Query 026652
Match_columns 235
No_of_seqs 311 out of 1877
Neff 7.3
Searched_HMMs 46136
Date Fri Mar 29 10:50:17 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026652.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026652hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.6 5.8E-17 1.3E-21 144.9 3.3 79 152-233 203-282 (348)
2 PF13639 zf-RING_2: Ring finge 99.6 3.5E-16 7.6E-21 100.4 2.0 44 181-225 1-44 (44)
3 PHA02929 N1R/p28-like protein; 99.5 2.1E-14 4.6E-19 123.3 5.2 77 153-229 147-227 (238)
4 PF12678 zf-rbx1: RING-H2 zinc 99.3 5.9E-13 1.3E-17 94.7 3.6 45 180-225 19-73 (73)
5 COG5540 RING-finger-containing 99.3 5.1E-13 1.1E-17 116.3 3.6 52 178-230 321-373 (374)
6 COG5243 HRD1 HRD ubiquitin lig 99.3 6.7E-13 1.5E-17 118.3 3.0 52 177-229 284-345 (491)
7 PF13920 zf-C3HC4_3: Zinc fing 99.2 1.6E-11 3.6E-16 80.7 3.0 47 180-230 2-49 (50)
8 PHA02926 zinc finger-like prot 99.2 3.7E-11 7.9E-16 101.0 5.4 57 173-229 163-230 (242)
9 PLN03208 E3 ubiquitin-protein 99.1 2.7E-11 5.8E-16 100.5 3.6 51 177-231 15-81 (193)
10 PF13923 zf-C3HC4_2: Zinc fing 99.1 7.4E-11 1.6E-15 73.6 2.9 39 183-224 1-39 (39)
11 PF12861 zf-Apc11: Anaphase-pr 99.1 8.3E-11 1.8E-15 85.1 3.1 52 179-230 20-83 (85)
12 cd00162 RING RING-finger (Real 99.1 1.1E-10 2.5E-15 73.5 3.4 44 182-228 1-45 (45)
13 KOG0317 Predicted E3 ubiquitin 99.1 8.7E-11 1.9E-15 102.0 3.5 51 178-232 237-287 (293)
14 KOG0320 Predicted E3 ubiquitin 99.0 2.9E-10 6.2E-15 92.5 2.7 52 178-231 129-180 (187)
15 PF14634 zf-RING_5: zinc-RING 98.9 8.5E-10 1.8E-14 70.7 3.2 44 182-226 1-44 (44)
16 KOG0802 E3 ubiquitin ligase [P 98.9 4.4E-10 9.6E-15 107.8 2.4 52 178-230 289-342 (543)
17 smart00504 Ubox Modified RING 98.9 1.1E-09 2.3E-14 75.0 3.5 46 181-230 2-47 (63)
18 PF15227 zf-C3HC4_4: zinc fing 98.9 6.7E-10 1.5E-14 70.5 2.2 38 183-224 1-42 (42)
19 PF00097 zf-C3HC4: Zinc finger 98.9 8.5E-10 1.8E-14 69.3 2.4 39 183-224 1-41 (41)
20 KOG0823 Predicted E3 ubiquitin 98.9 8.6E-10 1.9E-14 93.2 2.8 52 177-232 44-98 (230)
21 smart00184 RING Ring finger. E 98.8 4.1E-09 8.8E-14 64.0 3.1 38 183-224 1-39 (39)
22 TIGR00599 rad18 DNA repair pro 98.7 1.2E-08 2.7E-13 93.6 3.7 51 177-231 23-73 (397)
23 COG5194 APC11 Component of SCF 98.6 1.5E-08 3.3E-13 71.8 2.3 29 201-229 53-81 (88)
24 KOG1493 Anaphase-promoting com 98.6 1E-08 2.2E-13 72.1 0.7 51 179-229 19-81 (84)
25 KOG2164 Predicted E3 ubiquitin 98.5 6.6E-08 1.4E-12 90.0 3.2 48 180-231 186-238 (513)
26 KOG0828 Predicted E3 ubiquitin 98.5 4E-08 8.6E-13 90.8 1.7 51 179-230 570-635 (636)
27 COG5574 PEX10 RING-finger-cont 98.5 5.9E-08 1.3E-12 83.6 2.4 50 179-232 214-265 (271)
28 KOG1734 Predicted RING-contain 98.5 3.3E-08 7.1E-13 85.3 0.6 50 179-229 223-281 (328)
29 PF11793 FANCL_C: FANCL C-term 98.5 3.4E-08 7.4E-13 69.6 0.2 51 180-230 2-67 (70)
30 smart00744 RINGv The RING-vari 98.4 1.6E-07 3.5E-12 61.5 2.9 42 182-225 1-49 (49)
31 PF13445 zf-RING_UBOX: RING-ty 98.4 1.6E-07 3.5E-12 59.8 2.6 38 183-222 1-43 (43)
32 PF04564 U-box: U-box domain; 98.4 1.7E-07 3.7E-12 66.5 2.1 49 179-231 3-52 (73)
33 KOG0287 Postreplication repair 98.3 1.3E-07 2.7E-12 84.1 1.0 51 177-231 20-70 (442)
34 COG5432 RAD18 RING-finger-cont 98.3 2.7E-07 5.8E-12 80.5 2.1 48 178-229 23-70 (391)
35 COG5219 Uncharacterized conser 98.3 2.6E-07 5.6E-12 91.0 1.6 53 177-229 1466-1523(1525)
36 KOG2177 Predicted E3 ubiquitin 98.3 3.7E-07 7.9E-12 78.7 2.4 46 177-226 10-55 (386)
37 KOG0804 Cytoplasmic Zn-finger 98.2 4.8E-07 1E-11 83.0 1.7 49 178-229 173-222 (493)
38 KOG4172 Predicted E3 ubiquitin 98.1 2.8E-07 6.1E-12 60.8 -1.0 52 180-235 7-60 (62)
39 PF14835 zf-RING_6: zf-RING of 98.1 6.7E-07 1.5E-11 61.3 0.8 48 177-229 4-51 (65)
40 KOG2930 SCF ubiquitin ligase, 98.1 2.1E-06 4.6E-11 63.9 2.3 48 180-227 46-106 (114)
41 KOG4265 Predicted E3 ubiquitin 98.0 2.4E-06 5.1E-11 76.7 2.4 49 178-230 288-337 (349)
42 KOG1039 Predicted E3 ubiquitin 98.0 2.9E-06 6.4E-11 76.7 2.7 52 178-229 159-221 (344)
43 KOG0311 Predicted E3 ubiquitin 98.0 7.3E-07 1.6E-11 79.7 -1.3 52 177-231 40-92 (381)
44 KOG4445 Uncharacterized conser 98.0 1.5E-06 3.3E-11 76.1 -0.3 94 139-233 55-190 (368)
45 KOG0978 E3 ubiquitin ligase in 97.9 5.6E-06 1.2E-10 80.5 1.5 52 177-232 640-692 (698)
46 KOG0825 PHD Zn-finger protein 97.7 6.2E-06 1.4E-10 80.2 -0.2 50 179-229 122-171 (1134)
47 KOG0297 TNF receptor-associate 97.6 2.4E-05 5.2E-10 72.4 2.2 54 177-233 18-71 (391)
48 PF11789 zf-Nse: Zinc-finger o 97.5 4.4E-05 9.5E-10 51.6 1.1 42 179-223 10-53 (57)
49 KOG1941 Acetylcholine receptor 97.3 6.3E-05 1.4E-09 68.3 0.8 47 180-227 365-414 (518)
50 PF14570 zf-RING_4: RING/Ubox 97.3 0.00024 5.2E-09 46.1 2.7 45 183-228 1-47 (48)
51 KOG1785 Tyrosine kinase negati 97.2 0.00012 2.7E-09 66.6 1.5 48 181-232 370-419 (563)
52 KOG2879 Predicted E3 ubiquitin 97.2 0.00031 6.7E-09 61.2 3.4 49 178-229 237-287 (298)
53 KOG4159 Predicted E3 ubiquitin 97.2 0.00025 5.4E-09 65.5 2.7 49 178-230 82-130 (398)
54 KOG1814 Predicted E3 ubiquitin 97.0 0.0006 1.3E-08 62.5 3.6 48 178-226 182-237 (445)
55 KOG2660 Locus-specific chromos 97.0 0.00019 4E-09 64.0 0.3 52 177-231 12-63 (331)
56 KOG4692 Predicted E3 ubiquitin 97.0 0.00046 1E-08 62.1 2.7 49 178-230 420-468 (489)
57 KOG1813 Predicted E3 ubiquitin 96.9 0.00036 7.7E-09 61.4 1.2 47 181-231 242-288 (313)
58 PHA02862 5L protein; Provision 96.9 0.00074 1.6E-08 53.6 2.8 45 181-229 3-53 (156)
59 KOG1428 Inhibitor of type V ad 96.8 0.00092 2E-08 69.2 3.2 53 176-229 3482-3544(3738)
60 KOG3970 Predicted E3 ubiquitin 96.7 0.0015 3.2E-08 55.5 3.5 53 178-232 48-108 (299)
61 COG5152 Uncharacterized conser 96.7 0.0007 1.5E-08 56.4 1.2 44 181-228 197-240 (259)
62 KOG1952 Transcription factor N 96.6 0.001 2.2E-08 65.8 2.3 50 179-228 190-246 (950)
63 KOG3039 Uncharacterized conser 96.6 0.0018 3.9E-08 55.7 3.3 53 180-232 221-273 (303)
64 PHA02825 LAP/PHD finger-like p 96.6 0.002 4.2E-08 52.1 3.1 48 178-229 6-59 (162)
65 KOG2114 Vacuolar assembly/sort 96.5 0.002 4.3E-08 63.8 3.3 44 179-228 839-882 (933)
66 PHA03096 p28-like protein; Pro 96.3 0.0019 4.2E-08 57.3 1.9 36 181-216 179-218 (284)
67 PF10367 Vps39_2: Vacuolar sor 96.3 0.0014 3E-08 49.0 0.8 34 177-212 75-108 (109)
68 KOG1002 Nucleotide excision re 96.3 0.0018 3.9E-08 61.1 1.6 49 178-230 534-587 (791)
69 KOG0826 Predicted E3 ubiquitin 96.3 0.0031 6.6E-08 56.4 2.7 49 178-229 298-346 (357)
70 PF12906 RINGv: RING-variant d 96.2 0.0036 7.8E-08 40.5 2.2 41 183-224 1-47 (47)
71 KOG0801 Predicted E3 ubiquitin 96.1 0.0017 3.7E-08 52.5 0.3 31 177-208 174-204 (205)
72 PF05883 Baculo_RING: Baculovi 96.1 0.0028 6.2E-08 49.8 1.5 38 180-218 26-69 (134)
73 PF13436 Gly-zipper_OmpA: Glyc 96.0 0.0047 1E-07 47.8 2.3 39 51-90 54-92 (118)
74 KOG3268 Predicted E3 ubiquitin 96.0 0.0045 9.8E-08 50.9 2.3 52 181-232 166-231 (234)
75 PF14447 Prok-RING_4: Prokaryo 95.9 0.004 8.7E-08 41.4 1.3 46 181-232 8-53 (55)
76 KOG1571 Predicted E3 ubiquitin 95.9 0.0027 5.9E-08 57.3 0.6 47 177-230 302-348 (355)
77 COG5175 MOT2 Transcriptional r 95.7 0.0072 1.6E-07 54.3 2.5 56 179-235 13-70 (480)
78 PF04641 Rtf2: Rtf2 RING-finge 95.6 0.012 2.5E-07 51.6 3.7 53 178-231 111-163 (260)
79 PF13441 Gly-zipper_YMGG: YMGG 95.6 0.0097 2.1E-07 38.1 2.1 33 52-89 6-38 (45)
80 COG5236 Uncharacterized conser 95.4 0.012 2.7E-07 53.0 3.0 47 177-227 58-106 (493)
81 KOG1940 Zn-finger protein [Gen 95.4 0.0042 9.2E-08 54.7 0.1 50 180-231 158-208 (276)
82 PF03854 zf-P11: P-11 zinc fin 95.3 0.0071 1.5E-07 38.9 0.9 44 182-231 4-48 (50)
83 PF13441 Gly-zipper_YMGG: YMGG 94.9 0.012 2.6E-07 37.7 1.0 34 50-89 8-42 (45)
84 KOG4275 Predicted E3 ubiquitin 94.8 0.0046 1E-07 54.5 -1.3 43 180-230 300-343 (350)
85 COG5222 Uncharacterized conser 94.7 0.019 4.1E-07 50.9 2.2 43 181-226 275-318 (427)
86 PF05433 Rick_17kDa_Anti: Glyc 94.6 0.012 2.6E-07 37.2 0.4 37 54-92 4-40 (42)
87 PF08746 zf-RING-like: RING-li 94.6 0.026 5.6E-07 35.8 2.0 41 183-224 1-43 (43)
88 KOG1100 Predicted E3 ubiquitin 94.6 0.02 4.3E-07 48.6 1.8 44 182-233 160-204 (207)
89 PF13436 Gly-zipper_OmpA: Glyc 94.5 0.026 5.5E-07 43.7 2.2 39 51-90 50-88 (118)
90 PF13488 Gly-zipper_Omp: Glyci 94.5 0.018 4E-07 37.0 1.1 36 53-89 3-38 (46)
91 PF13488 Gly-zipper_Omp: Glyci 94.4 0.019 4.2E-07 36.9 1.1 35 55-90 1-35 (46)
92 PF14446 Prok-RING_1: Prokaryo 94.2 0.05 1.1E-06 36.1 2.9 45 179-227 4-50 (54)
93 KOG2932 E3 ubiquitin ligase in 94.2 0.018 4E-07 51.2 0.9 44 181-229 91-134 (389)
94 PF10272 Tmpp129: Putative tra 94.0 0.083 1.8E-06 48.4 4.7 53 178-230 269-352 (358)
95 KOG0827 Predicted E3 ubiquitin 93.9 0.0043 9.4E-08 56.6 -3.6 50 181-231 197-247 (465)
96 PF07800 DUF1644: Protein of u 93.7 0.081 1.8E-06 42.8 3.7 38 179-216 1-47 (162)
97 KOG3002 Zn finger protein [Gen 93.7 0.046 1E-06 48.9 2.5 47 178-230 46-92 (299)
98 KOG1645 RING-finger-containing 93.5 0.049 1.1E-06 50.2 2.4 29 200-228 25-55 (463)
99 PRK10510 putative outer membra 93.3 0.052 1.1E-06 46.4 2.1 39 52-90 38-78 (219)
100 KOG0298 DEAD box-containing he 93.1 0.035 7.6E-07 57.5 0.9 47 177-227 1150-1197(1394)
101 KOG1001 Helicase-like transcri 93.0 0.041 8.8E-07 54.4 1.2 44 181-229 455-500 (674)
102 KOG2034 Vacuolar sorting prote 93.0 0.068 1.5E-06 53.6 2.7 37 177-215 814-850 (911)
103 COG5220 TFB3 Cdk activating ki 92.8 0.042 9.1E-07 47.3 0.8 49 179-227 9-62 (314)
104 KOG3053 Uncharacterized conser 92.4 0.053 1.1E-06 47.1 0.8 52 177-229 17-82 (293)
105 KOG3161 Predicted E3 ubiquitin 91.8 0.055 1.2E-06 52.5 0.3 45 179-226 10-54 (861)
106 PF05290 Baculo_IE-1: Baculovi 91.3 0.18 4E-06 39.6 2.8 55 179-233 79-136 (140)
107 PF07975 C1_4: TFIIH C1-like d 90.4 0.22 4.7E-06 32.8 2.0 43 183-225 2-50 (51)
108 PRK11280 hypothetical protein; 90.4 0.15 3.3E-06 41.8 1.6 38 55-92 66-105 (170)
109 PRK10540 lipoprotein; Provisio 90.3 0.4 8.6E-06 33.8 3.5 36 53-92 34-69 (72)
110 KOG4362 Transcriptional regula 90.1 0.083 1.8E-06 51.9 -0.2 50 178-231 19-71 (684)
111 KOG1609 Protein involved in mR 90.0 0.16 3.5E-06 45.0 1.6 49 180-229 78-134 (323)
112 PF02891 zf-MIZ: MIZ/SP-RING z 89.7 0.16 3.5E-06 33.1 1.0 43 181-227 3-50 (50)
113 KOG2817 Predicted E3 ubiquitin 89.7 0.27 5.9E-06 45.2 2.8 49 178-227 332-383 (394)
114 PF10571 UPF0547: Uncharacteri 89.4 0.21 4.6E-06 28.1 1.2 23 182-206 2-24 (26)
115 KOG1812 Predicted E3 ubiquitin 88.0 0.23 5E-06 46.0 1.1 37 179-216 145-182 (384)
116 TIGR00622 ssl1 transcription f 87.9 0.63 1.4E-05 35.6 3.3 45 181-225 56-110 (112)
117 KOG0309 Conserved WD40 repeat- 87.6 0.33 7.2E-06 48.1 2.0 23 201-223 1047-1069(1081)
118 PRK10540 lipoprotein; Provisio 87.3 0.45 9.7E-06 33.6 2.0 15 55-69 54-68 (72)
119 COG5183 SSM4 Protein involved 87.3 0.41 8.8E-06 47.9 2.4 52 178-229 10-66 (1175)
120 PRK10510 putative outer membra 87.1 0.45 9.8E-06 40.6 2.4 35 55-89 37-73 (219)
121 KOG2068 MOT2 transcription fac 87.0 0.6 1.3E-05 42.1 3.1 52 180-232 249-301 (327)
122 KOG4185 Predicted E3 ubiquitin 86.0 0.49 1.1E-05 41.9 2.1 32 196-228 22-54 (296)
123 KOG3899 Uncharacterized conser 84.8 0.52 1.1E-05 41.8 1.6 28 202-229 325-365 (381)
124 KOG1829 Uncharacterized conser 84.4 0.34 7.4E-06 47.0 0.4 42 180-225 511-557 (580)
125 KOG0802 E3 ubiquitin ligase [P 84.3 0.53 1.2E-05 45.5 1.6 46 178-231 477-522 (543)
126 PF13901 DUF4206: Domain of un 83.8 0.74 1.6E-05 38.8 2.1 41 180-226 152-197 (202)
127 PF06897 DUF1269: Protein of u 83.6 0.9 2E-05 34.2 2.3 21 55-75 20-40 (102)
128 smart00249 PHD PHD zinc finger 82.8 0.76 1.7E-05 28.1 1.4 31 182-213 1-31 (47)
129 KOG0269 WD40 repeat-containing 82.7 1.1 2.3E-05 44.7 2.9 41 181-223 780-820 (839)
130 PF11023 DUF2614: Protein of u 81.8 1.1 2.4E-05 34.3 2.1 28 199-232 72-99 (114)
131 PF13719 zinc_ribbon_5: zinc-r 81.7 0.84 1.8E-05 27.7 1.2 27 181-207 3-36 (37)
132 KOG0825 PHD Zn-finger protein 81.6 0.85 1.8E-05 45.6 1.8 51 179-229 95-154 (1134)
133 TIGR03789 pdsO proteobacterial 81.1 0.76 1.7E-05 39.9 1.2 14 78-91 62-75 (239)
134 KOG4718 Non-SMC (structural ma 80.9 0.77 1.7E-05 39.0 1.1 44 179-225 180-223 (235)
135 PF06897 DUF1269: Protein of u 79.4 0.48 1E-05 35.7 -0.5 35 54-89 2-36 (102)
136 KOG2041 WD40 repeat protein [G 78.3 2.2 4.7E-05 42.6 3.4 47 179-229 1130-1185(1189)
137 PRK09430 djlA Dna-J like membr 78.2 1.4 3E-05 38.8 2.0 36 39-77 3-38 (267)
138 PF05818 TraT: Enterobacterial 77.8 1.6 3.5E-05 37.2 2.2 33 55-89 88-121 (215)
139 KOG2807 RNA polymerase II tran 75.9 2.3 5E-05 38.4 2.6 47 179-226 329-375 (378)
140 KOG3005 GIY-YIG type nuclease 75.2 1.6 3.5E-05 38.3 1.5 48 181-228 183-242 (276)
141 KOG1815 Predicted E3 ubiquitin 74.9 1.8 4E-05 40.8 1.9 38 177-217 67-104 (444)
142 smart00132 LIM Zinc-binding do 74.7 2.4 5.2E-05 24.8 1.8 38 182-229 1-38 (39)
143 KOG3579 Predicted E3 ubiquitin 74.4 1.8 3.9E-05 38.3 1.6 40 179-219 267-307 (352)
144 KOG3113 Uncharacterized conser 74.4 2.7 5.8E-05 36.7 2.6 52 179-232 110-161 (293)
145 KOG1812 Predicted E3 ubiquitin 73.7 2.3 5.1E-05 39.4 2.3 69 155-224 279-351 (384)
146 PF00628 PHD: PHD-finger; Int 73.2 2.1 4.6E-05 27.3 1.3 44 182-226 1-50 (51)
147 COG3133 SlyB Outer membrane li 73.0 0.62 1.4E-05 36.9 -1.4 37 51-89 62-98 (154)
148 PF01363 FYVE: FYVE zinc finge 71.8 1.9 4.2E-05 29.4 1.0 37 179-215 8-44 (69)
149 PF06906 DUF1272: Protein of u 71.4 6.3 0.00014 26.3 3.3 46 181-231 6-54 (57)
150 KOG2066 Vacuolar assembly/sort 71.0 0.91 2E-05 45.3 -1.1 45 178-224 782-830 (846)
151 KOG0824 Predicted E3 ubiquitin 70.2 1.7 3.6E-05 38.8 0.4 49 178-229 103-151 (324)
152 PRK05978 hypothetical protein; 70.1 3 6.5E-05 33.5 1.8 29 199-232 36-66 (148)
153 PF13717 zinc_ribbon_4: zinc-r 69.8 3.1 6.7E-05 25.1 1.4 27 181-207 3-36 (36)
154 KOG4608 Uncharacterized conser 69.4 1.7 3.7E-05 37.6 0.3 61 29-92 130-201 (270)
155 PF10497 zf-4CXXC_R1: Zinc-fin 69.1 6.1 0.00013 29.8 3.3 47 180-226 7-69 (105)
156 PF07191 zinc-ribbons_6: zinc- 69.1 1.5 3.2E-05 30.7 -0.1 40 181-229 2-41 (70)
157 cd00065 FYVE FYVE domain; Zinc 68.6 4.2 9.2E-05 26.5 2.1 36 181-216 3-38 (57)
158 COG3134 Predicted outer membra 67.5 3.4 7.5E-05 33.1 1.6 39 54-92 71-111 (179)
159 PF06750 DiS_P_DiS: Bacterial 66.3 6 0.00013 29.1 2.6 39 179-230 32-70 (92)
160 PF10439 Bacteriocin_IIc: Bact 65.6 13 0.00027 25.4 4.0 8 39-46 29-36 (65)
161 PF14311 DUF4379: Domain of un 65.5 4.6 0.0001 26.5 1.7 26 198-224 30-55 (55)
162 KOG2979 Protein involved in DN 65.0 9.2 0.0002 33.5 3.9 41 180-223 176-218 (262)
163 KOG3039 Uncharacterized conser 64.7 4.3 9.2E-05 35.4 1.8 34 179-216 42-75 (303)
164 PRK11677 hypothetical protein; 64.7 3.3 7.1E-05 32.8 1.0 25 51-75 4-28 (134)
165 PF05605 zf-Di19: Drought indu 64.7 2.8 6E-05 27.4 0.5 39 180-229 2-42 (54)
166 PRK10457 hypothetical protein; 64.4 9.7 0.00021 27.5 3.4 45 47-91 30-74 (82)
167 COG4803 Predicted membrane pro 63.9 7.2 0.00016 31.5 2.8 22 54-75 80-101 (170)
168 PRK15361 pathogenicity island 63.8 6.9 0.00015 32.6 2.8 36 38-73 92-127 (195)
169 smart00064 FYVE Protein presen 63.0 6 0.00013 26.8 2.0 37 180-216 10-46 (68)
170 PF07649 C1_3: C1-like domain; 61.7 6.8 0.00015 22.3 1.8 29 182-211 2-30 (30)
171 PLN02189 cellulose synthase 61.1 8.6 0.00019 40.0 3.5 51 179-229 33-87 (1040)
172 COG4171 SapC ABC-type antimicr 59.7 16 0.00035 31.6 4.4 54 32-92 84-142 (296)
173 PF06844 DUF1244: Protein of u 59.3 5.7 0.00012 27.5 1.3 11 206-216 12-22 (68)
174 PF00412 LIM: LIM domain; Int 59.1 5.2 0.00011 25.9 1.1 38 183-230 1-38 (58)
175 COG4980 GvpP Gas vesicle prote 59.0 3.4 7.4E-05 31.8 0.2 6 83-88 15-20 (115)
176 cd00350 rubredoxin_like Rubred 58.8 6.3 0.00014 23.2 1.3 21 201-227 6-26 (33)
177 PF04423 Rad50_zn_hook: Rad50 57.8 2.5 5.4E-05 27.7 -0.7 11 220-230 22-32 (54)
178 COG5151 SSL1 RNA polymerase II 57.4 8.2 0.00018 34.8 2.3 49 179-227 361-419 (421)
179 PF14569 zf-UDP: Zinc-binding 57.2 18 0.00039 25.9 3.6 52 179-230 8-63 (80)
180 smart00531 TFIIE Transcription 57.0 9.7 0.00021 30.3 2.5 15 219-233 124-138 (147)
181 smart00647 IBR In Between Ring 56.3 3.4 7.3E-05 27.3 -0.2 21 194-214 38-58 (64)
182 PF11981 DUF3482: Domain of un 55.9 3.3 7.1E-05 37.0 -0.4 14 75-88 171-184 (292)
183 COG4803 Predicted membrane pro 53.9 1.9 4.2E-05 34.7 -1.9 15 74-88 82-96 (170)
184 PLN02436 cellulose synthase A 53.0 13 0.00027 38.9 3.1 51 179-229 35-89 (1094)
185 PF06937 EURL: EURL protein; 52.8 13 0.00028 32.8 2.8 44 179-222 29-74 (285)
186 COG4980 GvpP Gas vesicle prote 52.7 5.9 0.00013 30.5 0.6 11 55-65 9-19 (115)
187 PF09889 DUF2116: Uncharacteri 51.0 8.1 0.00017 26.1 1.0 16 217-232 2-17 (59)
188 KOG1538 Uncharacterized conser 51.0 7.5 0.00016 38.6 1.2 37 195-231 1043-1079(1081)
189 PF09723 Zn-ribbon_8: Zinc rib 50.2 4.3 9.3E-05 25.3 -0.4 26 200-226 9-34 (42)
190 COG5109 Uncharacterized conser 50.0 12 0.00027 33.7 2.3 48 178-226 334-384 (396)
191 KOG3842 Adaptor protein Pellin 49.7 18 0.00039 32.7 3.2 53 179-232 340-417 (429)
192 PRK11280 hypothetical protein; 49.2 10 0.00022 31.2 1.5 42 49-92 68-109 (170)
193 COG1545 Predicted nucleic-acid 48.8 9.2 0.0002 30.3 1.2 24 197-228 30-53 (140)
194 PRK02935 hypothetical protein; 48.7 14 0.00029 28.0 2.0 20 213-232 81-100 (110)
195 PF04710 Pellino: Pellino; In 48.3 5.9 0.00013 36.7 0.0 44 180-227 277-337 (416)
196 PF12732 YtxH: YtxH-like prote 47.8 12 0.00026 26.1 1.5 11 80-90 6-16 (74)
197 PLN02720 complex II 46.8 9.3 0.0002 30.0 0.9 41 52-94 68-113 (140)
198 PF06295 DUF1043: Protein of u 46.8 7.3 0.00016 30.4 0.3 22 53-74 2-23 (128)
199 PF02318 FYVE_2: FYVE-type zin 45.6 12 0.00027 28.5 1.4 47 179-226 53-102 (118)
200 PF05191 ADK_lid: Adenylate ki 44.7 5.5 0.00012 24.1 -0.5 31 198-230 3-33 (36)
201 PLN02638 cellulose synthase A 44.2 21 0.00046 37.3 3.2 51 179-229 16-70 (1079)
202 KOG4185 Predicted E3 ubiquitin 44.1 4.1 8.9E-05 35.9 -1.7 48 180-227 207-265 (296)
203 PLN02915 cellulose synthase A 43.8 21 0.00045 37.3 3.1 51 179-229 14-68 (1044)
204 PF05818 TraT: Enterobacterial 43.6 11 0.00025 32.1 1.0 37 53-89 90-129 (215)
205 PF04710 Pellino: Pellino; In 43.5 7.8 0.00017 36.0 0.0 51 180-231 328-403 (416)
206 PF14169 YdjO: Cold-inducible 42.5 12 0.00026 25.3 0.8 15 218-232 39-53 (59)
207 PRK01343 zinc-binding protein; 42.4 17 0.00038 24.4 1.6 11 219-229 10-20 (57)
208 PF04216 FdhE: Protein involve 42.1 3.8 8.2E-05 36.3 -2.2 48 179-227 171-220 (290)
209 KOG4577 Transcription factor L 41.9 7.1 0.00015 34.8 -0.5 44 180-233 92-135 (383)
210 COG5627 MMS21 DNA repair prote 41.3 15 0.00033 31.8 1.4 41 180-223 189-231 (275)
211 PRK13731 conjugal transfer sur 41.2 17 0.00036 31.6 1.7 12 56-67 119-130 (243)
212 KOG1356 Putative transcription 40.8 9.5 0.00021 38.6 0.1 47 179-227 228-280 (889)
213 COG3133 SlyB Outer membrane li 40.5 13 0.00028 29.6 0.8 34 54-89 61-94 (154)
214 PF07282 OrfB_Zn_ribbon: Putat 40.3 21 0.00045 24.2 1.8 35 179-213 27-63 (69)
215 COG4068 Uncharacterized protei 40.1 15 0.00033 24.8 1.0 17 217-233 7-23 (64)
216 PRK04023 DNA polymerase II lar 38.8 20 0.00044 37.2 2.1 46 180-231 626-676 (1121)
217 COG3813 Uncharacterized protei 38.6 27 0.00059 24.7 2.1 46 182-229 7-52 (84)
218 PF13832 zf-HC5HC2H_2: PHD-zin 38.5 27 0.00059 25.9 2.3 34 179-214 54-88 (110)
219 PF08560 DUF1757: Protein of u 37.8 16 0.00034 29.6 0.9 36 55-90 41-82 (155)
220 PLN02195 cellulose synthase A 37.7 37 0.0008 35.3 3.7 50 180-230 6-60 (977)
221 PLN02400 cellulose synthase 37.6 28 0.00061 36.5 2.9 51 179-229 35-89 (1085)
222 PF13771 zf-HC5HC2H: PHD-like 37.4 31 0.00066 24.5 2.4 35 178-213 34-68 (90)
223 PF03107 C1_2: C1 domain; Int 36.6 21 0.00045 20.4 1.1 29 182-211 2-30 (30)
224 PF10083 DUF2321: Uncharacteri 36.3 12 0.00026 30.4 -0.0 44 185-231 9-52 (158)
225 PF11286 DUF3087: Protein of u 34.9 2.4E+02 0.0053 23.1 7.4 107 42-149 16-126 (165)
226 PRK06266 transcription initiat 34.6 40 0.00087 27.8 2.9 18 215-232 133-150 (178)
227 smart00834 CxxC_CXXC_SSSS Puta 34.5 12 0.00027 22.4 -0.1 29 199-228 8-36 (41)
228 KOG1815 Predicted E3 ubiquitin 34.4 13 0.00029 35.0 0.0 38 180-217 226-267 (444)
229 PF09538 FYDLN_acid: Protein o 33.0 26 0.00056 26.6 1.4 28 181-208 10-38 (108)
230 PF06946 Phage_holin_5: Phage 32.8 19 0.00042 26.6 0.6 33 57-89 41-74 (93)
231 PF01485 IBR: IBR domain; Int 32.7 7.7 0.00017 25.5 -1.4 34 181-214 19-58 (64)
232 PF03119 DNA_ligase_ZBD: NAD-d 31.7 20 0.00042 20.4 0.4 13 220-232 1-13 (28)
233 TIGR02098 MJ0042_CXXC MJ0042 f 31.6 33 0.00072 20.3 1.5 11 182-192 4-14 (38)
234 PRK14714 DNA polymerase II lar 31.3 21 0.00045 38.0 0.8 46 181-230 668-721 (1337)
235 smart00734 ZnF_Rad18 Rad18-lik 31.0 23 0.00049 19.7 0.6 9 220-228 3-11 (26)
236 COG3492 Uncharacterized protei 30.6 25 0.00055 25.9 0.9 11 206-216 43-53 (104)
237 PF12773 DZR: Double zinc ribb 30.5 48 0.001 20.8 2.2 12 219-230 30-41 (50)
238 PF03966 Trm112p: Trm112p-like 30.5 34 0.00075 23.3 1.6 12 179-190 6-17 (68)
239 KOG3352 Cytochrome c oxidase, 29.2 30 0.00066 27.9 1.3 26 181-207 112-144 (153)
240 PF04306 DUF456: Protein of un 29.2 57 0.0012 25.8 2.9 9 81-89 86-94 (140)
241 TIGR00373 conserved hypothetic 29.0 53 0.0011 26.5 2.7 16 217-232 127-142 (158)
242 PF14353 CpXC: CpXC protein 29.0 31 0.00068 26.4 1.3 11 182-192 3-13 (128)
243 KOG2113 Predicted RNA binding 28.9 18 0.00039 32.7 -0.1 45 180-228 136-182 (394)
244 PLN02248 cellulose synthase-li 27.3 53 0.0012 34.7 2.9 30 201-230 149-178 (1135)
245 COG4239 ABC-type uncharacteriz 27.2 97 0.0021 27.8 4.1 41 32-72 129-170 (341)
246 PF07863 CtnDOT_TraJ: Homologu 27.0 59 0.0013 22.6 2.2 24 14-40 9-32 (68)
247 PF10389 CoatB: Bacteriophage 26.8 1.2E+02 0.0027 19.4 3.5 31 35-65 6-36 (46)
248 TIGR02865 spore_II_E stage II 26.8 57 0.0012 33.1 3.0 35 38-72 179-214 (764)
249 KOG4451 Uncharacterized conser 26.7 45 0.00097 28.9 1.9 24 206-229 251-274 (286)
250 PF14319 Zn_Tnp_IS91: Transpos 26.6 43 0.00092 25.4 1.6 32 180-217 42-77 (111)
251 COG0777 AccD Acetyl-CoA carbox 26.2 52 0.0011 29.3 2.3 11 198-208 49-59 (294)
252 PF14205 Cys_rich_KTR: Cystein 26.1 44 0.00096 22.2 1.4 8 221-228 31-38 (55)
253 smart00109 C1 Protein kinase C 26.0 59 0.0013 19.7 2.0 34 180-213 11-44 (49)
254 TIGR02865 spore_II_E stage II 25.9 51 0.0011 33.4 2.5 13 62-74 225-237 (764)
255 TIGR01562 FdhE formate dehydro 25.9 19 0.00041 32.4 -0.5 46 180-226 184-232 (305)
256 PF03818 MadM: Malonate/sodium 25.9 64 0.0014 21.9 2.2 40 49-90 14-53 (60)
257 PF03884 DUF329: Domain of unk 25.8 30 0.00065 23.2 0.6 11 220-230 4-14 (57)
258 KOG4323 Polycomb-like PHD Zn-f 25.6 36 0.00079 32.4 1.3 49 179-227 167-224 (464)
259 TIGR02605 CxxC_CxxC_SSSS putat 25.5 22 0.00048 22.7 -0.1 27 199-226 8-34 (52)
260 PRK11827 hypothetical protein; 25.4 26 0.00057 23.7 0.2 11 218-228 8-18 (60)
261 PF04888 SseC: Secretion syste 24.8 37 0.00079 30.1 1.1 14 34-47 56-69 (306)
262 KOG1729 FYVE finger containing 24.2 15 0.00033 32.7 -1.4 37 181-218 215-251 (288)
263 COG4357 Zinc finger domain con 24.0 65 0.0014 24.1 2.1 14 218-231 80-93 (105)
264 PF04226 Transgly_assoc: Trans 24.0 65 0.0014 20.6 1.9 35 54-90 5-39 (48)
265 PRK03564 formate dehydrogenase 23.8 40 0.00086 30.4 1.2 47 179-226 186-234 (309)
266 PRK00420 hypothetical protein; 23.7 58 0.0013 24.9 1.9 24 181-204 24-48 (112)
267 KOG2113 Predicted RNA binding 23.3 54 0.0012 29.8 1.8 44 180-229 343-387 (394)
268 COG2359 SpoVS Stage V sporulat 23.0 39 0.00085 24.1 0.7 31 62-92 15-47 (87)
269 KOG1245 Chromatin remodeling c 23.0 31 0.00068 37.4 0.4 49 179-228 1107-1159(1404)
270 PF10146 zf-C4H2: Zinc finger- 22.6 64 0.0014 27.8 2.2 24 206-229 196-219 (230)
271 KOG1973 Chromatin remodeling p 22.6 27 0.00059 30.8 -0.1 30 200-229 238-270 (274)
272 KOG2071 mRNA cleavage and poly 22.5 37 0.00081 33.1 0.8 33 179-213 512-555 (579)
273 PF10235 Cript: Microtubule-as 22.1 55 0.0012 24.1 1.4 39 180-231 44-82 (90)
274 KOG4443 Putative transcription 22.1 52 0.0011 32.6 1.6 48 180-227 18-71 (694)
275 COG0675 Transposase and inacti 21.5 58 0.0013 28.4 1.8 30 179-211 308-337 (364)
276 PF02466 Tim17: Tim17/Tim22/Ti 21.4 3.6E+02 0.0077 20.2 6.2 16 74-89 83-98 (128)
277 TIGR02300 FYDLN_acid conserved 21.1 55 0.0012 25.6 1.3 30 180-209 9-39 (129)
278 COG2816 NPY1 NTP pyrophosphohy 21.0 34 0.00073 30.4 0.1 32 203-234 110-145 (279)
279 PF13828 DUF4190: Domain of un 20.8 2E+02 0.0043 19.5 3.9 45 45-90 8-52 (62)
280 KOG2907 RNA polymerase I trans 20.7 50 0.0011 25.3 1.0 39 192-230 70-114 (116)
281 CHL00174 accD acetyl-CoA carbo 20.5 1.2E+02 0.0026 27.3 3.4 30 196-228 38-67 (296)
282 PF06596 PsbX: Photosystem II 20.4 88 0.0019 19.3 1.8 20 57-76 18-37 (39)
283 cd00729 rubredoxin_SM Rubredox 20.1 66 0.0014 19.0 1.2 9 219-227 19-27 (34)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.65 E-value=5.8e-17 Score=144.93 Aligned_cols=79 Identities=37% Similarity=0.812 Sum_probs=66.2
Q ss_pred CCCCCCHHHHhcCCcccccchhhhhcccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCC-CccccccccC
Q 026652 152 GVKGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGS-CPVCRECVCK 230 (235)
Q Consensus 152 ~~~g~s~~~i~~lp~~~~~~~~~~~~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~s-CPlCR~~v~~ 230 (235)
..+.+.++.++++|...++..+..+ ....|+||+|+|+.++.+|.|| |+|.||..||++||.++++ ||+||+++.+
T Consensus 203 ~~~r~~k~~l~~~p~~~f~~~~~~~--~~~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 203 RRNRLIKRLLKKLPVRTFTKGDDED--ATDTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRT 279 (348)
T ss_pred hhhhhHHHHHhhCCcEEeccccccC--CCceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence 4557788999999998887654221 1259999999999999999999 9999999999999998866 9999998876
Q ss_pred CCC
Q 026652 231 DTD 233 (235)
Q Consensus 231 ~~~ 233 (235)
..+
T Consensus 280 ~~~ 282 (348)
T KOG4628|consen 280 DSG 282 (348)
T ss_pred CCC
Confidence 543
No 2
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.59 E-value=3.5e-16 Score=100.44 Aligned_cols=44 Identities=61% Similarity=1.427 Sum_probs=40.5
Q ss_pred cccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCcccc
Q 026652 181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR 225 (235)
Q Consensus 181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR 225 (235)
++|+||++++..++.+..+| |+|.||.+||.+|++++.+||+||
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 37999999999999999998 999999999999999999999998
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.49 E-value=2.1e-14 Score=123.26 Aligned_cols=77 Identities=27% Similarity=0.616 Sum_probs=60.3
Q ss_pred CCCCCHHHHhcCCcccccchhhhhcccCcccccccccccCCCc----eeecCCCCCcccHHHHHHHHhcCCCCccccccc
Q 026652 153 VKGLSEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDS----ARKLPSCGHCFHSECVDKWLTRNGSCPVCRECV 228 (235)
Q Consensus 153 ~~g~s~~~i~~lp~~~~~~~~~~~~~~~~~C~ICle~f~~~~~----~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v 228 (235)
.++.+++.++.+|..........+...+.+|+||++++..++. +..+++|+|.||.+||.+|+.++.+||+||.++
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 3456888899999886554443344567899999999876542 234556999999999999999999999999987
Q ss_pred c
Q 026652 229 C 229 (235)
Q Consensus 229 ~ 229 (235)
.
