Query 026690
Match_columns 235
No_of_seqs 233 out of 1634
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 11:20:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026690.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026690hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.7 5.6E-18 1.2E-22 154.1 4.1 73 159-235 204-277 (348)
2 PF13639 zf-RING_2: Ring finge 99.6 6.8E-17 1.5E-21 105.6 2.3 43 189-232 2-44 (44)
3 PHA02929 N1R/p28-like protein; 99.5 3.8E-14 8.2E-19 123.8 4.8 77 158-235 146-226 (238)
4 PF12678 zf-rbx1: RING-H2 zinc 99.4 1.8E-13 3.9E-18 99.1 4.0 45 187-232 19-73 (73)
5 COG5540 RING-finger-containing 99.3 3.9E-13 8.4E-18 119.5 3.2 49 186-235 322-371 (374)
6 COG5243 HRD1 HRD ubiquitin lig 99.3 4E-13 8.6E-18 122.2 3.1 51 184-235 284-344 (491)
7 PF12861 zf-Apc11: Anaphase-pr 99.2 1.3E-11 2.8E-16 91.4 3.5 49 186-234 20-80 (85)
8 PF13920 zf-C3HC4_3: Zinc fing 99.2 1.4E-11 3E-16 82.5 3.3 45 187-235 2-47 (50)
9 cd00162 RING RING-finger (Real 99.2 2.6E-11 5.7E-16 77.4 3.7 44 189-235 1-45 (45)
10 PLN03208 E3 ubiquitin-protein 99.1 3.6E-11 7.7E-16 101.7 4.9 48 184-235 15-78 (193)
11 PF13923 zf-C3HC4_2: Zinc fing 99.1 6.4E-11 1.4E-15 75.4 3.0 39 190-231 1-39 (39)
12 KOG0317 Predicted E3 ubiquitin 99.1 7.3E-11 1.6E-15 104.5 3.5 46 186-235 238-283 (293)
13 PHA02926 zinc finger-like prot 99.1 1.1E-10 2.3E-15 100.3 3.7 50 185-234 168-228 (242)
14 KOG0320 Predicted E3 ubiquitin 99.0 3.6E-10 7.8E-15 93.9 3.9 50 184-235 128-177 (187)
15 KOG0802 E3 ubiquitin ligase [P 99.0 1.4E-10 3.1E-15 112.5 1.8 48 186-234 290-339 (543)
16 PF14634 zf-RING_5: zinc-RING 98.9 7.2E-10 1.6E-14 72.4 3.3 44 189-233 1-44 (44)
17 PF15227 zf-C3HC4_4: zinc fing 98.9 1E-09 2.2E-14 71.2 3.0 38 190-231 1-42 (42)
18 KOG0823 Predicted E3 ubiquitin 98.9 1.1E-09 2.3E-14 94.6 3.8 48 184-235 44-94 (230)
19 smart00504 Ubox Modified RING 98.9 1.8E-09 3.8E-14 75.0 4.2 44 188-235 2-45 (63)
20 smart00184 RING Ring finger. E 98.9 1.5E-09 3.2E-14 66.8 3.3 38 190-231 1-39 (39)
21 PF00097 zf-C3HC4: Zinc finger 98.9 2.1E-09 4.4E-14 68.7 3.2 39 190-231 1-41 (41)
22 COG5194 APC11 Component of SCF 98.8 2.2E-09 4.8E-14 78.1 2.5 32 203-234 48-79 (88)
23 KOG1493 Anaphase-promoting com 98.8 9.3E-10 2E-14 79.4 -0.1 48 187-234 20-79 (84)
24 TIGR00599 rad18 DNA repair pro 98.7 7.8E-09 1.7E-13 96.5 4.2 47 185-235 24-70 (397)
25 smart00744 RINGv The RING-vari 98.6 2.7E-08 5.8E-13 66.6 3.1 42 189-232 1-49 (49)
26 KOG0828 Predicted E3 ubiquitin 98.6 1.7E-08 3.7E-13 95.0 2.0 49 186-235 570-633 (636)
27 KOG1734 Predicted RING-contain 98.5 2.7E-08 5.9E-13 87.6 1.2 48 186-234 223-279 (328)
28 PF11793 FANCL_C: FANCL C-term 98.5 3.6E-08 7.8E-13 70.8 0.2 49 187-235 2-65 (70)
29 KOG2930 SCF ubiquitin ligase, 98.4 6.6E-08 1.4E-12 73.7 1.4 48 187-234 46-106 (114)
30 PF13445 zf-RING_UBOX: RING-ty 98.4 1.6E-07 3.4E-12 61.3 2.7 38 190-229 1-43 (43)
31 COG5574 PEX10 RING-finger-cont 98.4 9.7E-08 2.1E-12 83.9 2.2 45 187-235 215-261 (271)
32 KOG2164 Predicted E3 ubiquitin 98.4 1.5E-07 3.2E-12 89.2 2.8 45 187-235 186-235 (513)
33 PF04564 U-box: U-box domain; 98.4 3.3E-07 7.1E-12 66.1 3.2 46 186-235 3-49 (73)
34 KOG0804 Cytoplasmic Zn-finger 98.3 1.7E-07 3.7E-12 87.6 1.7 46 185-233 173-219 (493)
35 KOG0287 Postreplication repair 98.3 3E-07 6.6E-12 83.4 1.5 45 187-235 23-67 (442)
36 COG5219 Uncharacterized conser 98.2 3.1E-07 6.6E-12 92.2 0.6 51 185-235 1467-1522(1525)
37 COG5432 RAD18 RING-finger-cont 98.2 6.2E-07 1.4E-11 79.9 2.3 44 187-234 25-68 (391)
38 KOG1039 Predicted E3 ubiquitin 98.0 2.9E-06 6.4E-11 78.0 2.5 50 185-234 159-219 (344)
39 KOG4265 Predicted E3 ubiquitin 98.0 4.2E-06 9.1E-11 76.5 2.8 47 185-235 288-335 (349)
40 PF14835 zf-RING_6: zf-RING of 97.9 2.7E-06 5.9E-11 59.8 0.2 43 187-234 7-49 (65)
41 KOG0311 Predicted E3 ubiquitin 97.8 2.2E-06 4.7E-11 78.2 -1.8 47 186-235 42-89 (381)
42 KOG0825 PHD Zn-finger protein 97.8 4E-06 8.6E-11 83.0 -0.2 46 188-234 124-169 (1134)
43 KOG4172 Predicted E3 ubiquitin 97.8 4.9E-06 1.1E-10 56.6 0.1 44 188-235 8-53 (62)
44 KOG0978 E3 ubiquitin ligase in 97.6 1.9E-05 4.1E-10 78.2 1.3 45 186-234 642-687 (698)
45 KOG4445 Uncharacterized conser 97.6 1.9E-05 4.2E-10 70.8 0.9 77 146-223 56-150 (368)
46 PF11789 zf-Nse: Zinc-finger o 97.5 7.4E-05 1.6E-09 51.5 2.1 41 187-230 11-53 (57)
47 PF12906 RINGv: RING-variant d 97.4 0.00011 2.4E-09 48.6 2.1 40 190-231 1-47 (47)
48 KOG0297 TNF receptor-associate 97.3 0.00011 2.3E-09 69.0 2.1 48 185-235 19-66 (391)
49 KOG4159 Predicted E3 ubiquitin 97.2 0.00014 3.1E-09 68.2 2.1 46 186-235 83-128 (398)
50 KOG1785 Tyrosine kinase negati 97.2 0.0001 2.2E-09 68.6 0.9 43 189-235 371-415 (563)
51 KOG1941 Acetylcholine receptor 97.2 0.0001 2.3E-09 68.3 1.0 45 187-232 365-412 (518)
52 KOG1428 Inhibitor of type V ad 97.1 0.00035 7.5E-09 73.4 2.9 51 184-235 3483-3543(3738)
53 PHA02825 LAP/PHD finger-like p 97.0 0.00076 1.7E-08 55.6 3.6 49 184-234 5-57 (162)
54 KOG2879 Predicted E3 ubiquitin 96.9 0.00093 2E-08 59.4 3.8 47 185-234 237-285 (298)
55 KOG3970 Predicted E3 ubiquitin 96.9 0.00083 1.8E-08 58.3 3.3 49 185-235 48-104 (299)
56 PHA03096 p28-like protein; Pro 96.8 0.0006 1.3E-08 61.4 2.1 46 188-233 179-231 (284)
57 PF13436 Gly-zipper_OmpA: Glyc 96.8 0.0012 2.7E-08 52.0 3.4 39 50-89 56-94 (118)
58 PF05883 Baculo_RING: Baculovi 96.8 0.00069 1.5E-08 54.4 1.7 36 187-223 26-67 (134)
59 KOG0801 Predicted E3 ubiquitin 96.8 0.0004 8.7E-09 57.4 0.3 31 184-215 174-204 (205)
60 PF14570 zf-RING_4: RING/Ubox 96.7 0.0014 3.1E-08 43.6 2.6 44 190-234 1-46 (48)
61 KOG2660 Locus-specific chromos 96.6 0.00045 9.7E-09 62.8 -0.2 47 185-234 13-59 (331)
62 KOG1952 Transcription factor N 96.6 0.001 2.2E-08 66.8 2.1 50 184-233 188-244 (950)
63 PF10367 Vps39_2: Vacuolar sor 96.6 0.0009 1.9E-08 50.6 1.1 32 186-219 77-108 (109)
64 PF13441 Gly-zipper_YMGG: YMGG 96.4 0.0034 7.4E-08 41.2 2.9 36 49-85 6-41 (45)
65 KOG0826 Predicted E3 ubiquitin 96.3 0.0026 5.6E-08 57.9 2.8 46 184-232 297-342 (357)
66 PF13488 Gly-zipper_Omp: Glyci 96.3 0.0048 1.1E-07 40.7 3.3 35 52-87 5-39 (46)
67 KOG1814 Predicted E3 ubiquitin 96.3 0.0022 4.8E-08 59.9 2.3 45 187-232 184-236 (445)
68 COG5152 Uncharacterized conser 96.2 0.0017 3.7E-08 55.4 1.0 42 188-233 197-238 (259)
69 KOG1002 Nucleotide excision re 96.2 0.0024 5.2E-08 61.5 2.0 46 185-234 534-584 (791)
70 KOG3039 Uncharacterized conser 96.1 0.0063 1.4E-07 53.6 4.0 49 187-235 221-269 (303)
71 KOG1571 Predicted E3 ubiquitin 96.1 0.0032 7E-08 57.9 2.3 44 185-235 303-346 (355)
72 KOG4692 Predicted E3 ubiquitin 96.0 0.0046 1E-07 57.0 2.8 47 184-234 419-465 (489)
73 PF05433 Rick_17kDa_Anti: Glyc 95.9 0.0064 1.4E-07 39.3 2.2 37 53-89 2-40 (42)
74 PF13436 Gly-zipper_OmpA: Glyc 95.8 0.0085 1.8E-07 47.2 3.2 40 49-89 51-90 (118)
75 PF13441 Gly-zipper_YMGG: YMGG 95.8 0.0069 1.5E-07 39.8 2.1 36 51-87 4-39 (45)
76 KOG0827 Predicted E3 ubiquitin 95.7 0.0007 1.5E-08 62.8 -3.7 47 188-235 197-244 (465)
77 KOG1813 Predicted E3 ubiquitin 95.7 0.0038 8.3E-08 56.1 0.9 43 188-234 242-284 (313)
78 KOG3268 Predicted E3 ubiquitin 95.6 0.0088 1.9E-07 50.4 2.7 49 187-235 165-227 (234)
79 PF13488 Gly-zipper_Omp: Glyci 95.6 0.0099 2.1E-07 39.2 2.2 35 52-87 1-35 (46)
80 COG5222 Uncharacterized conser 95.3 0.011 2.4E-07 53.5 2.3 43 188-233 275-318 (427)
81 PRK10510 putative outer membra 95.1 0.032 7E-07 48.4 4.7 40 49-88 38-79 (219)
82 PF08746 zf-RING-like: RING-li 95.1 0.015 3.2E-07 37.8 1.9 41 190-231 1-43 (43)
83 COG5236 Uncharacterized conser 95.0 0.02 4.4E-07 52.7 3.3 49 182-234 56-106 (493)
84 COG5183 SSM4 Protein involved 94.8 0.022 4.8E-07 57.4 3.2 51 184-234 9-64 (1175)
85 KOG1609 Protein involved in mR 94.6 0.025 5.4E-07 50.6 2.8 47 187-234 78-132 (323)
86 PF14447 Prok-RING_4: Prokaryo 94.6 0.017 3.6E-07 39.5 1.1 32 201-235 18-49 (55)
87 KOG1940 Zn-finger protein [Gen 94.5 0.022 4.7E-07 51.2 2.1 45 188-233 159-204 (276)
88 PF14446 Prok-RING_1: Prokaryo 94.5 0.043 9.4E-07 37.4 3.0 34 187-220 5-38 (54)
89 PF04641 Rtf2: Rtf2 RING-finge 94.2 0.053 1.1E-06 48.2 3.8 49 185-234 111-159 (260)
90 PF10272 Tmpp129: Putative tra 93.9 0.091 2E-06 48.9 4.9 26 209-234 311-349 (358)
91 KOG3053 Uncharacterized conser 93.3 0.035 7.6E-07 49.2 1.0 49 185-234 18-80 (293)
92 KOG2114 Vacuolar assembly/sort 93.2 0.041 8.8E-07 55.8 1.4 42 187-234 840-881 (933)
93 KOG4275 Predicted E3 ubiquitin 92.9 0.016 3.4E-07 52.3 -1.8 40 187-234 300-340 (350)
94 PRK10510 putative outer membra 92.9 0.14 3.1E-06 44.4 4.2 37 52-88 37-75 (219)
95 PRK11280 hypothetical protein; 92.8 0.096 2.1E-06 43.8 2.9 40 52-91 66-107 (170)
96 KOG1001 Helicase-like transcri 92.5 0.046 1E-06 54.9 0.8 42 188-234 455-498 (674)
97 COG5175 MOT2 Transcriptional r 92.5 0.09 1.9E-06 48.5 2.5 49 185-234 12-62 (480)
98 KOG2034 Vacuolar sorting prote 92.4 0.058 1.3E-06 54.9 1.3 36 185-222 815-850 (911)
99 PRK10540 lipoprotein; Provisio 92.0 0.44 9.5E-06 34.4 5.2 35 51-89 35-69 (72)
100 TIGR03789 pdsO proteobacterial 91.9 0.12 2.7E-06 45.5 2.7 16 75-90 62-77 (239)
101 KOG3002 Zn finger protein [Gen 91.8 0.1 2.2E-06 47.5 2.1 44 186-235 47-90 (299)
102 PF03854 zf-P11: P-11 zinc fin 90.9 0.13 2.9E-06 34.1 1.3 41 189-235 4-45 (50)
103 PF06897 DUF1269: Protein of u 90.9 0.24 5.3E-06 38.0 3.0 21 52-72 20-40 (102)
104 PF06897 DUF1269: Protein of u 90.4 0.15 3.2E-06 39.3 1.4 36 50-86 1-36 (102)
105 KOG0825 PHD Zn-finger protein 90.2 0.2 4.4E-06 50.7 2.6 49 186-234 95-152 (1134)
106 PLN02720 complex II 90.1 0.24 5.2E-06 39.6 2.4 58 48-105 67-127 (140)
107 KOG2932 E3 ubiquitin ligase in 90.0 0.12 2.6E-06 47.1 0.7 41 189-234 92-132 (389)
108 KOG0298 DEAD box-containing he 89.8 0.084 1.8E-06 55.8 -0.5 44 187-233 1153-1196(1394)
