Query 045986
Match_columns 148
No_of_seqs 184 out of 1709
Neff 9.7
Searched_HMMs 46136
Date Fri Mar 29 07:32:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045986.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045986hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.9 2.2E-25 4.7E-30 163.6 7.7 75 70-147 205-280 (348)
2 PF13639 zf-RING_2: Ring finge 99.8 2.2E-21 4.7E-26 103.8 2.1 44 97-141 1-44 (44)
3 PHA02929 N1R/p28-like protein; 99.7 1.1E-18 2.4E-23 123.3 4.6 77 69-145 147-227 (238)
4 COG5540 RING-finger-containing 99.7 2.8E-18 6.1E-23 122.7 4.0 51 96-147 323-374 (374)
5 PF12678 zf-rbx1: RING-H2 zinc 99.7 2.5E-17 5.4E-22 97.1 4.2 44 97-141 20-73 (73)
6 KOG0317 Predicted E3 ubiquitin 99.6 7.2E-16 1.6E-20 109.9 6.4 49 95-147 238-286 (293)
7 COG5243 HRD1 HRD ubiquitin lig 99.6 1E-15 2.2E-20 112.4 6.7 68 74-146 269-346 (491)
8 PLN03208 E3 ubiquitin-protein 99.5 4.6E-14 9.9E-19 96.3 4.7 49 95-147 17-81 (193)
9 PF13923 zf-C3HC4_2: Zinc fing 99.5 4.8E-14 1E-18 73.2 3.4 39 99-140 1-39 (39)
10 cd00162 RING RING-finger (Real 99.5 5E-14 1.1E-18 75.0 3.5 44 98-144 1-45 (45)
11 PF12861 zf-Apc11: Anaphase-pr 99.5 5.1E-14 1.1E-18 83.7 3.6 50 96-145 21-82 (85)
12 PF13920 zf-C3HC4_3: Zinc fing 99.5 5.5E-14 1.2E-18 77.0 3.4 46 96-145 2-48 (50)
13 KOG0823 Predicted E3 ubiquitin 99.4 3.8E-13 8.2E-18 93.5 4.0 50 93-146 44-96 (230)
14 PF14634 zf-RING_5: zinc-RING 99.4 6.6E-13 1.4E-17 70.6 3.4 44 98-142 1-44 (44)
15 PHA02926 zinc finger-like prot 99.3 2.6E-13 5.5E-18 93.8 1.6 53 92-144 166-229 (242)
16 KOG0802 E3 ubiquitin ligase [P 99.3 3.4E-13 7.4E-18 106.8 2.0 48 96-144 291-340 (543)
17 PF00097 zf-C3HC4: Zinc finger 99.3 1.7E-12 3.7E-17 68.1 2.7 39 99-140 1-41 (41)
18 COG5194 APC11 Component of SCF 99.3 1.7E-12 3.6E-17 75.3 2.7 49 97-145 21-81 (88)
19 KOG0320 Predicted E3 ubiquitin 99.3 3.9E-12 8.4E-17 85.1 4.0 54 90-145 125-178 (187)
20 smart00184 RING Ring finger. E 99.3 5.2E-12 1.1E-16 64.9 3.3 38 99-140 1-39 (39)
21 PF15227 zf-C3HC4_4: zinc fing 99.2 4.9E-12 1.1E-16 66.4 2.7 38 99-140 1-42 (42)
22 smart00504 Ubox Modified RING 99.2 1.6E-11 3.5E-16 70.3 3.7 47 97-147 2-48 (63)
23 KOG1493 Anaphase-promoting com 99.2 2.8E-12 6.1E-17 73.8 0.1 49 97-145 21-81 (84)
24 KOG0828 Predicted E3 ubiquitin 99.2 3E-11 6.6E-16 91.9 5.2 49 97-146 572-635 (636)
25 smart00744 RINGv The RING-vari 99.1 9.2E-11 2E-15 63.5 3.2 42 98-141 1-49 (49)
26 TIGR00599 rad18 DNA repair pro 99.1 8.5E-11 1.8E-15 89.0 3.6 47 96-146 26-72 (397)
27 KOG1734 Predicted RING-contain 99.0 7E-11 1.5E-15 83.8 1.4 50 95-145 223-281 (328)
28 PF13445 zf-RING_UBOX: RING-ty 99.0 2E-10 4.3E-15 60.3 2.3 38 99-138 1-43 (43)
29 COG5574 PEX10 RING-finger-cont 99.0 1.6E-10 3.4E-15 81.9 2.4 49 96-148 215-265 (271)
30 KOG4265 Predicted E3 ubiquitin 98.9 1.1E-09 2.5E-14 80.7 3.1 48 94-145 288-336 (349)
31 KOG0804 Cytoplasmic Zn-finger 98.8 1.8E-09 3.9E-14 81.6 2.6 47 96-145 175-222 (493)
32 KOG2930 SCF ubiquitin ligase, 98.8 2.4E-09 5.2E-14 65.3 2.6 47 97-143 47-106 (114)
33 COG5219 Uncharacterized conser 98.8 2.2E-09 4.7E-14 87.5 1.4 49 95-145 1468-1523(1525)
34 PF04564 U-box: U-box domain; 98.7 7.4E-09 1.6E-13 61.0 2.8 48 96-147 4-52 (73)
35 KOG2164 Predicted E3 ubiquitin 98.7 4.9E-09 1.1E-13 80.5 2.5 48 96-147 186-238 (513)
36 KOG0287 Postreplication repair 98.7 5.1E-09 1.1E-13 76.8 1.9 45 97-145 24-68 (442)
37 TIGR00570 cdk7 CDK-activating 98.7 1.4E-08 2.9E-13 74.5 3.6 49 97-146 4-55 (309)
38 PF11793 FANCL_C: FANCL C-term 98.7 3.1E-09 6.7E-14 62.0 -0.5 49 97-145 3-66 (70)
39 COG5432 RAD18 RING-finger-cont 98.7 1.4E-08 3.1E-13 73.1 2.6 44 97-144 26-69 (391)
40 KOG0827 Predicted E3 ubiquitin 98.6 1.5E-08 3.3E-13 75.5 2.1 45 97-141 5-52 (465)
41 KOG2177 Predicted E3 ubiquitin 98.6 2.2E-08 4.8E-13 73.6 2.0 44 95-142 12-55 (386)
42 KOG4445 Uncharacterized conser 98.5 4E-08 8.8E-13 71.0 0.9 49 97-146 116-187 (368)
43 KOG1645 RING-finger-containing 98.4 1.5E-07 3.3E-12 70.7 3.1 47 96-142 4-53 (463)
44 KOG0825 PHD Zn-finger protein 98.4 4.4E-08 9.5E-13 78.7 -0.0 47 97-144 124-170 (1134)
45 PF14835 zf-RING_6: zf-RING of 98.4 6.3E-08 1.4E-12 54.4 0.2 46 97-147 8-53 (65)
46 KOG0978 E3 ubiquitin ligase in 98.4 1E-07 2.2E-12 76.5 1.3 48 97-148 644-692 (698)
47 KOG0824 Predicted E3 ubiquitin 98.4 1.9E-07 4E-12 67.7 2.0 47 97-147 8-55 (324)
48 KOG0311 Predicted E3 ubiquitin 98.4 4.9E-08 1.1E-12 72.0 -1.2 48 96-146 43-91 (381)
49 KOG4172 Predicted E3 ubiquitin 98.3 9.1E-08 2E-12 51.7 0.1 44 97-144 8-53 (62)
50 KOG3970 Predicted E3 ubiquitin 98.3 5.2E-07 1.1E-11 62.9 3.5 49 97-147 51-107 (299)
51 KOG1039 Predicted E3 ubiquitin 98.3 4.2E-07 9.2E-12 68.0 2.4 50 95-144 160-220 (344)
52 KOG1785 Tyrosine kinase negati 98.1 9.4E-07 2E-11 66.5 1.0 45 97-145 370-416 (563)
53 PF05883 Baculo_RING: Baculovi 98.1 1.5E-06 3.3E-11 56.1 1.5 34 97-131 27-66 (134)
54 KOG4159 Predicted E3 ubiquitin 98.0 3.3E-06 7.1E-11 64.5 3.0 48 94-145 82-129 (398)
55 KOG1941 Acetylcholine receptor 98.0 2.6E-06 5.5E-11 64.0 1.3 44 97-141 366-412 (518)
56 PF11789 zf-Nse: Zinc-finger o 97.9 9.7E-06 2.1E-10 45.2 2.4 40 97-139 12-53 (57)
57 KOG0297 TNF receptor-associate 97.8 9.5E-06 2.1E-10 62.3 2.1 48 96-146 21-68 (391)
58 PF12906 RINGv: RING-variant d 97.8 1.8E-05 3.9E-10 42.4 2.1 40 99-140 1-47 (47)
59 COG5222 Uncharacterized conser 97.7 1.6E-05 3.5E-10 57.9 1.5 48 97-147 275-324 (427)
60 PHA02862 5L protein; Provision 97.6 5E-05 1.1E-09 49.6 3.1 44 97-144 3-52 (156)
61 KOG0826 Predicted E3 ubiquitin 97.6 0.00021 4.6E-09 52.7 6.2 46 94-142 298-343 (357)
62 KOG0801 Predicted E3 ubiquitin 97.6 2.4E-05 5.2E-10 52.0 1.0 28 96-124 177-204 (205)
63 KOG1428 Inhibitor of type V ad 97.5 8.1E-05 1.8E-09 64.3 3.4 51 94-145 3484-3544(3738)
64 PF10367 Vps39_2: Vacuolar sor 97.4 5.9E-05 1.3E-09 47.4 1.4 31 96-128 78-108 (109)
65 PHA02825 LAP/PHD finger-like p 97.4 0.00019 4E-09 47.8 3.7 44 96-144 8-58 (162)
66 KOG2660 Locus-specific chromos 97.4 3.2E-05 6.9E-10 57.0 -0.1 46 96-144 15-60 (331)
67 KOG1002 Nucleotide excision re 97.4 7.7E-05 1.7E-09 58.3 1.7 49 95-147 535-588 (791)
68 KOG0827 Predicted E3 ubiquitin 97.4 6.4E-06 1.4E-10 61.8 -4.2 51 96-147 196-247 (465)
69 KOG1814 Predicted E3 ubiquitin 97.4 0.00011 2.3E-09 55.7 2.2 45 97-142 185-237 (445)
70 KOG4692 Predicted E3 ubiquitin 97.4 0.00017 3.7E-09 53.8 3.0 48 94-145 420-467 (489)
71 KOG1571 Predicted E3 ubiquitin 97.3 0.00015 3.3E-09 54.1 2.5 43 96-145 305-347 (355)
72 COG5152 Uncharacterized conser 97.3 9.1E-05 2E-09 51.0 1.2 43 97-143 197-239 (259)
73 PF14570 zf-RING_4: RING/Ubox 97.3 0.00026 5.6E-09 37.8 2.3 45 99-144 1-47 (48)
74 PHA03096 p28-like protein; Pro 97.2 0.00019 4.1E-09 52.7 2.0 37 97-133 179-219 (284)
75 PF14447 Prok-RING_4: Prokaryo 97.2 0.00019 4.1E-09 39.2 1.4 45 97-147 8-52 (55)
76 KOG1952 Transcription factor N 97.2 0.00022 4.7E-09 58.5 2.1 47 96-142 191-244 (950)
77 KOG3039 Uncharacterized conser 97.1 0.00053 1.2E-08 48.8 3.5 51 97-147 222-272 (303)
78 KOG4185 Predicted E3 ubiquitin 97.1 0.00048 1E-08 51.0 3.1 47 97-144 4-54 (296)
79 KOG2879 Predicted E3 ubiquitin 97.1 0.00084 1.8E-08 48.5 4.0 49 94-145 237-287 (298)
80 KOG1813 Predicted E3 ubiquitin 97.0 0.00023 4.9E-09 51.9 0.7 44 97-144 242-285 (313)
81 KOG1940 Zn-finger protein [Gen 97.0 0.00044 9.5E-09 50.4 2.0 45 97-142 159-204 (276)
82 COG5236 Uncharacterized conser 96.9 0.0019 4.2E-08 48.3 4.5 47 93-143 58-106 (493)
83 PF08746 zf-RING-like: RING-li 96.8 0.00089 1.9E-08 35.0 1.8 41 99-140 1-43 (43)
84 KOG4275 Predicted E3 ubiquitin 96.8 0.00021 4.4E-09 52.0 -1.0 41 96-144 300-341 (350)
85 PF03854 zf-P11: P-11 zinc fin 96.5 0.0013 2.7E-08 34.7 1.2 29 118-146 18-47 (50)
86 KOG4739 Uncharacterized protei 96.5 0.00082 1.8E-08 47.7 0.7 44 98-145 5-48 (233)
87 KOG2034 Vacuolar sorting prote 96.3 0.0018 3.9E-08 53.6 1.6 34 96-131 817-850 (911)
88 KOG2114 Vacuolar assembly/sort 96.3 0.0017 3.8E-08 53.5 1.4 41 97-143 841-881 (933)
89 PF10272 Tmpp129: Putative tra 96.2 0.011 2.4E-07 44.9 5.1 28 118-145 311-351 (358)
90 PF04641 Rtf2: Rtf2 RING-finge 96.1 0.01 2.2E-07 43.3 4.4 52 94-147 111-163 (260)
91 KOG1001 Helicase-like transcri 95.9 0.0031 6.8E-08 51.7 1.0 44 97-145 455-500 (674)
92 KOG0309 Conserved WD40 repeat- 95.9 0.005 1.1E-07 50.4 2.0 22 118-139 1048-1069(1081)
93 KOG3002 Zn finger protein [Gen 95.8 0.0059 1.3E-07 45.3 2.0 41 97-145 49-91 (299)
94 KOG1100 Predicted E3 ubiquitin 95.7 0.0048 1E-07 43.5 1.2 38 99-144 161-199 (207)
95 PF14446 Prok-RING_1: Prokaryo 95.7 0.013 2.8E-07 32.0 2.5 39 97-139 6-44 (54)
96 KOG3161 Predicted E3 ubiquitin 95.6 0.0042 9E-08 50.0 0.6 43 97-142 12-54 (861)
97 KOG3053 Uncharacterized conser 95.6 0.0068 1.5E-07 43.5 1.6 49 94-143 18-80 (293)
98 COG5175 MOT2 Transcriptional r 95.6 0.0097 2.1E-07 44.5 2.4 49 95-144 13-63 (480)
99 PF07800 DUF1644: Protein of u 95.5 0.018 4E-07 38.4 3.2 33 96-131 2-46 (162)
100 KOG3268 Predicted E3 ubiquitin 95.4 0.0089 1.9E-07 40.7 1.6 29 118-146 190-229 (234)
101 PF05290 Baculo_IE-1: Baculovi 95.4 0.016 3.5E-07 37.5 2.7 50 97-146 81-133 (140)
102 KOG0298 DEAD box-containing he 95.2 0.0066 1.4E-07 52.3 0.6 44 96-142 1153-1196(1394)
103 KOG1609 Protein involved in mR 95.1 0.022 4.7E-07 42.4 3.0 48 96-144 78-133 (323)
104 KOG3899 Uncharacterized conser 94.5 0.025 5.4E-07 41.5 1.9 28 118-145 325-365 (381)
105 KOG0802 E3 ubiquitin ligase [P 94.2 0.019 4E-07 46.3 0.9 44 96-147 479-522 (543)
106 KOG2932 E3 ubiquitin ligase in 94.2 0.022 4.8E-07 42.1 1.1 43 97-144 91-133 (389)
107 KOG1812 Predicted E3 ubiquitin 93.7 0.026 5.6E-07 43.5 0.7 36 97-133 147-183 (384)
108 KOG0269 WD40 repeat-containing 93.0 0.096 2.1E-06 43.2 3.0 41 97-139 780-820 (839)
109 KOG3800 Predicted E3 ubiquitin 92.6 0.14 2.9E-06 37.7 3.0 46 98-144 2-50 (300)
110 KOG2817 Predicted E3 ubiquitin 92.3 0.13 2.8E-06 39.4 2.7 45 97-142 335-382 (394)
111 COG5220 TFB3 Cdk activating ki 92.2 0.076 1.7E-06 38.0 1.3 44 97-140 11-59 (314)
112 COG5183 SSM4 Protein involved 91.8 0.21 4.5E-06 41.8 3.5 47 96-144 12-65 (1175)
113 TIGR00622 ssl1 transcription f 91.7 0.32 6.9E-06 30.8 3.6 72 71-142 30-111 (112)
114 KOG4362 Transcriptional regula 91.3 0.055 1.2E-06 44.3 -0.2 45 97-145 22-69 (684)
115 KOG1829 Uncharacterized conser 91.1 0.079 1.7E-06 42.7 0.5 40 97-140 512-556 (580)
116 PF13901 DUF4206: Domain of un 90.9 0.18 3.8E-06 35.5 2.1 40 96-141 152-196 (202)
117 KOG3842 Adaptor protein Pellin 90.8 0.36 7.8E-06 36.1 3.6 50 96-146 341-415 (429)
118 KOG2807 RNA polymerase II tran 89.6 0.45 9.8E-06 35.7 3.3 74 69-143 303-376 (378)
119 KOG2066 Vacuolar assembly/sort 88.6 0.18 3.8E-06 41.9 0.6 42 97-140 785-830 (846)
120 PF07975 C1_4: TFIIH C1-like d 88.5 0.51 1.1E-05 25.5 2.2 42 99-141 2-50 (51)
121 smart00249 PHD PHD zinc finger 88.3 0.35 7.5E-06 24.8 1.6 30 99-129 2-31 (47)
122 KOG0825 PHD Zn-finger protein 88.0 0.38 8.2E-06 40.2 2.2 49 96-144 96-153 (1134)
123 KOG3005 GIY-YIG type nuclease 87.3 0.42 9E-06 34.8 1.8 48 97-144 183-242 (276)
124 KOG3113 Uncharacterized conser 86.8 0.79 1.7E-05 33.2 3.0 50 96-147 111-160 (293)
125 PF00628 PHD: PHD-finger; Int 86.7 0.29 6.4E-06 26.1 0.6 42 99-141 2-49 (51)
126 PF02891 zf-MIZ: MIZ/SP-RING z 86.1 0.86 1.9E-05 24.5 2.3 42 98-143 4-50 (50)
127 KOG4367 Predicted Zn-finger pr 85.5 0.64 1.4E-05 36.3 2.2 34 96-133 4-37 (699)
128 KOG1815 Predicted E3 ubiquitin 84.6 0.7 1.5E-05 36.4 2.1 36 95-133 69-104 (444)
129 PF00412 LIM: LIM domain; Int 84.2 1.2 2.5E-05 24.2 2.4 38 99-146 1-38 (58)
130 smart00132 LIM Zinc-binding do 83.2 1.5 3.3E-05 21.3 2.4 37 99-145 2-38 (39)
131 PF04423 Rad50_zn_hook: Rad50 82.8 0.21 4.6E-06 27.2 -1.1 11 136-146 22-32 (54)
132 KOG4718 Non-SMC (structural ma 82.7 0.78 1.7E-05 32.3 1.5 41 97-140 182-222 (235)
133 PF10571 UPF0547: Uncharacteri 82.5 0.73 1.6E-05 21.2 0.9 9 133-141 13-21 (26)
134 PF06906 DUF1272: Protein of u 82.2 2.1 4.6E-05 23.5 2.7 44 98-146 7-53 (57)
135 KOG2068 MOT2 transcription fac 80.1 1.7 3.7E-05 32.7 2.6 48 97-145 250-298 (327)
136 cd00350 rubredoxin_like Rubred 79.0 1.1 2.4E-05 21.7 0.9 19 118-142 7-25 (33)
137 PF10083 DUF2321: Uncharacteri 78.7 1.3 2.7E-05 29.7 1.4 44 100-146 8-51 (158)
138 KOG1812 Predicted E3 ubiquitin 77.7 1 2.2E-05 34.9 0.8 44 97-140 307-351 (384)
139 PF07406 NICE-3: NICE-3 protei 77.5 7.7 0.00017 27.0 5.0 18 122-139 124-143 (186)
140 PF13717 zinc_ribbon_4: zinc-r 77.5 1.3 2.7E-05 22.0 0.9 25 98-123 4-36 (36)
141 PF15179 Myc_target_1: Myc tar 76.6 4.7 0.0001 27.8 3.6 31 18-48 18-48 (197)
142 PF01363 FYVE: FYVE zinc finge 76.6 1.3 2.9E-05 25.1 0.9 36 96-131 9-44 (69)
143 KOG3039 Uncharacterized conser 76.3 2.2 4.8E-05 30.9 2.1 32 97-132 44-75 (303)
144 PRK11827 hypothetical protein; 75.7 0.92 2E-05 25.4 0.1 20 128-147 2-21 (60)
145 PF14169 YdjO: Cold-inducible 75.0 1.7 3.7E-05 24.2 1.0 13 134-146 39-51 (59)
146 PF01102 Glycophorin_A: Glycop 73.4 9.2 0.0002 24.7 4.2 12 22-33 66-77 (122)
147 PRK05978 hypothetical protein; 72.9 2.4 5.2E-05 28.3 1.5 23 119-146 42-64 (148)
148 PF13719 zinc_ribbon_5: zinc-r 72.4 2.5 5.5E-05 21.0 1.2 13 98-110 4-16 (37)
149 COG5109 Uncharacterized conser 72.3 2.9 6.3E-05 31.4 1.9 44 97-141 337-383 (396)
150 PF15102 TMEM154: TMEM154 prot 72.2 1 2.2E-05 29.9 -0.3 12 122-133 125-136 (146)
151 PF07649 C1_3: C1-like domain; 71.1 4 8.6E-05 19.1 1.7 29 98-127 2-30 (30)
152 PF05961 Chordopox_A13L: Chord 70.6 18 0.00038 20.7 4.7 20 35-54 8-27 (68)
153 cd00065 FYVE FYVE domain; Zinc 70.2 3.7 8.1E-05 22.2 1.7 36 97-132 3-38 (57)
154 PF06024 DUF912: Nucleopolyhed 69.3 1.1 2.4E-05 27.8 -0.6 19 21-39 62-80 (101)
155 PF06844 DUF1244: Protein of u 68.4 3.5 7.5E-05 23.5 1.3 11 122-132 12-22 (68)
156 PF05393 Hum_adeno_E3A: Human 68.0 14 0.0003 22.4 3.8 17 37-53 48-64 (94)
157 PHA03049 IMV membrane protein; 67.7 21 0.00044 20.4 4.7 22 35-56 8-29 (68)
158 smart00064 FYVE Protein presen 67.5 5.4 0.00012 22.5 2.1 36 97-132 11-46 (68)
159 KOG1729 FYVE finger containing 67.4 0.98 2.1E-05 33.6 -1.3 37 97-134 215-251 (288)
160 PF14311 DUF4379: Domain of un 66.3 3.9 8.4E-05 22.2 1.2 22 118-140 34-55 (55)
161 PF15050 SCIMP: SCIMP protein 66.3 18 0.00038 23.3 4.3 23 23-45 11-33 (133)
162 KOG1815 Predicted E3 ubiquitin 66.0 1.9 4.1E-05 34.1 -0.1 36 97-133 227-267 (444)
163 PF09723 Zn-ribbon_8: Zinc rib 66.0 1.2 2.6E-05 22.9 -0.9 23 118-142 11-34 (42)
164 KOG4185 Predicted E3 ubiquitin 65.1 0.96 2.1E-05 33.5 -1.8 47 97-143 208-265 (296)
165 TIGR01478 STEVOR variant surfa 63.7 13 0.00029 27.6 3.9 7 42-48 278-284 (295)
166 PF15353 HECA: Headcase protei 63.5 5.2 0.00011 25.0 1.5 14 118-131 40-53 (107)
167 PF06667 PspB: Phage shock pro 63.3 28 0.00061 20.4 4.7 12 41-52 19-30 (75)
168 PF07191 zinc-ribbons_6: zinc- 63.0 0.51 1.1E-05 27.3 -2.8 38 98-144 3-40 (70)
169 PTZ00370 STEVOR; Provisional 62.9 14 0.0003 27.5 3.8 7 42-48 274-280 (296)
170 COG2835 Uncharacterized conser 60.6 3.7 7.9E-05 23.0 0.4 11 136-146 10-20 (60)
171 PF04216 FdhE: Protein involve 60.5 1.4 3E-05 32.7 -1.7 45 97-142 173-219 (290)
172 KOG2979 Protein involved in DN 60.3 5.7 0.00012 29.0 1.5 40 97-139 177-218 (262)
173 PF15050 SCIMP: SCIMP protein 59.6 35 0.00076 22.0 4.7 11 42-52 27-37 (133)
174 PF06750 DiS_P_DiS: Bacterial 57.7 9.6 0.00021 23.2 2.0 37 97-146 34-70 (92)
175 PF09943 DUF2175: Uncharacteri 57.2 11 0.00024 23.5 2.2 32 98-131 4-35 (101)
176 COG5627 MMS21 DNA repair prote 56.9 6 0.00013 28.5 1.1 41 96-139 189-231 (275)
177 COG4847 Uncharacterized protei 56.7 12 0.00025 23.0 2.1 34 97-132 7-40 (103)
178 PF10497 zf-4CXXC_R1: Zinc-fin 56.5 21 0.00047 22.3 3.5 24 119-142 37-69 (105)
179 smart00647 IBR In Between Ring 55.7 3.2 6.8E-05 22.9 -0.4 19 112-130 40-58 (64)
180 COG3813 Uncharacterized protei 55.7 9.1 0.0002 22.2 1.5 24 119-144 28-51 (84)
181 KOG2041 WD40 repeat protein [G 55.7 12 0.00025 31.8 2.7 47 95-145 1130-1185(1189)
182 PF13832 zf-HC5HC2H_2: PHD-zin 55.6 9.3 0.0002 23.7 1.8 32 96-129 55-87 (110)
183 KOG2071 mRNA cleavage and poly 55.5 6 0.00013 32.2 1.0 33 96-130 513-556 (579)
184 PRK11875 psbT photosystem II r 55.0 24 0.00051 16.8 2.8 18 23-40 4-21 (31)
185 KOG0824 Predicted E3 ubiquitin 54.7 6.7 0.00014 29.3 1.1 46 96-144 105-150 (324)
186 smart00734 ZnF_Rad18 Rad18-lik 54.7 6.3 0.00014 17.9 0.7 9 136-144 3-11 (26)
187 PF02009 Rifin_STEVOR: Rifin/s 53.7 27 0.00059 26.2 4.2 7 43-49 276-282 (299)
188 PF05624 LSR: Lipolysis stimul 53.6 9.3 0.0002 20.1 1.2 17 27-43 6-22 (49)
189 KOG3579 Predicted E3 ubiquitin 53.4 7.3 0.00016 28.9 1.1 39 96-134 268-306 (352)
190 PF13240 zinc_ribbon_2: zinc-r 53.1 9.5 0.00021 16.8 1.1 11 137-147 2-12 (23)
191 KOG1538 Uncharacterized conser 52.4 6.4 0.00014 32.9 0.7 34 111-144 1043-1076(1081)
192 PRK01343 zinc-binding protein; 52.3 11 0.00024 20.9 1.5 12 134-145 9-20 (57)
193 TIGR02976 phageshock_pspB phag 52.2 47 0.001 19.5 4.7 18 37-54 15-32 (75)
194 PF09237 GAGA: GAGA factor; I 52.1 3.6 7.9E-05 22.2 -0.4 9 136-144 26-34 (54)
195 PF13248 zf-ribbon_3: zinc-rib 51.7 12 0.00025 16.9 1.3 8 137-144 5-12 (26)
196 KOG2113 Predicted RNA binding 51.6 17 0.00036 27.5 2.7 43 97-145 344-387 (394)
197 PF09356 Phage_BR0599: Phage c 51.4 18 0.0004 21.4 2.4 25 105-130 40-64 (80)
198 PF05502 Dynactin_p62: Dynacti 50.9 8 0.00017 31.0 1.1 34 97-144 27-62 (483)
199 KOG0801 Predicted E3 ubiquitin 50.5 8.1 0.00017 26.2 0.9 15 134-148 138-152 (205)
200 PLN02189 cellulose synthase 50.2 19 0.00042 31.6 3.2 50 96-145 34-87 (1040)
201 PF13771 zf-HC5HC2H: PHD-like 50.2 11 0.00024 22.4 1.4 32 97-129 37-68 (90)
202 PF05605 zf-Di19: Drought indu 49.8 1.8 3.9E-05 23.4 -1.9 37 97-144 3-41 (54)
203 PF04710 Pellino: Pellino; In 49.8 5.4 0.00012 30.9 0.0 50 96-146 328-402 (416)
204 PRK09458 pspB phage shock prot 49.5 35 0.00076 20.0 3.3 17 37-53 15-31 (75)
205 PF02009 Rifin_STEVOR: Rifin/s 49.5 40 0.00087 25.4 4.5 19 29-47 265-283 (299)
206 COG4357 Zinc finger domain con 49.2 17 0.00037 22.4 2.0 28 118-146 65-92 (105)
207 PF14851 FAM176: FAM176 family 49.2 24 0.00052 23.8 3.0 26 21-46 22-47 (153)
208 PF01405 PsbT: Photosystem II 48.9 30 0.00065 16.3 2.7 18 23-40 4-21 (29)
209 PF14584 DUF4446: Protein of u 48.8 53 0.0012 22.0 4.6 14 93-106 94-107 (151)
210 CHL00031 psbT photosystem II p 48.8 26 0.00056 17.0 2.2 18 23-40 4-21 (33)
211 PF10661 EssA: WXG100 protein 48.4 43 0.00094 22.3 4.1 8 40-47 134-141 (145)
212 PRK14710 hypothetical protein; 48.4 13 0.00029 21.4 1.4 21 13-33 4-24 (86)
213 PF06716 DUF1201: Protein of u 47.2 43 0.00093 17.6 5.0 12 37-48 23-34 (54)
214 PF15106 TMEM156: TMEM156 prot 47.2 57 0.0012 23.2 4.6 16 22-37 176-191 (226)
215 COG1592 Rubrerythrin [Energy p 46.6 6.6 0.00014 26.8 0.0 10 134-143 149-158 (166)
216 COG4068 Uncharacterized protei 46.6 13 0.00029 20.6 1.2 14 134-147 8-21 (64)
217 PHA03240 envelope glycoprotein 46.4 36 0.00077 24.3 3.6 13 41-53 229-241 (258)
218 COG4768 Uncharacterized protei 46.4 67 0.0015 21.1 4.6 26 22-47 2-27 (139)
219 PF15069 FAM163: FAM163 family 46.3 35 0.00077 22.6 3.3 30 24-53 8-37 (143)
220 PF07282 OrfB_Zn_ribbon: Putat 46.0 18 0.00039 20.3 1.8 33 97-129 29-63 (69)
221 PF14569 zf-UDP: Zinc-binding 45.9 33 0.00072 20.3 2.8 48 96-144 9-61 (80)
222 PF10146 zf-C4H2: Zinc finger- 45.6 16 0.00035 26.3 1.9 20 123-142 197-216 (230)
223 PF07423 DUF1510: Protein of u 45.6 20 0.00042 25.7 2.2 14 24-37 15-28 (217)
224 PTZ00370 STEVOR; Provisional 45.3 39 0.00084 25.3 3.8 20 35-54 264-283 (296)
225 PF03119 DNA_ligase_ZBD: NAD-d 43.9 8.5 0.00018 17.9 0.2 10 136-145 1-10 (28)
226 TIGR01367 pyrE_Therm orotate p 43.8 11 0.00025 26.0 0.8 14 134-147 169-182 (187)
227 KOG1245 Chromatin remodeling c 43.8 9.2 0.0002 34.8 0.5 47 96-143 1108-1158(1404)
228 TIGR01478 STEVOR variant surfa 43.7 37 0.00081 25.3 3.5 21 34-54 267-287 (295)
229 PF02318 FYVE_2: FYVE-type zin 43.7 17 0.00038 23.1 1.6 43 96-141 54-101 (118)
230 PF13913 zf-C2HC_2: zinc-finge 43.5 5.2 0.00011 18.0 -0.6 8 137-144 5-12 (25)
231 COG1545 Predicted nucleic-acid 43.4 14 0.00031 24.3 1.2 19 118-144 35-53 (140)
232 PF01102 Glycophorin_A: Glycop 43.3 67 0.0015 20.8 4.3 15 21-35 61-75 (122)
233 PF04478 Mid2: Mid2 like cell 43.0 1.3 2.8E-05 29.6 -3.7 21 20-40 49-69 (154)
234 PF11290 DUF3090: Protein of u 42.9 18 0.00038 24.8 1.6 16 133-148 153-168 (171)
235 PF05399 EVI2A: Ectropic viral 42.8 56 0.0012 23.3 4.0 13 22-34 130-142 (227)
236 PF02060 ISK_Channel: Slow vol 42.6 94 0.002 20.2 4.8 10 22-31 43-52 (129)
237 PF15048 OSTbeta: Organic solu 42.6 61 0.0013 21.0 3.9 30 23-52 35-64 (125)
238 PF06677 Auto_anti-p27: Sjogre 42.5 15 0.00032 18.8 0.9 18 129-146 12-29 (41)
239 COG3492 Uncharacterized protei 41.9 16 0.00035 22.2 1.2 12 122-133 43-54 (104)
240 PRK14584 hmsS hemin storage sy 41.3 92 0.002 21.0 4.8 9 6-14 33-41 (153)
241 PRK15348 type III secretion sy 41.2 40 0.00087 24.6 3.3 16 20-35 216-231 (249)
242 smart00531 TFIIE Transcription 40.6 27 0.00058 23.1 2.2 38 96-147 99-136 (147)
243 PF04995 CcmD: Heme exporter p 40.5 55 0.0012 17.0 4.0 10 22-31 8-17 (46)
244 TIGR03847 conserved hypothetic 40.4 20 0.00044 24.6 1.6 28 121-148 143-170 (177)
245 PHA03255 BDLF3; Provisional 40.4 67 0.0014 22.1 4.0 22 20-41 181-202 (234)
246 PRK11088 rrmA 23S rRNA methylt 40.1 20 0.00043 26.2 1.7 25 97-122 3-27 (272)
247 PF06937 EURL: EURL protein; 40.0 26 0.00057 25.8 2.2 42 97-138 31-74 (285)
248 TIGR03068 srtB_sig_NPQTN sorta 39.9 48 0.001 16.0 3.3 8 23-30 11-18 (33)
249 PF14979 TMEM52: Transmembrane 39.5 1.2E+02 0.0025 20.4 5.2 10 21-30 17-26 (154)
250 TIGR01562 FdhE formate dehydro 39.5 8.2 0.00018 29.0 -0.4 45 97-142 185-232 (305)
251 KOG1512 PHD Zn-finger protein 39.3 13 0.00027 27.8 0.5 31 97-128 315-345 (381)
252 KOG4451 Uncharacterized conser 38.4 24 0.00051 25.4 1.7 20 123-142 252-271 (286)
253 PF10588 NADH-G_4Fe-4S_3: NADH 37.9 26 0.00055 17.8 1.4 16 127-142 5-21 (41)
254 PF09125 COX2-transmemb: Cytoc 37.4 57 0.0012 16.2 3.4 14 22-35 16-29 (38)
255 PF14141 YqzM: YqzM-like prote 37.1 58 0.0013 16.8 2.6 7 22-28 18-24 (43)
256 PRK14585 pgaD putative PGA bio 37.0 1.2E+02 0.0027 20.0 5.8 12 71-82 100-111 (137)
257 KOG2169 Zn-finger transcriptio 36.5 19 0.00041 30.0 1.2 43 97-147 307-358 (636)
258 TIGR02605 CxxC_CxxC_SSSS putat 36.4 11 0.00024 20.0 -0.1 8 135-142 27-34 (52)
259 PTZ00046 rifin; Provisional 35.9 66 0.0014 24.9 3.9 8 42-49 334-341 (358)
260 PRK09039 hypothetical protein; 35.5 1.1E+02 0.0023 23.5 5.0 36 16-51 10-45 (343)
261 PF12773 DZR: Double zinc ribb 34.8 35 0.00076 17.7 1.7 13 135-147 30-42 (50)
262 PF13314 DUF4083: Domain of un 34.7 85 0.0018 17.4 4.9 9 44-52 25-33 (58)
263 PLN02436 cellulose synthase A 34.4 48 0.001 29.5 3.2 49 96-144 36-88 (1094)
264 KOG4577 Transcription factor L 34.4 11 0.00023 28.2 -0.5 40 97-146 93-132 (383)
265 cd00730 rubredoxin Rubredoxin; 34.2 21 0.00046 19.1 0.8 11 98-108 3-13 (50)
266 TIGR01477 RIFIN variant surfac 34.2 69 0.0015 24.7 3.7 8 42-49 329-336 (353)
267 PF13994 PgaD: PgaD-like prote 33.7 1.3E+02 0.0029 19.6 4.7 11 71-81 111-121 (138)
268 PLN02195 cellulose synthase A 33.7 66 0.0014 28.3 3.9 49 96-145 6-59 (977)
269 COG5488 Integral membrane prot 33.4 94 0.002 20.9 3.8 31 1-32 12-42 (164)
270 COG3357 Predicted transcriptio 33.0 17 0.00036 22.2 0.3 22 118-143 64-85 (97)
271 KOG4323 Polycomb-like PHD Zn-f 32.8 31 0.00066 27.6 1.7 44 97-142 169-223 (464)
272 PF15347 PAG: Phosphoprotein a 32.6 83 0.0018 24.5 3.9 23 46-68 36-58 (428)
273 KOG4443 Putative transcription 32.6 22 0.00048 29.6 0.9 25 118-142 41-70 (694)
274 PRK03564 formate dehydrogenase 32.5 14 0.0003 27.9 -0.2 46 96-142 187-234 (309)
275 PF15446 zf-PHD-like: PHD/FYVE 32.3 29 0.00062 23.8 1.3 30 99-129 2-34 (175)
276 PF01286 XPA_N: XPA protein N- 32.3 8.1 0.00018 19.0 -1.0 20 118-141 9-28 (34)
277 PF00130 C1_1: Phorbol esters/ 32.3 42 0.00091 17.6 1.8 32 97-129 12-45 (53)
278 PLN02638 cellulose synthase A 32.3 56 0.0012 29.1 3.3 48 96-144 17-69 (1079)
279 PF04210 MtrG: Tetrahydrometha 32.2 98 0.0021 17.9 3.3 20 17-36 43-62 (70)
280 PF15420 Abhydrolase_9_N: Alph 31.9 1.9E+02 0.004 20.5 5.4 25 7-31 77-101 (208)
281 PF03107 C1_2: C1 domain; Int 31.5 30 0.00064 16.1 1.0 28 98-126 2-29 (30)
282 KOG4430 Topoisomerase I-bindin 31.3 19 0.00042 29.3 0.5 52 95-146 259-310 (553)
283 PF12088 DUF3565: Protein of u 31.1 36 0.00079 19.0 1.4 18 108-126 8-25 (61)
284 PHA02662 ORF131 putative membr 30.9 89 0.0019 22.4 3.6 19 35-53 197-215 (226)
285 PF15176 LRR19-TM: Leucine-ric 30.7 1.4E+02 0.003 18.6 5.7 14 35-48 32-45 (102)
286 PHA02849 putative transmembran 30.4 1.2E+02 0.0026 17.9 4.5 8 78-85 64-71 (82)
287 TIGR03141 cytochro_ccmD heme e 30.4 86 0.0019 16.2 4.6 7 22-28 9-15 (45)
288 PF11770 GAPT: GRB2-binding ad 30.3 1.7E+02 0.0038 19.7 5.5 12 27-38 14-25 (158)
289 PF05191 ADK_lid: Adenylate ki 29.8 27 0.00058 17.3 0.7 29 115-145 4-32 (36)
290 cd01407 SIR2-fam SIR2 family o 29.8 75 0.0016 22.4 3.2 30 118-147 115-146 (218)
291 smart00109 C1 Protein kinase C 29.4 41 0.00088 16.9 1.4 32 97-129 12-44 (49)
292 TIGR00686 phnA alkylphosphonat 29.2 32 0.00069 21.7 1.1 26 98-123 4-30 (109)
293 PLN02915 cellulose synthase A 29.2 93 0.002 27.7 4.1 50 96-145 15-68 (1044)
294 PRK13275 mtrF tetrahydromethan 28.4 1.2E+02 0.0027 17.3 3.6 21 15-35 35-55 (67)
295 KOG2593 Transcription initiati 28.1 12 0.00025 29.5 -1.2 40 95-147 127-166 (436)
296 PF09472 MtrF: Tetrahydrometha 27.9 1.1E+02 0.0024 17.4 3.0 21 15-35 35-55 (64)
297 PF00301 Rubredoxin: Rubredoxi 27.8 29 0.00062 18.3 0.6 11 98-108 3-13 (47)
298 PF15345 TMEM51: Transmembrane 27.5 57 0.0012 23.6 2.2 31 18-51 55-85 (233)
299 PF12768 Rax2: Cortical protei 27.4 82 0.0018 23.4 3.2 8 27-34 234-241 (281)
300 PF05810 NinF: NinF protein; 27.3 52 0.0011 18.1 1.6 25 99-132 20-44 (58)
301 COG4064 MtrG Tetrahydromethano 27.2 1.3E+02 0.0029 17.3 3.4 21 16-36 45-65 (75)
302 PF09451 ATG27: Autophagy-rela 27.0 52 0.0011 24.2 2.0 16 34-49 212-227 (268)
303 PF05434 Tmemb_9: TMEM9; Inte 26.9 57 0.0012 21.9 2.0 12 36-47 72-83 (149)
304 PF11980 DUF3481: Domain of un 26.8 1.1E+02 0.0023 18.5 2.9 9 22-30 15-23 (87)
305 COG2956 Predicted N-acetylgluc 26.6 25 0.00054 27.0 0.3 18 113-142 356-376 (389)
306 PRK00398 rpoP DNA-directed RNA 26.3 22 0.00048 18.3 0.0 11 135-145 22-32 (46)
307 cd00029 C1 Protein kinase C co 26.3 44 0.00095 17.0 1.2 32 97-129 12-45 (50)
308 PF00645 zf-PARP: Poly(ADP-rib 26.2 82 0.0018 18.3 2.5 36 96-133 7-52 (82)
309 COG2824 PhnA Uncharacterized Z 25.9 39 0.00085 21.3 1.0 13 98-110 5-17 (112)
310 PF11682 DUF3279: Protein of u 25.8 42 0.00091 21.9 1.2 19 118-145 103-121 (128)
311 PF08209 Sgf11: Sgf11 (transcr 25.8 20 0.00044 17.4 -0.2 10 136-145 6-15 (33)
312 PF14369 zf-RING_3: zinc-finge 25.8 31 0.00067 16.9 0.5 8 99-106 24-31 (35)
313 PRK10220 hypothetical protein; 25.6 51 0.0011 20.8 1.5 25 98-122 5-30 (111)
314 COG4338 Uncharacterized protei 25.6 26 0.00055 18.7 0.2 8 137-144 15-22 (54)
315 TIGR01149 mtrG N5-methyltetrah 25.5 1.4E+02 0.003 17.3 3.1 17 17-33 43-59 (70)
316 KOG4021 Mitochondrial ribosoma 25.0 37 0.0008 23.9 0.9 20 124-143 97-117 (239)
317 PF11023 DUF2614: Protein of u 24.6 1.8E+02 0.004 18.5 3.8 16 132-147 83-98 (114)
318 PF05552 TM_helix: Conserved T 24.6 1.2E+02 0.0027 16.0 3.8 30 22-51 11-40 (53)
319 PF10954 DUF2755: Protein of u 24.4 1.8E+02 0.0038 17.8 4.1 7 8-14 52-58 (100)
320 PF12132 DUF3587: Protein of u 24.2 56 0.0012 23.0 1.7 14 120-133 165-178 (199)
321 PF01485 IBR: IBR domain; Int 24.2 6.9 0.00015 21.4 -2.4 14 117-130 45-58 (64)
322 PF12729 4HB_MCP_1: Four helix 24.2 1.7E+02 0.0037 18.8 4.1 10 22-31 9-18 (181)
323 PF05353 Atracotoxin: Delta At 24.0 3 6.4E-05 21.1 -3.3 15 124-138 18-32 (42)
324 PF12297 EVC2_like: Ellis van 24.0 1.2E+02 0.0026 24.0 3.6 24 18-41 63-86 (429)
325 COG0353 RecR Recombinational D 24.0 63 0.0014 22.7 1.9 18 96-113 66-83 (198)
326 PLN02400 cellulose synthase 23.8 69 0.0015 28.6 2.4 49 96-145 36-89 (1085)
327 PF07127 Nodulin_late: Late no 23.8 90 0.002 16.7 2.2 11 23-33 7-17 (54)
328 PF12877 DUF3827: Domain of un 23.6 82 0.0018 26.4 2.7 15 20-34 268-282 (684)
329 KOG3799 Rab3 effector RIM1 and 23.5 38 0.00082 22.3 0.7 41 94-142 63-115 (169)
330 COG4306 Uncharacterized protei 22.9 55 0.0012 21.3 1.3 24 120-146 28-51 (160)
331 KOG1842 FYVE finger-containing 22.9 27 0.00058 27.7 -0.1 32 96-131 15-52 (505)
332 cd00729 rubredoxin_SM Rubredox 22.8 50 0.0011 15.9 0.9 8 135-142 19-26 (34)
333 KOG1973 Chromatin remodeling p 22.6 19 0.00041 26.6 -0.9 27 118-144 240-269 (274)
334 PRK08351 DNA-directed RNA poly 22.2 68 0.0015 18.0 1.5 13 134-146 15-27 (61)
335 PF07227 DUF1423: Protein of u 22.2 59 0.0013 25.9 1.6 32 97-129 129-163 (446)
336 PF02132 RecR: RecR protein; 22.1 27 0.00059 17.6 -0.1 9 97-105 30-38 (41)
337 PF10013 DUF2256: Uncharacteri 22.1 55 0.0012 16.9 1.0 11 134-144 8-18 (42)
338 PF06155 DUF971: Protein of un 22.0 54 0.0012 19.5 1.1 16 128-143 26-41 (89)
339 TIGR01195 oadG_fam sodium pump 22.0 1.9E+02 0.004 17.2 5.2 6 48-53 34-39 (82)
340 KOG2682 NAD-dependent histone 21.9 84 0.0018 23.1 2.2 30 118-147 159-190 (314)
341 PF06295 DUF1043: Protein of u 21.8 1.2E+02 0.0025 19.6 2.7 12 23-34 4-15 (128)
342 PF03850 Tfb4: Transcription f 21.7 46 0.00099 24.7 0.9 13 96-108 253-265 (276)
343 cd01408 SIRT1 SIRT1: Eukaryoti 21.6 1.2E+02 0.0025 21.8 3.0 30 118-147 122-153 (235)
344 COG2816 NPY1 NTP pyrophosphohy 21.5 25 0.00054 26.1 -0.5 9 137-145 132-140 (279)
345 KOG0230 Phosphatidylinositol-4 21.4 40 0.00086 31.0 0.6 21 111-132 875-895 (1598)
346 PF15298 AJAP1_PANP_C: AJAP1/P 21.4 47 0.001 23.3 0.9 14 21-34 102-115 (205)
347 PF09577 Spore_YpjB: Sporulati 21.4 3.3E+02 0.0071 19.8 5.7 23 8-30 184-206 (232)
348 PF04639 Baculo_E56: Baculovir 21.3 51 0.0011 24.6 1.0 12 10-21 262-273 (305)
349 PRK01026 tetrahydromethanopter 21.2 1.9E+02 0.0042 17.0 4.0 19 17-35 46-64 (77)
350 CHL00038 psbL photosystem II p 21.0 1.3E+02 0.0028 15.0 2.9 15 22-36 17-31 (38)
351 PF11353 DUF3153: Protein of u 20.8 1.5E+02 0.0033 20.8 3.4 16 35-50 191-206 (209)
352 PF14143 YrhC: YrhC-like prote 20.8 1.9E+02 0.0041 16.8 3.9 13 3-15 22-34 (72)
353 PRK13743 conjugal transfer pro 20.4 44 0.00096 21.8 0.5 14 119-132 58-71 (141)
354 PRK12722 transcriptional activ 20.3 44 0.00096 23.3 0.6 10 133-142 153-162 (187)
355 KOG1356 Putative transcription 20.2 42 0.0009 28.9 0.5 45 96-142 229-279 (889)
356 PF05265 DUF723: Protein of un 20.1 87 0.0019 17.5 1.6 19 122-140 41-59 (60)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.92 E-value=2.2e-25 Score=163.64 Aligned_cols=75 Identities=37% Similarity=0.836 Sum_probs=66.8
Q ss_pred CCCCHHHHhcCCCccccCCccCCCCCccccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCC-CcccCCCCCCC
Q 045986 70 PLRHQRVIEKLPPAEKYDGHLHNKKFTSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFT-CPICRSSIYLD 147 (148)
Q Consensus 70 ~~~~~~~i~~lp~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~-CP~CR~~~~~~ 147 (148)
..+.++.++++|...|...+..... +.|+||||+|++||.+|+|| |+|.||..|||+||..+.+ ||+||+++.++
T Consensus 205 ~r~~k~~l~~~p~~~f~~~~~~~~~--~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~~ 280 (348)
T KOG4628|consen 205 NRLIKRLLKKLPVRTFTKGDDEDAT--DTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRTD 280 (348)
T ss_pred hhhHHHHHhhCCcEEeccccccCCC--ceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCCC
Confidence 3678899999999999998766553 68999999999999999999 9999999999999998755 99999988764
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=99.83 E-value=2.2e-21 Score=103.80 Aligned_cols=44 Identities=50% Similarity=1.202 Sum_probs=40.8
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICR 141 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR 141 (148)
++|+||+++|..++.+..++ |||.||.+||.+|++++.+||+||
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 37999999999999999999 999999999999999999999997
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.75 E-value=1.1e-18 Score=123.33 Aligned_cols=77 Identities=29% Similarity=0.659 Sum_probs=60.3
Q ss_pred CCCCCHHHHhcCCCccccCCccCCCCCccccccccccccCCC----eeeecCCCCccchHHhHHHHHhCCCCCcccCCCC
Q 045986 69 RPLRHQRVIEKLPPAEKYDGHLHNKKFTSECVICLEEFVSGD----LFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSI 144 (148)
Q Consensus 69 ~~~~~~~~i~~lp~~~~~~~~~~~~~~~~~C~ICl~~~~~~~----~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~ 144 (148)
..+..+..++.+|.+............+.+|+||++++.+++ .+.+++.|+|.||.+||.+|+..+.+||+||..+
T Consensus 147 k~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~ 226 (238)
T PHA02929 147 KGKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPF 226 (238)
T ss_pred hcchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEe
Confidence 345678889999998766555444445689999999987654 1335545999999999999999999999999876
Q ss_pred C
Q 045986 145 Y 145 (148)
Q Consensus 145 ~ 145 (148)
.