T Consensus 227 ~ 227 (238)
T PHA02929 227 I 227 (238)
T ss_pred e
Confidence 5
No 4
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.35 E-value=5.9e-13 Score=94.65 Aligned_cols=45 Identities=40% Similarity=0.996 Sum_probs=35.5
Q ss_pred CcccccccccccCC----------CceeecCCCCCcccHHHHHHHHhcCCCCcccc
Q 026652 180 EIGCSICLEKFEEG----------DSARKLPSCGHCFHSECVDKWLTRNGSCPVCR 225 (235)
Q Consensus 180 ~~~C~ICle~f~~~----------~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR 225 (235)
++.|+||++++.++ ..+... .|+|.||..||.+||+.+.+||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~-~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWG-PCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEE-TTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEec-ccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 45699999999433 223334 4999999999999999999999998
No 5
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.34 E-value=5.1e-13 Score=116.27 Aligned_cols=52 Identities=46% Similarity=1.070 Sum_probs=47.4
Q ss_pred ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHh-cCCCCccccccccC
Q 026652 178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT-RNGSCPVCRECVCK 230 (235)
Q Consensus 178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~-~~~sCPlCR~~v~~ 230 (235)
....+|+|||++|...+.++.+| |.|.||..|+++|+. -+..||+||.++++
T Consensus 321 ~~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 34578999999999999999999 999999999999999 55779999999986
No 6
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.32 E-value=6.7e-13 Score=118.29 Aligned_cols=52 Identities=37% Similarity=1.056 Sum_probs=43.9
Q ss_pred cccCccccccccc-ccCC---------CceeecCCCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652 177 LDNEIGCSICLEK-FEEG---------DSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVC 229 (235)
Q Consensus 177 ~~~~~~C~ICle~-f~~~---------~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~ 229 (235)
..++..|.||+++ |+.+ ....+|| |||++|..|++.|++++.+||+||.++.
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~i 345 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVI 345 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCccc
Confidence 3467899999999 5544 2346788 9999999999999999999999999954
No 7
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.17 E-value=1.6e-11 Score=80.74 Aligned_cols=47 Identities=38% Similarity=0.950 Sum_probs=39.2
Q ss_pred CcccccccccccCCCceeecCCCCCc-ccHHHHHHHHhcCCCCccccccccC
Q 026652 180 EIGCSICLEKFEEGDSARKLPSCGHC-FHSECVDKWLTRNGSCPVCRECVCK 230 (235)
Q Consensus 180 ~~~C~ICle~f~~~~~~~~Lp~C~H~-Fh~~CI~~WL~~~~sCPlCR~~v~~ 230 (235)
+..|.||++...+ +..+| |+|. ||..|+.+|++.+..||+||+++.+
T Consensus 2 ~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIES 49 (50)
T ss_dssp HSB-TTTSSSBSS---EEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred cCCCccCCccCCc---eEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence 4689999998655 56677 9999 9999999999999999999999863
No 8
>PHA02926 zinc finger-like protein; Provisional
Probab=99.16 E-value=3.7e-11 Score=101.00 Aligned_cols=57 Identities=28% Similarity=0.674 Sum_probs=43.1
Q ss_pred hhhhcccCcccccccccccCC-----CceeecCCCCCcccHHHHHHHHhcC------CCCcccccccc
Q 026652 173 ELIQLDNEIGCSICLEKFEEG-----DSARKLPSCGHCFHSECVDKWLTRN------GSCPVCRECVC 229 (235)
Q Consensus 173 ~~~~~~~~~~C~ICle~f~~~-----~~~~~Lp~C~H~Fh~~CI~~WL~~~------~sCPlCR~~v~ 229 (235)
+..+...+.+|+||+|..... .....|++|+|.||..||.+|...+ ++||+||..+.
T Consensus 163 ~~~~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 163 DVYRVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred HHHhccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 333456678999999987432 2334677899999999999998743 45999998764
No 9
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.14 E-value=2.7e-11 Score=100.47 Aligned_cols=51 Identities=31% Similarity=0.792 Sum_probs=41.4
Q ss_pred cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhc----------------CCCCccccccccCC
Q 026652 177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR----------------NGSCPVCRECVCKD 231 (235)
Q Consensus 177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~----------------~~sCPlCR~~v~~~ 231 (235)
..++.+|+||++.+.++.. ++ |+|.||..||.+|+.. +..||+||.++...
T Consensus 15 ~~~~~~CpICld~~~dPVv---T~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~ 81 (193)
T PLN03208 15 SGGDFDCNICLDQVRDPVV---TL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA 81 (193)
T ss_pred CCCccCCccCCCcCCCcEE---cC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence 4467899999999887644 34 9999999999999852 34799999998654
No 10
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=99.08 E-value=7.4e-11 Score=73.64 Aligned_cols=39 Identities=46% Similarity=1.217 Sum_probs=32.1
Q ss_pred cccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccc
Q 026652 183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVC 224 (235)
Q Consensus 183 C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlC 224 (235)
|+||++.+.++ +..++ |||.||.+|+.+|++.+.+||+|
T Consensus 1 C~iC~~~~~~~--~~~~~-CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDP--VVVTP-CGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSE--EEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccCc--CEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence 89999998883 23455 99999999999999999999998
No 11
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.07 E-value=8.3e-11 Score=85.10 Aligned_cols=52 Identities=35% Similarity=0.744 Sum_probs=39.3
Q ss_pred cCcccccccccccCCCc---------eeecCCCCCcccHHHHHHHHhc---CCCCccccccccC
Q 026652 179 NEIGCSICLEKFEEGDS---------ARKLPSCGHCFHSECVDKWLTR---NGSCPVCRECVCK 230 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~~---------~~~Lp~C~H~Fh~~CI~~WL~~---~~sCPlCR~~v~~ 230 (235)
+++.|.||...|+..-. ...+-.|+|.||..||.+||.. +.+||+||++..-
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 47789999988873221 1122369999999999999985 3679999998653
No 12
>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=99.07 E-value=1.1e-10 Score=73.54 Aligned_cols=44 Identities=48% Similarity=1.190 Sum_probs=35.8
Q ss_pred ccccccccccCCCceeecCCCCCcccHHHHHHHHhc-CCCCccccccc
Q 026652 182 GCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR-NGSCPVCRECV 228 (235)
Q Consensus 182 ~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~-~~sCPlCR~~v 228 (235)
.|+||++.+.. ..... +|+|.||..|+.+|+.. +..||.||.++
T Consensus 1 ~C~iC~~~~~~--~~~~~-~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFRE--PVVLL-PCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhC--ceEec-CCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 59999999833 33334 49999999999999997 77899999864
No 13
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.06 E-value=8.7e-11 Score=102.01 Aligned_cols=51 Identities=31% Similarity=0.805 Sum_probs=45.3
Q ss_pred ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCCC
Q 026652 178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDT 232 (235)
Q Consensus 178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~~ 232 (235)
+....|.+|++...++..+ +|||+||..||..|...+..||+||.++.+..
T Consensus 237 ~a~~kC~LCLe~~~~pSaT----pCGHiFCWsCI~~w~~ek~eCPlCR~~~~psk 287 (293)
T KOG0317|consen 237 EATRKCSLCLENRSNPSAT----PCGHIFCWSCILEWCSEKAECPLCREKFQPSK 287 (293)
T ss_pred CCCCceEEEecCCCCCCcC----cCcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence 4567899999999887776 49999999999999999999999999988764
No 14
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.96 E-value=2.9e-10 Score=92.47 Aligned_cols=52 Identities=31% Similarity=0.788 Sum_probs=43.3
Q ss_pred ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652 178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD 231 (235)
Q Consensus 178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~ 231 (235)
+....|||||+.+.....+. . +|||+||..||..-++....||+||+.|..+
T Consensus 129 ~~~~~CPiCl~~~sek~~vs-T-kCGHvFC~~Cik~alk~~~~CP~C~kkIt~k 180 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVPVS-T-KCGHVFCSQCIKDALKNTNKCPTCRKKITHK 180 (187)
T ss_pred ccccCCCceecchhhccccc-c-ccchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence 34478999999998865431 2 6999999999999999999999999877654
No 15
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.92 E-value=8.5e-10 Score=70.66 Aligned_cols=44 Identities=39% Similarity=0.970 Sum_probs=37.6
Q ss_pred ccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccc
Q 026652 182 GCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRE 226 (235)
Q Consensus 182 ~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~ 226 (235)
.|+||++++.+....+.++ |+|+||..|+.++......||+||+
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 4999999996556677776 9999999999999866778999985
No 16
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.91 E-value=4.4e-10 Score=107.75 Aligned_cols=52 Identities=38% Similarity=1.044 Sum_probs=45.3
Q ss_pred ccCcccccccccccCCCc--eeecCCCCCcccHHHHHHHHhcCCCCccccccccC
Q 026652 178 DNEIGCSICLEKFEEGDS--ARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCK 230 (235)
Q Consensus 178 ~~~~~C~ICle~f~~~~~--~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~ 230 (235)
..+..|+||+|++..+.. ..++| |+|+||..|+.+|++++.+||.||..+.+
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~~ 342 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLYD 342 (543)
T ss_pred hcCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhhc
Confidence 457899999999998755 67787 99999999999999999999999995543
No 17
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.91 E-value=1.1e-09 Score=74.97 Aligned_cols=46 Identities=28% Similarity=0.614 Sum_probs=40.5
Q ss_pred cccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccC
Q 026652 181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCK 230 (235)
Q Consensus 181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~ 230 (235)
..|+||.+.+.++.. +| |||+|++.||.+|+..+.+||+|+.++..
T Consensus 2 ~~Cpi~~~~~~~Pv~---~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~ 47 (63)
T smart00504 2 FLCPISLEVMKDPVI---LP-SGQTYERRAIEKWLLSHGTDPVTGQPLTH 47 (63)
T ss_pred cCCcCCCCcCCCCEE---CC-CCCEEeHHHHHHHHHHCCCCCCCcCCCCh
Confidence 579999999998743 45 99999999999999999999999998854
No 18
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.90 E-value=6.7e-10 Score=70.51 Aligned_cols=38 Identities=39% Similarity=0.984 Sum_probs=29.7
Q ss_pred cccccccccCCCceeecCCCCCcccHHHHHHHHhcC----CCCccc
Q 026652 183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN----GSCPVC 224 (235)
Q Consensus 183 C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~----~sCPlC 224 (235)
|+||++.|.++..+ .|||.||..||.+|.+.+ ..||.|
T Consensus 1 CpiC~~~~~~Pv~l----~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSL----PCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE-----SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCcccc----CCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999997776 599999999999998754 359988
No 19
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.89 E-value=8.5e-10 Score=69.29 Aligned_cols=39 Identities=51% Similarity=1.247 Sum_probs=33.3
Q ss_pred cccccccccCCCceeecCCCCCcccHHHHHHHHh--cCCCCccc
Q 026652 183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT--RNGSCPVC 224 (235)
Q Consensus 183 C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~--~~~sCPlC 224 (235)
|+||++.+..+. ..+| |+|.||..|+.+|++ ....||+|
T Consensus 1 C~iC~~~~~~~~--~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPV--ILLP-CGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEE--EETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCC--EEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999988866 3455 999999999999999 55679998
No 20
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.88 E-value=8.6e-10 Score=93.22 Aligned_cols=52 Identities=35% Similarity=0.750 Sum_probs=43.1
Q ss_pred cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcC---CCCccccccccCCC
Q 026652 177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN---GSCPVCRECVCKDT 232 (235)
Q Consensus 177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~---~sCPlCR~~v~~~~ 232 (235)
.....+|.|||+.-++++.. .|||.||..||-+||..+ +.||+||..|..++
T Consensus 44 ~~~~FdCNICLd~akdPVvT----lCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~ 98 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDPVVT----LCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT 98 (230)
T ss_pred CCCceeeeeeccccCCCEEe----ecccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence 34568999999998887665 499999999999999854 45999999887654
No 21
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.80 E-value=4.1e-09 Score=64.03 Aligned_cols=38 Identities=50% Similarity=1.322 Sum_probs=31.6
Q ss_pred cccccccccCCCceeecCCCCCcccHHHHHHHHh-cCCCCccc
Q 026652 183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT-RNGSCPVC 224 (235)
Q Consensus 183 C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~-~~~sCPlC 224 (235)
|+||++.. .....+| |+|.||..|+++|+. .+..||+|
T Consensus 1 C~iC~~~~---~~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL---KDPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCC---CCcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence 89998883 3455566 999999999999998 66779987
No 22
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.68 E-value=1.2e-08 Score=93.63 Aligned_cols=51 Identities=31% Similarity=0.716 Sum_probs=43.7
Q ss_pred cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652 177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD 231 (235)
Q Consensus 177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~ 231 (235)
.+....|+||++.|..+.. +| |+|.||..||..|+..+..||+||.++...
T Consensus 23 Le~~l~C~IC~d~~~~Pvi---tp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 23 LDTSLRCHICKDFFDVPVL---TS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQES 73 (397)
T ss_pred cccccCCCcCchhhhCccC---CC-CCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence 4567899999999988753 45 999999999999999888999999987643
No 23
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.64 E-value=1.5e-08 Score=71.83 Aligned_cols=29 Identities=38% Similarity=1.047 Sum_probs=27.2
Q ss_pred CCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652 201 SCGHCFHSECVDKWLTRNGSCPVCRECVC 229 (235)
Q Consensus 201 ~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~ 229 (235)
.|.|.||..||.+||..++.||++|++..
T Consensus 53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w~ 81 (88)
T COG5194 53 VCNHAFHDHCIYRWLDTKGVCPLDRQTWV 81 (88)
T ss_pred ecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence 59999999999999999999999999864
No 24
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.60 E-value=1e-08 Score=72.09 Aligned_cols=51 Identities=39% Similarity=0.889 Sum_probs=37.7
Q ss_pred cCcccccccccccCCCceeecC---------CCCCcccHHHHHHHHhc---CCCCcccccccc
Q 026652 179 NEIGCSICLEKFEEGDSARKLP---------SCGHCFHSECVDKWLTR---NGSCPVCRECVC 229 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~~~~~Lp---------~C~H~Fh~~CI~~WL~~---~~sCPlCR~~v~ 229 (235)
.++.|-||.-.|...-.-.++| .|.|.||..||.+|+.. +..||+||+...
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 3458888888886533333333 59999999999999984 456999999754
No 25
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.50 E-value=6.6e-08 Score=89.98 Aligned_cols=48 Identities=31% Similarity=0.777 Sum_probs=39.6
Q ss_pred CcccccccccccCCCceeecCCCCCcccHHHHHHHHh-----cCCCCccccccccCC
Q 026652 180 EIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT-----RNGSCPVCRECVCKD 231 (235)
Q Consensus 180 ~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~-----~~~sCPlCR~~v~~~ 231 (235)
+..||||++....+... .|||+||..||.+++. ....||+||..|..+
T Consensus 186 ~~~CPICL~~~~~p~~t----~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~k 238 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRT----NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLK 238 (513)
T ss_pred CCcCCcccCCCCccccc----ccCceeeHHHHHHHHhhhcccCCccCCchhhhcccc
Confidence 67899999987776655 5999999999998876 346799999988763
No 26
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.50 E-value=4e-08 Score=90.84 Aligned_cols=51 Identities=29% Similarity=0.710 Sum_probs=40.0
Q ss_pred cCcccccccccccCCCc--------------eeecCCCCCcccHHHHHHHHh-cCCCCccccccccC
Q 026652 179 NEIGCSICLEKFEEGDS--------------ARKLPSCGHCFHSECVDKWLT-RNGSCPVCRECVCK 230 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~~--------------~~~Lp~C~H~Fh~~CI~~WL~-~~~sCPlCR~~v~~ 230 (235)
...+|+||+.+++.... ....| |.|+||..|+.+|+. .+-.||+||.++++
T Consensus 570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred ccccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 34689999998763211 12346 999999999999999 55689999999875
No 27
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.49 E-value=5.9e-08 Score=83.59 Aligned_cols=50 Identities=32% Similarity=0.759 Sum_probs=41.6
Q ss_pred cCcccccccccccCCCceeecCCCCCcccHHHHHH-HHhcCCC-CccccccccCCC
Q 026652 179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDK-WLTRNGS-CPVCRECVCKDT 232 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~-WL~~~~s-CPlCR~~v~~~~ 232 (235)
.+..|+||++....+... .|||+||..||.. |-.++.. ||+||+.+.++.
T Consensus 214 ~d~kC~lC~e~~~~ps~t----~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~ 265 (271)
T COG5574 214 ADYKCFLCLEEPEVPSCT----PCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK 265 (271)
T ss_pred cccceeeeecccCCcccc----cccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence 467899999988776655 4999999999999 9777655 999999887654
No 28
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.48 E-value=3.3e-08 Score=85.28 Aligned_cols=50 Identities=30% Similarity=0.805 Sum_probs=42.2
Q ss_pred cCcccccccccccCCC-------ceeecCCCCCcccHHHHHHHHh--cCCCCcccccccc
Q 026652 179 NEIGCSICLEKFEEGD-------SARKLPSCGHCFHSECVDKWLT--RNGSCPVCRECVC 229 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~-------~~~~Lp~C~H~Fh~~CI~~WL~--~~~sCPlCR~~v~ 229 (235)
++..|+||-+.+...+ .+.+|. |+|+||..||+-|-. ++.+||.|+..+.
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 4568999998887665 677886 999999999999964 7789999998774
No 29
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.46 E-value=3.4e-08 Score=69.57 Aligned_cols=51 Identities=33% Similarity=0.830 Sum_probs=24.6
Q ss_pred Cccccccccccc-CCCc-eeec--CCCCCcccHHHHHHHHhc---C--------CCCccccccccC
Q 026652 180 EIGCSICLEKFE-EGDS-ARKL--PSCGHCFHSECVDKWLTR---N--------GSCPVCRECVCK 230 (235)
Q Consensus 180 ~~~C~ICle~f~-~~~~-~~~L--p~C~H~Fh~~CI~~WL~~---~--------~sCPlCR~~v~~ 230 (235)
+.+|.||++.+. .++. .... ++|++.||..|+.+||.. . ..||.|+.+|.-
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~ 67 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW 67 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence 468999999876 3222 2333 379999999999999972 1 239999999864
No 30
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.43 E-value=1.6e-07 Score=61.52 Aligned_cols=42 Identities=26% Similarity=0.869 Sum_probs=32.5
Q ss_pred ccccccccccCCCceeecCCCC-----CcccHHHHHHHHhcC--CCCcccc
Q 026652 182 GCSICLEKFEEGDSARKLPSCG-----HCFHSECVDKWLTRN--GSCPVCR 225 (235)
Q Consensus 182 ~C~ICle~f~~~~~~~~Lp~C~-----H~Fh~~CI~~WL~~~--~sCPlCR 225 (235)
.|.||++ ..+++.....| |. |.+|.+|+.+|+..+ .+||+|+
T Consensus 1 ~CrIC~~-~~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EGDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC-CCCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4899998 33444455778 75 999999999999754 4899995
No 31
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.43 E-value=1.6e-07 Score=59.81 Aligned_cols=38 Identities=39% Similarity=0.979 Sum_probs=22.2
Q ss_pred cccccccccCCC-ceeecCCCCCcccHHHHHHHHhcC----CCCc
Q 026652 183 CSICLEKFEEGD-SARKLPSCGHCFHSECVDKWLTRN----GSCP 222 (235)
Q Consensus 183 C~ICle~f~~~~-~~~~Lp~C~H~Fh~~CI~~WL~~~----~sCP 222 (235)
|+||.+ |..++ ....|| |||+|+.+|+++++.+. ..||
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 456788 99999999999999854 2476
No 32
>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=98.38 E-value=1.7e-07 Score=66.48 Aligned_cols=49 Identities=24% Similarity=0.582 Sum_probs=38.3
Q ss_pred cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhc-CCCCccccccccCC
Q 026652 179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR-NGSCPVCRECVCKD 231 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~-~~sCPlCR~~v~~~ 231 (235)
++..|+|+.+-+.++..+ | +||+|.+.||.+|+.+ +.+||+|++++..+
T Consensus 3 ~~f~CpIt~~lM~dPVi~---~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~ 52 (73)
T PF04564_consen 3 DEFLCPITGELMRDPVIL---P-SGHTYERSAIERWLEQNGGTDPFTRQPLSES 52 (73)
T ss_dssp GGGB-TTTSSB-SSEEEE---T-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred cccCCcCcCcHhhCceeC---C-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence 457899999999997765 4 9999999999999998 88999999988754
No 33
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.34 E-value=1.3e-07 Score=84.06 Aligned_cols=51 Identities=37% Similarity=0.817 Sum_probs=44.2
Q ss_pred cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652 177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD 231 (235)
Q Consensus 177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~ 231 (235)
.+....|-||.+.|..+..+ | |+|.||.-||.+.|..+..||.|+.++...
T Consensus 20 lD~lLRC~IC~eyf~ip~it---p-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es 70 (442)
T KOG0287|consen 20 LDDLLRCGICFEYFNIPMIT---P-CSHTFCSLCIRKFLSYKPQCPTCCVTVTES 70 (442)
T ss_pred hHHHHHHhHHHHHhcCceec---c-ccchHHHHHHHHHhccCCCCCceecccchh
Confidence 34557899999999997665 4 999999999999999999999999987643
No 34
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.31 E-value=2.7e-07 Score=80.54 Aligned_cols=48 Identities=38% Similarity=0.809 Sum_probs=42.1
Q ss_pred ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652 178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVC 229 (235)
Q Consensus 178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~ 229 (235)
.....|-||-+.|..+... .|||.||.-||...|..|..||+||.+..
T Consensus 23 Ds~lrC~IC~~~i~ip~~T----tCgHtFCslCIR~hL~~qp~CP~Cr~~~~ 70 (391)
T COG5432 23 DSMLRCRICDCRISIPCET----TCGHTFCSLCIRRHLGTQPFCPVCREDPC 70 (391)
T ss_pred hhHHHhhhhhheeecceec----ccccchhHHHHHHHhcCCCCCccccccHH
Confidence 3456899999999887666 59999999999999999999999998754
No 35
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.28 E-value=2.6e-07 Score=91.01 Aligned_cols=53 Identities=26% Similarity=0.822 Sum_probs=40.3
Q ss_pred cccCcccccccccccCCC---ceeecCCCCCcccHHHHHHHHhcC--CCCcccccccc
Q 026652 177 LDNEIGCSICLEKFEEGD---SARKLPSCGHCFHSECVDKWLTRN--GSCPVCRECVC 229 (235)
Q Consensus 177 ~~~~~~C~ICle~f~~~~---~~~~Lp~C~H~Fh~~CI~~WL~~~--~sCPlCR~~v~ 229 (235)
..+.++|+||+..+..-+ .-.++|.|.|-||..|+-+|++.. .+||+||.+++
T Consensus 1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 456689999998765211 123456899999999999999854 67999998765
No 36
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.28 E-value=3.7e-07 Score=78.71 Aligned_cols=46 Identities=48% Similarity=0.975 Sum_probs=39.8
Q ss_pred cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccc
Q 026652 177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRE 226 (235)
Q Consensus 177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~ 226 (235)
..++..|+||++.|..+ ..+| |+|.||..|+..+......||.||.
T Consensus 10 ~~~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 10 LQEELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred ccccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccCC
Confidence 45678999999999998 5566 9999999999998875567999994
No 37
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.21 E-value=4.8e-07 Score=83.01 Aligned_cols=49 Identities=37% Similarity=0.977 Sum_probs=39.6
Q ss_pred ccCcccccccccccCCCc-eeecCCCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652 178 DNEIGCSICLEKFEEGDS-ARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVC 229 (235)
Q Consensus 178 ~~~~~C~ICle~f~~~~~-~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~ 229 (235)
.+..+||||||.+..... ++.. .|.|.||..|+.+| ...+||+||.-..
