS--DSDKICPLCDDRVQ 134 (389)
T ss_pred EeecccC--Ccceeeecccc-cchhhhhhhhhc--CccccCcCcccHHH
Confidence 4687783 33344567899 999999999765 34568999865443
No 86
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.49 E-value=0.031 Score=54.89 Aligned_cols=42 Identities=26% Similarity=0.720 Sum_probs=31.0
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCccc
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCL 173 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l 173 (216)
..|..|-..++-. ..-. .|||.||.+|++ .+...||.|+..+
T Consensus 841 skCs~C~~~LdlP--~VhF-~CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 841 SKCSACEGTLDLP--FVHF-LCGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred eeecccCCccccc--eeee-ecccHHHHHhhc---cCcccCCccchhh
Confidence 5899997776542 2233 399999999999 3556799998733
No 87
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.46 E-value=0.019 Score=50.02 Aligned_cols=43 Identities=28% Similarity=0.687 Sum_probs=29.4
Q ss_pred CcccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCcccc
Q 035743 125 DAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLI 174 (216)
Q Consensus 125 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 174 (216)
+..|+||++--.+ ...|+ |||. ..|.+.= ++-..||+||+-+.
T Consensus 300 ~~LC~ICmDaP~D---CvfLe-CGHm--VtCt~CG-krm~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPRD---CVFLE-CGHM--VTCTKCG-KRMNECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCcc---eEEee-cCcE--Eeehhhc-cccccCchHHHHHH
Confidence 4679999987544 77888 9997 4443331 11237999997654
No 88
>PF04641 Rtf2: Rtf2 RING-finger
Probab=93.21 E-value=0.072 Score=45.91 Aligned_cols=51 Identities=18% Similarity=0.345 Sum_probs=40.8
Q ss_pred CCCcccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCcccc
Q 035743 123 GLDAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLI 174 (216)
Q Consensus 123 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 174 (216)
.....|||...+|...-....+..|||+|-..+|..- +....||+|-.++.
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~ 161 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFT 161 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccc
Confidence 4457899999999776667777669999999999996 33557999977654
No 89
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=92.87 E-value=0.036 Score=54.64 Aligned_cols=35 Identities=23% Similarity=0.547 Sum_probs=28.4
Q ss_pred CCcccccccccccCCcceeecCCCCCccCccchHHHh
Q 035743 124 LDAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWL 160 (216)
Q Consensus 124 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl 160 (216)
.++.|.+|.-.+... .-.+.| |||.||.+||..-.
T Consensus 816 p~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 816 PQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV 850 (911)
T ss_pred CccchHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence 357899998887653 566777 99999999998874
No 90
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=92.68 E-value=0.047 Score=53.07 Aligned_cols=23 Identities=35% Similarity=0.933 Sum_probs=21.3
Q ss_pred CCCCccCccchHHHhccCCCCcc
Q 035743 146 KCNHGFHVRCIDKWLRLHSSCPK 168 (216)
Q Consensus 146 ~C~H~FH~~CI~~Wl~~~~~CP~ 168 (216)
.|+|+-|..|...|+.....||.
T Consensus 1047 ~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1047 TCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred cccccccHHHHHHHHhcCCcCCC
Confidence 49999999999999999999984
No 91
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=92.20 E-value=0.088 Score=34.61 Aligned_cols=43 Identities=26% Similarity=0.437 Sum_probs=30.4
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCcccc
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLI 174 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 174 (216)
..|-.|...- .+-.++| |+|+....|.+.| +-.-||.|-+++.
T Consensus 8 ~~~~~~~~~~---~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~ 50 (55)
T PF14447_consen 8 QPCVFCGFVG---TKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFE 50 (55)
T ss_pred eeEEEccccc---ccccccc-ccceeeccccChh--hccCCCCCCCccc
Confidence 3566665442 2345777 9999999997775 6667999977664
No 92
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=91.96 E-value=0.13 Score=41.00 Aligned_cols=35 Identities=26% Similarity=0.577 Sum_probs=22.9
Q ss_pred CcccccccccccCC---------cceeecCCCC-CccCccchHHHh
Q 035743 125 DAECVICLSEFASG---------ELVRLLPKCN-HGFHVRCIDKWL 160 (216)
Q Consensus 125 ~~~C~ICl~~~~~~---------~~~~~lp~C~-H~FH~~CI~~Wl 160 (216)
+..|+||||-=.+. .+.|-.- |+ -.=|..|++.+-
T Consensus 2 d~~CpICme~PHNAVLLlCSS~~kgcRpym-c~Ts~rhSNCLdqfk 46 (162)
T PF07800_consen 2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYM-CDTSYRHSNCLDQFK 46 (162)
T ss_pred CccCceeccCCCceEEEEeccccCCccccc-cCCccchhHHHHHHH
Confidence 46899999876553 2333333 65 344788999984
No 93
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=91.83 E-value=0.08 Score=46.05 Aligned_cols=45 Identities=27% Similarity=0.586 Sum_probs=37.8
Q ss_pred cccccccccccCCc-ceeecCCCCCccCccchHHHhccCCCCccCCc
Q 035743 126 AECVICLSEFASGE-LVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRH 171 (216)
Q Consensus 126 ~~C~ICl~~~~~~~-~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~ 171 (216)
..|+||.+.+-... .+..++ |||.-|..|+......+.+||+|..
T Consensus 159 ~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred CCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence 45999999876543 556677 9999999999999888899999987
No 94
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=91.62 E-value=0.053 Score=52.79 Aligned_cols=48 Identities=31% Similarity=0.648 Sum_probs=36.6
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhccC--CCCccCCccccchhh
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLH--SSCPKCRHCLIETCE 178 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~--~~CP~CR~~l~~~~~ 178 (216)
..|.||++ .+....++ |+|.|+.+|+..-+... ..||.||..+.++.-
T Consensus 455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l 504 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKL 504 (674)
T ss_pred cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHHHHH
Confidence 68999998 34455666 99999999998887443 359999987775443
No 95
>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=90.82 E-value=0.14 Score=46.15 Aligned_cols=27 Identities=30% Similarity=0.955 Sum_probs=20.3
Q ss_pred CCCccCccchHHHhccC-------------CCCccCCccc
Q 035743 147 CNHGFHVRCIDKWLRLH-------------SSCPKCRHCL 173 (216)
Q Consensus 147 C~H~FH~~CI~~Wl~~~-------------~~CP~CR~~l 173 (216)
|.-++|.+|+.+|+..+ -.||+||+..
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~F 350 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKF 350 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccc
Confidence 44566789999998543 2699999864
No 96
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=90.58 E-value=0.13 Score=50.29 Aligned_cols=55 Identities=11% Similarity=0.169 Sum_probs=39.5
Q ss_pred CcccccccccccCCc---ceeecCCCCCccCccchHHHhc------cCCCCccCCccccchhhh
Q 035743 125 DAECVICLSEFASGE---LVRLLPKCNHGFHVRCIDKWLR------LHSSCPKCRHCLIETCEK 179 (216)
Q Consensus 125 ~~~C~ICl~~~~~~~---~~~~lp~C~H~FH~~CI~~Wl~------~~~~CP~CR~~l~~~~~~ 179 (216)
...|.+|.-++.+++ .+-.+.+|+|-|+..||..|.. .+-.|++|..++..++..
T Consensus 96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~ 159 (1134)
T KOG0825|consen 96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRC 159 (1134)
T ss_pred ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhh
Confidence 356777777776622 2223336999999999999963 234699999998877655
No 97
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=90.53 E-value=0.12 Score=46.16 Aligned_cols=53 Identities=19% Similarity=0.460 Sum_probs=33.6
Q ss_pred CCCcccccccccccCCc-ceeecCCCCCccCccchHHHh-ccCCCCccCCccccch
Q 035743 123 GLDAECVICLSEFASGE-LVRLLPKCNHGFHVRCIDKWL-RLHSSCPKCRHCLIET 176 (216)
Q Consensus 123 ~~~~~C~ICl~~~~~~~-~~~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~l~~~ 176 (216)
++++.|+.|++++...| ...-++ ||-..|.-|-..-- .-+..||-||+...++
T Consensus 12 deed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~de 66 (480)
T COG5175 12 DEEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDDE 66 (480)
T ss_pred cccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhcccc
Confidence 34466999999987655 334455 88666666633221 1245799999866543
No 98
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=90.22 E-value=0.1 Score=44.79 Aligned_cols=52 Identities=29% Similarity=0.774 Sum_probs=35.2
Q ss_pred CCCcccccccccccCCcce-eecC-CCC---CccCccchHHHhccCC--------CCccCCcccc
Q 035743 123 GLDAECVICLSEFASGELV-RLLP-KCN---HGFHVRCIDKWLRLHS--------SCPKCRHCLI 174 (216)
Q Consensus 123 ~~~~~C~ICl~~~~~~~~~-~~lp-~C~---H~FH~~CI~~Wl~~~~--------~CP~CR~~l~ 174 (216)
+.+..|-||+..-+++..- -+-| .|. |--|..|+..|+.++. +||-|++...
T Consensus 18 e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 18 ELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred ccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 4457899999876554311 2334 143 8899999999985432 5999987544
No 99
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=90.05 E-value=0.071 Score=54.54 Aligned_cols=43 Identities=33% Similarity=0.684 Sum_probs=35.7
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCc
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRH 171 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~ 171 (216)
..|.||++.+.+.- .+ . .|||.|+..|+..|+..+..||.|+.
T Consensus 1154 ~~c~ic~dil~~~~-~I-~-~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1154 FVCEICLDILRNQG-GI-A-GCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred cchHHHHHHHHhcC-Ce-e-eechhHhhhHHHHHHHHhccCcchhh
Confidence 47999999987432 22 2 39999999999999999999999984
No 100
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=89.99 E-value=0.15 Score=44.36 Aligned_cols=50 Identities=26% Similarity=0.656 Sum_probs=36.1
Q ss_pred CcccccccccccCCcc-eeecCCCC-----CccCccchHHHhc--cCCCCccCCccccc
Q 035743 125 DAECVICLSEFASGEL-VRLLPKCN-----HGFHVRCIDKWLR--LHSSCPKCRHCLIE 175 (216)
Q Consensus 125 ~~~C~ICl~~~~~~~~-~~~lp~C~-----H~FH~~CI~~Wl~--~~~~CP~CR~~l~~ 175 (216)
+..|-||+++...... ....| |. +..|..|++.|+. ....|..|......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~ 135 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFIN 135 (323)
T ss_pred CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeeccccccee
Confidence 4789999998765432 33444 54 7779999999986 45679999875543
No 101
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.07 E-value=0.17 Score=48.15 Aligned_cols=51 Identities=31% Similarity=0.775 Sum_probs=41.4
Q ss_pred CCCCCcccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCccccchhhh
Q 035743 121 IPGLDAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLIETCEK 179 (216)
Q Consensus 121 ~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~~ 179 (216)
..+....|.+|+.+. ..+..+ |. |..|+..|+..+..||+|+..+..+...
T Consensus 475 l~~~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~~ 525 (543)
T KOG0802|consen 475 LREPNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKEDDFL 525 (543)
T ss_pred hhcccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhccccc
Confidence 344557899999998 456677 88 9999999999999999999887765554
No 102
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=87.22 E-value=0.44 Score=39.56 Aligned_cols=40 Identities=40% Similarity=0.848 Sum_probs=29.7
Q ss_pred Cccccccccc-----ccCCcceeecCCCCCccCccchHHHhccCCCCccCC
Q 035743 125 DAECVICLSE-----FASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCR 170 (216)
Q Consensus 125 ~~~C~ICl~~-----~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR 170 (216)
...|-+|-++ |+. +.+...++|+-+||..|.. +..||.|.
T Consensus 152 GfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~-----~~~CpkC~ 196 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFR-----KKSCPKCA 196 (202)
T ss_pred CCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcC-----CCCCCCcH
Confidence 3678888753 222 4677888899999999965 26799994
No 103
>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=87.09 E-value=0.2 Score=31.97 Aligned_cols=43 Identities=23% Similarity=0.576 Sum_probs=24.7
Q ss_pred ccccccccccCCcceeecCCCC-CccCccchHHHhccCCCCccCCccccc
Q 035743 127 ECVICLSEFASGELVRLLPKCN-HGFHVRCIDKWLRLHSSCPKCRHCLIE 175 (216)
Q Consensus 127 ~C~ICl~~~~~~~~~~~lp~C~-H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 175 (216)
.|--|+-+... + .. |+ |..+-.|+..-+.....||+|..+|+.
T Consensus 4 nCKsCWf~~k~---L--i~-C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 4 NCKSCWFANKG---L--IK-CSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp ---SS-S--SS---E--EE--SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred cChhhhhcCCC---e--ee-ecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 46667644222 2 22 75 999999999999999999999988864
No 104
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.73 E-value=0.16 Score=48.66 Aligned_cols=43 Identities=28% Similarity=0.626 Sum_probs=32.3
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCc
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRH 171 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~ 171 (216)
..|.||+..|....-.-+...|||..+..|++.- .+.+|| |++
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp-~~~ 54 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP-TKR 54 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC-CCc
Confidence 5799999998765433344459999999999885 567788 644
No 105
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=86.52 E-value=0.19 Score=42.78 Aligned_cols=46 Identities=26% Similarity=0.682 Sum_probs=35.4
Q ss_pred Ccccccccccc--cCCcceeecCCCCCccCccchHHHhccCC-CCc--cCC
Q 035743 125 DAECVICLSEF--ASGELVRLLPKCNHGFHVRCIDKWLRLHS-SCP--KCR 170 (216)
Q Consensus 125 ~~~C~ICl~~~--~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~-~CP--~CR 170 (216)
+..|+||-.+. .++..+-+-|.|-|..|..|++.-+...+ .|| -|-
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~ 60 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCG 60 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHH
Confidence 46899999883 34445666677999999999999987655 698 663
No 106
>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=85.93 E-value=1.7 Score=26.34 Aligned_cols=27 Identities=7% Similarity=0.196 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035743 51 SVLLVLSVLLCALICSLGLNFLIRYIL 77 (216)
Q Consensus 51 ~viiii~ill~~li~~l~l~~i~r~~~ 77 (216)
.+.+|.++++...+.++.++++..|++
T Consensus 5 ~IaIIv~V~vg~~iiii~~~~YaCcyk 31 (38)
T PF02439_consen 5 TIAIIVAVVVGMAIIIICMFYYACCYK 31 (38)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 455555555555554454444443433
No 107
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=85.72 E-value=0.66 Score=30.08 Aligned_cols=42 Identities=31% Similarity=0.809 Sum_probs=22.1
Q ss_pred cccccccccCC------cceeecCCCCCccCccchHHHhccC-CCCccCC
Q 035743 128 CVICLSEFASG------ELVRLLPKCNHGFHVRCIDKWLRLH-SSCPKCR 170 (216)
Q Consensus 128 C~ICl~~~~~~------~~~~~lp~C~H~FH~~CI~~Wl~~~-~~CP~CR 170 (216)
|--|+..|... ...-..++|++.|+.+| |.++-.. .+||-|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dC-D~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDC-DVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHH-HHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCc-ChhhhccccCCcCCC
Confidence 55677777654 23456778999999999 4444333 3699883
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=85.28 E-value=1.6 Score=33.49 Aligned_cols=7 Identities=0% Similarity=0.197 Sum_probs=2.9
Q ss_pred CCCchHH
Q 035743 46 KNLDSSV 52 (216)
Q Consensus 46 ~~~~~~v 52 (216)
+.|....
T Consensus 59 h~fs~~~ 65 (122)
T PF01102_consen 59 HRFSEPA 65 (122)
T ss_dssp SSSS-TC
T ss_pred cCccccc
Confidence 4555443
No 109
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=85.23 E-value=0.59 Score=41.26 Aligned_cols=45 Identities=18% Similarity=0.482 Sum_probs=32.5
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCccccch
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLIET 176 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~ 176 (216)
.+|+||.+.+... +...+ =||.-+..|=. +....||.||.++..-
T Consensus 49 leCPvC~~~l~~P--i~QC~-nGHlaCssC~~---~~~~~CP~Cr~~~g~~ 93 (299)
T KOG3002|consen 49 LDCPVCFNPLSPP--IFQCD-NGHLACSSCRT---KVSNKCPTCRLPIGNI 93 (299)
T ss_pred ccCchhhccCccc--ceecC-CCcEehhhhhh---hhcccCCccccccccH
Confidence 6899999998764 23222 35888888754 4567899999988743
No 110
>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=83.96 E-value=0.73 Score=40.25 Aligned_cols=47 Identities=26% Similarity=0.748 Sum_probs=33.9
Q ss_pred cccccccc-ccCCcceeecCCCCCccCccchHHHhccC-CCCccCCccc
Q 035743 127 ECVICLSE-FASGELVRLLPKCNHGFHVRCIDKWLRLH-SSCPKCRHCL 173 (216)
Q Consensus 127 ~C~ICl~~-~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~-~~CP~CR~~l 173 (216)
.|++|-.+ |.+.+...+...|+|-.+..|++.-+..+ ..||.|-..|
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iL 50 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVIL 50 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchh
Confidence 59999876 44444333333499999999999987555 4799996544
No 111
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.94 E-value=0.36 Score=44.01 Aligned_cols=38 Identities=29% Similarity=0.742 Sum_probs=28.1
Q ss_pred Ccccccccccc-cCCcceeecCCCCCccCccchHHHhccC
Q 035743 125 DAECVICLSEF-ASGELVRLLPKCNHGFHVRCIDKWLRLH 163 (216)
Q Consensus 125 ~~~C~ICl~~~-~~~~~~~~lp~C~H~FH~~CI~~Wl~~~ 163 (216)
..+|.||..+. ..++...+. .|+|.|+.+|+...+..+
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~-~C~H~fC~~C~k~~iev~ 184 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVL-KCGHRFCKDCVKQHIEVK 184 (384)
T ss_pred cccCccCccccccHhhhHHHh-cccchhhhHHhHHHhhhh
Confidence 46899999444 444555545 499999999999987543
No 112
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=83.78 E-value=0.62 Score=25.87 Aligned_cols=23 Identities=26% Similarity=0.696 Sum_probs=15.1
Q ss_pred ccccccccccCCcceeecCCCCCcc
Q 035743 127 ECVICLSEFASGELVRLLPKCNHGF 151 (216)
Q Consensus 127 ~C~ICl~~~~~~~~~~~lp~C~H~F 151 (216)
.|+-|-.++... .+..|.|||.|
T Consensus 2 ~CP~C~~~V~~~--~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPES--AKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhh--cCcCCCCCCCC
Confidence 477777666433 45667788877
No 113
>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=83.72 E-value=1.4 Score=33.90 Aligned_cols=7 Identities=0% Similarity=-0.377 Sum_probs=2.6
Q ss_pred HHHHHhh
Q 035743 74 RYILIKC 80 (216)
Q Consensus 74 r~~~rr~ 80 (216)
+..++|+
T Consensus 23 ~rRR~r~ 29 (130)
T PF12273_consen 23 NRRRRRR 29 (130)
T ss_pred HHHHhhc
Confidence 3333343
No 114
>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=83.21 E-value=0.86 Score=28.74 Aligned_cols=43 Identities=23% Similarity=0.517 Sum_probs=30.2
Q ss_pred ccccccccccCCcceeecCCCCCccCccchHHHhcc------CCCCccCC
Q 035743 127 ECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRL------HSSCPKCR 170 (216)
Q Consensus 127 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~------~~~CP~CR 170 (216)
.|.||.. ...++.+.....|+..||..|+..=... .-.||.|+
T Consensus 1 ~C~vC~~-~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQ-SDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTS-SCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCC-cCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 3889988 3444556666679999999999876431 23588775
No 115
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=82.54 E-value=0.35 Score=46.20 Aligned_cols=40 Identities=28% Similarity=0.745 Sum_probs=26.7
Q ss_pred ccccccccc-----ccCCcceeecCCCCCccCccchHHHhccCCCCccC
Q 035743 126 AECVICLSE-----FASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKC 169 (216)
Q Consensus 126 ~~C~ICl~~-----~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~C 169 (216)
..|.+|-.. |+ .+.++..-.|+++||..|+.. ....||.|
T Consensus 512 fiCe~Cq~~~iiyPF~-~~~~~rC~~C~avfH~~C~~r---~s~~CPrC 556 (580)
T KOG1829|consen 512 FICELCQHNDIIYPFE-TRNTRRCSTCLAVFHKKCLRR---KSPCCPRC 556 (580)
T ss_pred eeeeeccCCCcccccc-cccceeHHHHHHHHHHHHHhc---cCCCCCch
Confidence 567777221 22 345566666999999999554 55569999
No 117
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=82.53 E-value=0.7 Score=45.19 Aligned_cols=41 Identities=27% Similarity=0.507 Sum_probs=31.2
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhccCCCCcc
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPK 168 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~ 168 (216)
..|.+|-..+..- ....+.|||.=|.+|+..|+..+..||.