109 KOG3005 GIY-YIG type nuclease 88.8 0.42 9.1E-06 42.7 3.3 47 188-234 183-241 (276)
110 smart00132 LIM Zinc-binding do 88.7 0.25 5.5E-06 29.8 1.3 37 189-235 1-37 (39)
111 PF05433 Rick_17kDa_Anti: Glyc 88.2 0.5 1.1E-05 30.5 2.5 33 51-83 4-38 (42)
112 KOG2817 Predicted E3 ubiquitin 88.1 0.42 9.2E-06 44.8 3.0 45 187-232 334-381 (394)
113 KOG1812 Predicted E3 ubiquitin 87.6 0.29 6.3E-06 46.0 1.6 37 186-223 145-182 (384)
114 KOG0802 E3 ubiquitin ligase [P 86.8 0.34 7.4E-06 47.4 1.7 41 186-234 478-518 (543)
115 PF02891 zf-MIZ: MIZ/SP-RING z 86.7 0.91 2E-05 30.2 3.2 43 188-234 3-50 (50)
116 KOG3899 Uncharacterized conser 86.6 0.38 8.2E-06 43.6 1.7 26 209-234 325-363 (381)
117 COG4803 Predicted membrane pro 85.6 0.9 1.9E-05 37.4 3.2 37 36-72 62-101 (170)
118 KOG1829 Uncharacterized conser 85.2 0.3 6.6E-06 48.1 0.4 41 187-231 511-556 (580)
119 PF10571 UPF0547: Uncharacteri 85.0 0.51 1.1E-05 27.3 1.1 23 189-213 2-24 (26)
120 KOG0309 Conserved WD40 repeat- 84.8 0.56 1.2E-05 47.5 2.0 23 208-230 1047-1069(1081)
121 PF05818 TraT: Enterobacterial 84.8 0.74 1.6E-05 40.0 2.5 35 52-88 88-123 (215)
122 PF13901 DUF4206: Domain of un 84.7 0.6 1.3E-05 40.0 2.0 40 187-232 152-196 (202)
123 PF05290 Baculo_IE-1: Baculovi 84.5 0.83 1.8E-05 36.8 2.5 48 187-234 80-130 (140)
124 KOG4362 Transcriptional regula 83.5 0.33 7.3E-06 48.5 -0.1 44 187-234 21-67 (684)
125 PF07975 C1_4: TFIIH C1-like d 83.4 0.85 1.8E-05 30.7 1.9 43 190-232 2-50 (51)
126 PF13719 zinc_ribbon_5: zinc-r 82.3 0.78 1.7E-05 28.6 1.3 27 188-214 3-36 (37)
127 COG4803 Predicted membrane pro 81.9 0.3 6.6E-06 40.1 -0.9 38 52-89 60-100 (170)
128 PRK11677 hypothetical protein; 81.3 1.2 2.7E-05 35.9 2.4 26 47-72 3-28 (134)
129 smart00249 PHD PHD zinc finger 78.9 1.5 3.3E-05 27.1 1.8 32 189-221 1-32 (47)
130 PRK15361 pathogenicity island 78.6 2.1 4.7E-05 36.3 3.1 51 22-72 79-129 (195)
131 PF07191 zinc-ribbons_6: zinc- 78.5 0.76 1.6E-05 33.0 0.3 39 188-235 2-40 (70)
132 COG4980 GvpP Gas vesicle prote 78.4 1.3 2.9E-05 34.8 1.7 15 52-66 9-23 (115)
133 COG3133 SlyB Outer membrane li 77.5 0.42 9.1E-06 38.7 -1.4 35 51-87 65-99 (154)
134 KOG1100 Predicted E3 ubiquitin 77.3 1.1 2.3E-05 38.8 0.9 37 190-234 161-198 (207)
135 PF00628 PHD: PHD-finger; Int 77.3 1.4 3.1E-05 28.7 1.3 43 190-233 2-50 (51)
136 TIGR00622 ssl1 transcription f 76.9 2.8 6E-05 32.8 3.1 46 188-233 56-111 (112)
137 KOG0269 WD40 repeat-containing 76.8 2.2 4.7E-05 43.3 3.0 41 188-230 780-820 (839)
138 PRK09430 djlA Dna-J like membr 76.6 2.6 5.6E-05 37.7 3.2 36 36-74 3-38 (267)
139 KOG2041 WD40 repeat protein [G 76.3 1.8 3.9E-05 43.9 2.3 45 186-234 1130-1183(1189)
140 PRK10457 hypothetical protein; 76.1 6.6 0.00014 28.9 4.8 47 44-90 30-76 (82)
141 KOG4718 Non-SMC (structural ma 76.0 1.6 3.4E-05 37.9 1.6 41 188-231 182-222 (235)
142 KOG2066 Vacuolar assembly/sort 75.7 1.1 2.3E-05 45.6 0.5 42 188-231 785-830 (846)
143 KOG1815 Predicted E3 ubiquitin 75.6 1.8 3.9E-05 41.4 2.1 37 185-224 68-104 (444)
144 PF13717 zinc_ribbon_4: zinc-r 75.1 1.6 3.4E-05 27.1 1.0 27 188-214 3-36 (36)
145 PF06906 DUF1272: Protein of u 74.0 4.8 0.0001 27.7 3.2 44 188-234 6-50 (57)
146 PF10439 Bacteriocin_IIc: Bact 73.6 9.7 0.00021 26.6 4.9 6 36-41 29-34 (65)
147 PF06946 Phage_holin_5: Phage 73.5 3.5 7.5E-05 31.2 2.7 34 52-85 39-73 (93)
148 KOG2068 MOT2 transcription fac 73.0 2.8 6E-05 38.6 2.5 46 188-234 250-296 (327)
149 PF00412 LIM: LIM domain; Int 72.4 1.4 3.1E-05 29.2 0.4 29 188-219 27-55 (58)
150 TIGR03789 pdsO proteobacterial 72.0 4.5 9.7E-05 35.7 3.5 19 51-69 60-78 (239)
151 PF06750 DiS_P_DiS: Bacterial 71.6 4.5 9.8E-05 30.3 3.0 36 187-235 33-68 (92)
152 PF06295 DUF1043: Protein of u 68.8 2.7 5.9E-05 33.4 1.4 24 49-72 1-24 (128)
153 COG4980 GvpP Gas vesicle prote 68.7 2.8 6.1E-05 32.9 1.4 27 68-94 3-29 (115)
154 KOG2807 RNA polymerase II tran 68.0 5 0.00011 37.1 3.0 46 187-233 330-375 (378)
155 PF01363 FYVE: FYVE zinc finge 67.9 2.5 5.4E-05 29.4 0.9 37 186-222 8-44 (69)
156 PF12732 YtxH: YtxH-like prote 67.3 3.2 6.9E-05 29.6 1.3 16 71-86 4-19 (74)
157 KOG1812 Predicted E3 ubiquitin 67.2 3 6.5E-05 39.3 1.5 44 187-231 306-351 (384)
158 COG3134 Predicted outer membra 64.1 4.5 9.7E-05 33.3 1.7 42 51-92 71-114 (179)
159 cd00065 FYVE FYVE domain; Zinc 63.8 5.9 0.00013 26.2 2.0 36 188-223 3-38 (57)
160 PF10497 zf-4CXXC_R1: Zinc-fin 63.2 10 0.00022 29.2 3.5 45 188-233 8-69 (105)
161 TIGR02865 spore_II_E stage II 62.7 14 0.00031 37.9 5.4 33 37-69 177-214 (764)
162 PRK05978 hypothetical protein; 62.1 4.2 9E-05 33.4 1.2 24 206-234 36-61 (148)
163 KOG4577 Transcription factor L 61.9 2.1 4.6E-05 38.8 -0.6 37 188-234 93-129 (383)
164 smart00064 FYVE Protein presen 61.2 7.6 0.00017 26.8 2.3 37 187-223 10-46 (68)
165 PF08560 DUF1757: Protein of u 61.1 8.2 0.00018 31.8 2.8 35 53-87 42-82 (155)
166 KOG3039 Uncharacterized conser 60.1 6.5 0.00014 35.0 2.2 34 186-223 42-75 (303)
167 PF07649 C1_3: C1-like domain; 59.7 7.8 0.00017 22.6 1.8 29 189-218 2-30 (30)
168 PF04423 Rad50_zn_hook: Rad50 59.7 2.6 5.7E-05 28.2 -0.3 11 225-235 20-30 (54)
169 KOG3579 Predicted E3 ubiquitin 58.5 7.2 0.00016 35.4 2.2 41 186-226 267-307 (352)
170 COG5109 Uncharacterized conser 58.4 7.1 0.00015 36.0 2.1 45 187-232 336-383 (396)
171 PF11981 DUF3482: Domain of un 58.3 6.3 0.00014 35.8 1.8 12 74-85 173-184 (292)
172 COG4171 SapC ABC-type antimicr 57.9 17 0.00038 32.1 4.4 60 26-92 81-145 (296)
173 PF04710 Pellino: Pellino; In 56.4 2.2 4.8E-05 40.2 -1.4 44 186-233 276-336 (416)
174 COG1545 Predicted nucleic-acid 56.1 6.6 0.00014 31.7 1.5 23 204-234 30-52 (140)
175 PRK11280 hypothetical protein; 55.9 11 0.00024 31.7 2.7 22 71-92 91-112 (170)
176 COG5336 Uncharacterized protei 54.8 11 0.00025 29.3 2.5 34 52-85 54-90 (116)
177 COG4239 ABC-type uncharacteriz 54.6 40 0.00087 30.7 6.2 42 26-67 126-168 (341)
178 KOG2177 Predicted E3 ubiquitin 54.2 5.1 0.00011 34.0 0.5 16 185-200 11-26 (386)
179 PF05605 zf-Di19: Drought indu 54.1 1.7 3.8E-05 29.0 -1.9 12 187-198 2-13 (54)
180 KOG1538 Uncharacterized conser 53.4 6 0.00013 40.0 0.9 36 199-234 1040-1075(1081)
181 PF04888 SseC: Secretion syste 53.1 16 0.00034 32.9 3.5 9 33-41 58-66 (306)
182 PF05818 TraT: Enterobacterial 52.4 9.5 0.00021 33.2 1.9 36 50-85 90-128 (215)
183 PF14019 DUF4235: Protein of u 52.2 17 0.00036 26.4 2.9 21 68-88 39-59 (78)
184 COG3133 SlyB Outer membrane li 52.1 6.3 0.00014 32.0 0.7 22 53-74 87-108 (154)
185 PF04306 DUF456: Protein of un 51.7 36 0.00079 27.4 5.1 14 52-65 82-95 (140)
186 PF14569 zf-UDP: Zinc-binding 51.3 18 0.0004 26.5 2.9 47 188-234 10-60 (80)
187 PF05461 ApoL: Apolipoprotein 51.2 15 0.00033 33.7 3.1 38 33-71 97-134 (313)
188 PF14311 DUF4379: Domain of un 51.1 12 0.00025 25.0 1.8 25 206-231 31-55 (55)
189 PLN02189 cellulose synthase 50.8 13 0.00029 39.2 3.0 47 188-234 35-85 (1040)
190 PF02318 FYVE_2: FYVE-type zin 50.6 10 0.00022 29.5 1.6 45 187-232 54-101 (118)
191 KOG3113 Uncharacterized conser 50.4 14 0.0003 33.1 2.6 46 187-234 111-156 (293)
192 KOG4608 Uncharacterized conser 50.1 2.4 5.2E-05 37.4 -2.1 36 51-89 166-201 (270)
193 smart00647 IBR In Between Ring 49.4 5.2 0.00011 26.8 -0.1 22 200-221 37-58 (64)
194 PF11240 DUF3042: Protein of u 48.4 19 0.00041 24.5 2.5 21 40-60 4-24 (54)
195 PRK13731 conjugal transfer sur 48.2 15 0.00032 32.5 2.5 12 53-64 119-130 (243)
196 PF04226 Transgly_assoc: Trans 48.1 18 0.0004 23.7 2.3 37 50-88 4-40 (48)
197 PF14169 YdjO: Cold-inducible 47.9 9 0.0002 26.6 0.9 11 224-234 38-48 (59)
198 PF13832 zf-HC5HC2H_2: PHD-zin 47.9 17 0.00037 27.4 2.5 33 187-221 55-88 (110)
199 KOG0824 Predicted E3 ubiquitin 47.2 6.9 0.00015 35.7 0.2 45 187-234 105-149 (324)
200 PF02466 Tim17: Tim17/Tim22/Ti 47.2 19 0.00041 27.8 2.8 28 57-87 91-118 (128)
201 PF06844 DUF1244: Protein of u 47.1 12 0.00025 26.6 1.3 11 213-223 12-22 (68)
202 PF11023 DUF2614: Protein of u 46.6 14 0.0003 28.9 1.8 14 222-235 82-95 (114)
203 PF13771 zf-HC5HC2H: PHD-like 46.5 16 0.00035 26.4 2.1 32 187-220 36-68 (90)
204 COG3105 Uncharacterized protei 45.3 19 0.00041 28.9 2.4 27 46-72 7-33 (138)
205 PF09723 Zn-ribbon_8: Zinc rib 45.2 5.8 0.00013 25.2 -0.4 24 208-233 10-34 (42)
206 PLN02638 cellulose synthase A 45.2 18 0.0004 38.4 3.0 46 188-234 18-68 (1079)
207 PRK04023 DNA polymerase II lar 44.2 18 0.0004 38.1 2.8 43 186-234 625-672 (1121)
208 COG3813 Uncharacterized protei 43.4 22 0.00049 25.7 2.3 43 189-234 7-50 (84)
209 PTZ00236 mitochondrial import 42.9 25 0.00053 29.4 2.9 10 2-11 5-14 (164)
210 KOG4185 Predicted E3 ubiquitin 42.8 4.4 9.6E-05 36.1 -1.7 47 187-233 207-264 (296)
211 COG1173 DppC ABC-type dipeptid 42.7 50 0.0011 29.9 5.1 40 28-67 73-113 (289)
212 COG5627 MMS21 DNA repair prote 42.4 14 0.0003 32.7 1.4 41 187-230 189-231 (275)
213 PLN02436 cellulose synthase A 42.2 22 0.00047 37.8 3.0 47 188-234 37-87 (1094)
214 PF14015 DUF4231: Protein of u 41.9 44 0.00095 25.0 4.0 19 49-67 24-42 (112)
215 COG4847 Uncharacterized protei 41.4 23 0.0005 27.0 2.2 36 188-225 7-42 (103)
216 KOG1815 Predicted E3 ubiquitin 41.2 8.5 0.00018 36.8 -0.1 38 187-224 226-267 (444)
217 KOG2979 Protein involved in DN 41.0 17 0.00038 32.4 1.8 41 187-230 176-218 (262)
218 PF13828 DUF4190: Domain of un 40.8 83 0.0018 21.8 4.9 36 51-87 17-52 (62)
219 PF04216 FdhE: Protein involve 39.8 5 0.00011 36.0 -1.9 47 187-233 172-219 (290)
220 PF07800 DUF1644: Protein of u 39.7 21 0.00046 29.6 2.0 9 227-235 82-90 (162)
221 KOG1245 Chromatin remodeling c 39.5 11 0.00024 41.2 0.4 50 184-234 1105-1158(1404)
222 PF06596 PsbX: Photosystem II 39.3 53 0.0012 20.9 3.3 21 54-74 18-38 (39)
223 KOG3842 Adaptor protein Pellin 39.2 34 0.00075 31.6 3.4 47 187-234 341-412 (429)