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~-~c~Hsfh~~cl~~w--~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTI-LCNHSFHCSCLMKW--WDSSCPVCRYCQS 222 (493)
T ss_pred ccCCCcchhHhhcCccccceeee-ecccccchHHHhhc--ccCcChhhhhhcC
Confidence 345789999999988653 3334 49999999999999 6789999997655
No 38
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.14 E-value=2.8e-07 Score=60.82 Aligned_cols=52 Identities=27% Similarity=0.585 Sum_probs=39.2
Q ss_pred CcccccccccccCCCceeecCCCCCc-ccHHHHHHHHh-cCCCCccccccccCCCCCC
Q 026652 180 EIGCSICLEKFEEGDSARKLPSCGHC-FHSECVDKWLT-RNGSCPVCRECVCKDTDTW 235 (235)
Q Consensus 180 ~~~C~ICle~f~~~~~~~~Lp~C~H~-Fh~~CI~~WL~-~~~sCPlCR~~v~~~~~~~ 235 (235)
+.+|.||+|.-.+.... .|||. .|+.|-.+-++ .+..||+||.++.+--.+|
T Consensus 7 ~dECTICye~pvdsVlY----tCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~dvIkTY 60 (62)
T KOG4172|consen 7 SDECTICYEHPVDSVLY----TCGHMCMCYACGLRLKKALHGCCPICRAPIKDVIKTY 60 (62)
T ss_pred ccceeeeccCcchHHHH----HcchHHhHHHHHHHHHHccCCcCcchhhHHHHHHHhh
Confidence 36899999876664443 69995 79999766554 7899999999987654443
No 39
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.14 E-value=6.7e-07 Score=61.25 Aligned_cols=48 Identities=31% Similarity=0.759 Sum_probs=26.0
Q ss_pred cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652 177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVC 229 (235)
Q Consensus 177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~ 229 (235)
.++...|++|.+.+..+..+. .|.|+||..||.+-+. ..||+|+.|.-
T Consensus 4 le~lLrCs~C~~~l~~pv~l~---~CeH~fCs~Ci~~~~~--~~CPvC~~Paw 51 (65)
T PF14835_consen 4 LEELLRCSICFDILKEPVCLG---GCEHIFCSSCIRDCIG--SECPVCHTPAW 51 (65)
T ss_dssp HHHTTS-SSS-S--SS-B------SSS--B-TTTGGGGTT--TB-SSS--B-S
T ss_pred HHHhcCCcHHHHHhcCCceec---cCccHHHHHHhHHhcC--CCCCCcCChHH
Confidence 345678999999999876553 7999999999988554 34999998864
No 40
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.07 E-value=2.1e-06 Score=63.93 Aligned_cols=48 Identities=25% Similarity=0.688 Sum_probs=36.5
Q ss_pred Cccccccccccc-------------CCCceeecCCCCCcccHHHHHHHHhcCCCCcccccc
Q 026652 180 EIGCSICLEKFE-------------EGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCREC 227 (235)
Q Consensus 180 ~~~C~ICle~f~-------------~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~ 227 (235)
-+.|+||..-+- .++.+...-.|.|.||..||.+||+..+.||+|.++
T Consensus 46 vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~e 106 (114)
T KOG2930|consen 46 VDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKE 106 (114)
T ss_pred echhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence 357888875442 223333344699999999999999999999999875
No 41
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.03 E-value=2.4e-06 Score=76.67 Aligned_cols=49 Identities=31% Similarity=0.811 Sum_probs=40.9
Q ss_pred ccCcccccccccccCCCceeecCCCCC-cccHHHHHHHHhcCCCCccccccccC
Q 026652 178 DNEIGCSICLEKFEEGDSARKLPSCGH-CFHSECVDKWLTRNGSCPVCRECVCK 230 (235)
Q Consensus 178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H-~Fh~~CI~~WL~~~~sCPlCR~~v~~ 230 (235)
+...+|.||+.+-.+ +..|| |.| ..|..|.+..--+++.||+||+++..
T Consensus 288 ~~gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchHh
Confidence 345789999998666 67788 999 57999998876678999999999864
No 42
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.01 E-value=2.9e-06 Score=76.71 Aligned_cols=52 Identities=38% Similarity=0.862 Sum_probs=41.1
Q ss_pred ccCcccccccccccCCC----ceeecCCCCCcccHHHHHHHH--hc-----CCCCcccccccc
Q 026652 178 DNEIGCSICLEKFEEGD----SARKLPSCGHCFHSECVDKWL--TR-----NGSCPVCRECVC 229 (235)
Q Consensus 178 ~~~~~C~ICle~f~~~~----~~~~Lp~C~H~Fh~~CI~~WL--~~-----~~sCPlCR~~v~ 229 (235)
..+..|.||++...... ....+|+|.|.||..||++|- .+ .+.||.||.+..
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 45789999999876643 234568899999999999997 34 467999998764
No 43
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.01 E-value=7.3e-07 Score=79.69 Aligned_cols=52 Identities=31% Similarity=0.673 Sum_probs=42.6
Q ss_pred cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhc-CCCCccccccccCC
Q 026652 177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR-NGSCPVCRECVCKD 231 (235)
Q Consensus 177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~-~~sCPlCR~~v~~~ 231 (235)
...+..|+|||+-++. .+..+.|.|.||.+||.+-++. .+.||-||+.+...
T Consensus 40 ~~~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 40 FDIQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK 92 (381)
T ss_pred hhhhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence 4567899999999887 3444689999999999998874 57899999987643
No 44
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.95 E-value=1.5e-06 Score=76.11 Aligned_cols=94 Identities=22% Similarity=0.461 Sum_probs=63.8
Q ss_pred hhhHHhhhhhcccCCCCCCHHHHhcCCcc-----------ccc--------chhhhhcccCcccccccccccCCCceeec
Q 026652 139 TAYREVSDVYDVTGVKGLSEDMIQKLPEC-----------ALH--------SEELIQLDNEIGCSICLEKFEEGDSARKL 199 (235)
Q Consensus 139 ~~~~e~~~~~~~~~~~g~s~~~i~~lp~~-----------~~~--------~~~~~~~~~~~~C~ICle~f~~~~~~~~L 199 (235)
..|...+..+...+++|+++..++.+... .+- +-..........|.|||--|..+....+.
T Consensus 55 ~gYP~esPtvtl~nPRGl~d~~~~~i~~~~~~iikq~~g~pii~~lie~~~e~LT~nn~p~gqCvICLygfa~~~~ft~T 134 (368)
T KOG4445|consen 55 EGYPAESPTVTLSNPRGLGDPEFREIQRQIQEIIKQNSGMPIICQLIEHCSEFLTENNHPNGQCVICLYGFASSPAFTVT 134 (368)
T ss_pred CCCCCcCCceEecCCCCCCcHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHcccCCCCCCceEEEEEeecCCCceeee
Confidence 44555666666677888887765544221 000 00011123457899999999999988888
Q ss_pred CCCCCcccHHHHHHHHhc-----------------------CCCCccccccccCCCC
Q 026652 200 PSCGHCFHSECVDKWLTR-----------------------NGSCPVCRECVCKDTD 233 (235)
Q Consensus 200 p~C~H~Fh~~CI~~WL~~-----------------------~~sCPlCR~~v~~~~~ 233 (235)
+ |.|.||..|+.++|.. +..||+||..+..+.+
T Consensus 135 ~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~~ 190 (368)
T KOG4445|consen 135 A-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEEN 190 (368)
T ss_pred h-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccccc
Confidence 8 9999999999887640 1239999999987654
No 45
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.85 E-value=5.6e-06 Score=80.53 Aligned_cols=52 Identities=27% Similarity=0.728 Sum_probs=42.0
Q ss_pred cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHh-cCCCCccccccccCCC
Q 026652 177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT-RNGSCPVCRECVCKDT 232 (235)
Q Consensus 177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~-~~~sCPlCR~~v~~~~ 232 (235)
..+-..||+|-..+.+-.. ++|+|.||..|+.+-+. +++.||.|..++...+
T Consensus 640 yK~~LkCs~Cn~R~Kd~vI----~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD 692 (698)
T KOG0978|consen 640 YKELLKCSVCNTRWKDAVI----TKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND 692 (698)
T ss_pred HHhceeCCCccCchhhHHH----HhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence 3456789999877776333 37999999999999886 7789999999987654
No 46
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.73 E-value=6.2e-06 Score=80.17 Aligned_cols=50 Identities=28% Similarity=0.518 Sum_probs=42.8
Q ss_pred cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652 179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVC 229 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~ 229 (235)
....|++|+..+.+.......+ |+|+||..|+..|-+.-.+||+||..+.
T Consensus 122 ~~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~ 171 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFG 171 (1134)
T ss_pred hhhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhh
Confidence 4467999999988776665565 9999999999999999999999998764
No 47
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.64 E-value=2.4e-05 Score=72.40 Aligned_cols=54 Identities=30% Similarity=0.759 Sum_probs=45.8
Q ss_pred cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCCCC
Q 026652 177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDTD 233 (235)
Q Consensus 177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~~~ 233 (235)
..++..|++|...+.++... . .|+|.||..|+.+|+..+..||.||.++...++
T Consensus 18 ~~~~l~C~~C~~vl~~p~~~--~-~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~ 71 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQT--T-TCGHRFCAGCLLESLSNHQKCPVCRQELTQAEE 71 (391)
T ss_pred CcccccCccccccccCCCCC--C-CCCCcccccccchhhccCcCCcccccccchhhc
Confidence 35668999999999998774 2 599999999999999999999999988765543
No 48
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.47 E-value=4.4e-05 Score=51.55 Aligned_cols=42 Identities=33% Similarity=0.808 Sum_probs=28.5
Q ss_pred cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhc--CCCCcc
Q 026652 179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR--NGSCPV 223 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~--~~sCPl 223 (235)
....|||.+..|++|..-. .|+|+|-++.|.+|+.+ ...||+
T Consensus 10 ~~~~CPiT~~~~~~PV~s~---~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFEDPVKSK---KCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SSEEEES---SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhCCcCcC---CCCCeecHHHHHHHHHhcCCCCCCC
Confidence 3578999999999876543 69999999999999954 345998
No 49
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.33 E-value=6.3e-05 Score=68.33 Aligned_cols=47 Identities=38% Similarity=0.903 Sum_probs=38.9
Q ss_pred Cccccccccccc-CCCceeecCCCCCcccHHHHHHHHhcC--CCCcccccc
Q 026652 180 EIGCSICLEKFE-EGDSARKLPSCGHCFHSECVDKWLTRN--GSCPVCREC 227 (235)
Q Consensus 180 ~~~C~ICle~f~-~~~~~~~Lp~C~H~Fh~~CI~~WL~~~--~sCPlCR~~ 227 (235)
+..|-.|=|.+. .++.+..|| |.|+||..|+...|.++ .+||.||+-
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crkl 414 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRKL 414 (518)
T ss_pred hhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHHH
Confidence 467999988875 456778898 99999999999999755 679999943
No 50
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=97.27 E-value=0.00024 Score=46.11 Aligned_cols=45 Identities=31% Similarity=0.685 Sum_probs=23.1
Q ss_pred cccccccccCC-CceeecCCCCCcccHHHHHHHHh-cCCCCccccccc
Q 026652 183 CSICLEKFEEG-DSARKLPSCGHCFHSECVDKWLT-RNGSCPVCRECV 228 (235)
Q Consensus 183 C~ICle~f~~~-~~~~~Lp~C~H~Fh~~CI~~WL~-~~~sCPlCR~~v 228 (235)
||+|.+++... ....-. .|++.+|..|..+-+. ....||-||++.
T Consensus 1 cp~C~e~~d~~d~~~~PC-~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPC-ECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SS-TTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccC-cCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 79999999433 333334 4999999999988876 478899999875
No 51
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.24 E-value=0.00012 Score=66.64 Aligned_cols=48 Identities=29% Similarity=0.726 Sum_probs=37.4
Q ss_pred cccccccccccCCCceeecCCCCCcccHHHHHHHHhc--CCCCccccccccCCC
Q 026652 181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR--NGSCPVCRECVCKDT 232 (235)
Q Consensus 181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~--~~sCPlCR~~v~~~~ 232 (235)
.-|.||-+.= ..++.-| |||..|..|+..|-.. ..+||.||.++...+
T Consensus 370 eLCKICaend---KdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte 419 (563)
T KOG1785|consen 370 ELCKICAEND---KDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTE 419 (563)
T ss_pred HHHHHhhccC---CCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEecccc
Confidence 4599996653 3356666 9999999999999753 467999999887543
No 52
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.19 E-value=0.00031 Score=61.20 Aligned_cols=49 Identities=24% Similarity=0.502 Sum_probs=38.8
Q ss_pred ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcC--CCCcccccccc
Q 026652 178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN--GSCPVCRECVC 229 (235)
Q Consensus 178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~--~sCPlCR~~v~ 229 (235)
..+.+|++|-++-..|-.. . +|+|+||+.||.+-+... .+||.|-.++.
T Consensus 237 t~~~~C~~Cg~~PtiP~~~--~-~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTIPHVI--G-KCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred cCCceeeccCCCCCCCeee--c-cccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 4567999998886666555 2 499999999999876543 68999998876
No 53
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.15 E-value=0.00025 Score=65.53 Aligned_cols=49 Identities=33% Similarity=0.844 Sum_probs=42.4
Q ss_pred ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccC
Q 026652 178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCK 230 (235)
Q Consensus 178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~ 230 (235)
..+..|.||+.-+..+... | |||.||..||++-+.+...||.||.++..
T Consensus 82 ~sef~c~vc~~~l~~pv~t---p-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPPVVT---P-CGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCCccc---c-ccccccHHHHHHHhccCCCCccccccccc
Confidence 4568999999999887665 5 99999999999988888889999998864
No 54
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.00 E-value=0.0006 Score=62.46 Aligned_cols=48 Identities=27% Similarity=0.620 Sum_probs=39.3
Q ss_pred ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhc--------CCCCccccc
Q 026652 178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR--------NGSCPVCRE 226 (235)
Q Consensus 178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~--------~~sCPlCR~ 226 (235)
.....|.||+++....+....+| |+|+||..|+..++.. .-.||-+.-
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred hhcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 34578999999988888899999 9999999999999862 234877653
No 55
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.00 E-value=0.00019 Score=64.01 Aligned_cols=52 Identities=27% Similarity=0.657 Sum_probs=44.0
Q ss_pred cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652 177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD 231 (235)
Q Consensus 177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~ 231 (235)
......|.+|-..|.+...+. .|-|.||..||.+.|...+.||.|...+...
T Consensus 12 ~n~~itC~LC~GYliDATTI~---eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 12 LNPHITCRLCGGYLIDATTIT---ECLHTFCKSCIVKYLEESKYCPTCDIVIHKT 63 (331)
T ss_pred cccceehhhccceeecchhHH---HHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence 344578999999998876663 6999999999999999999999999877644
No 56
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.00 E-value=0.00046 Score=62.11 Aligned_cols=49 Identities=24% Similarity=0.485 Sum_probs=40.8
Q ss_pred ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccC
Q 026652 178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCK 230 (235)
Q Consensus 178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~ 230 (235)
.++..||||+.. +......| |+|.=|+.||.+.|.+.+.|=.|+..+.+
T Consensus 420 sEd~lCpICyA~---pi~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 420 SEDNLCPICYAG---PINAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred cccccCcceecc---cchhhccC-CCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 467789999765 44455566 99999999999999999999999988764
No 57
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.91 E-value=0.00036 Score=61.38 Aligned_cols=47 Identities=28% Similarity=0.548 Sum_probs=41.6
Q ss_pred cccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652 181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD 231 (235)
Q Consensus 181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~ 231 (235)
..|-||.++|..|+.. +|+|.||..|-.+-+++...|++|.+.....
T Consensus 242 f~c~icr~~f~~pVvt----~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~ 288 (313)
T KOG1813|consen 242 FKCFICRKYFYRPVVT----KCGHYFCEVCALKPYQKGEKCYVCSQQTHGS 288 (313)
T ss_pred ccccccccccccchhh----cCCceeehhhhccccccCCcceecccccccc
Confidence 5699999999998887 7999999999999888889999998876543
No 58
>PHA02862 5L protein; Provisional
Probab=96.90 E-value=0.00074 Score=53.58 Aligned_cols=45 Identities=22% Similarity=0.575 Sum_probs=33.1
Q ss_pred cccccccccccCCCceeecC-CC---CCcccHHHHHHHHh--cCCCCcccccccc
Q 026652 181 IGCSICLEKFEEGDSARKLP-SC---GHCFHSECVDKWLT--RNGSCPVCRECVC 229 (235)
Q Consensus 181 ~~C~ICle~f~~~~~~~~Lp-~C---~H~Fh~~CI~~WL~--~~~sCPlCR~~v~ 229 (235)
..|-||+++-+++ . -| .| -..-|++|+.+|+. ++.+||+|+.++.
T Consensus 3 diCWIC~~~~~e~--~--~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 3 DICWICNDVCDER--N--NFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred CEEEEecCcCCCC--c--ccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 4799999985433 2 33 24 25789999999997 3467999998764
No 59
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.78 E-value=0.00092 Score=69.19 Aligned_cols=53 Identities=30% Similarity=0.677 Sum_probs=41.1
Q ss_pred hcccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcC----------CCCcccccccc
Q 026652 176 QLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN----------GSCPVCRECVC 229 (235)
Q Consensus 176 ~~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~----------~sCPlCR~~v~ 229 (235)
+.+.+..|-||+.+--.......|. |+|+||..|..+-|++. -+||+|+.++.
T Consensus 3482 kQD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3482 KQDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred hcccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 3456788999988776666667776 99999999998766532 35999999875
No 60
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.71 E-value=0.0015 Score=55.52 Aligned_cols=53 Identities=26% Similarity=0.660 Sum_probs=42.9
Q ss_pred ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhc--------CCCCccccccccCCC
Q 026652 178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR--------NGSCPVCRECVCKDT 232 (235)
Q Consensus 178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~--------~~sCPlCR~~v~~~~ 232 (235)
+-+..|..|-..+..++.+|. .|-|.||.+|++.|-.. .-.||.|.++|.+..
T Consensus 48 DY~pNC~LC~t~La~gdt~RL--vCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~ 108 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASGDTTRL--VCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPI 108 (299)
T ss_pred CCCCCCceeCCccccCcceee--hhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCc
Confidence 345689999999999988764 39999999999999753 235999999987653
No 61
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.67 E-value=0.0007 Score=56.44 Aligned_cols=44 Identities=30% Similarity=0.705 Sum_probs=39.2
Q ss_pred cccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccc
Q 026652 181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECV 228 (235)
Q Consensus 181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v 228 (235)
..|.||-.+|..|... .|||.||..|..+-.+....|-+|-+..
T Consensus 197 F~C~iCKkdy~spvvt----~CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 197 FLCGICKKDYESPVVT----ECGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred eeehhchhhccchhhh----hcchhHHHHHHHHHhccCCcceecchhh
Confidence 5799999999998877 7999999999988888888999997654
No 62
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=96.65 E-value=0.001 Score=65.79 Aligned_cols=50 Identities=30% Similarity=0.768 Sum_probs=40.1
Q ss_pred cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcC-------CCCccccccc
Q 026652 179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN-------GSCPVCRECV 228 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~-------~sCPlCR~~v 228 (235)
...+|.||++.+.....+-....|-|+||..||.+|-+.. =.||.|+...
T Consensus 190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~ 246 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVS 246 (950)
T ss_pred CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchh
Confidence 3478999999998877777666799999999999998632 1399998433
No 63
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.60 E-value=0.0018 Score=55.71 Aligned_cols=53 Identities=19% Similarity=0.364 Sum_probs=46.7
Q ss_pred CcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCCC
Q 026652 180 EIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDT 232 (235)
Q Consensus 180 ~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~~ 232 (235)
...||||.+.+.+......|.+|||+|+.+|..+.+.....||+|-.++.+.+
T Consensus 221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd 273 (303)
T KOG3039|consen 221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD 273 (303)
T ss_pred ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence 35799999999988777777779999999999999999999999999987765
No 64
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.58 E-value=0.002 Score=52.06 Aligned_cols=48 Identities=23% Similarity=0.653 Sum_probs=35.0
Q ss_pred ccCcccccccccccCCCceeecC-CCCC---cccHHHHHHHHhcC--CCCcccccccc
Q 026652 178 DNEIGCSICLEKFEEGDSARKLP-SCGH---CFHSECVDKWLTRN--GSCPVCRECVC 229 (235)
Q Consensus 178 ~~~~~C~ICle~f~~~~~~~~Lp-~C~H---~Fh~~CI~~WL~~~--~sCPlCR~~v~ 229 (235)
..+..|-||.++-.. .. -| .|.. .-|.+|+.+|+..+ .+||+|+.++.
T Consensus 6 ~~~~~CRIC~~~~~~--~~--~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 6 LMDKCCWICKDEYDV--VT--NYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred CCCCeeEecCCCCCC--cc--CCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence 456789999988432 22 24 3555 56999999999854 56999998764
No 65
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.51 E-value=0.002 Score=63.77 Aligned_cols=44 Identities=25% Similarity=0.653 Sum_probs=35.1
Q ss_pred cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccc
Q 026652 179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECV 228 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v 228 (235)
....|..|--.++.|...- .|+|.||..|+. .+...||-|+-+.
T Consensus 839 q~skCs~C~~~LdlP~VhF---~CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 839 QVSKCSACEGTLDLPFVHF---LCGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred eeeeecccCCccccceeee---ecccHHHHHhhc---cCcccCCccchhh
Confidence 3468999988888775443 599999999998 4667899999744
No 66
>PHA03096 p28-like protein; Provisional
Probab=96.33 E-value=0.0019 Score=57.26 Aligned_cols=36 Identities=31% Similarity=0.593 Sum_probs=29.5
Q ss_pred cccccccccccCC----CceeecCCCCCcccHHHHHHHHh
Q 026652 181 IGCSICLEKFEEG----DSARKLPSCGHCFHSECVDKWLT 216 (235)
Q Consensus 181 ~~C~ICle~f~~~----~~~~~Lp~C~H~Fh~~CI~~WL~ 216 (235)
..|.||++..... ..-..||.|.|.||..||..|-.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~ 218 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMT 218 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHH
Confidence 6799999987653 23346889999999999999976
No 67
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=96.33 E-value=0.0014 Score=49.04 Aligned_cols=34 Identities=26% Similarity=0.740 Sum_probs=27.6
Q ss_pred cccCcccccccccccCCCceeecCCCCCcccHHHHH
Q 026652 177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVD 212 (235)
Q Consensus 177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~ 212 (235)
..++..|++|-..+.. ......| |+|+||..|++
T Consensus 75 i~~~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~ 108 (109)
T PF10367_consen 75 ITESTKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK 108 (109)
T ss_pred ECCCCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence 3456789999999988 4555677 99999999985
No 68
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.29 E-value=0.0018 Score=61.13 Aligned_cols=49 Identities=29% Similarity=0.701 Sum_probs=39.5
Q ss_pred ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHh-----cCCCCccccccccC
Q 026652 178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT-----RNGSCPVCRECVCK 230 (235)
Q Consensus 178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~-----~~~sCPlCR~~v~~ 230 (235)
.++..|.+|-++-++.... .|.|.||.-||..+.. ..-+||.|-..+.-
T Consensus 534 k~~~~C~lc~d~aed~i~s----~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Lsi 587 (791)
T KOG1002|consen 534 KGEVECGLCHDPAEDYIES----SCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSI 587 (791)
T ss_pred cCceeecccCChhhhhHhh----hhhHHHHHHHHHHHHHhhhcccCCCCccccccccc
Confidence 4567899999887776555 6999999999988876 34679999887753
No 69
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=96.25 E-value=0.0031 Score=56.36 Aligned_cols=49 Identities=22% Similarity=0.480 Sum_probs=40.5
Q ss_pred ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652 178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVC 229 (235)
Q Consensus 178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~ 229 (235)
.+...||||+...+++..+. .-|-+||+.||.+.+.+++.||+=..+..
T Consensus 298 ~~~~~CpvClk~r~Nptvl~---vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~ 346 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVLE---VSGYVFCYPCIFSYVVNYGHCPVTGYPAS 346 (357)
T ss_pred CccccChhHHhccCCCceEE---ecceEEeHHHHHHHHHhcCCCCccCCcch
Confidence 34578999999998876653 36899999999999999999998765543
No 70
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=96.21 E-value=0.0036 Score=40.46 Aligned_cols=41 Identities=37% Similarity=0.961 Sum_probs=26.6
Q ss_pred cccccccccCCCceeecC-CCCC---cccHHHHHHHHh--cCCCCccc
Q 026652 183 CSICLEKFEEGDSARKLP-SCGH---CFHSECVDKWLT--RNGSCPVC 224 (235)
Q Consensus 183 C~ICle~f~~~~~~~~Lp-~C~H---~Fh~~CI~~WL~--~~~sCPlC 224 (235)
|-||+++-.++. ....| .|.= ..|.+|+.+|+. .+.+|++|
T Consensus 1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 679998877665 23345 3443 789999999998 44669987
No 71
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.09 E-value=0.0017 Score=52.48 Aligned_cols=31 Identities=42% Similarity=0.881 Sum_probs=27.7
Q ss_pred cccCcccccccccccCCCceeecCCCCCcccH
Q 026652 177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHS 208 (235)
Q Consensus 177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~ 208 (235)
..+..+|.||+||+..++.+.+|| |--+||+
T Consensus 174 ~ddkGECvICLEdL~~GdtIARLP-CLCIYHK 204 (205)
T KOG0801|consen 174 KDDKGECVICLEDLEAGDTIARLP-CLCIYHK 204 (205)
T ss_pred cccCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence 345678999999999999999999 9999986
No 72
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=96.08 E-value=0.0028 Score=49.82 Aligned_cols=38 Identities=21% Similarity=0.717 Sum_probs=30.0
Q ss_pred CcccccccccccCCCceeecCCCC------CcccHHHHHHHHhcC
Q 026652 180 EIGCSICLEKFEEGDSARKLPSCG------HCFHSECVDKWLTRN 218 (235)
Q Consensus 180 ~~~C~ICle~f~~~~~~~~Lp~C~------H~Fh~~CI~~WL~~~ 218 (235)
..+|.||++.+.....+..++ |+ |.||.+|+.+|-+.+
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~~~ 69 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRRER 69 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHhhc
Confidence 578999999999855555565 66 899999999994433
No 73
>PF13436 Gly-zipper_OmpA: Glycine-zipper containing OmpA-like membrane domain
Probab=95.98 E-value=0.0047 Score=47.79 Aligned_cols=39 Identities=36% Similarity=0.388 Sum_probs=26.2
Q ss_pred HHHhhhhhhhhhhhhccccccccCCccccchhhhhhHHHH
Q 026652 51 IFALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITA 90 (235)
Q Consensus 51 ~~a~~g~~~g~~~ga~~g~~t~~g~~~ga~~Ga~aGav~s 90 (235)
..+++|+++||++|+++|- ..+|...|+.+|++.|++..
T Consensus 54 ~ga~~GA~~GA~~Ga~~G~-~~~ga~~GAa~Ga~~G~~~g 92 (118)
T PF13436_consen 54 GGAAIGAAAGAAIGAIIGG-NGRGAAIGAAAGAAVGAAAG 92 (118)
T ss_pred HHHHHHHHHHHHHHhhcCC-CccchHHHHHHHHHHHHHhh
Confidence 3455677777777777776 34466777777777777763
No 74
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.98 E-value=0.0045 Score=50.87 Aligned_cols=52 Identities=29% Similarity=0.728 Sum_probs=34.6
Q ss_pred cccccccccccCCC---ceeecCCCCCcccHHHHHHHHhc-----C------CCCccccccccCCC
Q 026652 181 IGCSICLEKFEEGD---SARKLPSCGHCFHSECVDKWLTR-----N------GSCPVCRECVCKDT 232 (235)
Q Consensus 181 ~~C~ICle~f~~~~---~~~~Lp~C~H~Fh~~CI~~WL~~-----~------~sCPlCR~~v~~~~ 232 (235)
..|-||+..--++. .+..--+|+.-||.-|+..||+. + ..||+|..++.-+.
T Consensus 166 ~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKm 231 (234)
T KOG3268|consen 166 GACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKM 231 (234)
T ss_pred hcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeec
Confidence 46777765433322 22222269999999999999973 2 24999999986543
No 75
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=95.89 E-value=0.004 Score=41.43 Aligned_cols=46 Identities=30% Similarity=0.614 Sum_probs=32.3
Q ss_pred cccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCCC
Q 026652 181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDT 232 (235)
Q Consensus 181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~~ 232 (235)
..|-.|... +..-..+| |+|+.+..|.+-+ +-+.||.|-+++...+
T Consensus 8 ~~~~~~~~~---~~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 8 QPCVFCGFV---GTKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEFDD 53 (55)
T ss_pred eeEEEcccc---cccccccc-ccceeeccccChh--hccCCCCCCCcccCCC
Confidence 445555333 23344566 9999999998754 7788999999887543
No 76
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.86 E-value=0.0027 Score=57.32 Aligned_cols=47 Identities=32% Similarity=0.617 Sum_probs=33.0
Q ss_pred cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccC
Q 026652 177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCK 230 (235)
Q Consensus 177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~ 230 (235)
......|.||+++..+ ...+| |||+-| |..--. .-.+||+||+.+..
T Consensus 302 ~~~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs~-~l~~CPvCR~rI~~ 348 (355)
T KOG1571|consen 302 LPQPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCSK-HLPQCPVCRQRIRL 348 (355)
T ss_pred cCCCCceEEecCCccc---eeeec-CCcEEE--chHHHh-hCCCCchhHHHHHH
Confidence 3445789999998877 44556 999866 654431 23459999998754
No 77
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=95.68 E-value=0.0072 Score=54.34 Aligned_cols=56 Identities=27% Similarity=0.574 Sum_probs=40.2
Q ss_pred cCcccccccccccCCCce-eecCCCCCcccHHHHHHHHh-cCCCCccccccccCCCCCC
Q 026652 179 NEIGCSICLEKFEEGDSA-RKLPSCGHCFHSECVDKWLT-RNGSCPVCRECVCKDTDTW 235 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~~~-~~Lp~C~H~Fh~~CI~~WL~-~~~sCPlCR~~v~~~~~~~ 235 (235)
++.-||.|++++...+.- .-+| ||...|.-|...--+ -...||-||+...+++--|
T Consensus 13 eed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~denv~~ 70 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDDENVRY 70 (480)
T ss_pred ccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhccccceeE
Confidence 455699999999876543 3355 999888888654322 3467999999887776443
No 78
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.64 E-value=0.012 Score=51.65 Aligned_cols=53 Identities=19% Similarity=0.515 Sum_probs=41.2
Q ss_pred ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652 178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD 231 (235)
Q Consensus 178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~ 231 (235)
.....|||...+|........+-+|||+|...++..- .....||+|-.++...
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~ 163 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEE 163 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccC
Confidence 4567999999999665555444459999999999986 2356799999988744
No 79
>PF13441 Gly-zipper_YMGG: YMGG-like Gly-zipper
Probab=95.56 E-value=0.0097 Score=38.06 Aligned_cols=33 Identities=45% Similarity=0.565 Sum_probs=20.0
Q ss_pred HHhhhhhhhhhhhhccccccccCCccccchhhhhhHHH
Q 026652 52 FALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAIT 89 (235)
Q Consensus 52 ~a~~g~~~g~~~ga~~g~~t~~g~~~ga~~Ga~aGav~ 89 (235)
.|..|+.+|+++|+++| ...+|+.+||..|++.
T Consensus 6 GA~iGA~~GA~iG~~~g-----~~~~GA~iGA~~Ga~~ 38 (45)
T PF13441_consen 6 GAAIGAAAGAVIGAIIG-----NGGKGAAIGAAAGALA 38 (45)
T ss_pred HHHHHHHHHHHHHHhhC-----CCcccchhhhhhhhhh
Confidence 56677777777777777 2234555555555543
No 80
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.41 E-value=0.012 Score=53.01 Aligned_cols=47 Identities=28% Similarity=0.694 Sum_probs=36.8
Q ss_pred cccCcccccccccccCCCceeecCCCCCcccHHHHHH--HHhcCCCCcccccc
Q 026652 177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDK--WLTRNGSCPVCREC 227 (235)
Q Consensus 177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~--WL~~~~sCPlCR~~ 227 (235)
.+++..|.||-+.+.- ...+| |+|..|--|-.+ -|-.++.||+||.+
T Consensus 58 DEen~~C~ICA~~~TY---s~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE 106 (493)
T COG5236 58 DEENMNCQICAGSTTY---SARYP-CGHQICHACAVRLRALYMQKGCPLCRTE 106 (493)
T ss_pred ccccceeEEecCCceE---EEecc-CCchHHHHHHHHHHHHHhccCCCccccc
Confidence 4556789999887665 45667 999999999865 35578999999974
No 81
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=95.40 E-value=0.0042 Score=54.68 Aligned_cols=50 Identities=30% Similarity=0.673 Sum_probs=39.7
Q ss_pred CcccccccccccCCCce-eecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652 180 EIGCSICLEKFEEGDSA-RKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD 231 (235)
Q Consensus 180 ~~~C~ICle~f~~~~~~-~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~ 231 (235)
+..||||.+.+...... ..+| |+|.-|..|.......+-+||+|.+ +.+.
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~-~~d~ 208 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK-PGDM 208 (276)
T ss_pred cCCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc-hHHH
Confidence 45699999988766543 4555 9999999999998887799999988 5443
No 82
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=95.33 E-value=0.0071 Score=38.95 Aligned_cols=44 Identities=23% Similarity=0.622 Sum_probs=25.4
Q ss_pred ccccccccccCCCceeecCCCC-CcccHHHHHHHHhcCCCCccccccccCC
Q 026652 182 GCSICLEKFEEGDSARKLPSCG-HCFHSECVDKWLTRNGSCPVCRECVCKD 231 (235)
Q Consensus 182 ~C~ICle~f~~~~~~~~Lp~C~-H~Fh~~CI~~WL~~~~sCPlCR~~v~~~ 231 (235)
.|.-|.-. +...+ .|+ |..|..|+...|.+...||+|..+++.+
T Consensus 4 nCKsCWf~--~k~Li----~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 4 NCKSCWFA--NKGLI----KCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp ---SS-S----SSEE----E-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred cChhhhhc--CCCee----eecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence 46666543 32233 465 9999999999999999999999999865
No 83
>PF13441 Gly-zipper_YMGG: YMGG-like Gly-zipper
Probab=94.91 E-value=0.012 Score=37.66 Aligned_cols=34 Identities=47% Similarity=0.644 Sum_probs=21.5
Q ss_pred HHHHhhhhhhhhhhh-hccccccccCCccccchhhhhhHHH
Q 026652 50 CIFALGGAIVGTIFG-AMKGQTTETGFLHGAGIGAVAGAIT 89 (235)
Q Consensus 50 ~~~a~~g~~~g~~~g-a~~g~~t~~g~~~ga~~Ga~aGav~ 89 (235)
.+.|.+|+++|+++| ...| -+-|+.+|+++|++.