T Consensus 780 ~~CtVC~~vi~G~--~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIRGV--DVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred cCceeecceeeee--EeecccccccccHHHHHHHHhcCCCCcc
Confidence 4689996554432 2245569999999999999999888876
No 118
>PF03229 Alpha_GJ: Alphavirus glycoprotein J; InterPro: IPR004913 The exact function of the herpesvirus glycoprotein J is unknown, but it appears to play a role in the inhibition of apotosis of the host cell [].; GO: 0019050 suppression by virus of host apoptosis
Probab=81.37 E-value=4.8 Score=30.51 Aligned_cols=36 Identities=22% Similarity=0.331 Sum_probs=22.2
Q ss_pred CCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 035743 47 NLDSSVLLVLSVLLCALICSLGLNFLIRYILIKCSR 82 (216)
Q Consensus 47 ~~~~~viiii~ill~~li~~l~l~~i~r~~~rr~~~ 82 (216)
..+..+-++|+-|+++.+.+++...+.+...||..+
T Consensus 81 p~d~aLp~VIGGLcaL~LaamGA~~LLrR~cRr~ar 116 (126)
T PF03229_consen 81 PVDFALPLVIGGLCALTLAAMGAGALLRRCCRRAAR 116 (126)
T ss_pred CcccchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344556667777777777777776665555545433
No 119
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=80.07 E-value=1.1 Score=26.80 Aligned_cols=27 Identities=30% Similarity=0.567 Sum_probs=17.8
Q ss_pred cccccccccccCCcc-------eeecCCCCCccC
Q 035743 126 AECVICLSEFASGEL-------VRLLPKCNHGFH 152 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~-------~~~lp~C~H~FH 152 (216)
..|+-|...|...+. ....+.|+|+|+
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 468888888875442 234556888875
No 120
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=79.19 E-value=0.5 Score=45.87 Aligned_cols=45 Identities=31% Similarity=0.683 Sum_probs=34.3
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhcc---CCCCccCCcccc
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRL---HSSCPKCRHCLI 174 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~---~~~CP~CR~~l~ 174 (216)
.+|+||+..+... ..+. |.|.|...|+..=+.. ...||+|+..+.
T Consensus 22 lEc~ic~~~~~~p---~~~k-c~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 22 LECPICLEHVKEP---SLLK-CDHIFLKFCLNKLFESKKGPKQCALCKSDIE 69 (684)
T ss_pred ccCCceeEEeecc---chhh-hhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence 6899999998765 3444 9999999998765543 447999986544
No 121
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=79.16 E-value=1.3 Score=43.85 Aligned_cols=50 Identities=22% Similarity=0.559 Sum_probs=36.7
Q ss_pred CCCcccccccccccCCcceeecCCCC-----CccCccchHHHhcc--CCCCccCCcccc
Q 035743 123 GLDAECVICLSEFASGELVRLLPKCN-----HGFHVRCIDKWLRL--HSSCPKCRHCLI 174 (216)
Q Consensus 123 ~~~~~C~ICl~~~~~~~~~~~lp~C~-----H~FH~~CI~~Wl~~--~~~CP~CR~~l~ 174 (216)
+++..|-||..+-..++.+ --| |+ ..-|.+|+.+|+.- .+.|-+|+.+..
T Consensus 10 ~d~~~CRICr~e~~~d~pL-fhP-CKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~ 66 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPL-FHP-CKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK 66 (1175)
T ss_pred ccchhceeecCCCCCCCcC-ccc-ccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence 3447899999886665544 334 54 56899999999964 346999988765
No 122
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=78.71 E-value=1.5 Score=26.12 Aligned_cols=27 Identities=22% Similarity=0.485 Sum_probs=17.3
Q ss_pred cccccccccccCCcc-------eeecCCCCCccC
Q 035743 126 AECVICLSEFASGEL-------VRLLPKCNHGFH 152 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~-------~~~lp~C~H~FH 152 (216)
.+|+=|...|..+|+ ....+.|+|+|+
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 468888888876542 123445778775
No 123
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=76.27 E-value=1.7 Score=36.38 Aligned_cols=39 Identities=33% Similarity=0.616 Sum_probs=27.4
Q ss_pred cccccccccCCcceeecCCCCCc-cCccchHHHhccCCCCccCCcccc
Q 035743 128 CVICLSEFASGELVRLLPKCNHG-FHVRCIDKWLRLHSSCPKCRHCLI 174 (216)
Q Consensus 128 C~ICl~~~~~~~~~~~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~l~ 174 (216)
|-.|-+. +..+-++| |.|. ++..|=.. -..||+|+....
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 8888655 55688999 9965 55667543 355999986544
No 124
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=76.22 E-value=4.8 Score=30.37 Aligned_cols=45 Identities=22% Similarity=0.379 Sum_probs=32.6
Q ss_pred cccccccccccCC----------cceeecCCCCCccCccchHHHhccCCCCccCC
Q 035743 126 AECVICLSEFASG----------ELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCR 170 (216)
Q Consensus 126 ~~C~ICl~~~~~~----------~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR 170 (216)
..|--|+..|... ...-..++|++.|+.+|=.-+-..=.+||-|-
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 5799999988642 11234667999999999666645555799995
No 125
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=75.67 E-value=1.7 Score=39.49 Aligned_cols=43 Identities=19% Similarity=0.403 Sum_probs=36.7
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhccCC---CCccC
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHS---SCPKC 169 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~---~CP~C 169 (216)
..|||=-+.-.++.....+. |||+...+-|..--++.. -||.|
T Consensus 335 F~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYC 380 (394)
T KOG2817|consen 335 FICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYC 380 (394)
T ss_pred eecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCC
Confidence 67999888887777888888 999999999999876655 59999
No 126
>PRK01844 hypothetical protein; Provisional
Probab=75.62 E-value=14 Score=25.58 Aligned_cols=25 Identities=20% Similarity=0.313 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035743 52 VLLVLSVLLCALICSLGLNFLIRYIL 77 (216)
Q Consensus 52 viiii~ill~~li~~l~l~~i~r~~~ 77 (216)
++++++|+.+++.++++ +++.|.+.
T Consensus 5 ~~I~l~I~~li~G~~~G-ff~ark~~ 29 (72)
T PRK01844 5 LGILVGVVALVAGVALG-FFIARKYM 29 (72)
T ss_pred HHHHHHHHHHHHHHHHH-HHHHHHHH
Confidence 33444443333333344 44444444
No 127
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=75.52 E-value=1 Score=39.53 Aligned_cols=28 Identities=21% Similarity=0.613 Sum_probs=21.5
Q ss_pred CCCccCccchHHHhcc-------------CCCCccCCcccc
Q 035743 147 CNHGFHVRCIDKWLRL-------------HSSCPKCRHCLI 174 (216)
Q Consensus 147 C~H~FH~~CI~~Wl~~-------------~~~CP~CR~~l~ 174 (216)
|.-.++.+|+..|+.. +.+||+||+...
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fc 365 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFC 365 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceE
Confidence 6677889999999743 347999998654
No 128
>PF14979 TMEM52: Transmembrane 52
Probab=75.52 E-value=6.8 Score=30.95 Aligned_cols=32 Identities=22% Similarity=0.186 Sum_probs=18.7
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 035743 49 DSSVLLVLSVLLCALICSLGLNFLIRYILIKC 80 (216)
Q Consensus 49 ~~~viiii~ill~~li~~l~l~~i~r~~~rr~ 80 (216)
.+.+++++.+++.+++|-+....+..|++||+
T Consensus 19 LWyIwLill~~~llLLCG~ta~C~rfCClrk~ 50 (154)
T PF14979_consen 19 LWYIWLILLIGFLLLLCGLTASCVRFCCLRKQ 50 (154)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 36666666666666666555444444666443
No 129
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=75.35 E-value=1.2 Score=43.84 Aligned_cols=43 Identities=21% Similarity=0.493 Sum_probs=31.5
Q ss_pred CcccccccccccC-C---cceeecCCCCCccCccchHHHhccCCCCccC
Q 035743 125 DAECVICLSEFAS-G---ELVRLLPKCNHGFHVRCIDKWLRLHSSCPKC 169 (216)
Q Consensus 125 ~~~C~ICl~~~~~-~---~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~C 169 (216)
+..|.-|++..-. + +.+.++. |||+||..|+..-..+++ |-.|
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~~-c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVFH-CGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred hhhhhhhcccccccCcccceeeEEE-ccchhhhcccccHHHhcc-cChh
Confidence 3579999988652 2 4667776 999999999988865554 5444
No 130
>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=74.64 E-value=3.5 Score=23.73 Aligned_cols=36 Identities=33% Similarity=0.655 Sum_probs=23.9
Q ss_pred cccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCccc
Q 035743 128 CVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCL 173 (216)
Q Consensus 128 C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l 173 (216)
|..|-+.+..++..... =+..||.+|+ .|..|+..|
T Consensus 2 C~~C~~~i~~~~~~~~~--~~~~~H~~Cf--------~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGELVLRA--LGKVWHPECF--------KCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcEEEEe--CCccccccCC--------CCcccCCcC
Confidence 78888887775333222 4789999884 466776655
No 131
>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=72.21 E-value=7.4 Score=28.06 Aligned_cols=15 Identities=20% Similarity=0.104 Sum_probs=7.2
Q ss_pred HHHHHHHHhhhhhhh
Q 035743 71 FLIRYILIKCSRLAA 85 (216)
Q Consensus 71 ~i~r~~~rr~~~~~~ 85 (216)
+++.|..|+++|+..
T Consensus 51 wfvCC~kRkrsRrPI 65 (94)
T PF05393_consen 51 WFVCCKKRKRSRRPI 65 (94)
T ss_pred HHHHHHHhhhccCCc
Confidence 444444445555433
No 132
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=71.47 E-value=2 Score=37.19 Aligned_cols=48 Identities=31% Similarity=0.692 Sum_probs=35.0
Q ss_pred cccccccccccCCcceeec---CCCCCccCccchHHHhcc---------CCCCccCCccc
Q 035743 126 AECVICLSEFASGELVRLL---PKCNHGFHVRCIDKWLRL---------HSSCPKCRHCL 173 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~l---p~C~H~FH~~CI~~Wl~~---------~~~CP~CR~~l 173 (216)
.+|-+|..++...+..+.. +.|+-.+|..|+..-+.. ...||.|++.+
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 6899999999554544432 358899999999995422 23699998744
No 133
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=71.40 E-value=2.1 Score=33.30 Aligned_cols=51 Identities=24% Similarity=0.526 Sum_probs=32.6
Q ss_pred CcccccccccccCCcceeecCCCCCccCccc-hHHHh--ccCCCCccCCccccc
Q 035743 125 DAECVICLSEFASGELVRLLPKCNHGFHVRC-IDKWL--RLHSSCPKCRHCLIE 175 (216)
Q Consensus 125 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~C-I~~Wl--~~~~~CP~CR~~l~~ 175 (216)
-.+|-||.|.-.+..=+.--.-||-..+..| ..-|- ..+..||+|+++.-.
T Consensus 80 lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs 133 (140)
T PF05290_consen 80 LYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS 133 (140)
T ss_pred ceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence 3799999887654321111113887777765 45562 446789999988753
No 134
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=71.07 E-value=1.6 Score=34.00 Aligned_cols=72 Identities=32% Similarity=0.594 Sum_probs=39.6
Q ss_pred CCCccccccccc-ccCCcceeecCCCCCc-------cCccchHHH-hccCC---CCccCCc--cccchhhhhhcCCCCCC
Q 035743 123 GLDAECVICLSE-FASGELVRLLPKCNHG-------FHVRCIDKW-LRLHS---SCPKCRH--CLIETCEKIMGCSQASS 188 (216)
Q Consensus 123 ~~~~~C~ICl~~-~~~~~~~~~lp~C~H~-------FH~~CI~~W-l~~~~---~CP~CR~--~l~~~~~~~~~~~~~~~ 188 (216)
+.+..|-||+.. |.++ |||. |+..|-..- |+.++ .|-+|+. .+..+.+++.-. +.+.
T Consensus 63 ~ddatC~IC~KTKFADG--------~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~q~il~ksg~wf~~-sgs~ 133 (169)
T KOG3799|consen 63 GDDATCGICHKTKFADG--------CGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQQEILTKSGAWFYN-SGSN 133 (169)
T ss_pred CcCcchhhhhhcccccc--------cCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHHHHHHHhcchHHHh-cCCC
Confidence 556899999864 5554 6665 334443332 33343 4999965 456666666542 2222
Q ss_pred CCCCCCCCCC-CCCCCCCC
Q 035743 189 SGSSVPVPET-RIVPLEPE 206 (216)
Q Consensus 189 ~~~~~~~~~~-~~~~~~~~ 206 (216)
+. +-|+. .+-||++|
T Consensus 134 ~~---~~pd~~v~~~~~~~ 149 (169)
T KOG3799|consen 134 TP---QQPDQKVLRGLRNE 149 (169)
T ss_pred CC---CCcccccccchhcc
Confidence 22 33455 44566554
No 135
>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=71.05 E-value=3.6 Score=39.81 Aligned_cols=28 Identities=18% Similarity=0.247 Sum_probs=15.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035743 50 SSVLLVLSVLLCALICSLGLNFLIRYIL 77 (216)
Q Consensus 50 ~~viiii~ill~~li~~l~l~~i~r~~~ 77 (216)
.++|+|++|++.+++++++++++.++++
T Consensus 267 ~NlWII~gVlvPv~vV~~Iiiil~~~LC 294 (684)
T PF12877_consen 267 NNLWIIAGVLVPVLVVLLIIIILYWKLC 294 (684)
T ss_pred CCeEEEehHhHHHHHHHHHHHHHHHHHh
Confidence 3455555565555555555555555555
No 136
>PF15050 SCIMP: SCIMP protein
Probab=70.23 E-value=11 Score=28.88 Aligned_cols=13 Identities=15% Similarity=0.406 Sum_probs=6.0
Q ss_pred HHHHHHHHHHHHH
Q 035743 51 SVLLVLSVLLCAL 63 (216)
Q Consensus 51 ~viiii~ill~~l 63 (216)
++++|+++.++++
T Consensus 7 nFWiiLAVaII~v 19 (133)
T PF15050_consen 7 NFWIILAVAIILV 19 (133)
T ss_pred chHHHHHHHHHHH
Confidence 3455555543333
No 137
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=69.19 E-value=2.1 Score=35.82 Aligned_cols=44 Identities=27% Similarity=0.683 Sum_probs=34.4
Q ss_pred CCcccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCC
Q 035743 124 LDAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCR 170 (216)
Q Consensus 124 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR 170 (216)
.-..|.+|..-.-.+ + .+-.||=.+|..|+...+++...||.|-
T Consensus 180 nlk~Cn~Ch~LvIqg--~-rCg~c~i~~h~~c~qty~q~~~~cphc~ 223 (235)
T KOG4718|consen 180 NLKNCNLCHCLVIQG--I-RCGSCNIQYHRGCIQTYLQRRDICPHCG 223 (235)
T ss_pred HHHHHhHhHHHhhee--e-ccCcccchhhhHHHHHHhcccCcCCchh
Confidence 346899998775443 2 3334888899999999999999999993
No 138
>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=67.15 E-value=4.7 Score=25.73 Aligned_cols=39 Identities=26% Similarity=0.511 Sum_probs=26.6
Q ss_pred cccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCccccch
Q 035743 128 CVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLIET 176 (216)
Q Consensus 128 C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~ 176 (216)
|+.|-..+..++.+... -|..||.+|+ .|-.|+..|...
T Consensus 1 C~~C~~~I~~~~~~~~~--~~~~~H~~Cf--------~C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKA--MGKFWHPECF--------KCSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSSSEEEEE--TTEEEETTTS--------BETTTTCBTTTS
T ss_pred CCCCCCCccCcEEEEEe--CCcEEEcccc--------ccCCCCCccCCC
Confidence 67788888765544322 6789998884 567777776543
No 139
>PF15176 LRR19-TM: Leucine-rich repeat family 19 TM domain
Probab=66.69 E-value=27 Score=25.85 Aligned_cols=27 Identities=22% Similarity=0.304 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035743 51 SVLLVLSVLLCALICSLGLNFLIRYIL 77 (216)
Q Consensus 51 ~viiii~ill~~li~~l~l~~i~r~~~ 77 (216)
.+.++++|++.+++..+.+.+.++|-.
T Consensus 16 sW~~LVGVv~~al~~SlLIalaaKC~~ 42 (102)
T PF15176_consen 16 SWPFLVGVVVTALVTSLLIALAAKCPV 42 (102)
T ss_pred ccHhHHHHHHHHHHHHHHHHHHHHhHH
Confidence 344445555666666666666666655
No 140
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=66.65 E-value=3.4 Score=39.49 Aligned_cols=35 Identities=29% Similarity=0.549 Sum_probs=24.7
Q ss_pred CCCcccccccccccC-----------CcceeecCCCCCccCccchHHH
Q 035743 123 GLDAECVICLSEFAS-----------GELVRLLPKCNHGFHVRCIDKW 159 (216)
Q Consensus 123 ~~~~~C~ICl~~~~~-----------~~~~~~lp~C~H~FH~~CI~~W 159 (216)
+....|+||-|+|+. .+.+.+. =|-+||..|+..=
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le--~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLE--FGRIFHSKCLSEK 556 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeec--cCceeeccccchH
Confidence 334789999999974 1233322 4899999998874
No 141
>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=66.36 E-value=8.9 Score=23.63 Aligned_cols=26 Identities=19% Similarity=0.192 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035743 52 VLLVLSVLLCALICSLGLNFLIRYIL 77 (216)
Q Consensus 52 viiii~ill~~li~~l~l~~i~r~~~ 77 (216)
+++++.++.++.+.+++++.+.++.-
T Consensus 10 VIlVF~lVglv~i~iva~~iYRKw~a 35 (43)
T PF08114_consen 10 VILVFCLVGLVGIGIVALFIYRKWQA 35 (43)
T ss_pred eeeehHHHHHHHHHHHHHHHHHHHHH
Confidence 34444333333333344444444443
No 142
>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=66.13 E-value=3.7 Score=27.55 Aligned_cols=36 Identities=17% Similarity=0.375 Sum_probs=20.3
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhc
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLR 161 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~ 161 (216)
..|.+|..+|.--..-.....||++|+..|......
T Consensus 10 ~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~~ 45 (69)
T PF01363_consen 10 SNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRIP 45 (69)
T ss_dssp SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEEE
T ss_pred CcCcCcCCcCCCceeeEccCCCCCEECCchhCCEEc
Confidence 689999999965444445556999999999987653
No 143
>PRK00523 hypothetical protein; Provisional
Probab=65.86 E-value=30 Score=24.03 Aligned_cols=16 Identities=6% Similarity=0.162 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHHHHHH
Q 035743 62 ALICSLGLNFLIRYIL 77 (216)
Q Consensus 62 ~li~~l~l~~i~r~~~ 77 (216)
+++.+++-+++.|.+.
T Consensus 15 li~G~~~Gffiark~~ 30 (72)
T PRK00523 15 LIVGGIIGYFVSKKMF 30 (72)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3333333344444444
No 144
>COG3763 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=64.50 E-value=35 Score=23.54 Aligned_cols=20 Identities=25% Similarity=0.363 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 035743 58 VLLCALICSLGLNFLIRYIL 77 (216)
Q Consensus 58 ill~~li~~l~l~~i~r~~~ 77 (216)
+++++++.+++-+++.|.+.
T Consensus 10 ivl~ll~G~~~G~fiark~~ 29 (71)
T COG3763 10 IVLALLAGLIGGFFIARKQM 29 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33333333333344444443
No 145
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=63.87 E-value=2.5 Score=39.15 Aligned_cols=34 Identities=26% Similarity=0.606 Sum_probs=27.8
Q ss_pred CCcccccccccccCCcceeecCCCCCccCccchHHHhc
Q 035743 124 LDAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLR 161 (216)
Q Consensus 124 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~ 161 (216)
++..|+||..=|++ .++|| |+|..+..|...-+.
T Consensus 3 eelkc~vc~~f~~e---piil~-c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 3 EELKCPVCGSFYRE---PIILP-CSHNLCQACARNILV 36 (699)
T ss_pred ccccCceehhhccC---ceEee-cccHHHHHHHHhhcc
Confidence 45789999988876 47888 999999999886653
No 146
>TIGR01478 STEVOR variant surface antigen, stevor family. This model represents the stevor branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of stevor sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 8 bits.