T Consensus 227 ~ 227 (238)
T PHA02929 227 I 227 (238)
T ss_pred e
Confidence 4
No 4
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.72 E-value=2.8e-18 Score=122.66 Aligned_cols=51 Identities=37% Similarity=0.996 Sum_probs=47.6
Q ss_pred ccccccccccccCCCeeeecCCCCccchHHhHHHHHh-CCCCCcccCCCCCCC
Q 045986 96 TSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFS-DEFTCPICRSSIYLD 147 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~~~~~ 147 (148)
+.+|+|||++|.++|.+++|| |+|.||..|+++|+. .+..||+||++++|.
T Consensus 323 GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPPp 374 (374)
T COG5540 323 GVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPPP 374 (374)
T ss_pred CceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCCC
Confidence 478999999999999999999 999999999999998 577899999999874
No 5
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.69 E-value=2.5e-17 Score=97.07 Aligned_cols=44 Identities=39% Similarity=0.968 Sum_probs=35.9
Q ss_pred cccccccccccCC----------CeeeecCCCCccchHHhHHHHHhCCCCCcccC
Q 045986 97 SECVICLEEFVSG----------DLFRILPFCKHVYHSHCIIRWFSDEFTCPICR 141 (148)
Q Consensus 97 ~~C~ICl~~~~~~----------~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR 141 (148)
+.|+||+++|.+. -.+...+ |||.||..||.+||+.+.+||+||
T Consensus 20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 20 DNCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp SBETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CcccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence 4699999999432 2455566 999999999999999999999998
No 6
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.63 E-value=7.2e-16 Score=109.88 Aligned_cols=49 Identities=33% Similarity=0.844 Sum_probs=43.3
Q ss_pred CccccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCCCCC
Q 045986 95 FTSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSIYLD 147 (148)
Q Consensus 95 ~~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~ 147 (148)
+...|.+||+...+ ..-+| |||+||+.||..|...+..||+||..+.|.
T Consensus 238 a~~kC~LCLe~~~~---pSaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~ps 286 (293)
T KOG0317|consen 238 ATRKCSLCLENRSN---PSATP-CGHIFCWSCILEWCSEKAECPLCREKFQPS 286 (293)
T ss_pred CCCceEEEecCCCC---CCcCc-CcchHHHHHHHHHHccccCCCcccccCCCc
Confidence 34789999999654 47899 999999999999999999999999998775
No 7
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.62 E-value=1e-15 Score=112.44 Aligned_cols=68 Identities=31% Similarity=0.748 Sum_probs=50.3
Q ss_pred HHHHhcCCCccccCCccCCCCCccccccccccccCCC----------eeeecCCCCccchHHhHHHHHhCCCCCcccCCC
Q 045986 74 QRVIEKLPPAEKYDGHLHNKKFTSECVICLEEFVSGD----------LFRILPFCKHVYHSHCIIRWFSDEFTCPICRSS 143 (148)
Q Consensus 74 ~~~i~~lp~~~~~~~~~~~~~~~~~C~ICl~~~~~~~----------~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~ 143 (148)
++.-+.+|++..++. .+++..|+||++++-..+ ....|| |||+||-+|++.|++++++||.||.+
T Consensus 269 kdl~~~~~t~t~eql----~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p 343 (491)
T COG5243 269 KDLNAMYPTATEEQL----TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRP 343 (491)
T ss_pred hHHHhhcchhhhhhh----cCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCc
Confidence 334444565543333 233468999999953322 567899 99999999999999999999999999
Q ss_pred CCC
Q 045986 144 IYL 146 (148)
Q Consensus 144 ~~~ 146 (148)
+.-
T Consensus 344 ~if 346 (491)
T COG5243 344 VIF 346 (491)
T ss_pred ccc
Confidence 643
No 8
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.48 E-value=4.6e-14 Score=96.34 Aligned_cols=49 Identities=27% Similarity=0.672 Sum_probs=40.0
Q ss_pred CccccccccccccCCCeeeecCCCCccchHHhHHHHHhC----------------CCCCcccCCCCCCC
Q 045986 95 FTSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSD----------------EFTCPICRSSIYLD 147 (148)
Q Consensus 95 ~~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~----------------~~~CP~CR~~~~~~ 147 (148)
++.+|+||++.+++. .+++ |||.||+.||..|+.. +.+||+||+.+..+
T Consensus 17 ~~~~CpICld~~~dP---VvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~ 81 (193)
T PLN03208 17 GDFDCNICLDQVRDP---VVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA 81 (193)
T ss_pred CccCCccCCCcCCCc---EEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence 347899999998654 6678 9999999999999852 34699999988653
No 9
>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=99.47 E-value=4.8e-14 Score=73.16 Aligned_cols=39 Identities=33% Similarity=0.974 Sum_probs=33.3
Q ss_pred cccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCccc
Q 045986 99 CVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPIC 140 (148)
Q Consensus 99 C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~C 140 (148)
|+||++.+.+ .+.+++ |||.|+.+|+..|++.+.+||+|
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 8999999766 456788 99999999999999999999998
No 10
>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=99.47 E-value=5e-14 Score=75.05 Aligned_cols=44 Identities=50% Similarity=1.195 Sum_probs=37.8
Q ss_pred ccccccccccCCCeeeecCCCCccchHHhHHHHHhC-CCCCcccCCCC
Q 045986 98 ECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSD-EFTCPICRSSI 144 (148)
Q Consensus 98 ~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~~ 144 (148)
+|+||++.+ .+.+..++ |||.||.+|++.|+.. +..||+||..+
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 499999998 45566677 9999999999999997 77899999864
No 11
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.46 E-value=5.1e-14 Score=83.71 Aligned_cols=50 Identities=36% Similarity=0.829 Sum_probs=38.6
Q ss_pred ccccccccccccC--------CC-eeeecCCCCccchHHhHHHHHhC---CCCCcccCCCCC
Q 045986 96 TSECVICLEEFVS--------GD-LFRILPFCKHVYHSHCIIRWFSD---EFTCPICRSSIY 145 (148)
Q Consensus 96 ~~~C~ICl~~~~~--------~~-~vr~lp~C~H~FH~~Ci~~Wl~~---~~~CP~CR~~~~ 145 (148)
++.|.||...|+. |+ ...++..|+|.||..||.+||.. +.+||+||++..
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 4689999988872 22 23344459999999999999986 467999999764
No 12
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.46 E-value=5.5e-14 Score=76.96 Aligned_cols=46 Identities=37% Similarity=0.824 Sum_probs=39.0
Q ss_pred ccccccccccccCCCeeeecCCCCcc-chHHhHHHHHhCCCCCcccCCCCC
Q 045986 96 TSECVICLEEFVSGDLFRILPFCKHV-YHSHCIIRWFSDEFTCPICRSSIY 145 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~~~ 145 (148)
+..|.||++... .+..+| |||. |+.+|+..|++.+.+||+||+++.
T Consensus 2 ~~~C~iC~~~~~---~~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPR---DVVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBS---SEEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCC---ceEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 368999999854 468889 9999 999999999999999999999874
No 13
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.38 E-value=3.8e-13 Score=93.49 Aligned_cols=50 Identities=22% Similarity=0.657 Sum_probs=40.0
Q ss_pred CCCccccccccccccCCCeeeecCCCCccchHHhHHHHHhCC---CCCcccCCCCCC
Q 045986 93 KKFTSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDE---FTCPICRSSIYL 146 (148)
Q Consensus 93 ~~~~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~---~~CP~CR~~~~~ 146 (148)
+.+..+|.|||+.-++ ..++. |||+||+.||-+||..+ ..||+||+.|..
T Consensus 44 ~~~~FdCNICLd~akd---PVvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~ 96 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKD---PVVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSI 96 (230)
T ss_pred CCCceeeeeeccccCC---CEEee-cccceehHHHHHHHhhcCCCeeCCcccccccc
Confidence 3455899999998444 35666 99999999999999874 349999998754
No 14
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.36 E-value=6.6e-13 Score=70.64 Aligned_cols=44 Identities=30% Similarity=0.844 Sum_probs=39.1
Q ss_pred ccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCC
Q 045986 98 ECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRS 142 (148)
Q Consensus 98 ~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 142 (148)
.|+||+++|.+....++|+ |||+|+.+|+..+......||+||+
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 4999999996667788899 9999999999999866778999985
No 15
>PHA02926 zinc finger-like protein; Provisional
Probab=99.35 E-value=2.6e-13 Score=93.84 Aligned_cols=53 Identities=34% Similarity=0.747 Sum_probs=39.4
Q ss_pred CCCCccccccccccccCC-----CeeeecCCCCccchHHhHHHHHhCC------CCCcccCCCC
Q 045986 92 NKKFTSECVICLEEFVSG-----DLFRILPFCKHVYHSHCIIRWFSDE------FTCPICRSSI 144 (148)
Q Consensus 92 ~~~~~~~C~ICl~~~~~~-----~~vr~lp~C~H~FH~~Ci~~Wl~~~------~~CP~CR~~~ 144 (148)
..+.+.+|+|||+..-+. ...-+|+.|+|.||..||+.|-..+ .+||+||..+
T Consensus 166 ~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f 229 (242)
T PHA02926 166 RVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRF 229 (242)
T ss_pred hccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCccee
Confidence 334457999999986332 1234676699999999999998753 3499999865
No 16
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.34 E-value=3.4e-13 Score=106.80 Aligned_cols=48 Identities=44% Similarity=1.084 Sum_probs=43.8
Q ss_pred ccccccccccccCCCe--eeecCCCCccchHHhHHHHHhCCCCCcccCCCC
Q 045986 96 TSECVICLEEFVSGDL--FRILPFCKHVYHSHCIIRWFSDEFTCPICRSSI 144 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~--vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~ 144 (148)
+..|+||++++..+.. .+.|| |+|+||..|+..|++++.+||+||..+
T Consensus 291 ~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~ 340 (543)
T KOG0802|consen 291 DELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVL 340 (543)
T ss_pred CCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhh
Confidence 5789999999988765 78899 999999999999999999999999844
No 17
>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=99.30 E-value=1.7e-12 Score=68.06 Aligned_cols=39 Identities=38% Similarity=1.133 Sum_probs=33.7
Q ss_pred cccccccccCCCeeeecCCCCccchHHhHHHHHh--CCCCCccc
Q 045986 99 CVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFS--DEFTCPIC 140 (148)
Q Consensus 99 C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~--~~~~CP~C 140 (148)
|+||++.+.+. ++.++ |||.|+.+|+..|++ ....||+|
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 89999998665 35788 999999999999999 46679998
No 18
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=99.29 E-value=1.7e-12 Score=75.33 Aligned_cols=49 Identities=33% Similarity=0.837 Sum_probs=36.8
Q ss_pred ccccccccccc-----------CCC-eeeecCCCCccchHHhHHHHHhCCCCCcccCCCCC
Q 045986 97 SECVICLEEFV-----------SGD-LFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSIY 145 (148)
Q Consensus 97 ~~C~ICl~~~~-----------~~~-~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~ 145 (148)
+.|+||...|. .++ ...+...|+|.||..||..||..+..||++|+...
T Consensus 21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~ 81 (88)
T COG5194 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWV 81 (88)
T ss_pred chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence 46777776653 333 33333349999999999999999999999998754
No 19
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.27 E-value=3.9e-12 Score=85.05 Aligned_cols=54 Identities=31% Similarity=0.585 Sum_probs=42.7
Q ss_pred cCCCCCccccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCCC
Q 045986 90 LHNKKFTSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSIY 145 (148)
Q Consensus 90 ~~~~~~~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~ 145 (148)
....++...|+|||+.+.+... +-.+|||+||+.||+.-++....||+||..|.
T Consensus 125 ~~~~~~~~~CPiCl~~~sek~~--vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 125 PLRKEGTYKCPICLDSVSEKVP--VSTKCGHVFCSQCIKDALKNTNKCPTCRKKIT 178 (187)
T ss_pred ccccccccCCCceecchhhccc--cccccchhHHHHHHHHHHHhCCCCCCcccccc
Confidence 3344445789999999876533 42339999999999999999999999997654
No 20
>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=99.26 E-value=5.2e-12 Score=64.94 Aligned_cols=38 Identities=47% Similarity=1.089 Sum_probs=33.2
Q ss_pred cccccccccCCCeeeecCCCCccchHHhHHHHHh-CCCCCccc
Q 045986 99 CVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFS-DEFTCPIC 140 (148)
Q Consensus 99 C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~-~~~~CP~C 140 (148)
|+||++. ......++ |||.||..|++.|+. .+.+||+|
T Consensus 1 C~iC~~~---~~~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEE---LKDPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccC---CCCcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence 7899998 45677888 999999999999998 57779998
No 21
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.25 E-value=4.9e-12 Score=66.42 Aligned_cols=38 Identities=39% Similarity=1.032 Sum_probs=29.5
Q ss_pred cccccccccCCCeeeecCCCCccchHHhHHHHHhCC----CCCccc
Q 045986 99 CVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDE----FTCPIC 140 (148)
Q Consensus 99 C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~----~~CP~C 140 (148)
|+||++-|.+. ..|+ |||.|+..||..|++.. ..||.|
T Consensus 1 CpiC~~~~~~P---v~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP---VSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE---EE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc---cccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999776 6788 99999999999999763 359988
No 22
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=99.21 E-value=1.6e-11 Score=70.28 Aligned_cols=47 Identities=26% Similarity=0.428 Sum_probs=41.0
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCCCCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSIYLD 147 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~ 147 (148)
..|+||++.+.+. .++| |||+|..+||.+|++.+.+||+|+.++..+
T Consensus 2 ~~Cpi~~~~~~~P---v~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~ 48 (63)
T smart00504 2 FLCPISLEVMKDP---VILP-SGQTYERRAIEKWLLSHGTDPVTGQPLTHE 48 (63)
T ss_pred cCCcCCCCcCCCC---EECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCChh
Confidence 3699999998775 5678 999999999999999989999999987543
No 23
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=99.19 E-value=2.8e-12 Score=73.75 Aligned_cols=49 Identities=33% Similarity=0.876 Sum_probs=37.0
Q ss_pred cccccccccccC---------CCeeeecCCCCccchHHhHHHHHhCC---CCCcccCCCCC
Q 045986 97 SECVICLEEFVS---------GDLFRILPFCKHVYHSHCIIRWFSDE---FTCPICRSSIY 145 (148)
Q Consensus 97 ~~C~ICl~~~~~---------~~~vr~lp~C~H~FH~~Ci~~Wl~~~---~~CP~CR~~~~ 145 (148)
+.|-||..+|.. ++..-++..|.|.||..||.+|+..+ ..||+||+...
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 478888888863 23333454599999999999999874 44999998653
No 24
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.18 E-value=3e-11 Score=91.95 Aligned_cols=49 Identities=31% Similarity=1.035 Sum_probs=40.0
Q ss_pred cccccccccccC---C-----------CeeeecCCCCccchHHhHHHHHh-CCCCCcccCCCCCC
Q 045986 97 SECVICLEEFVS---G-----------DLFRILPFCKHVYHSHCIIRWFS-DEFTCPICRSSIYL 146 (148)
Q Consensus 97 ~~C~ICl~~~~~---~-----------~~vr~lp~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~~~~ 146 (148)
..|+|||.+..- + ....++| |+|+||..|+..|+. .+..||+||+++++
T Consensus 572 ~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 572 NDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred ccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 689999988742 1 1234678 999999999999999 56689999999976
No 25
>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=99.09 E-value=9.2e-11 Score=63.55 Aligned_cols=42 Identities=31% Similarity=0.771 Sum_probs=33.7
Q ss_pred ccccccccccCCCeeeecCCCC-----ccchHHhHHHHHhCC--CCCcccC
Q 045986 98 ECVICLEEFVSGDLFRILPFCK-----HVYHSHCIIRWFSDE--FTCPICR 141 (148)
Q Consensus 98 ~C~ICl~~~~~~~~vr~lp~C~-----H~FH~~Ci~~Wl~~~--~~CP~CR 141 (148)
.|.||++ ..+++...++| |. |.+|.+|++.|+..+ .+||+|+
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 3899999 44455666899 84 999999999999664 4799995
No 26
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.08 E-value=8.5e-11 Score=89.04 Aligned_cols=47 Identities=32% Similarity=0.687 Sum_probs=41.0
Q ss_pred ccccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCCCC
Q 045986 96 TSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSIYL 146 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~ 146 (148)
...|+||++.|.+. .++| |||.||..||..|+..+..||+||..+..
T Consensus 26 ~l~C~IC~d~~~~P---vitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~ 72 (397)
T TIGR00599 26 SLRCHICKDFFDVP---VLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQE 72 (397)
T ss_pred ccCCCcCchhhhCc---cCCC-CCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence 46899999998665 4678 99999999999999998899999997754
No 27
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.03 E-value=7e-11 Score=83.83 Aligned_cols=50 Identities=30% Similarity=0.708 Sum_probs=41.4
Q ss_pred CccccccccccccCCC-------eeeecCCCCccchHHhHHHHH--hCCCCCcccCCCCC
Q 045986 95 FTSECVICLEEFVSGD-------LFRILPFCKHVYHSHCIIRWF--SDEFTCPICRSSIY 145 (148)
Q Consensus 95 ~~~~C~ICl~~~~~~~-------~vr~lp~C~H~FH~~Ci~~Wl--~~~~~CP~CR~~~~ 145 (148)
++..|+||-..+...+ ..-.|. |+|.||..||+-|- .++++||.|+..+.
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 4578999998886554 667788 99999999999995 46889999987654
No 28
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=99.01 E-value=2e-10 Score=60.35 Aligned_cols=38 Identities=37% Similarity=0.927 Sum_probs=22.9
Q ss_pred cccccccccCCC-eeeecCCCCccchHHhHHHHHhCC----CCCc
Q 045986 99 CVICLEEFVSGD-LFRILPFCKHVYHSHCIIRWFSDE----FTCP 138 (148)
Q Consensus 99 C~ICl~~~~~~~-~vr~lp~C~H~FH~~Ci~~Wl~~~----~~CP 138 (148)
|+||.+ |.+.+ ...+|| |||.|..+||+.++.++ -+||
T Consensus 1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 75544 568899 99999999999999854 2477
No 29
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.01 E-value=1.6e-10 Score=81.94 Aligned_cols=49 Identities=31% Similarity=0.948 Sum_probs=41.0
Q ss_pred ccccccccccccCCCeeeecCCCCccchHHhHHH-HHhCCCC-CcccCCCCCCCC
Q 045986 96 TSECVICLEEFVSGDLFRILPFCKHVYHSHCIIR-WFSDEFT-CPICRSSIYLDA 148 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~-Wl~~~~~-CP~CR~~~~~~~ 148 (148)
+..|+||++.. +....+| |||+|+..||-. |=.++.. ||+||+.+.|++
T Consensus 215 d~kC~lC~e~~---~~ps~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~ 265 (271)
T COG5574 215 DYKCFLCLEEP---EVPSCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK 265 (271)
T ss_pred ccceeeeeccc---CCccccc-ccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence 47899999984 4457788 999999999999 9777666 999999888753
No 30
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.88 E-value=1.1e-09 Score=80.68 Aligned_cols=48 Identities=40% Similarity=0.737 Sum_probs=41.0
Q ss_pred CCccccccccccccCCCeeeecCCCCcc-chHHhHHHHHhCCCCCcccCCCCC
Q 045986 94 KFTSECVICLEEFVSGDLFRILPFCKHV-YHSHCIIRWFSDEFTCPICRSSIY 145 (148)
Q Consensus 94 ~~~~~C~ICl~~~~~~~~vr~lp~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~~~ 145 (148)
++..+|.|||.+- -...+|| |+|. .|.+|-+..--.+..||+||+++.
T Consensus 288 ~~gkeCVIClse~---rdt~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 288 ESGKECVICLSES---RDTVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred cCCCeeEEEecCC---cceEEec-chhhehhHhHHHHHHHhhcCCCccccchH
Confidence 3457999999994 4458999 9999 999999998777888999999874
No 31
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.83 E-value=1.8e-09 Score=81.59 Aligned_cols=47 Identities=30% Similarity=0.836 Sum_probs=39.3
Q ss_pred ccccccccccccCCC-eeeecCCCCccchHHhHHHHHhCCCCCcccCCCCC
Q 045986 96 TSECVICLEEFVSGD-LFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSIY 145 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~-~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~ 145 (148)
-..|||||+.+.+.- .++... |+|.||..|+..| ...+||+||.-..
T Consensus 175 LPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w--~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 175 LPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKW--WDSSCPVCRYCQS 222 (493)
T ss_pred CCCcchhHhhcCccccceeeee-cccccchHHHhhc--ccCcChhhhhhcC
Confidence 478999999997653 567777 9999999999999 5678999997554
No 32
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.83 E-value=2.4e-09 Score=65.30 Aligned_cols=47 Identities=30% Similarity=0.777 Sum_probs=36.7
Q ss_pred ccccccccccc-------------CCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCC
Q 045986 97 SECVICLEEFV-------------SGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSS 143 (148)
Q Consensus 97 ~~C~ICl~~~~-------------~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~ 143 (148)
+.|+||...+. .++....-..|+|.||-.||..||+.+..||+|.+.
T Consensus 47 DnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~e 106 (114)
T KOG2930|consen 47 DNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKE 106 (114)
T ss_pred chhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence 57999876552 234444445599999999999999999999999764
No 33
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.77 E-value=2.2e-09 Score=87.52 Aligned_cols=49 Identities=41% Similarity=0.963 Sum_probs=37.4
Q ss_pred CccccccccccccCCCeeeecCC-----CCccchHHhHHHHHhC--CCCCcccCCCCC
Q 045986 95 FTSECVICLEEFVSGDLFRILPF-----CKHVYHSHCIIRWFSD--EFTCPICRSSIY 145 (148)
Q Consensus 95 ~~~~C~ICl~~~~~~~~vr~lp~-----C~H~FH~~Ci~~Wl~~--~~~CP~CR~~~~ 145 (148)
+.++||||..-...-| |.||. |.|-||..|+-+|++. +.+||+||..++
T Consensus 1468 G~eECaICYsvL~~vd--r~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1468 GHEECAICYSVLDMVD--RSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CcchhhHHHHHHHHHh--ccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 3589999987664111 23332 8999999999999987 566999998875
No 34
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.74 E-value=7.4e-09 Score=60.96 Aligned_cols=48 Identities=29% Similarity=0.403 Sum_probs=37.4
Q ss_pred ccccccccccccCCCeeeecCCCCccchHHhHHHHHhC-CCCCcccCCCCCCC
Q 045986 96 TSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSD-EFTCPICRSSIYLD 147 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~~~~~ 147 (148)
...|+|+.+-|.+. .++| +||.|-..+|..|++. +.+||+|+.++..+
T Consensus 4 ~f~CpIt~~lM~dP---Vi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~ 52 (73)
T PF04564_consen 4 EFLCPITGELMRDP---VILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSES 52 (73)
T ss_dssp GGB-TTTSSB-SSE---EEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred ccCCcCcCcHhhCc---eeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence 46899999998775 6788 9999999999999999 88899999988653
No 35
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.74 E-value=4.9e-09 Score=80.54 Aligned_cols=48 Identities=35% Similarity=0.814 Sum_probs=37.5
Q ss_pred ccccccccccccCCCeeeecCCCCccchHHhHHHHHhCC-----CCCcccCCCCCCC
Q 045986 96 TSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDE-----FTCPICRSSIYLD 147 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~-----~~CP~CR~~~~~~ 147 (148)
+..|||||++.... ..+- |||+||..||-..+... ..||+||..|.+.
T Consensus 186 ~~~CPICL~~~~~p---~~t~-CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~k 238 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP---VRTN-CGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLK 238 (513)
T ss_pred CCcCCcccCCCCcc---cccc-cCceeeHHHHHHHHhhhcccCCccCCchhhhcccc
Confidence 46899999985443 3344 99999999998888653 4599999988763
No 36
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.72 E-value=5.1e-09 Score=76.78 Aligned_cols=45 Identities=36% Similarity=0.772 Sum_probs=40.9
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSIY 145 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~ 145 (148)
..|-||.+-|... .++| |+|.||.-||+..|..++.||.|+..+.
T Consensus 24 LRC~IC~eyf~ip---~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~ 68 (442)
T KOG0287|consen 24 LRCGICFEYFNIP---MITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVT 68 (442)
T ss_pred HHHhHHHHHhcCc---eecc-ccchHHHHHHHHHhccCCCCCceecccc
Confidence 4699999999876 6788 9999999999999999999999998764
No 37
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.70 E-value=1.4e-08 Score=74.48 Aligned_cols=49 Identities=18% Similarity=0.470 Sum_probs=36.8
Q ss_pred ccccccccc-ccCCC-eeeecCCCCccchHHhHHHHHhC-CCCCcccCCCCCC
Q 045986 97 SECVICLEE-FVSGD-LFRILPFCKHVYHSHCIIRWFSD-EFTCPICRSSIYL 146 (148)
Q Consensus 97 ~~C~ICl~~-~~~~~-~vr~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~~~~ 146 (148)
..||+|..+ |.+.+ .+.+.+ |||.||..||+..+.. ...||.|+.++..
T Consensus 4 ~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk 55 (309)
T TIGR00570 4 QGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRK 55 (309)
T ss_pred CCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccch
Confidence 579999986 44444 233446 9999999999996644 5679999987754
No 38
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.66 E-value=3.1e-09 Score=61.95 Aligned_cols=49 Identities=31% Similarity=0.695 Sum_probs=23.6
Q ss_pred cccccccccccCCC-ee-ee--cCCCCccchHHhHHHHHhC---C--------CCCcccCCCCC
Q 045986 97 SECVICLEEFVSGD-LF-RI--LPFCKHVYHSHCIIRWFSD---E--------FTCPICRSSIY 145 (148)
Q Consensus 97 ~~C~ICl~~~~~~~-~v-r~--lp~C~H~FH~~Ci~~Wl~~---~--------~~CP~CR~~~~ 145 (148)
.+|.||.+...+++ .. .+ -+.|++.||..|+.+||+. . .+||.|+++|.
T Consensus 3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 57999999876333 21 22 2248999999999999964 1 24999998764
No 39
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.66 E-value=1.4e-08 Score=73.09 Aligned_cols=44 Identities=30% Similarity=0.601 Sum_probs=38.7
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSI 144 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~ 144 (148)
..|-||-+-+... ..++ |||.||.-||...|..++.||+||.+.
T Consensus 26 lrC~IC~~~i~ip---~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~ 69 (391)
T COG5432 26 LRCRICDCRISIP---CETT-CGHTFCSLCIRRHLGTQPFCPVCREDP 69 (391)
T ss_pred HHhhhhhheeecc---eecc-cccchhHHHHHHHhcCCCCCccccccH
Confidence 5799998887665 5667 999999999999999999999999863
No 40
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.63 E-value=1.5e-08 Score=75.47 Aligned_cols=45 Identities=31% Similarity=0.937 Sum_probs=36.3
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhC---CCCCcccC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSD---EFTCPICR 141 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~---~~~CP~CR 141 (148)
..|.||-+-+....++.....|||+||..|+..|+.. +.+||.||
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 5799995555555566666669999999999999987 34699998
No 41
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.58 E-value=2.2e-08 Score=73.59 Aligned_cols=44 Identities=36% Similarity=0.891 Sum_probs=38.8
Q ss_pred CccccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCC
Q 045986 95 FTSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRS 142 (148)
Q Consensus 95 ~~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 142 (148)
+...|+||++.|... +++| |+|.|+..|+..++.....||.||.