T Consensus 8 ~iGA~~GA~iG~~~g~~~~G------A~iGA~~Ga~~G~~~ 42 (45)
T PF13441_consen 8 AIGAAAGAVIGAIIGNGGKG------AAIGAAAGALAGAAI 42 (45)
T ss_pred HHHHHHHHHHHHhhCCCccc------chhhhhhhhhhhhhh
Confidence 455667777777777 4443 355667777777654
No 84
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.83 E-value=0.0046 Score=54.45 Aligned_cols=43 Identities=28% Similarity=0.794 Sum_probs=31.6
Q ss_pred CcccccccccccCCCceeecCCCCCc-ccHHHHHHHHhcCCCCccccccccC
Q 026652 180 EIGCSICLEKFEEGDSARKLPSCGHC-FHSECVDKWLTRNGSCPVCRECVCK 230 (235)
Q Consensus 180 ~~~C~ICle~f~~~~~~~~Lp~C~H~-Fh~~CI~~WL~~~~sCPlCR~~v~~ 230 (235)
+.-|.||++.-.+ -..|+ |||. -|.+|-.+ -+.||+||+.+..
T Consensus 300 ~~LC~ICmDaP~D---CvfLe-CGHmVtCt~CGkr----m~eCPICRqyi~r 343 (350)
T KOG4275|consen 300 RRLCAICMDAPRD---CVFLE-CGHMVTCTKCGKR----MNECPICRQYIVR 343 (350)
T ss_pred HHHHHHHhcCCcc---eEEee-cCcEEeehhhccc----cccCchHHHHHHH
Confidence 4579999876554 45566 9994 58888754 3489999998753
No 85
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.74 E-value=0.019 Score=50.88 Aligned_cols=43 Identities=30% Similarity=0.781 Sum_probs=34.7
Q ss_pred cccccccccccCCCceeecCCCCCcccHHHHHHHHh-cCCCCccccc
Q 026652 181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT-RNGSCPVCRE 226 (235)
Q Consensus 181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~-~~~sCPlCR~ 226 (235)
..|+.|..-+..+... |.|+|.||.+||..-|. ....||.|.+
T Consensus 275 LkCplc~~Llrnp~kT---~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNPMKT---PCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCcccC---ccccchHHHHHHhhhhhhccccCCCccc
Confidence 6799998877775544 67999999999997766 5577999954
No 86
>PF05433 Rick_17kDa_Anti: Glycine zipper 2TM domain; InterPro: IPR008816 This domain includes a putative two transmembrane alpha-helical region that contains glycine zipper motifs []. The domain is found in several Rickettsia genus specific 17 kDa surface antigen proteins [].; GO: 0019867 outer membrane
Probab=94.60 E-value=0.012 Score=37.18 Aligned_cols=37 Identities=46% Similarity=0.544 Sum_probs=23.4
Q ss_pred hhhhhhhhhhhhccccccccCCccccchhhhhhHHHHHH
Q 026652 54 LGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITALQ 92 (235)
Q Consensus 54 ~~g~~~g~~~ga~~g~~t~~g~~~ga~~Ga~aGav~s~e 92 (235)
++|+++|+++|..++. .++...++.+|++.|++..-+
T Consensus 4 ~~Ga~~Ga~~G~~ig~--~~g~~~g~~~Ga~~Ga~~G~~ 40 (42)
T PF05433_consen 4 LIGAAVGAVAGSQIGG--GNGRTLGAVAGAVAGALIGNQ 40 (42)
T ss_pred HHHHHHHHHHHHHhcC--CCCcHHHHHHHHHHHHHHHhh
Confidence 4455555555554422 467778888888888887543
No 87
>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=94.57 E-value=0.026 Score=35.76 Aligned_cols=41 Identities=27% Similarity=0.824 Sum_probs=22.6
Q ss_pred cccccccccCCCceeecCCCCCcccHHHHHHHHhcCC--CCccc
Q 026652 183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNG--SCPVC 224 (235)
Q Consensus 183 C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~--sCPlC 224 (235)
|.+|.+-...+..-.. +.|+=.+|..|+.++++... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~-~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSN-RDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCC-CccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 6677766666544321 14888999999999998665 69988
No 88
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.55 E-value=0.02 Score=48.63 Aligned_cols=44 Identities=30% Similarity=0.736 Sum_probs=32.5
Q ss_pred ccccccccccCCCceeecCCCCC-cccHHHHHHHHhcCCCCccccccccCCCC
Q 026652 182 GCSICLEKFEEGDSARKLPSCGH-CFHSECVDKWLTRNGSCPVCRECVCKDTD 233 (235)
Q Consensus 182 ~C~ICle~f~~~~~~~~Lp~C~H-~Fh~~CI~~WL~~~~sCPlCR~~v~~~~~ 233 (235)
.|-.|-+ .+..+..+| |.| .+|..|-.. -..||+|+.+......
T Consensus 160 ~Cr~C~~---~~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~s~~~ 204 (207)
T KOG1100|consen 160 SCRKCGE---REATVLLLP-CRHLCLCGICDES----LRICPICRSPKTSSVE 204 (207)
T ss_pred cceecCc---CCceEEeec-ccceEeccccccc----CccCCCCcChhhceee
Confidence 3888854 456688898 998 688999754 4569999988765443
No 89
>PF13436 Gly-zipper_OmpA: Glycine-zipper containing OmpA-like membrane domain
Probab=94.52 E-value=0.026 Score=43.70 Aligned_cols=39 Identities=38% Similarity=0.445 Sum_probs=28.6
Q ss_pred HHHhhhhhhhhhhhhccccccccCCccccchhhhhhHHHH
Q 026652 51 IFALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITA 90 (235)
Q Consensus 51 ~~a~~g~~~g~~~ga~~g~~t~~g~~~ga~~Ga~aGav~s 90 (235)
--+..|+++|+++||++|..... -.+|+.+||.+|++..
T Consensus 50 ~~~~~ga~~GA~~GA~~Ga~~G~-~~~ga~~GAa~Ga~~G 88 (118)
T PF13436_consen 50 ENTAGGAAIGAAAGAAIGAIIGG-NGRGAAIGAAAGAAVG 88 (118)
T ss_pred hhHHHHHHHHHHHHHHHHhhcCC-CccchHHHHHHHHHHH
Confidence 35677788888888888877664 5677777787777763
No 90
>PF13488 Gly-zipper_Omp: Glycine zipper
Probab=94.48 E-value=0.018 Score=37.03 Aligned_cols=36 Identities=39% Similarity=0.519 Sum_probs=17.0
Q ss_pred HhhhhhhhhhhhhccccccccCCccccchhhhhhHHH
Q 026652 53 ALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAIT 89 (235)
Q Consensus 53 a~~g~~~g~~~ga~~g~~t~~g~~~ga~~Ga~aGav~ 89 (235)
|+.|+++|+++|...+ .+..|-+.|+.+|++.|+..
T Consensus 3 a~iGA~~Ga~iG~~~g-~~~~ga~iGa~vGa~~G~~i 38 (46)
T PF13488_consen 3 AAIGAAAGAAIGAATG-GPGKGAAIGAAVGAAVGAAI 38 (46)
T ss_pred HHHHHHHHHHHHHHhC-CchhhHHHHHHHHHHHHHHH
Confidence 3444444444444443 12234455555555555554
No 91
>PF13488 Gly-zipper_Omp: Glycine zipper
Probab=94.38 E-value=0.019 Score=36.92 Aligned_cols=35 Identities=43% Similarity=0.536 Sum_probs=28.7
Q ss_pred hhhhhhhhhhhccccccccCCccccchhhhhhHHHH
Q 026652 55 GGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITA 90 (235)
Q Consensus 55 ~g~~~g~~~ga~~g~~t~~g~~~ga~~Ga~aGav~s 90 (235)
.|+.+|+++|+++|..+. +-..|+.+|++.|++..
T Consensus 1 ~Ga~iGA~~Ga~iG~~~g-~~~~ga~iGa~vGa~~G 35 (46)
T PF13488_consen 1 IGAAIGAAAGAAIGAATG-GPGKGAAIGAAVGAAVG 35 (46)
T ss_pred CcHHHHHHHHHHHHHHhC-CchhhHHHHHHHHHHHH
Confidence 478899999999999886 56788888888888863
No 92
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=94.25 E-value=0.05 Score=36.14 Aligned_cols=45 Identities=33% Similarity=0.839 Sum_probs=35.9
Q ss_pred cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCcc--cccc
Q 026652 179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPV--CREC 227 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPl--CR~~ 227 (235)
....|++|-+.|.+++.+...|.|+-.+|++|.++ ...|-. |..+
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~~~c~~~ 50 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCINYSCGTG 50 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEeccCCCC
Confidence 45689999999998888889999999999999754 455654 5443
No 93
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=94.21 E-value=0.018 Score=51.19 Aligned_cols=44 Identities=32% Similarity=0.717 Sum_probs=30.2
Q ss_pred cccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652 181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVC 229 (235)
Q Consensus 181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~ 229 (235)
-.|.-| +|....--|..| |+|+||++|... ...+.||.|-..|.
T Consensus 91 HfCd~C--d~PI~IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 91 HFCDRC--DFPIAIYGRMIP-CKHVFCLECARS--DSDKICPLCDDRVQ 134 (389)
T ss_pred Eeeccc--CCcceeeecccc-cchhhhhhhhhc--CccccCcCcccHHH
Confidence 346666 333333346677 999999999864 34578999987664
No 94
>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=93.97 E-value=0.083 Score=48.37 Aligned_cols=53 Identities=26% Similarity=0.700 Sum_probs=32.3
Q ss_pred ccCcccccccccccC-------------CCceeecCCCC-----CcccHHHHHHHHhc-------------CCCCccccc
Q 026652 178 DNEIGCSICLEKFEE-------------GDSARKLPSCG-----HCFHSECVDKWLTR-------------NGSCPVCRE 226 (235)
Q Consensus 178 ~~~~~C~ICle~f~~-------------~~~~~~Lp~C~-----H~Fh~~CI~~WL~~-------------~~sCPlCR~ 226 (235)
.+.+.|-=|++.-.+ +......|.|. -..|.+|+.+|+.. +-.||.||+
T Consensus 269 ~e~e~CigC~~~~~~vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa 348 (358)
T PF10272_consen 269 QELEPCIGCMQAQPNVKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRA 348 (358)
T ss_pred cccCCccccccCCCCcEEEeccCCcccCCcccccCCCCccccccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcc
Confidence 455788888875332 11111222344 45578899998852 335999999
Q ss_pred cccC
Q 026652 227 CVCK 230 (235)
Q Consensus 227 ~v~~ 230 (235)
.+.-
T Consensus 349 ~FCi 352 (358)
T PF10272_consen 349 KFCI 352 (358)
T ss_pred ccee
Confidence 8753
No 95
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.93 E-value=0.0043 Score=56.57 Aligned_cols=50 Identities=32% Similarity=0.703 Sum_probs=41.4
Q ss_pred cccccccccccCC-CceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652 181 IGCSICLEKFEEG-DSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD 231 (235)
Q Consensus 181 ~~C~ICle~f~~~-~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~ 231 (235)
..|+||.+.+... +.+..+ .|+|.+|..|+.+||.....||-||+.++..
T Consensus 197 ~sl~I~~~slK~~y~k~~~~-~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~ 247 (465)
T KOG0827|consen 197 GSLSICFESLKQNYDKISAI-VCGHIYHHGKLSKWLATKRKLPSCRRELPKN 247 (465)
T ss_pred hhhHhhHHHHHHHHHHHHHH-hhcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence 5799999988765 333334 4999999999999999989999999988653
No 96
>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=93.73 E-value=0.081 Score=42.79 Aligned_cols=38 Identities=24% Similarity=0.545 Sum_probs=23.7
Q ss_pred cCcccccccccccCCCceeecC--------CCCCc-ccHHHHHHHHh
Q 026652 179 NEIGCSICLEKFEEGDSARKLP--------SCGHC-FHSECVDKWLT 216 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~~~~~Lp--------~C~H~-Fh~~CI~~WL~ 216 (235)
++..|||||+--.+.+.+.--. -|+-. -|..|+++.-+
T Consensus 1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 3568999999876644332100 14443 48899998754
No 97
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=93.68 E-value=0.046 Score=48.91 Aligned_cols=47 Identities=23% Similarity=0.499 Sum_probs=37.0
Q ss_pred ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccC
Q 026652 178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCK 230 (235)
Q Consensus 178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~ 230 (235)
.+-.+||||.+.+..+..-+ .=||+-|..|-.+ .++.||.||.++.+
T Consensus 46 ~~lleCPvC~~~l~~Pi~QC---~nGHlaCssC~~~---~~~~CP~Cr~~~g~ 92 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSPPIFQC---DNGHLACSSCRTK---VSNKCPTCRLPIGN 92 (299)
T ss_pred hhhccCchhhccCcccceec---CCCcEehhhhhhh---hcccCCcccccccc
Confidence 45679999999999876542 2469999999764 67889999999873
No 98
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.54 E-value=0.049 Score=50.19 Aligned_cols=29 Identities=41% Similarity=1.108 Sum_probs=23.4
Q ss_pred CCCCCcccHHHHHHHHhcC--CCCccccccc
Q 026652 200 PSCGHCFHSECVDKWLTRN--GSCPVCRECV 228 (235)
Q Consensus 200 p~C~H~Fh~~CI~~WL~~~--~sCPlCR~~v 228 (235)
|.|+|.|-.+||++||.+. ..||.|..+-
T Consensus 25 l~cghlFgs~cie~wl~k~~~~~cp~c~~ka 55 (463)
T KOG1645|consen 25 LQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA 55 (463)
T ss_pred ecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence 3699999999999999632 4599997643
No 99
>PRK10510 putative outer membrane lipoprotein; Provisional
Probab=93.32 E-value=0.052 Score=46.43 Aligned_cols=39 Identities=33% Similarity=0.405 Sum_probs=23.5
Q ss_pred HHhhhhhhhhhhhhccccccc--cCCccccchhhhhhHHHH
Q 026652 52 FALGGAIVGTIFGAMKGQTTE--TGFLHGAGIGAVAGAITA 90 (235)
Q Consensus 52 ~a~~g~~~g~~~ga~~g~~t~--~g~~~ga~~Ga~aGav~s 90 (235)
.|++|+++||++|+++|-.++ .|-+.|+.+|+.+|+...
T Consensus 38 ga~~Ga~~Ga~~G~~~g~~~~~~~~a~~ga~~G~~~G~~~g 78 (219)
T PRK10510 38 GAGIGSLVGAGIGALSSSKKDRGKGALIGAAAGAALGGGVG 78 (219)
T ss_pred hhHHHHHHHHHHHhhhcCCCcccchhhhHhHHHhhhhhhhh
Confidence 566677777777777662211 245556666666666663
No 100
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=93.12 E-value=0.035 Score=57.52 Aligned_cols=47 Identities=34% Similarity=0.878 Sum_probs=39.0
Q ss_pred cccCcccccccccccC-CCceeecCCCCCcccHHHHHHHHhcCCCCcccccc
Q 026652 177 LDNEIGCSICLEKFEE-GDSARKLPSCGHCFHSECVDKWLTRNGSCPVCREC 227 (235)
Q Consensus 177 ~~~~~~C~ICle~f~~-~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~ 227 (235)
......|+||++.+.. +-.. .|+|.+|..|...|+..+..||.|+..
T Consensus 1150 ~~~~~~c~ic~dil~~~~~I~----~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1150 LSGHFVCEICLDILRNQGGIA----GCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred hhcccchHHHHHHHHhcCCee----eechhHhhhHHHHHHHHhccCcchhhh
Confidence 4455689999999884 3333 699999999999999999999999843
No 101
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=93.04 E-value=0.041 Score=54.45 Aligned_cols=44 Identities=32% Similarity=0.785 Sum_probs=33.1
Q ss_pred cccccccccccCCCceeecCCCCCcccHHHHHHHHhcC--CCCcccccccc
Q 026652 181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN--GSCPVCRECVC 229 (235)
Q Consensus 181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~--~sCPlCR~~v~ 229 (235)
..|+||++ ... .... .|+|.||.+|+.+-+... ..||+||..+.
T Consensus 455 ~~c~ic~~-~~~---~~it-~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~ 500 (674)
T KOG1001|consen 455 HWCHICCD-LDS---FFIT-RCGHDFCVECLKKSIQQSENAPCPLCRNVLK 500 (674)
T ss_pred cccccccc-ccc---ceee-cccchHHHHHHHhccccccCCCCcHHHHHHH
Confidence 78999999 333 2333 499999999999877633 35999997664
No 102
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.02 E-value=0.068 Score=53.56 Aligned_cols=37 Identities=30% Similarity=0.763 Sum_probs=28.8
Q ss_pred cccCcccccccccccCCCceeecCCCCCcccHHHHHHHH
Q 026652 177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWL 215 (235)
Q Consensus 177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL 215 (235)
.+..+.|.+|...+... .-..-| |||.||.+|+.+-.
T Consensus 814 ~ep~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 814 LEPQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV 850 (911)
T ss_pred ecCccchHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence 35667999998888764 344566 99999999997654
No 103
>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=92.80 E-value=0.042 Score=47.32 Aligned_cols=49 Identities=24% Similarity=0.558 Sum_probs=36.6
Q ss_pred cCccccccccccc--CCCceeecCCCCCcccHHHHHHHHhc-CCCCc--ccccc
Q 026652 179 NEIGCSICLEKFE--EGDSARKLPSCGHCFHSECVDKWLTR-NGSCP--VCREC 227 (235)
Q Consensus 179 ~~~~C~ICle~f~--~~~~~~~Lp~C~H~Fh~~CI~~WL~~-~~sCP--lCR~~ 227 (235)
.+..||||..|.- ++..+..-|.|-|..|.+|.++-+.. ...|| -|.+-
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kI 62 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKI 62 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHH
Confidence 4568999997743 33445556679999999999998874 46799 67543
No 104
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.36 E-value=0.053 Score=47.11 Aligned_cols=52 Identities=29% Similarity=0.676 Sum_probs=35.8
Q ss_pred cccCcccccccccccCCCce-eecCCCC-----CcccHHHHHHHHhcCC--------CCcccccccc
Q 026652 177 LDNEIGCSICLEKFEEGDSA-RKLPSCG-----HCFHSECVDKWLTRNG--------SCPVCRECVC 229 (235)
Q Consensus 177 ~~~~~~C~ICle~f~~~~~~-~~Lp~C~-----H~Fh~~CI~~WL~~~~--------sCPlCR~~v~ 229 (235)
.+.+..|-||+..=++.... -+-| |. |..|..|+..|+..+. +||.|+.+..
T Consensus 17 ~e~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 17 QELERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred cccceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 34567899998765543322 2234 54 7899999999997432 4999998653
No 105
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.76 E-value=0.055 Score=52.49 Aligned_cols=45 Identities=31% Similarity=0.589 Sum_probs=33.0
Q ss_pred cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccc
Q 026652 179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRE 226 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~ 226 (235)
.-..|+||+..|......-+-+.|||+.|..|+..- .+.+|| |+.
T Consensus 10 ~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp-~~~ 54 (861)
T KOG3161|consen 10 LLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP-TKR 54 (861)
T ss_pred HHhhchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC-CCc
Confidence 346899999888765444333479999999999875 456788 543
No 106
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=91.34 E-value=0.18 Score=39.59 Aligned_cols=55 Identities=22% Similarity=0.468 Sum_probs=39.7
Q ss_pred cCcccccccccccCCCceeecCCCCCcccHHHHHHHHh---cCCCCccccccccCCCC
Q 026652 179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT---RNGSCPVCRECVCKDTD 233 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~---~~~sCPlCR~~v~~~~~ 233 (235)
.--+|-||.|...+...+.--.-||-..|.-|-....+ .++.||+|+..+...+.
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~~ 136 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSSS 136 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccccc
Confidence 45689999988766554432225999999998765444 56789999998876543
No 107
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=90.43 E-value=0.22 Score=32.79 Aligned_cols=43 Identities=28% Similarity=0.614 Sum_probs=22.8
Q ss_pred cccccccccCC------CceeecCCCCCcccHHHHHHHHhcCCCCcccc
Q 026652 183 CSICLEKFEEG------DSARKLPSCGHCFHSECVDKWLTRNGSCPVCR 225 (235)
Q Consensus 183 C~ICle~f~~~------~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR 225 (235)
|.-|+..|..+ ......|.|++.||.+|=.--=+.-.+||-|.
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence 55577777665 35677889999999999533212335699884
No 108
>PRK11280 hypothetical protein; Provisional
Probab=90.39 E-value=0.15 Score=41.81 Aligned_cols=38 Identities=24% Similarity=0.397 Sum_probs=22.6
Q ss_pred hhhhhhhhhhhcccccc--ccCCccccchhhhhhHHHHHH
Q 026652 55 GGAIVGTIFGAMKGQTT--ETGFLHGAGIGAVAGAITALQ 92 (235)
Q Consensus 55 ~g~~~g~~~ga~~g~~t--~~g~~~ga~~Ga~aGav~s~e 92 (235)
.|+++|+++|+++|..- .+|..-++.+||++|+++.-+
T Consensus 66 ~Gtv~Gav~Gg~~G~~iGgG~Gr~~at~~Ga~~G~~~G~~ 105 (170)
T PRK11280 66 AGSVLGAVAGGVLGHQFGGGRGKDVATVAGALGGGYAGNQ 105 (170)
T ss_pred hhHHHHHHHHHHhhhhccCCCccHHHHHHHHHHHHHHHHH
Confidence 34555555555554432 245556778888888887554
No 109
>PRK10540 lipoprotein; Provisional
Probab=90.34 E-value=0.4 Score=33.85 Aligned_cols=36 Identities=31% Similarity=0.294 Sum_probs=21.3
Q ss_pred HhhhhhhhhhhhhccccccccCCccccchhhhhhHHHHHH
Q 026652 53 ALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITALQ 92 (235)
Q Consensus 53 a~~g~~~g~~~ga~~g~~t~~g~~~ga~~Ga~aGav~s~e 92 (235)
+..|+..|+++|+++|. |-..|+.+||+.|++..-+
T Consensus 34 ~~~Ga~~Ga~~Ga~~g~----g~~~g~~~Ga~~G~~~G~~ 69 (72)
T PRK10540 34 TAIGAGAGALGGAVLTD----GSTLGTLGGAAVGGVIGHQ 69 (72)
T ss_pred hHHHHHHHHHHHHHhcC----CcHHHHHHHHHHHHHHhHh
Confidence 34566666666666642 3335667777777776443
No 110
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=90.09 E-value=0.083 Score=51.85 Aligned_cols=50 Identities=28% Similarity=0.683 Sum_probs=39.7
Q ss_pred ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcC---CCCccccccccCC
Q 026652 178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN---GSCPVCRECVCKD 231 (235)
Q Consensus 178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~---~sCPlCR~~v~~~ 231 (235)
....+|+||++.+..+..+ +|.|.|+..|+..-+... ..||+|+..+.+.
T Consensus 19 ~k~lEc~ic~~~~~~p~~~----kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~ 71 (684)
T KOG4362|consen 19 QKILECPICLEHVKEPSLL----KCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKR 71 (684)
T ss_pred hhhccCCceeEEeeccchh----hhhHHHHhhhhhceeeccCccccchhhhhhhhhh
Confidence 4567899999999998444 799999999998766544 4699999776544
No 111
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=90.02 E-value=0.16 Score=44.96 Aligned_cols=49 Identities=31% Similarity=0.732 Sum_probs=35.4
Q ss_pred CcccccccccccCCCc-eeecCCCC-----CcccHHHHHHHHh--cCCCCcccccccc
Q 026652 180 EIGCSICLEKFEEGDS-ARKLPSCG-----HCFHSECVDKWLT--RNGSCPVCRECVC 229 (235)
Q Consensus 180 ~~~C~ICle~f~~~~~-~~~Lp~C~-----H~Fh~~CI~~WL~--~~~sCPlCR~~v~ 229 (235)
+..|-||.++...... ....| |. +..|..|+.+|+. ....|.+|.....
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~ 134 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFI 134 (323)
T ss_pred CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeecccccce
Confidence 4789999997765432 23344 54 5679999999998 4566999987554
No 112
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=89.73 E-value=0.16 Score=33.13 Aligned_cols=43 Identities=16% Similarity=0.563 Sum_probs=20.7
Q ss_pred cccccccccccCCCceeecCCCCCcccHHHHHHHHhc---C--CCCcccccc
Q 026652 181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR---N--GSCPVCREC 227 (235)
Q Consensus 181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~---~--~sCPlCR~~ 227 (235)
..|||....+..|..-. .|.|.-|.+ +..||.. . -.||+|+++
T Consensus 3 L~CPls~~~i~~P~Rg~---~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIPVRGK---NCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSEEEET---T--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeCccCC---cCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 46999998887755443 699975433 3456552 2 249999874
No 113
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.67 E-value=0.27 Score=45.21 Aligned_cols=49 Identities=18% Similarity=0.481 Sum_probs=39.2
Q ss_pred ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCC---CCcccccc
Q 026652 178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNG---SCPVCREC 227 (235)
Q Consensus 178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~---sCPlCR~~ 227 (235)
.....|||=.+.-.+......|+ |||+...+=+++.-++.. .||+|=.+
T Consensus 332 HSvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP~e 383 (394)
T KOG2817|consen 332 HSVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCPVE 383 (394)
T ss_pred cceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence 34468999888888878888887 999999999999766443 49999543
No 114
>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=89.41 E-value=0.21 Score=28.11 Aligned_cols=23 Identities=35% Similarity=0.700 Sum_probs=16.0
Q ss_pred ccccccccccCCCceeecCCCCCcc
Q 026652 182 GCSICLEKFEEGDSARKLPSCGHCF 206 (235)
Q Consensus 182 ~C~ICle~f~~~~~~~~Lp~C~H~F 206 (235)
.||-|...+. ...+..|.|||.|
T Consensus 2 ~CP~C~~~V~--~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVP--ESAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCch--hhcCcCCCCCCCC
Confidence 5888877753 4455677888877
No 115
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.97 E-value=0.23 Score=46.03 Aligned_cols=37 Identities=30% Similarity=0.669 Sum_probs=27.5
Q ss_pred cCcccccccccccCC-CceeecCCCCCcccHHHHHHHHh
Q 026652 179 NEIGCSICLEKFEEG-DSARKLPSCGHCFHSECVDKWLT 216 (235)
Q Consensus 179 ~~~~C~ICle~f~~~-~~~~~Lp~C~H~Fh~~CI~~WL~ 216 (235)
....|.||..+.... .... ...|+|.||.+|..+.+.
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~-~~~C~H~fC~~C~k~~ie 182 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFS-VLKCGHRFCKDCVKQHIE 182 (384)
T ss_pred ccccCccCccccccHhhhHH-HhcccchhhhHHhHHHhh
Confidence 356899999554444 4444 446999999999998876
No 116
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=87.87 E-value=0.63 Score=35.63 Aligned_cols=45 Identities=20% Similarity=0.315 Sum_probs=35.0
Q ss_pred cccccccccccCC----------CceeecCCCCCcccHHHHHHHHhcCCCCcccc
Q 026652 181 IGCSICLEKFEEG----------DSARKLPSCGHCFHSECVDKWLTRNGSCPVCR 225 (235)
Q Consensus 181 ~~C~ICle~f~~~----------~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR 225 (235)
..|--|+..|..+ ......|.|++.||.+|=.-+-+.-.+||-|.
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 4699999988753 22345778999999999877766667899996
No 117
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=87.56 E-value=0.33 Score=48.12 Aligned_cols=23 Identities=35% Similarity=1.054 Sum_probs=21.3
Q ss_pred CCCCcccHHHHHHHHhcCCCCcc
Q 026652 201 SCGHCFHSECVDKWLTRNGSCPV 223 (235)
Q Consensus 201 ~C~H~Fh~~CI~~WL~~~~sCPl 223 (235)
.|+|+.|.+|...|++....||-
T Consensus 1047 ~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1047 TCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred cccccccHHHHHHHHhcCCcCCC
Confidence 59999999999999999999983
No 118
>PRK10540 lipoprotein; Provisional
Probab=87.27 E-value=0.45 Score=33.59 Aligned_cols=15 Identities=27% Similarity=0.516 Sum_probs=6.7
Q ss_pred hhhhhhhhhhhcccc
Q 026652 55 GGAIVGTIFGAMKGQ 69 (235)
Q Consensus 55 ~g~~~g~~~ga~~g~ 69 (235)
.|+++|+.+|+++|+
T Consensus 54 ~g~~~Ga~~G~~~G~ 68 (72)
T PRK10540 54 LGTLGGAAVGGVIGH 68 (72)
T ss_pred HHHHHHHHHHHHHhH
Confidence 344444444444443
No 119
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=87.26 E-value=0.41 Score=47.88 Aligned_cols=52 Identities=21% Similarity=0.539 Sum_probs=36.4
Q ss_pred ccCcccccccccccCCCceeecCCCC---CcccHHHHHHHHhcC--CCCcccccccc
Q 026652 178 DNEIGCSICLEKFEEGDSARKLPSCG---HCFHSECVDKWLTRN--GSCPVCRECVC 229 (235)
Q Consensus 178 ~~~~~C~ICle~f~~~~~~~~Lp~C~---H~Fh~~CI~~WL~~~--~sCPlCR~~v~ 229 (235)
+++..|-||..+=..++.+-.--+|. ...|++|+.+|+.-. ..|-+|..++.
T Consensus 10 ~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~ 66 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK 66 (1175)
T ss_pred ccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence 45579999987766655543211333 468999999999843 55999997764
No 120
>PRK10510 putative outer membrane lipoprotein; Provisional
Probab=87.09 E-value=0.45 Score=40.65 Aligned_cols=35 Identities=40% Similarity=0.430 Sum_probs=22.0
Q ss_pred hhhhhhhhhhhccccccccCCc--cccchhhhhhHHH
Q 026652 55 GGAIVGTIFGAMKGQTTETGFL--HGAGIGAVAGAIT 89 (235)
Q Consensus 55 ~g~~~g~~~ga~~g~~t~~g~~--~ga~~Ga~aGav~ 89 (235)
.|+.+||++||++|..+....- .|+.+||..|+..
T Consensus 37 ~ga~~Ga~~Ga~~G~~~g~~~~~~~~a~~ga~~G~~~ 73 (219)
T PRK10510 37 IGAGIGSLVGAGIGALSSSKKDRGKGALIGAAAGAAL 73 (219)
T ss_pred hhhHHHHHHHHHHHhhhcCCCcccchhhhHhHHHhhh
Confidence 4677777777777777653332 2456666666655
No 121
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=86.96 E-value=0.6 Score=42.08 Aligned_cols=52 Identities=27% Similarity=0.556 Sum_probs=39.3
Q ss_pred CcccccccccccCCC-ceeecCCCCCcccHHHHHHHHhcCCCCccccccccCCC
Q 026652 180 EIGCSICLEKFEEGD-SARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDT 232 (235)
Q Consensus 180 ~~~C~ICle~f~~~~-~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~~ 232 (235)
...|+||.++....+ ...-. .|+|..|..|+..-...+.+||.||++.....
T Consensus 249 ~~s~p~~~~~~~~~d~~~lP~-~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~~t 301 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDSNFLPC-PCGFRLCLFCHKTISDGDGRCPGCRKPYERNT 301 (327)
T ss_pred CCCCCCCCCcccccccccccc-cccccchhhhhhcccccCCCCCccCCccccCc
Confidence 468999999874322 22233 49999999999988888999999998776443
No 122
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.02 E-value=0.49 Score=41.86 Aligned_cols=32 Identities=41% Similarity=0.858 Sum_probs=24.7
Q ss_pred eeecCCCCCcccHHHHHHHHhcC-CCCccccccc
Q 026652 196 ARKLPSCGHCFHSECVDKWLTRN-GSCPVCRECV 228 (235)
Q Consensus 196 ~~~Lp~C~H~Fh~~CI~~WL~~~-~sCPlCR~~v 228 (235)
.+.| +|||.||..|+.+-+... ..||.||.+.
T Consensus 22 p~~l-~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 22 PRVL-KCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred Cccc-ccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 3444 599999999998776644 4599999984
No 123
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=84.77 E-value=0.52 Score=41.84 Aligned_cols=28 Identities=25% Similarity=0.847 Sum_probs=21.3
Q ss_pred CCCcccHHHHHHHHh-------------cCCCCcccccccc
Q 026652 202 CGHCFHSECVDKWLT-------------RNGSCPVCRECVC 229 (235)
Q Consensus 202 C~H~Fh~~CI~~WL~-------------~~~sCPlCR~~v~ 229 (235)
|....|.+|+.+|+. ++-+||.||+++.