Probab=63.73 E-value=9.8 Score=33.34 Aligned_cols=17 Identities=6% Similarity=-0.089 Sum_probs=7.5
Q ss_pred HHHHHHHHHHHHHhhhh
Q 035743 66 SLGLNFLIRYILIKCSR 82 (216)
Q Consensus 66 ~l~l~~i~r~~~rr~~~ 82 (216)
++.++++++.++||...
T Consensus 273 vvliiLYiWlyrrRK~s 289 (295)
T TIGR01478 273 VVLIILYIWLYRRRKKS 289 (295)
T ss_pred HHHHHHHHHHHHhhccc
Confidence 33334445455544433
No 147
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=63.32 E-value=4.7 Score=34.76 Aligned_cols=48 Identities=19% Similarity=0.225 Sum_probs=37.2
Q ss_pred CcccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCcccc
Q 035743 125 DAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLI 174 (216)
Q Consensus 125 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 174 (216)
...|+|---+|......-.+..|||+|-..-+.+. ...+|++|-+.+.
T Consensus 111 ~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~ 158 (293)
T KOG3113|consen 111 RFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQ 158 (293)
T ss_pred eeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCccc
Confidence 46799988888776666667779999998877764 3568999988655
No 148
>PTZ00370 STEVOR; Provisional
Probab=63.23 E-value=10 Score=33.23 Aligned_cols=17 Identities=6% Similarity=-0.068 Sum_probs=7.6
Q ss_pred HHHHHHHHHHHHhhhhh
Q 035743 67 LGLNFLIRYILIKCSRL 83 (216)
Q Consensus 67 l~l~~i~r~~~rr~~~~ 83 (216)
+.++++++.++||...|
T Consensus 270 vliilYiwlyrrRK~sw 286 (296)
T PTZ00370 270 VLIILYIWLYRRRKNSW 286 (296)
T ss_pred HHHHHHHHHHHhhcchh
Confidence 33344454555444443
No 149
>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=63.07 E-value=11 Score=26.35 Aligned_cols=8 Identities=13% Similarity=0.330 Sum_probs=4.8
Q ss_pred HHHHHHHH
Q 035743 70 NFLIRYIL 77 (216)
Q Consensus 70 ~~i~r~~~ 77 (216)
.+++||++
T Consensus 43 ~liVRCfr 50 (81)
T PF11057_consen 43 LLIVRCFR 50 (81)
T ss_pred HHHHHHHH
Confidence 35566765
No 150
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=60.72 E-value=7.6 Score=38.37 Aligned_cols=49 Identities=33% Similarity=0.704 Sum_probs=34.3
Q ss_pred cCCCCCcccccccccccC---------CcceeecCCCCCccCccchHHHhccCCCCccCCcc
Q 035743 120 KIPGLDAECVICLSEFAS---------GELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHC 172 (216)
Q Consensus 120 ~~~~~~~~C~ICl~~~~~---------~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~ 172 (216)
..+..+..|+-|..+|-. +...-++|.|+|.-|..=|.. +..||+|...
T Consensus 1126 ~i~~~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs~----y~~CPLCHs~ 1183 (1189)
T KOG2041|consen 1126 KIDPYDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEISK----YNCCPLCHSM 1183 (1189)
T ss_pred cCCccCCCChhhcCcCceeeccCCccccceEEEccccccccccccccc----cccCccccCh
Confidence 344556778888887742 124556788999999876654 5789999754
No 151
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=60.50 E-value=4 Score=37.84 Aligned_cols=38 Identities=26% Similarity=0.547 Sum_probs=30.1
Q ss_pred CCCcccccccccccCCcceeecCCCCCccCccchHHHhccC
Q 035743 123 GLDAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLH 163 (216)
Q Consensus 123 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~ 163 (216)
....+|-||.+.+.. .+..+. |||.|+..|....+.++
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~~-c~H~~c~~cw~~yl~~k 105 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGLG-CGHPFCPPCWTGYLGTK 105 (444)
T ss_pred CccccCCcccCCCcc--hhhhcC-CCcHHHHHHHHHHhhhe
Confidence 445789999999876 445555 99999999999998653
No 152
>PRK05978 hypothetical protein; Provisional
Probab=60.31 E-value=5.6 Score=31.52 Aligned_cols=27 Identities=15% Similarity=0.359 Sum_probs=21.0
Q ss_pred CCccCccchHHHhccCCCCccCCccccchhhh
Q 035743 148 NHGFHVRCIDKWLRLHSSCPKCRHCLIETCEK 179 (216)
Q Consensus 148 ~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~~~~ 179 (216)
||.|+ .+|+.+..||.|-.++...+..
T Consensus 42 G~LF~-----g~Lkv~~~C~~CG~~~~~~~a~ 68 (148)
T PRK05978 42 GKLFR-----AFLKPVDHCAACGEDFTHHRAD 68 (148)
T ss_pred Ccccc-----cccccCCCccccCCccccCCcc
Confidence 38886 6899999999998877755444
No 153
>PF05568 ASFV_J13L: African swine fever virus J13L protein; InterPro: IPR008385 This family consists of several African swine fever virus (ASFV) j13L proteins [, , ].
Probab=59.89 E-value=22 Score=28.18 Aligned_cols=10 Identities=20% Similarity=0.245 Sum_probs=4.0
Q ss_pred hhhchhhhhh
Q 035743 15 FIGKFHLRKL 24 (216)
Q Consensus 15 ~~~~~~~r~l 24 (216)
|.-..+.|..
T Consensus 5 ffqpvyp~~y 14 (189)
T PF05568_consen 5 FFQPVYPRHY 14 (189)
T ss_pred cccccchhhh
Confidence 3333444433
No 154
>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=59.75 E-value=9 Score=22.14 Aligned_cols=20 Identities=20% Similarity=0.394 Sum_probs=12.6
Q ss_pred CCCCccCccchHHHhccCCCCccCCc
Q 035743 146 KCNHGFHVRCIDKWLRLHSSCPKCRH 171 (216)
Q Consensus 146 ~C~H~FH~~CI~~Wl~~~~~CP~CR~ 171 (216)
.|||++...- ....||+|..
T Consensus 6 ~CGy~y~~~~------~~~~CP~Cg~ 25 (33)
T cd00350 6 VCGYIYDGEE------APWVCPVCGA 25 (33)
T ss_pred CCCCEECCCc------CCCcCcCCCC
Confidence 3777765543 3447999965
No 155
>PF04639 Baculo_E56: Baculoviral E56 protein, specific to ODV envelope; InterPro: IPR006733 This family represents the E56 protein, which is localized to the occlusion derived virus (ODV) envelope, but not to the budded virus (BV) envelope []. Signals necessary for transport and/or retention into this structure are believed to be found within the C-terminal portion of ODV-E56.; GO: 0019031 viral envelope
Probab=59.54 E-value=6.4 Score=34.45 Aligned_cols=19 Identities=42% Similarity=0.494 Sum_probs=14.1
Q ss_pred hhhhhhchhhhhhcCCCCC
Q 035743 12 PQDFIGKFHLRKLLPQNPL 30 (216)
Q Consensus 12 ~~~~~~~~~~r~ll~~~~~ 30 (216)
|-++++|.-.-.||-++-.
T Consensus 244 ~gDLIgDLGLD~LLGe~Gl 262 (305)
T PF04639_consen 244 FGDLIGDLGLDWLLGENGL 262 (305)
T ss_pred HHHHHHhcccccccCcccc
Confidence 5567888888888877633
No 156
>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=57.73 E-value=15 Score=26.53 Aligned_cols=30 Identities=10% Similarity=0.087 Sum_probs=14.8
Q ss_pred CCCCCchHHHHHHHHHHHHHHHHHHHHHHH
Q 035743 44 INKNLDSSVLLVLSVLLCALICSLGLNFLI 73 (216)
Q Consensus 44 ~~~~~~~~viiii~ill~~li~~l~l~~i~ 73 (216)
+...++..+.+++.+++.+.++-|...++.
T Consensus 30 s~~~ws~vv~v~i~~lvaVg~~YL~y~~fL 59 (91)
T PF01708_consen 30 SGLPWSRVVEVAIFTLVAVGCLYLAYTWFL 59 (91)
T ss_pred CCCcceeEeeeeehHHHHHHHHHHHHHHHH
Confidence 445565555555555555544444444433
No 157
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=56.95 E-value=6.1 Score=36.09 Aligned_cols=43 Identities=23% Similarity=0.502 Sum_probs=32.1
Q ss_pred cccccccccccCCcc--eeecCCCCCccCccchHHHhccCCCCccC
Q 035743 126 AECVICLSEFASGEL--VRLLPKCNHGFHVRCIDKWLRLHSSCPKC 169 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~--~~~lp~C~H~FH~~CI~~Wl~~~~~CP~C 169 (216)
..|+.|.--++..+. -.... |||-|+..|...|...+..|..|
T Consensus 307 r~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 307 RQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred CcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCc
Confidence 579988877665442 33455 99999999999998777777555
No 158
>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 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=54.63 E-value=5.3 Score=25.51 Aligned_cols=41 Identities=27% Similarity=0.604 Sum_probs=18.9
Q ss_pred cccccccccccCCcceeecCCCCCccCccchH--HHhccC-----CCCccCCcc
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCID--KWLRLH-----SSCPKCRHC 172 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~--~Wl~~~-----~~CP~CR~~ 172 (216)
..|+|....+.. .+|-.. |.|. +|+| .||... -.||+|.++
T Consensus 3 L~CPls~~~i~~--P~Rg~~-C~H~---~CFDl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRI--PVRGKN-CKHL---QCFDLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SS--EEEETT---SS-----EEHHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEe--CccCCc-Cccc---ceECHHHHHHHhhccCCeECcCCcCc
Confidence 468888877654 366665 8887 4554 455332 259999753
No 160
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=54.53 E-value=12 Score=33.31 Aligned_cols=53 Identities=25% Similarity=0.563 Sum_probs=35.1
Q ss_pred CCCcccccccccccC---------------Cc-ceeecCCCCCccCccchHHHhcc---------CCCCccCCccccch
Q 035743 123 GLDAECVICLSEFAS---------------GE-LVRLLPKCNHGFHVRCIDKWLRL---------HSSCPKCRHCLIET 176 (216)
Q Consensus 123 ~~~~~C~ICl~~~~~---------------~~-~~~~lp~C~H~FH~~CI~~Wl~~---------~~~CP~CR~~l~~~ 176 (216)
..+.+|++|+..=.- +- .-...| |||+--..=..-|-+. +..||.|-+.|.-+
T Consensus 339 ~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~P-CGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge 416 (429)
T KOG3842|consen 339 QRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNP-CGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGE 416 (429)
T ss_pred cccCcCCeeeeecceeeeeccccceeEecCCCcccccCC-cccccchhhhhHhhcCcCCCccccccccCcchhhhhccC
Confidence 346899999875211 11 112345 9999888888889643 34699998777543
No 161
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=54.48 E-value=13 Score=33.35 Aligned_cols=68 Identities=21% Similarity=0.465 Sum_probs=41.0
Q ss_pred CChhHHhhCCccccCccccCC-CCCcccccccccccCCcceeecCCCCCccCccchHHHhccC-CCCccCCc
Q 035743 102 IKNNAIKTFPVVKYSAELKIP-GLDAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLH-SSCPKCRH 171 (216)
Q Consensus 102 ~~~~~i~~lp~~~~~~~~~~~-~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~-~~CP~CR~ 171 (216)
+.+..--.+|...|.+..... ..+..|-.|.++.......+ ...|.|+|+.+|= .++... ..||.|..
T Consensus 306 LARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y~-C~~Ck~~FCldCD-v~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 306 LARSYHHLFPLKPFVEIPETEYNGSRFCFACQGELLSSGRYR-CESCKNVFCLDCD-VFIHESLHNCPGCEH 375 (378)
T ss_pred HHHHHHhhcCCcchhhccccccCCCcceeeeccccCCCCcEE-chhccceeeccch-HHHHhhhhcCCCcCC
Confidence 344444456666665433221 23355999977776655444 4459999999993 333332 46999963
No 162
>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=54.43 E-value=8.7 Score=24.55 Aligned_cols=36 Identities=17% Similarity=0.381 Sum_probs=26.3
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhc
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLR 161 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~ 161 (216)
..|.+|-..|.....-.....||++|+..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 579999888876443344456999999999887643
No 163
>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=54.41 E-value=35 Score=24.35 Aligned_cols=20 Identities=20% Similarity=0.469 Sum_probs=11.6
Q ss_pred CCCCchHHHHHHHHHHHHHH
Q 035743 45 NKNLDSSVLLVLSVLLCALI 64 (216)
Q Consensus 45 ~~~~~~~viiii~ill~~li 64 (216)
...+++++++.|.|++++++
T Consensus 19 ~~~l~pn~lMtILivLVIIi 38 (85)
T PF10717_consen 19 LNGLNPNTLMTILIVLVIII 38 (85)
T ss_pred ccccChhHHHHHHHHHHHHH
Confidence 35677777766555544444
No 164
>PF15330 SIT: SHP2-interacting transmembrane adaptor protein, SIT
Probab=52.61 E-value=22 Score=26.57 Aligned_cols=23 Identities=26% Similarity=0.339 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 035743 55 VLSVLLCALICSLGLNFLIRYIL 77 (216)
Q Consensus 55 ii~ill~~li~~l~l~~i~r~~~ 77 (216)
+++++.+++++++++.++.+...
T Consensus 3 Ll~il~llLll~l~asl~~wr~~ 25 (107)
T PF15330_consen 3 LLGILALLLLLSLAASLLAWRMK 25 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444443333
No 165
>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=52.11 E-value=25 Score=28.35 Aligned_cols=30 Identities=27% Similarity=0.262 Sum_probs=15.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 035743 50 SSVLLVLSVLLCALICSLGLNFLIRYILIK 79 (216)
Q Consensus 50 ~~viiii~ill~~li~~l~l~~i~r~~~rr 79 (216)
..++.-..++++++..++++++++|.++-|
T Consensus 91 ~~~l~R~~~Vl~g~s~l~i~yfvir~~R~r 120 (163)
T PF06679_consen 91 SPMLKRALYVLVGLSALAILYFVIRTFRLR 120 (163)
T ss_pred ccchhhhHHHHHHHHHHHHHHHHHHHHhhc
Confidence 334444445555555555555666655433
No 166
>PF15050 SCIMP: SCIMP protein
Probab=52.05 E-value=30 Score=26.50 Aligned_cols=16 Identities=6% Similarity=0.046 Sum_probs=7.1
Q ss_pred CCchHHHHHHHHHHHH
Q 035743 47 NLDSSVLLVLSVLLCA 62 (216)
Q Consensus 47 ~~~~~viiii~ill~~ 62 (216)
+|-..+.+.|+++-.+
T Consensus 7 nFWiiLAVaII~vS~~ 22 (133)
T PF15050_consen 7 NFWIILAVAIILVSVV 22 (133)
T ss_pred chHHHHHHHHHHHHHH
Confidence 4554444444333333
No 167
>PF02480 Herpes_gE: Alphaherpesvirus glycoprotein E; InterPro: IPR003404 Glycoprotein E (gE) of Alphaherpesvirus forms a complex with glycoprotein I (gI), functioning as an immunoglobulin G (IgG) Fc binding protein. gE is involved in virus spread but is not essential for propagation [].; GO: 0016020 membrane; PDB: 2GJ7_F 2GIY_B.
Probab=51.32 E-value=5 Score=37.35 Aligned_cols=7 Identities=14% Similarity=0.050 Sum_probs=0.0
Q ss_pred HHHHHHH
Q 035743 71 FLIRYIL 77 (216)
Q Consensus 71 ~i~r~~~ 77 (216)
++.++.+
T Consensus 374 vc~~~rr 380 (439)
T PF02480_consen 374 VCLRCRR 380 (439)
T ss_dssp -------
T ss_pred eeeeehh
Confidence 3333333
No 168
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=50.70 E-value=6.7 Score=36.38 Aligned_cols=37 Identities=19% Similarity=0.369 Sum_probs=28.0
Q ss_pred cccccccccccCCcce-----eecCCCCCccCccchHHHhccC
Q 035743 126 AECVICLSEFASGELV-----RLLPKCNHGFHVRCIDKWLRLH 163 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~-----~~lp~C~H~FH~~CI~~Wl~~~ 163 (216)
..|+.|...++.+... ...+ |+|.||+.|+..|-...
T Consensus 227 k~CP~c~~~iek~~gc~~~~~~~~~-c~~~FCw~Cl~~~~~h~ 268 (444)
T KOG1815|consen 227 KECPKCKVPIEKDGGCNHMTCKSAS-CKHEFCWVCLASLSDHG 268 (444)
T ss_pred ccCCCcccchhccCCccccccccCC-cCCeeceeeeccccccc
Confidence 5699999998876522 2233 99999999999996553
No 169
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=50.64 E-value=7.6 Score=23.77 Aligned_cols=25 Identities=28% Similarity=0.525 Sum_probs=14.7
Q ss_pred CCCCccCccchHHHhccCCCCccCCc
Q 035743 146 KCNHGFHVRCIDKWLRLHSSCPKCRH 171 (216)
Q Consensus 146 ~C~H~FH~~CI~~Wl~~~~~CP~CR~ 171 (216)
+|||.|...--..= .....||.|..
T Consensus 10 ~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 48888776421111 23456999987
No 170
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=50.53 E-value=3.8 Score=36.02 Aligned_cols=38 Identities=26% Similarity=0.501 Sum_probs=30.2
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhccCC
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHS 164 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~ 164 (216)
.+|.+|++++..+....... |.-+||..|+-.|+....
T Consensus 215 rvC~~CF~el~~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 252 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDRED-SLPVFHGKCYPNWLTTGA 252 (288)
T ss_pred eecHHHHHHHhcccccchhh-cccccccccccccccccc
Confidence 48999999998755555555 666999999999986644
No 171
>PF13908 Shisa: Wnt and FGF inhibitory regulator
Probab=50.40 E-value=8.9 Score=30.87 Aligned_cols=7 Identities=14% Similarity=0.610 Sum_probs=2.6
Q ss_pred HHHHHHH
Q 035743 54 LVLSVLL 60 (216)
Q Consensus 54 iii~ill 60 (216)
++++|++
T Consensus 80 iivgvi~ 86 (179)
T PF13908_consen 80 IIVGVIC 86 (179)
T ss_pred eeeehhh
Confidence 3333333
No 172
>PF11027 DUF2615: Protein of unknown function (DUF2615); InterPro: IPR020309 This entry represents a group of uncharacterised protein from the Metazoa, including CD034 (or C4orf34) and YQF4 (or C34C12.4).
Probab=49.84 E-value=18 Score=26.93 Aligned_cols=11 Identities=27% Similarity=0.446 Sum_probs=7.6
Q ss_pred chhhhhhcCCC
Q 035743 18 KFHLRKLLPQN 28 (216)
Q Consensus 18 ~~~~r~ll~~~ 28 (216)
+++.||||.--
T Consensus 15 E~AMrRLl~~L 25 (103)
T PF11027_consen 15 EMAMRRLLNLL 25 (103)
T ss_pred HHHHHHHHHHH
Confidence 46788888544
No 173
>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=49.72 E-value=13 Score=25.20 Aligned_cols=33 Identities=24% Similarity=0.321 Sum_probs=22.7
Q ss_pred CCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035743 45 NKNLDSSVLLVLSVLLCALICSLGLNFLIRYIL 77 (216)
Q Consensus 45 ~~~~~~~viiii~ill~~li~~l~l~~i~r~~~ 77 (216)
...+++.++++|+|.-.+++++++-+.++-|+.
T Consensus 7 ~KGlnPGlIVLlvV~g~ll~flvGnyvlY~Yaq 39 (69)
T PF04689_consen 7 AKGLNPGLIVLLVVAGLLLVFLVGNYVLYVYAQ 39 (69)
T ss_pred ccCCCCCeEEeehHHHHHHHHHHHHHHHHHHHh
Confidence 356777888777777777776676666655554
No 174
>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=49.50 E-value=19 Score=30.32 Aligned_cols=10 Identities=30% Similarity=0.434 Sum_probs=5.0
Q ss_pred hhhchhhhhh
Q 035743 15 FIGKFHLRKL 24 (216)
Q Consensus 15 ~~~~~~~r~l 24 (216)
|+.+...|.|
T Consensus 7 li~~lv~rs~ 16 (221)
T PF08374_consen 7 LIEELVRRSL 16 (221)
T ss_pred HHHHHHHhhc
Confidence 4455555544
No 175
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=49.14 E-value=11 Score=29.30 Aligned_cols=23 Identities=26% Similarity=0.540 Sum_probs=18.3
Q ss_pred ecCCCCCccCccchHHHhccCCCCccCCccc
Q 035743 143 LLPKCNHGFHVRCIDKWLRLHSSCPKCRHCL 173 (216)
Q Consensus 143 ~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l 173 (216)
.+++|||+||. -+..||.|....