T Consensus 12 ~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 12 EELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred ccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccCC
Confidence 346899999999888 8899 9999999999999885567999993
No 42
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=98.47 E-value=4e-08 Score=70.99 Aligned_cols=49 Identities=39% Similarity=0.948 Sum_probs=41.8
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHh------------------C-----CCCCcccCCCCCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFS------------------D-----EFTCPICRSSIYL 146 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~------------------~-----~~~CP~CR~~~~~ 146 (148)
..|+|||-.|.+++...+++ |-|+||..|+..+|. . +..||+||..|.-
T Consensus 116 gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~ 187 (368)
T KOG4445|consen 116 GQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI 187 (368)
T ss_pred CceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence 57999999999999999999 999999999988771 1 2349999987754
No 43
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.44 E-value=1.5e-07 Score=70.65 Aligned_cols=47 Identities=30% Similarity=0.926 Sum_probs=37.0
Q ss_pred ccccccccccccC-CCeeeecCCCCccchHHhHHHHHhC--CCCCcccCC
Q 045986 96 TSECVICLEEFVS-GDLFRILPFCKHVYHSHCIIRWFSD--EFTCPICRS 142 (148)
Q Consensus 96 ~~~C~ICl~~~~~-~~~vr~lp~C~H~FH~~Ci~~Wl~~--~~~CP~CR~ 142 (148)
...|+|||+.++- ++...+.+.|||.|-.+||+.||.+ ...||.|..
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 3689999999974 4555555559999999999999964 334999964
No 44
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.42 E-value=4.4e-08 Score=78.72 Aligned_cols=47 Identities=21% Similarity=0.410 Sum_probs=41.7
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSI 144 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~ 144 (148)
..|++||..+.++.....-+ |+|+||..||+.|-+.-.+||+||..+
T Consensus 124 ~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF 170 (1134)
T KOG0825|consen 124 NQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEF 170 (1134)
T ss_pred hhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhh
Confidence 67889998888877777777 999999999999999999999999754
No 45
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.39 E-value=6.3e-08 Score=54.45 Aligned_cols=46 Identities=26% Similarity=0.727 Sum_probs=22.7
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCCCCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSIYLD 147 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~ 147 (148)
-.|++|.+-+.+. ..|..|.|+|+..||..-+. ..||+|+.+.+-.
T Consensus 8 LrCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~q 53 (65)
T PF14835_consen 8 LRCSICFDILKEP---VCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQ 53 (65)
T ss_dssp TS-SSS-S--SS----B---SSS--B-TTTGGGGTT--TB-SSS--B-S-S
T ss_pred cCCcHHHHHhcCC---ceeccCccHHHHHHhHHhcC--CCCCCcCChHHHH
Confidence 4699999987664 33445999999999988544 4599999886543
No 46
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.39 E-value=1e-07 Score=76.49 Aligned_cols=48 Identities=19% Similarity=0.651 Sum_probs=40.8
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhC-CCCCcccCCCCCCCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSD-EFTCPICRSSIYLDA 148 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~~~~~~ 148 (148)
-.|++|-..+.+ ++++.|||+||..||.+-+.. +..||.|.+++.++|
T Consensus 644 LkCs~Cn~R~Kd----~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD 692 (698)
T KOG0978|consen 644 LKCSVCNTRWKD----AVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND 692 (698)
T ss_pred eeCCCccCchhh----HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence 579999987766 355669999999999999975 677999999998876
No 47
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.36 E-value=1.9e-07 Score=67.67 Aligned_cols=47 Identities=30% Similarity=0.534 Sum_probs=38.0
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhC-CCCCcccCCCCCCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSD-EFTCPICRSSIYLD 147 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~~~~~ 147 (148)
.+|+||+....- ...|+ |+|.|+..||+-=..+ ..+||+||.++..+
T Consensus 8 ~eC~IC~nt~n~---Pv~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~ 55 (324)
T KOG0824|consen 8 KECLICYNTGNC---PVNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDST 55 (324)
T ss_pred CcceeeeccCCc---Ccccc-ccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence 589999998443 46677 9999999999876555 66799999998753
No 48
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.35 E-value=4.9e-08 Score=72.02 Aligned_cols=48 Identities=25% Similarity=0.530 Sum_probs=40.8
Q ss_pred ccccccccccccCCCeeeecCCCCccchHHhHHHHHhC-CCCCcccCCCCCC
Q 045986 96 TSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSD-EFTCPICRSSIYL 146 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~~~~ 146 (148)
+..|+|||+-++.. +.++.|.|.|+.+||..-++. +.+||.||+.+..
T Consensus 43 ~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~S 91 (381)
T KOG0311|consen 43 QVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVS 91 (381)
T ss_pred hhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccc
Confidence 46899999998776 666779999999999999876 7789999997653
No 49
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.35 E-value=9.1e-08 Score=51.72 Aligned_cols=44 Identities=39% Similarity=0.737 Sum_probs=33.5
Q ss_pred cccccccccccCCCeeeecCCCCcc-chHHhHHHHHh-CCCCCcccCCCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHV-YHSHCIIRWFS-DEFTCPICRSSI 144 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~-FH~~Ci~~Wl~-~~~~CP~CR~~~ 144 (148)
++|.||++.-.+. +|--|||. .+-+|-.+-++ .+..||+||+++
T Consensus 8 dECTICye~pvds----VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi 53 (62)
T KOG4172|consen 8 DECTICYEHPVDS----VLYTCGHMCMCYACGLRLKKALHGCCPICRAPI 53 (62)
T ss_pred cceeeeccCcchH----HHHHcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence 6899999885443 33239999 88999655444 789999999986
No 50
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.33 E-value=5.2e-07 Score=62.93 Aligned_cols=49 Identities=29% Similarity=0.815 Sum_probs=42.7
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhC--------CCCCcccCCCCCCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSD--------EFTCPICRSSIYLD 147 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~--------~~~CP~CR~~~~~~ 147 (148)
..|..|-..+.++|.+|.. |-|.||++|+++|-.. ...||-|-.+|+|+
T Consensus 51 pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp 107 (299)
T KOG3970|consen 51 PNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP 107 (299)
T ss_pred CCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence 4699999999999999976 9999999999999754 23499999999986
No 51
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.28 E-value=4.2e-07 Score=67.95 Aligned_cols=50 Identities=36% Similarity=0.834 Sum_probs=38.0
Q ss_pred CccccccccccccCCC----eeeecCCCCccchHHhHHHHHh--C-----CCCCcccCCCC
Q 045986 95 FTSECVICLEEFVSGD----LFRILPFCKHVYHSHCIIRWFS--D-----EFTCPICRSSI 144 (148)
Q Consensus 95 ~~~~C~ICl~~~~~~~----~vr~lp~C~H~FH~~Ci~~Wl~--~-----~~~CP~CR~~~ 144 (148)
.+.+|.||++...+.. -...||.|.|.|+..||+.|-. + ...||.||...
T Consensus 160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 3578999999865432 1235677999999999999973 3 36699999854
No 52
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=98.10 E-value=9.4e-07 Score=66.45 Aligned_cols=45 Identities=36% Similarity=0.855 Sum_probs=38.1
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhC--CCCCcccCCCCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSD--EFTCPICRSSIY 145 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~~~ 145 (148)
+.|-||-+. +-.|++-| |||..|..|+..|=.. ..+||.||..|.
T Consensus 370 eLCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK 416 (563)
T KOG1785|consen 370 ELCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIK 416 (563)
T ss_pred HHHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence 679999876 56789999 9999999999999644 467999998764
No 53
>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=98.08 E-value=1.5e-06 Score=56.14 Aligned_cols=34 Identities=24% Similarity=0.556 Sum_probs=30.1
Q ss_pred cccccccccccCCCeeeecCCCC------ccchHHhHHHHH
Q 045986 97 SECVICLEEFVSGDLFRILPFCK------HVYHSHCIIRWF 131 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~------H~FH~~Ci~~Wl 131 (148)
.+|+||++...+++.+..++ || |+||.+|+..|=
T Consensus 27 ~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 27 VECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred eeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHH
Confidence 68999999999877788888 75 999999999994
No 54
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.05 E-value=3.3e-06 Score=64.47 Aligned_cols=48 Identities=27% Similarity=0.741 Sum_probs=40.8
Q ss_pred CCccccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCCC
Q 045986 94 KFTSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSIY 145 (148)
Q Consensus 94 ~~~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~ 145 (148)
..+.+|.||+.-+... .++| |||.|+..||+.-+..+..||.||..+.
T Consensus 82 ~sef~c~vc~~~l~~p---v~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~ 129 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPP---VVTP-CGHSFCLECLDRSLDQETECPLCRDELV 129 (398)
T ss_pred cchhhhhhhHhhcCCC---cccc-ccccccHHHHHHHhccCCCCcccccccc
Confidence 3358899998887665 6778 9999999999998787888999999876
No 55
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.98 E-value=2.6e-06 Score=63.98 Aligned_cols=44 Identities=30% Similarity=0.782 Sum_probs=37.5
Q ss_pred cccccccccccC-CCeeeecCCCCccchHHhHHHHHhCCC--CCcccC
Q 045986 97 SECVICLEEFVS-GDLFRILPFCKHVYHSHCIIRWFSDEF--TCPICR 141 (148)
Q Consensus 97 ~~C~ICl~~~~~-~~~vr~lp~C~H~FH~~Ci~~Wl~~~~--~CP~CR 141 (148)
-.|-.|-+.+.. ++.+.-|| |.|+||..|+.+.|.++. +||.||
T Consensus 366 L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Cr 412 (518)
T KOG1941|consen 366 LYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCR 412 (518)
T ss_pred hhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHH
Confidence 569999888753 45788899 999999999999998754 599998
No 56
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.90 E-value=9.7e-06 Score=45.19 Aligned_cols=40 Identities=23% Similarity=0.619 Sum_probs=27.7
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhC--CCCCcc
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSD--EFTCPI 139 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~--~~~CP~ 139 (148)
..|||.+..|++ .|+-.. |||.|-++.|..|+++ ...||+
T Consensus 12 ~~CPiT~~~~~~--PV~s~~-C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 12 LKCPITLQPFED--PVKSKK-CGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp SB-TTTSSB-SS--EEEESS-S--EEEHHHHHHHCTTTS-EE-SC
T ss_pred cCCCCcCChhhC--CcCcCC-CCCeecHHHHHHHHHhcCCCCCCC
Confidence 679999999865 456566 9999999999999944 445998
No 57
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.82 E-value=9.5e-06 Score=62.29 Aligned_cols=48 Identities=23% Similarity=0.640 Sum_probs=39.9
Q ss_pred ccccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCCCC
Q 045986 96 TSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSIYL 146 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~ 146 (148)
+..|++|...+.+.- ..+. |||.|+..|+..|+..+..||.|++.+..
T Consensus 21 ~l~C~~C~~vl~~p~--~~~~-cgh~fC~~C~~~~~~~~~~cp~~~~~~~~ 68 (391)
T KOG0297|consen 21 NLLCPICMSVLRDPV--QTTT-CGHRFCAGCLLESLSNHQKCPVCRQELTQ 68 (391)
T ss_pred cccCccccccccCCC--CCCC-CCCcccccccchhhccCcCCcccccccch
Confidence 468999999987752 2235 99999999999999999999999887643
No 58
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.77 E-value=1.8e-05 Score=42.35 Aligned_cols=40 Identities=38% Similarity=0.908 Sum_probs=27.6
Q ss_pred cccccccccCCCeeeecCCCC-----ccchHHhHHHHHhC--CCCCccc
Q 045986 99 CVICLEEFVSGDLFRILPFCK-----HVYHSHCIIRWFSD--EFTCPIC 140 (148)
Q Consensus 99 C~ICl~~~~~~~~vr~lp~C~-----H~FH~~Ci~~Wl~~--~~~CP~C 140 (148)
|-||+++-.+++ .-+.| |+ -..|.+|+..|+.. +.+|++|
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 679999876665 44567 63 58999999999974 5669988
No 59
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.70 E-value=1.6e-05 Score=57.85 Aligned_cols=48 Identities=31% Similarity=0.722 Sum_probs=36.9
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhC-CCCCccc-CCCCCCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSD-EFTCPIC-RSSIYLD 147 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~-~~~CP~C-R~~~~~~ 147 (148)
..|+.|-.-..+. ..+|+|+|.|+.+||..-|.. ...||.| |.+++.|
T Consensus 275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld 324 (427)
T COG5222 275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLD 324 (427)
T ss_pred ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCcccccchhh
Confidence 5799998776554 445889999999999987765 5569999 5566655
No 60
>PHA02862 5L protein; Provisional
Probab=97.65 E-value=5e-05 Score=49.58 Aligned_cols=44 Identities=23% Similarity=0.535 Sum_probs=32.7
Q ss_pred cccccccccccCCCeeeecCC-C---CccchHHhHHHHHhC--CCCCcccCCCC
Q 045986 97 SECVICLEEFVSGDLFRILPF-C---KHVYHSHCIIRWFSD--EFTCPICRSSI 144 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~-C---~H~FH~~Ci~~Wl~~--~~~CP~CR~~~ 144 (148)
+.|-||.++-++ . .-|+ | ...-|.+|+..|++. +.+||+|+.+.
T Consensus 3 diCWIC~~~~~e--~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY 52 (156)
T PHA02862 3 DICWICNDVCDE--R--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKY 52 (156)
T ss_pred CEEEEecCcCCC--C--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeE
Confidence 579999998433 2 3560 2 367999999999976 44599999864
No 61
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=97.61 E-value=0.00021 Score=52.68 Aligned_cols=46 Identities=17% Similarity=0.428 Sum_probs=35.8
Q ss_pred CCccccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCC
Q 045986 94 KFTSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRS 142 (148)
Q Consensus 94 ~~~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 142 (148)
.....|+||+..-.++-.+.+ -|-+||..||-+.+.++..||+=-.
T Consensus 298 ~~~~~CpvClk~r~Nptvl~v---SGyVfCY~Ci~~Yv~~~~~CPVT~~ 343 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVLEV---SGYVFCYPCIFSYVVNYGHCPVTGY 343 (357)
T ss_pred CccccChhHHhccCCCceEEe---cceEEeHHHHHHHHHhcCCCCccCC
Confidence 344789999999666532222 6999999999999999999998433
No 62
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.58 E-value=2.4e-05 Score=52.01 Aligned_cols=28 Identities=50% Similarity=1.079 Sum_probs=26.1
Q ss_pred ccccccccccccCCCeeeecCCCCccchH
Q 045986 96 TSECVICLEEFVSGDLFRILPFCKHVYHS 124 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C~H~FH~ 124 (148)
..+|.|||++++.++.|..|| |--+||+
T Consensus 177 kGECvICLEdL~~GdtIARLP-CLCIYHK 204 (205)
T KOG0801|consen 177 KGECVICLEDLEAGDTIARLP-CLCIYHK 204 (205)
T ss_pred CCcEEEEhhhccCCCceeccc-eEEEeec
Confidence 368999999999999999999 9999986
No 63
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.52 E-value=8.1e-05 Score=64.27 Aligned_cols=51 Identities=31% Similarity=0.760 Sum_probs=41.0
Q ss_pred CCccccccccccccCCCeeeecCCCCccchHHhHHHHHhCC----------CCCcccCCCCC
Q 045986 94 KFTSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDE----------FTCPICRSSIY 145 (148)
Q Consensus 94 ~~~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~----------~~CP~CR~~~~ 145 (148)
+.++.|.||+.+--.......|- |+|+||-.|.+.-|++. .+||+|+.++.
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 34588999998877777777888 99999999998776552 25999998764
No 64
>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=97.45 E-value=5.9e-05 Score=47.37 Aligned_cols=31 Identities=32% Similarity=0.873 Sum_probs=26.7
Q ss_pred ccccccccccccCCCeeeecCCCCccchHHhHH
Q 045986 96 TSECVICLEEFVSGDLFRILPFCKHVYHSHCII 128 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~ 128 (148)
+..|++|-..+.. ....+.| |||+||..|++
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 3679999999977 5777889 99999999975
No 65
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=97.44 E-value=0.00019 Score=47.83 Aligned_cols=44 Identities=27% Similarity=0.746 Sum_probs=32.8
Q ss_pred ccccccccccccCCCeeeecCCC--Cc---cchHHhHHHHHhC--CCCCcccCCCC
Q 045986 96 TSECVICLEEFVSGDLFRILPFC--KH---VYHSHCIIRWFSD--EFTCPICRSSI 144 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C--~H---~FH~~Ci~~Wl~~--~~~CP~CR~~~ 144 (148)
+..|-||.++.. +. .-| | .. .-|.+|++.|+.. ..+||+|+++.
T Consensus 8 ~~~CRIC~~~~~--~~--~~P-C~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y 58 (162)
T PHA02825 8 DKCCWICKDEYD--VV--TNY-CNCKNENKIVHKECLEEWINTSKNKSCKICNGPY 58 (162)
T ss_pred CCeeEecCCCCC--Cc--cCC-cccCCCchHHHHHHHHHHHhcCCCCcccccCCeE
Confidence 468999998843 22 346 5 44 6799999999976 44599999864
No 66
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.42 E-value=3.2e-05 Score=56.99 Aligned_cols=46 Identities=22% Similarity=0.657 Sum_probs=38.3
Q ss_pred ccccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCC
Q 045986 96 TSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSI 144 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~ 144 (148)
...|.+|-.-|.+...|. .|-|.||+.||-..|..+.+||+|...+
T Consensus 15 ~itC~LC~GYliDATTI~---eCLHTFCkSCivk~l~~~~~CP~C~i~i 60 (331)
T KOG2660|consen 15 HITCRLCGGYLIDATTIT---ECLHTFCKSCIVKYLEESKYCPTCDIVI 60 (331)
T ss_pred ceehhhccceeecchhHH---HHHHHHHHHHHHHHHHHhccCCccceec
Confidence 368999988887764333 3999999999999999999999998755
No 67
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.39 E-value=7.7e-05 Score=58.33 Aligned_cols=49 Identities=24% Similarity=0.656 Sum_probs=38.1
Q ss_pred CccccccccccccCCCeeeecCCCCccchHHhHHHHHhC-----CCCCcccCCCCCCC
Q 045986 95 FTSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSD-----EFTCPICRSSIYLD 147 (148)
Q Consensus 95 ~~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~-----~~~CP~CR~~~~~~ 147 (148)
++.+|-+|-++- +...+.. |.|.||.-||.++... +.+||+|.-.+.-|
T Consensus 535 ~~~~C~lc~d~a---ed~i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD 588 (791)
T KOG1002|consen 535 GEVECGLCHDPA---EDYIESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID 588 (791)
T ss_pred CceeecccCChh---hhhHhhh-hhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence 347899999884 3445666 9999999999988854 66799998776543
No 68
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.37 E-value=6.4e-06 Score=61.79 Aligned_cols=51 Identities=24% Similarity=0.603 Sum_probs=45.2
Q ss_pred ccccccccccccCC-CeeeecCCCCccchHHhHHHHHhCCCCCcccCCCCCCC
Q 045986 96 TSECVICLEEFVSG-DLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSIYLD 147 (148)
Q Consensus 96 ~~~C~ICl~~~~~~-~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~ 147 (148)
...|+||...|++. +.+..+. |||.+|.+|+.+||.....||.||+.++.+
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~~ 247 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPKN 247 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence 36899999999887 6777777 999999999999999988999999988654
No 69
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.37 E-value=0.00011 Score=55.75 Aligned_cols=45 Identities=33% Similarity=0.853 Sum_probs=37.9
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhC--------CCCCcccCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSD--------EFTCPICRS 142 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~--------~~~CP~CR~ 142 (148)
..|.||+++.........|| |+|+|++.|...+... ..+||-+..
T Consensus 185 f~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 185 FDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred ccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 68999999988878999999 9999999999999854 234877654
No 70
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.35 E-value=0.00017 Score=53.79 Aligned_cols=48 Identities=21% Similarity=0.436 Sum_probs=40.7
Q ss_pred CCccccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCCC
Q 045986 94 KFTSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSIY 145 (148)
Q Consensus 94 ~~~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~ 145 (148)
.++..|+||... ...-...| |+|.=+.+||...|.+.+.|=.|++.+-
T Consensus 420 sEd~lCpICyA~---pi~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 420 SEDNLCPICYAG---PINAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred cccccCcceecc---cchhhccC-CCCchHHHHHHHHHhcCCeeeEecceee
Confidence 556899999876 44446788 9999999999999999999999998654
No 71
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.32 E-value=0.00015 Score=54.13 Aligned_cols=43 Identities=37% Similarity=0.783 Sum_probs=31.4
Q ss_pred ccccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCCC
Q 045986 96 TSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSIY 145 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~ 145 (148)
.+.|.||+++..+ ...+| |||+-+ |..-- +...+||+||+.+-
T Consensus 305 p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs-~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 305 PDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCS-KHLPQCPVCRQRIR 347 (355)
T ss_pred CCceEEecCCccc---eeeec-CCcEEE--chHHH-hhCCCCchhHHHHH
Confidence 3689999999666 56788 999955 55443 23455999998763
No 72
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.32 E-value=9.1e-05 Score=50.96 Aligned_cols=43 Identities=28% Similarity=0.648 Sum_probs=37.2
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSS 143 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~ 143 (148)
..|.||-.+|+.. .++. |||.|+..|...=++.-.+|-+|-..
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 5899999999886 5566 99999999999888888999999653
No 73
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=97.27 E-value=0.00026 Score=37.79 Aligned_cols=45 Identities=27% Similarity=0.513 Sum_probs=22.2
Q ss_pred cccccccccCCC-eeeecCCCCccchHHhHHHHHh-CCCCCcccCCCC
Q 045986 99 CVICLEEFVSGD-LFRILPFCKHVYHSHCIIRWFS-DEFTCPICRSSI 144 (148)
Q Consensus 99 C~ICl~~~~~~~-~vr~lp~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~~ 144 (148)
|++|.+++...+ ...-=+ ||+..+..|...-++ .+..||-||.+.
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 789999984433 333344 799999999888876 377899999863
No 74
>PHA03096 p28-like protein; Provisional
Probab=97.22 E-value=0.00019 Score=52.74 Aligned_cols=37 Identities=32% Similarity=0.688 Sum_probs=29.7
Q ss_pred cccccccccccCCC----eeeecCCCCccchHHhHHHHHhC
Q 045986 97 SECVICLEEFVSGD----LFRILPFCKHVYHSHCIIRWFSD 133 (148)
Q Consensus 97 ~~C~ICl~~~~~~~----~vr~lp~C~H~FH~~Ci~~Wl~~ 133 (148)
..|.||++...+.. .--.|+.|.|.|+..|+..|-..
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 47999999876432 34468889999999999999854
No 75
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=97.19 E-value=0.00019 Score=39.20 Aligned_cols=45 Identities=29% Similarity=0.619 Sum_probs=34.0
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCCCCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSIYLD 147 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~ 147 (148)
..|..|... +..-.++| |||+....|.+-+ +.+-||+|-+++.++
T Consensus 8 ~~~~~~~~~---~~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~~ 52 (55)
T PF14447_consen 8 QPCVFCGFV---GTKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEFD 52 (55)
T ss_pred eeEEEcccc---cccccccc-ccceeeccccChh--hccCCCCCCCcccCC
Confidence 356666554 33446889 9999999998875 667799999988765
No 76
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=97.17 E-value=0.00022 Score=58.53 Aligned_cols=47 Identities=34% Similarity=0.764 Sum_probs=37.4
Q ss_pred ccccccccccccCCCeeeecCCCCccchHHhHHHHHhCC-C------CCcccCC
Q 045986 96 TSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDE-F------TCPICRS 142 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~-~------~CP~CR~ 142 (148)
..+|.||.+.+...+.+---..|-|+||-.||..|-+.. . .||.|+.
T Consensus 191 ~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 191 KYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred ceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 478999999998877665544488999999999998651 1 3999984
No 77
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.13 E-value=0.00053 Score=48.79 Aligned_cols=51 Identities=12% Similarity=0.258 Sum_probs=45.3
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCCCCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSIYLD 147 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~ 147 (148)
..|+||.+.+.+.-.+.+|..|||+|..+|+++.+..-..||+|-.++...
T Consensus 222 yiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdr 272 (303)
T KOG3039|consen 222 YICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDR 272 (303)
T ss_pred eecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCccc
Confidence 679999999999888888877999999999999999999999998777543
No 78
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.08 E-value=0.00048 Score=51.02 Aligned_cols=47 Identities=34% Similarity=0.862 Sum_probs=39.4
Q ss_pred cccccccccccCCC---eeeecCCCCccchHHhHHHHHhC-CCCCcccCCCC
Q 045986 97 SECVICLEEFVSGD---LFRILPFCKHVYHSHCIIRWFSD-EFTCPICRSSI 144 (148)
Q Consensus 97 ~~C~ICl~~~~~~~---~vr~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~~ 144 (148)
.+|-||-++|..++ ..|+|. |||.|+..|+.+-+.. ...||.||.+.
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 57999999998774 567788 9999999999998876 44599999874
No 79
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.06 E-value=0.00084 Score=48.51 Aligned_cols=49 Identities=31% Similarity=0.549 Sum_probs=36.2
Q ss_pred CCccccccccccccCCCeeeecCCCCccchHHhHHHHHhC--CCCCcccCCCCC
Q 045986 94 KFTSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSD--EFTCPICRSSIY 145 (148)
Q Consensus 94 ~~~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~~~ 145 (148)
..+.+|++|-+.=.. .-...+ |+|+||.-||..=+.. ..+||.|-.++.
T Consensus 237 t~~~~C~~Cg~~Pti--P~~~~~-C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTI--PHVIGK-CGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred cCCceeeccCCCCCC--Ceeecc-ccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 345899999776222 233445 9999999999987654 467999988775
No 80
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.00 E-value=0.00023 Score=51.86 Aligned_cols=44 Identities=20% Similarity=0.587 Sum_probs=38.2
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSI 144 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~ 144 (148)
..|-||-..|..+ .++. |+|.|+..|--.=+++...|++|-++.
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 5699999999886 5566 999999999988888889999997764
No 81
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=96.97 E-value=0.00044 Score=50.40 Aligned_cols=45 Identities=33% Similarity=0.707 Sum_probs=38.5
Q ss_pred cccccccccccCCC-eeeecCCCCccchHHhHHHHHhCCCCCcccCC
Q 045986 97 SECVICLEEFVSGD-LFRILPFCKHVYHSHCIIRWFSDEFTCPICRS 142 (148)
Q Consensus 97 ~~C~ICl~~~~~~~-~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 142 (148)
..|+||.+.+-... .+.+++ |||.-|..|...-...+.+||+|..
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 44999998876554 567888 9999999999999888899999977
No 82
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.86 E-value=0.0019 Score=48.26 Aligned_cols=47 Identities=26% Similarity=0.603 Sum_probs=35.9
Q ss_pred CCCccccccccccccCCCeeeecCCCCccchHHhHHHH--HhCCCCCcccCCC
Q 045986 93 KKFTSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRW--FSDEFTCPICRSS 143 (148)
Q Consensus 93 ~~~~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~W--l~~~~~CP~CR~~ 143 (148)
+++...|.||-+.. --..++| |+|..+.-|--.. |-.+..||+||..
T Consensus 58 DEen~~C~ICA~~~---TYs~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE 106 (493)
T COG5236 58 DEENMNCQICAGST---TYSARYP-CGHQICHACAVRLRALYMQKGCPLCRTE 106 (493)
T ss_pred ccccceeEEecCCc---eEEEecc-CCchHHHHHHHHHHHHHhccCCCccccc
Confidence 34457899998874 3457899 9999999996443 5568889999974
No 83
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=96.81 E-value=0.00089 Score=35.05 Aligned_cols=41 Identities=27% Similarity=0.676 Sum_probs=22.7
Q ss_pred cccccccccCCCeeeecCCCCccchHHhHHHHHhCCC--CCccc
Q 045986 99 CVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEF--TCPIC 140 (148)
Q Consensus 99 C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~--~CP~C 140 (148)
|.+|-+-...|....... |+=.+|..|++.+++... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~-C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRD-CNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCc-cCchHHHHHHHHHHhcCCCCCCcCC
Confidence 566666655554333323 888899999999998755 69988
No 84
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.78 E-value=0.00021 Score=52.03 Aligned_cols=41 Identities=34% Similarity=0.716 Sum_probs=32.2
Q ss_pred ccccccccccccCCCeeeecCCCCcc-chHHhHHHHHhCCCCCcccCCCC
Q 045986 96 TSECVICLEEFVSGDLFRILPFCKHV-YHSHCIIRWFSDEFTCPICRSSI 144 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~~ 144 (148)
...|+||++. ......|+ |||. =+.+|-.. -..||+||+-+
T Consensus 300 ~~LC~ICmDa---P~DCvfLe-CGHmVtCt~CGkr----m~eCPICRqyi 341 (350)
T KOG4275|consen 300 RRLCAICMDA---PRDCVFLE-CGHMVTCTKCGKR----MNECPICRQYI 341 (350)
T ss_pred HHHHHHHhcC---CcceEEee-cCcEEeehhhccc----cccCchHHHHH
Confidence 4689999997 66678899 9998 67788554 33799999854
No 85
>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=96.55 E-value=0.0013 Score=34.75 Aligned_cols=29 Identities=28% Similarity=0.656 Sum_probs=22.0
Q ss_pred C-CccchHHhHHHHHhCCCCCcccCCCCCC
Q 045986 118 C-KHVYHSHCIIRWFSDEFTCPICRSSIYL 146 (148)
Q Consensus 118 C-~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~ 146 (148)
| .|+.+-.|+...|.+...||+|..+++.
T Consensus 18 C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 18 CSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp -SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred ecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 7 5999999999999999999999999875
No 86
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=96.54 E-value=0.00082 Score=47.74 Aligned_cols=44 Identities=32% Similarity=0.726 Sum_probs=31.7
Q ss_pred ccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCCC
Q 045986 98 ECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSIY 145 (148)
Q Consensus 98 ~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~ 145 (148)
.|..|..- ..++....+- |+|+||..|...= ....||+||.++-
T Consensus 5 hCn~C~~~-~~~~~f~LTa-C~HvfC~~C~k~~--~~~~C~lCkk~ir 48 (233)
T KOG4739|consen 5 HCNKCFRF-PSQDPFFLTA-CRHVFCEPCLKAS--SPDVCPLCKKSIR 48 (233)
T ss_pred Eecccccc-CCCCceeeee-chhhhhhhhcccC--Cccccccccceee
Confidence 46666543 3367777777 9999999997652 2338999998753
No 87
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.33 E-value=0.0018 Score=53.61 Aligned_cols=34 Identities=29% Similarity=0.790 Sum_probs=27.8
Q ss_pred ccccccccccccCCCeeeecCCCCccchHHhHHHHH
Q 045986 96 TSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWF 131 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl 131 (148)
+++|.+|...+... .-.+-| |||.||++|+..-.
T Consensus 817 ~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 817 QDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV 850 (911)
T ss_pred ccchHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence 47899999888664 455678 99999999997765
No 88
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.32 E-value=0.0017 Score=53.50 Aligned_cols=41 Identities=32% Similarity=0.704 Sum_probs=31.1
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSS 143 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~ 143 (148)
..|..|-..++-+ .|--.|||.||.+|+. .+...||-|+..
T Consensus 841 skCs~C~~~LdlP---~VhF~CgHsyHqhC~e---~~~~~CP~C~~e 881 (933)
T KOG2114|consen 841 SKCSACEGTLDLP---FVHFLCGHSYHQHCLE---DKEDKCPKCLPE 881 (933)
T ss_pred eeecccCCccccc---eeeeecccHHHHHhhc---cCcccCCccchh
Confidence 5899998876543 2322299999999999 456779999873
No 89
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=96.22 E-value=0.011 Score=44.87 Aligned_cols=28 Identities=29% Similarity=1.043 Sum_probs=21.2
Q ss_pred CCccchHHhHHHHHhC-------------CCCCcccCCCCC
Q 045986 118 CKHVYHSHCIIRWFSD-------------EFTCPICRSSIY 145 (148)
Q Consensus 118 C~H~FH~~Ci~~Wl~~-------------~~~CP~CR~~~~ 145 (148)
|+-+.|-+|+.+|+.. +.+||+||+.+-
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence 4566789999999843 335999999764
No 90
>PF04641 Rtf2: Rtf2 RING-finger
Probab=96.11 E-value=0.01 Score=43.28 Aligned_cols=52 Identities=19% Similarity=0.434 Sum_probs=39.9
Q ss_pred CCccccccccccccCCCeee-ecCCCCccchHHhHHHHHhCCCCCcccCCCCCCC
Q 045986 94 KFTSECVICLEEFVSGDLFR-ILPFCKHVYHSHCIIRWFSDEFTCPICRSSIYLD 147 (148)
Q Consensus 94 ~~~~~C~ICl~~~~~~~~vr-~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~ 147 (148)
.....|||...+|....... .-| |||+|-..+++.- .....||+|-.++..+
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~-cG~V~s~~alke~-k~~~~Cp~c~~~f~~~ 163 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRP-CGCVFSEKALKEL-KKSKKCPVCGKPFTEE 163 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcC-CCCEeeHHHHHhh-cccccccccCCccccC
Confidence 34578999999996655444 446 9999999999997 2356799998877544
No 91
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=95.89 E-value=0.0031 Score=51.71 Aligned_cols=44 Identities=30% Similarity=0.707 Sum_probs=34.9
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhC--CCCCcccCCCCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSD--EFTCPICRSSIY 145 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~~~ 145 (148)
..|.||++ .+....++ |+|.|+.+|+..-+.. ...||+||..+.
T Consensus 455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~ 500 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLK 500 (674)
T ss_pred cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHH
Confidence 58999999 35556677 9999999999888765 335999998653
No 92
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=95.87 E-value=0.005 Score=50.43 Aligned_cols=22 Identities=41% Similarity=1.105 Sum_probs=21.1
Q ss_pred CCccchHHhHHHHHhCCCCCcc
Q 045986 118 CKHVYHSHCIIRWFSDEFTCPI 139 (148)
Q Consensus 118 C~H~FH~~Ci~~Wl~~~~~CP~ 139 (148)
|+|+.|.+|...|+.....||.
T Consensus 1048 C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1048 CGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred ccccccHHHHHHHHhcCCcCCC
Confidence 9999999999999999999985
No 93
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=95.81 E-value=0.0059 Score=45.33 Aligned_cols=41 Identities=29% Similarity=0.716 Sum_probs=33.2
Q ss_pred cccccccccccCCCeeeecCCC--CccchHHhHHHHHhCCCCCcccCCCCC
Q 045986 97 SECVICLEEFVSGDLFRILPFC--KHVYHSHCIIRWFSDEFTCPICRSSIY 145 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C--~H~FH~~Ci~~Wl~~~~~CP~CR~~~~ 145 (148)
.+||||.+.+... ... | ||+-+..|=.+ .+..||.||-++.
T Consensus 49 leCPvC~~~l~~P----i~Q-C~nGHlaCssC~~~---~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 49 LDCPVCFNPLSPP----IFQ-CDNGHLACSSCRTK---VSNKCPTCRLPIG 91 (299)
T ss_pred ccCchhhccCccc----cee-cCCCcEehhhhhhh---hcccCCccccccc
Confidence 6899999998775 344 6 79999999653 4777999999886
No 94
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.73 E-value=0.0048 Score=43.47 Aligned_cols=38 Identities=37% Similarity=0.748 Sum_probs=29.6
Q ss_pred cccccccccCCCeeeecCCCCcc-chHHhHHHHHhCCCCCcccCCCC
Q 045986 99 CVICLEEFVSGDLFRILPFCKHV-YHSHCIIRWFSDEFTCPICRSSI 144 (148)
Q Consensus 99 C~ICl~~~~~~~~vr~lp~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~~ 144 (148)
|-.|-+. +..|..+| |+|+ ++..|=.. -.+||+|+...
T Consensus 161 Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~ 199 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLP-CRHLCLCGICDES----LRICPICRSPK 199 (207)
T ss_pred ceecCcC---CceEEeec-ccceEeccccccc----CccCCCCcChh
Confidence 7777665 77899999 9987 88999554 34599998764
No 95
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=95.66 E-value=0.013 Score=32.05 Aligned_cols=39 Identities=28% Similarity=0.618 Sum_probs=32.6
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcc
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPI 139 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~ 139 (148)
..|++|-+.|.+++.+.+=|.||--+|.+|-+. ...|-.
T Consensus 6 ~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~ 44 (54)
T PF14446_consen 6 CKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCIN 44 (54)
T ss_pred ccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEe
Confidence 579999999998999999999999999999654 445544
No 96
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.60 E-value=0.0042 Score=50.00 Aligned_cols=43 Identities=30% Similarity=0.572 Sum_probs=32.6
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRS 142 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 142 (148)
..|+||+..|......-+-+.|||..+..|+..- .+.+|| |+.
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 5799999998776543343449999999999885 567888 654
No 97
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.60 E-value=0.0068 Score=43.51 Aligned_cols=49 Identities=27% Similarity=0.776 Sum_probs=34.6
Q ss_pred CCccccccccccccCCCee-eecCCC-----CccchHHhHHHHHhCC--------CCCcccCCC
Q 045986 94 KFTSECVICLEEFVSGDLF-RILPFC-----KHVYHSHCIIRWFSDE--------FTCPICRSS 143 (148)
Q Consensus 94 ~~~~~C~ICl~~~~~~~~v-r~lp~C-----~H~FH~~Ci~~Wl~~~--------~~CP~CR~~ 143 (148)
+.+..|-||+..=+++..- -+-| | +|..|..|+..|+-.+ -+||-|++.
T Consensus 18 e~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTE 80 (293)
T KOG3053|consen 18 ELERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTE 80 (293)
T ss_pred ccceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcch
Confidence 3457899999875444322 3556 5 4999999999999432 249999874
No 98
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=95.59 E-value=0.0097 Score=44.51 Aligned_cols=49 Identities=24% Similarity=0.429 Sum_probs=34.1
Q ss_pred CccccccccccccCCCe-eeecCCCCccchHHhHHHHHh-CCCCCcccCCCC
Q 045986 95 FTSECVICLEEFVSGDL-FRILPFCKHVYHSHCIIRWFS-DEFTCPICRSSI 144 (148)
Q Consensus 95 ~~~~C~ICl~~~~~~~~-vr~lp~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~~ 144 (148)
+++-|+.|++++...|. ..--| ||-..|.=|-..--+ -+..||-||+-.
T Consensus 13 eed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y 63 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKY 63 (480)
T ss_pred ccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhc
Confidence 34569999999987763 34455 898766666444322 377899999854
No 99
>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=95.46 E-value=0.018 Score=38.44 Aligned_cols=33 Identities=27% Similarity=0.550 Sum_probs=21.2
Q ss_pred ccccccccccccCCCeeeecC------C-----CC-ccchHHhHHHHH
Q 045986 96 TSECVICLEEFVSGDLFRILP------F-----CK-HVYHSHCIIRWF 131 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp------~-----C~-H~FH~~Ci~~Wl 131 (148)
+..|+|||+-=-+. ..|- + |+ -.=|..|+|..-
T Consensus 2 d~~CpICme~PHNA---VLLlCSS~~kgcRpymc~Ts~rhSNCLdqfk 46 (162)
T PF07800_consen 2 DVTCPICMEHPHNA---VLLLCSSHEKGCRPYMCDTSYRHSNCLDQFK 46 (162)
T ss_pred CccCceeccCCCce---EEEEeccccCCccccccCCccchhHHHHHHH
Confidence 35799999874443 2222 0 33 346899999886
No 100
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.43 E-value=0.0089 Score=40.68 Aligned_cols=29 Identities=31% Similarity=0.911 Sum_probs=24.1
Q ss_pred CCccchHHhHHHHHhC----C-------CCCcccCCCCCC
Q 045986 118 CKHVYHSHCIIRWFSD----E-------FTCPICRSSIYL 146 (148)
Q Consensus 118 C~H~FH~~Ci~~Wl~~----~-------~~CP~CR~~~~~ 146 (148)
||.-||.-|+..||+. . ..||.|-.++..