224 PF10112 Halogen_Hydrol: 5-bro 38.9 36 0.00079 28.6 3.4 19 70-88 31-49 (199)
225 TIGR00980 3a0801so1tim17 mitoc 37.5 84 0.0018 26.3 5.3 12 1-12 2-13 (170)
226 smart00531 TFIIE Transcription 37.1 27 0.00059 28.1 2.2 13 187-199 99-111 (147)
227 PF04710 Pellino: Pellino; In 36.8 11 0.00025 35.6 0.0 48 187-235 328-400 (416)
228 PF03253 UT: Urea transporter; 36.7 70 0.0015 29.1 5.1 33 37-69 188-220 (301)
229 PLN02400 cellulose synthase 35.9 23 0.00051 37.6 2.1 46 188-234 37-87 (1085)
230 KOG1729 FYVE finger containing 35.9 7.3 0.00016 35.3 -1.4 36 189-225 216-251 (288)
231 PF07282 OrfB_Zn_ribbon: Putat 35.7 37 0.0008 23.3 2.5 32 187-218 28-61 (69)
232 TIGR03441 urea_trans_yut urea 35.6 60 0.0013 29.4 4.5 31 40-70 191-221 (292)
233 PF02466 Tim17: Tim17/Tim22/Ti 35.6 50 0.0011 25.4 3.5 42 47-88 59-100 (128)
234 PF04829 PT-VENN: Pre-toxin do 35.5 43 0.00093 22.8 2.7 12 54-65 18-29 (55)
235 PF01024 Colicin: Colicin pore 35.1 1.1E+02 0.0023 26.1 5.6 32 33-64 143-175 (187)
236 PF03107 C1_2: C1 domain; Int 35.1 23 0.0005 20.7 1.1 29 189-218 2-30 (30)
237 PF09943 DUF2175: Uncharacteri 34.7 25 0.00055 27.0 1.6 34 188-223 3-36 (101)
238 PF10779 XhlA: Haemolysin XhlA 33.8 29 0.00062 24.5 1.7 14 52-65 54-67 (71)
239 TIGR02098 MJ0042_CXXC MJ0042 f 33.4 34 0.00074 20.7 1.8 27 188-214 3-36 (38)
240 KOG4443 Putative transcription 32.7 24 0.00052 35.5 1.4 27 207-233 39-70 (694)
241 PF03966 Trm112p: Trm112p-like 32.7 30 0.00066 24.1 1.6 13 201-213 51-63 (68)
242 PF15616 TerY-C: TerY-C metal 32.4 20 0.00043 28.9 0.7 39 186-234 76-114 (131)
243 PF14205 Cys_rich_KTR: Cystein 32.2 30 0.00064 23.6 1.4 9 188-196 5-13 (55)
244 cd00730 rubredoxin Rubredoxin; 31.2 36 0.00078 22.6 1.7 10 224-233 33-42 (50)
245 PHA01757 hypothetical protein 31.1 70 0.0015 23.7 3.3 21 40-60 5-25 (98)
246 smart00734 ZnF_Rad18 Rad18-lik 31.0 24 0.00052 20.1 0.7 7 227-233 3-9 (26)
247 KOG1356 Putative transcription 30.6 17 0.00038 37.4 0.1 35 186-222 228-262 (889)
248 PRK15021 microcin C ABC transp 30.5 1E+02 0.0023 28.5 5.2 41 27-67 127-168 (341)
249 TIGR00983 3a0801s02tim23 mitoc 30.2 54 0.0012 26.8 2.9 14 73-86 132-145 (149)
250 KOG2071 mRNA cleavage and poly 30.1 25 0.00054 34.9 1.1 34 186-221 512-556 (579)
251 KOG4021 Mitochondrial ribosoma 29.6 26 0.00056 30.2 1.0 20 215-234 97-117 (239)
252 PF06937 EURL: EURL protein; 29.5 45 0.00097 30.1 2.5 43 188-230 31-75 (285)
253 PTZ00236 mitochondrial import 29.5 94 0.002 25.9 4.3 23 73-95 109-133 (164)
254 PF11981 DUF3482: Domain of un 29.4 1.2E+02 0.0027 27.4 5.4 12 52-63 173-184 (292)
255 PF04306 DUF456: Protein of un 29.0 83 0.0018 25.3 3.8 13 75-87 83-95 (140)
256 PLN02915 cellulose synthase A 28.7 68 0.0015 34.2 4.0 48 187-234 15-66 (1044)
257 PF14353 CpXC: CpXC protein 28.6 40 0.00087 26.2 1.9 11 188-198 2-12 (128)
258 TIGR00686 phnA alkylphosphonat 28.2 38 0.00083 26.3 1.6 28 188-215 3-31 (109)
259 smart00834 CxxC_CXXC_SSSS Puta 28.2 20 0.00042 22.0 0.0 10 225-234 26-35 (41)
260 PF05502 Dynactin_p62: Dynacti 27.8 30 0.00065 33.6 1.2 14 188-201 27-40 (483)
261 PF08274 PhnA_Zn_Ribbon: PhnA 27.8 32 0.0007 20.5 0.9 26 188-213 3-29 (30)
262 PF11151 DUF2929: Protein of u 27.5 1E+02 0.0022 20.9 3.5 34 52-87 13-46 (57)
263 PRK06266 transcription initiat 27.4 76 0.0017 26.6 3.5 13 223-235 134-146 (178)
264 PRK04201 zinc transporter ZupT 26.9 1.2E+02 0.0025 26.8 4.8 49 47-95 187-238 (265)
265 PRK09609 hypothetical protein; 26.7 30 0.00064 31.8 0.9 20 50-69 48-67 (312)
266 PHA00094 VI minor coat protein 26.6 1E+02 0.0022 24.1 3.7 12 46-57 12-23 (112)
267 COG2261 Predicted membrane pro 26.5 1.7E+02 0.0037 21.6 4.7 43 46-89 32-74 (82)
268 PRK04201 zinc transporter ZupT 26.5 1.1E+02 0.0023 27.1 4.4 53 42-96 6-61 (265)
269 TIGR02811 formate_TAT formate 26.5 33 0.00071 24.2 0.9 19 68-86 10-28 (66)
270 PRK15406 oligopeptide ABC tran 26.4 1.2E+02 0.0027 27.3 4.9 40 28-67 89-129 (302)
271 TIGR02605 CxxC_CxxC_SSSS putat 26.3 27 0.00058 22.7 0.4 8 226-233 27-34 (52)
272 TIGR00373 conserved hypothetic 25.9 69 0.0015 26.2 2.9 12 223-234 126-137 (158)
273 KOG4323 Polycomb-like PHD Zn-f 25.9 36 0.00077 33.0 1.3 47 187-233 168-223 (464)
274 smart00109 C1 Protein kinase C 25.7 62 0.0013 20.0 2.1 34 187-220 11-44 (49)
275 cd00729 rubredoxin_SM Rubredox 25.3 45 0.00097 20.2 1.3 7 227-233 20-26 (34)
276 KOG3842 Adaptor protein Pellin 25.3 16 0.00035 33.7 -1.0 43 187-233 290-349 (429)
277 PF05191 ADK_lid: Adenylate ki 25.3 33 0.00071 21.2 0.6 28 205-234 3-30 (36)
278 PRK10220 hypothetical protein; 24.9 55 0.0012 25.5 2.0 27 188-214 4-31 (111)
279 PF10031 DUF2273: Small integr 24.7 2.2E+02 0.0047 18.9 4.9 31 29-59 18-48 (51)
280 PRK02870 heat shock protein Ht 24.7 95 0.0021 28.7 3.9 24 38-61 24-47 (336)
281 TIGR01495 ETRAMP Plasmodium ri 24.7 63 0.0014 24.0 2.2 18 40-57 53-70 (85)
282 PF10785 NADH-u_ox-rdase: NADH 24.4 1.8E+02 0.0039 21.4 4.6 50 40-89 26-75 (86)
283 PHA00380 tail protein 24.4 35 0.00077 33.3 1.0 27 41-67 429-455 (599)
284 PF10247 Romo1: Reactive mitoc 24.1 51 0.0011 23.4 1.5 9 70-78 38-46 (67)
285 PF12811 BaxI_1: Bax inhibitor 23.8 4.4E+02 0.0096 23.8 7.8 38 49-86 90-136 (274)
286 cd00350 rubredoxin_like Rubred 23.4 54 0.0012 19.5 1.4 19 209-233 7-25 (33)
287 PF10821 DUF2567: Protein of u 23.4 1.1E+02 0.0024 25.6 3.6 55 47-102 49-106 (167)
288 PF08566 Pam17: Mitochondrial 22.8 79 0.0017 26.6 2.7 15 116-130 118-132 (173)
289 COG3492 Uncharacterized protei 22.8 43 0.00093 25.4 1.0 12 212-223 42-53 (104)
290 KOG4218 Nuclear hormone recept 22.8 31 0.00066 32.4 0.2 47 186-233 14-75 (475)
291 PF01485 IBR: IBR domain; Int 22.6 16 0.00035 24.2 -1.2 34 188-221 19-58 (64)
292 PRK01343 zinc-binding protein; 22.5 48 0.001 22.8 1.1 9 226-234 10-18 (57)
293 PRK09881 D-ala-D-ala transport 22.4 1.6E+02 0.0034 26.5 4.7 40 28-67 81-121 (296)
294 PRK09430 djlA Dna-J like membr 22.1 53 0.0011 29.3 1.6 30 34-66 5-34 (267)
295 KOG4430 Topoisomerase I-bindin 22.0 31 0.00067 34.1 0.1 51 184-234 257-307 (553)
296 PRK00420 hypothetical protein; 21.9 68 0.0015 25.0 2.0 25 188-212 24-49 (112)
297 COG4854 Predicted membrane pro 21.8 1.2E+02 0.0026 23.9 3.3 37 49-85 7-43 (126)
298 PF02382 RTX: RTX N-terminal d 21.8 83 0.0018 31.5 3.0 15 50-64 382-396 (653)
299 PF03747 ADP_ribosyl_GH: ADP-r 21.8 70 0.0015 27.4 2.3 16 52-67 268-283 (289)
300 PRK03564 formate dehydrogenase 21.7 1.1E+02 0.0023 28.2 3.5 47 186-233 186-234 (309)
301 TIGR03750 conj_TIGR03750 conju 21.5 1.2E+02 0.0025 23.7 3.2 9 79-87 54-62 (111)
302 PRK10913 dipeptide transporter 21.3 1.8E+02 0.0038 26.2 4.9 40 28-67 86-126 (300)
303 TIGR01562 FdhE formate dehydro 21.1 43 0.00093 30.7 0.8 46 187-233 184-232 (305)
304 PRK15111 antimicrobial peptide 21.1 1.7E+02 0.0037 26.2 4.7 40 28-67 83-123 (296)
305 PRK12821 aspartyl/glutamyl-tRN 20.9 73 0.0016 30.9 2.3 21 49-69 102-122 (477)
306 PRK13731 conjugal transfer sur 20.9 70 0.0015 28.4 2.1 13 51-63 121-133 (243)
307 COG1645 Uncharacterized Zn-fin 20.8 55 0.0012 26.3 1.3 26 188-213 29-54 (131)
308 PRK13954 mscL large-conductanc 20.7 2.8E+02 0.006 21.9 5.2 55 31-88 17-73 (119)
309 PF04286 DUF445: Protein of un 20.6 53 0.0011 29.5 1.3 12 53-64 349-360 (367)
310 KOG1729 FYVE finger containing 20.3 26 0.00056 31.8 -0.8 35 186-220 167-202 (288)
311 PF10146 zf-C4H2: Zinc finger- 20.2 65 0.0014 28.2 1.8 20 214-233 197-216 (230)
312 COG0675 Transposase and inacti 20.1 66 0.0014 28.2 1.8 27 187-216 309-335 (364)
313 PF12670 DUF3792: Protein of u 20.0 2.2E+02 0.0049 21.8 4.6 33 52-84 45-79 (116)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.70 E-value=5.6e-18 Score=154.13 Aligned_cols=73 Identities=40% Similarity=0.939 Sum_probs=63.4
Q ss_pred CCCCCHHHHhcCCceeeccCCCcCCCCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCC-CCCccCCC
Q 026690 159 SKGLTGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHAS-CPLCRRDL 235 (235)
Q Consensus 159 ~~gls~~~i~~lp~~~~~~~~~~~~~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~s-CPlCR~~v 235 (235)
.+.+.++.++++|..+++...+.+.. ..|+||+|+|++||++|.|| |+|.||..||++||.++.+ ||+||+++
T Consensus 204 ~~r~~k~~l~~~p~~~f~~~~~~~~~---~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di 277 (348)
T KOG4628|consen 204 RNRLIKRLLKKLPVRTFTKGDDEDAT---DTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDI 277 (348)
T ss_pred hhhhHHHHHhhCCcEEeccccccCCC---ceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcC
Confidence 55788999999999999876443222 58999999999999999999 9999999999999998865 99999864
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=99.64 E-value=6.8e-17 Score=105.64 Aligned_cols=43 Identities=49% Similarity=1.247 Sum_probs=40.8
Q ss_pred cCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCcc
Q 026690 189 SCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCR 232 (235)
Q Consensus 189 ~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR 232 (235)
+|+||+++|..++.+..++ |+|+||.+||.+|++++++||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence 6999999999999999999 999999999999999999999998
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.47 E-value=3.8e-14 Score=123.82 Aligned_cols=77 Identities=23% Similarity=0.543 Sum_probs=58.4
Q ss_pred CCCCCCHHHHhcCCceeeccCCCcCCCCCCccCccccccccCCCc----eeecCCCCCcccHhhHHHHHhcCCCCCCccC
Q 026690 158 LSKGLTGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQLGET----ARSLPHCHHMFHIPCIDKWLLGHASCPLCRR 233 (235)
Q Consensus 158 ~~~gls~~~i~~lp~~~~~~~~~~~~~~e~~~C~ICle~f~~ge~----v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~ 233 (235)
..++.+++.++.+|..........+ ..++.+|+||++.+...+. +..++.|+|.||.+||.+|++++.+||+||.