T Consensus 31 kC~~CG~v~~P--------Pr~~Cp~C~~~~ 53 (140)
T COG1545 31 KCKKCGRVYFP--------PRAYCPKCGSET 53 (140)
T ss_pred EcCCCCeEEcC--------CcccCCCCCCCC
Confidence 45679999987 567799998873
No 176
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=47.67 E-value=11 Score=24.43 Aligned_cols=21 Identities=33% Similarity=0.648 Sum_probs=16.4
Q ss_pred cceeecCCCCCccCccchHHH
Q 035743 139 ELVRLLPKCNHGFHVRCIDKW 159 (216)
Q Consensus 139 ~~~~~lp~C~H~FH~~CI~~W 159 (216)
......+.|+|.|+..|-..|
T Consensus 38 ~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 38 CNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CCeeECCCCCCeECCCCCCcC
Confidence 344556569999999999988
No 177
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=46.81 E-value=14 Score=32.91 Aligned_cols=46 Identities=22% Similarity=0.524 Sum_probs=32.3
Q ss_pred cccccccccccCCc-ceeecCCCCCccCccchHHHhccCCCCccCCcc
Q 035743 126 AECVICLSEFASGE-LVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHC 172 (216)
Q Consensus 126 ~~C~ICl~~~~~~~-~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~ 172 (216)
..|+||-+.....+ ...-.| |+|.-|..|+..=...+.+||.||.+
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~-~~~~~~l~~~~t~~~~~~~~~~~rk~ 296 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCP-CGFRLCLFCHKTISDGDGRCPGCRKP 296 (327)
T ss_pred CCCCCCCCccccccccccccc-ccccchhhhhhcccccCCCCCccCCc
Confidence 68999999874333 333344 77776777777766778899999943
No 178
>PF15065 NCU-G1: Lysosomal transcription factor, NCU-G1
Probab=46.49 E-value=11 Score=34.10 Aligned_cols=34 Identities=18% Similarity=0.115 Sum_probs=23.6
Q ss_pred CCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035743 44 INKNLDSSVLLVLSVLLCALICSLGLNFLIRYIL 77 (216)
Q Consensus 44 ~~~~~~~~viiii~ill~~li~~l~l~~i~r~~~ 77 (216)
+...|+..+++|++|.+.+-++++++.-++-|.+
T Consensus 311 P~d~~S~lvi~i~~vgLG~P~l~li~Ggl~v~~~ 344 (350)
T PF15065_consen 311 PVDSFSPLVIMIMAVGLGVPLLLLILGGLYVCLR 344 (350)
T ss_pred CccchhHHHHHHHHHHhhHHHHHHHHhhheEEEe
Confidence 4568899999888888777666555555544544
No 179
>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=46.32 E-value=17 Score=27.44 Aligned_cols=21 Identities=19% Similarity=0.232 Sum_probs=15.7
Q ss_pred hccCCCCccCCccccchhhhh
Q 035743 160 LRLHSSCPKCRHCLIETCEKI 180 (216)
Q Consensus 160 l~~~~~CP~CR~~l~~~~~~~ 180 (216)
+.+...|+.|+++|.-.++..
T Consensus 82 LGr~D~CM~C~~pLTLd~~le 102 (114)
T PF11023_consen 82 LGRVDACMHCKEPLTLDPSLE 102 (114)
T ss_pred hchhhccCcCCCcCccCchhh
Confidence 445567999999998766654
No 180
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=46.30 E-value=8.7 Score=37.68 Aligned_cols=37 Identities=22% Similarity=0.459 Sum_probs=29.4
Q ss_pred CcceeecCCCCCccCccchHHHhccCCCCccCCcccc
Q 035743 138 GELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLI 174 (216)
Q Consensus 138 ~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 174 (216)
+..+..+|.|.-+||.+=++--..++..||.||++--
T Consensus 1041 d~~it~Cp~C~~~F~~eDFEl~vLqKGHCPFCrTS~d 1077 (1081)
T KOG1538|consen 1041 DASITMCPSCFQMFHSEDFELLVLQKGHCPFCRTSKD 1077 (1081)
T ss_pred cchhhhCchHHhhhccchhhHHHHhcCCCCccccccc
Confidence 3456677889999999888877778889999998643
No 181
>PHA02849 putative transmembrane protein; Provisional
Probab=45.03 E-value=54 Score=23.11 Aligned_cols=21 Identities=14% Similarity=0.317 Sum_probs=11.6
Q ss_pred CCCCchHHHHHHHHHHHHHHH
Q 035743 45 NKNLDSSVLLVLSVLLCALIC 65 (216)
Q Consensus 45 ~~~~~~~viiii~ill~~li~ 65 (216)
+..|+...++++.++++++.+
T Consensus 9 d~~f~~g~v~vi~v~v~vI~i 29 (82)
T PHA02849 9 DIEFDAGAVTVILVFVLVISF 29 (82)
T ss_pred ccccccchHHHHHHHHHHHHH
Confidence 345666666666555555433
No 182
>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=44.80 E-value=7.2 Score=35.67 Aligned_cols=49 Identities=22% Similarity=0.511 Sum_probs=0.0
Q ss_pred CcccccccccccC-------------C---cceeecCCCCCccCccchHHHhcc---------CCCCccCCcccc
Q 035743 125 DAECVICLSEFAS-------------G---ELVRLLPKCNHGFHVRCIDKWLRL---------HSSCPKCRHCLI 174 (216)
Q Consensus 125 ~~~C~ICl~~~~~-------------~---~~~~~lp~C~H~FH~~CI~~Wl~~---------~~~CP~CR~~l~ 174 (216)
..+|++|+..-.- + -+--..| |||+--.....-|-+. +..||.|-..|.
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~P-CGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~ 401 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNP-CGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLD 401 (416)
T ss_dssp ---------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecc-cccccchhhhhhhhcCCCCCCcccccccCCcccCccc
Confidence 5799999965311 1 1222456 9999999999999543 346999987776
No 183
>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=44.60 E-value=13 Score=20.84 Aligned_cols=29 Identities=17% Similarity=0.479 Sum_probs=10.3
Q ss_pred ccccccccccCCcceeecCCCCCccCccch
Q 035743 127 ECVICLSEFASGELVRLLPKCNHGFHVRCI 156 (216)
Q Consensus 127 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI 156 (216)
.|.+|-++... +..-....|+-.+|.+|+
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 47788777655 334445569989998885
No 184
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=44.18 E-value=18 Score=23.29 Aligned_cols=25 Identities=32% Similarity=0.846 Sum_probs=13.2
Q ss_pred cCCCCCccCccchHHHhccCCCCccC
Q 035743 144 LPKCNHGFHVRCIDKWLRLHSSCPKC 169 (216)
Q Consensus 144 lp~C~H~FH~~CI~~Wl~~~~~CP~C 169 (216)
.+.|||.|... |..-......||.|
T Consensus 31 C~~Cgh~w~~~-v~~R~~~~~~CP~C 55 (55)
T PF14311_consen 31 CPKCGHEWKAS-VNDRTRRGKGCPYC 55 (55)
T ss_pred CCCCCCeeEcc-HhhhccCCCCCCCC
Confidence 34466665432 22222456679988
No 185
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=43.64 E-value=16 Score=21.74 Aligned_cols=31 Identities=23% Similarity=0.652 Sum_probs=19.1
Q ss_pred ecCCCCCccCccchHHHhccCCCCccCCccccc
Q 035743 143 LLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLIE 175 (216)
Q Consensus 143 ~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 175 (216)
+.+.||++||..=--. +....|..|-..|+.
T Consensus 3 ~C~~Cg~~Yh~~~~pP--~~~~~Cd~cg~~L~q 33 (36)
T PF05191_consen 3 ICPKCGRIYHIEFNPP--KVEGVCDNCGGELVQ 33 (36)
T ss_dssp EETTTTEEEETTTB----SSTTBCTTTTEBEBE
T ss_pred CcCCCCCccccccCCC--CCCCccCCCCCeeEe
Confidence 4567999999632111 233469888776653
No 186
>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=43.64 E-value=8.6 Score=26.55 Aligned_cols=40 Identities=23% Similarity=0.465 Sum_probs=20.4
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCcccc
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLI 174 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 174 (216)
..|+.|..+++... +|.++..|-.. +.....||-|..+|.
T Consensus 2 ~~CP~C~~~L~~~~--------~~~~C~~C~~~-~~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEWQG--------GHYHCEACQKD-YKKEAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEEET--------TEEEETTT--E-EEEEEE-TTT-SB-E
T ss_pred CcCCCCCCccEEeC--------CEEECcccccc-ceecccCCCcccHHH
Confidence 46999988765432 45555556554 345667999987765
No 187
>PRK11827 hypothetical protein; Provisional
Probab=43.45 E-value=9.3 Score=25.58 Aligned_cols=20 Identities=30% Similarity=0.415 Sum_probs=15.7
Q ss_pred HHHhccCCCCccCCccccch
Q 035743 157 DKWLRLHSSCPKCRHCLIET 176 (216)
Q Consensus 157 ~~Wl~~~~~CP~CR~~l~~~ 176 (216)
+.||..-..||+|+..|...
T Consensus 2 d~~LLeILaCP~ckg~L~~~ 21 (60)
T PRK11827 2 DHRLLEIIACPVCNGKLWYN 21 (60)
T ss_pred ChHHHhheECCCCCCcCeEc
Confidence 56777777899999988754
No 188
>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=43.08 E-value=26 Score=28.79 Aligned_cols=16 Identities=25% Similarity=0.218 Sum_probs=9.7
Q ss_pred ccchHHHh--ccCCCCcc
Q 035743 153 VRCIDKWL--RLHSSCPK 168 (216)
Q Consensus 153 ~~CI~~Wl--~~~~~CP~ 168 (216)
.+-+..|| ..+..+|.
T Consensus 126 G~~~R~~L~~Lr~~~~p~ 143 (186)
T PF07406_consen 126 GENFRSYLLDLRNSSTPL 143 (186)
T ss_pred cccHHHHHHHHHhccCCc
Confidence 56788887 34444543
No 189
>PHA02657 hypothetical protein; Provisional
Probab=42.88 E-value=62 Score=23.26 Aligned_cols=27 Identities=11% Similarity=0.337 Sum_probs=16.7
Q ss_pred CCCchHHHHHHHHHHHHHHHHHHHHHH
Q 035743 46 KNLDSSVLLVLSVLLCALICSLGLNFL 72 (216)
Q Consensus 46 ~~~~~~viiii~ill~~li~~l~l~~i 72 (216)
-+|...+++.+.++++.+++++.+.++
T Consensus 22 ~~~~~imVitvfv~vI~il~flLLYLv 48 (95)
T PHA02657 22 INFESILVFTIFIFVVCILIYLLIYLV 48 (95)
T ss_pred ecchhhhHHHHHHHHHHHHHHHHHHHH
Confidence 467777776666666666665555443
No 190
>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=42.75 E-value=8.9 Score=24.63 Aligned_cols=14 Identities=36% Similarity=0.664 Sum_probs=7.4
Q ss_pred CCccCCccccchhh
Q 035743 165 SCPKCRHCLIETCE 178 (216)
Q Consensus 165 ~CP~CR~~l~~~~~ 178 (216)
.||+|.++|-+...
T Consensus 22 ~CPlC~r~l~~e~~ 35 (54)
T PF04423_consen 22 CCPLCGRPLDEEHR 35 (54)
T ss_dssp E-TTT--EE-HHHH
T ss_pred cCCCCCCCCCHHHH
Confidence 79999988876543
No 191
>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=42.18 E-value=26 Score=23.16 Aligned_cols=48 Identities=19% Similarity=0.513 Sum_probs=33.4
Q ss_pred cccccccccccCCc-ceeecCCCCCccCccchHHHhccCCCCccCCccccch
Q 035743 126 AECVICLSEFASGE-LVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLIET 176 (216)
Q Consensus 126 ~~C~ICl~~~~~~~-~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~ 176 (216)
..|-.|-.++..+. +.++.. =...|+.+|.+.-| +..||.|-..|+..
T Consensus 6 pnCE~C~~dLp~~s~~A~ICS-fECTFC~~C~e~~l--~~~CPNCgGelv~R 54 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYICS-FECTFCADCAETML--NGVCPNCGGELVRR 54 (57)
T ss_pred CCccccCCCCCCCCCcceEEe-EeCcccHHHHHHHh--cCcCcCCCCccccC
Confidence 45777777776655 333322 23689999999965 77899998877654
No 192
>KOG4482 consensus Sarcoglycan complex, alpha/epsilon subunits [Function unknown]
Probab=41.44 E-value=49 Score=30.28 Aligned_cols=42 Identities=10% Similarity=0.018 Sum_probs=24.5
Q ss_pred CCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035743 37 AAAPSDAINKNLDSSVLLVLSVLLCALICSLGLNFLIRYILI 78 (216)
Q Consensus 37 ~~~p~~~~~~~~~~~viiii~ill~~li~~l~l~~i~r~~~r 78 (216)
-+||.+.+..++-..+...++|.+.+.++++++..++.|+.|
T Consensus 282 ~~~~~e~p~Rdyy~df~~tfaIpl~Valll~~~La~imc~rr 323 (449)
T KOG4482|consen 282 LNPPPEQPPRDYYGDFLHTFAIPLGVALLLVLALAYIMCCRR 323 (449)
T ss_pred cCCCccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 445555555666666666666666655555555555556553
No 193
>PF02480 Herpes_gE: Alphaherpesvirus glycoprotein E; InterPro: IPR003404 Glycoprotein E (gE) of Alphaherpesvirus forms a complex with glycoprotein I (gI), functioning as an immunoglobulin G (IgG) Fc binding protein. gE is involved in virus spread but is not essential for propagation [].; GO: 0016020 membrane; PDB: 2GJ7_F 2GIY_B.
Probab=39.29 E-value=9.9 Score=35.39 Aligned_cols=31 Identities=16% Similarity=0.126 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 035743 53 LLVLSVLLCALICSLGLNFLIRYILIKCSRL 83 (216)
Q Consensus 53 iiii~ill~~li~~l~l~~i~r~~~rr~~~~ 83 (216)
.++++++++++++++++..++.++.++++++
T Consensus 352 ~~~l~vVlgvavlivVv~viv~vc~~~rrrR 382 (439)
T PF02480_consen 352 AALLGVVLGVAVLIVVVGVIVWVCLRCRRRR 382 (439)
T ss_dssp -------------------------------
T ss_pred cchHHHHHHHHHHHHHHHHHhheeeeehhcc
Confidence 3333344333333343444444444344443
No 194
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=39.10 E-value=23 Score=23.60 Aligned_cols=34 Identities=15% Similarity=0.195 Sum_probs=24.4
Q ss_pred cccccccccccC--CcceeecCCCCCccCccchHHH
Q 035743 126 AECVICLSEFAS--GELVRLLPKCNHGFHVRCIDKW 159 (216)
Q Consensus 126 ~~C~ICl~~~~~--~~~~~~lp~C~H~FH~~CI~~W 159 (216)
..|+.|-..... ....-..+.||+.+|.+--..+
T Consensus 29 q~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~naA~ 64 (69)
T PF07282_consen 29 QTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVNAAR 64 (69)
T ss_pred cCccCcccccccccccceEEcCCCCCEECcHHHHHH
Confidence 579999888776 4456667778888887754443
No 195
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=38.53 E-value=14 Score=33.37 Aligned_cols=47 Identities=26% Similarity=0.571 Sum_probs=26.2
Q ss_pred CCcccccccccccCCcceeecC--CCCCcc--------CccchHHHh-----ccCCCCccCCc
Q 035743 124 LDAECVICLSEFASGELVRLLP--KCNHGF--------HVRCIDKWL-----RLHSSCPKCRH 171 (216)
Q Consensus 124 ~~~~C~ICl~~~~~~~~~~~lp--~C~H~F--------H~~CI~~Wl-----~~~~~CP~CR~ 171 (216)
.++.|++|-++... -...++. .|+-.| |-.|++.-- -.++.||.||.
T Consensus 14 l~ElCPVCGDkVSG-YHYGLLTCESCKGFFKRTVQNnK~YtC~e~qnC~iDkTqRKRCP~CRF 75 (475)
T KOG4218|consen 14 LGELCPVCGDKVSG-YHYGLLTCESCKGFFKRTVQNNKQYTCSEEQNCHIDKTQRKRCPSCRF 75 (475)
T ss_pred cccccccccCcccc-ceeeeeehhhhhhHHHHHhhcCcceecccccccccchHhhccCCchhH
Confidence 34789999887643 3333443 233333 344555431 12457999996
No 196
>PF01299 Lamp: Lysosome-associated membrane glycoprotein (Lamp); InterPro: IPR002000 Lysosome-associated membrane glycoproteins (lamp) [] are integral membrane proteins, specific to lysosomes, and whose exact biological function is not yet clear. Structurally, the lamp proteins consist of two internally homologous lysosome-luminal domains separated by a proline-rich hinge region; at the C-terminal extremity there is a transmembrane region (TM) followed by a very short cytoplasmic tail (C). In each of the duplicated domains, there are two conserved disulphide bonds. This structure is schematically represented in the figure below. +-----+ +-----+ +-----+ +-----+ | | | | | | | | xCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxxxCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxx +--------------------------++Hinge++--------------------------++TM++C+ In mammals, there are two closely related types of lamp: lamp-1 and lamp-2, which form major components of the lysosome membrane. In chicken lamp-1 is known as LEP100. Also included in this entry is the macrophage protein CD68 (or macrosialin) [] is a heavily glycosylated integral membrane protein whose structure consists of a mucin-like domain followed by a proline-rich hinge; a single lamp-like domain; a transmembrane region and a short cytoplasmic tail. Similar to CD68, mammalian lamp-3, which is expressed in lymphoid organs, dendritic cells and in lung, contains all the C-terminal regions but lacks the N-terminal lamp-like region []. In a lamp-family protein from nematodes [] only the part C-terminal to the hinge is conserved. ; GO: 0016020 membrane
Probab=38.47 E-value=22 Score=31.13 Aligned_cols=14 Identities=21% Similarity=0.361 Sum_probs=5.7
Q ss_pred HHHHHHHHHHHHHH
Q 035743 51 SVLLVLSVLLCALI 64 (216)
Q Consensus 51 ~viiii~ill~~li 64 (216)
.+-+++++.+++++
T Consensus 272 ~vPIaVG~~La~lv 285 (306)
T PF01299_consen 272 LVPIAVGAALAGLV 285 (306)
T ss_pred hHHHHHHHHHHHHH
Confidence 33344444444443
No 197
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=38.46 E-value=12 Score=36.81 Aligned_cols=51 Identities=24% Similarity=0.488 Sum_probs=32.4
Q ss_pred CCcccccccccccCCc-ceee---cC--CCCCccCccchHHH--h--------ccCCCCccCCcccc
Q 035743 124 LDAECVICLSEFASGE-LVRL---LP--KCNHGFHVRCIDKW--L--------RLHSSCPKCRHCLI 174 (216)
Q Consensus 124 ~~~~C~ICl~~~~~~~-~~~~---lp--~C~H~FH~~CI~~W--l--------~~~~~CP~CR~~l~ 174 (216)
....|-||-|+=...+ .... +. .|+..||..|...- | .+-+.|-+|+.-+-
T Consensus 116 fnKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~Hfs 182 (900)
T KOG0956|consen 116 FNKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYHFS 182 (900)
T ss_pred hcceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceeccccccccceechhHHHHHH
Confidence 3478999998844332 1111 11 37899999998765 1 22356999976543
No 198
>PF13807 GNVR: G-rich domain on putative tyrosine kinase
Probab=37.92 E-value=1.1e+02 Score=21.07 Aligned_cols=9 Identities=22% Similarity=0.586 Sum_probs=3.6
Q ss_pred hHHHHHHHH
Q 035743 50 SSVLLVLSV 58 (216)
Q Consensus 50 ~~viiii~i 58 (216)
..+++++++
T Consensus 58 ~~lil~l~~ 66 (82)
T PF13807_consen 58 RALILALGL 66 (82)
T ss_pred HHHHHHHHH
Confidence 344444433
No 199
>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=37.88 E-value=5.9 Score=34.50 Aligned_cols=46 Identities=20% Similarity=0.296 Sum_probs=19.8
Q ss_pred CcccccccccccCCcceeecC--CCCCccCccchHHHhccCCCCccCCc
Q 035743 125 DAECVICLSEFASGELVRLLP--KCNHGFHVRCIDKWLRLHSSCPKCRH 171 (216)
Q Consensus 125 ~~~C~ICl~~~~~~~~~~~lp--~C~H~FH~~CI~~Wl~~~~~CP~CR~ 171 (216)
...|+||-..-.-.. ++.-. .-.|.+|.-|-..|--.+..||.|-.