T Consensus 190 CgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 190 CGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred cCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence 9999999999999964 1 249999888754
No 101
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=95.39 E-value=0.016 Score=37.53 Aligned_cols=50 Identities=22% Similarity=0.458 Sum_probs=37.5
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhC---CCCCcccCCCCCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSD---EFTCPICRSSIYL 146 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~---~~~CP~CR~~~~~ 146 (148)
.+|.||-+.-.+..-+..--+||-..+-.|-...++. ++.||+|++++..
T Consensus 81 YeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs 133 (140)
T PF05290_consen 81 YECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS 133 (140)
T ss_pred eeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence 6899999886665444444448988999887665554 7789999998764
No 102
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=95.20 E-value=0.0066 Score=52.34 Aligned_cols=44 Identities=30% Similarity=0.623 Sum_probs=36.5
Q ss_pred ccccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCC
Q 045986 96 TSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRS 142 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 142 (148)
...|.||++...+.-.+ .. |||.++..|...|+..+..||.|+.
T Consensus 1153 ~~~c~ic~dil~~~~~I--~~-cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQGGI--AG-CGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred ccchHHHHHHHHhcCCe--ee-echhHhhhHHHHHHHHhccCcchhh
Confidence 35899999998743222 22 9999999999999999999999975
No 103
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=95.07 E-value=0.022 Score=42.44 Aligned_cols=48 Identities=38% Similarity=0.766 Sum_probs=35.7
Q ss_pred ccccccccccccCCCe-eeecCCCC-----ccchHHhHHHHHhC--CCCCcccCCCC
Q 045986 96 TSECVICLEEFVSGDL-FRILPFCK-----HVYHSHCIIRWFSD--EFTCPICRSSI 144 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~-vr~lp~C~-----H~FH~~Ci~~Wl~~--~~~CP~CR~~~ 144 (148)
+..|=||..+...... .-..| |. +..|..|++.|+.. +..|..|....
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~ 133 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFF 133 (323)
T ss_pred CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeecccccc
Confidence 4689999998654432 45666 63 77899999999984 55699998754
No 104
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.46 E-value=0.025 Score=41.51 Aligned_cols=28 Identities=25% Similarity=0.851 Sum_probs=22.3
Q ss_pred CCccchHHhHHHHH-------------hCCCCCcccCCCCC
Q 045986 118 CKHVYHSHCIIRWF-------------SDEFTCPICRSSIY 145 (148)
Q Consensus 118 C~H~FH~~Ci~~Wl-------------~~~~~CP~CR~~~~ 145 (148)
|+-..+.+|+..|+ +.+.+||+||+++.
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 67788999999887 33567999998753
No 105
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.25 E-value=0.019 Score=46.29 Aligned_cols=44 Identities=34% Similarity=0.910 Sum_probs=37.7
Q ss_pred ccccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCCCCC
Q 045986 96 TSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSIYLD 147 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~ 147 (148)
.+.|++|+.+. ..|..+ |. |..|..+|+..+..||+|+..+..+
T Consensus 479 ~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~ 522 (543)
T KOG0802|consen 479 NDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKED 522 (543)
T ss_pred cCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhcc
Confidence 47899999998 457778 88 9999999999999999998876554
No 106
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=94.17 E-value=0.022 Score=42.11 Aligned_cols=43 Identities=28% Similarity=0.644 Sum_probs=28.8
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSI 144 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~ 144 (148)
-.|--|--. ...-=|..| |.|+||-+|-.. ..-+.||.|-..|
T Consensus 91 HfCd~Cd~P--I~IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 91 HFCDRCDFP--IAIYGRMIP-CKHVFCLECARS--DSDKICPLCDDRV 133 (389)
T ss_pred EeecccCCc--ceeeecccc-cchhhhhhhhhc--CccccCcCcccHH
Confidence 457666333 233447889 999999999755 2345799996543
No 107
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.66 E-value=0.026 Score=43.51 Aligned_cols=36 Identities=31% Similarity=0.709 Sum_probs=27.9
Q ss_pred cccccccccccCC-CeeeecCCCCccchHHhHHHHHhC
Q 045986 97 SECVICLEEFVSG-DLFRILPFCKHVYHSHCIIRWFSD 133 (148)
Q Consensus 97 ~~C~ICl~~~~~~-~~vr~lp~C~H~FH~~Ci~~Wl~~ 133 (148)
.+|.||..++..+ +...+.. |+|.|+.+|+...+..
T Consensus 147 ~~C~iC~~e~~~~~~~f~~~~-C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 147 EECGICFVEDPEAEDMFSVLK-CGHRFCKDCVKQHIEV 183 (384)
T ss_pred ccCccCccccccHhhhHHHhc-ccchhhhHHhHHHhhh
Confidence 6899999555444 4555555 9999999999988764
No 108
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=93.00 E-value=0.096 Score=43.20 Aligned_cols=41 Identities=20% Similarity=0.386 Sum_probs=29.8
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcc
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPI 139 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~ 139 (148)
..|.+|-..... .. ..-+.|||.-|.+|+.+|+..+.-||.
T Consensus 780 ~~CtVC~~vi~G-~~-~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIRG-VD-VWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred cCceeecceeee-eE-eecccccccccHHHHHHHHhcCCCCcc
Confidence 368888544322 22 223449999999999999999888877
No 109
>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=92.56 E-value=0.14 Score=37.68 Aligned_cols=46 Identities=28% Similarity=0.613 Sum_probs=33.7
Q ss_pred cccccccc-ccCCC-eeeecCCCCccchHHhHHHHHhC-CCCCcccCCCC
Q 045986 98 ECVICLEE-FVSGD-LFRILPFCKHVYHSHCIIRWFSD-EFTCPICRSSI 144 (148)
Q Consensus 98 ~C~ICl~~-~~~~~-~vr~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~~ 144 (148)
.|++|-.+ |.+.+ .+.+-| |+|..+.+|++.-+.. ...||.|-..+
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~-C~H~lCEsCvd~iF~~g~~~CpeC~~iL 50 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINE-CGHRLCESCVDRIFSLGPAQCPECMVIL 50 (300)
T ss_pred CCcccccceecCccceeeecc-ccchHHHHHHHHHHhcCCCCCCcccchh
Confidence 48888744 44444 333446 9999999999999866 56799996654
No 110
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.33 E-value=0.13 Score=39.37 Aligned_cols=45 Identities=22% Similarity=0.384 Sum_probs=37.6
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhCCC---CCcccCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEF---TCPICRS 142 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~---~CP~CR~ 142 (148)
..|||=-+.=.+......|. |||+..++=+...-+... .||.|=.
T Consensus 335 F~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP~ 382 (394)
T KOG2817|consen 335 FICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCPV 382 (394)
T ss_pred eecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence 78999888777777888899 999999999999877643 5999944
No 111
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=92.20 E-value=0.076 Score=37.98 Aligned_cols=44 Identities=32% Similarity=0.723 Sum_probs=34.2
Q ss_pred ccccccccc-ccCCC-eeeecCCCCccchHHhHHHHHhC-CCCCc--cc
Q 045986 97 SECVICLEE-FVSGD-LFRILPFCKHVYHSHCIIRWFSD-EFTCP--IC 140 (148)
Q Consensus 97 ~~C~ICl~~-~~~~~-~vr~lp~C~H~FH~~Ci~~Wl~~-~~~CP--~C 140 (148)
.-||||-.+ |-+++ .+-+-|.|-|..|.+|++.-+.. ...|| -|
T Consensus 11 ~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC 59 (314)
T COG5220 11 RRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGC 59 (314)
T ss_pred ccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccH
Confidence 579999865 33444 55566779999999999999876 66799 66
No 112
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=91.75 E-value=0.21 Score=41.78 Aligned_cols=47 Identities=30% Similarity=0.717 Sum_probs=35.4
Q ss_pred ccccccccccccCCCeeeecCCCC-----ccchHHhHHHHHhCCC--CCcccCCCC
Q 045986 96 TSECVICLEEFVSGDLFRILPFCK-----HVYHSHCIIRWFSDEF--TCPICRSSI 144 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C~-----H~FH~~Ci~~Wl~~~~--~CP~CR~~~ 144 (148)
...|-||..+=..++.+- -| |. -+.|.+|+-+|+.-.. .|-+|+.++
T Consensus 12 ~~~CRICr~e~~~d~pLf-hP-CKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~ 65 (1175)
T COG5183 12 KRSCRICRTEDIRDDPLF-HP-CKCSGSIKYIHRECLMEWMECSGTKKCDICHYEY 65 (1175)
T ss_pred chhceeecCCCCCCCcCc-cc-ccccchhHHHHHHHHHHHHhcCCCcceeeeccee
Confidence 378999998866655543 45 52 5699999999998644 499998765
No 113
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=91.70 E-value=0.32 Score=30.81 Aligned_cols=72 Identities=17% Similarity=0.227 Sum_probs=42.7
Q ss_pred CCCHHHHhcCCCccccCCccCCCCCccccccccccccCCC----------eeeecCCCCccchHHhHHHHHhCCCCCccc
Q 045986 71 LRHQRVIEKLPPAEKYDGHLHNKKFTSECVICLEEFVSGD----------LFRILPFCKHVYHSHCIIRWFSDEFTCPIC 140 (148)
Q Consensus 71 ~~~~~~i~~lp~~~~~~~~~~~~~~~~~C~ICl~~~~~~~----------~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~C 140 (148)
.+++.--...|...+.+...........|--|+..|.+.. ..-.=+.|++.|+.+|=.-+-+.=.+||-|
T Consensus 30 HLARSyHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC 109 (112)
T TIGR00622 30 HLARSYHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGC 109 (112)
T ss_pred hHHHhhhccCCCcccccccccccCCCCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCC
Confidence 3444443444554444432222222356999999886531 112244499999999966666666779999
Q ss_pred CC
Q 045986 141 RS 142 (148)
Q Consensus 141 R~ 142 (148)
-.
T Consensus 110 ~~ 111 (112)
T TIGR00622 110 IH 111 (112)
T ss_pred CC
Confidence 63
No 114
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=91.31 E-value=0.055 Score=44.25 Aligned_cols=45 Identities=33% Similarity=0.843 Sum_probs=35.3
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhCC---CCCcccCCCCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDE---FTCPICRSSIY 145 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~---~~CP~CR~~~~ 145 (148)
.+|+||+..+.+. ..+. |.|.|...|+..-+... ..||+|+..+.
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 4899999999886 3344 99999999987766553 45999997654
No 115
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=91.12 E-value=0.079 Score=42.74 Aligned_cols=40 Identities=30% Similarity=0.722 Sum_probs=26.2
Q ss_pred cccccccc-----cccCCCeeeecCCCCccchHHhHHHHHhCCCCCccc
Q 045986 97 SECVICLE-----EFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPIC 140 (148)
Q Consensus 97 ~~C~ICl~-----~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~C 140 (148)
..|.+|-. .|+.....+-.. |+++||++|... .+..||-|
T Consensus 512 fiCe~Cq~~~iiyPF~~~~~~rC~~-C~avfH~~C~~r---~s~~CPrC 556 (580)
T KOG1829|consen 512 FICELCQHNDIIYPFETRNTRRCST-CLAVFHKKCLRR---KSPCCPRC 556 (580)
T ss_pred eeeeeccCCCcccccccccceeHHH-HHHHHHHHHHhc---cCCCCCch
Confidence 57888821 222222344455 999999999665 45559999
No 116
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=90.93 E-value=0.18 Score=35.49 Aligned_cols=40 Identities=33% Similarity=0.695 Sum_probs=27.5
Q ss_pred cccccccccc-----ccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccC
Q 045986 96 TSECVICLEE-----FVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICR 141 (148)
Q Consensus 96 ~~~C~ICl~~-----~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR 141 (148)
+..|.+|-++ |+.+ .+..=+.|+-+||++|.. +..||-|-
T Consensus 152 GfiCe~C~~~~~IfPF~~~-~~~~C~~C~~v~H~~C~~-----~~~CpkC~ 196 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQID-TTVRCPKCKSVFHKSCFR-----KKSCPKCA 196 (202)
T ss_pred CCCCccCCCCCCCCCCCCC-CeeeCCcCccccchhhcC-----CCCCCCcH
Confidence 3678888753 3332 344444599999999976 26799994
No 117
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=90.81 E-value=0.36 Score=36.07 Aligned_cols=50 Identities=26% Similarity=0.559 Sum_probs=35.0
Q ss_pred ccccccccccc--c-------CC-------CeeeecCCCCccchHHhHHHHHhC---------CCCCcccCCCCCC
Q 045986 96 TSECVICLEEF--V-------SG-------DLFRILPFCKHVYHSHCIIRWFSD---------EFTCPICRSSIYL 146 (148)
Q Consensus 96 ~~~C~ICl~~~--~-------~~-------~~vr~lp~C~H~FH~~Ci~~Wl~~---------~~~CP~CR~~~~~ 146 (148)
+.+|++|+..= . .+ -.-...| |||+--.+-+.-|-+. +..||.|-+.+..
T Consensus 341 ~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~P-CGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~g 415 (429)
T KOG3842|consen 341 ERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNP-CGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG 415 (429)
T ss_pred cCcCCeeeeecceeeeeccccceeEecCCCcccccCC-cccccchhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence 47899998641 1 00 0123467 9999999999999865 3459999887754
No 118
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=89.61 E-value=0.45 Score=35.66 Aligned_cols=74 Identities=19% Similarity=0.328 Sum_probs=49.8
Q ss_pred CCCCCHHHHhcCCCccccCCccCCCCCccccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCC
Q 045986 69 RPLRHQRVIEKLPPAEKYDGHLHNKKFTSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSS 143 (148)
Q Consensus 69 ~~~~~~~~i~~lp~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~ 143 (148)
++.+++..-.-.|...+.+.......+...|-.|.++.......+--. |.|.|+.+|=.---+.-..||-|...
T Consensus 303 s~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y~C~~-Ck~~FCldCDv~iHesLh~CpgCeh~ 376 (378)
T KOG2807|consen 303 SPHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQGELLSSGRYRCES-CKNVFCLDCDVFIHESLHNCPGCEHK 376 (378)
T ss_pred chHHHHHHHhhcCCcchhhccccccCCCcceeeeccccCCCCcEEchh-ccceeeccchHHHHhhhhcCCCcCCC
Confidence 344555555666777776665555444567999988777766666555 99999999943332344569999754
No 119
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=88.56 E-value=0.18 Score=41.94 Aligned_cols=42 Identities=29% Similarity=0.670 Sum_probs=31.3
Q ss_pred cccccccccccC-C---CeeeecCCCCccchHHhHHHHHhCCCCCccc
Q 045986 97 SECVICLEEFVS-G---DLFRILPFCKHVYHSHCIIRWFSDEFTCPIC 140 (148)
Q Consensus 97 ~~C~ICl~~~~~-~---~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~C 140 (148)
..|.-|.+.... + +.+.++. |||.||+.|+..-..++. |-.|
T Consensus 785 ~rc~~c~~~~l~~~~~~~~~~v~~-c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 785 ERCSSCFEPNLPSGAAFDSVVVFH-CGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred hhhhhhcccccccCcccceeeEEE-ccchhhhcccccHHHhcc-cChh
Confidence 579999887642 2 5778888 999999999987766654 4444
No 120
>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=88.53 E-value=0.51 Score=25.52 Aligned_cols=42 Identities=26% Similarity=0.584 Sum_probs=21.1
Q ss_pred cccccccccCCC------eeeecCCCCccchHHhHHHHH-hCCCCCcccC
Q 045986 99 CVICLEEFVSGD------LFRILPFCKHVYHSHCIIRWF-SDEFTCPICR 141 (148)
Q Consensus 99 C~ICl~~~~~~~------~vr~lp~C~H~FH~~Ci~~Wl-~~~~~CP~CR 141 (148)
|.-|+..|..+. ..-.=|.|++.|+.+| |..+ +.-.+||-|-
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 555677776642 3445566999999999 3333 2345699884
No 121
>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 KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=87.95 E-value=0.38 Score=40.21 Aligned_cols=49 Identities=8% Similarity=0.159 Sum_probs=34.5
Q ss_pred ccccccccccccCC---CeeeecCCCCccchHHhHHHHHhC------CCCCcccCCCC
Q 045986 96 TSECVICLEEFVSG---DLFRILPFCKHVYHSHCIIRWFSD------EFTCPICRSSI 144 (148)
Q Consensus 96 ~~~C~ICl~~~~~~---~~vr~lp~C~H~FH~~Ci~~Wl~~------~~~CP~CR~~~ 144 (148)
...|.+|.-++... -.+-.+..|+|.|+..||..|... +-.|++|.+-|
T Consensus 96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 36788887777662 223333349999999999999844 44589997654
No 123
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=87.30 E-value=0.42 Score=34.85 Aligned_cols=48 Identities=29% Similarity=0.628 Sum_probs=35.7
Q ss_pred cccccccccccCCCeeee---cCCCCccchHHhHHHHHhC---------CCCCcccCCCC
Q 045986 97 SECVICLEEFVSGDLFRI---LPFCKHVYHSHCIIRWFSD---------EFTCPICRSSI 144 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~---lp~C~H~FH~~Ci~~Wl~~---------~~~CP~CR~~~ 144 (148)
.+|.+|.+++.+.+..+. -|.|+-.+|..|+..-+.. ...||.|+..+
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 589999999976665554 3448889999999984422 34599998754
No 124
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=86.82 E-value=0.79 Score=33.19 Aligned_cols=50 Identities=18% Similarity=0.297 Sum_probs=37.6
Q ss_pred ccccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCCCCC
Q 045986 96 TSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSIYLD 147 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~ 147 (148)
...|+|=--+|........+-+|||+|-..=+.+- ...+|++|.+.+..+
T Consensus 111 ~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~ 160 (293)
T KOG3113|consen 111 RFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQED 160 (293)
T ss_pred eeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCccccc
Confidence 36799988787766655556669999998877774 477899998876543
No 125
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=86.66 E-value=0.29 Score=26.05 Aligned_cols=42 Identities=29% Similarity=0.706 Sum_probs=28.9
Q ss_pred cccccccccCCCeeeecCCCCccchHHhHHHHHh------CCCCCcccC
Q 045986 99 CVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFS------DEFTCPICR 141 (148)
Q Consensus 99 C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~------~~~~CP~CR 141 (148)
|.||...-..++.|.=-. |+-.||..|+..=.. ..-.||.|+
T Consensus 2 C~vC~~~~~~~~~i~C~~-C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 2 CPVCGQSDDDGDMIQCDS-CNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp BTTTTSSCTTSSEEEBST-TSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred CcCCCCcCCCCCeEEcCC-CChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 889988555555565555 899999999865432 123488875
No 126
>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=86.07 E-value=0.86 Score=24.47 Aligned_cols=42 Identities=21% Similarity=0.577 Sum_probs=18.5
Q ss_pred ccccccccccCCCeeeecCCCCccchHHhHHHHHhCC-----CCCcccCCC
Q 045986 98 ECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDE-----FTCPICRSS 143 (148)
Q Consensus 98 ~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~-----~~CP~CR~~ 143 (148)
.|+|-...+.. .+|-.. |.|.-+-+ ++.||..+ -.||+|.++
T Consensus 4 ~CPls~~~i~~--P~Rg~~-C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 4 RCPLSFQRIRI--PVRGKN-CKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp B-TTTSSB-SS--EEEETT---SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eCCCCCCEEEe--CccCCc-CcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 57777766543 466666 88772211 45566442 249999864
No 127
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=85.55 E-value=0.64 Score=36.32 Aligned_cols=34 Identities=24% Similarity=0.513 Sum_probs=28.2
Q ss_pred ccccccccccccCCCeeeecCCCCccchHHhHHHHHhC
Q 045986 96 TSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSD 133 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~ 133 (148)
+..|+||-.=|++. .+|| |+|..+..|-..-+..
T Consensus 4 elkc~vc~~f~~ep---iil~-c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 4 ELKCPVCGSFYREP---IILP-CSHNLCQACARNILVQ 37 (699)
T ss_pred cccCceehhhccCc---eEee-cccHHHHHHHHhhccc
Confidence 46799999988776 7899 9999999998866543
No 128
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.60 E-value=0.7 Score=36.43 Aligned_cols=36 Identities=22% Similarity=0.495 Sum_probs=29.4
Q ss_pred CccccccccccccCCCeeeecCCCCccchHHhHHHHHhC
Q 045986 95 FTSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSD 133 (148)
Q Consensus 95 ~~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~ 133 (148)
...+|-||.+.+.. .+..+. |||.|+..|....+.+
T Consensus 69 ~~~~c~ic~~~~~~--~~~~~~-c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 69 GDVQCGICVESYDG--EIIGLG-CGHPFCPPCWTGYLGT 104 (444)
T ss_pred ccccCCcccCCCcc--hhhhcC-CCcHHHHHHHHHHhhh
Confidence 34689999999866 445566 9999999999999865
No 129
>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=84.19 E-value=1.2 Score=24.18 Aligned_cols=38 Identities=16% Similarity=0.509 Sum_probs=22.9
Q ss_pred cccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCCCC
Q 045986 99 CVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSIYL 146 (148)
Q Consensus 99 C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~ 146 (148)
|+-|-..+..++.+.. . -|..||.+|+ +|-.|+.+|..
T Consensus 1 C~~C~~~I~~~~~~~~-~-~~~~~H~~Cf--------~C~~C~~~l~~ 38 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIK-A-MGKFWHPECF--------KCSKCGKPLND 38 (58)
T ss_dssp BTTTSSBESSSSEEEE-E-TTEEEETTTS--------BETTTTCBTTT
T ss_pred CCCCCCCccCcEEEEE-e-CCcEEEcccc--------ccCCCCCccCC
Confidence 5666666665544322 2 5677887663 47777766654
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=83.23 E-value=1.5 Score=21.32 Aligned_cols=37 Identities=24% Similarity=0.659 Sum_probs=24.4
Q ss_pred cccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCCC
Q 045986 99 CVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSIY 145 (148)
Q Consensus 99 C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~ 145 (148)
|+.|-+.+..++.. +.. =+..||.+|. +|..|+.+|.
T Consensus 2 C~~C~~~i~~~~~~-~~~-~~~~~H~~Cf--------~C~~C~~~L~ 38 (39)
T smart00132 2 CAGCGKPIRGGELV-LRA-LGKVWHPECF--------KCSKCGKPLG 38 (39)
T ss_pred ccccCCcccCCcEE-EEe-CCccccccCC--------CCcccCCcCc
Confidence 77888877665333 222 4788998874 5778877663
No 131
>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=82.77 E-value=0.21 Score=27.21 Aligned_cols=11 Identities=27% Similarity=0.887 Sum_probs=5.6
Q ss_pred CCcccCCCCCC
Q 045986 136 TCPICRSSIYL 146 (148)
Q Consensus 136 ~CP~CR~~~~~ 146 (148)
.||+|.+++..
T Consensus 22 ~CPlC~r~l~~ 32 (54)
T PF04423_consen 22 CCPLCGRPLDE 32 (54)
T ss_dssp E-TTT--EE-H
T ss_pred cCCCCCCCCCH
Confidence 79999888754
No 132
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=82.74 E-value=0.78 Score=32.32 Aligned_cols=41 Identities=29% Similarity=0.743 Sum_probs=33.1
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCccc
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPIC 140 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~C 140 (148)
..|.+|..-.-.+ +|--. ||-.+|..|+...+.+.+.||.|
T Consensus 182 k~Cn~Ch~LvIqg--~rCg~-c~i~~h~~c~qty~q~~~~cphc 222 (235)
T KOG4718|consen 182 KNCNLCHCLVIQG--IRCGS-CNIQYHRGCIQTYLQRRDICPHC 222 (235)
T ss_pred HHHhHhHHHhhee--eccCc-ccchhhhHHHHHHhcccCcCCch
Confidence 6799998765443 44444 77889999999999999999999
No 133
>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=82.45 E-value=0.73 Score=21.20 Aligned_cols=9 Identities=33% Similarity=0.829 Sum_probs=4.4
Q ss_pred CCCCCcccC
Q 045986 133 DEFTCPICR 141 (148)
Q Consensus 133 ~~~~CP~CR 141 (148)
....||.|-
T Consensus 13 ~~~~Cp~CG 21 (26)
T PF10571_consen 13 SAKFCPHCG 21 (26)
T ss_pred hcCcCCCCC
Confidence 344455553
No 134
>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=82.16 E-value=2.1 Score=23.51 Aligned_cols=44 Identities=18% Similarity=0.502 Sum_probs=30.7
Q ss_pred ccccccccccCCC-eeeecCCCC--ccchHHhHHHHHhCCCCCcccCCCCCC
Q 045986 98 ECVICLEEFVSGD-LFRILPFCK--HVYHSHCIIRWFSDEFTCPICRSSIYL 146 (148)
Q Consensus 98 ~C~ICl~~~~~~~-~vr~lp~C~--H~FH~~Ci~~Wl~~~~~CP~CR~~~~~ 146 (148)
.|--|-.++..+. +-++ |. -.|+.+|.+.-| +..||.|-..+..
T Consensus 7 nCE~C~~dLp~~s~~A~I---CSfECTFC~~C~e~~l--~~~CPNCgGelv~ 53 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYI---CSFECTFCADCAETML--NGVCPNCGGELVR 53 (57)
T ss_pred CccccCCCCCCCCCcceE---EeEeCcccHHHHHHHh--cCcCcCCCCcccc
Confidence 4667777766554 2222 65 459999999976 7789999877653
No 135
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=80.09 E-value=1.7 Score=32.68 Aligned_cols=48 Identities=27% Similarity=0.494 Sum_probs=35.8
Q ss_pred cccccccccccCCC-eeeecCCCCccchHHhHHHHHhCCCCCcccCCCCC
Q 045986 97 SECVICLEEFVSGD-LFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSIY 145 (148)
Q Consensus 97 ~~C~ICl~~~~~~~-~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~ 145 (148)
.+|+||-++...++ ...--| |+|..|..|...-...+.+||.||.+..
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~-~~~~~~l~~~~t~~~~~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCP-CGFRLCLFCHKTISDGDGRCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCccccccccccccc-ccccchhhhhhcccccCCCCCccCCccc
Confidence 78999999874433 333334 7888888888887788999999997654
No 136
>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=78.96 E-value=1.1 Score=21.73 Aligned_cols=19 Identities=26% Similarity=0.945 Sum_probs=11.7
Q ss_pred CCccchHHhHHHHHhCCCCCcccCC
Q 045986 118 CKHVYHSHCIIRWFSDEFTCPICRS 142 (148)
Q Consensus 118 C~H~FH~~Ci~~Wl~~~~~CP~CR~ 142 (148)
|||++-.+- ....||+|.+
T Consensus 7 CGy~y~~~~------~~~~CP~Cg~ 25 (33)
T cd00350 7 CGYIYDGEE------APWVCPVCGA 25 (33)
T ss_pred CCCEECCCc------CCCcCcCCCC
Confidence 666654332 3447999976
No 137
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=78.73 E-value=1.3 Score=29.73 Aligned_cols=44 Identities=27% Similarity=0.514 Sum_probs=33.2
Q ss_pred ccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCCCC
Q 045986 100 VICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSIYL 146 (148)
Q Consensus 100 ~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~ 146 (148)
.||+..-..++..-.-|.=++-|+.+|-.+-+. +||.|.++|.-
T Consensus 8 qiC~NGH~~t~~~~~~p~~~~~fC~kCG~~tI~---~Cp~C~~~IrG 51 (158)
T PF10083_consen 8 QICLNGHVITDSYDKNPELREKFCSKCGAKTIT---SCPNCSTPIRG 51 (158)
T ss_pred HHccCccccccccccCchHHHHHHHHhhHHHHH---HCcCCCCCCCC
Confidence 478888777776666665578899999877543 59999988753
No 138
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.73 E-value=1 Score=34.88 Aligned_cols=44 Identities=18% Similarity=0.369 Sum_probs=32.5
Q ss_pred cccccccccccCCCeeeecC-CCCccchHHhHHHHHhCCCCCccc
Q 045986 97 SECVICLEEFVSGDLFRILP-FCKHVYHSHCIIRWFSDEFTCPIC 140 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp-~C~H~FH~~Ci~~Wl~~~~~CP~C 140 (148)
..|+.|.-.++..+..-.+. .|||.|+..|...|...+..|..|
T Consensus 307 r~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 307 RQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred CcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence 57999988876655333222 179999999999998878777555
No 139
>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=77.48 E-value=7.7 Score=26.98 Aligned_cols=18 Identities=6% Similarity=0.178 Sum_probs=11.4
Q ss_pred chHHhHHHHH--hCCCCCcc
Q 045986 122 YHSHCIIRWF--SDEFTCPI 139 (148)
Q Consensus 122 FH~~Ci~~Wl--~~~~~CP~ 139 (148)
-..+-+..|| .++..+|+
T Consensus 124 ~~G~~~R~~L~~Lr~~~~p~ 143 (186)
T PF07406_consen 124 LPGENFRSYLLDLRNSSTPL 143 (186)
T ss_pred cccccHHHHHHHHHhccCCc
Confidence 4467788888 44555554
No 140
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=77.46 E-value=1.3 Score=22.04 Aligned_cols=25 Identities=28% Similarity=0.628 Sum_probs=15.3
Q ss_pred ccccccccccCCCe--------eeecCCCCccch
Q 045986 98 ECVICLEEFVSGDL--------FRILPFCKHVYH 123 (148)
Q Consensus 98 ~C~ICl~~~~~~~~--------vr~lp~C~H~FH 123 (148)
+|+=|...|..+|+ ++-.. |+|.|+
T Consensus 4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~~-C~~~f~ 36 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIPPKGRKVRCSK-CGHVFF 36 (36)
T ss_pred ECCCCCCEEeCCHHHCCCCCcEEECCC-CCCEeC
Confidence 58888888875542 33333 677664
No 141
>PF15179 Myc_target_1: Myc target protein 1
Probab=76.63 E-value=4.7 Score=27.83 Aligned_cols=31 Identities=13% Similarity=0.534 Sum_probs=22.9
Q ss_pred CccchhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 045986 18 QAEIVLTYTLTIALSLLLLIWVYEICIWARD 48 (148)
Q Consensus 18 ~~~~~i~~~i~i~~~l~~~i~~~~~~~~~~~ 48 (148)
-.++++.|.+-++++|++..+++++..++.+
T Consensus 18 ~~~lIlaF~vSm~iGLviG~li~~LltwlSR 48 (197)
T PF15179_consen 18 WEDLILAFCVSMAIGLVIGALIWALLTWLSR 48 (197)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3467888899888888887777766665543
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=76.56 E-value=1.3 Score=25.12 Aligned_cols=36 Identities=25% Similarity=0.362 Sum_probs=17.4
Q ss_pred ccccccccccccCCCeeeecCCCCccchHHhHHHHH
Q 045986 96 TSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWF 131 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl 131 (148)
...|.+|...|.--..-..=..||++|+.+|.....
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 368999999995433222233389999999976544
No 143
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=76.30 E-value=2.2 Score=30.90 Aligned_cols=32 Identities=16% Similarity=0.330 Sum_probs=27.4
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHh
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFS 132 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~ 132 (148)
+.|+.||.++.+. .+.| =||+|..+||-+.+.
T Consensus 44 dcCsLtLqPc~dP---vit~-~GylfdrEaILe~il 75 (303)
T KOG3039|consen 44 DCCSLTLQPCRDP---VITP-DGYLFDREAILEYIL 75 (303)
T ss_pred ceeeeecccccCC---ccCC-CCeeeeHHHHHHHHH
Confidence 7899999998775 5666 799999999988864
No 144
>PRK11827 hypothetical protein; Provisional
Probab=75.73 E-value=0.92 Score=25.41 Aligned_cols=20 Identities=15% Similarity=0.672 Sum_probs=14.0
Q ss_pred HHHHhCCCCCcccCCCCCCC
Q 045986 128 IRWFSDEFTCPICRSSIYLD 147 (148)
Q Consensus 128 ~~Wl~~~~~CP~CR~~~~~~ 147 (148)
++||..--.||+|+.++..+
T Consensus 2 d~~LLeILaCP~ckg~L~~~ 21 (60)
T PRK11827 2 DHRLLEIIACPVCNGKLWYN 21 (60)
T ss_pred ChHHHhheECCCCCCcCeEc
Confidence 45666666799998877543
No 145
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=75.00 E-value=1.7 Score=24.22 Aligned_cols=13 Identities=38% Similarity=0.968 Sum_probs=9.7
Q ss_pred CCCCcccCCCCCC
Q 045986 134 EFTCPICRSSIYL 146 (148)
Q Consensus 134 ~~~CP~CR~~~~~ 146 (148)
.+.||+|.++...
T Consensus 39 ~p~CPlC~s~M~~ 51 (59)
T PF14169_consen 39 EPVCPLCKSPMVS 51 (59)
T ss_pred CccCCCcCCcccc
Confidence 4679999987643
No 146
>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=73.45 E-value=9.2 Score=24.70 Aligned_cols=12 Identities=0% Similarity=0.218 Sum_probs=4.4
Q ss_pred hhHHHHHHHHHH
Q 045986 22 VLTYTLTIALSL 33 (148)
Q Consensus 22 ~i~~~i~i~~~l 33 (148)
++++++++++++
T Consensus 66 i~~Ii~gv~aGv 77 (122)
T PF01102_consen 66 IIGIIFGVMAGV 77 (122)
T ss_dssp HHHHHHHHHHHH
T ss_pred eeehhHHHHHHH
Confidence 333333333333
No 147
>PRK05978 hypothetical protein; Provisional
Probab=72.93 E-value=2.4 Score=28.33 Aligned_cols=23 Identities=9% Similarity=0.351 Sum_probs=18.5
Q ss_pred CccchHHhHHHHHhCCCCCcccCCCCCC
Q 045986 119 KHVYHSHCIIRWFSDEFTCPICRSSIYL 146 (148)
Q Consensus 119 ~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~ 146 (148)
||.|+ .+|+.+.+||.|-.++..
T Consensus 42 G~LF~-----g~Lkv~~~C~~CG~~~~~ 64 (148)
T PRK05978 42 GKLFR-----AFLKPVDHCAACGEDFTH 64 (148)
T ss_pred Ccccc-----cccccCCCccccCCcccc
Confidence 57786 788889999999877654
No 148
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=72.42 E-value=2.5 Score=21.04 Aligned_cols=13 Identities=31% Similarity=0.618 Sum_probs=9.0
Q ss_pred ccccccccccCCC
Q 045986 98 ECVICLEEFVSGD 110 (148)
Q Consensus 98 ~C~ICl~~~~~~~ 110 (148)
.|+=|-..|..++
T Consensus 4 ~CP~C~~~f~v~~ 16 (37)
T PF13719_consen 4 TCPNCQTRFRVPD 16 (37)
T ss_pred ECCCCCceEEcCH
Confidence 5778877776544
No 149
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=72.34 E-value=2.9 Score=31.43 Aligned_cols=44 Identities=23% Similarity=0.437 Sum_probs=32.9
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhC---CCCCcccC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSD---EFTCPICR 141 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~---~~~CP~CR 141 (148)
..||+=-+.-.+......|. |||+.-++-++..-++ .-.||.|-
T Consensus 337 FiCPVlKe~~t~ENpP~ml~-CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 337 FICPVLKELCTDENPPVMLE-CGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred eeccccHhhhcccCCCeeee-ccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 67998666655555667777 9999999998887554 22499994
No 150
>PF15102 TMEM154: TMEM154 protein family
Probab=72.17 E-value=1 Score=29.88 Aligned_cols=12 Identities=8% Similarity=0.407 Sum_probs=7.2
Q ss_pred chHHhHHHHHhC
Q 045986 122 YHSHCIIRWFSD 133 (148)
Q Consensus 122 FH~~Ci~~Wl~~ 133 (148)
.-.+=+|+|+..
T Consensus 125 iEmeeldkwm~s 136 (146)
T PF15102_consen 125 IEMEELDKWMNS 136 (146)
T ss_pred hhHHHHHhHHHh
Confidence 334557778754
No 151
>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=71.12 E-value=4 Score=19.13 Aligned_cols=29 Identities=24% Similarity=0.579 Sum_probs=10.4
Q ss_pred ccccccccccCCCeeeecCCCCccchHHhH
Q 045986 98 ECVICLEEFVSGDLFRILPFCKHVYHSHCI 127 (148)
Q Consensus 98 ~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci 127 (148)
.|.+|-.+...+...+=.. |.-.+|.+|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~-Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSE-CDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TT-T-----HHHH
T ss_pred cCCcCCCcCCCCceEECcc-CCCccChhcC
Confidence 4777877765534445455 8999999885
No 152
>PF05961 Chordopox_A13L: Chordopoxvirus A13L protein; InterPro: IPR009236 This family consists of A13L proteins from the Chordopoxviruses. A13L or p8 is one of the three most abundant membrane proteins of the intracellular mature Vaccinia virus [].
Probab=70.58 E-value=18 Score=20.71 Aligned_cols=20 Identities=25% Similarity=0.374 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHHHHhhhc
Q 045986 35 LLIWVYEICIWARDLYQRMH 54 (148)
Q Consensus 35 ~~i~~~~~~~~~~~~~~~~~ 54 (148)
+++++..+..++...+.+..
T Consensus 8 i~ICVaii~lIlY~iYnr~~ 27 (68)
T PF05961_consen 8 IIICVAIIGLILYGIYNRKK 27 (68)
T ss_pred HHHHHHHHHHHHHHHHhccc
Confidence 33333333334444444443
No 153
>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=70.18 E-value=3.7 Score=22.16 Aligned_cols=36 Identities=19% Similarity=0.358 Sum_probs=24.8
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHh
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFS 132 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~ 132 (148)
..|++|-..|.....-..-..||++|+.+|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 479999888865432222233999999999876654
No 154
>PF06024 DUF912: Nucleopolyhedrovirus protein of unknown function (DUF912); InterPro: IPR009261 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf78; it is a family of uncharacterised viral proteins.
Probab=69.27 E-value=1.1 Score=27.83 Aligned_cols=19 Identities=11% Similarity=0.378 Sum_probs=7.8
Q ss_pred chhHHHHHHHHHHHHHHHH
Q 045986 21 IVLTYTLTIALSLLLLIWV 39 (148)
Q Consensus 21 ~~i~~~i~i~~~l~~~i~~ 39 (148)
.+++++++.++++++++++
T Consensus 62 ~iili~lls~v~IlVily~ 80 (101)
T PF06024_consen 62 NIILISLLSFVCILVILYA 80 (101)
T ss_pred cchHHHHHHHHHHHHHHhh
Confidence 3444444444444444433
No 155
>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=68.43 E-value=3.5 Score=23.47 Aligned_cols=11 Identities=18% Similarity=1.183 Sum_probs=8.2
Q ss_pred chHHhHHHHHh
Q 045986 122 YHSHCIIRWFS 132 (148)
Q Consensus 122 FH~~Ci~~Wl~ 132 (148)
||..|+.+|..