T Consensus 146 ~k~~~~~~~i~~lp~vl~~~e~~~~-~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~ 224 (238)
T PHA02929 146 KKGKNYKKFLKTIPSVLSEYEKLYN-RSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRT 224 (238)
T ss_pred HhcchhHHHHHhcchhhhhhhhhhc-CCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCC
Confidence 3566788899999988654332222 2345799999999876441 3456669999999999999999999999998
Q ss_pred CC
Q 026690 234 DL 235 (235)
Q Consensus 234 ~v 235 (235)
++
T Consensus 225 ~~ 226 (238)
T PHA02929 225 PF 226 (238)
T ss_pred Ee
Confidence 64
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=99.41 E-value=1.8e-13 Score=99.13 Aligned_cols=45 Identities=36% Similarity=0.902 Sum_probs=35.3
Q ss_pred CccCccccccccCC----------CceeecCCCCCcccHhhHHHHHhcCCCCCCcc
Q 026690 187 RVSCSVCLQDFQLG----------ETARSLPHCHHMFHIPCIDKWLLGHASCPLCR 232 (235)
Q Consensus 187 ~~~C~ICle~f~~g----------e~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR 232 (235)
+..|+||++++... -.+...+ |+|.||..||.+||+.+.+||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence 34699999999422 2334445 999999999999999999999998
No 5
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.35 E-value=3.9e-13 Score=119.49 Aligned_cols=49 Identities=43% Similarity=1.132 Sum_probs=45.4
Q ss_pred CCccCccccccccCCCceeecCCCCCcccHhhHHHHHh-cCCCCCCccCCC
Q 026690 186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL-GHASCPLCRRDL 235 (235)
Q Consensus 186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~~v 235 (235)
...+|+||+++|..+++++.+| |+|.||..|+++|+. -++.||+||.++
T Consensus 322 ~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~i 371 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAI 371 (374)
T ss_pred CCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCC
Confidence 3478999999999999999999 999999999999999 678999999875
No 6
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.34 E-value=4e-13 Score=122.22 Aligned_cols=51 Identities=33% Similarity=1.051 Sum_probs=44.0
Q ss_pred CCCCccCcccccc-ccCC---------CceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690 184 SGERVSCSVCLQD-FQLG---------ETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235 (235)
Q Consensus 184 ~~e~~~C~ICle~-f~~g---------e~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 235 (235)
..+|..|.||+++ |..+ .++++|| |||+||.+|++.|++++.+||+||.++
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCcc
Confidence 3456799999999 5554 2468899 999999999999999999999999984
No 7
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.19 E-value=1.3e-11 Score=91.40 Aligned_cols=49 Identities=35% Similarity=0.859 Sum_probs=38.6
Q ss_pred CCccCccccccccC--------CC-ceeecCCCCCcccHhhHHHHHhc---CCCCCCccCC
Q 026690 186 ERVSCSVCLQDFQL--------GE-TARSLPHCHHMFHIPCIDKWLLG---HASCPLCRRD 234 (235)
Q Consensus 186 e~~~C~ICle~f~~--------ge-~v~~Lp~C~H~FH~~CI~~WL~~---~~sCPlCR~~ 234 (235)
+++.|.||+..|+. |+ -......|+|.||..||.+||.. ++.||+||++
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~ 80 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQP 80 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCe
Confidence 35789999999982 22 23345579999999999999985 5689999986
No 8
>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=99.19 E-value=1.4e-11 Score=82.54 Aligned_cols=45 Identities=29% Similarity=0.825 Sum_probs=39.2
Q ss_pred CccCccccccccCCCceeecCCCCCc-ccHhhHHHHHhcCCCCCCccCCC
Q 026690 187 RVSCSVCLQDFQLGETARSLPHCHHM-FHIPCIDKWLLGHASCPLCRRDL 235 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~~Lp~C~H~-FH~~CI~~WL~~~~sCPlCR~~v 235 (235)
+..|.||++.... +..+| |+|. |+..|+.+|++++..||+||++|
T Consensus 2 ~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i 47 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLP-CGHLCFCEECAERLLKRKKKCPICRQPI 47 (50)
T ss_dssp HSB-TTTSSSBSS---EEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-
T ss_pred cCCCccCCccCCc---eEEeC-CCChHHHHHHhHHhcccCCCCCcCChhh
Confidence 4689999998764 78888 9999 99999999999999999999875
No 9
>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=99.17 E-value=2.6e-11 Score=77.43 Aligned_cols=44 Identities=48% Similarity=1.204 Sum_probs=36.9
Q ss_pred cCccccccccCCCceeecCCCCCcccHhhHHHHHhc-CCCCCCccCCC
Q 026690 189 SCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG-HASCPLCRRDL 235 (235)
Q Consensus 189 ~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~-~~sCPlCR~~v 235 (235)
+|+||++.+. +.+...+ |+|.||..|+++|+++ +..||+||.++
T Consensus 1 ~C~iC~~~~~--~~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFR--EPVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhh--CceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 5999999982 3455555 9999999999999997 77899999875
No 10
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.15 E-value=3.6e-11 Score=101.69 Aligned_cols=48 Identities=35% Similarity=0.944 Sum_probs=38.9
Q ss_pred CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhc----------------CCCCCCccCCC
Q 026690 184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG----------------HASCPLCRRDL 235 (235)
Q Consensus 184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~----------------~~sCPlCR~~v 235 (235)
..++.+|+||++.+++ ...++ |+|.||..||.+|+.. +.+||+||.++
T Consensus 15 ~~~~~~CpICld~~~d---PVvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~I 78 (193)
T PLN03208 15 SGGDFDCNICLDQVRD---PVVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDV 78 (193)
T ss_pred CCCccCCccCCCcCCC---cEEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcC
Confidence 3456799999999864 55567 9999999999999852 35799999875
No 11
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=99.09 E-value=6.4e-11 Score=75.37 Aligned_cols=39 Identities=36% Similarity=0.978 Sum_probs=32.8
Q ss_pred CccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCc
Q 026690 190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLC 231 (235)
Q Consensus 190 C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlC 231 (235)
|+||++.+.. .+..++ |||.||.+||.+|++++.+||+|
T Consensus 1 C~iC~~~~~~--~~~~~~-CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTP-CGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--cCEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence 8999999886 335666 99999999999999999999998
No 12
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.07 E-value=7.3e-11 Score=104.51 Aligned_cols=46 Identities=37% Similarity=0.906 Sum_probs=41.0
Q ss_pred CCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690 186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235 (235)
Q Consensus 186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 235 (235)
.+..|.+||+.... ...+| |||+||..||..|...+..||+||.+.
T Consensus 238 a~~kC~LCLe~~~~---pSaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~ 283 (293)
T KOG0317|consen 238 ATRKCSLCLENRSN---PSATP-CGHIFCWSCILEWCSEKAECPLCREKF 283 (293)
T ss_pred CCCceEEEecCCCC---CCcCc-CcchHHHHHHHHHHccccCCCcccccC
Confidence 34789999998765 77889 999999999999999999999999863
No 13
>PHA02926 zinc finger-like protein; Provisional
Probab=99.05 E-value=1.1e-10 Score=100.32 Aligned_cols=50 Identities=28% Similarity=0.744 Sum_probs=39.3
Q ss_pred CCCccCccccccccCC-----CceeecCCCCCcccHhhHHHHHhcC------CCCCCccCC
Q 026690 185 GERVSCSVCLQDFQLG-----ETARSLPHCHHMFHIPCIDKWLLGH------ASCPLCRRD 234 (235)
Q Consensus 185 ~e~~~C~ICle~f~~g-----e~v~~Lp~C~H~FH~~CI~~WL~~~------~sCPlCR~~ 234 (235)
.++.+|+||+|..-+. .....|+.|+|.||..||.+|.+.+ .+||+||..
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~ 228 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTR 228 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcce
Confidence 3457999999986432 2356788899999999999999753 459999975
No 14
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.98 E-value=3.6e-10 Score=93.90 Aligned_cols=50 Identities=26% Similarity=0.650 Sum_probs=40.9
Q ss_pred CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690 184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235 (235)
Q Consensus 184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 235 (235)
......|||||+.+.+... .-.+|||+||..||+.-++....||+||..|
T Consensus 128 ~~~~~~CPiCl~~~sek~~--vsTkCGHvFC~~Cik~alk~~~~CP~C~kkI 177 (187)
T KOG0320|consen 128 KEGTYKCPICLDSVSEKVP--VSTKCGHVFCSQCIKDALKNTNKCPTCRKKI 177 (187)
T ss_pred cccccCCCceecchhhccc--cccccchhHHHHHHHHHHHhCCCCCCccccc
Confidence 3345789999999986433 3346999999999999999999999999643
No 15
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.98 E-value=1.4e-10 Score=112.48 Aligned_cols=48 Identities=33% Similarity=0.969 Sum_probs=43.7
Q ss_pred CCccCccccccccCCCc--eeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690 186 ERVSCSVCLQDFQLGET--ARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 186 e~~~C~ICle~f~~ge~--v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 234 (235)
.+..|+||+|++..++. +.++| |+|+||..|+.+|++++++||+||..
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~ 339 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTV 339 (543)
T ss_pred cCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhh
Confidence 46789999999998765 78899 99999999999999999999999973
No 16
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.94 E-value=7.2e-10 Score=72.38 Aligned_cols=44 Identities=27% Similarity=0.806 Sum_probs=38.6
Q ss_pred cCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccC
Q 026690 189 SCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRR 233 (235)
Q Consensus 189 ~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~ 233 (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 5999999996666777777 9999999999999867789999985
No 17
>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=1e-09 Score=71.22 Aligned_cols=38 Identities=39% Similarity=0.915 Sum_probs=30.1
Q ss_pred CccccccccCCCceeecCCCCCcccHhhHHHHHhcC----CCCCCc
Q 026690 190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGH----ASCPLC 231 (235)
Q Consensus 190 C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~----~sCPlC 231 (235)
|+||++.|++ +..++ |||.|+..||.+|++++ ..||.|
T Consensus 1 CpiC~~~~~~---Pv~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD---PVSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS---EEE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCC---ccccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999997 88898 99999999999999854 369998
No 18
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.89 E-value=1.1e-09 Score=94.58 Aligned_cols=48 Identities=29% Similarity=0.819 Sum_probs=38.1
Q ss_pred CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhc---CCCCCCccCCC
Q 026690 184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG---HASCPLCRRDL 235 (235)
Q Consensus 184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~---~~sCPlCR~~v 235 (235)
.....+|.|||+.-++ ..+.. |||.||..||-+||.. +..||+||..|
T Consensus 44 ~~~~FdCNICLd~akd---PVvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~V 94 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKD---PVVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEV 94 (230)
T ss_pred CCCceeeeeeccccCC---CEEee-cccceehHHHHHHHhhcCCCeeCCcccccc
Confidence 3456799999998653 44445 9999999999999984 44699999764
No 19
>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=98.89 E-value=1.8e-09 Score=74.95 Aligned_cols=44 Identities=27% Similarity=0.569 Sum_probs=39.0
Q ss_pred ccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690 188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235 (235)
Q Consensus 188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 235 (235)
..|+||++.++. ...+| |||+|++.||.+|++++.+||+|+.++
T Consensus 2 ~~Cpi~~~~~~~---Pv~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~ 45 (63)
T smart00504 2 FLCPISLEVMKD---PVILP-SGQTYERRAIEKWLLSHGTDPVTGQPL 45 (63)
T ss_pred cCCcCCCCcCCC---CEECC-CCCEEeHHHHHHHHHHCCCCCCCcCCC
Confidence 479999999886 56677 999999999999999999999999764
No 20
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.89 E-value=1.5e-09 Score=66.81 Aligned_cols=38 Identities=45% Similarity=1.253 Sum_probs=33.1
Q ss_pred CccccccccCCCceeecCCCCCcccHhhHHHHHh-cCCCCCCc
Q 026690 190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL-GHASCPLC 231 (235)
Q Consensus 190 C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~-~~~sCPlC 231 (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 89999983 3577788 999999999999998 67789998
No 21
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.85 E-value=2.1e-09 Score=68.72 Aligned_cols=39 Identities=46% Similarity=1.149 Sum_probs=33.2
Q ss_pred CccccccccCCCceeecCCCCCcccHhhHHHHHh--cCCCCCCc
Q 026690 190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL--GHASCPLC 231 (235)
Q Consensus 190 C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~--~~~sCPlC 231 (235)
|+||++.+.. .+..++ |+|.||..||.+|++ ....||+|
T Consensus 1 C~iC~~~~~~--~~~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFED--PVILLP-CGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSS--EEEETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccC--CCEEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence 8999999885 224677 999999999999999 56689998
No 22
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.81 E-value=2.2e-09 Score=78.09 Aligned_cols=32 Identities=38% Similarity=0.769 Sum_probs=27.8
Q ss_pred eeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690 203 ARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 203 v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 234 (235)
+..-..|+|.||..||.+||..++.||++|++
T Consensus 48 ~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~ 79 (88)
T COG5194 48 PVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQT 79 (88)
T ss_pred eEEEEecchHHHHHHHHHHHhhCCCCCCCCce
Confidence 33344599999999999999999999999985
No 23
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.79 E-value=9.3e-10 Score=79.39 Aligned_cols=48 Identities=33% Similarity=0.820 Sum_probs=37.6
Q ss_pred CccCccccccccC---------CCceeecCCCCCcccHhhHHHHHh---cCCCCCCccCC
Q 026690 187 RVSCSVCLQDFQL---------GETARSLPHCHHMFHIPCIDKWLL---GHASCPLCRRD 234 (235)
Q Consensus 187 ~~~C~ICle~f~~---------ge~v~~Lp~C~H~FH~~CI~~WL~---~~~sCPlCR~~ 234 (235)
+..|-||...|.. ++-+.++..|.|.||..||.+|+. .+..||+||++
T Consensus 20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~ 79 (84)
T KOG1493|consen 20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQT 79 (84)
T ss_pred CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchhe
Confidence 3489999999873 233445556999999999999997 45679999985
No 24
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.73 E-value=7.8e-09 Score=96.54 Aligned_cols=47 Identities=30% Similarity=0.731 Sum_probs=40.5
Q ss_pred CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690 185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235 (235)
Q Consensus 185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 235 (235)
.....|+||++.|.. ...+| |+|.||..||..|+..+..||+||.++
T Consensus 24 e~~l~C~IC~d~~~~---Pvitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~ 70 (397)
T TIGR00599 24 DTSLRCHICKDFFDV---PVLTS-CSHTFCSLCIRRCLSNQPKCPLCRAED 70 (397)
T ss_pred ccccCCCcCchhhhC---ccCCC-CCCchhHHHHHHHHhCCCCCCCCCCcc
Confidence 345799999999974 45677 999999999999999988999999863
No 25
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.62 E-value=2.7e-08 Score=66.64 Aligned_cols=42 Identities=21% Similarity=0.751 Sum_probs=33.7
Q ss_pred cCccccccccCCCceeecCCCC-----CcccHhhHHHHHhc--CCCCCCcc
Q 026690 189 SCSVCLQDFQLGETARSLPHCH-----HMFHIPCIDKWLLG--HASCPLCR 232 (235)
Q Consensus 189 ~C~ICle~f~~ge~v~~Lp~C~-----H~FH~~CI~~WL~~--~~sCPlCR 232 (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 4899999 44455566788 86 99999999999974 45899995
No 26
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.59 E-value=1.7e-08 Score=95.03 Aligned_cols=49 Identities=33% Similarity=0.840 Sum_probs=38.6
Q ss_pred CCccCccccccccCCC-----c---------eeecCCCCCcccHhhHHHHHh-cCCCCCCccCCC
Q 026690 186 ERVSCSVCLQDFQLGE-----T---------ARSLPHCHHMFHIPCIDKWLL-GHASCPLCRRDL 235 (235)
Q Consensus 186 e~~~C~ICle~f~~ge-----~---------v~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~~v 235 (235)
...+|+||++++..-. . ....| |+|+||..|+.+|+. .+-.||+||.++
T Consensus 570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pL 633 (636)
T KOG0828|consen 570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPL 633 (636)
T ss_pred ccccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCC
Confidence 3468999999977321 1 12357 999999999999999 666999999975
No 27
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.52 E-value=2.7e-08 Score=87.61 Aligned_cols=48 Identities=31% Similarity=0.847 Sum_probs=40.9
Q ss_pred CCccCccccccccCCC-------ceeecCCCCCcccHhhHHHHHh--cCCCCCCccCC
Q 026690 186 ERVSCSVCLQDFQLGE-------TARSLPHCHHMFHIPCIDKWLL--GHASCPLCRRD 234 (235)
Q Consensus 186 e~~~C~ICle~f~~ge-------~v~~Lp~C~H~FH~~CI~~WL~--~~~sCPlCR~~ 234 (235)
++..|+||-+.+...+ +..+|. |+|.||..||..|-. ++++||.|+..