T Consensus 172 ~g~CPvCGs~P~~s~-l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~ 219 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSV-LRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGN 219 (290)
T ss_dssp -SS-TTT---EEEEE-EE------EEEEEETTT--EEE--TTS-TTT--
T ss_pred CCcCCCCCCcCceEE-EecCCCCccEEEEcCCCCCeeeecCCCCcCCCC
Confidence 368999987633211 11110 12466777888889777888999943
No 200
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=37.87 E-value=15 Score=35.78 Aligned_cols=49 Identities=24% Similarity=0.611 Sum_probs=30.7
Q ss_pred cccccccccccCCcc-eeecCCCCCccCccchHHHhccC-----CCCccCCcccc
Q 035743 126 AECVICLSEFASGEL-VRLLPKCNHGFHVRCIDKWLRLH-----SSCPKCRHCLI 174 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~-~~~lp~C~H~FH~~CI~~Wl~~~-----~~CP~CR~~l~ 174 (216)
..|.+|-..=...+. ......|+-.||..|+..|+... -.||-||.+..
T Consensus 19 ~mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvCe~ 73 (694)
T KOG4443|consen 19 LMCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVCEA 73 (694)
T ss_pred hhhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCceeeee
Confidence 456666433222111 22333589999999999997542 36988887654
No 201
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=37.84 E-value=98 Score=20.28 Aligned_cols=14 Identities=29% Similarity=0.487 Sum_probs=5.5
Q ss_pred chHHHHHHHHHHHH
Q 035743 49 DSSVLLVLSVLLCA 62 (216)
Q Consensus 49 ~~~viiii~ill~~ 62 (216)
+..++++++.++.+
T Consensus 19 pl~l~il~~f~~G~ 32 (68)
T PF06305_consen 19 PLGLLILIAFLLGA 32 (68)
T ss_pred hHHHHHHHHHHHHH
Confidence 33444444333333
No 202
>PHA02819 hypothetical protein; Provisional
Probab=37.62 E-value=1.1e+02 Score=21.03 Aligned_cols=9 Identities=11% Similarity=0.209 Sum_probs=3.6
Q ss_pred CCchHHHHH
Q 035743 47 NLDSSVLLV 55 (216)
Q Consensus 47 ~~~~~viii 55 (216)
++.+..+++
T Consensus 43 ~~~~~~~ii 51 (71)
T PHA02819 43 SFLRYYLII 51 (71)
T ss_pred ChhHHHHHH
Confidence 344444333
No 203
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=37.40 E-value=16 Score=32.18 Aligned_cols=36 Identities=17% Similarity=0.543 Sum_probs=27.8
Q ss_pred CCcccccccccccCCcceeecCCC----CCccCccchHHHhccC
Q 035743 124 LDAECVICLSEFASGELVRLLPKC----NHGFHVRCIDKWLRLH 163 (216)
Q Consensus 124 ~~~~C~ICl~~~~~~~~~~~lp~C----~H~FH~~CI~~Wl~~~ 163 (216)
....|.+|.|.+++. .... | .|.||.-|-.+-+|.+
T Consensus 267 apLcCTLC~ERLEDT---HFVQ-CPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 267 APLCCTLCHERLEDT---HFVQ-CPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred CceeehhhhhhhccC---ceee-cCCCcccceecccCHHHHHhh
Confidence 347899999999874 3333 5 4999999999988764
No 204
>PHA02692 hypothetical protein; Provisional
Probab=37.36 E-value=97 Score=21.35 Aligned_cols=11 Identities=9% Similarity=0.344 Sum_probs=5.3
Q ss_pred CCCchHHHHHH
Q 035743 46 KNLDSSVLLVL 56 (216)
Q Consensus 46 ~~~~~~viiii 56 (216)
.++.+..++++
T Consensus 41 ~~~~~~~~ii~ 51 (70)
T PHA02692 41 KGVPWTTVFLI 51 (70)
T ss_pred CCcchHHHHHH
Confidence 34455555444
No 205
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=37.31 E-value=19 Score=32.17 Aligned_cols=43 Identities=16% Similarity=0.314 Sum_probs=32.8
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhccCC---CCccC
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHS---SCPKC 169 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~---~CP~C 169 (216)
..|++=-+.-.+......+. |||+.-.+-++.--++.. .||.|
T Consensus 337 FiCPVlKe~~t~ENpP~ml~-CgHVIskeal~~LS~nG~~~FKCPYC 382 (396)
T COG5109 337 FICPVLKELCTDENPPVMLE-CGHVISKEALSVLSQNGVLSFKCPYC 382 (396)
T ss_pred eeccccHhhhcccCCCeeee-ccceeeHHHHHHHhhcCcEEeeCCCC
Confidence 57988777766666677777 999999988888655443 49999
No 206
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=36.57 E-value=15 Score=31.71 Aligned_cols=31 Identities=16% Similarity=0.247 Sum_probs=26.4
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHh
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWL 160 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl 160 (216)
+.|..||..+.+. .+++ =||+|..+||-+++
T Consensus 44 dcCsLtLqPc~dP---vit~-~GylfdrEaILe~i 74 (303)
T KOG3039|consen 44 DCCSLTLQPCRDP---VITP-DGYLFDREAILEYI 74 (303)
T ss_pred ceeeeecccccCC---ccCC-CCeeeeHHHHHHHH
Confidence 6899999998773 4566 89999999999986
No 207
>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=36.55 E-value=63 Score=23.11 Aligned_cols=30 Identities=23% Similarity=0.301 Sum_probs=17.8
Q ss_pred CCCCCchHHHHHHHHHHHHHHHHHHHHHHH
Q 035743 44 INKNLDSSVLLVLSVLLCALICSLGLNFLI 73 (216)
Q Consensus 44 ~~~~~~~~viiii~ill~~li~~l~l~~i~ 73 (216)
-+..|--.+++++..++..+++++++.+++
T Consensus 28 rN~sfirdFvLVic~~lVfVii~lFi~ll~ 57 (84)
T PF06143_consen 28 RNRSFIRDFVLVICCFLVFVIIVLFILLLY 57 (84)
T ss_pred hChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345666777777666655555555554443
No 208
>PF13314 DUF4083: Domain of unknown function (DUF4083)
Probab=35.80 E-value=1.2e+02 Score=20.12 Aligned_cols=6 Identities=67% Similarity=0.938 Sum_probs=2.3
Q ss_pred HHHHHH
Q 035743 72 LIRYIL 77 (216)
Q Consensus 72 i~r~~~ 77 (216)
++|...
T Consensus 26 ~IRri~ 31 (58)
T PF13314_consen 26 FIRRIL 31 (58)
T ss_pred HHHHHH
Confidence 343333
No 209
>PHA03240 envelope glycoprotein M; Provisional
Probab=35.68 E-value=58 Score=27.57 Aligned_cols=14 Identities=7% Similarity=0.406 Sum_probs=5.9
Q ss_pred HHHHHHHHHHHHHH
Q 035743 51 SVLLVLSVLLCALI 64 (216)
Q Consensus 51 ~viiii~ill~~li 64 (216)
.+++|++|+++++|
T Consensus 213 ~~WIiilIIiIiII 226 (258)
T PHA03240 213 IAWIFIAIIIIIVI 226 (258)
T ss_pred HhHHHHHHHHHHHH
Confidence 34444444444333
No 210
>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=35.20 E-value=27 Score=26.20 Aligned_cols=46 Identities=20% Similarity=0.377 Sum_probs=28.4
Q ss_pred CCcccccccccccCC-cceeecCCCCCccCccchHHHhccCC--CCccCC
Q 035743 124 LDAECVICLSEFASG-ELVRLLPKCNHGFHVRCIDKWLRLHS--SCPKCR 170 (216)
Q Consensus 124 ~~~~C~ICl~~~~~~-~~~~~lp~C~H~FH~~CI~~Wl~~~~--~CP~CR 170 (216)
++..|++|...|.-- ..-.....|+|.++..|-.. ..+.. .|-+|.
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~ 101 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQ 101 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhH
Confidence 447899999987532 12356667999999998665 21222 387774
No 211
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=35.14 E-value=56 Score=31.32 Aligned_cols=24 Identities=17% Similarity=0.265 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 035743 54 LVLSVLLCALICSLGLNFLIRYIL 77 (216)
Q Consensus 54 iii~ill~~li~~l~l~~i~r~~~ 77 (216)
++++|++++++++++.+++.|.+.
T Consensus 5 ~ii~i~ii~i~~~~~~~~~rr~~~ 28 (569)
T PRK04778 5 LIIAIVVIIIIAYLAGLILRKRNY 28 (569)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333333333333334444333
No 212
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=35.04 E-value=26 Score=25.54 Aligned_cols=34 Identities=24% Similarity=0.394 Sum_probs=21.9
Q ss_pred CcccccccccccCCcceeecCCCCCccCccchHHH
Q 035743 125 DAECVICLSEFASGELVRLLPKCNHGFHVRCIDKW 159 (216)
Q Consensus 125 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~W 159 (216)
...|.||......--....- .|...||..|...+
T Consensus 55 ~~~C~iC~~~~G~~i~C~~~-~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 55 KLKCSICGKSGGACIKCSHP-GCSTAFHPTCARKA 88 (110)
T ss_pred CCcCcCCCCCCceeEEcCCC-CCCcCCCHHHHHHC
Confidence 46899998873221112122 38889999998764
No 213
>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=34.98 E-value=35 Score=19.12 Aligned_cols=29 Identities=24% Similarity=0.492 Sum_probs=18.6
Q ss_pred ccccccccccCCcceeecCCCCCccCccch
Q 035743 127 ECVICLSEFASGELVRLLPKCNHGFHVRCI 156 (216)
Q Consensus 127 ~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI 156 (216)
.|.+|-.+..... .-....|+-.+|..|+
T Consensus 2 ~C~~C~~~~~~~~-~Y~C~~c~f~lh~~Ca 30 (30)
T PF03107_consen 2 WCDVCRRKIDGFY-FYHCSECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCCcCCCE-eEEeCCCCCeEcCccC
Confidence 4888876665543 3333457788888774
No 214
>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=34.77 E-value=30 Score=27.40 Aligned_cols=24 Identities=33% Similarity=0.769 Sum_probs=16.2
Q ss_pred CCCccCccchHHHhccC-----------CCCccCCccccc
Q 035743 147 CNHGFHVRCIDKWLRLH-----------SSCPKCRHCLIE 175 (216)
Q Consensus 147 C~H~FH~~CI~~Wl~~~-----------~~CP~CR~~l~~ 175 (216)
+||.|-. ||... .+||+|-..-+.
T Consensus 10 ~gH~FEg-----WF~ss~~fd~Q~~~glv~CP~Cgs~~V~ 44 (148)
T PF06676_consen 10 NGHEFEG-----WFRSSAAFDRQQARGLVSCPVCGSTEVS 44 (148)
T ss_pred CCCccce-----ecCCHHHHHHHHHcCCccCCCCCCCeEe
Confidence 6788754 98542 379999765543
No 215
>PF03672 UPF0154: Uncharacterised protein family (UPF0154); InterPro: IPR005359 The proteins in this entry are functionally uncharacterised.
Probab=34.42 E-value=1.1e+02 Score=20.82 Aligned_cols=10 Identities=20% Similarity=0.624 Sum_probs=3.7
Q ss_pred HHHHHHHHHH
Q 035743 67 LGLNFLIRYI 76 (216)
Q Consensus 67 l~l~~i~r~~ 76 (216)
+++++..+++
T Consensus 13 ~Gff~ar~~~ 22 (64)
T PF03672_consen 13 IGFFIARKYM 22 (64)
T ss_pred HHHHHHHHHH
Confidence 3433333333
No 216
>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=34.34 E-value=1.1e+02 Score=28.11 Aligned_cols=34 Identities=18% Similarity=0.074 Sum_probs=16.1
Q ss_pred CCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035743 44 INKNLDSSVLLVLSVLLCALICSLGLNFLIRYIL 77 (216)
Q Consensus 44 ~~~~~~~~viiii~ill~~li~~l~l~~i~r~~~ 77 (216)
+..+|...+++.++|-++++++++++..++.|+.
T Consensus 277 p~R~y~~d~~vtl~iPl~i~llL~llLs~Imc~r 310 (386)
T PF05510_consen 277 PGRDYFPDFLVTLAIPLIIALLLLLLLSYIMCCR 310 (386)
T ss_pred cccccHHHHHHHHHHHHHHHHHHHHHHHHHheec
Confidence 3445666665555444444443333333444444
No 217
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=34.20 E-value=22 Score=26.61 Aligned_cols=26 Identities=23% Similarity=0.512 Sum_probs=17.3
Q ss_pred cccccccccccCCc-ceeecCCCCCcc
Q 035743 126 AECVICLSEFASGE-LVRLLPKCNHGF 151 (216)
Q Consensus 126 ~~C~ICl~~~~~~~-~~~~lp~C~H~F 151 (216)
..|+-|-++|.-.+ ..-+.|.|+|-+
T Consensus 3 p~CP~C~seytY~dg~~~iCpeC~~EW 29 (109)
T TIGR00686 3 PPCPKCNSEYTYHDGTQLICPSCLYEW 29 (109)
T ss_pred CcCCcCCCcceEecCCeeECccccccc
Confidence 36999999976322 345677777763
No 218
>KOG3457 consensus Sec61 protein translocation complex, beta subunit [Posttranslational modification, protein turnover, chaperones]
Probab=34.13 E-value=36 Score=24.40 Aligned_cols=33 Identities=30% Similarity=0.343 Sum_probs=21.3
Q ss_pred CCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035743 42 DAINKNLDSSVLLVLSVLLCALICSLGLNFLIRYI 76 (216)
Q Consensus 42 ~~~~~~~~~~viiii~ill~~li~~l~l~~i~r~~ 76 (216)
+++.-..++.+++++++++++.+++| +++-++.
T Consensus 52 da~GlKV~PvvVLvmSvgFIasV~~L--Hi~gK~~ 84 (88)
T KOG3457|consen 52 DAPGLKVDPVVVLVMSVGFIASVFAL--HIWGKLT 84 (88)
T ss_pred CCCCceeCCeeehhhhHHHHHHHHHH--HHHHHHh
Confidence 35566778888888887777665443 4444443
No 219
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=33.96 E-value=9.6 Score=24.61 Aligned_cols=34 Identities=21% Similarity=0.506 Sum_probs=19.3
Q ss_pred ccccc--ccccccCCc--ce--eecCCCCCccCccchHHH
Q 035743 126 AECVI--CLSEFASGE--LV--RLLPKCNHGFHVRCIDKW 159 (216)
Q Consensus 126 ~~C~I--Cl~~~~~~~--~~--~~lp~C~H~FH~~CI~~W 159 (216)
.-|+- |-.-+..++ .. ...+.|++.|+..|-..|
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred cCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 36765 766655433 22 456669999999998888
No 220
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=33.94 E-value=19 Score=20.63 Aligned_cols=25 Identities=28% Similarity=0.707 Sum_probs=10.1
Q ss_pred cccccccccccC-CcceeecCCCCCc
Q 035743 126 AECVICLSEFAS-GELVRLLPKCNHG 150 (216)
Q Consensus 126 ~~C~ICl~~~~~-~~~~~~lp~C~H~ 150 (216)
..|+.|-.++.- +..+-+.|.|+|-
T Consensus 3 p~Cp~C~se~~y~D~~~~vCp~C~~e 28 (30)
T PF08274_consen 3 PKCPLCGSEYTYEDGELLVCPECGHE 28 (30)
T ss_dssp ---TTT-----EE-SSSEEETTTTEE
T ss_pred CCCCCCCCcceeccCCEEeCCccccc
Confidence 358888887652 2345566667775
No 221
>COG3190 FliO Flagellar biogenesis protein [Cell motility and secretion]
Probab=33.10 E-value=1.3e+02 Score=23.58 Aligned_cols=32 Identities=16% Similarity=0.169 Sum_probs=21.7
Q ss_pred CCCchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035743 46 KNLDSSVLLVLSVLLCALICSLGLNFLIRYIL 77 (216)
Q Consensus 46 ~~~~~~viiii~ill~~li~~l~l~~i~r~~~ 77 (216)
.+....+..+++-+++++.+++++.|+++.+.
T Consensus 18 ~~~~~~~~~~~gsL~~iL~lil~~~wl~kr~~ 49 (137)
T COG3190 18 ASAALELAQMFGSLILILALILFLAWLVKRLG 49 (137)
T ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34456667777777777777777777776665
No 222
>PHA02844 putative transmembrane protein; Provisional
Probab=32.97 E-value=90 Score=21.78 Aligned_cols=8 Identities=0% Similarity=0.256 Sum_probs=3.2
Q ss_pred CCchHHHH
Q 035743 47 NLDSSVLL 54 (216)
Q Consensus 47 ~~~~~vii 54 (216)
++.+..++
T Consensus 45 ~~~~~~~i 52 (75)
T PHA02844 45 SSSTKIWI 52 (75)
T ss_pred ChhHHHHH
Confidence 34444443
No 223
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=32.87 E-value=24 Score=33.06 Aligned_cols=48 Identities=19% Similarity=0.522 Sum_probs=32.5
Q ss_pred CCccccccccc-ccCCcceeecCCCCCccCccchHHHhccC--------CCCccCCc
Q 035743 124 LDAECVICLSE-FASGELVRLLPKCNHGFHVRCIDKWLRLH--------SSCPKCRH 171 (216)
Q Consensus 124 ~~~~C~ICl~~-~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~--------~~CP~CR~ 171 (216)
.+..|.+|..- ......+..+.+|+-.||..|...-.+.. -.|=+|..
T Consensus 167 ~n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~ 223 (464)
T KOG4323|consen 167 VNLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNR 223 (464)
T ss_pred ccceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhcc
Confidence 34569999843 33444556666789999999988865321 14888854
No 224
>PF14914 LRRC37AB_C: LRRC37A/B like protein 1 C-terminal domain
Probab=32.70 E-value=81 Score=25.03 Aligned_cols=15 Identities=20% Similarity=0.425 Sum_probs=6.4
Q ss_pred CCCchHHHHHHHHHH
Q 035743 46 KNLDSSVLLVLSVLL 60 (216)
Q Consensus 46 ~~~~~~viiii~ill 60 (216)
..++-.+++.+++.+
T Consensus 115 ~gY~nklilaisvtv 129 (154)
T PF14914_consen 115 YGYNNKLILAISVTV 129 (154)
T ss_pred ccccchhHHHHHHHH
Confidence 344434444444443
No 225
>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=32.60 E-value=16 Score=24.87 Aligned_cols=12 Identities=50% Similarity=1.317 Sum_probs=8.7
Q ss_pred ccCccchHHHhc
Q 035743 150 GFHVRCIDKWLR 161 (216)
Q Consensus 150 ~FH~~CI~~Wl~ 161 (216)
.||..|+..|++
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 599999999975
No 226
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=32.19 E-value=26 Score=25.96 Aligned_cols=33 Identities=24% Similarity=0.448 Sum_probs=27.4
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHh
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWL 160 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl 160 (216)
-.|.||-+++-.|+.-..+++ -.-|.+|+..=.
T Consensus 3 WkC~iCg~~I~~gqlFTF~~k--G~VH~~C~~~~~ 35 (101)
T PF09943_consen 3 WKCYICGKPIYEGQLFTFTKK--GPVHYECFREKA 35 (101)
T ss_pred eEEEecCCeeeecceEEEecC--CcEeHHHHHHHH
Confidence 369999999999998888874 667999987754
No 227
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=32.17 E-value=23 Score=30.64 Aligned_cols=41 Identities=22% Similarity=0.256 Sum_probs=30.0
Q ss_pred CcccccccccccCCcceeecCCCCCccCccchHHHhccCC--CCcc
Q 035743 125 DAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHS--SCPK 168 (216)
Q Consensus 125 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~--~CP~ 168 (216)
+..|+|=...+.+. ++ -.+|||+|-.+=|...+.... .||+
T Consensus 176 s~rdPis~~~I~nP--vi-SkkC~HvydrDsI~~~l~~~~~i~CPv 218 (262)
T KOG2979|consen 176 SNRDPISKKPIVNP--VI-SKKCGHVYDRDSIMQILCDEITIRCPV 218 (262)
T ss_pred cccCchhhhhhhch--hh-hcCcCcchhhhhHHHHhccCceeeccc
Confidence 36788887776653 33 335999999999999987644 4776
No 228
>PRK07021 fliL flagellar basal body-associated protein FliL; Reviewed
Probab=32.09 E-value=1.2e+02 Score=23.94 Aligned_cols=9 Identities=11% Similarity=0.139 Sum_probs=3.6
Q ss_pred CCchHHHHH
Q 035743 47 NLDSSVLLV 55 (216)
Q Consensus 47 ~~~~~viii 55 (216)
+....++++
T Consensus 14 ~kkkl~ii~ 22 (162)
T PRK07021 14 KKRKLWLII 22 (162)
T ss_pred CccchhHHH
Confidence 444344433
No 229
>PF02038 ATP1G1_PLM_MAT8: ATP1G1/PLM/MAT8 family; InterPro: IPR000272 The FXYD protein family contains at least seven members in mammals []. Two other family members that are not obvious orthologs of any identified mammalian FXYD protein exist in zebrafish. All these proteins share a signature sequence of six conserved amino acids comprising the FXYD motif in the NH2-terminus, and two glycines and one serine residue in the transmembrane domain. FXYD proteins are widely distributed in mammalian tissues with prominent expression in tissues that perform fluid and solute transport or that are electrically excitable. Initial functional characterisation suggested that FXYD proteins act as channels or as modulators of ion channels however studies have revealed that most FXYD proteins have another specific function and act as tissue-specific regulatory subunits of the Na,K-ATPase. Each of these auxiliary subunits produces a distinct functional effect on the transport characteristics of the Na,K-ATPase that is adjusted to the specific functional demands of the tissue in which the FXYD protein is expressed. FXYD proteins appear to preferentially associate with Na,K-ATPase alpha1-beta isozymes, and affect their function in a way that render them operationally complementary or supplementary to coexisting isozymes.; GO: 0005216 ion channel activity, 0006811 ion transport, 0016020 membrane; PDB: 2JO1_A 2JP3_A 2ZXE_G 3A3Y_G 3N23_E 3B8E_H 3KDP_G 3N2F_E.