T Consensus 12 FCRNCLskWy~ 22 (68)
T PF06844_consen 12 FCRNCLSKWYR 22 (68)
T ss_dssp --HHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99999999984
No 156
>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=68.01 E-value=14 Score=22.35 Aligned_cols=17 Identities=18% Similarity=0.350 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHhhh
Q 045986 37 IWVYEICIWARDLYQRM 53 (148)
Q Consensus 37 i~~~~~~~~~~~~~~~~ 53 (148)
++.++.|+..|...|+.
T Consensus 48 VilwfvCC~kRkrsRrP 64 (94)
T PF05393_consen 48 VILWFVCCKKRKRSRRP 64 (94)
T ss_pred HHHHHHHHHHhhhccCC
Confidence 33445566555554443
No 157
>PHA03049 IMV membrane protein; Provisional
Probab=67.71 E-value=21 Score=20.37 Aligned_cols=22 Identities=18% Similarity=0.319 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHhhhcCC
Q 045986 35 LLIWVYEICIWARDLYQRMHDP 56 (148)
Q Consensus 35 ~~i~~~~~~~~~~~~~~~~~~~ 56 (148)
+++++..+..++...+++...+
T Consensus 8 ~iICVaIi~lIvYgiYnkk~~~ 29 (68)
T PHA03049 8 VIICVVIIGLIVYGIYNKKTTT 29 (68)
T ss_pred HHHHHHHHHHHHHHHHhccccc
Confidence 3333333333444444444433
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 KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=67.37 E-value=0.98 Score=33.55 Aligned_cols=37 Identities=27% Similarity=0.558 Sum_probs=30.3
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDE 134 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~ 134 (148)
.+|.+|+++|..+.....+- |.=.||..|+-.|+...
T Consensus 215 rvC~~CF~el~~~~~~~~~~-~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDRED-SLPVFHGKCYPNWLTTG 251 (288)
T ss_pred eecHHHHHHHhcccccchhh-ccccccccccccccccc
Confidence 48999999998766666666 66699999999999764
No 160
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=66.30 E-value=3.9 Score=22.18 Aligned_cols=22 Identities=23% Similarity=0.614 Sum_probs=12.5
Q ss_pred CCccchHHhHHHHHhCCCCCccc
Q 045986 118 CKHVYHSHCIIRWFSDEFTCPIC 140 (148)
Q Consensus 118 C~H~FH~~Ci~~Wl~~~~~CP~C 140 (148)
|||.|... |..-......||.|
T Consensus 34 Cgh~w~~~-v~~R~~~~~~CP~C 55 (55)
T PF14311_consen 34 CGHEWKAS-VNDRTRRGKGCPYC 55 (55)
T ss_pred CCCeeEcc-HhhhccCCCCCCCC
Confidence 56665543 33333456679988
No 161
>PF15050 SCIMP: SCIMP protein
Probab=66.26 E-value=18 Score=23.29 Aligned_cols=23 Identities=26% Similarity=0.602 Sum_probs=8.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Q 045986 23 LTYTLTIALSLLLLIWVYEICIW 45 (148)
Q Consensus 23 i~~~i~i~~~l~~~i~~~~~~~~ 45 (148)
|..+.+|++++.+.++++-+|++
T Consensus 11 iLAVaII~vS~~lglIlyCvcR~ 33 (133)
T PF15050_consen 11 ILAVAIILVSVVLGLILYCVCRW 33 (133)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333444444443333333333
No 162
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=65.99 E-value=1.9 Score=34.07 Aligned_cols=36 Identities=19% Similarity=0.406 Sum_probs=27.8
Q ss_pred cccccccccccCCC-----eeeecCCCCccchHHhHHHHHhC
Q 045986 97 SECVICLEEFVSGD-----LFRILPFCKHVYHSHCIIRWFSD 133 (148)
Q Consensus 97 ~~C~ICl~~~~~~~-----~vr~lp~C~H~FH~~Ci~~Wl~~ 133 (148)
..||.|....+.+. .....+ |+|.||+.|+..|-..
T Consensus 227 k~CP~c~~~iek~~gc~~~~~~~~~-c~~~FCw~Cl~~~~~h 267 (444)
T KOG1815|consen 227 KECPKCKVPIEKDGGCNHMTCKSAS-CKHEFCWVCLASLSDH 267 (444)
T ss_pred ccCCCcccchhccCCccccccccCC-cCCeeceeeecccccc
Confidence 56999999988776 222234 9999999999999655
No 163
>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=65.95 E-value=1.2 Score=22.93 Aligned_cols=23 Identities=30% Similarity=0.660 Sum_probs=13.0
Q ss_pred CCccchHHhH-HHHHhCCCCCcccCC
Q 045986 118 CKHVYHSHCI-IRWFSDEFTCPICRS 142 (148)
Q Consensus 118 C~H~FH~~Ci-~~Wl~~~~~CP~CR~ 142 (148)
|||.|-..-- .. .....||.|.+
T Consensus 11 Cg~~fe~~~~~~~--~~~~~CP~Cg~ 34 (42)
T PF09723_consen 11 CGHEFEVLQSISE--DDPVPCPECGS 34 (42)
T ss_pred CCCEEEEEEEcCC--CCCCcCCCCCC
Confidence 7777754321 11 22445999987
No 164
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=65.06 E-value=0.96 Score=33.50 Aligned_cols=47 Identities=26% Similarity=0.506 Sum_probs=37.2
Q ss_pred cccccccccccCCC---eeeecCC-------CCccchHHhHHHHHhC-CCCCcccCCC
Q 045986 97 SECVICLEEFVSGD---LFRILPF-------CKHVYHSHCIIRWFSD-EFTCPICRSS 143 (148)
Q Consensus 97 ~~C~ICl~~~~~~~---~vr~lp~-------C~H~FH~~Ci~~Wl~~-~~~CP~CR~~ 143 (148)
..|.||...|..++ ..+++.. |||..+..|++.-+.. ...||.||..
T Consensus 208 ~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 208 KLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 67999999998432 4455555 9999999999999766 4579999863
No 165
>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=63.69 E-value=13 Score=27.55 Aligned_cols=7 Identities=29% Similarity=0.819 Sum_probs=3.0
Q ss_pred HHHHHHH
Q 045986 42 ICIWARD 48 (148)
Q Consensus 42 ~~~~~~~ 48 (148)
+..|+++
T Consensus 278 LYiWlyr 284 (295)
T TIGR01478 278 LYIWLYR 284 (295)
T ss_pred HHHHHHH
Confidence 4444443
No 166
>PF15353 HECA: Headcase protein family homologue
Probab=63.52 E-value=5.2 Score=25.03 Aligned_cols=14 Identities=21% Similarity=0.643 Sum_probs=12.3
Q ss_pred CCccchHHhHHHHH
Q 045986 118 CKHVYHSHCIIRWF 131 (148)
Q Consensus 118 C~H~FH~~Ci~~Wl 131 (148)
.++..|.+|.+.|=
T Consensus 40 ~~~~MH~~CF~~wE 53 (107)
T PF15353_consen 40 FGQYMHRECFEKWE 53 (107)
T ss_pred CCCchHHHHHHHHH
Confidence 47999999999994
No 167
>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=63.26 E-value=28 Score=20.40 Aligned_cols=12 Identities=8% Similarity=-0.111 Sum_probs=4.8
Q ss_pred HHHHHHHHHHhh
Q 045986 41 EICIWARDLYQR 52 (148)
Q Consensus 41 ~~~~~~~~~~~~ 52 (148)
.+..++.|..++
T Consensus 19 p~WL~lHY~sk~ 30 (75)
T PF06667_consen 19 PIWLILHYRSKW 30 (75)
T ss_pred HHHHHHHHHHhc
Confidence 333344444333
No 168
>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=63.01 E-value=0.51 Score=27.26 Aligned_cols=38 Identities=24% Similarity=0.504 Sum_probs=17.1
Q ss_pred ccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCC
Q 045986 98 ECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSI 144 (148)
Q Consensus 98 ~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~ 144 (148)
.||.|-.+++.. =+|+++..|-.. +.....||-|.+++
T Consensus 3 ~CP~C~~~L~~~--------~~~~~C~~C~~~-~~~~a~CPdC~~~L 40 (70)
T PF07191_consen 3 TCPKCQQELEWQ--------GGHYHCEACQKD-YKKEAFCPDCGQPL 40 (70)
T ss_dssp B-SSS-SBEEEE--------TTEEEETTT--E-EEEEEE-TTT-SB-
T ss_pred cCCCCCCccEEe--------CCEEECcccccc-ceecccCCCcccHH
Confidence 577776664432 245555555443 23355577777665
No 169
>PTZ00370 STEVOR; Provisional
Probab=62.92 E-value=14 Score=27.53 Aligned_cols=7 Identities=29% Similarity=0.819 Sum_probs=2.9
Q ss_pred HHHHHHH
Q 045986 42 ICIWARD 48 (148)
Q Consensus 42 ~~~~~~~ 48 (148)
+..|+++
T Consensus 274 lYiwlyr 280 (296)
T PTZ00370 274 LYIWLYR 280 (296)
T ss_pred HHHHHHH
Confidence 3444443
No 170
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=60.62 E-value=3.7 Score=22.95 Aligned_cols=11 Identities=27% Similarity=1.195 Sum_probs=8.4
Q ss_pred CCcccCCCCCC
Q 045986 136 TCPICRSSIYL 146 (148)
Q Consensus 136 ~CP~CR~~~~~ 146 (148)
-||+||.++.-
T Consensus 10 aCP~~kg~L~~ 20 (60)
T COG2835 10 ACPVCKGPLVY 20 (60)
T ss_pred eccCcCCcceE
Confidence 49999988653
No 171
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=60.51 E-value=1.4 Score=32.74 Aligned_cols=45 Identities=22% Similarity=0.363 Sum_probs=21.1
Q ss_pred cccccccccccCCCeeeecC--CCCccchHHhHHHHHhCCCCCcccCC
Q 045986 97 SECVICLEEFVSGDLFRILP--FCKHVYHSHCIIRWFSDEFTCPICRS 142 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp--~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 142 (148)
..||||=..-.-+ .++.-. +=+|.+|.-|-..|--....||.|=.
T Consensus 173 g~CPvCGs~P~~s-~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~ 219 (290)
T PF04216_consen 173 GYCPVCGSPPVLS-VLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGN 219 (290)
T ss_dssp SS-TTT---EEEE-EEE------EEEEEETTT--EEE--TTS-TTT--
T ss_pred CcCCCCCCcCceE-EEecCCCCccEEEEcCCCCCeeeecCCCCcCCCC
Confidence 5899997653222 111111 23577888999999888889999943
No 172
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=60.30 E-value=5.7 Score=28.95 Aligned_cols=40 Identities=33% Similarity=0.595 Sum_probs=30.6
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCC--Ccc
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFT--CPI 139 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~--CP~ 139 (148)
..|+|=...+.++ + +-.+|||+|-.+=|...+....+ ||+
T Consensus 177 ~rdPis~~~I~nP--v-iSkkC~HvydrDsI~~~l~~~~~i~CPv 218 (262)
T KOG2979|consen 177 NRDPISKKPIVNP--V-ISKKCGHVYDRDSIMQILCDEITIRCPV 218 (262)
T ss_pred ccCchhhhhhhch--h-hhcCcCcchhhhhHHHHhccCceeeccc
Confidence 5699888877665 3 33349999999999999877544 886
No 173
>PF15050 SCIMP: SCIMP protein
Probab=59.58 E-value=35 Score=21.98 Aligned_cols=11 Identities=9% Similarity=0.003 Sum_probs=5.0
Q ss_pred HHHHHHHHHhh
Q 045986 42 ICIWARDLYQR 52 (148)
Q Consensus 42 ~~~~~~~~~~~ 52 (148)
+.+..|+.+++
T Consensus 27 lyCvcR~~lRq 37 (133)
T PF15050_consen 27 LYCVCRWQLRQ 37 (133)
T ss_pred HHHHHHHHHHc
Confidence 44444555443
No 174
>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=57.69 E-value=9.6 Score=23.22 Aligned_cols=37 Identities=24% Similarity=0.458 Sum_probs=29.9
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCCCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSIYL 146 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~ 146 (148)
..|+-|-....--| ..| |-.|+..+..|..|+++++.
T Consensus 34 S~C~~C~~~L~~~~---lIP----------i~S~l~lrGrCr~C~~~I~~ 70 (92)
T PF06750_consen 34 SHCPHCGHPLSWWD---LIP----------ILSYLLLRGRCRYCGAPIPP 70 (92)
T ss_pred CcCcCCCCcCcccc---cch----------HHHHHHhCCCCcccCCCCCh
Confidence 47999988776554 445 78899999999999999864
No 175
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=57.19 E-value=11 Score=23.47 Aligned_cols=32 Identities=25% Similarity=0.444 Sum_probs=26.8
Q ss_pred ccccccccccCCCeeeecCCCCccchHHhHHHHH
Q 045986 98 ECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWF 131 (148)
Q Consensus 98 ~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl 131 (148)
.|.||-.++-.|+.-..+.+ -.-|.+|+..=.
T Consensus 4 kC~iCg~~I~~gqlFTF~~k--G~VH~~C~~~~~ 35 (101)
T PF09943_consen 4 KCYICGKPIYEGQLFTFTKK--GPVHYECFREKA 35 (101)
T ss_pred EEEecCCeeeecceEEEecC--CcEeHHHHHHHH
Confidence 69999999999998888863 678999987654
No 176
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=56.89 E-value=6 Score=28.52 Aligned_cols=41 Identities=24% Similarity=0.335 Sum_probs=31.1
Q ss_pred ccccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCC--Ccc
Q 045986 96 TSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFT--CPI 139 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~--CP~ 139 (148)
+..|+|=+.++... ..-.+|+|.|-.+=|...|+...+ ||.
T Consensus 189 ~nrCpitl~p~~~p---ils~kcnh~~e~D~I~~~lq~~~trvcp~ 231 (275)
T COG5627 189 SNRCPITLNPDFYP---ILSSKCNHKPEMDLINKKLQVECTRVCPR 231 (275)
T ss_pred cccCCcccCcchhH---HHHhhhcccccHHHHHHHhcCCceeecch
Confidence 36799999886554 333449999999999999986555 774
No 177
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=56.68 E-value=12 Score=23.02 Aligned_cols=34 Identities=21% Similarity=0.437 Sum_probs=27.4
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHh
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFS 132 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~ 132 (148)
-.|.||-+...+|+....++ .-..|.+|+..=..
T Consensus 7 wkC~VCg~~iieGqkFTF~~--kGsVH~eCl~~s~~ 40 (103)
T COG4847 7 WKCYVCGGTIIEGQKFTFTK--KGSVHYECLAESKR 40 (103)
T ss_pred eeEeeeCCEeeeccEEEEee--CCcchHHHHHHHHh
Confidence 47999999999999888876 45579999876443
No 178
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=56.52 E-value=21 Score=22.29 Aligned_cols=24 Identities=21% Similarity=0.825 Sum_probs=17.9
Q ss_pred CccchHHhHHHHHhC---------CCCCcccCC
Q 045986 119 KHVYHSHCIIRWFSD---------EFTCPICRS 142 (148)
Q Consensus 119 ~H~FH~~Ci~~Wl~~---------~~~CP~CR~ 142 (148)
+=.|+..|+..+... +-.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 566999999888743 224999986
No 179
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=55.72 E-value=3.2 Score=22.85 Aligned_cols=19 Identities=21% Similarity=0.592 Sum_probs=14.4
Q ss_pred eeecCCCCccchHHhHHHH
Q 045986 112 FRILPFCKHVYHSHCIIRW 130 (148)
Q Consensus 112 vr~lp~C~H~FH~~Ci~~W 130 (148)
...-|.|+|.|+..|-.+|
T Consensus 40 ~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 40 RVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred eeECCCCCCeECCCCCCcC
Confidence 3344348999999998888
No 180
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=55.69 E-value=9.1 Score=22.22 Aligned_cols=24 Identities=17% Similarity=0.446 Sum_probs=18.8
Q ss_pred CccchHHhHHHHHhCCCCCcccCCCC
Q 045986 119 KHVYHSHCIIRWFSDEFTCPICRSSI 144 (148)
Q Consensus 119 ~H~FH~~Ci~~Wl~~~~~CP~CR~~~ 144 (148)
.|.|+.+|...- -+..||.|-..+
T Consensus 28 EcTFCadCae~~--l~g~CPnCGGel 51 (84)
T COG3813 28 ECTFCADCAENR--LHGLCPNCGGEL 51 (84)
T ss_pred eeehhHhHHHHh--hcCcCCCCCchh
Confidence 588999999864 467899996554
No 181
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=55.66 E-value=12 Score=31.76 Aligned_cols=47 Identities=34% Similarity=0.728 Sum_probs=28.6
Q ss_pred CccccccccccccC----C-----CeeeecCCCCccchHHhHHHHHhCCCCCcccCCCCC
Q 045986 95 FTSECVICLEEFVS----G-----DLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSIY 145 (148)
Q Consensus 95 ~~~~C~ICl~~~~~----~-----~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~ 145 (148)
.+..|+=|-..|-. | ...-.-|.|.|.-|..=|. +...||+|...+.
T Consensus 1130 ~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs----~y~~CPLCHs~~~ 1185 (1189)
T KOG2041|consen 1130 YDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEIS----KYNCCPLCHSMES 1185 (1189)
T ss_pred cCCCChhhcCcCceeeccCCccccceEEEcccccccccccccc----ccccCccccChhh
Confidence 34567777666631 1 1233444589998876443 3567999987653
No 182
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=55.59 E-value=9.3 Score=23.73 Aligned_cols=32 Identities=25% Similarity=0.661 Sum_probs=21.4
Q ss_pred ccccccccccccCCCeee-ecCCCCccchHHhHHH
Q 045986 96 TSECVICLEEFVSGDLFR-ILPFCKHVYHSHCIIR 129 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr-~lp~C~H~FH~~Ci~~ 129 (148)
...|.||... .|..++ .-++|...||..|...
T Consensus 55 ~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 55 KLKCSICGKS--GGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred CCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHH
Confidence 3689999887 343332 1223778999999865
No 183
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=55.53 E-value=6 Score=32.24 Aligned_cols=33 Identities=27% Similarity=0.603 Sum_probs=23.8
Q ss_pred ccccccccccccC-----------CCeeeecCCCCccchHHhHHHH
Q 045986 96 TSECVICLEEFVS-----------GDLFRILPFCKHVYHSHCIIRW 130 (148)
Q Consensus 96 ~~~C~ICl~~~~~-----------~~~vr~lp~C~H~FH~~Ci~~W 130 (148)
...|+||-+.|+. .+.|.+. =|-+||..|+..=
T Consensus 513 ~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le--~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 513 QASCPICQEKFEVVFDQEEDLWMYKDAVYLE--FGRIFHSKCLSEK 556 (579)
T ss_pred ccCCcccccccceeecchhhheeecceeeec--cCceeeccccchH
Confidence 4689999999964 1234443 4789999998653
No 184
>PRK11875 psbT photosystem II reaction center protein T; Reviewed
Probab=54.95 E-value=24 Score=16.85 Aligned_cols=18 Identities=28% Similarity=0.634 Sum_probs=9.1
Q ss_pred hHHHHHHHHHHHHHHHHH
Q 045986 23 LTYTLTIALSLLLLIWVY 40 (148)
Q Consensus 23 i~~~i~i~~~l~~~i~~~ 40 (148)
+.|+++.+..+.++++.+
T Consensus 4 l~Ytfll~~tlgiiFFAI 21 (31)
T PRK11875 4 FAYILILTLALVTLFFAI 21 (31)
T ss_pred HHHHHHHHHHHHHHHHhh
Confidence 456655555544444443
No 185
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=54.73 E-value=6.7 Score=29.34 Aligned_cols=46 Identities=26% Similarity=0.515 Sum_probs=36.2
Q ss_pred ccccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCC
Q 045986 96 TSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSI 144 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~ 144 (148)
...|-+|...+..... ..+|.|.|...|-..|.+....||.||.-.
T Consensus 105 ~~~~~~~~g~l~vpt~---~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~ 150 (324)
T KOG0824|consen 105 HDICYICYGKLTVPTR---IQGCWHQFCYVCPKSNFAMGNDCPDCRGKI 150 (324)
T ss_pred ccceeeeeeeEEeccc---ccCceeeeeecCCchhhhhhhccchhhcCc
Confidence 4679999887765432 223999999999999999999999998754
No 186
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=54.70 E-value=6.3 Score=17.94 Aligned_cols=9 Identities=33% Similarity=1.243 Sum_probs=6.5
Q ss_pred CCcccCCCC
Q 045986 136 TCPICRSSI 144 (148)
Q Consensus 136 ~CP~CR~~~ 144 (148)
.||+|-+.+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 588886665
No 187
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=53.66 E-value=27 Score=26.22 Aligned_cols=7 Identities=14% Similarity=-0.045 Sum_probs=2.9
Q ss_pred HHHHHHH
Q 045986 43 CIWARDL 49 (148)
Q Consensus 43 ~~~~~~~ 49 (148)
..++||+
T Consensus 276 YLILRYR 282 (299)
T PF02009_consen 276 YLILRYR 282 (299)
T ss_pred HHHHHHH
Confidence 3344443
No 188
>PF05624 LSR: Lipolysis stimulated receptor (LSR); InterPro: IPR008664 This domain consists of mammalian LISCH7 protein homologues. LISCH7 is a liver-specific BHLH-ZIP transcription factor.
Probab=53.60 E-value=9.3 Score=20.05 Aligned_cols=17 Identities=41% Similarity=0.722 Sum_probs=8.3
Q ss_pred HHHHHHHHHHHHHHHHH
Q 045986 27 LTIALSLLLLIWVYEIC 43 (148)
Q Consensus 27 i~i~~~l~~~i~~~~~~ 43 (148)
+.++++.++++..++++
T Consensus 6 ~~iilg~~ll~~LigiC 22 (49)
T PF05624_consen 6 VLIILGALLLLLLIGIC 22 (49)
T ss_pred eHHHHHHHHHHHHHHHH
Confidence 34444444445555554
No 189
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=53.44 E-value=7.3 Score=28.93 Aligned_cols=39 Identities=13% Similarity=0.282 Sum_probs=29.6
Q ss_pred ccccccccccccCCCeeeecCCCCccchHHhHHHHHhCC
Q 045986 96 TSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDE 134 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~ 134 (148)
...|.+|.+.+++.--|.--.-=.|-||--|-++-++.+
T Consensus 268 pLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 268 PLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred ceeehhhhhhhccCceeecCCCcccceecccCHHHHHhh
Confidence 378999999999886665111126999999999988764
No 190
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=53.13 E-value=9.5 Score=16.80 Aligned_cols=11 Identities=45% Similarity=0.912 Sum_probs=7.9
Q ss_pred CcccCCCCCCC
Q 045986 137 CPICRSSIYLD 147 (148)
Q Consensus 137 CP~CR~~~~~~ 147 (148)
||.|-+.+..+
T Consensus 2 Cp~CG~~~~~~ 12 (23)
T PF13240_consen 2 CPNCGAEIEDD 12 (23)
T ss_pred CcccCCCCCCc
Confidence 78887777654
No 191
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=52.42 E-value=6.4 Score=32.89 Aligned_cols=34 Identities=26% Similarity=0.529 Sum_probs=25.6
Q ss_pred eeeecCCCCccchHHhHHHHHhCCCCCcccCCCC
Q 045986 111 LFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSI 144 (148)
Q Consensus 111 ~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~ 144 (148)
.+..-|.|.-+||.+=.+--..++.-||.||++-
T Consensus 1043 ~it~Cp~C~~~F~~eDFEl~vLqKGHCPFCrTS~ 1076 (1081)
T KOG1538|consen 1043 SITMCPSCFQMFHSEDFELLVLQKGHCPFCRTSK 1076 (1081)
T ss_pred hhhhCchHHhhhccchhhHHHHhcCCCCcccccc
Confidence 3444555788888877777777788999999864
No 192
>PRK01343 zinc-binding protein; Provisional
Probab=52.26 E-value=11 Score=20.85 Aligned_cols=12 Identities=25% Similarity=0.570 Sum_probs=7.9
Q ss_pred CCCCcccCCCCC
Q 045986 134 EFTCPICRSSIY 145 (148)
Q Consensus 134 ~~~CP~CR~~~~ 145 (148)
...||+|+.++.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 345888877653
No 193
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=52.25 E-value=47 Score=19.48 Aligned_cols=18 Identities=17% Similarity=0.152 Sum_probs=8.3
Q ss_pred HHHHHHHHHHHHHHhhhc
Q 045986 37 IWVYEICIWARDLYQRMH 54 (148)
Q Consensus 37 i~~~~~~~~~~~~~~~~~ 54 (148)
+++..+..++.|..++..
T Consensus 15 ifVap~wl~lHY~~k~~~ 32 (75)
T TIGR02976 15 IFVAPLWLILHYRSKRKT 32 (75)
T ss_pred HHHHHHHHHHHHHhhhcc
Confidence 333444455555544433
No 194
>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=52.13 E-value=3.6 Score=22.22 Aligned_cols=9 Identities=67% Similarity=1.486 Sum_probs=3.0
Q ss_pred CCcccCCCC
Q 045986 136 TCPICRSSI 144 (148)
Q Consensus 136 ~CP~CR~~~ 144 (148)
+||+|.+.+
T Consensus 26 tCP~C~a~~ 34 (54)
T PF09237_consen 26 TCPICGAVI 34 (54)
T ss_dssp E-TTT--EE
T ss_pred CCCcchhhc
Confidence 366665443
No 195
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=51.66 E-value=12 Score=16.94 Aligned_cols=8 Identities=50% Similarity=1.335 Sum_probs=3.8
Q ss_pred CcccCCCC
Q 045986 137 CPICRSSI 144 (148)
Q Consensus 137 CP~CR~~~ 144 (148)
||.|-+.+
T Consensus 5 Cp~Cg~~~ 12 (26)
T PF13248_consen 5 CPNCGAEI 12 (26)
T ss_pred CcccCCcC
Confidence 55554443
No 196
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=51.64 E-value=17 Score=27.52 Aligned_cols=43 Identities=9% Similarity=-0.180 Sum_probs=30.7
Q ss_pred cccccccccccCCCeeeecCCCCcc-chHHhHHHHHhCCCCCcccCCCCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHV-YHSHCIIRWFSDEFTCPICRSSIY 145 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~~~ 145 (148)
.+|..|-...... ...| |||. |+.+|-. +.-..+||+|.+...
T Consensus 344 ~~~~~~~~~~~st---~~~~-~~~n~~~~~~a~--~s~~~~~~~c~~~~~ 387 (394)
T KOG2113|consen 344 LKGTSAGFGLLST---IWSG-GNMNLSPGSLAS--ASASPTSSTCDHNDH 387 (394)
T ss_pred cccccccCceeee---Eeec-CCcccChhhhhh--cccCCccccccccce
Confidence 6788886654443 3445 9987 8999877 556888999987653
No 197
>PF09356 Phage_BR0599: Phage conserved hypothetical protein BR0599; InterPro: IPR018964 This entry describes the C-terminal region of a family of proteins found almost exclusively in phage or in prophage regions of bacterial genomes, including the phage-like Rhodobacter capsulatus (Rhodopseudomonas capsulata) gene transfer agent, which packages DNA. An apparent exception is Wolbachia pipientis wMel, a bacterial endosymbiont of the fruit fly, which has several candidate phage-related genes physically separate from obvious prophage regions.
Probab=51.37 E-value=18 Score=21.37 Aligned_cols=25 Identities=20% Similarity=0.647 Sum_probs=20.6
Q ss_pred cccCCCeeeecCCCCccchHHhHHHH
Q 045986 105 EFVSGDLFRILPFCKHVYHSHCIIRW 130 (148)
Q Consensus 105 ~~~~~~~vr~lp~C~H~FH~~Ci~~W 130 (148)
....++.+++.|+|.|.| ..|-.++
T Consensus 40 ~~~~G~~v~l~~GCDkt~-~tC~~kF 64 (80)
T PF09356_consen 40 GLAVGDTVTLYPGCDKTF-ATCRAKF 64 (80)
T ss_pred cCCCCCEEEEEeCCCCCH-HHHHHHh
Confidence 345689999999999988 8887775
No 198
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=50.91 E-value=8 Score=31.03 Aligned_cols=34 Identities=32% Similarity=0.649 Sum_probs=21.1
Q ss_pred cccccccccccCCCe-eeecCCCC-ccchHHhHHHHHhCCCCCcccCCCC
Q 045986 97 SECVICLEEFVSGDL-FRILPFCK-HVYHSHCIIRWFSDEFTCPICRSSI 144 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~-vr~lp~C~-H~FH~~Ci~~Wl~~~~~CP~CR~~~ 144 (148)
.-|+-||+++...+. ..... |. +.| .||.|-..|
T Consensus 27 ~yCp~CL~~~p~~e~~~~~nr-C~r~Cf-------------~CP~C~~~L 62 (483)
T PF05502_consen 27 YYCPNCLFEVPSSEARSEKNR-CSRNCF-------------DCPICFSPL 62 (483)
T ss_pred eECccccccCChhhheeccce-eccccc-------------cCCCCCCcc
Confidence 569999998876542 11222 65 556 377777655
No 199
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=50.53 E-value=8.1 Score=26.23 Aligned_cols=15 Identities=27% Similarity=0.813 Sum_probs=12.3
Q ss_pred CCCCcccCCCCCCCC
Q 045986 134 EFTCPICRSSIYLDA 148 (148)
Q Consensus 134 ~~~CP~CR~~~~~~~ 148 (148)
-..||+|...+++|+
T Consensus 138 g~KCPvC~K~V~sDd 152 (205)
T KOG0801|consen 138 GMKCPVCHKVVPSDD 152 (205)
T ss_pred CccCCccccccCCCc
Confidence 356999999998875
No 200
>PLN02189 cellulose synthase
Probab=50.21 E-value=19 Score=31.60 Aligned_cols=50 Identities=26% Similarity=0.446 Sum_probs=32.7
Q ss_pred cccccccccccc---CCCeeeecCCCCccchHHhHHHHHh-CCCCCcccCCCCC
Q 045986 96 TSECVICLEEFV---SGDLFRILPFCKHVYHSHCIIRWFS-DEFTCPICRSSIY 145 (148)
Q Consensus 96 ~~~C~ICl~~~~---~~~~vr~lp~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~~~ 145 (148)
...|.||-++.. +|+.-..-..|+--.|..|.+-=-+ .++.||-|++...
T Consensus 34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 368999999875 3443333333666689999843222 2667999998643
No 201
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=50.17 E-value=11 Score=22.38 Aligned_cols=32 Identities=22% Similarity=0.402 Sum_probs=21.0
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHH
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIR 129 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~ 129 (148)
..|.+|-......-... .+.|.-.||..|-..
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 47999987632222222 334899999999654
No 202
>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=49.83 E-value=1.8 Score=23.43 Aligned_cols=37 Identities=30% Similarity=0.565 Sum_probs=19.6
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHh--CCCCCcccCCCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFS--DEFTCPICRSSI 144 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~--~~~~CP~CR~~~ 144 (148)
..||.|-.+|... .| +.|+ .+.--. ++..||+|...+
T Consensus 3 f~CP~C~~~~~~~----~L--~~H~-----~~~H~~~~~~v~CPiC~~~~ 41 (54)
T PF05605_consen 3 FTCPYCGKGFSES----SL--VEHC-----EDEHRSESKNVVCPICSSRV 41 (54)
T ss_pred cCCCCCCCccCHH----HH--HHHH-----HhHCcCCCCCccCCCchhhh
Confidence 4689998865443 22 3333 222111 234599997654
No 203
>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=49.80 E-value=5.4 Score=30.93 Aligned_cols=50 Identities=20% Similarity=0.450 Sum_probs=0.0
Q ss_pred cccccccccccc--------------C--CCeeeecCCCCccchHHhHHHHHhC---------CCCCcccCCCCCC
Q 045986 96 TSECVICLEEFV--------------S--GDLFRILPFCKHVYHSHCIIRWFSD---------EFTCPICRSSIYL 146 (148)
Q Consensus 96 ~~~C~ICl~~~~--------------~--~~~vr~lp~C~H~FH~~Ci~~Wl~~---------~~~CP~CR~~~~~ 146 (148)
..+|++|+..=. + .-.-..-| |||+-=.+...-|-+. +..||.|-.+|..
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~P-CGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g 402 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNP-CGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDG 402 (416)
T ss_dssp ----------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecc-cccccchhhhhhhhcCCCCCCcccccccCCcccCcccC
Confidence 578999995421 0 01344577 9999999999999754 2459999887753
No 204
>PRK09458 pspB phage shock protein B; Provisional
Probab=49.54 E-value=35 Score=20.01 Aligned_cols=17 Identities=24% Similarity=0.487 Sum_probs=7.5
Q ss_pred HHHHHHHHHHHHHHhhh
Q 045986 37 IWVYEICIWARDLYQRM 53 (148)
Q Consensus 37 i~~~~~~~~~~~~~~~~ 53 (148)
++|.-+..++.|..++.
T Consensus 15 ifVaPiWL~LHY~sk~~ 31 (75)
T PRK09458 15 LFVAPIWLWLHYRSKRQ 31 (75)
T ss_pred HHHHHHHHHHhhccccc
Confidence 33334444555544433
No 205
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=49.49 E-value=40 Score=25.36 Aligned_cols=19 Identities=26% Similarity=0.578 Sum_probs=8.2
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 045986 29 IALSLLLLIWVYEICIWAR 47 (148)
Q Consensus 29 i~~~l~~~i~~~~~~~~~~ 47 (148)
|++.+++++.++.+.++.|
T Consensus 265 IliIVLIMvIIYLILRYRR 283 (299)
T PF02009_consen 265 ILIIVLIMVIIYLILRYRR 283 (299)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3333334444444444444
No 206
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=49.20 E-value=17 Score=22.40 Aligned_cols=28 Identities=18% Similarity=0.263 Sum_probs=18.5
Q ss_pred CCccchHHhHHHHHhCCCCCcccCCCCCC
Q 045986 118 CKHVYHSHCIIRWFSDEFTCPICRSSIYL 146 (148)
Q Consensus 118 C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~ 146 (148)
||+.-|.-=+.++.. -.+||.|++++-|
T Consensus 65 CGvC~~~LT~~EY~~-~~~Cp~C~spFNp 92 (105)
T COG4357 65 CGVCRKLLTRAEYGM-CGSCPYCQSPFNP 92 (105)
T ss_pred hhhhhhhhhHHHHhh-cCCCCCcCCCCCc
Confidence 666666555666532 4459999998765
No 207
>PF14851 FAM176: FAM176 family
Probab=49.20 E-value=24 Score=23.76 Aligned_cols=26 Identities=23% Similarity=0.300 Sum_probs=17.3
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHH
Q 045986 21 IVLTYTLTIALSLLLLIWVYEICIWA 46 (148)
Q Consensus 21 ~~i~~~i~i~~~l~~~i~~~~~~~~~ 46 (148)
..++|+..+.++|++.++++++....
T Consensus 22 ~aLYFv~gVC~GLlLtLcllV~risc 47 (153)
T PF14851_consen 22 FALYFVSGVCAGLLLTLCLLVIRISC 47 (153)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhee
Confidence 67777777777777776666544333
No 208
>PF01405 PsbT: Photosystem II reaction centre T protein; InterPro: IPR001743 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbT found in PSII, which is thought to be associated with the D1 (PsbA) - D2 (PsbD) heterodimer. PsbT may be involved in the formation and/or stabilisation of dimeric PSII complexes, because in the absence of this protein dimeric PSII complexes were found to be less abundant. Furthermore, although PsbT does not confer photo-protection, it is required for the efficient recovery of photo-damaged PSII [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3BZ1_T 1S5L_t 2AXT_t 3KZI_T 3PRQ_T 3BZ2_T 3PRR_T 4FBY_g 3A0H_t 3A0B_T ....
Probab=48.88 E-value=30 Score=16.27 Aligned_cols=18 Identities=28% Similarity=0.455 Sum_probs=8.9
Q ss_pred hHHHHHHHHHHHHHHHHH
Q 045986 23 LTYTLTIALSLLLLIWVY 40 (148)
Q Consensus 23 i~~~i~i~~~l~~~i~~~ 40 (148)
+.|+++.+..+.++++.+
T Consensus 4 ~vY~~ll~~tlgilffAI 21 (29)
T PF01405_consen 4 LVYTFLLIGTLGILFFAI 21 (29)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHhhh
Confidence 455555555544444433
No 209
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=48.76 E-value=53 Score=22.01 Aligned_cols=14 Identities=7% Similarity=-0.204 Sum_probs=8.5
Q ss_pred CCCccccccccccc
Q 045986 93 KKFTSECVICLEEF 106 (148)
Q Consensus 93 ~~~~~~C~ICl~~~ 106 (148)
-.++.+-+++|-+-
T Consensus 94 mGg~LSFslAlLD~ 107 (151)
T PF14584_consen 94 MGGDLSFSLALLDD 107 (151)
T ss_pred ccccceeeeEEEeC
Confidence 33456777777653
No 210
>CHL00031 psbT photosystem II protein T
Probab=48.76 E-value=26 Score=16.98 Aligned_cols=18 Identities=22% Similarity=0.491 Sum_probs=8.8
Q ss_pred hHHHHHHHHHHHHHHHHH
Q 045986 23 LTYTLTIALSLLLLIWVY 40 (148)
Q Consensus 23 i~~~i~i~~~l~~~i~~~ 40 (148)
+.|+++.+..+.++++.+
T Consensus 4 lvYtfll~~tlgilFFAI 21 (33)
T CHL00031 4 LVYTFLLVSTLGIIFFAI 21 (33)
T ss_pred hHHHHHHHHHHHHHHHhh
Confidence 455555555444444433
No 211
>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=48.40 E-value=43 Score=22.27 Aligned_cols=8 Identities=25% Similarity=0.115 Sum_probs=3.3
Q ss_pred HHHHHHHH
Q 045986 40 YEICIWAR 47 (148)
Q Consensus 40 ~~~~~~~~ 47 (148)
.++...+|
T Consensus 134 ~giy~~~r 141 (145)
T PF10661_consen 134 GGIYVVLR 141 (145)
T ss_pred HHHHHHHH
Confidence 33444444
No 212
>PRK14710 hypothetical protein; Provisional
Probab=48.37 E-value=13 Score=21.41 Aligned_cols=21 Identities=24% Similarity=0.455 Sum_probs=10.3
Q ss_pred hccccCccchhHHHHHHHHHH
Q 045986 13 LRSNRQAEIVLTYTLTIALSL 33 (148)
Q Consensus 13 ~~~~~~~~~~i~~~i~i~~~l 33 (148)
.++|.++..+.++.+++++.+
T Consensus 4 issn~skm~ififaiii~v~l 24 (86)
T PRK14710 4 ISSNLSKMIIFIFAIIIIVVL 24 (86)
T ss_pred cccchhHHHHHHHHHHHHHHH
Confidence 445555555555554444433
No 213
>PF06716 DUF1201: Protein of unknown function (DUF1201); InterPro: IPR009591 This entry consists of several Beet yellows virus (BYV) putative membrane-binding proteins of around 54 residues in length. The function of this currently unknown.
Probab=47.24 E-value=43 Score=17.62 Aligned_cols=12 Identities=17% Similarity=-0.014 Sum_probs=4.8
Q ss_pred HHHHHHHHHHHH
Q 045986 37 IWVYEICIWARD 48 (148)
Q Consensus 37 i~~~~~~~~~~~ 48 (148)
..++++.+....