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 455677899988875 3456999999875
No 124
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=84.42 E-value=0.34 Score=46.98 Aligned_cols=42 Identities=29% Similarity=0.850 Sum_probs=28.0
Q ss_pred Cccccccccc-----ccCCCceeecCCCCCcccHHHHHHHHhcCCCCcccc
Q 026652 180 EIGCSICLEK-----FEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR 225 (235)
Q Consensus 180 ~~~C~ICle~-----f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR 225 (235)
...|.+|... |+ .+.+++.-.|+++||..|... ....||.|-
T Consensus 511 gfiCe~Cq~~~iiyPF~-~~~~~rC~~C~avfH~~C~~r---~s~~CPrC~ 557 (580)
T KOG1829|consen 511 GFICELCQHNDIIYPFE-TRNTRRCSTCLAVFHKKCLRR---KSPCCPRCE 557 (580)
T ss_pred eeeeeeccCCCcccccc-cccceeHHHHHHHHHHHHHhc---cCCCCCchH
Confidence 4567777322 22 234455557999999999765 556699994
No 125
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.33 E-value=0.53 Score=45.53 Aligned_cols=46 Identities=37% Similarity=0.901 Sum_probs=37.2
Q ss_pred ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652 178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD 231 (235)
Q Consensus 178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~ 231 (235)
.....|.||+++. ..+..| |. |..|+.+|+..+..||+|+..+..+
T Consensus 477 ~~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~ 522 (543)
T KOG0802|consen 477 EPNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKED 522 (543)
T ss_pred cccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhcc
Confidence 4457899999998 344455 88 8999999999999999999877544
No 126
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=83.80 E-value=0.74 Score=38.83 Aligned_cols=41 Identities=34% Similarity=0.859 Sum_probs=29.9
Q ss_pred Cccccccccc-----ccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccc
Q 026652 180 EIGCSICLEK-----FEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRE 226 (235)
Q Consensus 180 ~~~C~ICle~-----f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~ 226 (235)
...|-+|-++ |+. +.+...+.|+-+||..|.. +..||.|.+
T Consensus 152 GfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~-----~~~CpkC~R 197 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFR-----KKSCPKCAR 197 (202)
T ss_pred CCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcC-----CCCCCCcHh
Confidence 4578888643 222 3567788999999999976 367999954
No 127
>PF06897 DUF1269: Protein of unknown function (DUF1269); InterPro: IPR009200 There are currently no experimental data for members of this group or their homologues. However, these proteins are predicted to contain two or more transmembrane segments.
Probab=83.59 E-value=0.9 Score=34.19 Aligned_cols=21 Identities=38% Similarity=0.599 Sum_probs=13.7
Q ss_pred hhhhhhhhhhhccccccccCC
Q 026652 55 GGAIVGTIFGAMKGQTTETGF 75 (235)
Q Consensus 55 ~g~~~g~~~ga~~g~~t~~g~ 75 (235)
+|+.+||.+||+.|-.++.|+
T Consensus 20 ~G~~~GA~~Gal~G~l~d~gI 40 (102)
T PF06897_consen 20 LGAAVGAAAGALAGALSDYGI 40 (102)
T ss_pred HHHHHHHHHHHHHhHHhhCCC
Confidence 666666666666666666554
No 128
>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 KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=82.69 E-value=1.1 Score=44.65 Aligned_cols=41 Identities=20% Similarity=0.491 Sum_probs=30.5
Q ss_pred cccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCcc
Q 026652 181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPV 223 (235)
Q Consensus 181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPl 223 (235)
..|.+|-..+.. .....+.|+|.-|.+|+.+|+..+.-||.
T Consensus 780 ~~CtVC~~vi~G--~~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIRG--VDVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred cCceeecceeee--eEeecccccccccHHHHHHHHhcCCCCcc
Confidence 468888544333 23345679999999999999998887776
No 130
>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=81.85 E-value=1.1 Score=34.25 Aligned_cols=28 Identities=36% Similarity=0.689 Sum_probs=19.8
Q ss_pred cCCCCCcccHHHHHHHHhcCCCCccccccccCCC
Q 026652 199 LPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDT 232 (235)
Q Consensus 199 Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~~ 232 (235)
+|+|+|. .+-|.+...|+.||+|+.-+.
T Consensus 72 CP~C~K~------TKmLGr~D~CM~C~~pLTLd~ 99 (114)
T PF11023_consen 72 CPNCGKQ------TKMLGRVDACMHCKEPLTLDP 99 (114)
T ss_pred CCCCCCh------HhhhchhhccCcCCCcCccCc
Confidence 4567763 245667788999999987553
No 131
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=81.66 E-value=0.84 Score=27.75 Aligned_cols=27 Identities=37% Similarity=0.886 Sum_probs=17.6
Q ss_pred cccccccccccCCCc-------eeecCCCCCccc
Q 026652 181 IGCSICLEKFEEGDS-------ARKLPSCGHCFH 207 (235)
Q Consensus 181 ~~C~ICle~f~~~~~-------~~~Lp~C~H~Fh 207 (235)
..||-|...|..++. ..+.|+|+|.|.
T Consensus 3 i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence 368888777765543 345667888774
No 132
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=81.64 E-value=0.85 Score=45.58 Aligned_cols=51 Identities=12% Similarity=0.238 Sum_probs=35.1
Q ss_pred cCcccccccccccCCC---ceeecCCCCCcccHHHHHHHHhc------CCCCcccccccc
Q 026652 179 NEIGCSICLEKFEEGD---SARKLPSCGHCFHSECVDKWLTR------NGSCPVCRECVC 229 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~---~~~~Lp~C~H~Fh~~CI~~WL~~------~~sCPlCR~~v~ 229 (235)
....|.+|.-++..++ ....+.+|+|.||..||.+|+.+ +-.||.|...+.
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~ 154 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVG 154 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhh
Confidence 3457788877776632 22222369999999999999863 345899877654
No 133
>TIGR03789 pdsO proteobacterial sortase system OmpA family protein. A newly defined histidine kinase (TIGR03785) and response regulator (TIGR03787) gene pair occurs exclusively in Proteobacteria, mostly of marine origin, nearly all of which contain a subfamily 6 sortase (TIGR03784) and its single dedicated target protein (TIGR03788) adjacent to to the sortase. This protein family shows up in only in those species with the histidine kinase/response regulator gene pair, and often adjacent to that pair. It belongs to the OmpA protein family (pfam00691). Its function is unknown. We assign the gene symbol pdsO, for Proteobacterial Dedicated Sortase system OmpA family protein.
Probab=81.14 E-value=0.76 Score=39.87 Aligned_cols=14 Identities=36% Similarity=0.655 Sum_probs=6.9
Q ss_pred ccchhhhhhHHHHH
Q 026652 78 GAGIGAVAGAITAL 91 (235)
Q Consensus 78 ga~~Ga~aGav~s~ 91 (235)
|+.+|++.|++.+-
T Consensus 62 G~~~G~~~G~~~g~ 75 (239)
T TIGR03789 62 GAIIGGITGGLIGQ 75 (239)
T ss_pred HHHHHHHHHHHhhh
Confidence 44555555555433
No 134
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=80.88 E-value=0.77 Score=38.96 Aligned_cols=44 Identities=30% Similarity=0.717 Sum_probs=35.0
Q ss_pred cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCcccc
Q 026652 179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR 225 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR 225 (235)
+-..|-+|..-...+. ++-+|+-.+|..|+.+.+.+.+.||.|.
T Consensus 180 nlk~Cn~Ch~LvIqg~---rCg~c~i~~h~~c~qty~q~~~~cphc~ 223 (235)
T KOG4718|consen 180 NLKNCNLCHCLVIQGI---RCGSCNIQYHRGCIQTYLQRRDICPHCG 223 (235)
T ss_pred HHHHHhHhHHHhheee---ccCcccchhhhHHHHHHhcccCcCCchh
Confidence 3468999987665533 3336888999999999999999999994
No 135
>PF06897 DUF1269: Protein of unknown function (DUF1269); InterPro: IPR009200 There are currently no experimental data for members of this group or their homologues. However, these proteins are predicted to contain two or more transmembrane segments.
Probab=79.37 E-value=0.48 Score=35.67 Aligned_cols=35 Identities=40% Similarity=0.632 Sum_probs=18.8
Q ss_pred hhhhhhhhhhhhccccccccCCccccchhhhhhHHH
Q 026652 54 LGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAIT 89 (235)
Q Consensus 54 ~~g~~~g~~~ga~~g~~t~~g~~~ga~~Ga~aGav~ 89 (235)
+.|++.|.++|.+.+-. --|..-|++.||++|+..
T Consensus 2 ~~G~~~G~LiGll~~~p-l~G~~~GA~~Gal~G~l~ 36 (102)
T PF06897_consen 2 LSGALWGLLIGLLFGPP-LLGAAVGAAAGALAGALS 36 (102)
T ss_pred cchhHHHHHHHHHhhhH-HHHHHHHHHHHHHHhHHh
Confidence 45555555555554321 124455666677776654
No 136
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=78.28 E-value=2.2 Score=42.58 Aligned_cols=47 Identities=26% Similarity=0.578 Sum_probs=33.6
Q ss_pred cCcccccccccccCC---------CceeecCCCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652 179 NEIGCSICLEKFEEG---------DSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVC 229 (235)
Q Consensus 179 ~~~~C~ICle~f~~~---------~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~ 229 (235)
.+..|+-|...|... ...-.+|.|+|.-|..=|. +++.||+|...+.
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 456788888777532 2344677899998887664 4688999987664
No 137
>PRK09430 djlA Dna-J like membrane chaperone protein; Provisional
Probab=78.16 E-value=1.4 Score=38.79 Aligned_cols=36 Identities=19% Similarity=0.384 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHhhhhhhhhhhhhccccccccCCcc
Q 026652 39 AMKRVLYAALTCIFALGGAIVGTIFGAMKGQTTETGFLH 77 (235)
Q Consensus 39 ~~~~~~~~~~~~~~a~~g~~~g~~~ga~~g~~t~~g~~~ 77 (235)
..++++.+++.+++ |..+||++|+++|+.-+.|..+
T Consensus 3 ~~gki~g~~~G~~~---~g~~Ga~~G~~~Gh~~d~~~~~ 38 (267)
T PRK09430 3 YWGKILGFAFGFLF---GGFFGALLGLLIGHMFDKARSR 38 (267)
T ss_pred hHHHHHHHHHHHHH---hhHHHHHHHHHHHhHHhhhhhh
Confidence 45566766667665 6689999999999987765544
No 138
>PF05818 TraT: Enterobacterial TraT complement resistance protein; InterPro: IPR008874 The traT gene is one of the F factor transfer genes and encodes an outer membrane protein which is involved in interactions between Escherichia coli and its surroundings []. The protein plays a role in preventing unproductive conjugation between bacteria carrying like plasmids.; GO: 0046999 regulation of conjugation, 0019867 outer membrane
Probab=77.81 E-value=1.6 Score=37.18 Aligned_cols=33 Identities=42% Similarity=0.668 Sum_probs=17.6
Q ss_pred hhhhhhhhhhhccccccccCCccccchh-hhhhHHH
Q 026652 55 GGAIVGTIFGAMKGQTTETGFLHGAGIG-AVAGAIT 89 (235)
Q Consensus 55 ~g~~~g~~~ga~~g~~t~~g~~~ga~~G-a~aGav~ 89 (235)
.|++.|+.+|+.+|-.+.+ .+|+.+| +++|+..
T Consensus 88 gga~~Ga~~G~~~g~~~~~--~~g~~~G~GlaGali 121 (215)
T PF05818_consen 88 GGALAGAATGAAIGAYNSG--SAGAAIGAGLAGALI 121 (215)
T ss_pred hhHHHHhHHhhhhccccCC--ccchhhhhhHHHhHH
Confidence 4555666666666644432 3355555 5566554
No 139
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=75.88 E-value=2.3 Score=38.42 Aligned_cols=47 Identities=19% Similarity=0.376 Sum_probs=32.7
Q ss_pred cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccc
Q 026652 179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRE 226 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~ 226 (235)
.+..|-.|.++...... .+.+.|.|.||.+|-.---+.-..||-|..
T Consensus 329 ~~~~Cf~C~~~~~~~~~-y~C~~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 329 GSRFCFACQGELLSSGR-YRCESCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred CCcceeeeccccCCCCc-EEchhccceeeccchHHHHhhhhcCCCcCC
Confidence 34569999777666544 456679999999996443233356999974
No 140
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=75.22 E-value=1.6 Score=38.30 Aligned_cols=48 Identities=25% Similarity=0.606 Sum_probs=33.5
Q ss_pred ccccccccccc-CCCceeec--CCCCCcccHHHHHHHHh---------cCCCCccccccc
Q 026652 181 IGCSICLEKFE-EGDSARKL--PSCGHCFHSECVDKWLT---------RNGSCPVCRECV 228 (235)
Q Consensus 181 ~~C~ICle~f~-~~~~~~~L--p~C~H~Fh~~CI~~WL~---------~~~sCPlCR~~v 228 (235)
..|-+|.+++. .+...... |.|.-++|..|+..-+. ....||.|++-+
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 58999999994 43333222 36888999999988433 234599998743
No 141
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.86 E-value=1.8 Score=40.76 Aligned_cols=38 Identities=29% Similarity=0.728 Sum_probs=30.1
Q ss_pred cccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhc
Q 026652 177 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR 217 (235)
Q Consensus 177 ~~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~ 217 (235)
......|-||.+.+.. ....++ |+|.||..|+...+.+
T Consensus 67 ~~~~~~c~ic~~~~~~--~~~~~~-c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 67 KKGDVQCGICVESYDG--EIIGLG-CGHPFCPPCWTGYLGT 104 (444)
T ss_pred CCccccCCcccCCCcc--hhhhcC-CCcHHHHHHHHHHhhh
Confidence 3456799999998876 444555 9999999999998863
No 142
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=74.73 E-value=2.4 Score=24.83 Aligned_cols=38 Identities=24% Similarity=0.628 Sum_probs=24.8
Q ss_pred ccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652 182 GCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVC 229 (235)
Q Consensus 182 ~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~ 229 (235)
.|..|-+.+...+..... =++.||.+|. .|..|+.++.
T Consensus 1 ~C~~C~~~i~~~~~~~~~--~~~~~H~~Cf--------~C~~C~~~L~ 38 (39)
T smart00132 1 KCAGCGKPIRGGELVLRA--LGKVWHPECF--------KCSKCGKPLG 38 (39)
T ss_pred CccccCCcccCCcEEEEe--CCccccccCC--------CCcccCCcCc
Confidence 378888887776333222 3577888774 5888887764
No 143
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.42 E-value=1.8 Score=38.35 Aligned_cols=40 Identities=23% Similarity=0.550 Sum_probs=30.4
Q ss_pred cCcccccccccccCCCceeecC-CCCCcccHHHHHHHHhcCC
Q 026652 179 NEIGCSICLEKFEEGDSARKLP-SCGHCFHSECVDKWLTRNG 219 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~~~~~Lp-~C~H~Fh~~CI~~WL~~~~ 219 (235)
....|.+|.|.+++-..+. +| -=.|.||..|-.+-++++.
T Consensus 267 apLcCTLC~ERLEDTHFVQ-CPSVp~HKFCFPCSResIK~Qg 307 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTHFVQ-CPSVPSHKFCFPCSRESIKQQG 307 (352)
T ss_pred CceeehhhhhhhccCceee-cCCCcccceecccCHHHHHhhc
Confidence 3478999999999977762 22 1249999999999888653
No 144
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=74.42 E-value=2.7 Score=36.69 Aligned_cols=52 Identities=17% Similarity=0.363 Sum_probs=38.3
Q ss_pred cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCCC
Q 026652 179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDT 232 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~~ 232 (235)
....|||=--+|..-.....+-.|||+|-..-+.+. ...+|++|...+..++
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~d 161 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDD 161 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccC
Confidence 346799887777665544444469999998877663 5678999999887654
No 145
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.74 E-value=2.3 Score=39.41 Aligned_cols=69 Identities=28% Similarity=0.448 Sum_probs=43.3
Q ss_pred CCCHHHHhcCCcccccchhhhh--cccCcccccccccccC--CCceeecCCCCCcccHHHHHHHHhcCCCCccc
Q 026652 155 GLSEDMIQKLPECALHSEELIQ--LDNEIGCSICLEKFEE--GDSARKLPSCGHCFHSECVDKWLTRNGSCPVC 224 (235)
Q Consensus 155 g~s~~~i~~lp~~~~~~~~~~~--~~~~~~C~ICle~f~~--~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlC 224 (235)
+++-+..+++......+....+ ...-..||.|.-.++. +-...... |+|.||+.|...|...+..|..|
T Consensus 279 ~~sC~eykk~~~~~~~d~~~~~~la~~wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 279 NLSCEEYKKLNPEEYVDDITLKYLAKRWRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred CCCHHHHHHhCCcccccHHHHHHHHHhcCcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCc
Confidence 3555666666544443322211 1335789999876543 33344555 99999999999998777767544
No 146
>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=73.16 E-value=2.1 Score=27.29 Aligned_cols=44 Identities=27% Similarity=0.593 Sum_probs=29.4
Q ss_pred ccccccccccCCCceeecCCCCCcccHHHHHHHHh------cCCCCccccc
Q 026652 182 GCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT------RNGSCPVCRE 226 (235)
Q Consensus 182 ~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~------~~~sCPlCR~ 226 (235)
.|.||.+.- .+..+.....|+..||..|+..=.. ..-.||.|+.
T Consensus 1 ~C~vC~~~~-~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSD-DDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSC-TTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcC-CCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 388998843 3344455557999999999865432 2345888864
No 147
>COG3133 SlyB Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]
Probab=72.98 E-value=0.62 Score=36.88 Aligned_cols=37 Identities=38% Similarity=0.586 Sum_probs=21.7
Q ss_pred HHHhhhhhhhhhhhhccccccccCCccccchhhhhhHHH
Q 026652 51 IFALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAIT 89 (235)
Q Consensus 51 ~~a~~g~~~g~~~ga~~g~~t~~g~~~ga~~Ga~aGav~ 89 (235)
+.+++|+.+|-+.|..+|-.+.+ .--+-+|||+|++.
T Consensus 62 vG~igG~~lGG~~g~~iGgG~G~--~~At~~GAvAGgva 98 (154)
T COG3133 62 IGAIGGAVLGGFLGNTIGGGTGR--SLATAAGAVAGGVA 98 (154)
T ss_pred ceeeccccccceeeccccCCcch--HHHHHHhHhhhhhh
Confidence 44556666666666666555443 33455677777776
No 148
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=71.80 E-value=1.9 Score=29.41 Aligned_cols=37 Identities=24% Similarity=0.510 Sum_probs=19.9
Q ss_pred cCcccccccccccCCCceeecCCCCCcccHHHHHHHH
Q 026652 179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWL 215 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL 215 (235)
+...|.+|...|..-..-.....||++||.+|.....
T Consensus 8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp G-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 4568999999996644444455799999999987654
No 149
>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=71.38 E-value=6.3 Score=26.35 Aligned_cols=46 Identities=26% Similarity=0.678 Sum_probs=34.3
Q ss_pred cccccccccccCCC-ceeecCCCCC--cccHHHHHHHHhcCCCCccccccccCC
Q 026652 181 IGCSICLEKFEEGD-SARKLPSCGH--CFHSECVDKWLTRNGSCPVCRECVCKD 231 (235)
Q Consensus 181 ~~C~ICle~f~~~~-~~~~Lp~C~H--~Fh~~CI~~WL~~~~sCPlCR~~v~~~ 231 (235)
..|-.|-.++..+. ..+ -|.+ .||.+|.+.-| +..||.|-..+...
T Consensus 6 pnCE~C~~dLp~~s~~A~---ICSfECTFC~~C~e~~l--~~~CPNCgGelv~R 54 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAY---ICSFECTFCADCAETML--NGVCPNCGGELVRR 54 (57)
T ss_pred CCccccCCCCCCCCCcce---EEeEeCcccHHHHHHHh--cCcCcCCCCccccC
Confidence 45778888887765 333 2665 79999999876 78899998877643
No 150
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=70.97 E-value=0.91 Score=45.27 Aligned_cols=45 Identities=36% Similarity=0.627 Sum_probs=30.5
Q ss_pred ccCcccccccccccCC----CceeecCCCCCcccHHHHHHHHhcCCCCccc
Q 026652 178 DNEIGCSICLEKFEEG----DSARKLPSCGHCFHSECVDKWLTRNGSCPVC 224 (235)
Q Consensus 178 ~~~~~C~ICle~f~~~----~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlC 224 (235)
..+..|.-|.+..... ..+.++ .|+|.||..|+..-..+.+ |-.|
T Consensus 782 ~~e~rc~~c~~~~l~~~~~~~~~~v~-~c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 782 SVEERCSSCFEPNLPSGAAFDSVVVF-HCGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred eehhhhhhhcccccccCcccceeeEE-EccchhhhcccccHHHhcc-cChh
Confidence 3455899998876532 334455 4999999999976655444 5444
No 151
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=70.25 E-value=1.7 Score=38.84 Aligned_cols=49 Identities=24% Similarity=0.517 Sum_probs=40.8
Q ss_pred ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652 178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVC 229 (235)
Q Consensus 178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~ 229 (235)
.+...|-||...+..+.... .|.|.|+..|...|....+.||.||....
T Consensus 103 ~~~~~~~~~~g~l~vpt~~q---g~w~qf~~~~p~~~~~~~~~~~d~~~~~~ 151 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTRIQ---GCWHQFCYVCPKSNFAMGNDCPDCRGKIS 151 (324)
T ss_pred CCccceeeeeeeEEeccccc---CceeeeeecCCchhhhhhhccchhhcCcC
Confidence 34568999998888766553 69999999999999999999999987654
No 152
>PRK05978 hypothetical protein; Provisional
Probab=70.09 E-value=3 Score=33.55 Aligned_cols=29 Identities=28% Similarity=0.682 Sum_probs=21.8
Q ss_pred cCCCC--CcccHHHHHHHHhcCCCCccccccccCCC
Q 026652 199 LPSCG--HCFHSECVDKWLTRNGSCPVCRECVCKDT 232 (235)
Q Consensus 199 Lp~C~--H~Fh~~CI~~WL~~~~sCPlCR~~v~~~~ 232 (235)
+|+|+ |.|+ .+|+-+.+||.|-.++...+
T Consensus 36 CP~CG~G~LF~-----g~Lkv~~~C~~CG~~~~~~~ 66 (148)
T PRK05978 36 CPACGEGKLFR-----AFLKPVDHCAACGEDFTHHR 66 (148)
T ss_pred CCCCCCCcccc-----cccccCCCccccCCccccCC
Confidence 44554 6775 68889999999998887553
No 153
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=69.83 E-value=3.1 Score=25.12 Aligned_cols=27 Identities=37% Similarity=0.819 Sum_probs=16.5
Q ss_pred cccccccccccCCCc-------eeecCCCCCccc
Q 026652 181 IGCSICLEKFEEGDS-------ARKLPSCGHCFH 207 (235)
Q Consensus 181 ~~C~ICle~f~~~~~-------~~~Lp~C~H~Fh 207 (235)
..|+=|.-.|..++. ..+.|+|+|.|+
T Consensus 3 i~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVFF 36 (36)
T ss_pred EECCCCCCEEeCCHHHCCCCCcEEECCCCCCEeC
Confidence 357777777765443 234556777764
No 154
>KOG4608 consensus Uncharacterized conserved protein [Function unknown]
Probab=69.38 E-value=1.7 Score=37.56 Aligned_cols=61 Identities=23% Similarity=0.372 Sum_probs=36.5
Q ss_pred ccchhhHHHHHHHHHHHHHHHHH-----------HHhhhhhhhhhhhhccccccccCCccccchhhhhhHHHHHH
Q 026652 29 CAFGTGVLIRAMKRVLYAALTCI-----------FALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITALQ 92 (235)
Q Consensus 29 ~~~~~~~~~~~~~~~~~~~~~~~-----------~a~~g~~~g~~~ga~~g~~t~~g~~~ga~~Ga~aGav~s~e 92 (235)
+++.-|-=..++...+..+.|++ |-.+|+++|++.+..+|+. |+.+|-.+|+..|+..+.-
T Consensus 130 Ggf~~G~R~alfttSff~l~t~l~vyRgk~a~~~fvaaga~tgsvF~~~~gL~---g~aa~vilG~~lG~tv~~~ 201 (270)
T KOG4608|consen 130 GGFRWGWRTALFTTSFFTLNTSLNVYRGKDALSHFVAAGAVTGSVFRINVGLR---GLAAGVILGALLGTTVGGL 201 (270)
T ss_pred ccccceeEEeeehhhHHHHHHHHHHHcCchhhhhhhccccceeeeEEeehhhH---HHhhcceeehhhcchHHHH
Confidence 33333333334555555666654 3347888888888888853 5566666676666665433
No 155
>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=69.13 E-value=6.1 Score=29.82 Aligned_cols=47 Identities=28% Similarity=0.495 Sum_probs=28.8
Q ss_pred CcccccccccccCCCcee----ecCCC---CCcccHHHHHHHHhc---------CCCCccccc
Q 026652 180 EIGCSICLEKFEEGDSAR----KLPSC---GHCFHSECVDKWLTR---------NGSCPVCRE 226 (235)
Q Consensus 180 ~~~C~ICle~f~~~~~~~----~Lp~C---~H~Fh~~CI~~WL~~---------~~sCPlCR~ 226 (235)
...|-.|.+.-.+..... ..+.| .=.||..|+..+... +-.||.||.
T Consensus 7 g~~CHqCrqKt~~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 7 GKTCHQCRQKTLDFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred CCCchhhcCCCCCCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 456777776543322211 22456 667999999887642 234999985
No 156
>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=69.06 E-value=1.5 Score=30.75 Aligned_cols=40 Identities=23% Similarity=0.555 Sum_probs=20.4
Q ss_pred cccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652 181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVC 229 (235)
Q Consensus 181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~ 229 (235)
..||.|.+++.... +|.+|..|-.. +.....||-|.+++.
T Consensus 2 ~~CP~C~~~L~~~~--------~~~~C~~C~~~-~~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEWQG--------GHYHCEACQKD-YKKEAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEEET--------TEEEETTT--E-EEEEEE-TTT-SB-E
T ss_pred CcCCCCCCccEEeC--------CEEECcccccc-ceecccCCCcccHHH
Confidence 47999988866532 45555556543 345567888887764
No 157
>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=68.59 E-value=4.2 Score=26.47 Aligned_cols=36 Identities=22% Similarity=0.494 Sum_probs=27.0
Q ss_pred cccccccccccCCCceeecCCCCCcccHHHHHHHHh
Q 026652 181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT 216 (235)
Q Consensus 181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~ 216 (235)
..|++|-..|..-..-.....||++||..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 479999888877544444557999999999876544
No 158
>COG3134 Predicted outer membrane lipoprotein [Function unknown]
Probab=67.53 E-value=3.4 Score=33.14 Aligned_cols=39 Identities=23% Similarity=0.404 Sum_probs=22.8
Q ss_pred hhhhhhhhhhhhccccccccCC--ccccchhhhhhHHHHHH
Q 026652 54 LGGAIVGTIFGAMKGQTTETGF--LHGAGIGAVAGAITALQ 92 (235)
Q Consensus 54 ~~g~~~g~~~ga~~g~~t~~g~--~~ga~~Ga~aGav~s~e 92 (235)
++|+.+||++|.+.|.--.-|. -.-+..||++|.....+
T Consensus 71 iaGt~iGAv~GGl~G~Q~GgG~Gk~~aTvAGAv~GGyaGN~ 111 (179)
T COG3134 71 IAGSVLGAVAGGVIGHQFGGGRGKDVATVAGALGGGYAGNQ 111 (179)
T ss_pred chhhhhHHHhhhhccccccCCCcchhhhhhhhhcccccchh
Confidence 4788899999988887644332 22223344444444444
No 159
>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=66.34 E-value=6 Score=29.11 Aligned_cols=39 Identities=21% Similarity=0.369 Sum_probs=31.5
Q ss_pred cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccC
Q 026652 179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCK 230 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~ 230 (235)
....|+-|...+.--+.+ | |-.|+..+..|..|+++++.
T Consensus 32 ~rS~C~~C~~~L~~~~lI---P----------i~S~l~lrGrCr~C~~~I~~ 70 (92)
T PF06750_consen 32 PRSHCPHCGHPLSWWDLI---P----------ILSYLLLRGRCRYCGAPIPP 70 (92)
T ss_pred CCCcCcCCCCcCcccccc---h----------HHHHHHhCCCCcccCCCCCh
Confidence 346899998888775554 5 77899999999999999864
No 160
>PF10439 Bacteriocin_IIc: Bacteriocin class II with double-glycine leader peptide; InterPro: IPR019493 Bacteriocins are proteinaceous toxins produced by bacteria to inhibit the growth of similar or closely related strains. The producer bacteria are protected from the effects of their own bacteriocins by production of a specific immunity protein which is co-transcribed with the genes encoding the bacteriocins, e.g. IPR015046 from INTERPRO. The bacteriocins are structurally more specific than their immunity-protein counterparts. Typically, production of the bacteriocin gene is from within an operon carrying up to 6 genes including a typical two-component regulatory system (R and H), a small peptide pheromone (C), and a dedicated ABC transporter (A and -B) as well as an immunity protein []. The ABC transporter is thought to recognise the N termini of both the pheromone and the bacteriocins and to transport these peptides across the cytoplasmic membrane, concurrent with cleavage at the conserved double-glycine motif. Cleaved extracellular C can then bind to the sensor kinase, H, resulting in activation of R and up-regulation of the entire gene cluster via binding to consensus sequences within each promoter []. It seems likely that the whole regulon is carried on a transmissible plasmid which is passed between closely related Firmicute species since many clinical isolates from different Firmicutes can produce at least two bacteriocins, and the same bacteriocins can be produced by different species. The proteins in this entry include amylovorin-L, lactacin-F and salivaricin CRL 1328, all of them class IIb two-peptide bacteriocins.
Probab=65.60 E-value=13 Score=25.44 Aligned_cols=8 Identities=0% Similarity=-0.417 Sum_probs=3.0
Q ss_pred HHHHHHHH
Q 026652 39 AMKRVLYA 46 (235)
Q Consensus 39 ~~~~~~~~ 46 (235)
++..++.+
T Consensus 29 ~~~~~~~G 36 (65)
T PF10439_consen 29 VGGGAAGG 36 (65)
T ss_pred HHHHHHHH
Confidence 33333333
No 161
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=65.55 E-value=4.6 Score=26.48 Aligned_cols=26 Identities=38% Similarity=0.934 Sum_probs=15.1
Q ss_pred ecCCCCCcccHHHHHHHHhcCCCCccc
Q 026652 198 KLPSCGHCFHSECVDKWLTRNGSCPVC 224 (235)
Q Consensus 198 ~Lp~C~H~Fh~~CI~~WL~~~~sCPlC 224 (235)
+.|.|+|.|-.. +..-......||.|
T Consensus 30 ~C~~Cgh~w~~~-v~~R~~~~~~CP~C 55 (55)
T PF14311_consen 30 KCPKCGHEWKAS-VNDRTRRGKGCPYC 55 (55)
T ss_pred ECCCCCCeeEcc-HhhhccCCCCCCCC
Confidence 344677766544 22222456779988
No 162
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=64.96 E-value=9.2 Score=33.45 Aligned_cols=41 Identities=20% Similarity=0.389 Sum_probs=32.6
Q ss_pred CcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCC--CCcc
Q 026652 180 EIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNG--SCPV 223 (235)
Q Consensus 180 ~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~--sCPl 223 (235)
+..|||=..++..|..-+ +|+|+|-++=|...+.... .||+
T Consensus 176 s~rdPis~~~I~nPviSk---kC~HvydrDsI~~~l~~~~~i~CPv 218 (262)
T KOG2979|consen 176 SNRDPISKKPIVNPVISK---KCGHVYDRDSIMQILCDEITIRCPV 218 (262)
T ss_pred cccCchhhhhhhchhhhc---CcCcchhhhhHHHHhccCceeeccc
Confidence 368999988888876554 7999999999999887643 3776
No 163
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=64.69 E-value=4.3 Score=35.40 Aligned_cols=34 Identities=18% Similarity=0.241 Sum_probs=28.7
Q ss_pred cCcccccccccccCCCceeecCCCCCcccHHHHHHHHh
Q 026652 179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT 216 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~ 216 (235)
+-..|+.||+.+.+|... +=||+|+.+||.+.+.
T Consensus 42 ~FdcCsLtLqPc~dPvit----~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 42 PFDCCSLTLQPCRDPVIT----PDGYLFDREAILEYIL 75 (303)
T ss_pred CcceeeeecccccCCccC----CCCeeeeHHHHHHHHH
Confidence 346899999999998766 5899999999988764
No 164
>PRK11677 hypothetical protein; Provisional
Probab=64.67 E-value=3.3 Score=32.78 Aligned_cols=25 Identities=32% Similarity=0.450 Sum_probs=19.8
Q ss_pred HHHhhhhhhhhhhhhccccccccCC
Q 026652 51 IFALGGAIVGTIFGAMKGQTTETGF 75 (235)
Q Consensus 51 ~~a~~g~~~g~~~ga~~g~~t~~g~ 75 (235)
+.|++|-++|+|+|+++++.+..+.
T Consensus 4 ~~a~i~livG~iiG~~~~R~~~~~~ 28 (134)
T PRK11677 4 EYALIGLVVGIIIGAVAMRFGNRKL 28 (134)
T ss_pred HHHHHHHHHHHHHHHHHHhhccchh
Confidence 5677888999999999988876543
No 165
>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=64.66 E-value=2.8 Score=27.45 Aligned_cols=39 Identities=33% Similarity=0.739 Sum_probs=21.3
Q ss_pred CcccccccccccCCCceeecCCCCCcccHHHHHHHHh--cCCCCcccccccc
Q 026652 180 EIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT--RNGSCPVCRECVC 229 (235)
Q Consensus 180 ~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~--~~~sCPlCR~~v~ 229 (235)
...||.|-+++... .+ +.| |.+.--. +.-.||+|...+.