Probab=31.89 E-value=71 Score=20.55 Aligned_cols=26 Identities=15% Similarity=0.338 Sum_probs=15.6
Q ss_pred CCchHHHHHHHHHHHHHHHHHHHHHH
Q 035743 47 NLDSSVLLVLSVLLCALICSLGLNFL 72 (216)
Q Consensus 47 ~~~~~viiii~ill~~li~~l~l~~i 72 (216)
.++.--+=+-+.+++++++++++.++
T Consensus 8 ~YDy~tLrigGLi~A~vlfi~Gi~ii 33 (50)
T PF02038_consen 8 YYDYETLRIGGLIFAGVLFILGILII 33 (50)
T ss_dssp GGCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccchhHhhccchHHHHHHHHHHHHHH
Confidence 45555555666666666666666554
No 230
>PF10577 UPF0560: Uncharacterised protein family UPF0560; InterPro: IPR018890 This family of proteins has no known function.
Probab=31.39 E-value=1e+02 Score=30.95 Aligned_cols=25 Identities=16% Similarity=0.147 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 035743 53 LLVLSVLLCALICSLGLNFLIRYIL 77 (216)
Q Consensus 53 iiii~ill~~li~~l~l~~i~r~~~ 77 (216)
+++++||..++++++++.++.-|++
T Consensus 273 ~fLl~ILG~~~livl~lL~vLl~yC 297 (807)
T PF10577_consen 273 VFLLAILGGTALIVLILLCVLLCYC 297 (807)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3444455544444444444444444
No 231
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=31.24 E-value=20 Score=20.04 Aligned_cols=15 Identities=27% Similarity=0.693 Sum_probs=7.4
Q ss_pred CCccCCccccchhhh
Q 035743 165 SCPKCRHCLIETCEK 179 (216)
Q Consensus 165 ~CP~CR~~l~~~~~~ 179 (216)
.||.|-..|....++
T Consensus 1 ~CP~C~s~l~~~~~e 15 (28)
T PF03119_consen 1 TCPVCGSKLVREEGE 15 (28)
T ss_dssp B-TTT--BEEE-CCT
T ss_pred CcCCCCCEeEcCCCC
Confidence 488888888754443
No 232
>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=30.86 E-value=30 Score=20.32 Aligned_cols=10 Identities=30% Similarity=0.896 Sum_probs=7.1
Q ss_pred CCCCccCCcc
Q 035743 163 HSSCPKCRHC 172 (216)
Q Consensus 163 ~~~CP~CR~~ 172 (216)
...||.|...
T Consensus 26 ~~~CP~Cg~~ 35 (41)
T smart00834 26 LATCPECGGD 35 (41)
T ss_pred CCCCCCCCCc
Confidence 4569999763
No 233
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=30.71 E-value=27 Score=25.60 Aligned_cols=35 Identities=17% Similarity=0.408 Sum_probs=28.1
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhcc
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRL 162 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~ 162 (216)
-.|.||-+.+..++....++ .-.-|.+|+..=...
T Consensus 7 wkC~VCg~~iieGqkFTF~~--kGsVH~eCl~~s~~~ 41 (103)
T COG4847 7 WKCYVCGGTIIEGQKFTFTK--KGSVHYECLAESKRK 41 (103)
T ss_pred eeEeeeCCEeeeccEEEEee--CCcchHHHHHHHHhc
Confidence 57999999999999888887 455699998875433
No 234
>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=30.41 E-value=58 Score=31.85 Aligned_cols=42 Identities=24% Similarity=0.128 Sum_probs=27.2
Q ss_pred CCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035743 36 AAAAPSDAINKNLDSSVLLVLSVLLCALICSLGLNFLIRYIL 77 (216)
Q Consensus 36 ~~~~p~~~~~~~~~~~viiii~ill~~li~~l~l~~i~r~~~ 77 (216)
.+.|+..+.+.+....+.+++-++++++|+++..+.+.|.-.
T Consensus 257 ~a~P~~~s~~~NlWII~gVlvPv~vV~~Iiiil~~~LCRk~K 298 (684)
T PF12877_consen 257 QAEPPAKSPPNNLWIIAGVLVPVLVVLLIIIILYWKLCRKNK 298 (684)
T ss_pred ccCCCCCCCCCCeEEEehHhHHHHHHHHHHHHHHHHHhcccc
Confidence 344555556677777777777777777666666666666554
No 235
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=29.55 E-value=34 Score=29.17 Aligned_cols=27 Identities=26% Similarity=0.516 Sum_probs=19.8
Q ss_pred cccccccccccCCcceeecCCCCCccCc
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHV 153 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~ 153 (216)
..|++|-+.+...+.--.++ .||.|-.
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~-~~h~fd~ 29 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICP-QNHQFDC 29 (272)
T ss_pred ccCCCCCcchhcCCCEEEcC-CCCCCcc
Confidence 46999999997655555565 6898843
No 236
>PF11446 DUF2897: Protein of unknown function (DUF2897); InterPro: IPR021550 This is a bacterial family of uncharacterised proteins.
Probab=29.22 E-value=80 Score=20.65 Aligned_cols=15 Identities=20% Similarity=0.397 Sum_probs=6.6
Q ss_pred hHHHHHHHHHHHHHH
Q 035743 50 SSVLLVLSVLLCALI 64 (216)
Q Consensus 50 ~~viiii~ill~~li 64 (216)
+.+++|+++++.+++
T Consensus 3 ~~~wlIIviVlgvIi 17 (55)
T PF11446_consen 3 WNPWLIIVIVLGVII 17 (55)
T ss_pred chhhHHHHHHHHHHH
Confidence 344454444444433
No 237
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=28.96 E-value=50 Score=25.74 Aligned_cols=15 Identities=33% Similarity=0.689 Sum_probs=11.9
Q ss_pred CCCccCCccccchhh
Q 035743 164 SSCPKCRHCLIETCE 178 (216)
Q Consensus 164 ~~CP~CR~~l~~~~~ 178 (216)
..||.|...|.+..+
T Consensus 124 f~Cp~Cg~~l~~~dn 138 (147)
T smart00531 124 FTCPRCGEELEEDDN 138 (147)
T ss_pred EECCCCCCEEEEcCc
Confidence 579999998886554
No 238
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=28.95 E-value=30 Score=23.09 Aligned_cols=14 Identities=21% Similarity=0.778 Sum_probs=10.3
Q ss_pred CCCCccCCccccch
Q 035743 163 HSSCPKCRHCLIET 176 (216)
Q Consensus 163 ~~~CP~CR~~l~~~ 176 (216)
.+.||+|..+....
T Consensus 39 ~p~CPlC~s~M~~~ 52 (59)
T PF14169_consen 39 EPVCPLCKSPMVSG 52 (59)
T ss_pred CccCCCcCCccccc
Confidence 46799998877643
No 239
>PF15048 OSTbeta: Organic solute transporter subunit beta protein
Probab=28.95 E-value=68 Score=24.66 Aligned_cols=12 Identities=25% Similarity=0.218 Sum_probs=5.3
Q ss_pred HHHHHHHHHHHH
Q 035743 66 SLGLNFLIRYIL 77 (216)
Q Consensus 66 ~l~l~~i~r~~~ 77 (216)
+++++++.|-..
T Consensus 48 vi~~~LLgrsi~ 59 (125)
T PF15048_consen 48 VISFFLLGRSIQ 59 (125)
T ss_pred HHHHHHHHHHhH
Confidence 334444444444
No 240
>PHA03054 IMV membrane protein; Provisional
Probab=28.91 E-value=1.7e+02 Score=20.19 Aligned_cols=10 Identities=10% Similarity=0.085 Sum_probs=4.1
Q ss_pred CCchHHHHHH
Q 035743 47 NLDSSVLLVL 56 (216)
Q Consensus 47 ~~~~~viiii 56 (216)
++.+..++++
T Consensus 45 ~~~~~~~ii~ 54 (72)
T PHA03054 45 CWGWYWLIII 54 (72)
T ss_pred CchHHHHHHH
Confidence 4444444333
No 241
>KOG3352 consensus Cytochrome c oxidase, subunit Vb/COX4 [Energy production and conversion]
Probab=28.81 E-value=32 Score=27.36 Aligned_cols=7 Identities=29% Similarity=0.847 Sum_probs=4.1
Q ss_pred cccccccc
Q 035743 127 ECVICLSE 134 (216)
Q Consensus 127 ~C~ICl~~ 134 (216)
-| +|.++
T Consensus 113 GC-~c~eD 119 (153)
T KOG3352|consen 113 GC-GCEED 119 (153)
T ss_pred ee-cccCC
Confidence 36 66655
No 242
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=28.63 E-value=38 Score=35.01 Aligned_cols=56 Identities=25% Similarity=0.491 Sum_probs=38.9
Q ss_pred CCCCcccccccccccC-CcceeecCCCCCccCccchHHHhc-cCCCCccCCccccchhhh
Q 035743 122 PGLDAECVICLSEFAS-GELVRLLPKCNHGFHVRCIDKWLR-LHSSCPKCRHCLIETCEK 179 (216)
Q Consensus 122 ~~~~~~C~ICl~~~~~-~~~~~~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~~~~~ 179 (216)
.+.+..|.||++-=.. .+.+..+..|+=..|.+|.. .. ...-+=+||+++..+.+.
T Consensus 216 ~~~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cyg--i~~ipeg~WlCr~Cl~s~~~~ 273 (1051)
T KOG0955|consen 216 LEEDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYG--IPFIPEGQWLCRRCLQSPQRP 273 (1051)
T ss_pred cCCCccceeecccccCCCceEEEcCCCcchhhhhccC--CCCCCCCcEeehhhccCcCcc
Confidence 3566899999987443 34566677899999999988 11 123467778777765554
No 243
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=28.39 E-value=71 Score=24.70 Aligned_cols=11 Identities=9% Similarity=0.003 Sum_probs=6.2
Q ss_pred CCccCCccccc
Q 035743 165 SCPKCRHCLIE 175 (216)
Q Consensus 165 ~CP~CR~~l~~ 175 (216)
.||.|-.....
T Consensus 28 vcP~cg~~~~~ 38 (129)
T TIGR02300 28 VSPYTGEQFPP 38 (129)
T ss_pred cCCCcCCccCc
Confidence 57777555443
No 244
>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=28.39 E-value=52 Score=24.35 Aligned_cols=24 Identities=29% Similarity=0.607 Sum_probs=18.6
Q ss_pred CCccCccchHHHhccC---------CCCccCCc
Q 035743 148 NHGFHVRCIDKWLRLH---------SSCPKCRH 171 (216)
Q Consensus 148 ~H~FH~~CI~~Wl~~~---------~~CP~CR~ 171 (216)
.=.|+..||..++... -.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 6779999999987432 25999986
No 245
>PHA02975 hypothetical protein; Provisional
Probab=28.37 E-value=1.9e+02 Score=19.82 Aligned_cols=7 Identities=29% Similarity=0.202 Sum_probs=2.6
Q ss_pred CchHHHH
Q 035743 48 LDSSVLL 54 (216)
Q Consensus 48 ~~~~vii 54 (216)
+.+.+++
T Consensus 42 ~~~~~~i 48 (69)
T PHA02975 42 SLSIILI 48 (69)
T ss_pred chHHHHH
Confidence 3333333
No 246
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=28.26 E-value=29 Score=30.56 Aligned_cols=32 Identities=28% Similarity=0.594 Sum_probs=23.9
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHH
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDK 158 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~ 158 (216)
..|.||+.....++ ...+.-|...||.-|+..
T Consensus 315 ~lC~IC~~P~~E~E-~~FCD~CDRG~HT~CVGL 346 (381)
T KOG1512|consen 315 ELCRICLGPVIESE-HLFCDVCDRGPHTLCVGL 346 (381)
T ss_pred HhhhccCCcccchh-eeccccccCCCCcccccc
Confidence 46999998866644 445556999999999864
No 247
>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=28.05 E-value=87 Score=22.91 Aligned_cols=9 Identities=11% Similarity=-0.322 Sum_probs=3.8
Q ss_pred HHHHHHHHH
Q 035743 52 VLLVLSVLL 60 (216)
Q Consensus 52 viiii~ill 60 (216)
+|-.++...
T Consensus 41 yWpyLA~GG 49 (98)
T PF07204_consen 41 YWPYLAAGG 49 (98)
T ss_pred hhHHhhccc
Confidence 444444443
No 248
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=27.91 E-value=49 Score=21.17 Aligned_cols=10 Identities=30% Similarity=0.640 Sum_probs=7.1
Q ss_pred cCCCCccCCc
Q 035743 162 LHSSCPKCRH 171 (216)
Q Consensus 162 ~~~~CP~CR~ 171 (216)
..-.||+|..
T Consensus 33 ~~w~CP~C~a 42 (50)
T cd00730 33 DDWVCPVCGA 42 (50)
T ss_pred CCCCCCCCCC
Confidence 3447999975
No 249
>PRK10220 hypothetical protein; Provisional
Probab=27.64 E-value=41 Score=25.25 Aligned_cols=25 Identities=28% Similarity=0.669 Sum_probs=16.3
Q ss_pred cccccccccccCCc-ceeecCCCCCc
Q 035743 126 AECVICLSEFASGE-LVRLLPKCNHG 150 (216)
Q Consensus 126 ~~C~ICl~~~~~~~-~~~~lp~C~H~ 150 (216)
.-|+-|-++|.-.+ ..-+.|.|+|-
T Consensus 4 P~CP~C~seytY~d~~~~vCpeC~hE 29 (111)
T PRK10220 4 PHCPKCNSEYTYEDNGMYICPECAHE 29 (111)
T ss_pred CcCCCCCCcceEcCCCeEECCcccCc
Confidence 46999998876332 34566667765
No 250
>PF05283 MGC-24: Multi-glycosylated core protein 24 (MGC-24); InterPro: IPR007947 CD164 is a mucin-like receptor, or sialomucin, with specificity in receptor/ ligand interactions that depends on the structural characteristics of the mucin-like receptor. Its functions include mediating, or regulating, haematopoietic progenitor cell adhesion and the negative regulation of their growth and/or-differentiation. It exists in the native state as a disulphide- linked homodimer of two 80-85kDa subunits. It is usually expressed by CD34+ and CD341o/- haematopoietic stem cells and associated microenvironmental cells. It contains, in its extracellular region, two mucin domains (I and II) linked by a non-mucin domain, which has been predicted to contain intra- disulphide bridges. This receptor may play a key role in haematopoiesis by facilitating the adhesion of human CD34+ cells to bone marrow stroma and by negatively regulating CD34+ CD341o/- haematopoietic progenitor cell proliferation. These effects involve the CD164 class I and/or II epitopes recognised by the monoclonal antibodies (mAbs) 105A5 and 103B2/9E10. These epitopes are carbohydrate-dependent and are located on the N-terminal mucin domain I [, ]. It has been found that murine MGC-24v and rat endolyn share significant sequence similarities with human CD164. However, CD164 lacks the consensus glycosaminoglycan (GAG)-attachment site found in MGC-24; it is possible that GAG-association is responsible for the high molecular weight of the epithelial-derived MGC-24 glycoprotein []. Genomic structure studies have placed CD164 within the mucin-subgroup that comprises multiple exons, and demonstrate the diverse chromosomal distribution of this family of molecules. Molecules with such multiple exons may have sophisticated regulatory mechanisms that involve not only post-translational modifications of the oligosaccharide side chains, but also differential exon usage. Although differences in the intron and exon sizes are seen between the mouse and human genes, the predicted proteins are similar in size and structure, maintaining functionally important motifs that regulate cell proliferation or subcellular distribution []. CD164 is a gene whose expression depends on differential usage of poly- adenylation sites within the 3'-UTR. The conserved distribution of the 3.2- and 1.2-kb CD164 transcripts between mouse and human suggests that (i) a mechanism may exist to regulate tissue-specific polyadenylation, and (ii) differences in polyadenylation are important for the expression and function of CD164 in different tissues. Two other aspects of the structure of CD164 are of particular interest. First, it shares one of several conserved features of a cytokine-binding pocket - in this respect, it is notable that evidence exists for a class of cell-surface sialomucin modulators that directly interact with growth factor receptors to regulate their response to physiological ligands. Second, its cytoplasmic tail contains a C-terminal YHTL motif found in many endocytic membrane proteins or receptors. These Tyr-based motifs bind to adaptor proteins, which mediate the sorting of membrane proteins into transport vesicles from the plasma membrane to the endosomes, and between intracellular compartments.
Probab=27.63 E-value=1.4e+02 Score=24.61 Aligned_cols=22 Identities=14% Similarity=0.194 Sum_probs=11.5
Q ss_pred CCCCCchHHHHHHHHHHHHHHH
Q 035743 44 INKNLDSSVLLVLSVLLCALIC 65 (216)
Q Consensus 44 ~~~~~~~~viiii~ill~~li~ 65 (216)
....||..=++.=+||.+.++.
T Consensus 154 ~~s~FD~~SFiGGIVL~LGv~a 175 (186)
T PF05283_consen 154 KKSTFDAASFIGGIVLTLGVLA 175 (186)
T ss_pred CCCCCchhhhhhHHHHHHHHHH
Confidence 3456776655544444444443
No 251
>PLN02189 cellulose synthase
Probab=27.17 E-value=63 Score=33.37 Aligned_cols=49 Identities=24% Similarity=0.518 Sum_probs=34.7
Q ss_pred ccccccccccc---CCcceeecCCCCCccCccchHHHhc-cCCCCccCCcccc
Q 035743 126 AECVICLSEFA---SGELVRLLPKCNHGFHVRCIDKWLR-LHSSCPKCRHCLI 174 (216)
Q Consensus 126 ~~C~ICl~~~~---~~~~~~~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~l~ 174 (216)
..|.||-+++. +++.-..+..|+-=-|..|.+-=.+ .++.||-|++..-
T Consensus 35 ~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 35 QVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 57999999975 4555556666777788889843233 2457999988665
No 252
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=27.16 E-value=8.4 Score=35.57 Aligned_cols=29 Identities=21% Similarity=0.509 Sum_probs=18.5
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHH
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDK 158 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~ 158 (216)
+.|..|-+.+.+ ++|..||-.||..|+..
T Consensus 335 ekC~~Cg~~I~d----~iLrA~GkayHp~CF~C 363 (468)
T KOG1701|consen 335 EKCNKCGEPIMD----RILRALGKAYHPGCFTC 363 (468)
T ss_pred HHHhhhhhHHHH----HHHHhcccccCCCceEE
Confidence 457777666554 35556788888776543
No 253
>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=26.98 E-value=29 Score=30.76 Aligned_cols=41 Identities=20% Similarity=0.396 Sum_probs=27.4
Q ss_pred CcccccccccccC--------CcceeecCCCCCccCccchHHHhccCCCCccCCc
Q 035743 125 DAECVICLSEFAS--------GELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRH 171 (216)
Q Consensus 125 ~~~C~ICl~~~~~--------~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~ 171 (216)
...|+||-+.=.. .+..| |.+|.-|-..|--.+..||.|-.