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKek 279 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEK 279 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHH
Confidence 4568999999887654 667888 999999999999964 88999999864
No 28
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.45 E-value=3.6e-08 Score=70.80 Aligned_cols=49 Identities=29% Similarity=0.830 Sum_probs=23.0
Q ss_pred CccCcccccccc-CCCc-eeec--CCCCCcccHhhHHHHHhc-----------CCCCCCccCCC
Q 026690 187 RVSCSVCLQDFQ-LGET-ARSL--PHCHHMFHIPCIDKWLLG-----------HASCPLCRRDL 235 (235)
Q Consensus 187 ~~~C~ICle~f~-~ge~-v~~L--p~C~H~FH~~CI~~WL~~-----------~~sCPlCR~~v 235 (235)
+.+|.||++... .++. .... ++|++.||..||.+||+. .++||.|+.+|
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i 65 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPI 65 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCee
Confidence 358999999876 3332 2333 379999999999999972 12599999864
No 29
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.44 E-value=6.6e-08 Score=73.66 Aligned_cols=48 Identities=29% Similarity=0.744 Sum_probs=36.1
Q ss_pred CccCcccccccc-------------CCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690 187 RVSCSVCLQDFQ-------------LGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 187 ~~~C~ICle~f~-------------~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 234 (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 457999985432 223233334599999999999999999999999764
No 30
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.43 E-value=1.6e-07 Score=61.28 Aligned_cols=38 Identities=32% Similarity=0.799 Sum_probs=22.9
Q ss_pred CccccccccCC-CceeecCCCCCcccHhhHHHHHhcC----CCCC
Q 026690 190 CSVCLQDFQLG-ETARSLPHCHHMFHIPCIDKWLLGH----ASCP 229 (235)
Q Consensus 190 C~ICle~f~~g-e~v~~Lp~C~H~FH~~CI~~WL~~~----~sCP 229 (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 7554 4568899 99999999999999854 2587
No 31
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.42 E-value=9.7e-08 Score=83.91 Aligned_cols=45 Identities=31% Similarity=0.893 Sum_probs=38.7
Q ss_pred CccCccccccccCCCceeecCCCCCcccHhhHHH-HHhcCCC-CCCccCCC
Q 026690 187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDK-WLLGHAS-CPLCRRDL 235 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~-WL~~~~s-CPlCR~~v 235 (235)
+..|+||++.... ...+| |||+||..||.. |-+++.- ||+||+.+
T Consensus 215 d~kC~lC~e~~~~---ps~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~ 261 (271)
T COG5574 215 DYKCFLCLEEPEV---PSCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKV 261 (271)
T ss_pred ccceeeeecccCC---ccccc-ccchhhHHHHHHHHHhhccccCchhhhhc
Confidence 5689999998765 77788 999999999999 9887765 99999853
No 32
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.40 E-value=1.5e-07 Score=89.25 Aligned_cols=45 Identities=33% Similarity=0.874 Sum_probs=35.7
Q ss_pred CccCccccccccCCCceeecCCCCCcccHhhHHHHHh-----cCCCCCCccCCC
Q 026690 187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL-----GHASCPLCRRDL 235 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~-----~~~sCPlCR~~v 235 (235)
+..|||||+.... ..+..|||+||-.||-+++. +...||+||..|
T Consensus 186 ~~~CPICL~~~~~----p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I 235 (513)
T KOG2164|consen 186 DMQCPICLEPPSV----PVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTI 235 (513)
T ss_pred CCcCCcccCCCCc----ccccccCceeeHHHHHHHHhhhcccCCccCCchhhhc
Confidence 5689999999763 33444999999999999886 345799999754
No 33
>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=98.35 E-value=3.3e-07 Score=66.14 Aligned_cols=46 Identities=22% Similarity=0.465 Sum_probs=36.7
Q ss_pred CCccCccccccccCCCceeecCCCCCcccHhhHHHHHhc-CCCCCCccCCC
Q 026690 186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG-HASCPLCRRDL 235 (235)
Q Consensus 186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~-~~sCPlCR~~v 235 (235)
+...|+|+.+-+.+ ...+| +||+|.+.||++|+++ +.+||+||.++
T Consensus 3 ~~f~CpIt~~lM~d---PVi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l 49 (73)
T PF04564_consen 3 DEFLCPITGELMRD---PVILP-SGHTYERSAIERWLEQNGGTDPFTRQPL 49 (73)
T ss_dssp GGGB-TTTSSB-SS---EEEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-
T ss_pred cccCCcCcCcHhhC---ceeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcC
Confidence 34789999999986 77889 9999999999999998 88999998764
No 34
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.34 E-value=1.7e-07 Score=87.59 Aligned_cols=46 Identities=39% Similarity=0.925 Sum_probs=38.4
Q ss_pred CCCccCccccccccCCCc-eeecCCCCCcccHhhHHHHHhcCCCCCCccC
Q 026690 185 GERVSCSVCLQDFQLGET-ARSLPHCHHMFHIPCIDKWLLGHASCPLCRR 233 (235)
Q Consensus 185 ~e~~~C~ICle~f~~ge~-v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~ 233 (235)
.|-++||||||.+..... ++... |.|.||-.|+.+| ...+||+||.
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w--~~~scpvcR~ 219 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKW--WDSSCPVCRY 219 (493)
T ss_pred ccCCCcchhHhhcCccccceeeee-cccccchHHHhhc--ccCcChhhhh
Confidence 456799999999886543 34455 9999999999999 7889999996
No 35
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.26 E-value=3e-07 Score=83.38 Aligned_cols=45 Identities=31% Similarity=0.789 Sum_probs=40.8
Q ss_pred CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690 187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 235 (235)
-..|-||.+-|.. +.+.| |+|.||.-||...|..+..||.|+.++
T Consensus 23 lLRC~IC~eyf~i---p~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~ 67 (442)
T KOG0287|consen 23 LLRCGICFEYFNI---PMITP-CSHTFCSLCIRKFLSYKPQCPTCCVTV 67 (442)
T ss_pred HHHHhHHHHHhcC---ceecc-ccchHHHHHHHHHhccCCCCCceeccc
Confidence 4689999999986 77788 999999999999999999999998753
No 36
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.22 E-value=3.1e-07 Score=92.16 Aligned_cols=51 Identities=25% Similarity=0.863 Sum_probs=39.3
Q ss_pred CCCccCccccccccC-CC--ceeecCCCCCcccHhhHHHHHhc--CCCCCCccCCC
Q 026690 185 GERVSCSVCLQDFQL-GE--TARSLPHCHHMFHIPCIDKWLLG--HASCPLCRRDL 235 (235)
Q Consensus 185 ~e~~~C~ICle~f~~-ge--~v~~Lp~C~H~FH~~CI~~WL~~--~~sCPlCR~~v 235 (235)
..-.+|+||+..+.. +. .-..+|.|+|.||..|+-+|++. +++||+||.++
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRsei 1522 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEI 1522 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccc
Confidence 345689999988762 21 22456679999999999999984 66899999874
No 37
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.21 E-value=6.2e-07 Score=79.94 Aligned_cols=44 Identities=30% Similarity=0.711 Sum_probs=38.3
Q ss_pred CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690 187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 234 (235)
-..|-||-+-|.. ....+ |||.||.-||...|..|..||+||.+
T Consensus 25 ~lrC~IC~~~i~i---p~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~ 68 (391)
T COG5432 25 MLRCRICDCRISI---PCETT-CGHTFCSLCIRRHLGTQPFCPVCRED 68 (391)
T ss_pred HHHhhhhhheeec---ceecc-cccchhHHHHHHHhcCCCCCcccccc
Confidence 4689999999884 44455 99999999999999999999999975
No 38
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.00 E-value=2.9e-06 Score=78.01 Aligned_cols=50 Identities=32% Similarity=0.833 Sum_probs=39.4
Q ss_pred CCCccCccccccccCCC----ceeecCCCCCcccHhhHHHHH--hc-----CCCCCCccCC
Q 026690 185 GERVSCSVCLQDFQLGE----TARSLPHCHHMFHIPCIDKWL--LG-----HASCPLCRRD 234 (235)
Q Consensus 185 ~e~~~C~ICle~f~~ge----~v~~Lp~C~H~FH~~CI~~WL--~~-----~~sCPlCR~~ 234 (235)
..+..|.||++.....- ...++|+|.|.||..||.+|- .+ ...||.||.+
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~ 219 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVP 219 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCc
Confidence 34678999999876432 235678999999999999998 34 4689999975
No 39
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.97 E-value=4.2e-06 Score=76.50 Aligned_cols=47 Identities=26% Similarity=0.712 Sum_probs=40.8
Q ss_pred CCCccCccccccccCCCceeecCCCCCc-ccHhhHHHHHhcCCCCCCccCCC
Q 026690 185 GERVSCSVCLQDFQLGETARSLPHCHHM-FHIPCIDKWLLGHASCPLCRRDL 235 (235)
Q Consensus 185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~-FH~~CI~~WL~~~~sCPlCR~~v 235 (235)
++..+|-||+.+-.+ +.+|| |.|. .|..|-+.---+++.||+||+++
T Consensus 288 ~~gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi 335 (349)
T KOG4265|consen 288 ESGKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPI 335 (349)
T ss_pred cCCCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccch
Confidence 345689999999776 88899 9997 79999998877899999999975
No 40
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.89 E-value=2.7e-06 Score=59.78 Aligned_cols=43 Identities=28% Similarity=0.755 Sum_probs=22.9
Q ss_pred CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690 187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 234 (235)
...|++|.+-++. +..+..|.|+|+..||.+-+.. .||+|+.+
T Consensus 7 lLrCs~C~~~l~~---pv~l~~CeH~fCs~Ci~~~~~~--~CPvC~~P 49 (65)
T PF14835_consen 7 LLRCSICFDILKE---PVCLGGCEHIFCSSCIRDCIGS--ECPVCHTP 49 (65)
T ss_dssp TTS-SSS-S--SS----B---SSS--B-TTTGGGGTTT--B-SSS--B
T ss_pred hcCCcHHHHHhcC---CceeccCccHHHHHHhHHhcCC--CCCCcCCh
Confidence 4689999999875 5556679999999999885543 49999875
No 41
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.82 E-value=2.2e-06 Score=78.23 Aligned_cols=47 Identities=36% Similarity=0.765 Sum_probs=39.9
Q ss_pred CCccCccccccccCCCceeecCCCCCcccHhhHHHHHh-cCCCCCCccCCC
Q 026690 186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL-GHASCPLCRRDL 235 (235)
Q Consensus 186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~~v 235 (235)
.+..|+|||+-++. .+..+.|.|.||.+||.+-++ .+++||.||+.+
T Consensus 42 ~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l 89 (381)
T KOG0311|consen 42 IQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKL 89 (381)
T ss_pred hhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhc
Confidence 35789999999886 566667999999999999998 577899999853
No 42
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.81 E-value=4e-06 Score=83.01 Aligned_cols=46 Identities=22% Similarity=0.496 Sum_probs=40.7
Q ss_pred ccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690 188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 234 (235)
..|++|+..|..+......+ |.|+||..||+.|-+.-++||+||.+
T Consensus 124 ~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~E 169 (1134)
T KOG0825|consen 124 NQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGE 169 (1134)
T ss_pred hhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhh
Confidence 47999999988776666667 99999999999999999999999975
No 43
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.79 E-value=4.9e-06 Score=56.59 Aligned_cols=44 Identities=25% Similarity=0.610 Sum_probs=32.5
Q ss_pred ccCccccccccCCCceeecCCCCCc-ccHhhH-HHHHhcCCCCCCccCCC
Q 026690 188 VSCSVCLQDFQLGETARSLPHCHHM-FHIPCI-DKWLLGHASCPLCRRDL 235 (235)
Q Consensus 188 ~~C~ICle~f~~ge~v~~Lp~C~H~-FH~~CI-~~WL~~~~sCPlCR~~v 235 (235)
.+|.||+|.-. +.+..+ |||+ .|.+|- ..|-..+..||+||++|
T Consensus 8 dECTICye~pv--dsVlYt--CGHMCmCy~Cg~rl~~~~~g~CPiCRapi 53 (62)
T KOG4172|consen 8 DECTICYEHPV--DSVLYT--CGHMCMCYACGLRLKKALHGCCPICRAPI 53 (62)
T ss_pred cceeeeccCcc--hHHHHH--cchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence 68999999754 334333 9997 578884 45545899999999874
No 44
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.62 E-value=1.9e-05 Score=78.20 Aligned_cols=45 Identities=27% Similarity=0.671 Sum_probs=37.3
Q ss_pred CCccCccccccccCCCceeecCCCCCcccHhhHHHHHh-cCCCCCCccCC
Q 026690 186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL-GHASCPLCRRD 234 (235)
Q Consensus 186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~~ 234 (235)
+-..||+|-..+++ .++++|+|.||..||.+-+. ++..||.|..+
T Consensus 642 ~~LkCs~Cn~R~Kd----~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~a 687 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKD----AVITKCGHVFCEECVQTRYETRQRKCPKCNAA 687 (698)
T ss_pred hceeCCCccCchhh----HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCC
Confidence 34689999988874 34556999999999999987 77899999765
No 45
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.60 E-value=1.9e-05 Score=70.77 Aligned_cols=77 Identities=16% Similarity=0.380 Sum_probs=51.1
Q ss_pred CcccCCcccccCCCCCCCHHHHhcCCceee---ccC---------------CCcCCCCCCccCccccccccCCCceeecC
Q 026690 146 SFDEAPNIFDTGLSKGLTGESVDKIPKITI---TDK---------------NNIDASGERVSCSVCLQDFQLGETARSLP 207 (235)
Q Consensus 146 ~~~e~~d~~~~~~~~gls~~~i~~lp~~~~---~~~---------------~~~~~~~e~~~C~ICle~f~~ge~v~~Lp 207 (235)
.|......+....++|+.+..++.|....- +.. --.+..-....|.|||--|..++...+.+
T Consensus 56 gYP~esPtvtl~nPRGl~d~~~~~i~~~~~~iikq~~g~pii~~lie~~~e~LT~nn~p~gqCvICLygfa~~~~ft~T~ 135 (368)
T KOG4445|consen 56 GYPAESPTVTLSNPRGLGDPEFREIQRQIQEIIKQNSGMPIICQLIEHCSEFLTENNHPNGQCVICLYGFASSPAFTVTA 135 (368)
T ss_pred CCCCcCCceEecCCCCCCcHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHcccCCCCCCceEEEEEeecCCCceeeeh
Confidence 344445555556778888777665533210 000 00111223458999999999999899899
Q ss_pred CCCCcccHhhHHHHHh
Q 026690 208 HCHHMFHIPCIDKWLL 223 (235)
Q Consensus 208 ~C~H~FH~~CI~~WL~ 223 (235)
|.|+||..|+.++|.