T Consensus 2 ~f~CP~C~~~~~~~-~L-----~~H-----~~~~H~~~~~~v~CPiC~~~~~ 42 (54)
T PF05605_consen 2 SFTCPYCGKGFSES-SL-----VEH-----CEDEHRSESKNVVCPICSSRVT 42 (54)
T ss_pred CcCCCCCCCccCHH-HH-----HHH-----HHhHCcCCCCCccCCCchhhhh
Confidence 45799998865542 22 333 2222211 2345999987544
No 166
>PRK10457 hypothetical protein; Provisional
Probab=64.44 E-value=9.7 Score=27.45 Aligned_cols=45 Identities=36% Similarity=0.471 Sum_probs=30.9
Q ss_pred HHHHHHHhhhhhhhhhhhhccccccccCCccccchhhhhhHHHHH
Q 026652 47 ALTCIFALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITAL 91 (235)
Q Consensus 47 ~~~~~~a~~g~~~g~~~ga~~g~~t~~g~~~ga~~Ga~aGav~s~ 91 (235)
+.|.+..++|+++|..++...|....+|+--+.-+.++.||+.-+
T Consensus 30 ~~tiilGiiGA~iGg~l~~~~g~~~~~g~~~~~~i~aviGAiill 74 (82)
T PRK10457 30 FMTIILGIVGAVVGGWISTFFGFGKVDGFNFGSFVVAVIGAIVVL 74 (82)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCccccccccHHHHHHHHHHHHHHH
Confidence 455567888888888887776665445554445677888888743
No 167
>COG4803 Predicted membrane protein [Function unknown]
Probab=63.88 E-value=7.2 Score=31.47 Aligned_cols=22 Identities=41% Similarity=0.635 Sum_probs=15.1
Q ss_pred hhhhhhhhhhhhccccccccCC
Q 026652 54 LGGAIVGTIFGAMKGQTTETGF 75 (235)
Q Consensus 54 ~~g~~~g~~~ga~~g~~t~~g~ 75 (235)
+.|..+||.+||+.|-.++-|.
T Consensus 80 l~G~avGAa~GAl~g~l~DvGI 101 (170)
T COG4803 80 LLGMAVGAASGALSGSLTDVGI 101 (170)
T ss_pred HHHHHHHHhhhhhccceeecCc
Confidence 4677777777777777776554
No 168
>PRK15361 pathogenicity island 2 effector protein SseD; Provisional
Probab=63.82 E-value=6.9 Score=32.59 Aligned_cols=36 Identities=28% Similarity=0.230 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHHHhhhhhhhhhhhhcccccccc
Q 026652 38 RAMKRVLYAALTCIFALGGAIVGTIFGAMKGQTTET 73 (235)
Q Consensus 38 ~~~~~~~~~~~~~~~a~~g~~~g~~~ga~~g~~t~~ 73 (235)
.-++.+++|++|.-|..+|+..|...|-.+|+.+..
T Consensus 92 sav~~IlsGV~t~g~G~vGg~ag~~~g~gagh~~~g 127 (195)
T PRK15361 92 TAGGAMLSGVLTIGLGAVGGETGLIAGQAVGHTAGG 127 (195)
T ss_pred HHHHHHHHhHHHhcccccchHHHHHhhhhhhhhhhc
Confidence 445566666666656667777777666666666664
No 169
>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 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=61.68 E-value=6.8 Score=22.34 Aligned_cols=29 Identities=21% Similarity=0.541 Sum_probs=11.7
Q ss_pred ccccccccccCCCceeecCCCCCcccHHHH
Q 026652 182 GCSICLEKFEEGDSARKLPSCGHCFHSECV 211 (235)
Q Consensus 182 ~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI 211 (235)
.|.+|.+.... ......+.|.-.+|.+|+
T Consensus 2 ~C~~C~~~~~~-~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDG-GWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S---EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCC-CceEECccCCCccChhcC
Confidence 58888887766 456666679999999985
No 171
>PLN02189 cellulose synthase
Probab=61.11 E-value=8.6 Score=39.95 Aligned_cols=51 Identities=22% Similarity=0.462 Sum_probs=36.5
Q ss_pred cCccccccccccc---CCCceeecCCCCCcccHHHHHHH-HhcCCCCcccccccc
Q 026652 179 NEIGCSICLEKFE---EGDSARKLPSCGHCFHSECVDKW-LTRNGSCPVCRECVC 229 (235)
Q Consensus 179 ~~~~C~ICle~f~---~~~~~~~Lp~C~H~Fh~~CI~~W-L~~~~sCPlCR~~v~ 229 (235)
+...|.||-+++. +++.-..+..|+--.|..|.+-= -..++.||.|+....
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 4458999999875 44555556568888999999532 224567999998775
No 172
>COG4171 SapC ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]
Probab=59.73 E-value=16 Score=31.63 Aligned_cols=54 Identities=22% Similarity=0.348 Sum_probs=37.2
Q ss_pred hhhHHHHHHHHHHH----H-HHHHHHHhhhhhhhhhhhhccccccccCCccccchhhhhhHHHHHH
Q 026652 32 GTGVLIRAMKRVLY----A-ALTCIFALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITALQ 92 (235)
Q Consensus 32 ~~~~~~~~~~~~~~----~-~~~~~~a~~g~~~g~~~ga~~g~~t~~g~~~ga~~Ga~aGav~s~e 92 (235)
|-..++|++.+... + +.|+.-++.|.++|+++|+..|. |.+-+|.+-.++.|+.
T Consensus 84 GRDvlSRli~Gt~~t~G~allvt~~a~l~g~~lGi~AG~t~gl-------~s~~lnHilDt~lSiP 142 (296)
T COG4171 84 GRDVLSRLISGTAPTVGGALLVTLAATICGGVLGIFAGATHGL-------RSAVLNHILDTLLSIP 142 (296)
T ss_pred hHHHHHHHHccCccccchHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHhhH
Confidence 55567777765432 2 34555677899999998888875 4456788888887665
No 173
>PF06844 DUF1244: Protein of unknown function (DUF1244); InterPro: IPR009654 This family consists of several short bacterial proteins of around 100 residues in length. The function of this family is unknown.; PDB: 2O35_A 3FYB_B.
Probab=59.25 E-value=5.7 Score=27.46 Aligned_cols=11 Identities=36% Similarity=1.132 Sum_probs=8.4
Q ss_pred ccHHHHHHHHh
Q 026652 206 FHSECVDKWLT 216 (235)
Q Consensus 206 Fh~~CI~~WL~ 216 (235)
||+.|+.+|..
T Consensus 12 FCRNCLskWy~ 22 (68)
T PF06844_consen 12 FCRNCLSKWYR 22 (68)
T ss_dssp --HHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99999999986
No 174
>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=59.14 E-value=5.2 Score=25.89 Aligned_cols=38 Identities=24% Similarity=0.591 Sum_probs=17.4
Q ss_pred cccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccC
Q 026652 183 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCK 230 (235)
Q Consensus 183 C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~ 230 (235)
|+-|-+.+...+.+.. .-+..||.+|. .|-.|++++.+
T Consensus 1 C~~C~~~I~~~~~~~~--~~~~~~H~~Cf--------~C~~C~~~l~~ 38 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIK--AMGKFWHPECF--------KCSKCGKPLND 38 (58)
T ss_dssp BTTTSSBESSSSEEEE--ETTEEEETTTS--------BETTTTCBTTT
T ss_pred CCCCCCCccCcEEEEE--eCCcEEEcccc--------ccCCCCCccCC
Confidence 4455555554333311 13455555443 35555555543
No 175
>COG4980 GvpP Gas vesicle protein [General function prediction only]
Probab=59.05 E-value=3.4 Score=31.80 Aligned_cols=6 Identities=33% Similarity=0.612 Sum_probs=2.2
Q ss_pred hhhhHH
Q 026652 83 AVAGAI 88 (235)
Q Consensus 83 a~aGav 88 (235)
++.||+
T Consensus 15 giiGa~ 20 (115)
T COG4980 15 GIIGAA 20 (115)
T ss_pred HHHHHH
Confidence 333333
No 176
>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=58.80 E-value=6.3 Score=23.16 Aligned_cols=21 Identities=33% Similarity=0.694 Sum_probs=12.9
Q ss_pred CCCCcccHHHHHHHHhcCCCCcccccc
Q 026652 201 SCGHCFHSECVDKWLTRNGSCPVCREC 227 (235)
Q Consensus 201 ~C~H~Fh~~CI~~WL~~~~sCPlCR~~ 227 (235)
.|||++-..- ....||+|..+
T Consensus 6 ~CGy~y~~~~------~~~~CP~Cg~~ 26 (33)
T cd00350 6 VCGYIYDGEE------APWVCPVCGAP 26 (33)
T ss_pred CCCCEECCCc------CCCcCcCCCCc
Confidence 4777664432 34579999764
No 177
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=57.76 E-value=2.5 Score=27.71 Aligned_cols=11 Identities=27% Similarity=0.866 Sum_probs=5.3
Q ss_pred CCccccccccC
Q 026652 220 SCPVCRECVCK 230 (235)
Q Consensus 220 sCPlCR~~v~~ 230 (235)
.||+|.+++..
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 68888887754
No 178
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=57.39 E-value=8.2 Score=34.78 Aligned_cols=49 Identities=18% Similarity=0.295 Sum_probs=34.2
Q ss_pred cCcccccccccccCCC----------ceeecCCCCCcccHHHHHHHHhcCCCCcccccc
Q 026652 179 NEIGCSICLEKFEEGD----------SARKLPSCGHCFHSECVDKWLTRNGSCPVCREC 227 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~----------~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~ 227 (235)
....|-.|...|..+. .....+.|+..||.+|-.---+.-..||.|..+
T Consensus 361 ks~~Cf~CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh~C~gCe~~ 419 (421)
T COG5151 361 KSTHCFVCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCDVFIHETLHFCIGCELP 419 (421)
T ss_pred CCccceeccCCCCCCCCCcccccccccceechhhhhhhhhhhHHHHHHHHhhCCCCcCC
Confidence 3467999999887542 234566799999999965433344569999643
No 179
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=57.21 E-value=18 Score=25.88 Aligned_cols=52 Identities=21% Similarity=0.392 Sum_probs=20.9
Q ss_pred cCcccccccccccC---CCceeecCCCCCcccHHHHHHHHh-cCCCCccccccccC
Q 026652 179 NEIGCSICLEKFEE---GDSARKLPSCGHCFHSECVDKWLT-RNGSCPVCRECVCK 230 (235)
Q Consensus 179 ~~~~C~ICle~f~~---~~~~~~Lp~C~H~Fh~~CI~~WL~-~~~sCPlCR~~v~~ 230 (235)
+...|-||=++... ++.......|+--.|+.|.+-=.+ .++.||.|+.+...
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr 63 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKR 63 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B---
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCccc
Confidence 45689999888753 343343445777789999874333 45679999987653
No 180
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=56.98 E-value=9.7 Score=30.28 Aligned_cols=15 Identities=33% Similarity=0.698 Sum_probs=11.6
Q ss_pred CCCccccccccCCCC
Q 026652 219 GSCPVCRECVCKDTD 233 (235)
Q Consensus 219 ~sCPlCR~~v~~~~~ 233 (235)
..||.|...+...++
T Consensus 124 f~Cp~Cg~~l~~~dn 138 (147)
T smart00531 124 FTCPRCGEELEEDDN 138 (147)
T ss_pred EECCCCCCEEEEcCc
Confidence 679999998875543
No 181
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=56.29 E-value=3.4 Score=27.34 Aligned_cols=21 Identities=29% Similarity=0.687 Sum_probs=16.8
Q ss_pred CceeecCCCCCcccHHHHHHH
Q 026652 194 DSARKLPSCGHCFHSECVDKW 214 (235)
Q Consensus 194 ~~~~~Lp~C~H~Fh~~CI~~W 214 (235)
......|.|+|.||..|...|
T Consensus 38 ~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 38 CNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CCeeECCCCCCeECCCCCCcC
Confidence 445566679999999998888
No 182
>PF11981 DUF3482: Domain of unknown function (DUF3482); InterPro: IPR021871 This presumed domain is functionally uncharacterised. This domain is found in bacteria and eukaryotes. This domain is typically between 289 to 301 amino acids in length. This domain is found associated with PF01926 from PFAM.
Probab=55.93 E-value=3.3 Score=37.02 Aligned_cols=14 Identities=50% Similarity=0.710 Sum_probs=8.9
Q ss_pred CccccchhhhhhHH
Q 026652 75 FLHGAGIGAVAGAI 88 (235)
Q Consensus 75 ~~~ga~~Ga~aGav 88 (235)
+--|+.+||+.|++
T Consensus 171 LG~gaaiGal~Gg~ 184 (292)
T PF11981_consen 171 LGAGAAIGALAGGA 184 (292)
T ss_pred hHHHHHHHHHHHHH
Confidence 34466677777766
No 183
>COG4803 Predicted membrane protein [Function unknown]
Probab=53.94 E-value=1.9 Score=34.70 Aligned_cols=15 Identities=40% Similarity=0.780 Sum_probs=7.4
Q ss_pred CCccccchhhhhhHH
Q 026652 74 GFLHGAGIGAVAGAI 88 (235)
Q Consensus 74 g~~~ga~~Ga~aGav 88 (235)
|+--||+.||++|++
T Consensus 82 G~avGAa~GAl~g~l 96 (170)
T COG4803 82 GMAVGAASGALSGSL 96 (170)
T ss_pred HHHHHHhhhhhccce
Confidence 444445555555544
No 184
>PLN02436 cellulose synthase A
Probab=53.01 E-value=13 Score=38.92 Aligned_cols=51 Identities=22% Similarity=0.483 Sum_probs=36.3
Q ss_pred cCccccccccccc---CCCceeecCCCCCcccHHHHHHHH-hcCCCCcccccccc
Q 026652 179 NEIGCSICLEKFE---EGDSARKLPSCGHCFHSECVDKWL-TRNGSCPVCRECVC 229 (235)
Q Consensus 179 ~~~~C~ICle~f~---~~~~~~~Lp~C~H~Fh~~CI~~WL-~~~~sCPlCR~~v~ 229 (235)
....|.||-+++. +++.-..+..|+--.|..|.+-=- ..+++||.|++...
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 3458999999864 455555555688779999995322 24567999998775
No 185
>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=52.80 E-value=13 Score=32.77 Aligned_cols=44 Identities=32% Similarity=0.539 Sum_probs=29.7
Q ss_pred cCcccccccccccCCCceeecCCCCC-cccHHHHHHH-HhcCCCCc
Q 026652 179 NEIGCSICLEKFEEGDSARKLPSCGH-CFHSECVDKW-LTRNGSCP 222 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~~~~~Lp~C~H-~Fh~~CI~~W-L~~~~sCP 222 (235)
.-..|.||++-...+..-..|++=.- .=|.+|..+| |..+..||
T Consensus 29 tLsfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~p 74 (285)
T PF06937_consen 29 TLSFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCP 74 (285)
T ss_pred ceeecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCC
Confidence 34578888887666554443442222 5689999999 55677788
No 186
>COG4980 GvpP Gas vesicle protein [General function prediction only]
Probab=52.66 E-value=5.9 Score=30.50 Aligned_cols=11 Identities=45% Similarity=0.788 Sum_probs=4.8
Q ss_pred hhhhhhhhhhh
Q 026652 55 GGAIVGTIFGA 65 (235)
Q Consensus 55 ~g~~~g~~~ga 65 (235)
+|+++|+++||
T Consensus 9 ~G~liGgiiGa 19 (115)
T COG4980 9 FGILIGGIIGA 19 (115)
T ss_pred HHHHHHHHHHH
Confidence 34444444433
No 187
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=51.03 E-value=8.1 Score=26.15 Aligned_cols=16 Identities=31% Similarity=0.710 Sum_probs=12.5
Q ss_pred cCCCCccccccccCCC
Q 026652 217 RNGSCPVCRECVCKDT 232 (235)
Q Consensus 217 ~~~sCPlCR~~v~~~~ 232 (235)
.|+.||+|-.+++++.
T Consensus 2 ~HkHC~~CG~~Ip~~~ 17 (59)
T PF09889_consen 2 PHKHCPVCGKPIPPDE 17 (59)
T ss_pred CCCcCCcCCCcCCcch
Confidence 4778999988887654
No 188
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=51.01 E-value=7.5 Score=38.61 Aligned_cols=37 Identities=35% Similarity=0.629 Sum_probs=27.0
Q ss_pred ceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652 195 SARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD 231 (235)
Q Consensus 195 ~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~ 231 (235)
.+..+|.|..+||.+=.+--..++..||.||....+.
T Consensus 1043 ~it~Cp~C~~~F~~eDFEl~vLqKGHCPFCrTS~dd~ 1079 (1081)
T KOG1538|consen 1043 SITMCPSCFQMFHSEDFELLVLQKGHCPFCRTSKDDP 1079 (1081)
T ss_pred hhhhCchHHhhhccchhhHHHHhcCCCCcccccccCC
Confidence 4455667888888776665556889999999876654
No 189
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=50.23 E-value=4.3 Score=25.26 Aligned_cols=26 Identities=27% Similarity=0.473 Sum_probs=14.8
Q ss_pred CCCCCcccHHHHHHHHhcCCCCccccc
Q 026652 200 PSCGHCFHSECVDKWLTRNGSCPVCRE 226 (235)
Q Consensus 200 p~C~H~Fh~~CI~~WL~~~~sCPlCR~ 226 (235)
+.|||.|-..--..= .....||.|..
T Consensus 9 ~~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 9 EECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 468887754321110 23456999987
No 190
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=50.02 E-value=12 Score=33.72 Aligned_cols=48 Identities=23% Similarity=0.463 Sum_probs=33.6
Q ss_pred ccCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcC---CCCccccc
Q 026652 178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN---GSCPVCRE 226 (235)
Q Consensus 178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~---~sCPlCR~ 226 (235)
.....||+=.+.-.+......+. |||+.-.+-++..-++. ..||+|-.
T Consensus 334 Hs~FiCPVlKe~~t~ENpP~ml~-CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 334 HSLFICPVLKELCTDENPPVMLE-CGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred cceeeccccHhhhcccCCCeeee-ccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 44568998777766666666675 99999988887643322 24999943
No 191
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=49.72 E-value=18 Score=32.72 Aligned_cols=53 Identities=25% Similarity=0.563 Sum_probs=34.1
Q ss_pred cCcccccccccccC---------------CC-ceeecCCCCCcccHHHHHHHHhc---------CCCCccccccccCCC
Q 026652 179 NEIGCSICLEKFEE---------------GD-SARKLPSCGHCFHSECVDKWLTR---------NGSCPVCRECVCKDT 232 (235)
Q Consensus 179 ~~~~C~ICle~f~~---------------~~-~~~~Lp~C~H~Fh~~CI~~WL~~---------~~sCPlCR~~v~~~~ 232 (235)
.+.+||+|+..=.. +. ....-| |||+--.+-..-|-+. |..||.|-+.+..+.
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~P-CGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge~ 417 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNP-CGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGEQ 417 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCC-cccccchhhhhHhhcCcCCCccccccccCcchhhhhccCC
Confidence 36789999865221 11 112344 9999777777778652 345999988776553
No 192
>PRK11280 hypothetical protein; Provisional
Probab=49.24 E-value=10 Score=31.22 Aligned_cols=42 Identities=26% Similarity=0.379 Sum_probs=26.8
Q ss_pred HHHHHhhhhhhhhhhhhccccccccCCccccchhhhhhHHHHHH
Q 026652 49 TCIFALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITALQ 92 (235)
Q Consensus 49 ~~~~a~~g~~~g~~~ga~~g~~t~~g~~~ga~~Ga~aGav~s~e 92 (235)
|.+.|++|+++|..+|.-.|.. .+-.-|+..|+++|..+.-.
T Consensus 68 tv~Gav~Gg~~G~~iGgG~Gr~--~at~~Ga~~G~~~G~~i~~~ 109 (170)
T PRK11280 68 SVLGAVAGGVLGHQFGGGRGKD--VATVAGALGGGYAGNQIQGG 109 (170)
T ss_pred HHHHHHHHHHhhhhccCCCccH--HHHHHHHHHHHHHHHHHHHH
Confidence 4456666777777766555543 34456778888888777544
No 193
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=48.85 E-value=9.2 Score=30.31 Aligned_cols=24 Identities=25% Similarity=0.670 Sum_probs=18.4
Q ss_pred eecCCCCCcccHHHHHHHHhcCCCCccccccc
Q 026652 197 RKLPSCGHCFHSECVDKWLTRNGSCPVCRECV 228 (235)
Q Consensus 197 ~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v 228 (235)
.++++|||+|+- -+.-||.|..+.
T Consensus 30 ~kC~~CG~v~~P--------Pr~~Cp~C~~~~ 53 (140)
T COG1545 30 TKCKKCGRVYFP--------PRAYCPKCGSET 53 (140)
T ss_pred EEcCCCCeEEcC--------CcccCCCCCCCC
Confidence 456689999885 467799998774
No 194
>PRK02935 hypothetical protein; Provisional
Probab=48.68 E-value=14 Score=28.04 Aligned_cols=20 Identities=30% Similarity=0.501 Sum_probs=14.4
Q ss_pred HHHhcCCCCccccccccCCC
Q 026652 213 KWLTRNGSCPVCRECVCKDT 232 (235)
Q Consensus 213 ~WL~~~~sCPlCR~~v~~~~ 232 (235)
+-|.+-..|+.|++|+.-+.
T Consensus 81 KmLGrvD~CM~C~~PLTLd~ 100 (110)
T PRK02935 81 KMLGRVDACMHCNQPLTLDR 100 (110)
T ss_pred hhccceeecCcCCCcCCcCc
Confidence 44556677999999987543
No 195
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=48.28 E-value=5.9 Score=36.74 Aligned_cols=44 Identities=27% Similarity=0.671 Sum_probs=0.0
Q ss_pred CcccccccccccCCCce-----------eecCCCCCcccHHHHHHHHh------cCCCCcccccc
Q 026652 180 EIGCSICLEKFEEGDSA-----------RKLPSCGHCFHSECVDKWLT------RNGSCPVCREC 227 (235)
Q Consensus 180 ~~~C~ICle~f~~~~~~-----------~~Lp~C~H~Fh~~CI~~WL~------~~~sCPlCR~~ 227 (235)
..+||+=+..+.-+... ..+ +|||++-+. .|-. +..+||+||+.
T Consensus 277 rpQCPVglnTL~fp~~~~~~~~~~~qP~VYl-~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 277 RPQCPVGLNTLVFPSKSRKDVPDERQPWVYL-NCGHVHGYH---NWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp -----------------------------------------------------------------
T ss_pred CCCCCcCCCccccccccccccccccCceeec-cccceeeec---ccccccccccccccCCCcccc
Confidence 45777776665433221 223 699987543 5643 24579999964
No 196
>PF12732 YtxH: YtxH-like protein; InterPro: IPR024623 This family of uncharacterised proteins is found in bacteria. Proteins in this family are typically between 100 and 143 amino acids in length. The N-terminal region is the most conserved.
Probab=47.77 E-value=12 Score=26.05 Aligned_cols=11 Identities=45% Similarity=0.474 Sum_probs=5.1
Q ss_pred chhhhhhHHHH
Q 026652 80 GIGAVAGAITA 90 (235)
Q Consensus 80 ~~Ga~aGav~s 90 (235)
.+|+++|++++
T Consensus 6 l~Ga~~Ga~~g 16 (74)
T PF12732_consen 6 LAGAAAGAAAG 16 (74)
T ss_pred HHHHHHHHHHH
Confidence 44444444443
No 197
>PLN02720 complex II
Probab=46.84 E-value=9.3 Score=29.96 Aligned_cols=41 Identities=29% Similarity=0.461 Sum_probs=24.6
Q ss_pred HHhhhhhhhhhh-hhccccccccCCccccch----hhhhhHHHHHHHh
Q 026652 52 FALGGAIVGTIF-GAMKGQTTETGFLHGAGI----GAVAGAITALQLL 94 (235)
Q Consensus 52 ~a~~g~~~g~~~-ga~~g~~t~~g~~~ga~~----Ga~aGav~s~e~~ 94 (235)
||++|+++||+- |+++=..+.+ .+|+++ |++.|.+++-|+.
T Consensus 68 fa~~Ga~vGa~~tag~a~kysk~--phga~lsfl~G~~~G~~~G~EvA 113 (140)
T PLN02720 68 FAVTGAAVGAVSTAGVAWKYSKS--PHGAALAFLGGGVFGWAFGQEVA 113 (140)
T ss_pred HHhhhhhhhhhhhhHHHHHhhcC--CchHHHHHhccchhhhhHhHHHH
Confidence 888999999873 3333333444 566655 4555555555544
No 198
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=46.77 E-value=7.3 Score=30.36 Aligned_cols=22 Identities=36% Similarity=0.596 Sum_probs=16.6
Q ss_pred HhhhhhhhhhhhhccccccccC
Q 026652 53 ALGGAIVGTIFGAMKGQTTETG 74 (235)
Q Consensus 53 a~~g~~~g~~~ga~~g~~t~~g 74 (235)
|++|.++|.|+|.+++..+..+
T Consensus 2 ~~i~lvvG~iiG~~~~r~~~~~ 23 (128)
T PF06295_consen 2 AIIGLVVGLIIGFLIGRLTSSN 23 (128)
T ss_pred hHHHHHHHHHHHHHHHHHhccc
Confidence 5677788888888888777654
No 199
>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=45.56 E-value=12 Score=28.52 Aligned_cols=47 Identities=23% Similarity=0.445 Sum_probs=29.2
Q ss_pred cCcccccccccccCC-CceeecCCCCCcccHHHHHHHHhcCC--CCccccc
Q 026652 179 NEIGCSICLEKFEEG-DSARKLPSCGHCFHSECVDKWLTRNG--SCPVCRE 226 (235)
Q Consensus 179 ~~~~C~ICle~f~~~-~~~~~Lp~C~H~Fh~~CI~~WL~~~~--sCPlCR~ 226 (235)
++..|.+|...|..- ..-...+.|+|.+|..|-.. ..+.. .|.+|++
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhHH
Confidence 567899999887532 12345667999999999654 11122 2888864
No 200
>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=44.73 E-value=5.5 Score=24.09 Aligned_cols=31 Identities=26% Similarity=0.576 Sum_probs=19.6
Q ss_pred ecCCCCCcccHHHHHHHHhcCCCCccccccccC
Q 026652 198 KLPSCGHCFHSECVDKWLTRNGSCPVCRECVCK 230 (235)
Q Consensus 198 ~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~ 230 (235)
..|+||++||..=--+ +....|..|..++..
T Consensus 3 ~C~~Cg~~Yh~~~~pP--~~~~~Cd~cg~~L~q 33 (36)
T PF05191_consen 3 ICPKCGRIYHIEFNPP--KVEGVCDNCGGELVQ 33 (36)
T ss_dssp EETTTTEEEETTTB----SSTTBCTTTTEBEBE
T ss_pred CcCCCCCccccccCCC--CCCCccCCCCCeeEe
Confidence 4568999999642211 234669999877654
No 201
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=44.16 E-value=21 Score=37.34 Aligned_cols=51 Identities=22% Similarity=0.444 Sum_probs=35.2
Q ss_pred cCccccccccccc---CCCceeecCCCCCcccHHHHHH-HHhcCCCCcccccccc
Q 026652 179 NEIGCSICLEKFE---EGDSARKLPSCGHCFHSECVDK-WLTRNGSCPVCRECVC 229 (235)
Q Consensus 179 ~~~~C~ICle~f~---~~~~~~~Lp~C~H~Fh~~CI~~-WL~~~~sCPlCR~~v~ 229 (235)
+...|-||=++.. +++.-..+..|+--.|+.|.+= .-+.+..||.|+....
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 3458999998865 3444444556777799999942 2224567999998765
No 202
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=44.11 E-value=4.1 Score=35.95 Aligned_cols=48 Identities=33% Similarity=0.592 Sum_probs=35.4
Q ss_pred CcccccccccccCC--Cce-eecCC-------CCCcccHHHHHHHHhcC-CCCcccccc
Q 026652 180 EIGCSICLEKFEEG--DSA-RKLPS-------CGHCFHSECVDKWLTRN-GSCPVCREC 227 (235)
Q Consensus 180 ~~~C~ICle~f~~~--~~~-~~Lp~-------C~H~Fh~~CI~~WL~~~-~sCPlCR~~ 227 (235)
+..|.||...+... ..+ +.+.. |+|..|..|++.-+.+. ..||.||..
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 46799999888832 222 23323 99999999999987655 479999874
No 203
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=43.82 E-value=21 Score=37.26 Aligned_cols=51 Identities=20% Similarity=0.451 Sum_probs=35.3
Q ss_pred cCccccccccccc---CCCceeecCCCCCcccHHHHHHHH-hcCCCCcccccccc
Q 026652 179 NEIGCSICLEKFE---EGDSARKLPSCGHCFHSECVDKWL-TRNGSCPVCRECVC 229 (235)
Q Consensus 179 ~~~~C~ICle~f~---~~~~~~~Lp~C~H~Fh~~CI~~WL-~~~~sCPlCR~~v~ 229 (235)
....|-||=++.. +++.-..+..|+--.|..|.+-=. ..+..||.|+....
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 4568999988865 344444444677779999995222 24567999998776
No 204
>PF05818 TraT: Enterobacterial TraT complement resistance protein; InterPro: IPR008874 The traT gene is one of the F factor transfer genes and encodes an outer membrane protein which is involved in interactions between Escherichia coli and its surroundings []. The protein plays a role in preventing unproductive conjugation between bacteria carrying like plasmids.; GO: 0046999 regulation of conjugation, 0019867 outer membrane
Probab=43.56 E-value=11 Score=32.09 Aligned_cols=37 Identities=41% Similarity=0.568 Sum_probs=21.0
Q ss_pred Hhhhhhhhhhhhhcccccccc--C-CccccchhhhhhHHH
Q 026652 53 ALGGAIVGTIFGAMKGQTTET--G-FLHGAGIGAVAGAIT 89 (235)
Q Consensus 53 a~~g~~~g~~~ga~~g~~t~~--g-~~~ga~~Ga~aGav~ 89 (235)
|++|+.+|+.+|+.-+-.+.. | -+-|+.+|.++|+..
T Consensus 90 a~~Ga~~G~~~g~~~~~~~g~~~G~GlaGalig~~ada~v 129 (215)
T PF05818_consen 90 ALAGAATGAAIGAYNSGSAGAAIGAGLAGALIGMIADAMV 129 (215)
T ss_pred HHHHhHHhhhhccccCCccchhhhhhHHHhHHHHHHhhhc
Confidence 566666777777665444442 2 244556666666553
No 205
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=43.50 E-value=7.8 Score=35.98 Aligned_cols=51 Identities=20% Similarity=0.492 Sum_probs=0.0
Q ss_pred CcccccccccccC-------------C---CceeecCCCCCcccHHHHHHHHhc---------CCCCccccccccCC
Q 026652 180 EIGCSICLEKFEE-------------G---DSARKLPSCGHCFHSECVDKWLTR---------NGSCPVCRECVCKD 231 (235)
Q Consensus 180 ~~~C~ICle~f~~-------------~---~~~~~Lp~C~H~Fh~~CI~~WL~~---------~~sCPlCR~~v~~~ 231 (235)
+..||+|+..=.. + -....-| |||+-=.+...-|-+- +..||.|-.++..+
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~P-CGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g~ 403 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNP-CGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDGE 403 (416)
T ss_dssp -----------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecc-cccccchhhhhhhhcCCCCCCcccccccCCcccCcccCC
Confidence 6789999865221 0 1122345 9999888888888651 24599999888643
No 206
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=42.51 E-value=12 Score=25.30 Aligned_cols=15 Identities=27% Similarity=0.773 Sum_probs=10.7
Q ss_pred CCCCccccccccCCC
Q 026652 218 NGSCPVCRECVCKDT 232 (235)
Q Consensus 218 ~~sCPlCR~~v~~~~ 232 (235)
+..||+|..+.....
T Consensus 39 ~p~CPlC~s~M~~~~ 53 (59)
T PF14169_consen 39 EPVCPLCKSPMVSGT 53 (59)
T ss_pred CccCCCcCCccccce
Confidence 466999988776543
No 207
>PRK01343 zinc-binding protein; Provisional
Probab=42.43 E-value=17 Score=24.37 Aligned_cols=11 Identities=27% Similarity=0.718 Sum_probs=5.7
Q ss_pred CCCcccccccc
Q 026652 219 GSCPVCRECVC 229 (235)
Q Consensus 219 ~sCPlCR~~v~ 229 (235)
..||+|++++.
T Consensus 10 ~~CP~C~k~~~ 20 (57)
T PRK01343 10 RPCPECGKPST 20 (57)
T ss_pred CcCCCCCCcCc
Confidence 34566655543
No 208
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=42.10 E-value=3.8 Score=36.33 Aligned_cols=48 Identities=17% Similarity=0.193 Sum_probs=20.5
Q ss_pred cCcccccccccccCCCceeecC--CCCCcccHHHHHHHHhcCCCCcccccc
Q 026652 179 NEIGCSICLEKFEEGDSARKLP--SCGHCFHSECVDKWLTRNGSCPVCREC 227 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~~~~~Lp--~C~H~Fh~~CI~~WL~~~~sCPlCR~~ 227 (235)
....||||=..-...... .-. .=.|.+|.-|-..|--....||.|-..