T Consensus 184 ~~~CPvCGs~P~~s~~~~~~~~~G~R------yL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 184 RTLCPACGSPPVASMVRQGGKETGLR------YLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CCcCCCCCChhhhhhhcccCCCCCce------EEEcCCCCCcccccCccCCCCCC
Confidence 3589999876321 12233 55556777789777888999954
No 254
>PRK11486 flagellar biosynthesis protein FliO; Provisional
Probab=26.89 E-value=2.1e+02 Score=21.91 Aligned_cols=22 Identities=23% Similarity=0.341 Sum_probs=8.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 035743 52 VLLVLSVLLCALICSLGLNFLI 73 (216)
Q Consensus 52 viiii~ill~~li~~l~l~~i~ 73 (216)
++-+++.|+.++.+++++.|+.
T Consensus 18 l~qv~~~L~lVl~lI~~~aWLl 39 (124)
T PRK11486 18 LLQVSGALIGIIALILAAAWLV 39 (124)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444433333333333
No 255
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=26.64 E-value=53 Score=29.21 Aligned_cols=47 Identities=19% Similarity=0.387 Sum_probs=28.4
Q ss_pred CCcccccccccccCCcceee--cCCCCCccCccchHHHhccCCCCccCCc
Q 035743 124 LDAECVICLSEFASGELVRL--LPKCNHGFHVRCIDKWLRLHSSCPKCRH 171 (216)
Q Consensus 124 ~~~~C~ICl~~~~~~~~~~~--lp~C~H~FH~~CI~~Wl~~~~~CP~CR~ 171 (216)
....|+||-+.=... .++. -..=.|.+|.-|-..|--.+..||.|-.
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 347899998763211 0110 0112255566788889777888999954
No 256
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=26.41 E-value=33 Score=21.47 Aligned_cols=26 Identities=27% Similarity=0.530 Sum_probs=14.0
Q ss_pred CCCCCccCccchHHHhccCCCCccCCc
Q 035743 145 PKCNHGFHVRCIDKWLRLHSSCPKCRH 171 (216)
Q Consensus 145 p~C~H~FH~~CI~~Wl~~~~~CP~CR~ 171 (216)
++|||.|-..--.. -.....||.|..
T Consensus 9 ~~Cg~~fe~~~~~~-~~~~~~CP~Cg~ 34 (52)
T TIGR02605 9 TACGHRFEVLQKMS-DDPLATCPECGG 34 (52)
T ss_pred CCCCCEeEEEEecC-CCCCCCCCCCCC
Confidence 34888777521100 012346999976
No 257
>PF01299 Lamp: Lysosome-associated membrane glycoprotein (Lamp); InterPro: IPR002000 Lysosome-associated membrane glycoproteins (lamp) [] are integral membrane proteins, specific to lysosomes, and whose exact biological function is not yet clear. Structurally, the lamp proteins consist of two internally homologous lysosome-luminal domains separated by a proline-rich hinge region; at the C-terminal extremity there is a transmembrane region (TM) followed by a very short cytoplasmic tail (C). In each of the duplicated domains, there are two conserved disulphide bonds. This structure is schematically represented in the figure below. +-----+ +-----+ +-----+ +-----+ | | | | | | | | xCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxxxCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxx +--------------------------++Hinge++--------------------------++TM++C+ In mammals, there are two closely related types of lamp: lamp-1 and lamp-2, which form major components of the lysosome membrane. In chicken lamp-1 is known as LEP100. Also included in this entry is the macrophage protein CD68 (or macrosialin) [] is a heavily glycosylated integral membrane protein whose structure consists of a mucin-like domain followed by a proline-rich hinge; a single lamp-like domain; a transmembrane region and a short cytoplasmic tail. Similar to CD68, mammalian lamp-3, which is expressed in lymphoid organs, dendritic cells and in lung, contains all the C-terminal regions but lacks the N-terminal lamp-like region []. In a lamp-family protein from nematodes [] only the part C-terminal to the hinge is conserved. ; GO: 0016020 membrane
Probab=26.38 E-value=43 Score=29.36 Aligned_cols=29 Identities=21% Similarity=0.267 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 035743 53 LLVLSVLLCALICSLGLNFLIRYILIKCS 81 (216)
Q Consensus 53 iiii~ill~~li~~l~l~~i~r~~~rr~~ 81 (216)
-+++-|++.+.++.|+++.++.|++.|++
T Consensus 270 ~~~vPIaVG~~La~lvlivLiaYli~Rrr 298 (306)
T PF01299_consen 270 SDLVPIAVGAALAGLVLIVLIAYLIGRRR 298 (306)
T ss_pred cchHHHHHHHHHHHHHHHHHHhheeEecc
Confidence 45555555555555555555555553433
No 258
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=25.93 E-value=39 Score=23.57 Aligned_cols=32 Identities=31% Similarity=0.619 Sum_probs=21.9
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHH
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDK 158 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~ 158 (216)
..|.+|-......-... .+.|.-.||..|...
T Consensus 37 ~~C~~C~~~~Ga~i~C~-~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 37 LKCSICKKKGGACIGCS-HPGCSRSFHVPCARK 68 (90)
T ss_pred CCCcCCCCCCCeEEEEe-CCCCCcEEChHHHcc
Confidence 68999986633322333 334999999999765
No 259
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=25.89 E-value=45 Score=21.87 Aligned_cols=11 Identities=36% Similarity=0.975 Sum_probs=7.5
Q ss_pred CCCccCCcccc
Q 035743 164 SSCPKCRHCLI 174 (216)
Q Consensus 164 ~~CP~CR~~l~ 174 (216)
..||.||+.-.
T Consensus 29 lyCpKCK~Etl 39 (55)
T PF14205_consen 29 LYCPKCKQETL 39 (55)
T ss_pred ccCCCCCceEE
Confidence 35999987543
No 260
>PF03911 Sec61_beta: Sec61beta family; InterPro: IPR005609 This family consists of Sec61 subunit beta and homologues like archaeal SecG. This subunit is a component of the Sec61/SecYEG protein secretory system.; PDB: 2WWA_C 2WW9_C 3BO0_C 3KCR_C 3BO1_C 2YXR_C 3DKN_C 2YXQ_C 1RH5_C 1RHZ_C ....
Probab=25.71 E-value=97 Score=18.87 Aligned_cols=24 Identities=21% Similarity=0.422 Sum_probs=15.2
Q ss_pred CCCCCchHHHHHHHHHHHHHHHHH
Q 035743 44 INKNLDSSVLLVLSVLLCALICSL 67 (216)
Q Consensus 44 ~~~~~~~~viiii~ill~~li~~l 67 (216)
..-..++..++++++.+.++++++
T Consensus 14 ~giki~P~~Vl~~si~fi~~V~~L 37 (41)
T PF03911_consen 14 PGIKIDPKTVLIISIAFIAIVILL 37 (41)
T ss_dssp -SS-BSCCHHHHHHHHHHHHHHHH
T ss_pred CcceeCCeehHHHHHHHHHHHHHH
Confidence 345677788888877777666544
No 261
>PF07438 DUF1514: Protein of unknown function (DUF1514); InterPro: IPR009999 This entry is represented by Bacteriophage phi PVL, Orf60. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several Staphylococcus aureus and related bacteriophage proteins of around 65 residues in length. The function of this family is unknown.
Probab=25.66 E-value=62 Score=21.96 Aligned_cols=12 Identities=17% Similarity=0.567 Sum_probs=6.3
Q ss_pred HHHHHHHHHHHH
Q 035743 53 LLVLSVLLCALI 64 (216)
Q Consensus 53 iiii~ill~~li 64 (216)
+++++|++++++
T Consensus 2 WIiiSIvLai~l 13 (66)
T PF07438_consen 2 WIIISIVLAIAL 13 (66)
T ss_pred hhhHHHHHHHHH
Confidence 455555555443
No 262
>PHA02947 S-S bond formation pathway protein; Provisional
Probab=25.38 E-value=73 Score=26.78 Aligned_cols=26 Identities=15% Similarity=0.275 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035743 52 VLLVLSVLLCALICSLGLNFLIRYIL 77 (216)
Q Consensus 52 viiii~ill~~li~~l~l~~i~r~~~ 77 (216)
-|.+++++++++++++++..+.|...
T Consensus 179 ~W~i~~~~~i~~i~~i~i~~irR~i~ 204 (215)
T PHA02947 179 PWFIVGVVIILIIFVIAICSIKRKIN 204 (215)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHhe
Confidence 44445666666666666655555443
No 263
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=25.26 E-value=42 Score=20.61 Aligned_cols=20 Identities=30% Similarity=0.816 Sum_probs=14.6
Q ss_pred HHHhccCCCCccCCccccch
Q 035743 157 DKWLRLHSSCPKCRHCLIET 176 (216)
Q Consensus 157 ~~Wl~~~~~CP~CR~~l~~~ 176 (216)
.-|-.....||.|..+|+..
T Consensus 11 ~G~~ML~~~Cp~C~~PL~~~ 30 (41)
T PF06677_consen 11 QGWTMLDEHCPDCGTPLMRD 30 (41)
T ss_pred HhHhHhcCccCCCCCeeEEe
Confidence 34555567899998888873
No 264
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=25.15 E-value=42 Score=19.52 Aligned_cols=8 Identities=38% Similarity=1.124 Sum_probs=5.4
Q ss_pred CCCccCCc
Q 035743 164 SSCPKCRH 171 (216)
Q Consensus 164 ~~CP~CR~ 171 (216)
..||+|.+
T Consensus 19 ~~CP~Cg~ 26 (34)
T cd00729 19 EKCPICGA 26 (34)
T ss_pred CcCcCCCC
Confidence 46888854
No 265
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=25.04 E-value=1.4e+02 Score=20.85 Aligned_cols=24 Identities=17% Similarity=0.287 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 035743 51 SVLLVLSVLLCALICSLGLNFLIR 74 (216)
Q Consensus 51 ~viiii~ill~~li~~l~l~~i~r 74 (216)
.++++..+++.+++..+.+++-++
T Consensus 4 ~fl~~plivf~ifVap~WL~lHY~ 27 (75)
T PF06667_consen 4 EFLFVPLIVFMIFVAPIWLILHYR 27 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444545555554544443
No 266
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=24.89 E-value=29 Score=29.71 Aligned_cols=40 Identities=33% Similarity=0.517 Sum_probs=30.1
Q ss_pred CcccccccccccCCcceeecCCCCCccCccchHHHhccCCC--Cc
Q 035743 125 DAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSS--CP 167 (216)
Q Consensus 125 ~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~--CP 167 (216)
+..|+|-+..+.-. .+-.+|+|.|..+-|...++...+ ||
T Consensus 189 ~nrCpitl~p~~~p---ils~kcnh~~e~D~I~~~lq~~~trvcp 230 (275)
T COG5627 189 SNRCPITLNPDFYP---ILSSKCNHKPEMDLINKKLQVECTRVCP 230 (275)
T ss_pred cccCCcccCcchhH---HHHhhhcccccHHHHHHHhcCCceeecc
Confidence 46899998886542 344469999999999999886554 55
No 267
>PF07219 HemY_N: HemY protein N-terminus; InterPro: IPR010817 This entry represents the N terminus (approximately 150 residues) of bacterial HemY porphyrin biosynthesis proteins. These are membrane protein involved in a late step of protoheme IX synthesis [].
Probab=24.53 E-value=1.2e+02 Score=22.17 Aligned_cols=14 Identities=29% Similarity=0.430 Sum_probs=5.3
Q ss_pred hHHHHHHHHHHHHH
Q 035743 50 SSVLLVLSVLLCAL 63 (216)
Q Consensus 50 ~~viiii~ill~~l 63 (216)
.++++.++++++++
T Consensus 14 ~sl~~~~~~l~~~~ 27 (108)
T PF07219_consen 14 TSLWVALILLLLLF 27 (108)
T ss_pred eeHHHHHHHHHHHH
Confidence 33443333333333
No 268
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=24.41 E-value=30 Score=30.27 Aligned_cols=45 Identities=22% Similarity=0.598 Sum_probs=32.8
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhccCC----CCccCCc
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHS----SCPKCRH 171 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~----~CP~CR~ 171 (216)
..|.||-.. +++|.+-....|...||--|+..=+.... +|.+|-.
T Consensus 282 k~csicgts-enddqllfcddcdrgyhmyclsppm~eppegswsc~KOG~ 330 (336)
T KOG1244|consen 282 KYCSICGTS-ENDDQLLFCDDCDRGYHMYCLSPPMVEPPEGSWSCHLCLE 330 (336)
T ss_pred ceeccccCc-CCCceeEeecccCCceeeEecCCCcCCCCCCchhHHHHHH
Confidence 358888644 45567777778999999999988765433 5888743
No 269
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=24.19 E-value=24 Score=37.69 Aligned_cols=49 Identities=29% Similarity=0.666 Sum_probs=37.4
Q ss_pred CCcccccccccccCCcceeecCCCCCccCccchHHHhccCC----CCccCCccc
Q 035743 124 LDAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHS----SCPKCRHCL 173 (216)
Q Consensus 124 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~----~CP~CR~~l 173 (216)
....|.+|.......+.+ ++..|.-.||..|+..-+..-. .||-||...
T Consensus 1107 ~~~~c~~cr~k~~~~~m~-lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1107 VNALCKVCRRKKQDEKML-LCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred chhhhhhhhhcccchhhh-hhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 347899999987774433 4445889999999999876543 699998765
No 270
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=24.16 E-value=72 Score=22.53 Aligned_cols=49 Identities=20% Similarity=0.485 Sum_probs=18.5
Q ss_pred ccccccccccc---CCcceeecCCCCCccCccchHHHhcc-CCCCccCCcccc
Q 035743 126 AECVICLSEFA---SGELVRLLPKCNHGFHVRCIDKWLRL-HSSCPKCRHCLI 174 (216)
Q Consensus 126 ~~C~ICl~~~~---~~~~~~~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~l~ 174 (216)
..|.||-+++. +++.......|+---+..|.+-=.+. ++.||-|++..-
T Consensus 10 qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 10 QICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp -B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred cccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 57999999875 34444444445555566676654443 467999986543
No 271
>PHA03286 envelope glycoprotein E; Provisional
Probab=23.79 E-value=1.3e+02 Score=28.22 Aligned_cols=30 Identities=23% Similarity=0.184 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 035743 54 LVLSVLLCALICSLGLNFLIRYILIKCSRL 83 (216)
Q Consensus 54 iii~ill~~li~~l~l~~i~r~~~rr~~~~ 83 (216)
++-++.+.++++++.+.+++.+..||+++.
T Consensus 392 l~~s~~~~~~~~~~~~~~~~~~~~~r~~~~ 421 (492)
T PHA03286 392 LVSSMAAGAILVVLLFALCIAGLYRRRRRH 421 (492)
T ss_pred HHHHHHHHHHHHHHHHHHHhHhHhhhhhhh
Confidence 333334444444444444444555444443
No 272
>PRK14762 membrane protein; Provisional
Probab=23.53 E-value=1.4e+02 Score=16.36 Aligned_cols=17 Identities=29% Similarity=0.493 Sum_probs=7.2
Q ss_pred HHHHHHHHHHHHHHHHH
Q 035743 53 LLVLSVLLCALICSLGL 69 (216)
Q Consensus 53 iiii~ill~~li~~l~l 69 (216)
+++.++++..++.+.++
T Consensus 6 w~i~iifligllvvtgv 22 (27)
T PRK14762 6 WAVLIIFLIGLLVVTGV 22 (27)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33444444444444443
No 273
>PTZ00370 STEVOR; Provisional
Probab=23.44 E-value=1.1e+02 Score=27.06 Aligned_cols=13 Identities=15% Similarity=0.074 Sum_probs=5.1
Q ss_pred HHHHHHHHHHHHH
Q 035743 64 ICSLGLNFLIRYI 76 (216)
Q Consensus 64 i~~l~l~~i~r~~ 76 (216)
++++.++|+.|..
T Consensus 270 vliilYiwlyrrR 282 (296)
T PTZ00370 270 VLIILYIWLYRRR 282 (296)
T ss_pred HHHHHHHHHHHhh
Confidence 3333344444333
No 274
>TIGR01478 STEVOR variant surface antigen, stevor family. This model represents the stevor branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of stevor sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 8 bits.
Probab=23.40 E-value=1.1e+02 Score=27.00 Aligned_cols=12 Identities=17% Similarity=0.146 Sum_probs=4.7
Q ss_pred HHHHHHHHHHHH
Q 035743 64 ICSLGLNFLIRY 75 (216)
Q Consensus 64 i~~l~l~~i~r~ 75 (216)
++++..+|+.|.
T Consensus 274 vliiLYiWlyrr 285 (295)
T TIGR01478 274 VLIILYIWLYRR 285 (295)
T ss_pred HHHHHHHHHHHh
Confidence 333334444443
No 275
>PF05715 zf-piccolo: Piccolo Zn-finger; InterPro: IPR008899 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This (predicted) zinc finger is found in the bassoon and piccolo proteins, both of which are components of the presynaptic cytoskeletal matrix (PCM) assembled at the active zone of neurotransmitter release, where Piccolo plays a role in the trafficking of synaptic vesicles (SVs) [, , ]. The Piccolo zinc fingers were found to interact with the dual prenylated rab3A and VAMP2/Synaptobrevin II receptor PRA1. There are eight conserved cysteines in Piccolo-type zinc fingers, suggesting that they coordinates two zinc ligands. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding, 0045202 synapse
Probab=23.35 E-value=40 Score=22.53 Aligned_cols=12 Identities=42% Similarity=0.897 Sum_probs=7.3
Q ss_pred CCCCccCCcccc
Q 035743 163 HSSCPKCRHCLI 174 (216)
Q Consensus 163 ~~~CP~CR~~l~ 174 (216)
+..||+|+..+.
T Consensus 2 k~~CPlCkt~~n 13 (61)
T PF05715_consen 2 KSLCPLCKTTLN 13 (61)
T ss_pred CccCCcccchhh
Confidence 345777776553
No 276
>PRK04023 DNA polymerase II large subunit; Validated
Probab=23.31 E-value=60 Score=33.48 Aligned_cols=48 Identities=23% Similarity=0.262 Sum_probs=32.0
Q ss_pred CCCcccccccccccCCcceeecCCCC-----CccCccchHHHhccCCCCccCCccccch
Q 035743 123 GLDAECVICLSEFASGELVRLLPKCN-----HGFHVRCIDKWLRLHSSCPKCRHCLIET 176 (216)
Q Consensus 123 ~~~~~C~ICl~~~~~~~~~~~lp~C~-----H~FH~~CI~~Wl~~~~~CP~CR~~l~~~ 176 (216)
.....|+=|-... ....+|.|| ..||..| .+......||.|-..+...
T Consensus 624 Vg~RfCpsCG~~t----~~frCP~CG~~Te~i~fCP~C--G~~~~~y~CPKCG~El~~~ 676 (1121)
T PRK04023 624 IGRRKCPSCGKET----FYRRCPFCGTHTEPVYRCPRC--GIEVEEDECEKCGREPTPY 676 (1121)
T ss_pred ccCccCCCCCCcC----CcccCCCCCCCCCcceeCccc--cCcCCCCcCCCCCCCCCcc
Confidence 3446899887764 234677888 4688888 3334446799998766643
No 277
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=23.22 E-value=35 Score=22.81 Aligned_cols=16 Identities=38% Similarity=0.715 Sum_probs=12.1
Q ss_pred CCCccCCccccchhhh
Q 035743 164 SSCPKCRHCLIETCEK 179 (216)
Q Consensus 164 ~~CP~CR~~l~~~~~~ 179 (216)
..||+||.+|....++
T Consensus 9 LaCP~~kg~L~~~~~~ 24 (60)
T COG2835 9 LACPVCKGPLVYDEEK 24 (60)
T ss_pred eeccCcCCcceEeccC
Confidence 4699999998755554
No 278
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=23.10 E-value=2e+02 Score=22.72 Aligned_cols=33 Identities=27% Similarity=0.196 Sum_probs=17.1
Q ss_pred CCccccCccccCCCCCcccccccccccCCcceeec
Q 035743 110 FPVVKYSAELKIPGLDAECVICLSEFASGELVRLL 144 (216)
Q Consensus 110 lp~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~l 144 (216)
.-.++|..-.. .+.+..-+++|-+-.+ +.+.+.
T Consensus 83 vgvvRYnAF~d-mGg~LSFslAlLD~~~-nGvVlt 115 (151)
T PF14584_consen 83 VGVVRYNAFED-MGGDLSFSLALLDDNN-NGVVLT 115 (151)
T ss_pred EEEEEccCccc-ccccceeeeEEEeCCC-CEEEEE
Confidence 34555554332 3455677888766433 344443
No 279
>PRK14710 hypothetical protein; Provisional
Probab=23.10 E-value=62 Score=22.42 Aligned_cols=23 Identities=13% Similarity=0.663 Sum_probs=12.2
Q ss_pred CCCchHHHHHHHHHHHHHHHHHH
Q 035743 46 KNLDSSVLLVLSVLLCALICSLG 68 (216)
Q Consensus 46 ~~~~~~viiii~ill~~li~~l~ 68 (216)
.+.+--++.|+++++.+++|+..