T Consensus 23 ~~~~F~~F~~Kq 34 (54)
T PF06716_consen 23 CLVVFIWFVYKQ 34 (54)
T ss_pred HHHHHHHHHHHH
Confidence 333444444443
No 214
>PF15106 TMEM156: TMEM156 protein family
Probab=47.21 E-value=57 Score=23.24 Aligned_cols=16 Identities=25% Similarity=0.549 Sum_probs=6.6
Q ss_pred hhHHHHHHHHHHHHHH
Q 045986 22 VLTYTLTIALSLLLLI 37 (148)
Q Consensus 22 ~i~~~i~i~~~l~~~i 37 (148)
+.+|+++.++.+++++
T Consensus 176 ITWYvLVllVfiflii 191 (226)
T PF15106_consen 176 ITWYVLVLLVFIFLII 191 (226)
T ss_pred hHHHHHHHHHHHHHHH
Confidence 3444444444333333
No 215
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=46.62 E-value=6.6 Score=26.78 Aligned_cols=10 Identities=40% Similarity=1.022 Sum_probs=6.7
Q ss_pred CCCCcccCCC
Q 045986 134 EFTCPICRSS 143 (148)
Q Consensus 134 ~~~CP~CR~~ 143 (148)
...||+|.++
T Consensus 149 P~~CPiCga~ 158 (166)
T COG1592 149 PEVCPICGAP 158 (166)
T ss_pred CCcCCCCCCh
Confidence 4468888653
No 216
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=46.58 E-value=13 Score=20.59 Aligned_cols=14 Identities=29% Similarity=0.588 Sum_probs=11.5
Q ss_pred CCCCcccCCCCCCC
Q 045986 134 EFTCPICRSSIYLD 147 (148)
Q Consensus 134 ~~~CP~CR~~~~~~ 147 (148)
|.-||+|-+.+++|
T Consensus 8 H~HC~VCg~aIp~d 21 (64)
T COG4068 8 HRHCVVCGKAIPPD 21 (64)
T ss_pred CccccccCCcCCCc
Confidence 55699999999876
No 217
>PHA03240 envelope glycoprotein M; Provisional
Probab=46.40 E-value=36 Score=24.35 Aligned_cols=13 Identities=8% Similarity=0.166 Sum_probs=5.9
Q ss_pred HHHHHHHHHHhhh
Q 045986 41 EICIWARDLYQRM 53 (148)
Q Consensus 41 ~~~~~~~~~~~~~ 53 (148)
++..+-++++.++
T Consensus 229 ~cfKiPQKl~dKw 241 (258)
T PHA03240 229 FFFKIPQKLFDKW 241 (258)
T ss_pred HHHhccHHHHHHH
Confidence 3334445555444
No 218
>COG4768 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]
Probab=46.38 E-value=67 Score=21.13 Aligned_cols=26 Identities=15% Similarity=0.314 Sum_probs=11.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHH
Q 045986 22 VLTYTLTIALSLLLLIWVYEICIWAR 47 (148)
Q Consensus 22 ~i~~~i~i~~~l~~~i~~~~~~~~~~ 47 (148)
++.|...+++++.++++++++..-++
T Consensus 2 ~ilyIs~~iiAiAf~vL~I~li~tlk 27 (139)
T COG4768 2 IILYISLAIIAIAFLVLVIYLIITLK 27 (139)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444443333
No 219
>PF15069 FAM163: FAM163 family
Probab=46.31 E-value=35 Score=22.64 Aligned_cols=30 Identities=13% Similarity=-0.068 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 045986 24 TYTLTIALSLLLLIWVYEICIWARDLYQRM 53 (148)
Q Consensus 24 ~~~i~i~~~l~~~i~~~~~~~~~~~~~~~~ 53 (148)
+.+-+++.++|+.|+++.....+++..-+.
T Consensus 8 ItGgILAtVILLcIIaVLCYCRLQYYCCKK 37 (143)
T PF15069_consen 8 ITGGILATVILLCIIAVLCYCRLQYYCCKK 37 (143)
T ss_pred EechHHHHHHHHHHHHHHHHHhhHHHHhhc
Confidence 334444444444444444445555544433
No 220
>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=45.98 E-value=18 Score=20.33 Aligned_cols=33 Identities=12% Similarity=0.131 Sum_probs=22.7
Q ss_pred cccccccccccC--CCeeeecCCCCccchHHhHHH
Q 045986 97 SECVICLEEFVS--GDLFRILPFCKHVYHSHCIIR 129 (148)
Q Consensus 97 ~~C~ICl~~~~~--~~~vr~lp~C~H~FH~~Ci~~ 129 (148)
..|+.|-..... ......-|.||+.+|.+-...
T Consensus 29 q~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~naA 63 (69)
T PF07282_consen 29 QTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVNAA 63 (69)
T ss_pred cCccCcccccccccccceEEcCCCCCEECcHHHHH
Confidence 579999887766 344555555888888775443
No 221
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=45.89 E-value=33 Score=20.28 Aligned_cols=48 Identities=17% Similarity=0.379 Sum_probs=18.8
Q ss_pred ccccccccccccCC---Ce-eeecCCCCccchHHhHHHHHhC-CCCCcccCCCC
Q 045986 96 TSECVICLEEFVSG---DL-FRILPFCKHVYHSHCIIRWFSD-EFTCPICRSSI 144 (148)
Q Consensus 96 ~~~C~ICl~~~~~~---~~-vr~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~~ 144 (148)
...|-||-++..-+ +. +...- |+--.+..|.+-=.+. ++.||-|++..
T Consensus 9 ~qiCqiCGD~VGl~~~Ge~FVAC~e-C~fPvCr~CyEYErkeg~q~CpqCkt~y 61 (80)
T PF14569_consen 9 GQICQICGDDVGLTENGEVFVACHE-CAFPVCRPCYEYERKEGNQVCPQCKTRY 61 (80)
T ss_dssp S-B-SSS--B--B-SSSSB--S-SS-S-----HHHHHHHHHTS-SB-TTT--B-
T ss_pred CcccccccCccccCCCCCEEEEEcc-cCCccchhHHHHHhhcCcccccccCCCc
Confidence 36899998887433 21 22222 5666788888765444 67799999754
No 222
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=45.62 E-value=16 Score=26.30 Aligned_cols=20 Identities=20% Similarity=0.675 Sum_probs=13.6
Q ss_pred hHHhHHHHHhCCCCCcccCC
Q 045986 123 HSHCIIRWFSDEFTCPICRS 142 (148)
Q Consensus 123 H~~Ci~~Wl~~~~~CP~CR~ 142 (148)
|..|-..--++-+.||+|++
T Consensus 197 C~sC~qqIHRNAPiCPlCK~ 216 (230)
T PF10146_consen 197 CQSCHQQIHRNAPICPLCKA 216 (230)
T ss_pred hHhHHHHHhcCCCCCccccc
Confidence 45555554456678999986
No 223
>PF07423 DUF1510: Protein of unknown function (DUF1510); InterPro: IPR009988 This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown.
Probab=45.58 E-value=20 Score=25.66 Aligned_cols=14 Identities=29% Similarity=0.532 Sum_probs=5.5
Q ss_pred HHHHHHHHHHHHHH
Q 045986 24 TYTLTIALSLLLLI 37 (148)
Q Consensus 24 ~~~i~i~~~l~~~i 37 (148)
++.++|++++++++
T Consensus 15 iLNiaI~IV~lLIi 28 (217)
T PF07423_consen 15 ILNIAIGIVSLLII 28 (217)
T ss_pred hHHHHHHHHHHHHH
Confidence 33344444433333
No 224
>PTZ00370 STEVOR; Provisional
Probab=45.32 E-value=39 Score=25.25 Aligned_cols=20 Identities=35% Similarity=0.343 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHHHhhhc
Q 045986 35 LLIWVYEICIWARDLYQRMH 54 (148)
Q Consensus 35 ~~i~~~~~~~~~~~~~~~~~ 54 (148)
++++++++..+.-++++|..
T Consensus 264 llil~vvliilYiwlyrrRK 283 (296)
T PTZ00370 264 LLILAVVLIILYIWLYRRRK 283 (296)
T ss_pred HHHHHHHHHHHHHHHHHhhc
Confidence 33333444444445555443
No 225
>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=43.89 E-value=8.5 Score=17.88 Aligned_cols=10 Identities=50% Similarity=1.305 Sum_probs=5.2
Q ss_pred CCcccCCCCC
Q 045986 136 TCPICRSSIY 145 (148)
Q Consensus 136 ~CP~CR~~~~ 145 (148)
+||.|-+.+.
T Consensus 1 ~CP~C~s~l~ 10 (28)
T PF03119_consen 1 TCPVCGSKLV 10 (28)
T ss_dssp B-TTT--BEE
T ss_pred CcCCCCCEeE
Confidence 4899987765
No 226
>TIGR01367 pyrE_Therm orotate phosphoribosyltransferase, Thermus family. This model represents a distinct clade of orotate phosphoribosyltransferases. Members include the experimentally determined example from Thermus aquaticus and additional examples from Caulobacter crescentus, Helicobacter pylori, Mesorhizobium loti, and related species.
Probab=43.77 E-value=11 Score=26.04 Aligned_cols=14 Identities=29% Similarity=0.835 Sum_probs=11.1
Q ss_pred CCCCcccCCCCCCC
Q 045986 134 EFTCPICRSSIYLD 147 (148)
Q Consensus 134 ~~~CP~CR~~~~~~ 147 (148)
...||+|++-++.+
T Consensus 169 ~~~c~~~~~~~~~~ 182 (187)
T TIGR01367 169 SHECPLCLAGIPAE 182 (187)
T ss_pred cccCChhhcCCCCc
Confidence 45599999988765
No 227
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=43.76 E-value=9.2 Score=34.77 Aligned_cols=47 Identities=21% Similarity=0.493 Sum_probs=35.6
Q ss_pred ccccccccccccCCCeeeecCCCCccchHHhHHHHHhCCC----CCcccCCC
Q 045986 96 TSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEF----TCPICRSS 143 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~----~CP~CR~~ 143 (148)
...|-+|.........+.-.- |.-.||.-|+++-+..-. .||-||..
T Consensus 1108 ~~~c~~cr~k~~~~~m~lc~~-c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e 1158 (1404)
T KOG1245|consen 1108 NALCKVCRRKKQDEKMLLCDE-CLSGFHLFCLRPALSSVPPGDWMCPSCRKE 1158 (1404)
T ss_pred hhhhhhhhhcccchhhhhhHh-hhhhHHHHhhhhhhccCCcCCccCCccchh
Confidence 367999999977655444444 778899999999887633 49999864
No 228
>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=43.68 E-value=37 Score=25.30 Aligned_cols=21 Identities=29% Similarity=0.335 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHHHhhhc
Q 045986 34 LLLIWVYEICIWARDLYQRMH 54 (148)
Q Consensus 34 ~~~i~~~~~~~~~~~~~~~~~ 54 (148)
+++++++++..+.-++++|..
T Consensus 267 vllil~vvliiLYiWlyrrRK 287 (295)
T TIGR01478 267 VLIILTVVLIILYIWLYRRRK 287 (295)
T ss_pred HHHHHHHHHHHHHHHHHHhhc
Confidence 333444444445455555544
No 229
>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=43.67 E-value=17 Score=23.06 Aligned_cols=43 Identities=26% Similarity=0.513 Sum_probs=25.4
Q ss_pred ccccccccccccC--CCeeeecCCCCccchHHhHHHHHhCCCC---CcccC
Q 045986 96 TSECVICLEEFVS--GDLFRILPFCKHVYHSHCIIRWFSDEFT---CPICR 141 (148)
Q Consensus 96 ~~~C~ICl~~~~~--~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~---CP~CR 141 (148)
+..|++|..+|.- +.. .+-+.|+|.++..|-.. ..+.. |-+|.
T Consensus 54 ~~~C~~C~~~fg~l~~~~-~~C~~C~~~VC~~C~~~--~~~~~~WlC~vC~ 101 (118)
T PF02318_consen 54 ERHCARCGKPFGFLFNRG-RVCVDCKHRVCKKCGVY--SKKEPIWLCKVCQ 101 (118)
T ss_dssp CSB-TTTS-BCSCTSTTC-EEETTTTEEEETTSEEE--TSSSCCEEEHHHH
T ss_pred CcchhhhCCcccccCCCC-CcCCcCCccccCccCCc--CCCCCCEEChhhH
Confidence 4689999988642 223 33344999999999544 22222 77774
No 230
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=43.45 E-value=5.2 Score=18.00 Aligned_cols=8 Identities=50% Similarity=1.435 Sum_probs=4.1
Q ss_pred CcccCCCC
Q 045986 137 CPICRSSI 144 (148)
Q Consensus 137 CP~CR~~~ 144 (148)
||.|.+.+
T Consensus 5 C~~CgR~F 12 (25)
T PF13913_consen 5 CPICGRKF 12 (25)
T ss_pred CCCCCCEE
Confidence 55554444
No 231
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=43.37 E-value=14 Score=24.34 Aligned_cols=19 Identities=37% Similarity=0.829 Sum_probs=14.2
Q ss_pred CCccchHHhHHHHHhCCCCCcccCCCC
Q 045986 118 CKHVYHSHCIIRWFSDEFTCPICRSSI 144 (148)
Q Consensus 118 C~H~FH~~Ci~~Wl~~~~~CP~CR~~~ 144 (148)
|||+|+- -+.-||.|.+..
T Consensus 35 CG~v~~P--------Pr~~Cp~C~~~~ 53 (140)
T COG1545 35 CGRVYFP--------PRAYCPKCGSET 53 (140)
T ss_pred CCeEEcC--------CcccCCCCCCCC
Confidence 8999873 355699998763
No 232
>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=43.34 E-value=67 Score=20.75 Aligned_cols=15 Identities=7% Similarity=0.118 Sum_probs=5.6
Q ss_pred chhHHHHHHHHHHHH
Q 045986 21 IVLTYTLTIALSLLL 35 (148)
Q Consensus 21 ~~i~~~i~i~~~l~~ 35 (148)
+.-...++|+++.++
T Consensus 61 fs~~~i~~Ii~gv~a 75 (122)
T PF01102_consen 61 FSEPAIIGIIFGVMA 75 (122)
T ss_dssp SS-TCHHHHHHHHHH
T ss_pred ccccceeehhHHHHH
Confidence 333434444444333
No 233
>PF04478 Mid2: Mid2 like cell wall stress sensor; InterPro: IPR007567 This family represents a region near the C terminus of Mid2, which contains a transmembrane region. The remainder of the protein sequence is serine-rich and of low complexity, and is therefore impossible to align accurately. Mid2 is thought to act as a mechanosensor of cell wall stress. The C-terminal cytoplasmic region of Mid2 is known to interact with Rom2, a guanine nucleotide exchange factor (GEF) for Rho1, which is part of the cell wall integrity signalling pathway [].
Probab=42.99 E-value=1.3 Score=29.63 Aligned_cols=21 Identities=24% Similarity=0.303 Sum_probs=10.6
Q ss_pred cchhHHHHHHHHHHHHHHHHH
Q 045986 20 EIVLTYTLTIALSLLLLIWVY 40 (148)
Q Consensus 20 ~~~i~~~i~i~~~l~~~i~~~ 40 (148)
.++|+.++.+.+.++++++++
T Consensus 49 nIVIGvVVGVGg~ill~il~l 69 (154)
T PF04478_consen 49 NIVIGVVVGVGGPILLGILAL 69 (154)
T ss_pred cEEEEEEecccHHHHHHHHHh
Confidence 455666655555444443333
No 234
>PF11290 DUF3090: Protein of unknown function (DUF3090); InterPro: IPR021441 This family of proteins with unknown function appears to be restricted to Actinobacteria.
Probab=42.91 E-value=18 Score=24.81 Aligned_cols=16 Identities=19% Similarity=0.640 Sum_probs=13.3
Q ss_pred CCCCCcccCCCCCCCC
Q 045986 133 DEFTCPICRSSIYLDA 148 (148)
Q Consensus 133 ~~~~CP~CR~~~~~~~ 148 (148)
-.+.||+|-.++-|++
T Consensus 153 GRP~CPlCg~PlDP~G 168 (171)
T PF11290_consen 153 GRPPCPLCGEPLDPEG 168 (171)
T ss_pred CCCCCCCCCCCCCCCC
Confidence 3778999999998764
No 235
>PF05399 EVI2A: Ectropic viral integration site 2A protein (EVI2A); InterPro: IPR008608 This family contains several mammalian ectropic viral integration site 2A (EVI2A) proteins. The function of this protein is unknown although it is thought to be a membrane protein and may function as an oncogene in retrovirus induced myeloid tumours [, ].; GO: 0016021 integral to membrane
Probab=42.75 E-value=56 Score=23.29 Aligned_cols=13 Identities=31% Similarity=0.450 Sum_probs=5.0
Q ss_pred hhHHHHHHHHHHH
Q 045986 22 VLTYTLTIALSLL 34 (148)
Q Consensus 22 ~i~~~i~i~~~l~ 34 (148)
.++..|+|++.++
T Consensus 130 mLIClIIIAVLfL 142 (227)
T PF05399_consen 130 MLICLIIIAVLFL 142 (227)
T ss_pred HHHHHHHHHHHHH
Confidence 3333344433333
No 236
>PF02060 ISK_Channel: Slow voltage-gated potassium channel; InterPro: IPR000369 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. Two types of beta subunit (KCNE and KCNAB) are presently known to associate with voltage-gated alpha subunits (Kv, KCNQ and eag-like). However, not all combinations of alpha and beta subunits are possible. The KCNE family of K+ channel subunits are membrane glycoproteins that possess a single transmembrane (TM) domain. They share no structural relationship with the alpha subunit proteins, which possess pore forming domains. The subunits appear to have a regulatory function, modulating the kinetics and voltage dependence of the alpha subunits of voltage-dependent K+ channels. KCNE subunits are formed from short polypeptides of ~130 amino acids, and are divided into five subfamilies: KCNE1 (MinK/IsK), KCNE2 (MiRP1), KCNE3 (MiRP2), KCNE4 (MiRP3) and KCNE1L (AMMECR2). ; GO: 0005249 voltage-gated potassium channel activity, 0006811 ion transport, 0016020 membrane; PDB: 2K21_A.
Probab=42.61 E-value=94 Score=20.22 Aligned_cols=10 Identities=20% Similarity=0.202 Sum_probs=3.9
Q ss_pred hhHHHHHHHH
Q 045986 22 VLTYTLTIAL 31 (148)
Q Consensus 22 ~i~~~i~i~~ 31 (148)
.+.|++++..
T Consensus 43 ~~lYIL~vmg 52 (129)
T PF02060_consen 43 EYLYILVVMG 52 (129)
T ss_dssp TT-HHHHHHH
T ss_pred eeehHHHHHH
Confidence 3444444433
No 237
>PF15048 OSTbeta: Organic solute transporter subunit beta protein
Probab=42.55 E-value=61 Score=21.00 Aligned_cols=30 Identities=13% Similarity=0.139 Sum_probs=12.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 045986 23 LTYTLTIALSLLLLIWVYEICIWARDLYQR 52 (148)
Q Consensus 23 i~~~i~i~~~l~~~i~~~~~~~~~~~~~~~ 52 (148)
.-|.++.+.+++++|.++.+.+-++..+.|
T Consensus 35 WNysiL~Ls~vvlvi~~~LLgrsi~ANRnr 64 (125)
T PF15048_consen 35 WNYSILALSFVVLVISFFLLGRSIQANRNR 64 (125)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHhHhcccc
Confidence 344444444444444444443333333333
No 238
>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=42.49 E-value=15 Score=18.84 Aligned_cols=18 Identities=22% Similarity=0.597 Sum_probs=11.6
Q ss_pred HHHhCCCCCcccCCCCCC
Q 045986 129 RWFSDEFTCPICRSSIYL 146 (148)
Q Consensus 129 ~Wl~~~~~CP~CR~~~~~ 146 (148)
-|-....+||.|..++..
T Consensus 12 G~~ML~~~Cp~C~~PL~~ 29 (41)
T PF06677_consen 12 GWTMLDEHCPDCGTPLMR 29 (41)
T ss_pred hHhHhcCccCCCCCeeEE
Confidence 344456778888776654
No 239
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=41.93 E-value=16 Score=22.23 Aligned_cols=12 Identities=17% Similarity=1.093 Sum_probs=10.3
Q ss_pred chHHhHHHHHhC
Q 045986 122 YHSHCIIRWFSD 133 (148)
Q Consensus 122 FH~~Ci~~Wl~~ 133 (148)
||..|+..|...
T Consensus 43 FCRNCLs~Wy~e 54 (104)
T COG3492 43 FCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHH
Confidence 999999999853
No 240
>PRK14584 hmsS hemin storage system protein; Provisional
Probab=41.28 E-value=92 Score=21.00 Aligned_cols=9 Identities=22% Similarity=0.685 Sum_probs=3.6
Q ss_pred hhhhhhhhc
Q 045986 6 VIRRLMDLR 14 (148)
Q Consensus 6 ~~~~~~~~~ 14 (148)
...++.+.-
T Consensus 33 ~~~~~~~~~ 41 (153)
T PRK14584 33 LVRGLLEMI 41 (153)
T ss_pred HHHHHHHHh
Confidence 334444333
No 241
>PRK15348 type III secretion system lipoprotein SsaJ; Provisional
Probab=41.23 E-value=40 Score=24.65 Aligned_cols=16 Identities=25% Similarity=0.389 Sum_probs=7.6
Q ss_pred cchhHHHHHHHHHHHH
Q 045986 20 EIVLTYTLTIALSLLL 35 (148)
Q Consensus 20 ~~~i~~~i~i~~~l~~ 35 (148)
.|..-+.+.+++++++
T Consensus 216 ~~~~~~~~~~~~~~~~ 231 (249)
T PRK15348 216 KWLMKYPYQLMLSLTG 231 (249)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3445555544444443
No 242
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=40.63 E-value=27 Score=23.12 Aligned_cols=38 Identities=24% Similarity=0.504 Sum_probs=21.4
Q ss_pred ccccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCCCCC
Q 045986 96 TSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSIYLD 147 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~ 147 (148)
...|+-|-..|...+.....- + ..+..||.|...+..+
T Consensus 99 ~Y~Cp~C~~~y~~~ea~~~~d------------~--~~~f~Cp~Cg~~l~~~ 136 (147)
T smart00531 99 YYKCPNCQSKYTFLEANQLLD------------M--DGTFTCPRCGEELEED 136 (147)
T ss_pred EEECcCCCCEeeHHHHHHhcC------------C--CCcEECCCCCCEEEEc
Confidence 366887776665443222110 0 1224699999887654
No 243
>PF04995 CcmD: Heme exporter protein D (CcmD); InterPro: IPR007078 The CcmD protein is part of a C-type cytochrome biogenesis operon []. The exact function of this protein is uncertain. It has been proposed that CcmC, CcmD and CcmE interact directly with each other, establishing a cytoplasm to periplasm haem delivery pathway for cytochrome c maturation []. This protein is found fused to CcmE in P52224 from SWISSPROT. These proteins contain a predicted transmembrane helix.; GO: 0006810 transport, 0016021 integral to membrane
Probab=40.51 E-value=55 Score=16.95 Aligned_cols=10 Identities=20% Similarity=0.255 Sum_probs=4.0
Q ss_pred hhHHHHHHHH
Q 045986 22 VLTYTLTIAL 31 (148)
Q Consensus 22 ~i~~~i~i~~ 31 (148)
...|.+.+++
T Consensus 8 W~sYg~t~~~ 17 (46)
T PF04995_consen 8 WSSYGVTALV 17 (46)
T ss_pred HHHHHHHHHH
Confidence 3344444333
No 244
>TIGR03847 conserved hypothetical protein. The conserved hypothetical protein described here occurs as part of the trio of uncharacterized proteins common in the Actinobacteria.
Probab=40.44 E-value=20 Score=24.60 Aligned_cols=28 Identities=18% Similarity=0.341 Sum_probs=18.7
Q ss_pred cchHHhHHHHHhCCCCCcccCCCCCCCC
Q 045986 121 VYHSHCIIRWFSDEFTCPICRSSIYLDA 148 (148)
Q Consensus 121 ~FH~~Ci~~Wl~~~~~CP~CR~~~~~~~ 148 (148)
.|=+.+-.--=.-.+.||+|-.++.|++
T Consensus 143 afa~Ra~~VVaAGRP~CPlCg~PldP~G 170 (177)
T TIGR03847 143 AFAKRARRVVAAGRPPCPLCGRPIDPDG 170 (177)
T ss_pred HHHHHHHHHHhCCCCCCCCCCCCCCCCC
Confidence 3555544433334788999999998764
No 245
>PHA03255 BDLF3; Provisional
Probab=40.38 E-value=67 Score=22.10 Aligned_cols=22 Identities=23% Similarity=0.463 Sum_probs=11.4
Q ss_pred cchhHHHHHHHHHHHHHHHHHH
Q 045986 20 EIVLTYTLTIALSLLLLIWVYE 41 (148)
Q Consensus 20 ~~~i~~~i~i~~~l~~~i~~~~ 41 (148)
.+-++..+++.+.++++|+++.
T Consensus 181 glplwtlvfvgltflmlilifa 202 (234)
T PHA03255 181 GLPLWTLVFVGLTFLMLILIFA 202 (234)
T ss_pred CchHHHHHHHHHHHHHHHHHHH
Confidence 4455555555555555555443
No 246
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=40.10 E-value=20 Score=26.16 Aligned_cols=25 Identities=20% Similarity=0.476 Sum_probs=16.6
Q ss_pred cccccccccccCCCeeeecCCCCccc
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVY 122 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~F 122 (148)
..||+|-..+...+.--.-+ .||.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~-~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICP-QNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcC-CCCCC
Confidence 36999999997554322222 47988
No 247
>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=39.95 E-value=26 Score=25.81 Aligned_cols=42 Identities=29% Similarity=0.430 Sum_probs=23.7
Q ss_pred cccccccccccCCCeeeecCCCCc-cchHHhHHHHHhC-CCCCc
Q 045986 97 SECVICLEEFVSGDLFRILPFCKH-VYHSHCIIRWFSD-EFTCP 138 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H-~FH~~Ci~~Wl~~-~~~CP 138 (148)
..|.||++---+|-.-.-|.-=+- .=|++|.++|-.. +..||
T Consensus 31 sfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~p 74 (285)
T PF06937_consen 31 SFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCP 74 (285)
T ss_pred eecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCC
Confidence 457777665444321111110111 3699999999554 78898
No 248
>TIGR03068 srtB_sig_NPQTN sortase B signal domain, NPQTN class. This model represents one of the boutique (rare) sortase signals, recognized by sortase B (SrtB) rather than by the housekeeping-type SrtA class sortase. This sequence, beginning NPQTN, shows little similarity to several other SrtB substrates.
Probab=39.92 E-value=48 Score=16.03 Aligned_cols=8 Identities=25% Similarity=0.675 Sum_probs=3.0
Q ss_pred hHHHHHHH
Q 045986 23 LTYTLTIA 30 (148)
Q Consensus 23 i~~~i~i~ 30 (148)
..|.+.++
T Consensus 11 y~y~Ip~v 18 (33)
T TIGR03068 11 YIYAIPVA 18 (33)
T ss_pred hhhHHHHH
Confidence 33443333
No 249
>PF14979 TMEM52: Transmembrane 52
Probab=39.52 E-value=1.2e+02 Score=20.39 Aligned_cols=10 Identities=30% Similarity=0.192 Sum_probs=4.4
Q ss_pred chhHHHHHHH
Q 045986 21 IVLTYTLTIA 30 (148)
Q Consensus 21 ~~i~~~i~i~ 30 (148)
..++|+.+++
T Consensus 17 ~~LWyIwLil 26 (154)
T PF14979_consen 17 SSLWYIWLIL 26 (154)
T ss_pred ehhhHHHHHH
Confidence 3444544433
No 250
>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=39.46 E-value=8.2 Score=29.03 Aligned_cols=45 Identities=20% Similarity=0.385 Sum_probs=28.7
Q ss_pred cccccccccccCCCeeeec---CCCCccchHHhHHHHHhCCCCCcccCC
Q 045986 97 SECVICLEEFVSGDLFRIL---PFCKHVYHSHCIIRWFSDEFTCPICRS 142 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~l---p~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 142 (148)
..||||-..=..+ .++.. .+=+|.+|.-|=..|-.....||.|-.
T Consensus 185 ~~CPvCGs~P~~s-~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 185 TLCPACGSPPVAS-MVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CcCCCCCChhhhh-hhcccCCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 5899997653211 12221 112466777888899778888999965
No 251
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=39.29 E-value=13 Score=27.75 Aligned_cols=31 Identities=23% Similarity=0.469 Sum_probs=24.2
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHH
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCII 128 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~ 128 (148)
..|.||+.+-.+.+.+---- |.--||.-|+.
T Consensus 315 ~lC~IC~~P~~E~E~~FCD~-CDRG~HT~CVG 345 (381)
T KOG1512|consen 315 ELCRICLGPVIESEHLFCDV-CDRGPHTLCVG 345 (381)
T ss_pred HhhhccCCcccchheecccc-ccCCCCccccc
Confidence 67999999988877666555 77888888874
No 252
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=38.36 E-value=24 Score=25.45 Aligned_cols=20 Identities=20% Similarity=0.637 Sum_probs=13.0
Q ss_pred hHHhHHHHHhCCCCCcccCC
Q 045986 123 HSHCIIRWFSDEFTCPICRS 142 (148)
Q Consensus 123 H~~Ci~~Wl~~~~~CP~CR~ 142 (148)
|-.|-..--++-+.||+|+.
T Consensus 252 ClsChqqIHRNAPiCPlCKa 271 (286)
T KOG4451|consen 252 CLSCHQQIHRNAPICPLCKA 271 (286)
T ss_pred HHHHHHHHhcCCCCCcchhh
Confidence 34454554456678999976
No 253
>PF10588 NADH-G_4Fe-4S_3: NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; InterPro: IPR019574 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. This entry describes the G subunit (one of 14 subunits, A to N) of the NADH-quinone oxidoreductase complex I which generally couples NADH and ubiquinone oxidation/reduction in bacteria and mammalian mitochondria while translocating protons, but may act on NADPH and/or plastoquinone in cyanobacteria and plant chloroplasts. This family does not contain related subunits from formate dehydrogenase complexes. This entry represents the iron-sulphur binding domain of the G subunit.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3M9S_C 2FUG_L 3IAS_L 2YBB_3 3IAM_3 3I9V_3.
Probab=37.91 E-value=26 Score=17.80 Aligned_cols=16 Identities=19% Similarity=0.603 Sum_probs=7.4
Q ss_pred HHHHHhCCC-CCcccCC
Q 045986 127 IIRWFSDEF-TCPICRS 142 (148)
Q Consensus 127 i~~Wl~~~~-~CP~CR~ 142 (148)
++..|..|+ .||+|-+
T Consensus 5 lelll~~H~~dC~~C~~ 21 (41)
T PF10588_consen 5 LELLLANHPLDCPTCDK 21 (41)
T ss_dssp HHHHHTT----TTT-TT
T ss_pred HHHHHhCCCCcCcCCCC
Confidence 344555544 4999964
No 254
>PF09125 COX2-transmemb: Cytochrome C oxidase subunit II, transmembrane; InterPro: IPR015209 This N-terminal domain forms the transmembrane region in subunit II of cytochrome c oxidase from Thermus thermophilus. This domain adopts a tertiary structure consisting of two antiparallel transmembrane helices, in a transmembrane helix hairpin fold []. ; PDB: 1EHK_B 2QPE_B 3S8F_B 4EV3_B 3BVD_B 3S8G_B 3EH3_B 3S3C_B 3S39_B 3QJQ_B ....
Probab=37.39 E-value=57 Score=16.23 Aligned_cols=14 Identities=14% Similarity=0.463 Sum_probs=5.8
Q ss_pred hhHHHHHHHHHHHH
Q 045986 22 VLTYTLTIALSLLL 35 (148)
Q Consensus 22 ~i~~~i~i~~~l~~ 35 (148)
++.|.+.+++++++
T Consensus 16 Wi~F~l~mi~vFi~ 29 (38)
T PF09125_consen 16 WIAFALAMILVFIA 29 (38)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH
Confidence 34444444433333
No 255
>PF14141 YqzM: YqzM-like protein
Probab=37.09 E-value=58 Score=16.82 Aligned_cols=7 Identities=0% Similarity=0.249 Sum_probs=2.8
Q ss_pred hhHHHHH
Q 045986 22 VLTYTLT 28 (148)
Q Consensus 22 ~i~~~i~ 28 (148)
.+++++.
T Consensus 18 gvGF~vs 24 (43)
T PF14141_consen 18 GVGFIVS 24 (43)
T ss_pred cchhhhh
Confidence 4444333
No 256
>PRK14585 pgaD putative PGA biosynthesis protein; Provisional
Probab=37.05 E-value=1.2e+02 Score=19.97 Aligned_cols=12 Identities=8% Similarity=0.116 Sum_probs=5.9
Q ss_pred CCCHHHHhcCCC
Q 045986 71 LRHQRVIEKLPP 82 (148)
Q Consensus 71 ~~~~~~i~~lp~ 82 (148)
+++.+.++++..
T Consensus 100 ~is~el~~qL~~ 111 (137)
T PRK14585 100 AIPDELYQQLQK 111 (137)
T ss_pred CCCHHHHHHHhc
Confidence 445555555443
No 257
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=36.47 E-value=19 Score=30.04 Aligned_cols=43 Identities=19% Similarity=0.385 Sum_probs=27.7
Q ss_pred cccccccccccCCCeeeecCCCCccchH--HhHHHHHhC-----CCC--CcccCCCCCCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHS--HCIIRWFSD-----EFT--CPICRSSIYLD 147 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~--~Ci~~Wl~~-----~~~--CP~CR~~~~~~ 147 (148)
-.|+|+.-. ..+| |.+..|+ .|.|.-+.. ..+ ||+|......+
T Consensus 307 L~CPl~~~R-------m~~P-~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~~e 358 (636)
T KOG2169|consen 307 LNCPLSKMR-------MSLP-ARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAPFE 358 (636)
T ss_pred ecCCcccce-------eecC-CcccccccceecchhhhHHhccCCCeeeCccCCcccccc
Confidence 457776544 4677 8877776 888764422 222 99998776554
No 258
>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=36.40 E-value=11 Score=19.96 Aligned_cols=8 Identities=50% Similarity=1.144 Sum_probs=6.3
Q ss_pred CCCcccCC
Q 045986 135 FTCPICRS 142 (148)
Q Consensus 135 ~~CP~CR~ 142 (148)
..||.|.+
T Consensus 27 ~~CP~Cg~ 34 (52)
T TIGR02605 27 ATCPECGG 34 (52)
T ss_pred CCCCCCCC
Confidence 36999976
No 259
>PTZ00046 rifin; Provisional
Probab=35.88 E-value=66 Score=24.88 Aligned_cols=8 Identities=25% Similarity=0.127 Sum_probs=3.4
Q ss_pred HHHHHHHH
Q 045986 42 ICIWARDL 49 (148)
Q Consensus 42 ~~~~~~~~ 49 (148)
+..++||+
T Consensus 334 IYLILRYR 341 (358)
T PTZ00046 334 IYLILRYR 341 (358)
T ss_pred HHHHHHhh
Confidence 33444443
No 260
>PRK09039 hypothetical protein; Validated
Probab=35.50 E-value=1.1e+02 Score=23.55 Aligned_cols=36 Identities=11% Similarity=0.252 Sum_probs=18.8
Q ss_pred ccCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 045986 16 NRQAEIVLTYTLTIALSLLLLIWVYEICIWARDLYQ 51 (148)
Q Consensus 16 ~~~~~~~i~~~i~i~~~l~~~i~~~~~~~~~~~~~~ 51 (148)
..+..++-+|+=.+...|++++|++.+....+.+..
T Consensus 10 ~~~~~~wpg~vd~~~~ll~~~~f~l~~f~~~q~fLs 45 (343)
T PRK09039 10 RRGVDYWPGFVDALSTLLLVIMFLLTVFVVAQFFLS 45 (343)
T ss_pred CCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344556666665555555555555554444444443
No 261
>PF12773 DZR: Double zinc ribbon
Probab=34.76 E-value=35 Score=17.71 Aligned_cols=13 Identities=23% Similarity=0.467 Sum_probs=8.2
Q ss_pred CCCcccCCCCCCC
Q 045986 135 FTCPICRSSIYLD 147 (148)
Q Consensus 135 ~~CP~CR~~~~~~ 147 (148)
..||.|.+.+.++
T Consensus 30 ~~C~~Cg~~~~~~ 42 (50)
T PF12773_consen 30 KICPNCGAENPPN 42 (50)
T ss_pred CCCcCCcCCCcCC
Confidence 3477777766554
No 262
>PF13314 DUF4083: Domain of unknown function (DUF4083)
Probab=34.66 E-value=85 Score=17.39 Aligned_cols=9 Identities=11% Similarity=0.416 Sum_probs=4.5
Q ss_pred HHHHHHHhh
Q 045986 44 IWARDLYQR 52 (148)
Q Consensus 44 ~~~~~~~~~ 52 (148)
.++|+..+.
T Consensus 25 l~IRri~~~ 33 (58)
T PF13314_consen 25 LFIRRILIN 33 (58)
T ss_pred HHHHHHHHh
Confidence 345555444
No 263
>PLN02436 cellulose synthase A
Probab=34.43 E-value=48 Score=29.46 Aligned_cols=49 Identities=22% Similarity=0.468 Sum_probs=31.2
Q ss_pred cccccccccccc---CCCeeeecCCCCccchHHhHHHHHhC-CCCCcccCCCC
Q 045986 96 TSECVICLEEFV---SGDLFRILPFCKHVYHSHCIIRWFSD-EFTCPICRSSI 144 (148)
Q Consensus 96 ~~~C~ICl~~~~---~~~~vr~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~~ 144 (148)
...|-||-++.. +||.-..-..|+--.|..|.+-=-+. ++.||-|++..
T Consensus 36 ~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y 88 (1094)
T PLN02436 36 GQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRY 88 (1094)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCch
Confidence 368999999863 44433222225555899998432222 66799999864
No 264
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=34.35 E-value=11 Score=28.16 Aligned_cols=40 Identities=30% Similarity=0.698 Sum_probs=29.1
Q ss_pred cccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCCCC
Q 045986 97 SECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSIYL 146 (148)
Q Consensus 97 ~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~ 146 (148)
..|+-|-+.+...+.||.- =.|+||-.|.. |-+|++.+.+
T Consensus 93 TKCsaC~~GIpPtqVVRkA--qd~VYHl~CF~--------C~iC~R~L~T 132 (383)
T KOG4577|consen 93 TKCSACQEGIPPTQVVRKA--QDFVYHLHCFA--------CFICKRQLAT 132 (383)
T ss_pred CcchhhcCCCChHHHHHHh--hcceeehhhhh--------hHhhhccccc
Confidence 5799998888777666653 47999999864 6677666543
No 265
>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=34.23 E-value=21 Score=19.11 Aligned_cols=11 Identities=36% Similarity=0.649 Sum_probs=7.6
Q ss_pred ccccccccccC
Q 045986 98 ECVICLEEFVS 108 (148)
Q Consensus 98 ~C~ICl~~~~~ 108 (148)
.|.+|.-.|.+
T Consensus 3 ~C~~CgyiYd~ 13 (50)
T cd00730 3 ECRICGYIYDP 13 (50)
T ss_pred CCCCCCeEECC
Confidence 57777777764
No 266
>TIGR01477 RIFIN variant surface antigen, rifin family. This model represents the rifin 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 rifin 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 20 bits.