T Consensus 171 ~~g~CPvCGs~P~~s~l~-~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 171 QRGYCPVCGSPPVLSVLR-GGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp T-SS-TTT---EEEEEEE-------EEEEEETTT--EEE--TTS-TTT---
T ss_pred cCCcCCCCCCcCceEEEe-cCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 346899996553221111 110 124667778888998778889999643
No 209
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=41.90 E-value=7.1 Score=34.78 Aligned_cols=44 Identities=23% Similarity=0.568 Sum_probs=32.9
Q ss_pred CcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCCCC
Q 026652 180 EIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKDTD 233 (235)
Q Consensus 180 ~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~~~ 233 (235)
...|+-|.+.+.....+|+- =.|+||..|.. |-+|++.+..-++
T Consensus 92 GTKCsaC~~GIpPtqVVRkA--qd~VYHl~CF~--------C~iC~R~L~TGdE 135 (383)
T KOG4577|consen 92 GTKCSACQEGIPPTQVVRKA--QDFVYHLHCFA--------CFICKRQLATGDE 135 (383)
T ss_pred CCcchhhcCCCChHHHHHHh--hcceeehhhhh--------hHhhhcccccCCe
Confidence 35799999988887777654 58999999974 7788777665443
No 210
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=41.34 E-value=15 Score=31.81 Aligned_cols=41 Identities=22% Similarity=0.262 Sum_probs=31.4
Q ss_pred CcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCC--CCcc
Q 026652 180 EIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNG--SCPV 223 (235)
Q Consensus 180 ~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~--sCPl 223 (235)
+..|||=++....+..-+ +|.|.|-.+-|.+.|+... .||.
T Consensus 189 ~nrCpitl~p~~~pils~---kcnh~~e~D~I~~~lq~~~trvcp~ 231 (275)
T COG5627 189 SNRCPITLNPDFYPILSS---KCNHKPEMDLINKKLQVECTRVCPR 231 (275)
T ss_pred cccCCcccCcchhHHHHh---hhcccccHHHHHHHhcCCceeecch
Confidence 468999888877654433 7999999999999998554 4763
No 211
>PRK13731 conjugal transfer surface exclusion protein TraT; Provisional
Probab=41.24 E-value=17 Score=31.60 Aligned_cols=12 Identities=50% Similarity=0.650 Sum_probs=6.2
Q ss_pred hhhhhhhhhhcc
Q 026652 56 GAIVGTIFGAMK 67 (235)
Q Consensus 56 g~~~g~~~ga~~ 67 (235)
|+++||.+|+.+
T Consensus 119 ga~~Gaa~G~~~ 130 (243)
T PRK13731 119 GAAVGAALGAGI 130 (243)
T ss_pred hHHHHHHhhhhh
Confidence 555555555544
No 212
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=40.75 E-value=9.5 Score=38.62 Aligned_cols=47 Identities=21% Similarity=0.454 Sum_probs=31.6
Q ss_pred cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhc------CCCCcccccc
Q 026652 179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR------NGSCPVCREC 227 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~------~~sCPlCR~~ 227 (235)
....|..|...... ..-++|.|+|.+|.+|+..|.-+ -..|+.|+..
T Consensus 228 ~~~mC~~C~~tlfn--~hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~~ 280 (889)
T KOG1356|consen 228 IREMCDRCETTLFN--IHWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWLK 280 (889)
T ss_pred cchhhhhhcccccc--eeEEccccCCeeeecchhhccccchHhHhhhhhhHHHHh
Confidence 34678888654322 34567789999999999999521 1347777643
No 213
>COG3133 SlyB Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]
Probab=40.55 E-value=13 Score=29.62 Aligned_cols=34 Identities=32% Similarity=0.535 Sum_probs=23.8
Q ss_pred hhhhhhhhhhhhccccccccCCccccchhhhhhHHH
Q 026652 54 LGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAIT 89 (235)
Q Consensus 54 ~~g~~~g~~~ga~~g~~t~~g~~~ga~~Ga~aGav~ 89 (235)
++|++-|+.+|.+.| +-.|--+|..+.++.||+.
T Consensus 61 vvG~igG~~lGG~~g--~~iGgG~G~~~At~~GAvA 94 (154)
T COG3133 61 VIGAIGGAVLGGFLG--NTIGGGTGRSLATAAGAVA 94 (154)
T ss_pred cceeeccccccceee--ccccCCcchHHHHHHhHhh
Confidence 456666777666633 3456678888888888887
No 214
>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=40.26 E-value=21 Score=24.18 Aligned_cols=35 Identities=14% Similarity=0.359 Sum_probs=25.0
Q ss_pred cCcccccccccccC--CCceeecCCCCCcccHHHHHH
Q 026652 179 NEIGCSICLEKFEE--GDSARKLPSCGHCFHSECVDK 213 (235)
Q Consensus 179 ~~~~C~ICle~f~~--~~~~~~Lp~C~H~Fh~~CI~~ 213 (235)
....|+.|-..... .......|.||+.+|.+-...
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~naA 63 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVNAA 63 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCEECcHHHHH
Confidence 34579999877766 455667778998888775443
No 215
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=40.08 E-value=15 Score=24.79 Aligned_cols=17 Identities=24% Similarity=0.575 Sum_probs=13.5
Q ss_pred cCCCCccccccccCCCC
Q 026652 217 RNGSCPVCRECVCKDTD 233 (235)
Q Consensus 217 ~~~sCPlCR~~v~~~~~ 233 (235)
-|+.||+|-+++++++.
T Consensus 7 PH~HC~VCg~aIp~de~ 23 (64)
T COG4068 7 PHRHCVVCGKAIPPDEQ 23 (64)
T ss_pred CCccccccCCcCCCccc
Confidence 46789999999987754
No 216
>PRK04023 DNA polymerase II large subunit; Validated
Probab=38.81 E-value=20 Score=37.23 Aligned_cols=46 Identities=20% Similarity=0.366 Sum_probs=32.2
Q ss_pred CcccccccccccCCCceeecCCCCC-----cccHHHHHHHHhcCCCCccccccccCC
Q 026652 180 EIGCSICLEKFEEGDSARKLPSCGH-----CFHSECVDKWLTRNGSCPVCRECVCKD 231 (235)
Q Consensus 180 ~~~C~ICle~f~~~~~~~~Lp~C~H-----~Fh~~CI~~WL~~~~sCPlCR~~v~~~ 231 (235)
...|+-|=... ....+|+||. .||.+|- +......||.|...+...
T Consensus 626 ~RfCpsCG~~t----~~frCP~CG~~Te~i~fCP~CG--~~~~~y~CPKCG~El~~~ 676 (1121)
T PRK04023 626 RRKCPSCGKET----FYRRCPFCGTHTEPVYRCPRCG--IEVEEDECEKCGREPTPY 676 (1121)
T ss_pred CccCCCCCCcC----CcccCCCCCCCCCcceeCcccc--CcCCCCcCCCCCCCCCcc
Confidence 46799997663 3356788984 5999993 334456799998877654
No 217
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.61 E-value=27 Score=24.66 Aligned_cols=46 Identities=17% Similarity=0.537 Sum_probs=29.0
Q ss_pred ccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCcccccccc
Q 026652 182 GCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVC 229 (235)
Q Consensus 182 ~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~ 229 (235)
.|--|-.|+..+..-...-.=.|.||.+|...- -+..||.|-..+.
T Consensus 7 nCECCDrDLpp~s~dA~ICtfEcTFCadCae~~--l~g~CPnCGGelv 52 (84)
T COG3813 7 NCECCDRDLPPDSTDARICTFECTFCADCAENR--LHGLCPNCGGELV 52 (84)
T ss_pred CCcccCCCCCCCCCceeEEEEeeehhHhHHHHh--hcCcCCCCCchhh
Confidence 455566666554322211113489999999864 4788999976654
No 218
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=38.50 E-value=27 Score=25.89 Aligned_cols=34 Identities=32% Similarity=0.696 Sum_probs=22.8
Q ss_pred cCcccccccccccCCCce-eecCCCCCcccHHHHHHH
Q 026652 179 NEIGCSICLEKFEEGDSA-RKLPSCGHCFHSECVDKW 214 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~~~-~~Lp~C~H~Fh~~CI~~W 214 (235)
....|.||... .+..+ -.-+.|...||..|..+.
T Consensus 54 ~~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 54 FKLKCSICGKS--GGACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred cCCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHHC
Confidence 35689999887 33222 122248889999998663
No 219
>PF08560 DUF1757: Protein of unknown function (DUF1757); InterPro: IPR013869 This entry shows proteins that are about 150 amino acids in length and have no known function.
Probab=37.80 E-value=16 Score=29.62 Aligned_cols=36 Identities=31% Similarity=0.581 Sum_probs=22.2
Q ss_pred hhhhh-hhhhhhccccc-----cccCCccccchhhhhhHHHH
Q 026652 55 GGAIV-GTIFGAMKGQT-----TETGFLHGAGIGAVAGAITA 90 (235)
Q Consensus 55 ~g~~~-g~~~ga~~g~~-----t~~g~~~ga~~Ga~aGav~s 90 (235)
.|+++ |.++-++.... .-..+.+++..|+++|++.+
T Consensus 41 lGsl~~~Pi~~~~~~~~~~~~~~~~~~~~~~~~G~l~G~~~g 82 (155)
T PF08560_consen 41 LGSLIVGPIYRLLKQPRLNPKELTNRFVKGGRNGALAGAVLG 82 (155)
T ss_pred HHHHHhHHHHHHHhCccccHHHHHHHHHHHHHHhHHHHHHHH
Confidence 34455 55554544443 22567788888888888873
No 220
>PLN02195 cellulose synthase A
Probab=37.68 E-value=37 Score=35.29 Aligned_cols=50 Identities=16% Similarity=0.321 Sum_probs=35.2
Q ss_pred CcccccccccccC---CCceeecCCCCCcccHHHHHHHHh--cCCCCccccccccC
Q 026652 180 EIGCSICLEKFEE---GDSARKLPSCGHCFHSECVDKWLT--RNGSCPVCRECVCK 230 (235)
Q Consensus 180 ~~~C~ICle~f~~---~~~~~~Lp~C~H~Fh~~CI~~WL~--~~~sCPlCR~~v~~ 230 (235)
...|.||=++... ++.-..+..|+--.|+.|.+ .=+ .+..||.|+.....
T Consensus 6 ~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCye-yer~eg~q~CpqCkt~Yk~ 60 (977)
T PLN02195 6 APICATCGEEVGVDSNGEAFVACHECSYPLCKACLE-YEIKEGRKVCLRCGGPYDA 60 (977)
T ss_pred CccceecccccCcCCCCCeEEEeccCCCccccchhh-hhhhcCCccCCccCCcccc
Confidence 4579999887653 34444455688889999994 322 34679999998873
No 221
>PLN02400 cellulose synthase
Probab=37.56 E-value=28 Score=36.51 Aligned_cols=51 Identities=22% Similarity=0.421 Sum_probs=34.8
Q ss_pred cCccccccccccc---CCCceeecCCCCCcccHHHHHH-HHhcCCCCcccccccc
Q 026652 179 NEIGCSICLEKFE---EGDSARKLPSCGHCFHSECVDK-WLTRNGSCPVCRECVC 229 (235)
Q Consensus 179 ~~~~C~ICle~f~---~~~~~~~Lp~C~H~Fh~~CI~~-WL~~~~sCPlCR~~v~ 229 (235)
+...|-||=++.. +++.-..+..|+--.|+.|.+- .-+.+..||.|+....
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 3458999998875 3444444446777799999842 1124467999998765
No 222
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=37.39 E-value=31 Score=24.49 Aligned_cols=35 Identities=31% Similarity=0.634 Sum_probs=23.5
Q ss_pred ccCcccccccccccCCCceeecCCCCCcccHHHHHH
Q 026652 178 DNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDK 213 (235)
Q Consensus 178 ~~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~ 213 (235)
.....|.+|...... ..-...+.|...||..|..+
T Consensus 34 ~~~~~C~~C~~~~Ga-~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 34 RRKLKCSICKKKGGA-CIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred HhCCCCcCCCCCCCe-EEEEeCCCCCcEEChHHHcc
Confidence 345689999766221 22234557999999999865
No 223
>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=36.57 E-value=21 Score=20.39 Aligned_cols=29 Identities=21% Similarity=0.488 Sum_probs=19.4
Q ss_pred ccccccccccCCCceeecCCCCCcccHHHH
Q 026652 182 GCSICLEKFEEGDSARKLPSCGHCFHSECV 211 (235)
Q Consensus 182 ~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI 211 (235)
.|.+|.++..... ......|...+|..|+
T Consensus 2 ~C~~C~~~~~~~~-~Y~C~~c~f~lh~~Ca 30 (30)
T PF03107_consen 2 WCDVCRRKIDGFY-FYHCSECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCCcCCCE-eEEeCCCCCeEcCccC
Confidence 5889977766654 4444457777787773
No 224
>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=36.34 E-value=12 Score=30.35 Aligned_cols=44 Identities=36% Similarity=0.539 Sum_probs=27.0
Q ss_pred cccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652 185 ICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD 231 (235)
Q Consensus 185 ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~ 231 (235)
||+.-=...+..-.-|.=.+-||.+|-.+-. ..||.|..++..+
T Consensus 9 iC~NGH~~t~~~~~~p~~~~~fC~kCG~~tI---~~Cp~C~~~IrG~ 52 (158)
T PF10083_consen 9 ICLNGHVITDSYDKNPELREKFCSKCGAKTI---TSCPNCSTPIRGD 52 (158)
T ss_pred HccCccccccccccCchHHHHHHHHhhHHHH---HHCcCCCCCCCCc
Confidence 5655544444444444445668888876643 4688888887643
No 225
>PF11286 DUF3087: Protein of unknown function (DUF3087); InterPro: IPR021438 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=34.94 E-value=2.4e+02 Score=23.07 Aligned_cols=107 Identities=17% Similarity=0.130 Sum_probs=55.9
Q ss_pred HHHHHHHHHHHHhhhhhhhhhhhhccccccccCCccccchhhhhhHHHHHHHhhhccCC----CcchHHHHHHHhhcchh
Q 026652 42 RVLYAALTCIFALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITALQLLESAADG----ESLSKAALLSSLVNGKV 117 (235)
Q Consensus 42 ~~~~~~~~~~~a~~g~~~g~~~ga~~g~~t~~g~~~ga~~Ga~aGav~s~e~~~~~~~~----~~l~~~~~i~~l~~g~~ 117 (235)
|.+..++...||+.+-..|...=++-|-++. |=++=-.+|.+.|+++..-++...... |..|..++-+.+...-.
T Consensus 16 n~v~~~~v~~lai~sl~~s~llI~lFg~~~~-~nf~~NllGVil~~~~~~~~l~~~k~~p~m~Ev~YvW~LKq~ln~I~r 94 (165)
T PF11286_consen 16 NRVIVACVASLAILSLAFSQLLIALFGGESG-GNFHWNLLGVILGLLLTSALLRQLKTHPFMTEVYYVWQLKQLLNKIYR 94 (165)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcCCCCC-CceeeeHHHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHHHHHH
Confidence 3344455555777776667666666663333 344555678888888877777654322 34566655544444333
Q ss_pred hHhhhcHHHHHHHHhhcccchhhhHHhhhhhc
Q 026652 118 FMEWVSPAVLKAYQWQVSTLETAYREVSDVYD 149 (235)
Q Consensus 118 ~~e~l~p~v~~~~~~q~~~~~~~~~e~~~~~~ 149 (235)
-+..+..++.+.-.-.+..+...|....+++.
T Consensus 95 kl~~ik~aa~~~d~~Al~iL~FYy~g~~Q~~~ 126 (165)
T PF11286_consen 95 KLHKIKAAAEQGDPDALKILRFYYQGLRQVYQ 126 (165)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHhHHHHHH
Confidence 44444443332222223333444444444443
No 226
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=34.56 E-value=40 Score=27.80 Aligned_cols=18 Identities=22% Similarity=0.443 Sum_probs=13.1
Q ss_pred HhcCCCCccccccccCCC
Q 026652 215 LTRNGSCPVCRECVCKDT 232 (235)
Q Consensus 215 L~~~~sCPlCR~~v~~~~ 232 (235)
+.....||.|..++...+
T Consensus 133 ~~~~F~Cp~Cg~~L~~~d 150 (178)
T PRK06266 133 MEYGFRCPQCGEMLEEYD 150 (178)
T ss_pred hhcCCcCCCCCCCCeecc
Confidence 345778999998876544
No 227
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=34.51 E-value=12 Score=22.44 Aligned_cols=29 Identities=28% Similarity=0.437 Sum_probs=14.4
Q ss_pred cCCCCCcccHHHHHHHHhcCCCCccccccc
Q 026652 199 LPSCGHCFHSECVDKWLTRNGSCPVCRECV 228 (235)
Q Consensus 199 Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v 228 (235)
.+.|+|.|-..--..= .....||.|..++
T Consensus 8 C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~~~ 36 (41)
T smart00834 8 CEDCGHTFEVLQKISD-DPLATCPECGGDV 36 (41)
T ss_pred cCCCCCEEEEEEecCC-CCCCCCCCCCCcc
Confidence 3457776532211000 2345699998754
No 228
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.37 E-value=13 Score=34.97 Aligned_cols=38 Identities=24% Similarity=0.412 Sum_probs=27.8
Q ss_pred CcccccccccccCCCc----eeecCCCCCcccHHHHHHHHhc
Q 026652 180 EIGCSICLEKFEEGDS----ARKLPSCGHCFHSECVDKWLTR 217 (235)
Q Consensus 180 ~~~C~ICle~f~~~~~----~~~Lp~C~H~Fh~~CI~~WL~~ 217 (235)
...||.|....+.... ...-++|.|.||..|+..|-..
T Consensus 226 tk~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h 267 (444)
T KOG1815|consen 226 TKECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDH 267 (444)
T ss_pred CccCCCcccchhccCCccccccccCCcCCeeceeeecccccc
Confidence 3569999999887652 1222249999999998888664
No 229
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=33.01 E-value=26 Score=26.63 Aligned_cols=28 Identities=29% Similarity=0.524 Sum_probs=11.9
Q ss_pred cccccccccccCC-CceeecCCCCCcccH
Q 026652 181 IGCSICLEKFEEG-DSARKLPSCGHCFHS 208 (235)
Q Consensus 181 ~~C~ICle~f~~~-~~~~~Lp~C~H~Fh~ 208 (235)
..|+-|-..|..= ....+.|.||..|..
T Consensus 10 R~Cp~CG~kFYDLnk~PivCP~CG~~~~~ 38 (108)
T PF09538_consen 10 RTCPSCGAKFYDLNKDPIVCPKCGTEFPP 38 (108)
T ss_pred ccCCCCcchhccCCCCCccCCCCCCccCc
Confidence 4555555444321 122234445554443
No 230
>PF06946 Phage_holin_5: Phage holin; InterPro: IPR009708 This entry represents the Bacteriophage A118, holin protein. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This protein family represent one of a large number of mutually dissimilar families of phage holins. It is thought that the temporal precision of holin-mediated lysis may occur through the build-up of a holin oligomer which causes the lysis [].
Probab=32.82 E-value=19 Score=26.59 Aligned_cols=33 Identities=27% Similarity=0.378 Sum_probs=15.0
Q ss_pred hhhhhhhhhccccccccC-CccccchhhhhhHHH
Q 026652 57 AIVGTIFGAMKGQTTETG-FLHGAGIGAVAGAIT 89 (235)
Q Consensus 57 ~~~g~~~ga~~g~~t~~g-~~~ga~~Ga~aGav~ 89 (235)
.++|+++|++....+.++ ....+-.|+++|+..
T Consensus 41 ~viGilLG~~~~~~~~~~~l~~~~~aG~laGlAa 74 (93)
T PF06946_consen 41 VVIGILLGAAAYPLTGDGNLALMAWAGGLAGLAA 74 (93)
T ss_pred HHHHHHHHHHhhhcCCCccHHHHHHHHHHhhhhh
Confidence 344444444455444433 222234455665544
No 231
>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=32.71 E-value=7.7 Score=25.49 Aligned_cols=34 Identities=32% Similarity=0.666 Sum_probs=19.2
Q ss_pred ccccc--ccccccCCCce----eecCCCCCcccHHHHHHH
Q 026652 181 IGCSI--CLEKFEEGDSA----RKLPSCGHCFHSECVDKW 214 (235)
Q Consensus 181 ~~C~I--Cle~f~~~~~~----~~Lp~C~H~Fh~~CI~~W 214 (235)
..||- |-..+...... ...|.|++.||..|-.+|
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred cCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 36766 76655543321 456679999999998777
No 232
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=31.72 E-value=20 Score=20.36 Aligned_cols=13 Identities=31% Similarity=0.999 Sum_probs=6.2
Q ss_pred CCccccccccCCC
Q 026652 220 SCPVCRECVCKDT 232 (235)
Q Consensus 220 sCPlCR~~v~~~~ 232 (235)
+||.|..++...+
T Consensus 1 ~CP~C~s~l~~~~ 13 (28)
T PF03119_consen 1 TCPVCGSKLVREE 13 (28)
T ss_dssp B-TTT--BEEE-C
T ss_pred CcCCCCCEeEcCC
Confidence 4888888877443
No 233
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=31.58 E-value=33 Score=20.33 Aligned_cols=11 Identities=27% Similarity=0.697 Sum_probs=5.8
Q ss_pred ccccccccccC
Q 026652 182 GCSICLEKFEE 192 (235)
Q Consensus 182 ~C~ICle~f~~ 192 (235)
.||-|-..|..
T Consensus 4 ~CP~C~~~~~v 14 (38)
T TIGR02098 4 QCPNCKTSFRV 14 (38)
T ss_pred ECCCCCCEEEe
Confidence 46666554443
No 234
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=31.25 E-value=21 Score=38.02 Aligned_cols=46 Identities=22% Similarity=0.486 Sum_probs=23.1
Q ss_pred cccccccccccCCCceeecCCCCCc-----ccHHHHHHHHhc---CCCCccccccccC
Q 026652 181 IGCSICLEKFEEGDSARKLPSCGHC-----FHSECVDKWLTR---NGSCPVCRECVCK 230 (235)
Q Consensus 181 ~~C~ICle~f~~~~~~~~Lp~C~H~-----Fh~~CI~~WL~~---~~sCPlCR~~v~~ 230 (235)
..||=|-..... ..+|.||+. +|..|-.+--.. ...||.|..++..
T Consensus 668 rkCPkCG~~t~~----~fCP~CGs~te~vy~CPsCGaev~~des~a~~CP~CGtplv~ 721 (1337)
T PRK14714 668 RRCPSCGTETYE----NRCPDCGTHTEPVYVCPDCGAEVPPDESGRVECPRCDVELTP 721 (1337)
T ss_pred EECCCCCCcccc----ccCcccCCcCCCceeCccCCCccCCCccccccCCCCCCcccc
Confidence 567777654322 256667743 355554331100 1247777665543
No 235
>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=30.98 E-value=23 Score=19.70 Aligned_cols=9 Identities=56% Similarity=1.176 Sum_probs=6.9
Q ss_pred CCccccccc
Q 026652 220 SCPVCRECV 228 (235)
Q Consensus 220 sCPlCR~~v 228 (235)
.||+|.+.+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 588887776
No 236
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.64 E-value=25 Score=25.92 Aligned_cols=11 Identities=27% Similarity=1.060 Sum_probs=10.1
Q ss_pred ccHHHHHHHHh
Q 026652 206 FHSECVDKWLT 216 (235)
Q Consensus 206 Fh~~CI~~WL~ 216 (235)
||..|+.+|..
T Consensus 43 FCRNCLs~Wy~ 53 (104)
T COG3492 43 FCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHH
Confidence 99999999986
No 237
>PF12773 DZR: Double zinc ribbon
Probab=30.52 E-value=48 Score=20.81 Aligned_cols=12 Identities=25% Similarity=0.434 Sum_probs=7.0
Q ss_pred CCCccccccccC
Q 026652 219 GSCPVCRECVCK 230 (235)
Q Consensus 219 ~sCPlCR~~v~~ 230 (235)
..||.|...+..
T Consensus 30 ~~C~~Cg~~~~~ 41 (50)
T PF12773_consen 30 KICPNCGAENPP 41 (50)
T ss_pred CCCcCCcCCCcC
Confidence 347777666443
No 238
>PF03966 Trm112p: Trm112p-like protein; InterPro: IPR005651 This family of short proteins have no known function. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The function of this family is uncertain. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The entry contains 2 families: Trm112, which is required for tRNA methylation in Saccharomyces cerevisiae (Baker's yeast) and is found in complexes with 2 tRNA methylases (TRM9 and TRM11) also with putative methyltransferase YDR140W []. The zinc-finger protein Ynr046w is plurifunctional and a component of the eRF1 methyltransferase in yeast []. The crystal structure of Ynr046w has been determined to 1.7 A resolution. It comprises a zinc-binding domain built from both the N- and C-terminal sequences and an inserted domain, absent from bacterial and archaeal orthologs of the protein, composed of three alpha-helices []. UPF0434, which are proteins that are functionally uncharacterised. ; PDB: 3Q87_A 2KPI_A 2K5R_A 2HF1_A 2JS4_A 2J6A_A 2JR6_A 2PK7_A 2JNY_A.
Probab=30.47 E-value=34 Score=23.31 Aligned_cols=12 Identities=25% Similarity=0.816 Sum_probs=5.9
Q ss_pred cCcccccccccc
Q 026652 179 NEIGCSICLEKF 190 (235)
Q Consensus 179 ~~~~C~ICle~f 190 (235)
+-..|++|..++
T Consensus 6 niL~Cp~ck~pL 17 (68)
T PF03966_consen 6 NILACPVCKGPL 17 (68)
T ss_dssp GTBB-TTTSSBE
T ss_pred hhhcCCCCCCcc
Confidence 345566666544
No 239
>KOG3352 consensus Cytochrome c oxidase, subunit Vb/COX4 [Energy production and conversion]
Probab=29.23 E-value=30 Score=27.85 Aligned_cols=26 Identities=35% Similarity=0.879 Sum_probs=14.0
Q ss_pred cccccccccccC-------CCceeecCCCCCccc
Q 026652 181 IGCSICLEKFEE-------GDSARKLPSCGHCFH 207 (235)
Q Consensus 181 ~~C~ICle~f~~-------~~~~~~Lp~C~H~Fh 207 (235)
.-| +|-+|-.. .....+.|.|||.|-
T Consensus 112 VGC-~c~eD~~~V~Wmwl~Kge~~rc~eCG~~fk 144 (153)
T KOG3352|consen 112 VGC-GCEEDSHAVVWMWLEKGETQRCPECGHYFK 144 (153)
T ss_pred Eee-cccCCCcceEEEEEEcCCcccCCcccceEE
Confidence 457 88777432 112233556777663
No 240
>PF04306 DUF456: Protein of unknown function (DUF456); InterPro: IPR007403 This is a family of putative membrane proteins.
Probab=29.19 E-value=57 Score=25.76 Aligned_cols=9 Identities=44% Similarity=0.685 Sum_probs=3.6
Q ss_pred hhhhhhHHH
Q 026652 81 IGAVAGAIT 89 (235)
Q Consensus 81 ~Ga~aGav~ 89 (235)
+|...|+..
T Consensus 86 iG~~~Ga~l 94 (140)
T PF04306_consen 86 IGPFLGAFL 94 (140)
T ss_pred HHHHHHHHH
Confidence 344444433
No 241
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=29.05 E-value=53 Score=26.47 Aligned_cols=16 Identities=25% Similarity=0.357 Sum_probs=12.3
Q ss_pred cCCCCccccccccCCC
Q 026652 217 RNGSCPVCRECVCKDT 232 (235)
Q Consensus 217 ~~~sCPlCR~~v~~~~ 232 (235)
....||.|..++...+
T Consensus 127 ~~F~Cp~Cg~~L~~~d 142 (158)
T TIGR00373 127 LNFTCPRCGAMLDYLD 142 (158)
T ss_pred cCCcCCCCCCEeeecc
Confidence 4678999998876544
No 242
>PF14353 CpXC: CpXC protein
Probab=28.98 E-value=31 Score=26.42 Aligned_cols=11 Identities=36% Similarity=0.727 Sum_probs=6.0
Q ss_pred ccccccccccC
Q 026652 182 GCSICLEKFEE 192 (235)
Q Consensus 182 ~C~ICle~f~~ 192 (235)
.||-|...|..
T Consensus 3 tCP~C~~~~~~ 13 (128)
T PF14353_consen 3 TCPHCGHEFEF 13 (128)
T ss_pred CCCCCCCeeEE
Confidence 46666555543
No 243
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=28.88 E-value=18 Score=32.73 Aligned_cols=45 Identities=22% Similarity=0.284 Sum_probs=30.4
Q ss_pred CcccccccccccCCCceeecCCCCC-cccHHHHHHH-HhcCCCCccccccc
Q 026652 180 EIGCSICLEKFEEGDSARKLPSCGH-CFHSECVDKW-LTRNGSCPVCRECV 228 (235)
Q Consensus 180 ~~~C~ICle~f~~~~~~~~Lp~C~H-~Fh~~CI~~W-L~~~~sCPlCR~~v 228 (235)
...|.+|+ .........+ |+| +||..|..+- .++..+||+|..-+
T Consensus 136 ti~~iqq~---tnt~I~T~v~-~~~~Vf~Vtg~~~nC~kra~s~eie~ta~ 182 (394)
T KOG2113|consen 136 TIKRIQQF---TNTYIATPVR-CGEPVFCVTGAPKNCVKRARSCEIEQTAV 182 (394)
T ss_pred ccchheec---ccceEeeecc-CCCceEEEecCCcchhhhccccchhhhhh
Confidence 35677664 4444444444 998 8999997665 55677899997543
No 244
>PLN02248 cellulose synthase-like protein
Probab=27.33 E-value=53 Score=34.67 Aligned_cols=30 Identities=27% Similarity=0.588 Sum_probs=26.5
Q ss_pred CCCCcccHHHHHHHHhcCCCCccccccccC
Q 026652 201 SCGHCFHSECVDKWLTRNGSCPVCRECVCK 230 (235)
Q Consensus 201 ~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~ 230 (235)
.|++..|.+|...-++....||-|+.+...
T Consensus 149 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 178 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKSGGICPGCKEPYKV 178 (1135)
T ss_pred cccchhHHhHhhhhhhcCCCCCCCcccccc
Confidence 488999999999999998999999988754
No 245
>COG4239 ABC-type uncharacterized transport system, permease component [General function prediction only]
Probab=27.17 E-value=97 Score=27.80 Aligned_cols=41 Identities=24% Similarity=0.336 Sum_probs=29.8
Q ss_pred hhhHHHHHHH-HHHHHHHHHHHHhhhhhhhhhhhhccccccc
Q 026652 32 GTGVLIRAMK-RVLYAALTCIFALGGAIVGTIFGAMKGQTTE 72 (235)
Q Consensus 32 ~~~~~~~~~~-~~~~~~~~~~~a~~g~~~g~~~ga~~g~~t~ 72 (235)
|=+.+.|++- -=+|-++....++.++++|..+||+.|....
T Consensus 129 gRDV~ARliygfRiSvLfgL~lT~~SaliGv~~GA~qGyfgg 170 (341)
T COG4239 129 GRDVLARLIYGFRISVLFGLSLTLISALIGVLAGALQGYFGG 170 (341)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Confidence 4445566443 3467777888888999999999999887643
No 246
>PF07863 CtnDOT_TraJ: Homologues of TraJ from Bacteroides conjugative transposon; InterPro: IPR012424 Proteins in this entry are designated TraJ and are found in a proposed transfer region of a class of conjugative transposon found primarily in the Bacteroides lineage. They are related to conjugation system proteins in the Proteobacteria, including TrbL of Agrobacterium Ti plasmids and VirB6. This entry represents the C-terminal domain of these proteins.
Probab=27.00 E-value=59 Score=22.63 Aligned_cols=24 Identities=29% Similarity=0.357 Sum_probs=16.0
Q ss_pred hhhhhHHHHHHHhhhccchhhHHHHHH
Q 026652 14 LTCKETVSLWLFATMCAFGTGVLIRAM 40 (235)
Q Consensus 14 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 40 (235)
|=|-+.|+-|.. .+.|-+...|-+
T Consensus 9 YFtVPtVA~wII---~AGG~g~~~~~v 32 (68)
T PF07863_consen 9 YFTVPTVANWII---QAGGGGAYGRNV 32 (68)
T ss_pred EEEccchhheee---ecCchhHHHHHH
Confidence 556788888988 556666655533
No 247
>PF10389 CoatB: Bacteriophage coat protein B ; InterPro: IPR008020 The major coat protein in the capsid of filamentous bacteriophage forms a helical assembly of about 7000 identical protomers, with each protomer comprised of 46 amino acids, after the cleavage of the signal peptide. Each protomer forms a slightly curved helix that combines to form a tubular structure that encapsulates the viral DNA [].; PDB: 2IFO_A.
Probab=26.84 E-value=1.2e+02 Score=19.37 Aligned_cols=31 Identities=32% Similarity=0.462 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhhhhh
Q 026652 35 VLIRAMKRVLYAALTCIFALGGAIVGTIFGA 65 (235)
Q Consensus 35 ~~~~~~~~~~~~~~~~~~a~~g~~~g~~~ga 65 (235)
..+.-+-..++++-|-+..++|++++.++|.