T Consensus 6 sn~skm~ififaiii~v~lcv~t 28 (86)
T PRK14710 6 SNLSKMIIFIFAIIIIVVLCVIT 28 (86)
T ss_pred cchhHHHHHHHHHHHHHHHHHhh
Confidence 34555555555555555555543
No 280
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=23.08 E-value=19 Score=31.71 Aligned_cols=55 Identities=15% Similarity=0.355 Sum_probs=37.3
Q ss_pred CCcccccccccccCCcceeecCCCCCccCccchHHHhccC------------CCCccCCccccchhhhh
Q 035743 124 LDAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLH------------SSCPKCRHCLIETCEKI 180 (216)
Q Consensus 124 ~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~------------~~CP~CR~~l~~~~~~~ 180 (216)
....|+-|.+-+.....+|.- =+|+||.+|+...+-++ ..=-+|+.+....-+|.
T Consensus 91 fGTKCsaC~~GIpPtqVVRkA--qd~VYHl~CF~C~iC~R~L~TGdEFYLmeD~rLvCK~DYE~Ak~k~ 157 (383)
T KOG4577|consen 91 FGTKCSACQEGIPPTQVVRKA--QDFVYHLHCFACFICKRQLATGDEFYLMEDARLVCKDDYETAKQKH 157 (383)
T ss_pred hCCcchhhcCCCChHHHHHHh--hcceeehhhhhhHhhhcccccCCeeEEeccceeehhhhHHHHHhcc
Confidence 346899999888877666654 68999999988765221 12456666665555544
No 281
>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=22.84 E-value=17 Score=23.21 Aligned_cols=37 Identities=22% Similarity=0.428 Sum_probs=19.0
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCc
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRH 171 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~ 171 (216)
..|+.|-++|... .| +.|+.-...-+ .+...||+|..
T Consensus 3 f~CP~C~~~~~~~----~L--~~H~~~~H~~~---~~~v~CPiC~~ 39 (54)
T PF05605_consen 3 FTCPYCGKGFSES----SL--VEHCEDEHRSE---SKNVVCPICSS 39 (54)
T ss_pred cCCCCCCCccCHH----HH--HHHHHhHCcCC---CCCccCCCchh
Confidence 5799998855432 22 33332111111 12346999975
No 282
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.62 E-value=35 Score=30.21 Aligned_cols=46 Identities=24% Similarity=0.574 Sum_probs=35.7
Q ss_pred CCCcccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCc
Q 035743 123 GLDAECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRH 171 (216)
Q Consensus 123 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~ 171 (216)
+....|-||...+.... ....|.|-|...|...|......||.|+.
T Consensus 103 ~~~~~~~~~~g~l~vpt---~~qg~w~qf~~~~p~~~~~~~~~~~d~~~ 148 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPT---RIQGCWHQFCYVCPKSNFAMGNDCPDCRG 148 (324)
T ss_pred CCccceeeeeeeEEecc---cccCceeeeeecCCchhhhhhhccchhhc
Confidence 34467999988775532 22249999999999999999999998876
No 283
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.59 E-value=15 Score=31.90 Aligned_cols=49 Identities=27% Similarity=0.484 Sum_probs=37.0
Q ss_pred cccccccccccCCc---ceeecCC-------CCCccCccchHHHhccC-CCCccCCcccc
Q 035743 126 AECVICLSEFASGE---LVRLLPK-------CNHGFHVRCIDKWLRLH-SSCPKCRHCLI 174 (216)
Q Consensus 126 ~~C~ICl~~~~~~~---~~~~lp~-------C~H~FH~~CI~~Wl~~~-~~CP~CR~~l~ 174 (216)
..|.||...+..++ ..+++.. |||..+..|++.-+... ..||.||....
T Consensus 208 ~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~~~ 267 (296)
T KOG4185|consen 208 KLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWSHI 267 (296)
T ss_pred HHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccceee
Confidence 67999999998432 3334433 99999999999987544 57999997654
No 284
>PF09835 DUF2062: Uncharacterized protein conserved in bacteria (DUF2062); InterPro: IPR018639 This domain, found in various prokaryotic proteins, has no known function. It is found at the C-terminal of family 2 glycosyltransferase proteins, in addition to proteins of unknown function.
Probab=22.48 E-value=1.8e+02 Score=22.48 Aligned_cols=10 Identities=30% Similarity=0.075 Sum_probs=5.5
Q ss_pred hhhhhcCCCC
Q 035743 20 HLRKLLPQNP 29 (216)
Q Consensus 20 ~~r~ll~~~~ 29 (216)
.++.++....
T Consensus 81 vG~~ll~~~~ 90 (154)
T PF09835_consen 81 VGSFLLGGPP 90 (154)
T ss_pred HHHHHhCCCh
Confidence 3666665553
No 285
>PF03966 Trm112p: Trm112p-like protein; InterPro: IPR005651 This family of short proteins have no known function. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The function of this family is uncertain. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The entry contains 2 families: Trm112, which is required for tRNA methylation in Saccharomyces cerevisiae (Baker's yeast) and is found in complexes with 2 tRNA methylases (TRM9 and TRM11) also with putative methyltransferase YDR140W []. The zinc-finger protein Ynr046w is plurifunctional and a component of the eRF1 methyltransferase in yeast []. The crystal structure of Ynr046w has been determined to 1.7 A resolution. It comprises a zinc-binding domain built from both the N- and C-terminal sequences and an inserted domain, absent from bacterial and archaeal orthologs of the protein, composed of three alpha-helices []. UPF0434, which are proteins that are functionally uncharacterised. ; PDB: 3Q87_A 2KPI_A 2K5R_A 2HF1_A 2JS4_A 2J6A_A 2JR6_A 2PK7_A 2JNY_A.
Probab=22.42 E-value=55 Score=21.93 Aligned_cols=7 Identities=29% Similarity=1.075 Sum_probs=2.7
Q ss_pred ccccccc
Q 035743 127 ECVICLS 133 (216)
Q Consensus 127 ~C~ICl~ 133 (216)
.|++|-.
T Consensus 9 ~Cp~ck~ 15 (68)
T PF03966_consen 9 ACPVCKG 15 (68)
T ss_dssp B-TTTSS
T ss_pred cCCCCCC
Confidence 3444444
No 286
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=22.31 E-value=42 Score=24.19 Aligned_cols=37 Identities=24% Similarity=0.489 Sum_probs=28.9
Q ss_pred cccccccccccCCcceeecCCCCCccCccchHHHhccCCCCccCCccccc
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRCIDKWLRLHSSCPKCRHCLIE 175 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 175 (216)
..|.-|...+.--|.+ | |-.|+..+..|..|++++..
T Consensus 34 S~C~~C~~~L~~~~lI---P----------i~S~l~lrGrCr~C~~~I~~ 70 (92)
T PF06750_consen 34 SHCPHCGHPLSWWDLI---P----------ILSYLLLRGRCRYCGAPIPP 70 (92)
T ss_pred CcCcCCCCcCcccccc---h----------HHHHHHhCCCCcccCCCCCh
Confidence 5799999888765544 4 45599999999999988753
No 287
>PF07245 Phlebovirus_G2: Phlebovirus glycoprotein G2; InterPro: IPR009878 This domain is found in several Phlebovirus glycoprotein G2 sequences. Members of the Bunyaviridae family acquire an envelope by budding through the lipid bilayer of the Golgi complex. The budding compartment is thought to be determined by the accumulation of the two heterodimeric membrane glycoproteins G1 and G2 in the Golgi [].
Probab=21.91 E-value=1.3e+02 Score=28.73 Aligned_cols=22 Identities=23% Similarity=0.321 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 035743 55 VLSVLLCALICSLGLNFLIRYI 76 (216)
Q Consensus 55 ii~ill~~li~~l~l~~i~r~~ 76 (216)
|++++++++++++.+++++|.-
T Consensus 473 Il~~l~i~~~~~~~~i~~~~~~ 494 (507)
T PF07245_consen 473 ILGFLIIGILIFVLLIFICRSG 494 (507)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3333344344344344444433
No 288
>PRK09039 hypothetical protein; Validated
Probab=21.81 E-value=1.9e+02 Score=25.88 Aligned_cols=33 Identities=18% Similarity=0.244 Sum_probs=25.1
Q ss_pred CCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035743 45 NKNLDSSVLLVLSVLLCALICSLGLNFLIRYIL 77 (216)
Q Consensus 45 ~~~~~~~viiii~ill~~li~~l~l~~i~r~~~ 77 (216)
..++.+.++=.++-++.++++++.++.+..+++
T Consensus 12 ~~~~wpg~vd~~~~ll~~~~f~l~~f~~~q~fL 44 (343)
T PRK09039 12 GVDYWPGFVDALSTLLLVIMFLLTVFVVAQFFL 44 (343)
T ss_pred CCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356777788778888888888888877777776
No 289
>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=21.64 E-value=1.7e+02 Score=23.51 Aligned_cols=24 Identities=21% Similarity=-0.107 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 035743 55 VLSVLLCALICSLGLNFLIRYILI 78 (216)
Q Consensus 55 ii~ill~~li~~l~l~~i~r~~~r 78 (216)
++.+++.+++++.+++-.+|..++
T Consensus 99 ~Vl~g~s~l~i~yfvir~~R~r~~ 122 (163)
T PF06679_consen 99 YVLVGLSALAILYFVIRTFRLRRR 122 (163)
T ss_pred HHHHHHHHHHHHHHHHHHHhhccc
Confidence 333444444445555555555553
No 290
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=21.58 E-value=37 Score=26.88 Aligned_cols=24 Identities=33% Similarity=0.676 Sum_probs=18.2
Q ss_pred ccCccchHHHhccCC----CCccCCccc
Q 035743 150 GFHVRCIDKWLRLHS----SCPKCRHCL 173 (216)
Q Consensus 150 ~FH~~CI~~Wl~~~~----~CP~CR~~l 173 (216)
.||-.|++.=|..-. .||.|+..-
T Consensus 1 g~H~~CL~Ppl~~~P~g~W~Cp~C~~~~ 28 (148)
T cd04718 1 GFHLCCLRPPLKEVPEGDWICPFCEVEK 28 (148)
T ss_pred CcccccCCCCCCCCCCCCcCCCCCcCCC
Confidence 489999998776544 599998653
No 291
>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=21.35 E-value=56 Score=28.48 Aligned_cols=21 Identities=29% Similarity=0.744 Sum_probs=15.8
Q ss_pred ccCccchHHH-hccCCCCccCC
Q 035743 150 GFHVRCIDKW-LRLHSSCPKCR 170 (216)
Q Consensus 150 ~FH~~CI~~W-l~~~~~CP~CR 170 (216)
.=|.+|+++| |-.+..||.-|
T Consensus 56 RGHrdCFEK~HlIanQ~~prsk 77 (285)
T PF06937_consen 56 RGHRDCFEKYHLIANQDCPRSK 77 (285)
T ss_pred cchHHHHHHHHHHHcCCCCccc
Confidence 3478999999 66778898443
No 292
>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=21.34 E-value=1.4e+02 Score=24.49 Aligned_cols=15 Identities=33% Similarity=0.392 Sum_probs=6.1
Q ss_pred HHHHHHHHHHHHHHH
Q 035743 63 LICSLGLNFLIRYIL 77 (216)
Q Consensus 63 li~~l~l~~i~r~~~ 77 (216)
+++++.+++.-|...
T Consensus 22 l~~vllfIfaKRQI~ 36 (186)
T PF07406_consen 22 LVFVLLFIFAKRQIM 36 (186)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333344444444443
No 293
>PF09753 Use1: Membrane fusion protein Use1; InterPro: IPR019150 This entry represents a family of proteins, approximately 300 residues in length, involved in vesicle transport. They have a single C-terminal transmembrane domain and a SNARE [soluble NSF (N-ethylmaleimide-sensitive fusion protein) attachment protein receptor] domain of approximately 60 residues. The SNARE domains are essential for membrane fusion and are conserved from yeasts to humans. Use1 is one of the three protein subunits that make up the SNARE complex and it is specifically required for Golgi-endoplasmic reticulum retrograde transport [].
Probab=21.22 E-value=1.1e+02 Score=25.94 Aligned_cols=7 Identities=14% Similarity=0.216 Sum_probs=2.7
Q ss_pred hHHHHHH
Q 035743 50 SSVLLVL 56 (216)
Q Consensus 50 ~~viiii 56 (216)
+.+++++
T Consensus 228 ~~~~~~i 234 (251)
T PF09753_consen 228 CWTWLMI 234 (251)
T ss_pred HHHHHHH
Confidence 3334333
No 294
>PRK00420 hypothetical protein; Validated
Probab=20.97 E-value=74 Score=23.99 Aligned_cols=11 Identities=18% Similarity=0.516 Sum_probs=7.8
Q ss_pred ccccccccccc
Q 035743 126 AECVICLSEFA 136 (216)
Q Consensus 126 ~~C~ICl~~~~ 136 (216)
..|++|-.++-
T Consensus 24 ~~CP~Cg~pLf 34 (112)
T PRK00420 24 KHCPVCGLPLF 34 (112)
T ss_pred CCCCCCCCcce
Confidence 57998876643
No 295
>PF15179 Myc_target_1: Myc target protein 1
Probab=20.85 E-value=2.7e+02 Score=22.98 Aligned_cols=10 Identities=10% Similarity=0.242 Sum_probs=4.4
Q ss_pred HHHHHHHHhh
Q 035743 71 FLIRYILIKC 80 (216)
Q Consensus 71 ~i~r~~~rr~ 80 (216)
+++.|..||+
T Consensus 41 ~LltwlSRRR 50 (197)
T PF15179_consen 41 ALLTWLSRRR 50 (197)
T ss_pred HHHHHHHhcc
Confidence 3444544443
No 296
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.59 E-value=69 Score=27.83 Aligned_cols=37 Identities=22% Similarity=0.228 Sum_probs=28.0
Q ss_pred Ccccccccc-cccCCcceeecCCCCCccCccchHHHhc
Q 035743 125 DAECVICLS-EFASGELVRLLPKCNHGFHVRCIDKWLR 161 (216)
Q Consensus 125 ~~~C~ICl~-~~~~~~~~~~lp~C~H~FH~~CI~~Wl~ 161 (216)
...|++|+. ++..+.+-.++..|||.|...|..-|..
T Consensus 95 ~~~ls~~~s~e~~~~~e~~~~y~~~~~f~i~~~~i~~~ 132 (271)
T COG5574 95 EETLSIEYSRETNIDKEGEVLYPCGIFFCIGCDYIWSI 132 (271)
T ss_pred ccccccccCcccccccccceeeecccccchhhhHHHHH
Confidence 467899988 6554444445555999999999999976
No 297
>PHA02662 ORF131 putative membrane protein; Provisional
Probab=20.53 E-value=1.1e+02 Score=25.99 Aligned_cols=17 Identities=12% Similarity=0.274 Sum_probs=8.6
Q ss_pred HHHHHHHHHHHHHHHHH
Q 035743 61 CALICSLGLNFLIRYIL 77 (216)
Q Consensus 61 ~~li~~l~l~~i~r~~~ 77 (216)
+++++++++.++.|...
T Consensus 196 i~~i~vv~i~~irR~i~ 212 (226)
T PHA02662 196 VTVLGVVAVSLLRRALR 212 (226)
T ss_pred HHHHHHHHHHHHHHHhh
Confidence 44454555555555444
No 298
>PF05808 Podoplanin: Podoplanin; InterPro: IPR008783 This family consists of several mammalian podoplanin-like proteins which are thought to control specifically the unique shape of podocytes [].; GO: 0016021 integral to membrane; PDB: 3IET_X.
Probab=20.51 E-value=33 Score=27.53 Aligned_cols=26 Identities=19% Similarity=0.158 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Q 035743 50 SSVLLVLSVLLCALICSLGLNFLIRY 75 (216)
Q Consensus 50 ~~viiii~ill~~li~~l~l~~i~r~ 75 (216)
..+.+|+++|+.+.++..++++++|.
T Consensus 130 tLVGIIVGVLlaIG~igGIIivvvRK 155 (162)
T PF05808_consen 130 TLVGIIVGVLLAIGFIGGIIIVVVRK 155 (162)
T ss_dssp --------------------------
T ss_pred eeeeehhhHHHHHHHHhheeeEEeeh
Confidence 34445555555554444444444443
No 299
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=20.46 E-value=37 Score=22.10 Aligned_cols=12 Identities=25% Similarity=0.883 Sum_probs=5.0
Q ss_pred CCccCCccccch
Q 035743 165 SCPKCRHCLIET 176 (216)
Q Consensus 165 ~CP~CR~~l~~~ 176 (216)
+||+|.+.+...
T Consensus 26 tCP~C~a~~~~s 37 (54)
T PF09237_consen 26 TCPICGAVIRQS 37 (54)
T ss_dssp E-TTT--EESSH
T ss_pred CCCcchhhccch
Confidence 477776555443
No 300
>PLN02436 cellulose synthase A
Probab=20.18 E-value=1.1e+02 Score=31.97 Aligned_cols=49 Identities=24% Similarity=0.499 Sum_probs=34.8
Q ss_pred ccccccccccc---CCcceeecCCCCCccCccchHHHhc-cCCCCccCCcccc
Q 035743 126 AECVICLSEFA---SGELVRLLPKCNHGFHVRCIDKWLR-LHSSCPKCRHCLI 174 (216)
Q Consensus 126 ~~C~ICl~~~~---~~~~~~~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~l~ 174 (216)
..|.||-+++. ++|.-..+..|+---|..|.+-=.+ .++.||-|++..-
T Consensus 37 ~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 37 QTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 58999999963 5566666666777788889843333 2457999988655
No 301
>TIGR03142 cytochro_ccmI cytochrome c-type biogenesis protein CcmI. This TPR repeat-containing protein is the CcmI protein (also called CycH) of c-type cytochrome biogenesis. CcmI is thought to act as an apo-cytochrome c chaperone. This model describes the N-terminal region of the protein, Members of this protein family
Probab=20.11 E-value=2.3e+02 Score=20.99 Aligned_cols=10 Identities=40% Similarity=0.597 Sum_probs=7.0
Q ss_pred hhhhhcCCCC
Q 035743 20 HLRKLLPQNP 29 (216)
Q Consensus 20 ~~r~ll~~~~ 29 (216)
-.||||...+
T Consensus 69 l~rrLL~d~~ 78 (117)
T TIGR03142 69 LQRRLLADIP 78 (117)
T ss_pred HHHHHHHCcc
Confidence 3678887763
No 302
>PF10661 EssA: WXG100 protein secretion system (Wss), protein EssA; InterPro: IPR018920 The Wss (WXG100 protein secretion system) in Staphylococcus aureus seems to be encoded by a locus of eight ORFs, called ess (eSAT-6 secretion system) []. This locus encodes, amongst several other proteins, EssA, a protein predicted to possess one transmembrane domain. Due to its predicted membrane location and its absolute requirement for WXG100 protein secretion, it has been speculated that EssA could form a secretion apparatus in conjunction with YukC and YukAB. Proteins homologous to EssA, YukC, EsaA and YukD were absent from mycobacteria []. Members of this family are associated with type VII secretion of WXG100 family targets in the Firmicutes, but not in the Actinobacteria. This highly divergent protein family consists largely of a central region of highly polar low-complexity sequence containing occasional LF motifs in weak repeats about 17 residues in length, flanked by hydrophobic N- and C-terminal regions.
Probab=20.07 E-value=1.9e+02 Score=22.67 Aligned_cols=9 Identities=11% Similarity=0.065 Sum_probs=3.8
Q ss_pred hhhcCCCCC
Q 035743 22 RKLLPQNPL 30 (216)
Q Consensus 22 r~ll~~~~~ 30 (216)
+..|+...+
T Consensus 88 k~~LFs~~y 96 (145)
T PF10661_consen 88 KDSLFSSDY 96 (145)
T ss_pred HHHhhcccc
Confidence 344444433
No 303
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=20.07 E-value=65 Score=27.56 Aligned_cols=27 Identities=15% Similarity=0.325 Sum_probs=18.2
Q ss_pred cccccccccccCCcceeecCCCCCccCccc
Q 035743 126 AECVICLSEFASGELVRLLPKCNHGFHVRC 155 (216)
Q Consensus 126 ~~C~ICl~~~~~~~~~~~lp~C~H~FH~~C 155 (216)
..|+.|-. + ....-.++.||+.+|.+=
T Consensus 310 ~~C~~cg~-~--~~r~~~C~~cg~~~~rD~ 336 (364)
T COG0675 310 KTCPCCGH-L--SGRLFKCPRCGFVHDRDV 336 (364)
T ss_pred ccccccCC-c--cceeEECCCCCCeehhhH
Confidence 67998887 2 223445667888888773
Done!