T Consensus 136 -C~Hy~H~~ClaRyl~ 150 (368)
T KOG4445|consen 136 -CDHYMHFACLARYLT 150 (368)
T ss_pred -hHHHHHHHHHHHHHH
Confidence 999999999988873
No 46
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.45 E-value=7.4e-05 Score=51.54 Aligned_cols=41 Identities=27% Similarity=0.618 Sum_probs=27.6
Q ss_pred CccCccccccccCCCceeecCCCCCcccHhhHHHHHhc--CCCCCC
Q 026690 187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG--HASCPL 230 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~--~~sCPl 230 (235)
...|||.++.|++ .++... |+|+|-++.|.+|+.+ +..||+
T Consensus 11 ~~~CPiT~~~~~~--PV~s~~-C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 11 SLKCPITLQPFED--PVKSKK-CGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp -SB-TTTSSB-SS--EEEESS-S--EEEHHHHHHHCTTTS-EE-SC
T ss_pred ccCCCCcCChhhC--CcCcCC-CCCeecHHHHHHHHHhcCCCCCCC
Confidence 4689999999984 445444 9999999999999943 446998
No 47
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.37 E-value=0.00011 Score=48.62 Aligned_cols=40 Identities=30% Similarity=0.965 Sum_probs=28.2
Q ss_pred CccccccccCCCceeecCCCC-----CcccHhhHHHHHh--cCCCCCCc
Q 026690 190 CSVCLQDFQLGETARSLPHCH-----HMFHIPCIDKWLL--GHASCPLC 231 (235)
Q Consensus 190 C~ICle~f~~ge~v~~Lp~C~-----H~FH~~CI~~WL~--~~~sCPlC 231 (235)
|-||+++-..++ ..+.| |+ .+.|..|+++|+. .+.+|++|
T Consensus 1 CrIC~~~~~~~~-~li~p-C~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISP-CRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-S-SS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecc-cccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 789999877655 44566 55 5899999999998 45679998
No 48
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.31 E-value=0.00011 Score=69.03 Aligned_cols=48 Identities=29% Similarity=0.737 Sum_probs=39.6
Q ss_pred CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690 185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235 (235)
Q Consensus 185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 235 (235)
.++..|++|...+.+ ....+.|+|.||..|+.+|+..+..||.||+++
T Consensus 19 ~~~l~C~~C~~vl~~---p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~ 66 (391)
T KOG0297|consen 19 DENLLCPICMSVLRD---PVQTTTCGHRFCAGCLLESLSNHQKCPVCRQEL 66 (391)
T ss_pred cccccCccccccccC---CCCCCCCCCcccccccchhhccCcCCccccccc
Confidence 456899999999885 222224999999999999999999999998753
No 49
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.25 E-value=0.00014 Score=68.20 Aligned_cols=46 Identities=35% Similarity=0.834 Sum_probs=40.1
Q ss_pred CCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690 186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235 (235)
Q Consensus 186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 235 (235)
.+..|.||+.-+.. ...+| |||.||..||++-+.++..||.||.++
T Consensus 83 sef~c~vc~~~l~~---pv~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l 128 (398)
T KOG4159|consen 83 SEFECCVCSRALYP---PVVTP-CGHSFCLECLDRSLDQETECPLCRDEL 128 (398)
T ss_pred chhhhhhhHhhcCC---Ccccc-ccccccHHHHHHHhccCCCCccccccc
Confidence 35789999888875 66778 999999999999989899999999864
No 50
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.23 E-value=0.0001 Score=68.59 Aligned_cols=43 Identities=26% Similarity=0.869 Sum_probs=36.3
Q ss_pred cCccccccccCCCceeecCCCCCcccHhhHHHHHhc--CCCCCCccCCC
Q 026690 189 SCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG--HASCPLCRRDL 235 (235)
Q Consensus 189 ~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~--~~sCPlCR~~v 235 (235)
-|-||-|.=+ .+++-| |||..|..|+..|-.. .++||.||-+|
T Consensus 371 LCKICaendK---dvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEI 415 (563)
T KOG1785|consen 371 LCKICAENDK---DVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEI 415 (563)
T ss_pred HHHHhhccCC---Cccccc-ccchHHHHHHHhhcccCCCCCCCceeeEe
Confidence 6999988644 488899 9999999999999753 56899999764
No 51
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.23 E-value=0.0001 Score=68.30 Aligned_cols=45 Identities=38% Similarity=0.960 Sum_probs=38.2
Q ss_pred CccCccccccccCC-CceeecCCCCCcccHhhHHHHHhcCC--CCCCcc
Q 026690 187 RVSCSVCLQDFQLG-ETARSLPHCHHMFHIPCIDKWLLGHA--SCPLCR 232 (235)
Q Consensus 187 ~~~C~ICle~f~~g-e~v~~Lp~C~H~FH~~CI~~WL~~~~--sCPlCR 232 (235)
..-|..|-|.+-.. +....|| |.|+||..|+...|.++. +||.||
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Cr 412 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCR 412 (518)
T ss_pred hhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHH
Confidence 45799999988754 4577899 999999999999998654 799998
No 52
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.06 E-value=0.00035 Score=73.36 Aligned_cols=51 Identities=27% Similarity=0.714 Sum_probs=40.9
Q ss_pred CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCC----------CCCCccCCC
Q 026690 184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHA----------SCPLCRRDL 235 (235)
Q Consensus 184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~----------sCPlCR~~v 235 (235)
.+.++.|-||..+--.......|. |+|+||..|...-|+++. +||+|+.+|
T Consensus 3483 QD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~I 3543 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKI 3543 (3738)
T ss_pred cccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchh
Confidence 445678999999877667778888 999999999987776432 699999864
No 53
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.98 E-value=0.00076 Score=55.57 Aligned_cols=49 Identities=18% Similarity=0.589 Sum_probs=32.5
Q ss_pred CCCCccCccccccccCCCceeecC--CCCCcccHhhHHHHHhc--CCCCCCccCC
Q 026690 184 SGERVSCSVCLQDFQLGETARSLP--HCHHMFHIPCIDKWLLG--HASCPLCRRD 234 (235)
Q Consensus 184 ~~e~~~C~ICle~f~~ge~v~~Lp--~C~H~FH~~CI~~WL~~--~~sCPlCR~~ 234 (235)
+..+..|-||.++-.. ...-.. .=-...|.+|+++|+.. +.+||+|+.+
T Consensus 5 s~~~~~CRIC~~~~~~--~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~ 57 (162)
T PHA02825 5 SLMDKCCWICKDEYDV--VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGP 57 (162)
T ss_pred CCCCCeeEecCCCCCC--ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCe
Confidence 3456789999988432 222111 00027799999999984 4579999875
No 54
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.90 E-value=0.00093 Score=59.45 Aligned_cols=47 Identities=26% Similarity=0.619 Sum_probs=35.5
Q ss_pred CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC--CCCCCccCC
Q 026690 185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGH--ASCPLCRRD 234 (235)
Q Consensus 185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~--~sCPlCR~~ 234 (235)
..+.+|++|-++-.. +....+|+|+||+.||..-.... -+||.|-.+
T Consensus 237 t~~~~C~~Cg~~Pti---P~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~ 285 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTI---PHVIGKCGHIYCYYCIATSRLWDASFTCPLCGEN 285 (298)
T ss_pred cCCceeeccCCCCCC---CeeeccccceeehhhhhhhhcchhhcccCccCCC
Confidence 446799999887443 33333499999999999876643 589999765
No 55
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.89 E-value=0.00083 Score=58.33 Aligned_cols=49 Identities=27% Similarity=0.745 Sum_probs=41.2
Q ss_pred CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhc--------CCCCCCccCCC
Q 026690 185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG--------HASCPLCRRDL 235 (235)
Q Consensus 185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~--------~~sCPlCR~~v 235 (235)
+.+..|..|-..+..||.+|.. |-|.||..|+++|-.+ ...||-|.++|
T Consensus 48 DY~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~ei 104 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEI 104 (299)
T ss_pred CCCCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCcc
Confidence 3456899999999999999854 9999999999999763 23699998765
No 56
>PHA03096 p28-like protein; Provisional
Probab=96.83 E-value=0.0006 Score=61.44 Aligned_cols=46 Identities=28% Similarity=0.598 Sum_probs=35.5
Q ss_pred ccCccccccccCC----CceeecCCCCCcccHhhHHHHHhc---CCCCCCccC
Q 026690 188 VSCSVCLQDFQLG----ETARSLPHCHHMFHIPCIDKWLLG---HASCPLCRR 233 (235)
Q Consensus 188 ~~C~ICle~f~~g----e~v~~Lp~C~H~FH~~CI~~WL~~---~~sCPlCR~ 233 (235)
..|.||++..... .....|+.|.|.|+..||..|-.. +.+||.||.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence 5799999987743 345679999999999999999863 335666653
No 57
>PF13436 Gly-zipper_OmpA: Glycine-zipper containing OmpA-like membrane domain
Probab=96.80 E-value=0.0012 Score=51.97 Aligned_cols=39 Identities=41% Similarity=0.555 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHhhcccccccchhhhhhhhhHhhHHhhh
Q 026690 50 ALVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFSIE 89 (235)
Q Consensus 50 a~~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav~s~e 89 (235)
+++|+++||++|+++|- ..+|.+.||++||+.|++....