Probab=34.16 E-value=69 Score=24.73 Aligned_cols=8 Identities=25% Similarity=0.127 Sum_probs=3.4
Q ss_pred HHHHHHHH
Q 045986 42 ICIWARDL 49 (148)
Q Consensus 42 ~~~~~~~~ 49 (148)
+..++||+
T Consensus 329 IYLILRYR 336 (353)
T TIGR01477 329 IYLILRYR 336 (353)
T ss_pred HHHHHHhh
Confidence 33444543
No 267
>PF13994 PgaD: PgaD-like protein
Probab=33.71 E-value=1.3e+02 Score=19.56 Aligned_cols=11 Identities=9% Similarity=0.033 Sum_probs=4.9
Q ss_pred CCCHHHHhcCC
Q 045986 71 LRHQRVIEKLP 81 (148)
Q Consensus 71 ~~~~~~i~~lp 81 (148)
+++++.++++.
T Consensus 111 ~l~~~~l~~lr 121 (138)
T PF13994_consen 111 GLSPEQLQQLR 121 (138)
T ss_pred CCCHHHHHHHH
Confidence 34444444443
No 268
>PLN02195 cellulose synthase A
Probab=33.66 E-value=66 Score=28.32 Aligned_cols=49 Identities=20% Similarity=0.383 Sum_probs=31.7
Q ss_pred ccccccccccccC---CCeeeecCCCCccchHHhHHHHHhC--CCCCcccCCCCC
Q 045986 96 TSECVICLEEFVS---GDLFRILPFCKHVYHSHCIIRWFSD--EFTCPICRSSIY 145 (148)
Q Consensus 96 ~~~C~ICl~~~~~---~~~vr~lp~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~~~ 145 (148)
...|.||-++... |+.-..--.|+--.|..|. +.=++ ++.||-|++...
T Consensus 6 ~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCy-eyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 6 APICATCGEEVGVDSNGEAFVACHECSYPLCKACL-EYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CccceecccccCcCCCCCeEEEeccCCCccccchh-hhhhhcCCccCCccCCccc
Confidence 4689999887643 3322222226666899998 33333 667999998765
No 269
>COG5488 Integral membrane protein [Function unknown]
Probab=33.40 E-value=94 Score=20.94 Aligned_cols=31 Identities=26% Similarity=0.136 Sum_probs=12.8
Q ss_pred CcchhhhhhhhhhccccCccchhHHHHHHHHH
Q 045986 1 DETLFVIRRLMDLRSNRQAEIVLTYTLTIALS 32 (148)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~i~~~i~i~~~ 32 (148)
|+++|-+ -+-..+|-......+.+.++.+..
T Consensus 12 ~ePif~a-ll~p~rSlg~rgf~~lm~~~~~~~ 42 (164)
T COG5488 12 DEPIFAA-LLTPHRSLGPRGFGVLMLALGILS 42 (164)
T ss_pred CCchHHH-HhCcccccChhhHHHHHHHHHHHH
Confidence 4555555 333334443333344444333333
No 270
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=33.05 E-value=17 Score=22.21 Aligned_cols=22 Identities=23% Similarity=0.665 Sum_probs=13.7
Q ss_pred CCccchHHhHHHHHhCCCCCcccCCC
Q 045986 118 CKHVYHSHCIIRWFSDEFTCPICRSS 143 (148)
Q Consensus 118 C~H~FH~~Ci~~Wl~~~~~CP~CR~~ 143 (148)
||-.|-.+= ++..+.||-|++.
T Consensus 64 CGfef~~~~----ik~pSRCP~CKSE 85 (97)
T COG3357 64 CGFEFRDDK----IKKPSRCPKCKSE 85 (97)
T ss_pred cCccccccc----cCCcccCCcchhh
Confidence 677775421 2335679999863
No 271
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=32.85 E-value=31 Score=27.60 Aligned_cols=44 Identities=27% Similarity=0.736 Sum_probs=27.2
Q ss_pred cccccccccc-cCCCeeeecC--CCCccchHHhHHHHHhC----C----CCCcccCC
Q 045986 97 SECVICLEEF-VSGDLFRILP--FCKHVYHSHCIIRWFSD----E----FTCPICRS 142 (148)
Q Consensus 97 ~~C~ICl~~~-~~~~~vr~lp--~C~H~FH~~Ci~~Wl~~----~----~~CP~CR~ 142 (148)
..|++|.... -... |++- +|+-.||..|-.+-... . --|=+|..
T Consensus 169 ~qc~vC~~g~~~~~N--rmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~ 223 (464)
T KOG4323|consen 169 LQCSVCYCGGPGAGN--RMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNR 223 (464)
T ss_pred ceeeeeecCCcCccc--eeeeecccccHHHHHhccCCCCHhhccCccceEeehhhcc
Confidence 5699998543 2223 5554 26788999997665422 1 12888854
No 272
>PF15347 PAG: Phosphoprotein associated with glycosphingolipid-enriched
Probab=32.58 E-value=83 Score=24.54 Aligned_cols=23 Identities=22% Similarity=0.117 Sum_probs=11.0
Q ss_pred HHHHHhhhcCCCCCcchhhhccC
Q 045986 46 ARDLYQRMHDPEVGSFDVLRLWD 68 (148)
Q Consensus 46 ~~~~~~~~~~~~~~~~~~~~~~~ 68 (148)
+.....|...+.....+...+.+
T Consensus 36 LCsSC~reKK~~~~~GDHENLMN 58 (428)
T PF15347_consen 36 LCSSCDREKKPKQQSGDHENLMN 58 (428)
T ss_pred HhhcccccccCCCCCCchhhhhc
Confidence 33444555555554444444433
No 273
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=32.55 E-value=22 Score=29.57 Aligned_cols=25 Identities=36% Similarity=1.120 Sum_probs=20.1
Q ss_pred CCccchHHhHHHHHhCC-----CCCcccCC
Q 045986 118 CKHVYHSHCIIRWFSDE-----FTCPICRS 142 (148)
Q Consensus 118 C~H~FH~~Ci~~Wl~~~-----~~CP~CR~ 142 (148)
|+-.+|..|+..|+..- -.||-||.
T Consensus 41 c~~~yH~~cvt~~~~~~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 41 CGQKYHPYCVTSWAQHAVLSGGWRCPSCRV 70 (694)
T ss_pred hcccCCcchhhHHHhHHHhcCCcccCCcee
Confidence 78999999999998652 24888875
No 274
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=32.48 E-value=14 Score=27.89 Aligned_cols=46 Identities=20% Similarity=0.384 Sum_probs=29.2
Q ss_pred ccccccccccccCCCeeee--cCCCCccchHHhHHHHHhCCCCCcccCC
Q 045986 96 TSECVICLEEFVSGDLFRI--LPFCKHVYHSHCIIRWFSDEFTCPICRS 142 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~--lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~ 142 (148)
...||||=..=... .++. -.+=+|.+|.-|-..|-.....||.|-.
T Consensus 187 ~~~CPvCGs~P~~s-~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 187 RQFCPVCGSMPVSS-VVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCcchhh-eeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 36899997652211 1111 1112466777888899888888999964
No 275
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=32.31 E-value=29 Score=23.78 Aligned_cols=30 Identities=27% Similarity=0.573 Sum_probs=19.3
Q ss_pred ccccc---ccccCCCeeeecCCCCccchHHhHHH
Q 045986 99 CVICL---EEFVSGDLFRILPFCKHVYHSHCIIR 129 (148)
Q Consensus 99 C~ICl---~~~~~~~~vr~lp~C~H~FH~~Ci~~ 129 (148)
|..|. ++.+.|..|---- |.-.||+.||-.
T Consensus 2 C~~C~~~g~~~~kG~Lv~CQG-Cs~sYHk~CLG~ 34 (175)
T PF15446_consen 2 CDTCGYEGDDRNKGPLVYCQG-CSSSYHKACLGP 34 (175)
T ss_pred cccccCCCCCccCCCeEEcCc-cChHHHhhhcCC
Confidence 66664 4555555554444 888899998854
No 276
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=32.31 E-value=8.1 Score=18.98 Aligned_cols=20 Identities=20% Similarity=0.788 Sum_probs=9.2
Q ss_pred CCccchHHhHHHHHhCCCCCcccC
Q 045986 118 CKHVYHSHCIIRWFSDEFTCPICR 141 (148)
Q Consensus 118 C~H~FH~~Ci~~Wl~~~~~CP~CR 141 (148)
|+..| .++||.++-.+|+|.
T Consensus 9 C~~~f----~dSyL~~~F~~~VCD 28 (34)
T PF01286_consen 9 CGKPF----MDSYLLNNFDLPVCD 28 (34)
T ss_dssp T--EE----S-SSCCCCTS-S--T
T ss_pred hCCHH----HHHHHHHhCCccccc
Confidence 66666 466777777766663
No 277
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=32.28 E-value=42 Score=17.58 Aligned_cols=32 Identities=22% Similarity=0.505 Sum_probs=22.8
Q ss_pred cccccccccc--cCCCeeeecCCCCccchHHhHHH
Q 045986 97 SECVICLEEF--VSGDLFRILPFCKHVYHSHCIIR 129 (148)
Q Consensus 97 ~~C~ICl~~~--~~~~~vr~lp~C~H~FH~~Ci~~ 129 (148)
..|.+|-+.+ ......+=.- |+=..|++|++.
T Consensus 12 ~~C~~C~~~i~g~~~~g~~C~~-C~~~~H~~C~~~ 45 (53)
T PF00130_consen 12 TYCDVCGKFIWGLGKQGYRCSW-CGLVCHKKCLSK 45 (53)
T ss_dssp EB-TTSSSBECSSSSCEEEETT-TT-EEETTGGCT
T ss_pred CCCcccCcccCCCCCCeEEECC-CCChHhhhhhhh
Confidence 5799998888 4455566566 999999999765
No 278
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=32.28 E-value=56 Score=29.10 Aligned_cols=48 Identities=21% Similarity=0.515 Sum_probs=29.9
Q ss_pred ccccccccccccC---CCeeeecCCCCccchHHhHHHHHhC--CCCCcccCCCC
Q 045986 96 TSECVICLEEFVS---GDLFRILPFCKHVYHSHCIIRWFSD--EFTCPICRSSI 144 (148)
Q Consensus 96 ~~~C~ICl~~~~~---~~~vr~lp~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~~ 144 (148)
...|-||=++... |+.-..--.|+-=.|..|.+ .=++ ++.||-|++..
T Consensus 17 ~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYE-YEr~eG~q~CPqCktrY 69 (1079)
T PLN02638 17 GQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYE-YERKDGNQSCPQCKTKY 69 (1079)
T ss_pred CceeeecccccCcCCCCCEEEEeccCCCccccchhh-hhhhcCCccCCccCCch
Confidence 3589999888643 33222111144448999983 3222 67799999864
No 279
>PF04210 MtrG: Tetrahydromethanopterin S-methyltransferase, subunit G ; InterPro: IPR005866 This model describes the N5-methyltetrahydromethanopterin: coenzyme M methyltransferase subunit G in methanogenic archaea. This methyltranferase is a membrane-associated enzyme complex that uses methyl-transfer reaction to drive a sodium-ion pump. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of a methyl group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.; GO: 0030269 tetrahydromethanopterin S-methyltransferase activity, 0015948 methanogenesis, 0016021 integral to membrane
Probab=32.18 E-value=98 Score=17.86 Aligned_cols=20 Identities=25% Similarity=0.479 Sum_probs=12.5
Q ss_pred cCccchhHHHHHHHHHHHHH
Q 045986 17 RQAEIVLTYTLTIALSLLLL 36 (148)
Q Consensus 17 ~~~~~~i~~~i~i~~~l~~~ 36 (148)
...++++.|++++.+.++++
T Consensus 43 iGRDiGIlYG~v~Glii~~~ 62 (70)
T PF04210_consen 43 IGRDIGILYGLVIGLIIFII 62 (70)
T ss_pred hhhHHHHHHHHHHHHHHHHH
Confidence 34467888887766554443
No 280
>PF15420 Abhydrolase_9_N: Alpha/beta-hydrolase family N-terminus
Probab=31.86 E-value=1.9e+02 Score=20.53 Aligned_cols=25 Identities=20% Similarity=0.333 Sum_probs=12.7
Q ss_pred hhhhhhhccccCccchhHHHHHHHH
Q 045986 7 IRRLMDLRSNRQAEIVLTYTLTIAL 31 (148)
Q Consensus 7 ~~~~~~~~~~~~~~~~i~~~i~i~~ 31 (148)
++.+|+..+...........+.+++
T Consensus 77 ~r~lmg~~~~~~~~~~~~~~va~~~ 101 (208)
T PF15420_consen 77 LRALMGMPPIGPAHYLLVVLVALLV 101 (208)
T ss_pred HHHHhCCCCCChhHHHHHHHHHHHH
Confidence 5667776665544444443333333
No 281
>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=31.46 E-value=30 Score=16.12 Aligned_cols=28 Identities=18% Similarity=0.459 Sum_probs=16.3
Q ss_pred ccccccccccCCCeeeecCCCCccchHHh
Q 045986 98 ECVICLEEFVSGDLFRILPFCKHVYHSHC 126 (148)
Q Consensus 98 ~C~ICl~~~~~~~~vr~lp~C~H~FH~~C 126 (148)
.|.+|-.+......-+=.. |+..+|..|
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~-c~f~lh~~C 29 (30)
T PF03107_consen 2 WCDVCRRKIDGFYFYHCSE-CCFTLHVRC 29 (30)
T ss_pred CCCCCCCCcCCCEeEEeCC-CCCeEcCcc
Confidence 4778865544332333344 777778776
No 282
>KOG4430 consensus Topoisomerase I-binding arginine-serine-rich protein [Transcription]
Probab=31.27 E-value=19 Score=29.26 Aligned_cols=52 Identities=13% Similarity=0.177 Sum_probs=44.9
Q ss_pred CccccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCCCC
Q 045986 95 FTSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSIYL 146 (148)
Q Consensus 95 ~~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~ 146 (148)
....|.+|+..+...++.+.+-.|.|.+...|+..|=.....||.|++.+..
T Consensus 259 ~~~~~~~~~~~~~~~eqk~l~~~~~~~~g~tsl~~e~~~~~v~~~~~tk~~~ 310 (553)
T KOG4430|consen 259 NKNACGLCLSEADAKEQKGLEGNNQRQTGATSLMEEEAVESVCPLRVTKVRT 310 (553)
T ss_pred cccchhhchhhHhHHHhhhhhhcccchhhhhhhhhhhhhhhhhhcccccccc
Confidence 3478999999998888888888678999999999998888899999887654
No 283
>PF12088 DUF3565: Protein of unknown function (DUF3565); InterPro: IPR021948 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 30 to 78 amino acids in length. This protein has two conserved sequence motifs: WVA and CGH.
Probab=31.13 E-value=36 Score=18.99 Aligned_cols=18 Identities=28% Similarity=0.495 Sum_probs=14.0
Q ss_pred CCCeeeecCCCCccchHHh
Q 045986 108 SGDLFRILPFCKHVYHSHC 126 (148)
Q Consensus 108 ~~~~vr~lp~C~H~FH~~C 126 (148)
+++-|..|. |||.=|..=
T Consensus 8 e~hWVA~L~-CGH~QHvRH 25 (61)
T PF12088_consen 8 EGHWVAELS-CGHTQHVRH 25 (61)
T ss_pred cCCEEEEec-ccccccccC
Confidence 567889999 999887543
No 284
>PHA02662 ORF131 putative membrane protein; Provisional
Probab=30.85 E-value=89 Score=22.43 Aligned_cols=19 Identities=21% Similarity=0.305 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHHHHHhhh
Q 045986 35 LLIWVYEICIWARDLYQRM 53 (148)
Q Consensus 35 ~~i~~~~~~~~~~~~~~~~ 53 (148)
+++++++++.+.|...-++
T Consensus 197 ~~i~vv~i~~irR~i~lkY 215 (226)
T PHA02662 197 TVLGVVAVSLLRRALRIRF 215 (226)
T ss_pred HHHHHHHHHHHHHHhheee
Confidence 3344455555544444343
No 285
>PF15176 LRR19-TM: Leucine-rich repeat family 19 TM domain
Probab=30.68 E-value=1.4e+02 Score=18.63 Aligned_cols=14 Identities=29% Similarity=0.176 Sum_probs=5.7
Q ss_pred HHHHHHHHHHHHHH
Q 045986 35 LLIWVYEICIWARD 48 (148)
Q Consensus 35 ~~i~~~~~~~~~~~ 48 (148)
++|++..-|...+.
T Consensus 32 lLIalaaKC~~~~k 45 (102)
T PF15176_consen 32 LLIALAAKCPVWYK 45 (102)
T ss_pred HHHHHHHHhHHHHH
Confidence 44444444444333
No 286
>PHA02849 putative transmembrane protein; Provisional
Probab=30.39 E-value=1.2e+02 Score=17.90 Aligned_cols=8 Identities=13% Similarity=-0.080 Sum_probs=3.0
Q ss_pred hcCCCccc
Q 045986 78 EKLPPAEK 85 (148)
Q Consensus 78 ~~lp~~~~ 85 (148)
..+..+-|
T Consensus 64 ~~Ld~VYY 71 (82)
T PHA02849 64 THLNNVYY 71 (82)
T ss_pred HHhcCEEe
Confidence 33433333
No 287
>TIGR03141 cytochro_ccmD heme exporter protein CcmD. The model for this protein family describes a small, hydrophobic, and only moderately well-conserved protein, tricky to identify accurately for all of these reasons. However, members are found as part of large operons involved in heme export across the inner membrane for assembly of c-type cytochromes in a large number of bacteria. The gray zone between the trusted cutoff (13.0) and noise cutoff (4.75) includes both low-scoring examples and false-positive matches to hydrophobic domains of longer proteins.
Probab=30.38 E-value=86 Score=16.16 Aligned_cols=7 Identities=43% Similarity=0.667 Sum_probs=2.7
Q ss_pred hhHHHHH
Q 045986 22 VLTYTLT 28 (148)
Q Consensus 22 ~i~~~i~ 28 (148)
...|.+.
T Consensus 9 W~sYg~t 15 (45)
T TIGR03141 9 WLAYGIT 15 (45)
T ss_pred HHHHHHH
Confidence 3334443
No 288
>PF11770 GAPT: GRB2-binding adapter (GAPT); InterPro: IPR021082 This entry represents a family of transmembrane proteins which bind the growth factor receptor-bound protein 2 (GRB2) in B cells []. In contrast to other transmembrane adaptor proteins, GAPT, which this entry represents, is not phosphorylated upon BCR ligation. It associates with GRB2 constitutively through its proline-rich region [].
Probab=30.33 E-value=1.7e+02 Score=19.67 Aligned_cols=12 Identities=50% Similarity=0.736 Sum_probs=4.3
Q ss_pred HHHHHHHHHHHH
Q 045986 27 LTIALSLLLLIW 38 (148)
Q Consensus 27 i~i~~~l~~~i~ 38 (148)
+++.+.++++++
T Consensus 14 igi~Ll~lLl~c 25 (158)
T PF11770_consen 14 IGISLLLLLLLC 25 (158)
T ss_pred HHHHHHHHHHHH
Confidence 333333333333
No 289
>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=29.80 E-value=27 Score=17.26 Aligned_cols=29 Identities=24% Similarity=0.445 Sum_probs=16.7
Q ss_pred cCCCCccchHHhHHHHHhCCCCCcccCCCCC
Q 045986 115 LPFCKHVYHSHCIIRWFSDEFTCPICRSSIY 145 (148)
Q Consensus 115 lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~ 145 (148)
=|.||++||..=--+ +....|..|-..|.
T Consensus 4 C~~Cg~~Yh~~~~pP--~~~~~Cd~cg~~L~ 32 (36)
T PF05191_consen 4 CPKCGRIYHIEFNPP--KVEGVCDNCGGELV 32 (36)
T ss_dssp ETTTTEEEETTTB----SSTTBCTTTTEBEB
T ss_pred cCCCCCccccccCCC--CCCCccCCCCCeeE
Confidence 345999999431111 22455888876553
No 290
>cd01407 SIR2-fam SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+, producing nicotinamide and the novel metabolite O-acetyl-ADP-ribose. Sir2 proteins, also known as sirtuins, are found in all eukaryotes and many archaea and prokaryotes and have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The most-studied function, gene silencing, involves the inactivation of chromosome domains containing key regulatory genes by packaging them into a specialized chromatin structure that is inaccessible to DNA-binding proteins. The oligomerization state of Sir2 appears to be organism-dependent, sometimes occurring as a monomer and sometimes as a multimer.
Probab=29.75 E-value=75 Score=22.39 Aligned_cols=30 Identities=20% Similarity=0.364 Sum_probs=17.8
Q ss_pred CCccchHHhHHHHHhC--CCCCcccCCCCCCC
Q 045986 118 CKHVYHSHCIIRWFSD--EFTCPICRSSIYLD 147 (148)
Q Consensus 118 C~H~FH~~Ci~~Wl~~--~~~CP~CR~~~~~~ 147 (148)
|++.+..+=+...+.. -+.||.|...+.|+
T Consensus 115 C~~~~~~~~~~~~~~~~~~p~C~~Cg~~lrP~ 146 (218)
T cd01407 115 CGKEYPRDELQADIDREEVPRCPKCGGLLRPD 146 (218)
T ss_pred CcCCCcHHHHhHhhccCCCCcCCCCCCccCCC
Confidence 7777664422122222 35699999887764
No 291
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=29.39 E-value=41 Score=16.94 Aligned_cols=32 Identities=22% Similarity=0.467 Sum_probs=22.9
Q ss_pred cccccccccccCCC-eeeecCCCCccchHHhHHH
Q 045986 97 SECVICLEEFVSGD-LFRILPFCKHVYHSHCIIR 129 (148)
Q Consensus 97 ~~C~ICl~~~~~~~-~vr~lp~C~H~FH~~Ci~~ 129 (148)
..|.+|.+.+.... .++-.. |+=..|.+|...
T Consensus 12 ~~C~~C~~~i~~~~~~~~C~~-C~~~~H~~C~~~ 44 (49)
T smart00109 12 TKCCVCRKSIWGSFQGLRCSW-CKVKCHKKCAEK 44 (49)
T ss_pred CCccccccccCcCCCCcCCCC-CCchHHHHHHhh
Confidence 46999988876532 344444 788899999876
No 292
>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=29.23 E-value=32 Score=21.70 Aligned_cols=26 Identities=27% Similarity=0.484 Sum_probs=15.6
Q ss_pred ccccccccccCCC-eeeecCCCCccch
Q 045986 98 ECVICLEEFVSGD-LFRILPFCKHVYH 123 (148)
Q Consensus 98 ~C~ICl~~~~~~~-~vr~lp~C~H~FH 123 (148)
.||-|-.+|.-.+ ..-+-|.|+|.+-
T Consensus 4 ~CP~C~seytY~dg~~~iCpeC~~EW~ 30 (109)
T TIGR00686 4 PCPKCNSEYTYHDGTQLICPSCLYEWN 30 (109)
T ss_pred cCCcCCCcceEecCCeeECcccccccc
Confidence 5888888775322 3345555777653
No 293
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=29.17 E-value=93 Score=27.69 Aligned_cols=50 Identities=22% Similarity=0.424 Sum_probs=31.0
Q ss_pred ccccccccccccC---CCeeeecCCCCccchHHhHHHHHhC-CCCCcccCCCCC
Q 045986 96 TSECVICLEEFVS---GDLFRILPFCKHVYHSHCIIRWFSD-EFTCPICRSSIY 145 (148)
Q Consensus 96 ~~~C~ICl~~~~~---~~~vr~lp~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~~~ 145 (148)
...|-||=++... ||.-..--.|+--.|..|.+-=.+. ++.||-|++...
T Consensus 15 ~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 15 AKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred cchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 4689999888643 3322221114555899998432222 667999998653
No 294
>PRK13275 mtrF tetrahydromethanopterin S-methyltransferase subunit F; Provisional
Probab=28.37 E-value=1.2e+02 Score=17.33 Aligned_cols=21 Identities=29% Similarity=0.407 Sum_probs=9.3
Q ss_pred cccCccchhHHHHHHHHHHHH
Q 045986 15 SNRQAEIVLTYTLTIALSLLL 35 (148)
Q Consensus 15 ~~~~~~~~i~~~i~i~~~l~~ 35 (148)
|-.+..-..++.+.+++++++
T Consensus 35 SGv~~~~~~G~aiG~~~AlvL 55 (67)
T PRK13275 35 SGVIATGIIGFAIGFLLALLL 55 (67)
T ss_pred HHhhhhhHHHHHHHHHHHHHH
Confidence 333334445555544444443
No 295
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=28.14 E-value=12 Score=29.48 Aligned_cols=40 Identities=20% Similarity=0.424 Sum_probs=28.1
Q ss_pred CccccccccccccCCCeeeecCCCCccchHHhHHHHHhCCCCCcccCCCCCCC
Q 045986 95 FTSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFSDEFTCPICRSSIYLD 147 (148)
Q Consensus 95 ~~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~ 147 (148)
.+..|++|...|..=+.++.+..-.-.|| |-.|..+|..|
T Consensus 127 ~~Y~Cp~C~kkyt~Lea~~L~~~~~~~F~-------------C~~C~gelveD 166 (436)
T KOG2593|consen 127 AGYVCPNCQKKYTSLEALQLLDNETGEFH-------------CENCGGELVED 166 (436)
T ss_pred ccccCCccccchhhhHHHHhhcccCceEE-------------EecCCCchhcc
Confidence 35789999999987776666652234455 78887777654
No 296
>PF09472 MtrF: Tetrahydromethanopterin S-methyltransferase, F subunit (MtrF); InterPro: IPR013347 Many archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This domain is mostly found in MtrF, where it covers the entire length of the protein. This polypeptide is one of eight subunits of the N5-methyltetrahydromethanopterin: coenzyme M methyltransferase complex found in methanogenic archaea. This is a membrane-associated enzyme complex that uses methyl-transfer reactions to drive a sodium-ion pump []. MtrF itself is involved in the transfer of the methyl group from N5-methyltetrahydromethanopterin to coenzyme M. Subsequently, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme, methyl-coenzyme M reductase. In some organisms this domain is found at the C-terminal region of what appears to be a fusion of the MtrA and MtrF proteins [, ]. The function of these proteins is unknown, though it is likely that they are involved in C1 metabolism.; GO: 0030269 tetrahydromethanopterin S-methyltransferase activity, 0015948 methanogenesis, 0016020 membrane
Probab=27.89 E-value=1.1e+02 Score=17.37 Aligned_cols=21 Identities=19% Similarity=0.278 Sum_probs=9.3
Q ss_pred cccCccchhHHHHHHHHHHHH
Q 045986 15 SNRQAEIVLTYTLTIALSLLL 35 (148)
Q Consensus 15 ~~~~~~~~i~~~i~i~~~l~~ 35 (148)
|-.......++.+.+++++++
T Consensus 35 SGv~~~~~~GfaiG~~~AlvL 55 (64)
T PF09472_consen 35 SGVMATGIKGFAIGFLFALVL 55 (64)
T ss_pred HHHhhhhhHHHHHHHHHHHHH
Confidence 333334445555544444443
No 297
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=27.76 E-value=29 Score=18.34 Aligned_cols=11 Identities=18% Similarity=0.594 Sum_probs=7.3
Q ss_pred ccccccccccC
Q 045986 98 ECVICLEEFVS 108 (148)
Q Consensus 98 ~C~ICl~~~~~ 108 (148)
.|.+|.-.|.+
T Consensus 3 ~C~~CgyvYd~ 13 (47)
T PF00301_consen 3 QCPVCGYVYDP 13 (47)
T ss_dssp EETTTSBEEET
T ss_pred CCCCCCEEEcC
Confidence 57777766654
No 298
>PF15345 TMEM51: Transmembrane protein 51
Probab=27.51 E-value=57 Score=23.56 Aligned_cols=31 Identities=29% Similarity=0.402 Sum_probs=14.7
Q ss_pred CccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 045986 18 QAEIVLTYTLTIALSLLLLIWVYEICIWARDLYQ 51 (148)
Q Consensus 18 ~~~~~i~~~i~i~~~l~~~i~~~~~~~~~~~~~~ 51 (148)
++..++.|+++.+.+++++ +.+|.-+|..++
T Consensus 55 sKt~SVAyVLVG~Gv~LLL---LSICL~IR~KRr 85 (233)
T PF15345_consen 55 SKTFSVAYVLVGSGVALLL---LSICLSIRDKRR 85 (233)
T ss_pred ceeEEEEEehhhHHHHHHH---HHHHHHHHHHHH
Confidence 4455666666555333322 344444444433
No 299
>PF12768 Rax2: Cortical protein marker for cell polarity
Probab=27.45 E-value=82 Score=23.43 Aligned_cols=8 Identities=50% Similarity=0.663 Sum_probs=2.9
Q ss_pred HHHHHHHH
Q 045986 27 LTIALSLL 34 (148)
Q Consensus 27 i~i~~~l~ 34 (148)
+.++++.+
T Consensus 234 lAiALG~v 241 (281)
T PF12768_consen 234 LAIALGTV 241 (281)
T ss_pred hHHHHHHH
Confidence 33333333
No 300
>PF05810 NinF: NinF protein; InterPro: IPR008712 This family consists of several bacteriophage NinF proteins as well as related sequences from Escherichia coli.
Probab=27.32 E-value=52 Score=18.09 Aligned_cols=25 Identities=16% Similarity=0.562 Sum_probs=16.2
Q ss_pred cccccccccCCCeeeecCCCCccchHHhHHHHHh
Q 045986 99 CVICLEEFVSGDLFRILPFCKHVYHSHCIIRWFS 132 (148)
Q Consensus 99 C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl~ 132 (148)
|+-|-.++...+. .-+..|+.+||.
T Consensus 20 Ca~C~~~L~~~E~---------h~Ce~C~~E~l~ 44 (58)
T PF05810_consen 20 CANCGQKLHPDET---------HVCEECCAEWLV 44 (58)
T ss_pred HhccCcccccchh---------hHHHHHHHHHHh
Confidence 7777665544311 146789999997
No 301
>COG4064 MtrG Tetrahydromethanopterin S-methyltransferase, subunit G [Coenzyme metabolism]
Probab=27.23 E-value=1.3e+02 Score=17.32 Aligned_cols=21 Identities=29% Similarity=0.433 Sum_probs=13.7
Q ss_pred ccCccchhHHHHHHHHHHHHH
Q 045986 16 NRQAEIVLTYTLTIALSLLLL 36 (148)
Q Consensus 16 ~~~~~~~i~~~i~i~~~l~~~ 36 (148)
....++++.|++.+.+.++.+
T Consensus 45 kiGRDIGILYGlVIGlil~~i 65 (75)
T COG4064 45 KIGRDIGILYGLVIGLILCMI 65 (75)
T ss_pred HhcchHHHHHHHHHHHHHHHH
Confidence 344577888888777665543
No 302
>PF09451 ATG27: Autophagy-related protein 27; InterPro: IPR018939 Autophagy is a degradative transport pathway that delivers cytosolic proteins to the lysosome (vacuole) [] and is induced by starvation []. Cytosolic proteins appear inside the vacuole enclosed in autophagic vesicles. Autophagy significantly differs from other transport pathways by using double membrane layered transport intermediates, called autophagosomes [, ]. The breakdown of vesicular transport intermediates is a unique feature of autophagy []. Autophagy can also function in the elimination of invading bacteria and antigens []. There are more than 25 AuTophaGy-related (ATG) genes that are essential for autophagy, although it is still not known how the autophagosome is made. Atg9 is a potential membrane carrier to deliver lipids that are used to form the vesicle. Atg27 is another transmembrane protein, and is a cycling protein []. It acts as an effector of VPS34 phosphatidylinositol 3-phosphate kinase signalling and regulates the cytoplasm to vacuole transport (Cvt) vesicle formation. It is also required for autophagy-dependent cycling of ATG9.
Probab=26.95 E-value=52 Score=24.16 Aligned_cols=16 Identities=19% Similarity=0.117 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHHHHHH
Q 045986 34 LLLIWVYEICIWARDL 49 (148)
Q Consensus 34 ~~~i~~~~~~~~~~~~ 49 (148)
++++.++.+..++.+.
T Consensus 212 l~~~~Y~i~g~~~n~~ 227 (268)
T PF09451_consen 212 LFLAAYLIFGSWYNYN 227 (268)
T ss_pred HHHHHHhhhhhheeec
Confidence 3333334444444443
No 303
>PF05434 Tmemb_9: TMEM9; InterPro: IPR008853 This family contains several eukaryotic transmembrane proteins which are homologous to Homo sapiens transmembrane protein 9 Q9P0T7 from SWISSPROT. The TMEM9 gene encodes a 183 amino-acid protein that contains an N-terminal signal peptide, a single transmembrane region, three potential N-glycosylation sites and three conserved cys-rich domains in the N terminus, but no known functional domains. The protein is highly conserved between species from Caenorhabditis elegans to H. sapiens and belongs to a novel family of transmembrane proteins. The exact function of TMEM9 is unknown although it has been found to be widely expressed and localised to the late endosomes and lysosomes []. Members of this family contain CXCXC repeats IPR004153 from INTERPRO in their N-terminal region.; GO: 0016021 integral to membrane
Probab=26.86 E-value=57 Score=21.87 Aligned_cols=12 Identities=8% Similarity=0.213 Sum_probs=4.8
Q ss_pred HHHHHHHHHHHH
Q 045986 36 LIWVYEICIWAR 47 (148)
Q Consensus 36 ~i~~~~~~~~~~ 47 (148)
+++.+.+=.+++
T Consensus 72 M~fL~~ldPllr 83 (149)
T PF05434_consen 72 MLFLMCLDPLLR 83 (149)
T ss_pred HHHHHHHhHHHh
Confidence 333333334443
No 304
>PF11980 DUF3481: Domain of unknown function (DUF3481); InterPro: IPR022579 This domain of unknown function is located in the C terminus of the eukaryotic neuropilin receptor family of proteins. It is found in association with PF00754 from PFAM, PF00431 from PFAM and PF00629 from PFAM. There are two completely conserved residues (Y and E) that may be functionally important.
Probab=26.84 E-value=1.1e+02 Score=18.47 Aligned_cols=9 Identities=11% Similarity=0.368 Sum_probs=3.5
Q ss_pred hhHHHHHHH
Q 045986 22 VLTYTLTIA 30 (148)
Q Consensus 22 ~i~~~i~i~ 30 (148)
.++|++...
T Consensus 15 ~~yyiiA~g 23 (87)
T PF11980_consen 15 YWYYIIAMG 23 (87)
T ss_pred eeeHHHhhc
Confidence 334444333
No 305
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=26.55 E-value=25 Score=26.96 Aligned_cols=18 Identities=44% Similarity=0.973 Sum_probs=12.0
Q ss_pred eecCCCC---ccchHHhHHHHHhCCCCCcccCC
Q 045986 113 RILPFCK---HVYHSHCIIRWFSDEFTCPICRS 142 (148)
Q Consensus 113 r~lp~C~---H~FH~~Ci~~Wl~~~~~CP~CR~ 142 (148)
|-.. || |.|++. ||-||+
T Consensus 356 RC~~-CGF~a~~l~W~-----------CPsC~~ 376 (389)
T COG2956 356 RCQN-CGFTAHTLYWH-----------CPSCRA 376 (389)
T ss_pred eecc-cCCcceeeeee-----------CCCccc
Confidence 3344 76 777655 899986
No 306
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=26.29 E-value=22 Score=18.35 Aligned_cols=11 Identities=36% Similarity=0.929 Sum_probs=7.6
Q ss_pred CCCcccCCCCC
Q 045986 135 FTCPICRSSIY 145 (148)
Q Consensus 135 ~~CP~CR~~~~ 145 (148)
.+||.|..++.
T Consensus 22 ~~Cp~CG~~~~ 32 (46)
T PRK00398 22 VRCPYCGYRIL 32 (46)
T ss_pred eECCCCCCeEE
Confidence 35888877654
No 307
>cd00029 C1 Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second messenger, released by activation of Phospholipase D. Phorbol Esters (PE) can act as analogues of DAG and mimic its downstream effects in, for example, tumor promotion. Protein Kinases C are activated by DAG/PE, this activation is mediated by their N-terminal conserved region (C1). DAG/PE binding may be phospholipid dependent. C1 domains may also mediate DAG/PE signals in chimaerins (a family of Rac GTPase activating proteins), RasGRPs (exchange factors for Ras/Rap1), and Munc13 isoforms (scaffolding proteins involved in exocytosis).
Probab=26.28 E-value=44 Score=17.02 Aligned_cols=32 Identities=22% Similarity=0.413 Sum_probs=23.0
Q ss_pred cccccccccccC--CCeeeecCCCCccchHHhHHH
Q 045986 97 SECVICLEEFVS--GDLFRILPFCKHVYHSHCIIR 129 (148)
Q Consensus 97 ~~C~ICl~~~~~--~~~vr~lp~C~H~FH~~Ci~~ 129 (148)
..|.+|.+.+.. ....+-.. |+=..|.+|.+.
T Consensus 12 ~~C~~C~~~i~~~~~~~~~C~~-C~~~~H~~C~~~ 45 (50)
T cd00029 12 TFCDVCRKSIWGLFKQGLRCSW-CKVKCHKKCADK 45 (50)
T ss_pred CChhhcchhhhccccceeEcCC-CCCchhhhhhcc
Confidence 469999888764 24455445 888899999764
No 308
>PF00645 zf-PARP: Poly(ADP-ribose) polymerase and DNA-Ligase Zn-finger region; InterPro: IPR001510 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 PARP (Poly(ADP) polymerase) type zinc finger domains. NAD(+) ADP-ribosyltransferase(2.4.2.30 from EC) [, ] is a eukaryotic enzyme that catalyses the covalent attachment of ADP-ribose units from NAD(+) to various nuclear acceptor proteins. This post-translational modification of nuclear proteins is dependent on DNA. It appears to be involved in the regulation of various important cellular processes such as differentiation, proliferation and tumour transformation as well as in the regulation of the molecular events involved in the recovery of the cell from DNA damage. Structurally, NAD(+) ADP-ribosyltransferase consists of three distinct domains: an N-terminal zinc-dependent DNA-binding domain, a central automodification domain and a C-terminal NAD-binding domain. The DNA-binding region contains a pair of PARP-type zinc finger domains which have been shown to bind DNA in a zinc-dependent manner. The PARP-type zinc finger domains seem to bind specifically to single-stranded DNA and to act as a DNA nick sensor. DNA ligase III [] contains, in its N-terminal section, a single copy of a zinc finger highly similar to those of PARP. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0008270 zinc ion binding; PDB: 1UW0_A 3OD8_D 3ODA_A 4AV1_A 2DMJ_A 4DQY_D 2L30_A 2CS2_A 2L31_A 3ODE_B ....