T Consensus 6 ~d~~~Vttai~~a~t~i~~ig~avL~v~V~i 36 (46)
T PF10389_consen 6 IDPTEVTTAISAAKTDIATIGGAVLGVIVGI 36 (46)
T ss_dssp ----HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cchHHHHHHHHhccchHHHHHHHHHHHHHHH
Confidence 3344444556666677777777777776653
No 248
>TIGR02865 spore_II_E stage II sporulation protein E. Stage II sporulation protein E (SpoIIE) is a multiple membrane spanning protein with two separable functions. It plays a role in the switch to polar cell division during sporulation. By means of it protein phosphatase activity, located in the C-terminal region, it activates sigma-F. All proteins that score above the trusted cutoff to this model are found in endospore-forming Gram-positive bacteria. Surprisingly, a sequence from the Cyanobacterium-like (and presumably non-spore-forming) photosynthesizer Heliobacillus mobilis is homologous, and scores between the trusted and noise cutoffs.
Probab=26.75 E-value=57 Score=33.13 Aligned_cols=35 Identities=20% Similarity=0.315 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHH-HHhhhhhhhhhhhhccccccc
Q 026652 38 RAMKRVLYAALTCI-FALGGAIVGTIFGAMKGQTTE 72 (235)
Q Consensus 38 ~~~~~~~~~~~~~~-~a~~g~~~g~~~ga~~g~~t~ 72 (235)
++++..+-=++..+ .|.+|+.+|+++|.+.|.++.
T Consensus 179 ~il~~~~vl~~a~~gG~~~Gaa~Gv~~Gli~~l~~~ 214 (764)
T TIGR02865 179 NIIARLAVLLISYIGGSGAGAAGGVVIGVILGLANN 214 (764)
T ss_pred HHHHHHHHHHHHHhcCchHhHHHHHHHHHHHHhcCc
Confidence 34444443333333 445677777777777776644
No 249
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=26.70 E-value=45 Score=28.86 Aligned_cols=24 Identities=17% Similarity=0.426 Sum_probs=16.2
Q ss_pred ccHHHHHHHHhcCCCCcccccccc
Q 026652 206 FHSECVDKWLTRNGSCPVCRECVC 229 (235)
Q Consensus 206 Fh~~CI~~WL~~~~sCPlCR~~v~ 229 (235)
-|..|..+--++-..||+|+..-.
T Consensus 251 ~ClsChqqIHRNAPiCPlCKaKsR 274 (286)
T KOG4451|consen 251 VCLSCHQQIHRNAPICPLCKAKSR 274 (286)
T ss_pred HHHHHHHHHhcCCCCCcchhhccc
Confidence 345666665556788999986543
No 250
>PF14319 Zn_Tnp_IS91: Transposase zinc-binding domain
Probab=26.60 E-value=43 Score=25.39 Aligned_cols=32 Identities=19% Similarity=0.508 Sum_probs=18.6
Q ss_pred CcccccccccccCCCceeecCCCCCcccHHHH----HHHHhc
Q 026652 180 EIGCSICLEKFEEGDSARKLPSCGHCFHSECV----DKWLTR 217 (235)
Q Consensus 180 ~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI----~~WL~~ 217 (235)
...|+=|-... ..-. +|+|.+|..|- .+|+.+
T Consensus 42 ~~~C~~Cg~~~-----~~~~-SCk~R~CP~C~~~~~~~W~~~ 77 (111)
T PF14319_consen 42 RYRCEDCGHEK-----IVYN-SCKNRHCPSCQAKATEQWIEK 77 (111)
T ss_pred eeecCCCCceE-----EecC-cccCcCCCCCCChHHHHHHHH
Confidence 45677663331 1112 58888888874 467763
No 251
>COG0777 AccD Acetyl-CoA carboxylase beta subunit [Lipid metabolism]
Probab=26.20 E-value=52 Score=29.29 Aligned_cols=11 Identities=36% Similarity=0.839 Sum_probs=5.2
Q ss_pred ecCCCCCcccH
Q 026652 198 KLPSCGHCFHS 208 (235)
Q Consensus 198 ~Lp~C~H~Fh~ 208 (235)
++|+|+|.|+.
T Consensus 49 vcp~c~~h~ri 59 (294)
T COG0777 49 VCPKCGHHMRI 59 (294)
T ss_pred cccccCccccc
Confidence 34445554443
No 252
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=26.09 E-value=44 Score=22.22 Aligned_cols=8 Identities=38% Similarity=1.261 Sum_probs=5.7
Q ss_pred Cccccccc
Q 026652 221 CPVCRECV 228 (235)
Q Consensus 221 CPlCR~~v 228 (235)
||.||++.
T Consensus 31 CpKCK~Et 38 (55)
T PF14205_consen 31 CPKCKQET 38 (55)
T ss_pred CCCCCceE
Confidence 78887653
No 253
>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=26.01 E-value=59 Score=19.70 Aligned_cols=34 Identities=18% Similarity=0.406 Sum_probs=24.4
Q ss_pred CcccccccccccCCCceeecCCCCCcccHHHHHH
Q 026652 180 EIGCSICLEKFEEGDSARKLPSCGHCFHSECVDK 213 (235)
Q Consensus 180 ~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~ 213 (235)
...|.+|.+.+.........+.|+=..|.+|..+
T Consensus 11 ~~~C~~C~~~i~~~~~~~~C~~C~~~~H~~C~~~ 44 (49)
T smart00109 11 PTKCCVCRKSIWGSFQGLRCSWCKVKCHKKCAEK 44 (49)
T ss_pred CCCccccccccCcCCCCcCCCCCCchHHHHHHhh
Confidence 4579999888775432334446888899999876
No 254
>TIGR02865 spore_II_E stage II sporulation protein E. Stage II sporulation protein E (SpoIIE) is a multiple membrane spanning protein with two separable functions. It plays a role in the switch to polar cell division during sporulation. By means of it protein phosphatase activity, located in the C-terminal region, it activates sigma-F. All proteins that score above the trusted cutoff to this model are found in endospore-forming Gram-positive bacteria. Surprisingly, a sequence from the Cyanobacterium-like (and presumably non-spore-forming) photosynthesizer Heliobacillus mobilis is homologous, and scores between the trusted and noise cutoffs.
Probab=25.90 E-value=51 Score=33.44 Aligned_cols=13 Identities=31% Similarity=0.445 Sum_probs=5.8
Q ss_pred hhhhccccccccC
Q 026652 62 IFGAMKGQTTETG 74 (235)
Q Consensus 62 ~~ga~~g~~t~~g 74 (235)
+.|.++|...+-|
T Consensus 225 f~GLlaG~fk~~g 237 (764)
T TIGR02865 225 FAGLLGGIFKELG 237 (764)
T ss_pred HHHHHHHhhccCC
Confidence 3444444444433
No 255
>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=25.88 E-value=19 Score=32.43 Aligned_cols=46 Identities=20% Similarity=0.292 Sum_probs=26.9
Q ss_pred CcccccccccccCCCceeec---CCCCCcccHHHHHHHHhcCCCCccccc
Q 026652 180 EIGCSICLEKFEEGDSARKL---PSCGHCFHSECVDKWLTRNGSCPVCRE 226 (235)
Q Consensus 180 ~~~C~ICle~f~~~~~~~~L---p~C~H~Fh~~CI~~WL~~~~sCPlCR~ 226 (235)
...||||=..-.... ++.. ..=.|.+|.-|-..|--....||.|-.
T Consensus 184 ~~~CPvCGs~P~~s~-~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 184 RTLCPACGSPPVASM-VRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CCcCCCCCChhhhhh-hcccCCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 458999965532111 1110 011244566677788777788999975
No 256
>PF03818 MadM: Malonate/sodium symporter MadM subunit; InterPro: IPR018402 The MSS family includes the monobasic malonate:Na+ symporter of Malonomonas rubra. It consists of two integral membrane proteins, MadL and MadM.The transporter is believed to catalyze the electroneutral reversible uptake of H+-malonate with one Na+, and both subunits have been shown to be essential for activity.
Probab=25.87 E-value=64 Score=21.86 Aligned_cols=40 Identities=30% Similarity=0.370 Sum_probs=26.0
Q ss_pred HHHHHhhhhhhhhhhhhccccccccCCccccchhhhhhHHHH
Q 026652 49 TCIFALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITA 90 (235)
Q Consensus 49 ~~~~a~~g~~~g~~~ga~~g~~t~~g~~~ga~~Ga~aGav~s 90 (235)
...||++|.++-.- ..+.-..| .|+++|+.+.-+.|-++|
T Consensus 14 itaFa~vG~~m~~S-~~lS~~LT-~GrihGSAIAI~lGLvLA 53 (60)
T PF03818_consen 14 ITAFAVVGIIMWVS-YWLSKKLT-RGRIHGSAIAIVLGLVLA 53 (60)
T ss_pred HHHHHHHHHHHHHH-HHHHHHHh-CCCcchHHHHHHHHHHHH
Confidence 44577777766532 22333334 389999999888887765
No 257
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=25.75 E-value=30 Score=23.20 Aligned_cols=11 Identities=36% Similarity=0.842 Sum_probs=4.8
Q ss_pred CCccccccccC
Q 026652 220 SCPVCRECVCK 230 (235)
Q Consensus 220 sCPlCR~~v~~ 230 (235)
.||.|++++..
T Consensus 4 ~CP~C~k~~~~ 14 (57)
T PF03884_consen 4 KCPICGKPVEW 14 (57)
T ss_dssp E-TTT--EEE-
T ss_pred cCCCCCCeecc
Confidence 47777777654
No 258
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=25.57 E-value=36 Score=32.38 Aligned_cols=49 Identities=20% Similarity=0.540 Sum_probs=31.2
Q ss_pred cCccccccccccc-CCCceeecCCCCCcccHHHHHHHHh----cCC----CCcccccc
Q 026652 179 NEIGCSICLEKFE-EGDSARKLPSCGHCFHSECVDKWLT----RNG----SCPVCREC 227 (235)
Q Consensus 179 ~~~~C~ICle~f~-~~~~~~~Lp~C~H~Fh~~CI~~WL~----~~~----sCPlCR~~ 227 (235)
.+..|.+|+.--. ....+..+-+|+..||..|...-.. ... -|-+|+..
T Consensus 167 ~n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~ 224 (464)
T KOG4323|consen 167 VNLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRG 224 (464)
T ss_pred ccceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccc
Confidence 3456999985433 3334445557999999999865432 111 28888753
No 259
>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=25.55 E-value=22 Score=22.69 Aligned_cols=27 Identities=26% Similarity=0.485 Sum_probs=13.8
Q ss_pred cCCCCCcccHHHHHHHHhcCCCCccccc
Q 026652 199 LPSCGHCFHSECVDKWLTRNGSCPVCRE 226 (235)
Q Consensus 199 Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~ 226 (235)
.+.|+|.|-..--.. -.....||.|..
T Consensus 8 C~~Cg~~fe~~~~~~-~~~~~~CP~Cg~ 34 (52)
T TIGR02605 8 CTACGHRFEVLQKMS-DDPLATCPECGG 34 (52)
T ss_pred eCCCCCEeEEEEecC-CCCCCCCCCCCC
Confidence 346888775321000 012336999986
No 260
>PRK11827 hypothetical protein; Provisional
Probab=25.39 E-value=26 Score=23.74 Aligned_cols=11 Identities=36% Similarity=0.797 Sum_probs=5.0
Q ss_pred CCCCccccccc
Q 026652 218 NGSCPVCRECV 228 (235)
Q Consensus 218 ~~sCPlCR~~v 228 (235)
--.||+|+.++
T Consensus 8 ILaCP~ckg~L 18 (60)
T PRK11827 8 IIACPVCNGKL 18 (60)
T ss_pred heECCCCCCcC
Confidence 33455554444
No 261
>PF04888 SseC: Secretion system effector C (SseC) like family ; InterPro: IPR006972 SseC is a secreted protein that forms a complex together with SecB and SecD on the surface of Salmonella typhimurium. All these proteins are secreted by the type III secretion system []. Many mucosal pathogens use type III secretion systems for the injection of effector proteins into target cells. SecB, SseC and SecD are inserted into the target cell membrane. where they form a small pore or translocon [, ]. In addition to SseC, this family includes the bacterial secreted proteins PopB, PepB, YopB and EspD which are thought to be directly involved in pore formation, and type III secretion system translocon.; GO: 0009405 pathogenesis
Probab=24.79 E-value=37 Score=30.12 Aligned_cols=14 Identities=14% Similarity=0.240 Sum_probs=7.8
Q ss_pred hHHHHHHHHHHHHH
Q 026652 34 GVLIRAMKRVLYAA 47 (235)
Q Consensus 34 ~~~~~~~~~~~~~~ 47 (235)
|.+.++++++..++
T Consensus 56 Gi~~kIf~wi~~av 69 (306)
T PF04888_consen 56 GIFSKIFGWIGTAV 69 (306)
T ss_pred ChHHHHHHHHHHHH
Confidence 55666666554443
No 262
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=24.24 E-value=15 Score=32.72 Aligned_cols=37 Identities=32% Similarity=0.734 Sum_probs=27.6
Q ss_pred cccccccccccCCCceeecCCCCCcccHHHHHHHHhcC
Q 026652 181 IGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN 218 (235)
Q Consensus 181 ~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~ 218 (235)
..|.+|++++..+....... |--.||..|+..|+...
T Consensus 215 rvC~~CF~el~~~~~~~~~~-~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDRED-SLPVFHGKCYPNWLTTG 251 (288)
T ss_pred eecHHHHHHHhcccccchhh-ccccccccccccccccc
Confidence 48999999998644443333 55599999999998754
No 263
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=24.01 E-value=65 Score=24.06 Aligned_cols=14 Identities=36% Similarity=0.783 Sum_probs=10.4
Q ss_pred CCCCccccccccCC
Q 026652 218 NGSCPVCRECVCKD 231 (235)
Q Consensus 218 ~~sCPlCR~~v~~~ 231 (235)
-.+||.|+.++++.
T Consensus 80 ~~~Cp~C~spFNp~ 93 (105)
T COG4357 80 CGSCPYCQSPFNPG 93 (105)
T ss_pred cCCCCCcCCCCCcc
Confidence 45699999888653
No 264
>PF04226 Transgly_assoc: Transglycosylase associated protein; InterPro: IPR007341 This bacterial protein is predicted to be an integral membrane protein. Some family members have been annotated as transglycosylase-associated proteins, but no experimental evidence is provided. This family was annotated based on the information in P76011 from SWISSPROT.; GO: 0016021 integral to membrane
Probab=24.00 E-value=65 Score=20.59 Aligned_cols=35 Identities=37% Similarity=0.342 Sum_probs=20.2
Q ss_pred hhhhhhhhhhhhccccccccCCccccchhhhhhHHHH
Q 026652 54 LGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITA 90 (235)
Q Consensus 54 ~~g~~~g~~~ga~~g~~t~~g~~~ga~~Ga~aGav~s 90 (235)
.+|+++|..+....|. ..++.-+.-+.++-||+.-
T Consensus 5 iiGa~vGg~l~~~lg~--~~~~~~~~~i~aviGAiil 39 (48)
T PF04226_consen 5 IIGAFVGGWLFGLLGI--NGGGSWGSFIVAVIGAIIL 39 (48)
T ss_pred hHHHHHHHHHHHHhcc--cCCchHHHHHHHHHHHHHH
Confidence 3555555555555555 3344444557788888763
No 265
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=23.82 E-value=40 Score=30.44 Aligned_cols=47 Identities=13% Similarity=0.248 Sum_probs=28.0
Q ss_pred cCcccccccccccCCCceeec--CCCCCcccHHHHHHHHhcCCCCccccc
Q 026652 179 NEIGCSICLEKFEEGDSARKL--PSCGHCFHSECVDKWLTRNGSCPVCRE 226 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~~~~~L--p~C~H~Fh~~CI~~WL~~~~sCPlCR~ 226 (235)
....||||=..-.... ++.- ..=.|.+|.-|-..|--....||.|-.
T Consensus 186 ~~~~CPvCGs~P~~s~-v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSSV-VQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhhe-eeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 4578999965532111 0000 012244566688889777888999975
No 266
>PRK00420 hypothetical protein; Validated
Probab=23.72 E-value=58 Score=24.92 Aligned_cols=24 Identities=25% Similarity=0.393 Sum_probs=13.2
Q ss_pred cccccccccccC-CCceeecCCCCC
Q 026652 181 IGCSICLEKFEE-GDSARKLPSCGH 204 (235)
Q Consensus 181 ~~C~ICle~f~~-~~~~~~Lp~C~H 204 (235)
..||+|-.++.. ...-..+|.|+.
T Consensus 24 ~~CP~Cg~pLf~lk~g~~~Cp~Cg~ 48 (112)
T PRK00420 24 KHCPVCGLPLFELKDGEVVCPVHGK 48 (112)
T ss_pred CCCCCCCCcceecCCCceECCCCCC
Confidence 678888766543 233333444554
No 267
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=23.29 E-value=54 Score=29.77 Aligned_cols=44 Identities=2% Similarity=-0.140 Sum_probs=31.0
Q ss_pred CcccccccccccCCCceeecCCCCC-cccHHHHHHHHhcCCCCcccccccc
Q 026652 180 EIGCSICLEKFEEGDSARKLPSCGH-CFHSECVDKWLTRNGSCPVCRECVC 229 (235)
Q Consensus 180 ~~~C~ICle~f~~~~~~~~Lp~C~H-~Fh~~CI~~WL~~~~sCPlCR~~v~ 229 (235)
...|..|-+.... .... .|+| .||.+|.. +....+||.|...+.
T Consensus 343 ~~~~~~~~~~~~s---t~~~-~~~~n~~~~~~a~--~s~~~~~~~c~~~~~ 387 (394)
T KOG2113|consen 343 SLKGTSAGFGLLS---TIWS-GGNMNLSPGSLAS--ASASPTSSTCDHNDH 387 (394)
T ss_pred hcccccccCceee---eEee-cCCcccChhhhhh--cccCCccccccccce
Confidence 3568888655444 2334 4999 78999987 567789999987553
No 268
>COG2359 SpoVS Stage V sporulation protein SpoVS [Function unknown]
Probab=23.05 E-value=39 Score=24.09 Aligned_cols=31 Identities=35% Similarity=0.578 Sum_probs=20.0
Q ss_pred hhhhccccccccCC--ccccchhhhhhHHHHHH
Q 026652 62 IFGAMKGQTTETGF--LHGAGIGAVAGAITALQ 92 (235)
Q Consensus 62 ~~ga~~g~~t~~g~--~~ga~~Ga~aGav~s~e 92 (235)
++||++|.-+++|- ++..|-||+.-||-++-
T Consensus 15 VAGAlAgvlr~~g~aEiQAiGagAvNQaVKAiA 47 (87)
T COG2359 15 VAGALAGVLRERGKAEIQAIGAGAVNQAVKAIA 47 (87)
T ss_pred HHHHHHHHHHhcCceeeeeechHHHHHHHHHHH
Confidence 44555555555554 66777888888887554
No 269
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=22.97 E-value=31 Score=37.40 Aligned_cols=49 Identities=24% Similarity=0.405 Sum_probs=36.1
Q ss_pred cCcccccccccccCCCceeecCCCCCcccHHHHHHHHhcC----CCCccccccc
Q 026652 179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRN----GSCPVCRECV 228 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~----~sCPlCR~~v 228 (235)
....|.+|.........+.-. .|.-.||..|+.+-+..- =.||-||..-
T Consensus 1107 ~~~~c~~cr~k~~~~~m~lc~-~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1107 VNALCKVCRRKKQDEKMLLCD-ECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred chhhhhhhhhcccchhhhhhH-hhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 456899999888775544333 588899999999877633 2499998654
No 270
>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=22.61 E-value=64 Score=27.82 Aligned_cols=24 Identities=17% Similarity=0.426 Sum_probs=16.7
Q ss_pred ccHHHHHHHHhcCCCCcccccccc
Q 026652 206 FHSECVDKWLTRNGSCPVCRECVC 229 (235)
Q Consensus 206 Fh~~CI~~WL~~~~sCPlCR~~v~ 229 (235)
-|..|-..-=++-..||+|+..--
T Consensus 196 ~C~sC~qqIHRNAPiCPlCK~KsR 219 (230)
T PF10146_consen 196 TCQSCHQQIHRNAPICPLCKAKSR 219 (230)
T ss_pred hhHhHHHHHhcCCCCCcccccccc
Confidence 356777665556688999986543
No 271
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=22.56 E-value=27 Score=30.77 Aligned_cols=30 Identities=33% Similarity=0.706 Sum_probs=19.3
Q ss_pred CCCC-CcccHHHHHHHHhcCC--CCcccccccc
Q 026652 200 PSCG-HCFHSECVDKWLTRNG--SCPVCRECVC 229 (235)
Q Consensus 200 p~C~-H~Fh~~CI~~WL~~~~--sCPlCR~~v~ 229 (235)
+.|. -.||..|+.--..-.. -||.|+....
T Consensus 238 ~~C~~eWFH~~CVGL~~~PkgkWyC~~C~~~~~ 270 (274)
T KOG1973|consen 238 PGCPIEWFHFTCVGLKTKPKGKWYCPRCKAENK 270 (274)
T ss_pred CCCCcceEEEeccccccCCCCcccchhhhhhhh
Confidence 3588 7999999853211111 3999987643
No 272
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=22.54 E-value=37 Score=33.14 Aligned_cols=33 Identities=42% Similarity=0.851 Sum_probs=22.9
Q ss_pred cCcccccccccccCC-----------CceeecCCCCCcccHHHHHH
Q 026652 179 NEIGCSICLEKFEEG-----------DSARKLPSCGHCFHSECVDK 213 (235)
Q Consensus 179 ~~~~C~ICle~f~~~-----------~~~~~Lp~C~H~Fh~~CI~~ 213 (235)
....|+||.|+|+.- +.+ .+ .=|-+||..|+..
T Consensus 512 ~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV-~l-e~G~ifH~~Cl~e 555 (579)
T KOG2071|consen 512 RQASCPICQEKFEVVFDQEEDLWMYKDAV-YL-EFGRIFHSKCLSE 555 (579)
T ss_pred cccCCcccccccceeecchhhheeeccee-ee-ccCceeeccccch
Confidence 457899999999741 112 22 2588999999864
No 273
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=22.07 E-value=55 Score=24.08 Aligned_cols=39 Identities=23% Similarity=0.623 Sum_probs=28.4
Q ss_pred CcccccccccccCCCceeecCCCCCcccHHHHHHHHhcCCCCccccccccCC
Q 026652 180 EIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRECVCKD 231 (235)
Q Consensus 180 ~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v~~~ 231 (235)
...|-||-..... =+|.||..|-- ++..|.+|-..+.+.
T Consensus 44 ~~~C~~CK~~v~q---------~g~~YCq~CAY----kkGiCamCGKki~dt 82 (90)
T PF10235_consen 44 SSKCKICKTKVHQ---------PGAKYCQTCAY----KKGICAMCGKKILDT 82 (90)
T ss_pred Ccccccccccccc---------CCCccChhhhc----ccCcccccCCeeccc
Confidence 4589999665333 36778999964 478899998888543
No 274
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=22.06 E-value=52 Score=32.64 Aligned_cols=48 Identities=27% Similarity=0.706 Sum_probs=28.8
Q ss_pred CcccccccccccCCCc-eeecCCCCCcccHHHHHHHHhcC-----CCCcccccc
Q 026652 180 EIGCSICLEKFEEGDS-ARKLPSCGHCFHSECVDKWLTRN-----GSCPVCREC 227 (235)
Q Consensus 180 ~~~C~ICle~f~~~~~-~~~Lp~C~H~Fh~~CI~~WL~~~-----~sCPlCR~~ 227 (235)
..-|++|-..=..... +.....|+-.||..|+..|+..- -.||-||.-
T Consensus 18 ~~mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvC 71 (694)
T KOG4443|consen 18 CLMCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVC 71 (694)
T ss_pred hhhhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCceee
Confidence 4567777332111111 11222688999999999998632 348888854
No 275
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=21.49 E-value=58 Score=28.37 Aligned_cols=30 Identities=20% Similarity=0.408 Sum_probs=21.3
Q ss_pred cCcccccccccccCCCceeecCCCCCcccHHHH
Q 026652 179 NEIGCSICLEKFEEGDSARKLPSCGHCFHSECV 211 (235)
Q Consensus 179 ~~~~C~ICle~f~~~~~~~~Lp~C~H~Fh~~CI 211 (235)
....|+.|-. .......+|.|||.+|.+=.
T Consensus 308 tS~~C~~cg~---~~~r~~~C~~cg~~~~rD~n 337 (364)
T COG0675 308 TSKTCPCCGH---LSGRLFKCPRCGFVHDRDVN 337 (364)
T ss_pred CcccccccCC---ccceeEECCCCCCeehhhHH
Confidence 3468999977 22344567889999998843
No 276
>PF02466 Tim17: Tim17/Tim22/Tim23/Pmp24 family; InterPro: IPR003397 The membrane-embedded multi-protein complexes of mitochondria mediate the transport of nuclear-encoded proteins across and into the outer or inner mitochondrial membranes []. The TOM (translocase of the outer mitochondrial membrane) complex consists of cytosol-exposed receptors and a pore-forming core, and mediates the transport of proteins from the cytosol across and into the outer mitochondrial membrane. A novel protein complex in the outer membrane of mitochondria, called the SAM complex (sorting and assembly machinery), is involved in the biogenesis of beta-barrel proteins of the outer membrane. Two translocases of the inner mitochondrial membrane (TIM22 and TIM23 complexes) mediate protein transport at the inner membrane. The TIM23 complex (a presequence translocase) mediates the transport of presequence-containing proteins across and into the inner membrane. Tim23 and Tim17 form part of this complex. Tim23 forms a pore in the inner membrane. The role of Tim17 is not yet fully understood. The TIM22 complex (a twin-pore carrier translocase) catalyses the insertion of multi-spanning proteins that have internal targeting signals into the inner membrane. The TIM22 complex mediates the membrane insertion of multi-spanning inner-membrane proteins that have internal targeting signals, and it uses the membrane potential as an external driving force. The Tim22 subunit of the mitochondrial import inner membrane translocase is included in this family. This family also includes Pmp24, a peroxisomal membrane protein, and NADH ubiquinone dehydrogenase 1 alpha subunit 11. Pmp24 was previously known as Pmp27 [].
Probab=21.36 E-value=3.6e+02 Score=20.17 Aligned_cols=16 Identities=38% Similarity=0.347 Sum_probs=6.8
Q ss_pred CCccccchhhhhhHHH
Q 026652 74 GFLHGAGIGAVAGAIT 89 (235)
Q Consensus 74 g~~~ga~~Ga~aGav~ 89 (235)
..+....-|+++|++.
T Consensus 83 D~~N~~~aG~~aGa~~ 98 (128)
T PF02466_consen 83 DPWNSAIAGAAAGAVL 98 (128)
T ss_pred ccchhHHHHHHHHHHH
Confidence 3334444444444443
No 277
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=21.13 E-value=55 Score=25.64 Aligned_cols=30 Identities=23% Similarity=0.220 Sum_probs=14.8
Q ss_pred CcccccccccccCC-CceeecCCCCCcccHH
Q 026652 180 EIGCSICLEKFEEG-DSARKLPSCGHCFHSE 209 (235)
Q Consensus 180 ~~~C~ICle~f~~~-~~~~~Lp~C~H~Fh~~ 209 (235)
...|+-|-..|..- ....+.|.||+.|...
T Consensus 9 Kr~Cp~cg~kFYDLnk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 9 KRICPNTGSKFYDLNRRPAVSPYTGEQFPPE 39 (129)
T ss_pred cccCCCcCccccccCCCCccCCCcCCccCcc
Confidence 34566665555431 2233455566555443
No 278
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=20.99 E-value=34 Score=30.43 Aligned_cols=32 Identities=31% Similarity=0.595 Sum_probs=0.0
Q ss_pred CCcccHHHHHHHHhcCCC----CccccccccCCCCC
Q 026652 203 GHCFHSECVDKWLTRNGS----CPVCRECVCKDTDT 234 (235)
Q Consensus 203 ~H~Fh~~CI~~WL~~~~s----CPlCR~~v~~~~~~ 234 (235)
.|.||..|-.+--.+... ||.|+....+..++
T Consensus 110 ~~RFCg~CG~~~~~~~~g~~~~C~~cg~~~fPR~dP 145 (279)
T COG2816 110 SHRFCGRCGTKTYPREGGWARVCPKCGHEHFPRIDP 145 (279)
T ss_pred hCcCCCCCCCcCccccCceeeeCCCCCCccCCCCCC
No 279
>PF13828 DUF4190: Domain of unknown function (DUF4190)
Probab=20.85 E-value=2e+02 Score=19.47 Aligned_cols=45 Identities=22% Similarity=0.262 Sum_probs=21.9
Q ss_pred HHHHHHHHHhhhhhhhhhhhhccccccccCCccccchhhhhhHHHH
Q 026652 45 YAALTCIFALGGAIVGTIFGAMKGQTTETGFLHGAGIGAVAGAITA 90 (235)
Q Consensus 45 ~~~~~~~~a~~g~~~g~~~ga~~g~~t~~g~~~ga~~Ga~aGav~s 90 (235)
.+++..++....+++|.+.|-++-...+.+-.+|.++ |++|-+++
T Consensus 8 lgi~~~~~~~~~~i~aiilG~ial~~i~r~~~~G~g~-A~aGivlG 52 (62)
T PF13828_consen 8 LGILGLFLCGLLGIVAIILGHIALRQIRRSGQRGRGM-AIAGIVLG 52 (62)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHhccCCCChHH-HHHHHHHH
Confidence 3444433224556666666665554444322444444 55555543
No 280
>KOG2907 consensus RNA polymerase I transcription factor TFIIS, subunit A12.2/RPA12 [Transcription]
Probab=20.69 E-value=50 Score=25.34 Aligned_cols=39 Identities=23% Similarity=0.464 Sum_probs=21.8
Q ss_pred CCCceeecCCCCC---cccHHHHHHHHhcC---CCCccccccccC
Q 026652 192 EGDSARKLPSCGH---CFHSECVDKWLTRN---GSCPVCRECVCK 230 (235)
Q Consensus 192 ~~~~~~~Lp~C~H---~Fh~~CI~~WL~~~---~sCPlCR~~v~~ 230 (235)
.+..-++.|+||| .||-.=++.-=+.+ -+||.|......
T Consensus 70 ga~I~~kCpkCghe~m~Y~T~QlRSADEGQTVFYTC~kC~~k~~e 114 (116)
T KOG2907|consen 70 GAVIKHKCPKCGHEEMSYHTLQLRSADEGQTVFYTCPKCKYKFTE 114 (116)
T ss_pred ccchhccCcccCCchhhhhhhhcccccCCceEEEEcCccceeeec
Confidence 3444567889998 46654332211111 249999866543
No 281
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=20.51 E-value=1.2e+02 Score=27.29 Aligned_cols=30 Identities=10% Similarity=0.115 Sum_probs=14.7
Q ss_pred eeecCCCCCcccHHHHHHHHhcCCCCccccccc
Q 026652 196 ARKLPSCGHCFHSECVDKWLTRNGSCPVCRECV 228 (235)
Q Consensus 196 ~~~Lp~C~H~Fh~~CI~~WL~~~~sCPlCR~~v 228 (235)
..++|+|++....+= |-++...||.|-..+
T Consensus 38 w~kc~~C~~~~~~~~---l~~~~~vcp~c~~h~ 67 (296)
T CHL00174 38 WVQCENCYGLNYKKF---LKSKMNICEQCGYHL 67 (296)
T ss_pred eeECCCccchhhHHH---HHHcCCCCCCCCCCc
Confidence 445556665444332 222345666665543
No 282
>PF06596 PsbX: Photosystem II reaction centre X protein (PsbX); InterPro: IPR009518 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 []. The low molecular weight transmembrane protein PsbX found in PSII is associated with the oxygen-evolving complex. Its expression is light-regulated. PsbX appears to be involved in the regulation of the amount of PSII [], and may be involved in the binding or turnover of quinone molecules at the Qb (PsbA) site [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0016020 membrane; PDB: 3ARC_x 3A0H_X 3A0B_X 3PRR_X 1S5L_x 4FBY_j 3PRQ_X 3KZI_X 3BZ2_X 3BZ1_X.
Probab=20.43 E-value=88 Score=19.34 Aligned_cols=20 Identities=20% Similarity=0.012 Sum_probs=11.5
Q ss_pred hhhhhhhhhccccccccCCc
Q 026652 57 AIVGTIFGAMKGQTTETGFL 76 (235)
Q Consensus 57 ~~~g~~~ga~~g~~t~~g~~ 76 (235)
-+++++++|++.-...|-..
T Consensus 18 iVv~~i~~ali~VSq~D~v~ 37 (39)
T PF06596_consen 18 IVVIPIAGALIFVSQFDRVK 37 (39)
T ss_dssp HHHHHHHHHHHHHHCCS---
T ss_pred hhhhhhhhheEEEeccCccc
Confidence 46677777777666555443
No 283
>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=20.07 E-value=66 Score=18.95 Aligned_cols=9 Identities=33% Similarity=1.069 Sum_probs=6.1
Q ss_pred CCCcccccc
Q 026652 219 GSCPVCREC 227 (235)
Q Consensus 219 ~sCPlCR~~ 227 (235)
..||+|..+
T Consensus 19 ~~CP~Cg~~ 27 (34)
T cd00729 19 EKCPICGAP 27 (34)
T ss_pred CcCcCCCCc
Confidence 468888654
Done!