T Consensus 56 a~~GA~~GA~~Ga~~G~-~~~ga~~GAa~Ga~~G~~~g~~ 94 (118)
T PF13436_consen 56 AAIGAAAGAAIGAIIGG-NGRGAAIGAAAGAAVGAAAGAA 94 (118)
T ss_pred HHHHHHHHHHHHhhcCC-CccchHHHHHHHHHHHHHhhhh
Confidence 55677777777777776 5567888888888888886544
No 58
>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=96.76 E-value=0.00069 Score=54.41 Aligned_cols=36 Identities=19% Similarity=0.524 Sum_probs=30.9
Q ss_pred CccCccccccccCCCceeecCCCC------CcccHhhHHHHHh
Q 026690 187 RVSCSVCLQDFQLGETARSLPHCH------HMFHIPCIDKWLL 223 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~~Lp~C~------H~FH~~CI~~WL~ 223 (235)
..+|.||++.+..++.+..++ |+ |+||.+|+++|-+
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHh
Confidence 468999999999867777777 77 9999999999943
No 59
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.75 E-value=0.0004 Score=57.41 Aligned_cols=31 Identities=32% Similarity=0.882 Sum_probs=27.7
Q ss_pred CCCCccCccccccccCCCceeecCCCCCcccH
Q 026690 184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHI 215 (235)
Q Consensus 184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~ 215 (235)
.++..+|.||||+++.|+++..|| |-.+||+
T Consensus 174 ~ddkGECvICLEdL~~GdtIARLP-CLCIYHK 204 (205)
T KOG0801|consen 174 KDDKGECVICLEDLEAGDTIARLP-CLCIYHK 204 (205)
T ss_pred cccCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence 344568999999999999999999 9999996
No 60
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.71 E-value=0.0014 Score=43.61 Aligned_cols=44 Identities=20% Similarity=0.485 Sum_probs=23.2
Q ss_pred CccccccccCCC-ceeecCCCCCcccHhhHHHHHh-cCCCCCCccCC
Q 026690 190 CSVCLQDFQLGE-TARSLPHCHHMFHIPCIDKWLL-GHASCPLCRRD 234 (235)
Q Consensus 190 C~ICle~f~~ge-~v~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~~ 234 (235)
||+|.+++...+ ...-.+ |++..+..|..+-++ .++.||-||++
T Consensus 1 cp~C~e~~d~~d~~~~PC~-Cgf~IC~~C~~~i~~~~~g~CPgCr~~ 46 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCE-CGFQICRFCYHDILENEGGRCPGCREP 46 (48)
T ss_dssp -TTTS-B--CCCTT--SST-TS----HHHHHHHTTSS-SB-TTT--B
T ss_pred CCCcccccccCCCccccCc-CCCcHHHHHHHHHHhccCCCCCCCCCC
Confidence 799999994333 344445 999999999888886 58899999986
No 61
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.63 E-value=0.00045 Score=62.79 Aligned_cols=47 Identities=28% Similarity=0.598 Sum_probs=38.7
Q ss_pred CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690 185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 234 (235)
.....|.+|---|.+..+ .+.|-|.||..||.+.|....+||.|...
T Consensus 13 n~~itC~LC~GYliDATT---I~eCLHTFCkSCivk~l~~~~~CP~C~i~ 59 (331)
T KOG2660|consen 13 NPHITCRLCGGYLIDATT---ITECLHTFCKSCIVKYLEESKYCPTCDIV 59 (331)
T ss_pred ccceehhhccceeecchh---HHHHHHHHHHHHHHHHHHHhccCCcccee
Confidence 345789999988886333 33499999999999999999999999753
No 62
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=96.61 E-value=0.001 Score=66.85 Aligned_cols=50 Identities=30% Similarity=0.767 Sum_probs=41.6
Q ss_pred CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhc-------CCCCCCccC
Q 026690 184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG-------HASCPLCRR 233 (235)
Q Consensus 184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~-------~~sCPlCR~ 233 (235)
.....+|.||.+.+.....+.....|-|+||..||.+|-++ ...||.|+.
T Consensus 188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 44567999999999998888887789999999999999873 125999973
No 63
>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=96.56 E-value=0.0009 Score=50.62 Aligned_cols=32 Identities=34% Similarity=0.734 Sum_probs=26.9
Q ss_pred CCccCccccccccCCCceeecCCCCCcccHhhHH
Q 026690 186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCID 219 (235)
Q Consensus 186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~ 219 (235)
++..|++|-+.+.. ......| |+|+||..|++
T Consensus 77 ~~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~ 108 (109)
T PF10367_consen 77 ESTKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK 108 (109)
T ss_pred CCCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence 34679999999976 5667788 99999999985
No 64
>PF13441 Gly-zipper_YMGG: YMGG-like Gly-zipper
Probab=96.41 E-value=0.0034 Score=41.19 Aligned_cols=36 Identities=44% Similarity=0.657 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHhhcccccccchhhhhhhhhHhhH
Q 026690 49 FALVGTLLGAMTGALIGQETESGFVRGAAVGAISGAV 85 (235)
Q Consensus 49 fa~~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav 85 (235)
-|+.|+..||++|+++| ....|-+-|+++|+++|++
T Consensus 6 GA~iGA~~GA~iG~~~g-~~~~GA~iGA~~Ga~~G~~ 41 (45)
T PF13441_consen 6 GAAIGAAAGAVIGAIIG-NGGKGAAIGAAAGALAGAA 41 (45)
T ss_pred HHHHHHHHHHHHHHhhC-CCcccchhhhhhhhhhhhh
Confidence 46678888888888888 2223334444444444443
No 65
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=96.33 E-value=0.0026 Score=57.93 Aligned_cols=46 Identities=28% Similarity=0.594 Sum_probs=36.3
Q ss_pred CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCcc
Q 026690 184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCR 232 (235)
Q Consensus 184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR 232 (235)
..+...||||+..-+. +.+... -|-+||+.||-+++.+++.||+=.
T Consensus 297 ~~~~~~CpvClk~r~N-ptvl~v--SGyVfCY~Ci~~Yv~~~~~CPVT~ 342 (357)
T KOG0826|consen 297 PPDREVCPVCLKKRQN-PTVLEV--SGYVFCYPCIFSYVVNYGHCPVTG 342 (357)
T ss_pred CCccccChhHHhccCC-CceEEe--cceEEeHHHHHHHHHhcCCCCccC
Confidence 4456789999998775 333333 599999999999999999999843
No 66
>PF13488 Gly-zipper_Omp: Glycine zipper
Probab=96.32 E-value=0.0048 Score=40.69 Aligned_cols=35 Identities=43% Similarity=0.596 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHhhcccccccchhhhhhhhhHhhHHh
Q 026690 52 VGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFS 87 (235)
Q Consensus 52 ~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav~s 87 (235)
.|+++|+++|++.| .+..|-+-|+++|++.|+.+.
T Consensus 5 iGA~~Ga~iG~~~g-~~~~ga~iGa~vGa~~G~~ig 39 (46)
T PF13488_consen 5 IGAAAGAAIGAATG-GPGKGAAIGAAVGAAVGAAIG 39 (46)
T ss_pred HHHHHHHHHHHHhC-CchhhHHHHHHHHHHHHHHHH
Confidence 34444444444444 124566667777777776644
No 67
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.31 E-value=0.0022 Score=59.94 Aligned_cols=45 Identities=22% Similarity=0.607 Sum_probs=37.4
Q ss_pred CccCccccccccCCCceeecCCCCCcccHhhHHHHHhc--------CCCCCCcc
Q 026690 187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG--------HASCPLCR 232 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~--------~~sCPlCR 232 (235)
..+|.||+++....+....+| |+|+||+.|+..+... .-.||-|+
T Consensus 184 lf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~ 236 (445)
T KOG1814|consen 184 LFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK 236 (445)
T ss_pred cccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence 468999999988768889999 9999999999999862 23587654
No 68
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.23 E-value=0.0017 Score=55.40 Aligned_cols=42 Identities=21% Similarity=0.571 Sum_probs=36.2
Q ss_pred ccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccC
Q 026690 188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRR 233 (235)
Q Consensus 188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~ 233 (235)
..|.||.++|+. +.... |||.||..|...=+++...|-+|..
T Consensus 197 F~C~iCKkdy~s---pvvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk 238 (259)
T COG5152 197 FLCGICKKDYES---PVVTE-CGHSFCSLCAIRKYQKGDECGVCGK 238 (259)
T ss_pred eeehhchhhccc---hhhhh-cchhHHHHHHHHHhccCCcceecch
Confidence 489999999985 55455 9999999999988889999999965
No 69
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.21 E-value=0.0024 Score=61.49 Aligned_cols=46 Identities=26% Similarity=0.668 Sum_probs=35.5
Q ss_pred CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHh-----cCCCCCCccCC
Q 026690 185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL-----GHASCPLCRRD 234 (235)
Q Consensus 185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~-----~~~sCPlCR~~ 234 (235)
.+...|.+|-++-++ ..... |+|.||.-||.++.. .+-+||.|...
T Consensus 534 k~~~~C~lc~d~aed---~i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~ 584 (791)
T KOG1002|consen 534 KGEVECGLCHDPAED---YIESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIG 584 (791)
T ss_pred cCceeecccCChhhh---hHhhh-hhHHHHHHHHHHHHHhhhcccCCCCcccccc
Confidence 345689999987553 44455 999999999999886 34589999754
No 70
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.12 E-value=0.0063 Score=53.59 Aligned_cols=49 Identities=18% Similarity=0.321 Sum_probs=42.6
Q ss_pred CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690 187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 235 (235)
...||||.+.+........|..|||+|+++|+++.++....||+|-.++
T Consensus 221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~pl 269 (303)
T KOG3039|consen 221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPL 269 (303)
T ss_pred ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcC
Confidence 3579999999998777777777999999999999999999999997653
No 71
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.12 E-value=0.0032 Score=57.93 Aligned_cols=44 Identities=30% Similarity=0.625 Sum_probs=33.3
Q ss_pred CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690 185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235 (235)
Q Consensus 185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 235 (235)
.....|.||+++.+. ...+| |||+-+ |..-- +...+||+||+.+
T Consensus 303 ~~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs-~~l~~CPvCR~rI 346 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCS-KHLPQCPVCRQRI 346 (355)
T ss_pred CCCCceEEecCCccc---eeeec-CCcEEE--chHHH-hhCCCCchhHHHH
Confidence 345689999999876 77889 999976 76654 3344599999853
No 72
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.03 E-value=0.0046 Score=56.97 Aligned_cols=47 Identities=26% Similarity=0.564 Sum_probs=38.3
Q ss_pred CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690 184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 234 (235)
..|+..||||+-.-- .....| |+|.=|+.||.+-|-....|=.|+..
T Consensus 419 ~sEd~lCpICyA~pi---~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktT 465 (489)
T KOG4692|consen 419 DSEDNLCPICYAGPI---NAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTT 465 (489)
T ss_pred CcccccCcceecccc---hhhccC-CCCchHHHHHHHHHhcCCeeeEecce
Confidence 356789999986422 255667 99999999999999999999999864
No 73
>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=95.88 E-value=0.0064 Score=39.35 Aligned_cols=37 Identities=38% Similarity=0.671 Sum_probs=24.9
Q ss_pred HHHHHHHHHHhhccc--ccccchhhhhhhhhHhhHHhhh
Q 026690 53 GTLLGAMTGALIGQE--TESGFVRGAAVGAISGAVFSIE 89 (235)
Q Consensus 53 g~~~ga~~ga~~g~~--~~~g~~~ga~~gai~gav~s~e 89 (235)
|+++|+++|+++|.. ..++=..++.+||+.|+++.=+
T Consensus 2 G~~~Ga~~Ga~~G~~ig~~~g~~~g~~~Ga~~Ga~~G~~ 40 (42)
T PF05433_consen 2 GALIGAAVGAVAGSQIGGGNGRTLGAVAGAVAGALIGNQ 40 (42)
T ss_pred chHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHHHhh
Confidence 455555555555554 3567778899999999887543
No 74
>PF13436 Gly-zipper_OmpA: Glycine-zipper containing OmpA-like membrane domain
Probab=95.82 E-value=0.0085 Score=47.20 Aligned_cols=40 Identities=38% Similarity=0.469 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHHHhhcccccccchhhhhhhhhHhhHHhhh
Q 026690 49 FALVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFSIE 89 (235)
Q Consensus 49 fa~~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav~s~e 89 (235)
=+..|+++||++||++|..... --+|+.+||.+|+++..=
T Consensus 51 ~~~~ga~~GA~~GA~~Ga~~G~-~~~ga~~GAa~Ga~~G~~ 90 (118)
T PF13436_consen 51 NTAGGAAIGAAAGAAIGAIIGG-NGRGAAIGAAAGAAVGAA 90 (118)
T ss_pred hHHHHHHHHHHHHHHHHhhcCC-CccchHHHHHHHHHHHHH
Confidence 4569999999999999998877 678999999999997543
No 75
>PF13441 Gly-zipper_YMGG: YMGG-like Gly-zipper
Probab=95.77 E-value=0.0069 Score=39.77 Aligned_cols=36 Identities=39% Similarity=0.574 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHhhcccccccchhhhhhhhhHhhHHh
Q 026690 51 LVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFS 87 (235)
Q Consensus 51 ~~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav~s 87 (235)
.-|+.+||.+|+++|.... .-.+||.+||.+|++..
T Consensus 4 ~~GA~iGA~~GA~iG~~~g-~~~~GA~iGA~~Ga~~G 39 (45)
T PF13441_consen 4 VRGAAIGAAAGAVIGAIIG-NGGKGAAIGAAAGALAG 39 (45)
T ss_pred hhHHHHHHHHHHHHHHhhC-CCcccchhhhhhhhhhh
Confidence 5689999999999999998 67789999999999864
No 76
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.74 E-value=0.0007 Score=62.84 Aligned_cols=47 Identities=30% Similarity=0.722 Sum_probs=41.2
Q ss_pred ccCccccccccCC-CceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690 188 VSCSVCLQDFQLG-ETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235 (235)
Q Consensus 188 ~~C~ICle~f~~g-e~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 235 (235)
..|+||.++++.. ++...+- |+|.+|.+||.+||..+..||-||++|
T Consensus 197 ~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel 244 (465)
T KOG0827|consen 197 GSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRREL 244 (465)
T ss_pred hhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhh
Confidence 4799999999876 5666666 999999999999999999999999864
No 77
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.71 E-value=0.0038 Score=56.13 Aligned_cols=43 Identities=23% Similarity=0.469 Sum_probs=36.5
Q ss_pred ccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690 188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 234 (235)
..|-||.+.|.. ..+.. |+|+||..|-.+-+++...|++|-+.