Probab=26.21 E-value=82 Score=18.28 Aligned_cols=36 Identities=25% Similarity=0.541 Sum_probs=24.4
Q ss_pred ccccccccccccCCCeeee-----cCCCC-----ccchHHhHHHHHhC
Q 045986 96 TSECVICLEEFVSGDLFRI-----LPFCK-----HVYHSHCIIRWFSD 133 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~-----lp~C~-----H~FH~~Ci~~Wl~~ 133 (148)
...|-.|-..+..++ +|+ -+ -+ +.+|.+|+..+...
T Consensus 7 Ra~Ck~C~~~I~kg~-lRiG~~~~~~-~~~~~~~~W~H~~C~~~~~~~ 52 (82)
T PF00645_consen 7 RAKCKGCKKKIAKGE-LRIGKIVPSP-EGDGDIPKWYHWDCFFKKQLR 52 (82)
T ss_dssp TEBETTTSCBE-TTS-EEEEEEEEET-TSSCEEEEEEEHHHHHHTTCC
T ss_pred CccCcccCCcCCCCC-EEEEEEeccc-ccCCCCCceECccccccchhh
Confidence 367999999888765 222 22 23 57999999988654
No 309
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=25.90 E-value=39 Score=21.26 Aligned_cols=13 Identities=31% Similarity=0.680 Sum_probs=8.8
Q ss_pred ccccccccccCCC
Q 045986 98 ECVICLEEFVSGD 110 (148)
Q Consensus 98 ~C~ICl~~~~~~~ 110 (148)
-|+.|-++|.-.+
T Consensus 5 ~cp~c~sEytYed 17 (112)
T COG2824 5 PCPKCNSEYTYED 17 (112)
T ss_pred CCCccCCceEEec
Confidence 5888887775433
No 310
>PF11682 DUF3279: Protein of unknown function (DUF3279); InterPro: IPR021696 This family of proteins with unknown function appears to be restricted to Enterobacteriaceae.
Probab=25.82 E-value=42 Score=21.90 Aligned_cols=19 Identities=47% Similarity=1.111 Sum_probs=13.4
Q ss_pred CCccchHHhHHHHHhCCCCCcccCCCCC
Q 045986 118 CKHVYHSHCIIRWFSDEFTCPICRSSIY 145 (148)
Q Consensus 118 C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~ 145 (148)
|+|.||. +.-||.|+.-+.
T Consensus 103 C~~~Y~G---------eK~C~~C~tGiY 121 (128)
T PF11682_consen 103 CGNHYHG---------EKYCPKCGTGIY 121 (128)
T ss_pred CCCccCc---------CEecCCCCCccc
Confidence 6777764 345999988665
No 311
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=25.80 E-value=20 Score=17.40 Aligned_cols=10 Identities=30% Similarity=0.926 Sum_probs=6.1
Q ss_pred CCcccCCCCC
Q 045986 136 TCPICRSSIY 145 (148)
Q Consensus 136 ~CP~CR~~~~ 145 (148)
+||.|..++.
T Consensus 6 ~C~nC~R~v~ 15 (33)
T PF08209_consen 6 ECPNCGRPVA 15 (33)
T ss_dssp E-TTTSSEEE
T ss_pred ECCCCcCCcc
Confidence 4888877653
No 312
>PF14369 zf-RING_3: zinc-finger
Probab=25.77 E-value=31 Score=16.89 Aligned_cols=8 Identities=38% Similarity=0.928 Sum_probs=4.1
Q ss_pred cccccccc
Q 045986 99 CVICLEEF 106 (148)
Q Consensus 99 C~ICl~~~ 106 (148)
|+.|-+.|
T Consensus 24 CP~C~~gF 31 (35)
T PF14369_consen 24 CPRCHGGF 31 (35)
T ss_pred CcCCCCcE
Confidence 55555444
No 313
>PRK10220 hypothetical protein; Provisional
Probab=25.64 E-value=51 Score=20.83 Aligned_cols=25 Identities=32% Similarity=0.644 Sum_probs=14.1
Q ss_pred ccccccccccCCC-eeeecCCCCccc
Q 045986 98 ECVICLEEFVSGD-LFRILPFCKHVY 122 (148)
Q Consensus 98 ~C~ICl~~~~~~~-~vr~lp~C~H~F 122 (148)
.||-|-.+|.-.+ ..-+-|.|+|-+
T Consensus 5 ~CP~C~seytY~d~~~~vCpeC~hEW 30 (111)
T PRK10220 5 HCPKCNSEYTYEDNGMYICPECAHEW 30 (111)
T ss_pred cCCCCCCcceEcCCCeEECCcccCcC
Confidence 5788877764322 334445566654
No 314
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.56 E-value=26 Score=18.67 Aligned_cols=8 Identities=38% Similarity=1.514 Sum_probs=4.6
Q ss_pred CcccCCCC
Q 045986 137 CPICRSSI 144 (148)
Q Consensus 137 CP~CR~~~ 144 (148)
||+|..++
T Consensus 15 CpvCqRPF 22 (54)
T COG4338 15 CPVCQRPF 22 (54)
T ss_pred hhhhcCch
Confidence 66665543
No 315
>TIGR01149 mtrG N5-methyltetrahydromethanopterin:coenzyme M methyltransferase subunit G. coenzyme M methyltransferase subunit G in methanogenic archaea. This methyltranfersae is membrane-associated enzyme complex that uses methyl-transfer reaction to drive sodium-ion pump. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of 'methyl' group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.
Probab=25.48 E-value=1.4e+02 Score=17.26 Aligned_cols=17 Identities=35% Similarity=0.446 Sum_probs=11.1
Q ss_pred cCccchhHHHHHHHHHH
Q 045986 17 RQAEIVLTYTLTIALSL 33 (148)
Q Consensus 17 ~~~~~~i~~~i~i~~~l 33 (148)
...+++|.|++++.+.+
T Consensus 43 ~GRDiGIlYG~viGlli 59 (70)
T TIGR01149 43 VGRDIGILYGLVIGLIL 59 (70)
T ss_pred hhhHHHHHHHHHHHHHH
Confidence 34467788887776644
No 316
>KOG4021 consensus Mitochondrial ribosomal protein S18b [Translation, ribosomal structure and biogenesis]
Probab=24.97 E-value=37 Score=23.86 Aligned_cols=20 Identities=35% Similarity=0.647 Sum_probs=12.9
Q ss_pred HHhHHHHHh-CCCCCcccCCC
Q 045986 124 SHCIIRWFS-DEFTCPICRSS 143 (148)
Q Consensus 124 ~~Ci~~Wl~-~~~~CP~CR~~ 143 (148)
+.||++==. ...-||+||..
T Consensus 97 ktCIrkn~~~~gnpCPICRDe 117 (239)
T KOG4021|consen 97 KTCIRKNGRFLGNPCPICRDE 117 (239)
T ss_pred hHHHhhcCeecCCCCCccccc
Confidence 678876322 24459999974
No 317
>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=24.64 E-value=1.8e+02 Score=18.52 Aligned_cols=16 Identities=25% Similarity=0.534 Sum_probs=11.5
Q ss_pred hCCCCCcccCCCCCCC
Q 045986 132 SDEFTCPICRSSIYLD 147 (148)
Q Consensus 132 ~~~~~CP~CR~~~~~~ 147 (148)
.+...|+.|++++..|
T Consensus 83 Gr~D~CM~C~~pLTLd 98 (114)
T PF11023_consen 83 GRVDACMHCKEPLTLD 98 (114)
T ss_pred chhhccCcCCCcCccC
Confidence 3455688888888765
No 318
>PF05552 TM_helix: Conserved TM helix; InterPro: IPR008910 This alignment represents a conserved transmembrane helix as well as some flanking sequence. It is often found in association with a Mechanosensitive (MS) channel IPR006685 from INTERPRO.; PDB: 2VV5_F 2OAU_E.
Probab=24.62 E-value=1.2e+02 Score=16.01 Aligned_cols=30 Identities=23% Similarity=0.427 Sum_probs=14.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 045986 22 VLTYTLTIALSLLLLIWVYEICIWARDLYQ 51 (148)
Q Consensus 22 ~i~~~i~i~~~l~~~i~~~~~~~~~~~~~~ 51 (148)
.+.|..-++.++++++..+.+..+++...+
T Consensus 11 ii~~lP~iv~AilIl~vG~~va~~v~~~~~ 40 (53)
T PF05552_consen 11 IIAYLPNIVGAILILIVGWWVAKFVRKLVR 40 (53)
T ss_dssp --GGHCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444455555555555555555444
No 319
>PF10954 DUF2755: Protein of unknown function (DUF2755); InterPro: IPR020513 This entry contains membrane proteins with no known function.; GO: 0016021 integral to membrane
Probab=24.36 E-value=1.8e+02 Score=17.75 Aligned_cols=7 Identities=29% Similarity=0.643 Sum_probs=3.4
Q ss_pred hhhhhhc
Q 045986 8 RRLMDLR 14 (148)
Q Consensus 8 ~~~~~~~ 14 (148)
++++..+
T Consensus 52 EhLmQ~Q 58 (100)
T PF10954_consen 52 EHLMQVQ 58 (100)
T ss_pred HHHHHHH
Confidence 4555544
No 320
>PF12132 DUF3587: Protein of unknown function (DUF3587); InterPro: IPR021982 This entry is represented by Hyposoter fugitivus ichnovirus, Gp7; it is a family of uncharacterised viral proteins.
Probab=24.22 E-value=56 Score=23.05 Aligned_cols=14 Identities=29% Similarity=0.762 Sum_probs=11.7
Q ss_pred ccchHHhHHHHHhC
Q 045986 120 HVYHSHCIIRWFSD 133 (148)
Q Consensus 120 H~FH~~Ci~~Wl~~ 133 (148)
|.||..++..||..
T Consensus 165 HHyCs~HV~~WL~~ 178 (199)
T PF12132_consen 165 HHYCSQHVNSWLNN 178 (199)
T ss_pred ChhhHHHHHHHHHH
Confidence 67889999999953
No 321
>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=24.18 E-value=6.9 Score=21.38 Aligned_cols=14 Identities=21% Similarity=0.586 Sum_probs=11.0
Q ss_pred CCCccchHHhHHHH
Q 045986 117 FCKHVYHSHCIIRW 130 (148)
Q Consensus 117 ~C~H~FH~~Ci~~W 130 (148)
.|++.|+..|-.+|
T Consensus 45 ~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 45 SCGTEFCFKCGEPW 58 (64)
T ss_dssp SCCSEECSSSTSES
T ss_pred CCCCcCccccCccc
Confidence 38888888887777
No 322
>PF12729 4HB_MCP_1: Four helix bundle sensory module for signal transduction; InterPro: IPR024478 This entry represents a four-helix bundle that operates as a ubiquitous sensory module in prokaryotic signal-transduction, which is known as four-helix bundles methyl-accepting chemotaxis protein (4HB_MCP) domain. The 4HB_MCP is always found between two predicted transmembrane helices indicating that it detects only extracellular signals. In many cases the domain is associated with a cytoplasmic HAMP domain suggesting that most proteins carrying the bundle might share the mechanism of transmembrane signalling which is well-characterised in E coli chemoreceptors [].
Probab=24.16 E-value=1.7e+02 Score=18.81 Aligned_cols=10 Identities=40% Similarity=0.673 Sum_probs=4.0
Q ss_pred hhHHHHHHHH
Q 045986 22 VLTYTLTIAL 31 (148)
Q Consensus 22 ~i~~~i~i~~ 31 (148)
.+++++++++
T Consensus 9 ~~~f~~~~~l 18 (181)
T PF12729_consen 9 ILGFGLIILL 18 (181)
T ss_pred HHHHHHHHHH
Confidence 3444443333
No 323
>PF05353 Atracotoxin: Delta Atracotoxin; InterPro: IPR008017 Delta atracotoxin produces potentially fatal neurotoxic symptoms in primates by slowing the inactivation of voltage-gated sodium channels []. The structure of atracotoxin comprises a core beta region containing a triple-stranded a thumb-like extension protruding from the beta region and a C-terminal helix. The beta region contains a cystine knot motif, a feature seen in other neurotoxic polypeptides [].; GO: 0019871 sodium channel inhibitor activity, 0009405 pathogenesis, 0005576 extracellular region; PDB: 2ROO_A 1VTX_A 1QDP_A.
Probab=24.04 E-value=3 Score=21.11 Aligned_cols=15 Identities=27% Similarity=1.026 Sum_probs=10.7
Q ss_pred HHhHHHHHhCCCCCc
Q 045986 124 SHCIIRWFSDEFTCP 138 (148)
Q Consensus 124 ~~Ci~~Wl~~~~~CP 138 (148)
.+||..|.+.+.+|-
T Consensus 18 mkCiyAWYnqq~sCq 32 (42)
T PF05353_consen 18 MKCIYAWYNQQSSCQ 32 (42)
T ss_dssp EEEEE-SSGSTEEEE
T ss_pred HHHHHHHHccCCchH
Confidence 368888888888774
No 324
>PF12297 EVC2_like: Ellis van Creveld protein 2 like protein; InterPro: IPR022076 This family of proteins is found in eukaryotes. Proteins in this family are typically between 571 and 1310 amino acids in length. There are two conserved sequence motifs: LPA and ELH. EVC2 is implicated in Ellis van Creveld chondrodysplastic dwarfism in humans. Mutations in this protein can give rise to this congenital condition. LIMBIN is a protein which shares around 80% sequence homology with EVC2 and it is implicated in a similar condition in bovine chondrodysplastic dwarfism.
Probab=24.01 E-value=1.2e+02 Score=24.01 Aligned_cols=24 Identities=13% Similarity=0.152 Sum_probs=13.3
Q ss_pred CccchhHHHHHHHHHHHHHHHHHH
Q 045986 18 QAEIVLTYTLTIALSLLLLIWVYE 41 (148)
Q Consensus 18 ~~~~~i~~~i~i~~~l~~~i~~~~ 41 (148)
.+....+|++.+++++++...+++
T Consensus 63 HGlhaagFfvaflvslVL~~l~~f 86 (429)
T PF12297_consen 63 HGLHAAGFFVAFLVSLVLTWLCFF 86 (429)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHH
Confidence 344566666666666655544443
No 325
>COG0353 RecR Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]
Probab=23.98 E-value=63 Score=22.75 Aligned_cols=18 Identities=22% Similarity=0.429 Sum_probs=13.7
Q ss_pred ccccccccccccCCCeee
Q 045986 96 TSECVICLEEFVSGDLFR 113 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr 113 (148)
.+.|.||.++..+...+.
T Consensus 66 ~d~C~ICsd~~Rd~~~ic 83 (198)
T COG0353 66 SDPCDICSDESRDKSQLC 83 (198)
T ss_pred CCcCcCcCCcccCCceEE
Confidence 468999999988776433
No 326
>PLN02400 cellulose synthase
Probab=23.80 E-value=69 Score=28.58 Aligned_cols=49 Identities=16% Similarity=0.351 Sum_probs=30.0
Q ss_pred ccccccccccccCCC--eeeec-CCCCccchHHhHHHHHhC--CCCCcccCCCCC
Q 045986 96 TSECVICLEEFVSGD--LFRIL-PFCKHVYHSHCIIRWFSD--EFTCPICRSSIY 145 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~--~vr~l-p~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~~~ 145 (148)
...|-||=++...++ ++.+- -.|+-=-|..|.+ .=++ ++.||-||+...
T Consensus 36 gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYE-YERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 36 GQICQICGDDVGVTETGDVFVACNECAFPVCRPCYE-YERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CceeeecccccCcCCCCCEEEEEccCCCccccchhh-eecccCCccCcccCCccc
Confidence 368999998874332 22221 1144448889983 3222 667999998643
No 327
>PF07127 Nodulin_late: Late nodulin protein; InterPro: IPR009810 This family consists of several plant specific late nodulin sequences which are homologous to the Pisum sativum (Garden pea) ENOD3 protein. ENOD3 is expressed in the late stages of root nodule formation and contains two pairs of cysteine residues toward the proteins C terminus which may be involved in metal-binding [].; GO: 0046872 metal ion binding, 0009878 nodule morphogenesis
Probab=23.78 E-value=90 Score=16.71 Aligned_cols=11 Identities=45% Similarity=0.742 Sum_probs=4.7
Q ss_pred hHHHHHHHHHH
Q 045986 23 LTYTLTIALSL 33 (148)
Q Consensus 23 i~~~i~i~~~l 33 (148)
..|++++.+++
T Consensus 7 FvY~mIiflsl 17 (54)
T PF07127_consen 7 FVYAMIIFLSL 17 (54)
T ss_pred hHHHHHHHHHH
Confidence 34444444333
No 328
>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=23.59 E-value=82 Score=26.42 Aligned_cols=15 Identities=0% Similarity=0.162 Sum_probs=6.6
Q ss_pred cchhHHHHHHHHHHH
Q 045986 20 EIVLTYTLTIALSLL 34 (148)
Q Consensus 20 ~~~i~~~i~i~~~l~ 34 (148)
.++|+.++++-++++
T Consensus 268 NlWII~gVlvPv~vV 282 (684)
T PF12877_consen 268 NLWIIAGVLVPVLVV 282 (684)
T ss_pred CeEEEehHhHHHHHH
Confidence 345544544433333
No 329
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.52 E-value=38 Score=22.31 Aligned_cols=41 Identities=29% Similarity=0.674 Sum_probs=23.0
Q ss_pred CCccccccccc-cccCCCeeeecCCCCcc-------chHHhHHHHH-hCCC---CCcccCC
Q 045986 94 KFTSECVICLE-EFVSGDLFRILPFCKHV-------YHSHCIIRWF-SDEF---TCPICRS 142 (148)
Q Consensus 94 ~~~~~C~ICl~-~~~~~~~vr~lp~C~H~-------FH~~Ci~~Wl-~~~~---~CP~CR~ 142 (148)
..+..|-||+. .|.+| |||. |+..|--.-- +++. .|-+||.
T Consensus 63 ~ddatC~IC~KTKFADG--------~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k 115 (169)
T KOG3799|consen 63 GDDATCGICHKTKFADG--------CGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRK 115 (169)
T ss_pred CcCcchhhhhhcccccc--------cCcccchhhhhHHHhcCCeeeeccCceEEeccCCcH
Confidence 34578999985 45555 7765 4455543321 2222 2777764
No 330
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.91 E-value=55 Score=21.29 Aligned_cols=24 Identities=33% Similarity=0.578 Sum_probs=16.0
Q ss_pred ccchHHhHHHHHhCCCCCcccCCCCCC
Q 045986 120 HVYHSHCIIRWFSDEFTCPICRSSIYL 146 (148)
Q Consensus 120 H~FH~~Ci~~Wl~~~~~CP~CR~~~~~ 146 (148)
..|+.+|-..-+ ..||.|.+++--
T Consensus 28 eafcskcgeati---~qcp~csasirg 51 (160)
T COG4306 28 EAFCSKCGEATI---TQCPICSASIRG 51 (160)
T ss_pred HHHHhhhchHHH---hcCCccCCcccc
Confidence 347777766533 359999887743
No 331
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=22.89 E-value=27 Score=27.75 Aligned_cols=32 Identities=19% Similarity=0.242 Sum_probs=19.5
Q ss_pred ccccccccccccCCCeeeecCCC----CccchH--HhHHHHH
Q 045986 96 TSECVICLEEFVSGDLFRILPFC----KHVYHS--HCIIRWF 131 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C----~H~FH~--~Ci~~Wl 131 (148)
+..||||+.+|.+=+ .|. | .|.+-. +=+..|.
T Consensus 15 gflCPiC~~dl~~~~---~L~-~H~d~eH~~ed~~D~lgs~~ 52 (505)
T KOG1842|consen 15 GFLCPICLLDLPNLS---ALN-DHLDVEHFEEDEKDSLGSFK 52 (505)
T ss_pred cccCchHhhhhhhHH---HHH-HHHhhhccccchhhHhhhHH
Confidence 478999999986532 233 3 355554 4555554
No 332
>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=22.79 E-value=50 Score=15.93 Aligned_cols=8 Identities=50% Similarity=1.285 Sum_probs=5.4
Q ss_pred CCCcccCC
Q 045986 135 FTCPICRS 142 (148)
Q Consensus 135 ~~CP~CR~ 142 (148)
..||+|.+
T Consensus 19 ~~CP~Cg~ 26 (34)
T cd00729 19 EKCPICGA 26 (34)
T ss_pred CcCcCCCC
Confidence 46787765
No 333
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=22.55 E-value=19 Score=26.60 Aligned_cols=27 Identities=22% Similarity=0.517 Sum_probs=18.0
Q ss_pred CC-ccchHHhHHHHHhCCC--CCcccCCCC
Q 045986 118 CK-HVYHSHCIIRWFSDEF--TCPICRSSI 144 (148)
Q Consensus 118 C~-H~FH~~Ci~~Wl~~~~--~CP~CR~~~ 144 (148)
|. =.||..||.-=..-.. .||-|+...
T Consensus 240 C~~eWFH~~CVGL~~~PkgkWyC~~C~~~~ 269 (274)
T KOG1973|consen 240 CPIEWFHFTCVGLKTKPKGKWYCPRCKAEN 269 (274)
T ss_pred CCcceEEEeccccccCCCCcccchhhhhhh
Confidence 66 7899999854322222 499998754
No 334
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=22.19 E-value=68 Score=18.00 Aligned_cols=13 Identities=38% Similarity=0.710 Sum_probs=8.6
Q ss_pred CCCCcccCCCCCC
Q 045986 134 EFTCPICRSSIYL 146 (148)
Q Consensus 134 ~~~CP~CR~~~~~ 146 (148)
...||.|-..-++
T Consensus 15 ~~~CP~Cgs~~~T 27 (61)
T PRK08351 15 EDRCPVCGSRDLS 27 (61)
T ss_pred CCcCCCCcCCccc
Confidence 4469999765443
No 335
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=22.19 E-value=59 Score=25.87 Aligned_cols=32 Identities=28% Similarity=0.671 Sum_probs=19.5
Q ss_pred cccccccccccCC-CeeeecC--CCCccchHHhHHH
Q 045986 97 SECVICLEEFVSG-DLFRILP--FCKHVYHSHCIIR 129 (148)
Q Consensus 97 ~~C~ICl~~~~~~-~~vr~lp--~C~H~FH~~Ci~~ 129 (148)
=.|.||.. |..+ +..+.+. .|||.-|.+|--.
T Consensus 129 C~C~iC~k-fD~~~n~~~Wi~Cd~CgH~cH~dCALr 163 (446)
T PF07227_consen 129 CMCCICSK-FDDNKNTCSWIGCDVCGHWCHLDCALR 163 (446)
T ss_pred CCccccCC-cccCCCCeeEEeccCCCceehhhhhcc
Confidence 35888854 6433 2333333 1799999999543
No 336
>PF02132 RecR: RecR protein; InterPro: IPR023628 The bacterial protein RecR seems to play a role in a recombinational process of DNA repair []. It may act with RecF and RecO. RecR's structure consists of a N-terminal helix-hairpin-helix (HhH) motif, followed by a Cys4 zinc-finger motif, a Toprim domain and a Walker B motif []. This entry represents the C4-type zinc finger.; PDB: 1VDD_D 2V1C_B.
Probab=22.15 E-value=27 Score=17.65 Aligned_cols=9 Identities=33% Similarity=0.933 Sum_probs=5.5
Q ss_pred ccccccccc
Q 045986 97 SECVICLEE 105 (148)
Q Consensus 97 ~~C~ICl~~ 105 (148)
+.|+||.++
T Consensus 30 ~~C~IC~d~ 38 (41)
T PF02132_consen 30 DPCEICSDP 38 (41)
T ss_dssp SS-HHHH-T
T ss_pred CcCcCCCCC
Confidence 579999775
No 337
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=22.06 E-value=55 Score=16.89 Aligned_cols=11 Identities=27% Similarity=0.914 Sum_probs=7.1
Q ss_pred CCCCcccCCCC
Q 045986 134 EFTCPICRSSI 144 (148)
Q Consensus 134 ~~~CP~CR~~~ 144 (148)
...||+|-.++
T Consensus 8 ~K~C~~C~rpf 18 (42)
T PF10013_consen 8 SKICPVCGRPF 18 (42)
T ss_pred CCcCcccCCcc
Confidence 44588886655
No 338
>PF06155 DUF971: Protein of unknown function (DUF971); InterPro: IPR010376 This domain is found in gamma-butyrobetaine dioxygenase and trimethyllysine dioxygenase proteins.; PDB: 2L6N_A 3LUU_A 2L6P_A 3MS5_A 3O2G_A 3N6W_A.
Probab=22.02 E-value=54 Score=19.51 Aligned_cols=16 Identities=31% Similarity=0.968 Sum_probs=12.0
Q ss_pred HHHHhCCCCCcccCCC
Q 045986 128 IRWFSDEFTCPICRSS 143 (148)
Q Consensus 128 ~~Wl~~~~~CP~CR~~ 143 (148)
-.||+.+=.|+.|+.+
T Consensus 26 ~~~LRd~C~Ca~C~~~ 41 (89)
T PF06155_consen 26 YEWLRDNCPCAECRGE 41 (89)
T ss_dssp HHHHHHT-SSSSTCST
T ss_pred HHHHhccCCChhhccc
Confidence 3688889999999853
No 339
>TIGR01195 oadG_fam sodium pump decarboxylases, gamma subunit. Most sequences scoring between the noise and trusted cutoffs are eukaryotic sodium channel proteins.
Probab=21.97 E-value=1.9e+02 Score=17.15 Aligned_cols=6 Identities=17% Similarity=0.196 Sum_probs=2.2
Q ss_pred HHHhhh
Q 045986 48 DLYQRM 53 (148)
Q Consensus 48 ~~~~~~ 53 (148)
....+.
T Consensus 34 ~~~~~~ 39 (82)
T TIGR01195 34 KVVGRK 39 (82)
T ss_pred HHHhcc
Confidence 333333
No 340
>KOG2682 consensus NAD-dependent histone deacetylases and class I sirtuins (SIR2 family) [Chromatin structure and dynamics; Transcription]
Probab=21.92 E-value=84 Score=23.06 Aligned_cols=30 Identities=20% Similarity=0.466 Sum_probs=19.4
Q ss_pred CCccchHHhHHHHHhC--CCCCcccCCCCCCC
Q 045986 118 CKHVYHSHCIIRWFSD--EFTCPICRSSIYLD 147 (148)
Q Consensus 118 C~H~FH~~Ci~~Wl~~--~~~CP~CR~~~~~~ 147 (148)
|+|.|-.+=++.-+.. -+.|++|..-+.|+
T Consensus 159 C~~~yp~e~~ka~i~~~~vpkC~vC~~lVKP~ 190 (314)
T KOG2682|consen 159 CRHEYPLEWMKAKIMSEVVPKCEVCQGLVKPD 190 (314)
T ss_pred hcCcCCHHHHHHHHHhccCCCCchhhcccccc
Confidence 7777766555554444 34699998766654
No 341
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=21.82 E-value=1.2e+02 Score=19.65 Aligned_cols=12 Identities=8% Similarity=0.379 Sum_probs=4.7
Q ss_pred hHHHHHHHHHHH
Q 045986 23 LTYTLTIALSLL 34 (148)
Q Consensus 23 i~~~i~i~~~l~ 34 (148)
++++++++++++
T Consensus 4 i~lvvG~iiG~~ 15 (128)
T PF06295_consen 4 IGLVVGLIIGFL 15 (128)
T ss_pred HHHHHHHHHHHH
Confidence 334444433333
No 342
>PF03850 Tfb4: Transcription factor Tfb4; InterPro: IPR004600 Members of this family are part of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. The core-TFIIH basal transcription factor complex has six subunits, this is the p34 subunit.; GO: 0006281 DNA repair, 0006355 regulation of transcription, DNA-dependent, 0000439 core TFIIH complex
Probab=21.67 E-value=46 Score=24.69 Aligned_cols=13 Identities=31% Similarity=0.741 Sum_probs=8.8
Q ss_pred ccccccccccccC
Q 045986 96 TSECVICLEEFVS 108 (148)
Q Consensus 96 ~~~C~ICl~~~~~ 108 (148)
+..|+|||.-|-+
T Consensus 253 g~vCsvCLsIfc~ 265 (276)
T PF03850_consen 253 GYVCSVCLSIFCE 265 (276)
T ss_pred eeEchhhhhhhhC
Confidence 4678888876633
No 343
>cd01408 SIRT1 SIRT1: Eukaryotic group (class1) which includes human sirtuins SIRT1-3 and yeast Hst1-4; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, and life span. The most-studied function, gene silencing, involves the inactivation of chromosome domains containing key regulatory genes by packaging them into a specialized chromatin structure that is inaccessible to DNA-binding proteins. The nuclear SIRT1 has been shown to target the p53 tumor suppressor protein for deacetylation to suppress DNA damage, and the cytoplasmic SIRT2 homolog has been shown to target alpha-tubulin for deacetylation for the maintenance of cell integrity.
Probab=21.59 E-value=1.2e+02 Score=21.82 Aligned_cols=30 Identities=27% Similarity=0.495 Sum_probs=16.4
Q ss_pred CCccchHHhHHHHHhC--CCCCcccCCCCCCC
Q 045986 118 CKHVYHSHCIIRWFSD--EFTCPICRSSIYLD 147 (148)
Q Consensus 118 C~H~FH~~Ci~~Wl~~--~~~CP~CR~~~~~~ 147 (148)
|+|.|-.+=+...+.. -+.||.|...+-|+
T Consensus 122 C~~~~~~~~~~~~~~~~~~p~C~~Cgg~lrP~ 153 (235)
T cd01408 122 CKHKYPGDWMREDIFNQEVPKCPRCGGLVKPD 153 (235)
T ss_pred CCCcCCHHHHHHHHhCCCCccCCCCCCCccCc
Confidence 6665543222222222 35699998777654
No 344
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=21.48 E-value=25 Score=26.11 Aligned_cols=9 Identities=33% Similarity=1.125 Sum_probs=4.5
Q ss_pred CcccCCCCC
Q 045986 137 CPICRSSIY 145 (148)
Q Consensus 137 CP~CR~~~~ 145 (148)
||.|+...+
T Consensus 132 C~~cg~~~f 140 (279)
T COG2816 132 CPKCGHEHF 140 (279)
T ss_pred CCCCCCccC
Confidence 555555443
No 345
>KOG0230 consensus Phosphatidylinositol-4-phosphate 5-kinase and related FYVE finger-containing proteins [Signal transduction mechanisms]
Probab=21.39 E-value=40 Score=30.99 Aligned_cols=21 Identities=24% Similarity=0.455 Sum_probs=16.3
Q ss_pred eeeecCCCCccchHHhHHHHHh
Q 045986 111 LFRILPFCKHVYHSHCIIRWFS 132 (148)
Q Consensus 111 ~vr~lp~C~H~FH~~Ci~~Wl~ 132 (148)
..|+-+ |||.||.+|+.-..-
T Consensus 875 ~~R~~~-C~Hsl~rD~L~ffgf 895 (1598)
T KOG0230|consen 875 ANRVAS-CGHSLHRDCLRFFGF 895 (1598)
T ss_pred cccccC-Ccchhhhhhhhhccc
Confidence 445556 999999999987653
No 346
>PF15298 AJAP1_PANP_C: AJAP1/PANP C-terminus
Probab=21.38 E-value=47 Score=23.34 Aligned_cols=14 Identities=29% Similarity=0.534 Sum_probs=5.5
Q ss_pred chhHHHHHHHHHHH
Q 045986 21 IVLTYTLTIALSLL 34 (148)
Q Consensus 21 ~~i~~~i~i~~~l~ 34 (148)
+.|...++++++.+
T Consensus 102 iTITvSlImViaAl 115 (205)
T PF15298_consen 102 ITITVSLIMVIAAL 115 (205)
T ss_pred EEEeeehhHHHHHh
Confidence 33333344443333
No 347
>PF09577 Spore_YpjB: Sporulation protein YpjB (SpoYpjB); InterPro: IPR014231 Proteins in thie entry, typified by YpjB, are restricted to a subset of the endospore-forming bacteria which includes Bacillus species, but not species. In Bacillus subtilis, ypjB was found to be part of the sigma-E regulon []. Sigma-E is a sporulation sigma factor that regulates expression in the mother cell compartment. Null mutants of ypjB show a sporulation defect, but this gene is not, however, a part of the endospore formation minimal gene set.
Probab=21.36 E-value=3.3e+02 Score=19.76 Aligned_cols=23 Identities=17% Similarity=0.268 Sum_probs=10.6
Q ss_pred hhhhhhccccCccchhHHHHHHH
Q 045986 8 RRLMDLRSNRQAEIVLTYTLTIA 30 (148)
Q Consensus 8 ~~~~~~~~~~~~~~~i~~~i~i~ 30 (148)
+.+++.........++++++++.
T Consensus 184 ~~lF~~~k~d~~dpsl~Wv~l~i 206 (232)
T PF09577_consen 184 QKLFDGVKEDEADPSLIWVMLSI 206 (232)
T ss_pred HHHhCcccccccccchHHHHHHH
Confidence 34444444444445555554433
No 348
>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=21.32 E-value=51 Score=24.64 Aligned_cols=12 Identities=25% Similarity=0.365 Sum_probs=5.1
Q ss_pred hhhhccccCccc
Q 045986 10 LMDLRSNRQAEI 21 (148)
Q Consensus 10 ~~~~~~~~~~~~ 21 (148)
+...+|+.+...
T Consensus 262 l~~~SSnss~S~ 273 (305)
T PF04639_consen 262 LITKSSNSSKSV 273 (305)
T ss_pred ccccccCccchh
Confidence 334444444433
No 349
>PRK01026 tetrahydromethanopterin S-methyltransferase subunit G; Provisional
Probab=21.18 E-value=1.9e+02 Score=17.03 Aligned_cols=19 Identities=32% Similarity=0.475 Sum_probs=11.8
Q ss_pred cCccchhHHHHHHHHHHHH
Q 045986 17 RQAEIVLTYTLTIALSLLL 35 (148)
Q Consensus 17 ~~~~~~i~~~i~i~~~l~~ 35 (148)
...++++.|++++.+.+++
T Consensus 46 vGRDiGIlYG~viGlli~~ 64 (77)
T PRK01026 46 VGRDIGILYGLVIGLLIVL 64 (77)
T ss_pred hhhHHHHHHHHHHHHHHHH
Confidence 3446778888776655443
No 350
>CHL00038 psbL photosystem II protein L
Probab=20.96 E-value=1.3e+02 Score=14.98 Aligned_cols=15 Identities=27% Similarity=0.410 Sum_probs=7.1
Q ss_pred hhHHHHHHHHHHHHH
Q 045986 22 VLTYTLTIALSLLLL 36 (148)
Q Consensus 22 ~i~~~i~i~~~l~~~ 36 (148)
++.++++.+.++.++
T Consensus 17 SLy~GLLlifvl~vl 31 (38)
T CHL00038 17 SLYWGLLLIFVLAVL 31 (38)
T ss_pred hHHHHHHHHHHHHHH
Confidence 455555444444443
No 351
>PF11353 DUF3153: Protein of unknown function (DUF3153); InterPro: IPR021499 This family of proteins with unknown function appear to be restricted to Cyanobacteria. Some members are annotated as membrane proteins however this cannot be confirmed.
Probab=20.77 E-value=1.5e+02 Score=20.80 Aligned_cols=16 Identities=13% Similarity=0.164 Sum_probs=7.4
Q ss_pred HHHHHHHHHHHHHHHH
Q 045986 35 LLIWVYEICIWARDLY 50 (148)
Q Consensus 35 ~~i~~~~~~~~~~~~~ 50 (148)
+++.++.+..++|+.+
T Consensus 191 ~I~~l~~~~~~l~~~r 206 (209)
T PF11353_consen 191 LIVLLILLGFLLRRRR 206 (209)
T ss_pred HHHHHHHHHHHHHHhh
Confidence 3333344445555544
No 352
>PF14143 YrhC: YrhC-like protein
Probab=20.75 E-value=1.9e+02 Score=16.81 Aligned_cols=13 Identities=15% Similarity=0.378 Sum_probs=6.3
Q ss_pred chhhhhhhhhhcc
Q 045986 3 TLFVIRRLMDLRS 15 (148)
Q Consensus 3 ~~~~~~~~~~~~~ 15 (148)
.|+.|..+.....
T Consensus 22 ~FlYiG~viP~~~ 34 (72)
T PF14143_consen 22 TFLYIGTVIPIGA 34 (72)
T ss_pred HHHHHHhhCCccc
Confidence 3455555554443
No 353
>PRK13743 conjugal transfer protein TrbF; Provisional
Probab=20.39 E-value=44 Score=21.79 Aligned_cols=14 Identities=29% Similarity=0.619 Sum_probs=10.9
Q ss_pred CccchHHhHHHHHh
Q 045986 119 KHVYHSHCIIRWFS 132 (148)
Q Consensus 119 ~H~FH~~Ci~~Wl~ 132 (148)
-|.+-..|||+|..
T Consensus 58 M~~iFd~CIDsWkA 71 (141)
T PRK13743 58 MHSIFDACIDSWKA 71 (141)
T ss_pred HHHHHHHHHHhhhc
Confidence 47777889999864
No 354
>PRK12722 transcriptional activator FlhC; Provisional
Probab=20.29 E-value=44 Score=23.31 Aligned_cols=10 Identities=30% Similarity=1.112 Sum_probs=7.5
Q ss_pred CCCCCcccCC
Q 045986 133 DEFTCPICRS 142 (148)
Q Consensus 133 ~~~~CP~CR~ 142 (148)
.+..||+|.-
T Consensus 153 ~~f~CplC~~ 162 (187)
T PRK12722 153 GSFVCGLCQP 162 (187)
T ss_pred CCCcCCCCCC
Confidence 4667999964
No 355
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=20.24 E-value=42 Score=28.92 Aligned_cols=45 Identities=16% Similarity=0.379 Sum_probs=29.1
Q ss_pred ccccccccccccCCCeeeecCCCCccchHHhHHHHH-hC-----CCCCcccCC
Q 045986 96 TSECVICLEEFVSGDLFRILPFCKHVYHSHCIIRWF-SD-----EFTCPICRS 142 (148)
Q Consensus 96 ~~~C~ICl~~~~~~~~vr~lp~C~H~FH~~Ci~~Wl-~~-----~~~CP~CR~ 142 (148)
..-|..|....-+ ..-+-+.|||.++-+|++.|- +. -..|+.|+.
T Consensus 229 ~~mC~~C~~tlfn--~hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~ 279 (889)
T KOG1356|consen 229 REMCDRCETTLFN--IHWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWL 279 (889)
T ss_pred chhhhhhcccccc--eeEEccccCCeeeecchhhccccchHhHhhhhhhHHHH
Confidence 3679999765322 123334499999999999995 11 123777764
No 356
>PF05265 DUF723: Protein of unknown function (DUF723); InterPro: IPR007929 This family contains several uncharacterised proteins from Neisseria meningitidis. These proteins may have a role in DNA binding.
Probab=20.12 E-value=87 Score=17.54 Aligned_cols=19 Identities=16% Similarity=0.620 Sum_probs=12.4
Q ss_pred chHHhHHHHHhCCCCCccc
Q 045986 122 YHSHCIIRWFSDEFTCPIC 140 (148)
Q Consensus 122 FH~~Ci~~Wl~~~~~CP~C 140 (148)
|+..=.+..+.++.-||.|
T Consensus 41 ~~~s~~~~~~~sk~GCP~C 59 (60)
T PF05265_consen 41 FTCSTFNSFIKSKHGCPEC 59 (60)
T ss_pred EEeccHHhhhhhccCCCCC
Confidence 4444455666666679998
Done!