T Consensus 242 f~c~icr~~f~~---pVvt~-c~h~fc~~ca~~~~qk~~~c~vC~~~ 284 (313)
T KOG1813|consen 242 FKCFICRKYFYR---PVVTK-CGHYFCEVCALKPYQKGEKCYVCSQQ 284 (313)
T ss_pred cccccccccccc---chhhc-CCceeehhhhccccccCCcceecccc
Confidence 469999999985 44444 99999999999988999999999764
No 78
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.64 E-value=0.0088 Score=50.35 Aligned_cols=49 Identities=27% Similarity=0.678 Sum_probs=31.8
Q ss_pred CccCccccccccCCCc---eeecCCCCCcccHhhHHHHHhc-----C------CCCCCccCCC
Q 026690 187 RVSCSVCLQDFQLGET---ARSLPHCHHMFHIPCIDKWLLG-----H------ASCPLCRRDL 235 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~---v~~Lp~C~H~FH~~CI~~WL~~-----~------~sCPlCR~~v 235 (235)
...|.||+---..|.. +.--..|+.-||.-|+..||+. + +.||.|-.+|
T Consensus 165 ~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pi 227 (234)
T KOG3268|consen 165 LGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPI 227 (234)
T ss_pred hhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcc
Confidence 3457777643333322 1222249999999999999972 1 2599998764
No 79
>PF13488 Gly-zipper_Omp: Glycine zipper
Probab=95.56 E-value=0.0099 Score=39.21 Aligned_cols=35 Identities=46% Similarity=0.707 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHhhcccccccchhhhhhhhhHhhHHh
Q 026690 52 VGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFS 87 (235)
Q Consensus 52 ~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav~s 87 (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 388999999999999886 44788999999998864
No 80
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.27 E-value=0.011 Score=53.47 Aligned_cols=43 Identities=33% Similarity=0.703 Sum_probs=34.1
Q ss_pred ccCccccccccCCCceeecCCCCCcccHhhHHHHHh-cCCCCCCccC
Q 026690 188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL-GHASCPLCRR 233 (235)
Q Consensus 188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~ 233 (235)
..|+.|-.-... ....|.|+|.||.+||..-|. ....||.|.+
T Consensus 275 LkCplc~~Llrn---p~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRN---PMKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhC---cccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 689999877654 444577999999999998876 5668999943
No 81
>PRK10510 putative outer membrane lipoprotein; Provisional
Probab=95.14 E-value=0.032 Score=48.42 Aligned_cols=40 Identities=38% Similarity=0.432 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHhhccc--ccccchhhhhhhhhHhhHHhh
Q 026690 49 FALVGTLLGAMTGALIGQE--TESGFVRGAAVGAISGAVFSI 88 (235)
Q Consensus 49 fa~~g~~~ga~~ga~~g~~--~~~g~~~ga~~gai~gav~s~ 88 (235)
=|++|+++||++|+++|-. ...|-+-||++||.+|+....
T Consensus 38 ga~~Ga~~Ga~~G~~~g~~~~~~~~a~~ga~~G~~~G~~~g~ 79 (219)
T PRK10510 38 GAGIGSLVGAGIGALSSSKKDRGKGALIGAAAGAALGGGVGY 79 (219)
T ss_pred hhHHHHHHHHHHHhhhcCCCcccchhhhHhHHHhhhhhhhhh
Confidence 3566677777777766521 123566677777777777653
No 82
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=95.10 E-value=0.015 Score=37.75 Aligned_cols=41 Identities=24% Similarity=0.697 Sum_probs=23.2
Q ss_pred CccccccccCCCceeecCCCCCcccHhhHHHHHhcCC--CCCCc
Q 026690 190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHA--SCPLC 231 (235)
Q Consensus 190 C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~--sCPlC 231 (235)
|.+|.+-...|..=... .|+=.+|..|++.+++.+. .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~-~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNR-DCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCC-ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 66777776654433322 4999999999999998665 79988
No 83
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.05 E-value=0.02 Score=52.71 Aligned_cols=49 Identities=29% Similarity=0.734 Sum_probs=38.5
Q ss_pred CCCCCCccCccccccccCCCceeecCCCCCcccHhhHHHH--HhcCCCCCCccCC
Q 026690 182 DASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKW--LLGHASCPLCRRD 234 (235)
Q Consensus 182 ~~~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~W--L~~~~sCPlCR~~ 234 (235)
+..++...|-||-+...- ...+| |+|..|-.|-.+- |-++..||+||.+
T Consensus 56 dtDEen~~C~ICA~~~TY---s~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE 106 (493)
T COG5236 56 DTDEENMNCQICAGSTTY---SARYP-CGHQICHACAVRLRALYMQKGCPLCRTE 106 (493)
T ss_pred ccccccceeEEecCCceE---EEecc-CCchHHHHHHHHHHHHHhccCCCccccc
Confidence 444556689999988764 67788 9999999997653 4578899999974
No 84
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=94.82 E-value=0.022 Score=57.42 Aligned_cols=51 Identities=20% Similarity=0.602 Sum_probs=37.1
Q ss_pred CCCCccCccccccccCCCceeecCCCC---CcccHhhHHHHHh--cCCCCCCccCC
Q 026690 184 SGERVSCSVCLQDFQLGETARSLPHCH---HMFHIPCIDKWLL--GHASCPLCRRD 234 (235)
Q Consensus 184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~---H~FH~~CI~~WL~--~~~sCPlCR~~ 234 (235)
.+++..|.||..+=..++..-.--+|. .+.|.+|+.+|+. .+..|-+|+.+
T Consensus 9 N~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~ 64 (1175)
T COG5183 9 NEDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYE 64 (1175)
T ss_pred CccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecce
Confidence 345578999998866655544221233 7899999999998 45679999875
No 85
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=94.61 E-value=0.025 Score=50.56 Aligned_cols=47 Identities=23% Similarity=0.704 Sum_probs=35.5
Q ss_pred CccCccccccccCCCc-eeecCCCC-----CcccHhhHHHHHh--cCCCCCCccCC
Q 026690 187 RVSCSVCLQDFQLGET-ARSLPHCH-----HMFHIPCIDKWLL--GHASCPLCRRD 234 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~-v~~Lp~C~-----H~FH~~CI~~WL~--~~~sCPlCR~~ 234 (235)
...|.||.++...... ....| |. +..|..|++.|+. .+..|.+|...
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~ 132 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSF 132 (323)
T ss_pred CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeeccccc
Confidence 4689999998764332 34455 65 8889999999998 55679999763
No 86
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=94.57 E-value=0.017 Score=39.50 Aligned_cols=32 Identities=25% Similarity=0.634 Sum_probs=26.1
Q ss_pred CceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690 201 ETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235 (235)
Q Consensus 201 e~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 235 (235)
.+-..+| |+|+.+..|.+-+ +-+-||+|.+++
T Consensus 18 ~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~ 49 (55)
T PF14447_consen 18 TKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPF 49 (55)
T ss_pred ccccccc-ccceeeccccChh--hccCCCCCCCcc
Confidence 3456788 9999999999875 778899997754
No 87
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=94.53 E-value=0.022 Score=51.20 Aligned_cols=45 Identities=27% Similarity=0.730 Sum_probs=38.2
Q ss_pred ccCccccccccCCC-ceeecCCCCCcccHhhHHHHHhcCCCCCCccC
Q 026690 188 VSCSVCLQDFQLGE-TARSLPHCHHMFHIPCIDKWLLGHASCPLCRR 233 (235)
Q Consensus 188 ~~C~ICle~f~~ge-~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~ 233 (235)
..||||.+.+-... .+..++ |+|.-|..|..+....+-+||+|..
T Consensus 159 ~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred CCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence 45999999977665 456677 9999999999999988899999975
No 88
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=94.50 E-value=0.043 Score=37.38 Aligned_cols=34 Identities=29% Similarity=0.691 Sum_probs=30.5
Q ss_pred CccCccccccccCCCceeecCCCCCcccHhhHHH
Q 026690 187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDK 220 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~ 220 (235)
...|++|-+.|+.++.+.+.|.|+-.+|++|-++
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 4579999999998899999999999999999763
No 89
>PF04641 Rtf2: Rtf2 RING-finger
Probab=94.16 E-value=0.053 Score=48.16 Aligned_cols=49 Identities=20% Similarity=0.426 Sum_probs=38.5
Q ss_pred CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690 185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 234 (235)
.....|||...+|........+-.|||+|-..+|++- .....||+|-.+
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~ 159 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKP 159 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCc
Confidence 4457899999999766565555449999999999997 235679999765
No 90
>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=93.92 E-value=0.091 Score=48.92 Aligned_cols=26 Identities=38% Similarity=1.206 Sum_probs=20.4
Q ss_pred CCCcccHhhHHHHHh-------------cCCCCCCccCC
Q 026690 209 CHHMFHIPCIDKWLL-------------GHASCPLCRRD 234 (235)
Q Consensus 209 C~H~FH~~CI~~WL~-------------~~~sCPlCR~~ 234 (235)
|.-+.|.+|+-+|+. ++..||+||+.
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~ 349 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAK 349 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccc
Confidence 556778999999985 23369999985
No 91
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.27 E-value=0.035 Score=49.19 Aligned_cols=49 Identities=24% Similarity=0.676 Sum_probs=34.5
Q ss_pred CCCccCccccccccCCCce-eecCCCC-----CcccHhhHHHHHhcCC--------CCCCccCC
Q 026690 185 GERVSCSVCLQDFQLGETA-RSLPHCH-----HMFHIPCIDKWLLGHA--------SCPLCRRD 234 (235)
Q Consensus 185 ~e~~~C~ICle~f~~ge~v-~~Lp~C~-----H~FH~~CI~~WL~~~~--------sCPlCR~~ 234 (235)
+.+..|=||+..=++.... -+-| |. |-.|..|+..|...++ +||-|+.+
T Consensus 18 e~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTE 80 (293)
T KOG3053|consen 18 ELERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTE 80 (293)
T ss_pred ccceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcch
Confidence 3446799998765443322 3345 64 9999999999997433 69999865
No 92
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.17 E-value=0.041 Score=55.79 Aligned_cols=42 Identities=26% Similarity=0.612 Sum_probs=31.9
Q ss_pred CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690 187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 234 (235)
...|+.|--.++. +.+--.|+|.||..|+. .+...||-|+-+
T Consensus 840 ~skCs~C~~~Ldl---P~VhF~CgHsyHqhC~e---~~~~~CP~C~~e 881 (933)
T KOG2114|consen 840 VSKCSACEGTLDL---PFVHFLCGHSYHQHCLE---DKEDKCPKCLPE 881 (933)
T ss_pred eeeecccCCcccc---ceeeeecccHHHHHhhc---cCcccCCccchh
Confidence 3589999887764 22222499999999999 567789999853
No 93
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.87 E-value=0.016 Score=52.26 Aligned_cols=40 Identities=30% Similarity=0.700 Sum_probs=28.9
Q ss_pred CccCccccccccCCCceeecCCCCCcc-cHhhHHHHHhcCCCCCCccCC
Q 026690 187 RVSCSVCLQDFQLGETARSLPHCHHMF-HIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~~Lp~C~H~F-H~~CI~~WL~~~~sCPlCR~~ 234 (235)
+.-|.||++.-.+ -..|+ |||.. |..|=. +-+.||+||+.
T Consensus 300 ~~LC~ICmDaP~D---CvfLe-CGHmVtCt~CGk----rm~eCPICRqy 340 (350)
T KOG4275|consen 300 RRLCAICMDAPRD---CVFLE-CGHMVTCTKCGK----RMNECPICRQY 340 (350)
T ss_pred HHHHHHHhcCCcc---eEEee-cCcEEeehhhcc----ccccCchHHHH
Confidence 4579999997553 56688 99976 555544 33489999974
No 94
>PRK10510 putative outer membrane lipoprotein; Provisional
Probab=92.86 E-value=0.14 Score=44.40 Aligned_cols=37 Identities=35% Similarity=0.520 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHhhccccccc--chhhhhhhhhHhhHHhh
Q 026690 52 VGTLLGAMTGALIGQETESG--FVRGAAVGAISGAVFSI 88 (235)
Q Consensus 52 ~g~~~ga~~ga~~g~~~~~g--~~~ga~~gai~gav~s~ 88 (235)
.|+.+||++||++|..+.+. -.+|+++||..|+++.-
T Consensus 37 ~ga~~Ga~~Ga~~G~~~g~~~~~~~~a~~ga~~G~~~G~ 75 (219)
T PRK10510 37 IGAGIGSLVGAGIGALSSSKKDRGKGALIGAAAGAALGG 75 (219)
T ss_pred hhhHHHHHHHHHHHhhhcCCCcccchhhhHhHHHhhhhh
Confidence 48999999999999987642 35678888888887654
No 95
>PRK11280 hypothetical protein; Provisional
Probab=92.78 E-value=0.096 Score=43.85 Aligned_cols=40 Identities=25% Similarity=0.489 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHhhccccc--ccchhhhhhhhhHhhHHhhhhh
Q 026690 52 VGTLLGAMTGALIGQETE--SGFVRGAAVGAISGAVFSIEVF 91 (235)
Q Consensus 52 ~g~~~ga~~ga~~g~~~~--~g~~~ga~~gai~gav~s~e~~ 91 (235)
.|+++||++|+++|..-. +|=.-++.+||++|+++.=++-
T Consensus 66 ~Gtv~Gav~Gg~~G~~iGgG~Gr~~at~~Ga~~G~~~G~~i~ 107 (170)
T PRK11280 66 AGSVLGAVAGGVLGHQFGGGRGKDVATVAGALGGGYAGNQIQ 107 (170)
T ss_pred hhHHHHHHHHHHhhhhccCCCccHHHHHHHHHHHHHHHHHHH
Confidence 477777777777777633 3333467788888888765543
No 96
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=92.54 E-value=0.046 Score=54.85 Aligned_cols=42 Identities=31% Similarity=0.693 Sum_probs=32.7
Q ss_pred ccCccccccccCCCceeecCCCCCcccHhhHHHHHhc--CCCCCCccCC
Q 026690 188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG--HASCPLCRRD 234 (235)
Q Consensus 188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~--~~sCPlCR~~ 234 (235)
..|+||++ -+.....+ |+|.||.+|+.+-+.. ...||+||..
T Consensus 455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~ 498 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNV 498 (674)
T ss_pred cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHH
Confidence 68999999 23355555 9999999999998874 2369999863
No 97
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=92.45 E-value=0.09 Score=48.46 Aligned_cols=49 Identities=22% Similarity=0.571 Sum_probs=34.9
Q ss_pred CCCccCccccccccCCCce-eecCCCCCcccHhhHHHHHh-cCCCCCCccCC
Q 026690 185 GERVSCSVCLQDFQLGETA-RSLPHCHHMFHIPCIDKWLL-GHASCPLCRRD 234 (235)
Q Consensus 185 ~e~~~C~ICle~f~~ge~v-~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~~ 234 (235)
+|++-||.|+|++...|+- .-.| ||-..|.-|...--+ -++.||-||+.
T Consensus 12 deed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~ 62 (480)
T COG5175 12 DEEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRK 62 (480)
T ss_pred cccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhh
Confidence 3445699999999876654 4456 998877777554322 46789999973
No 98
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=92.41 E-value=0.058 Score=54.91 Aligned_cols=36 Identities=25% Similarity=0.609 Sum_probs=29.1
Q ss_pred CCCccCccccccccCCCceeecCCCCCcccHhhHHHHH
Q 026690 185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWL 222 (235)
Q Consensus 185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL 222 (235)
+.+.+|.+|...+.. ....+.| |+|.||.+||.+-.
T Consensus 815 ep~d~C~~C~~~ll~-~pF~vf~-CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLI-KPFYVFP-CGHCFHRDCLIRHV 850 (911)
T ss_pred cCccchHHhcchhhc-Ccceeee-ccchHHHHHHHHHH
Confidence 345789999999875 4566778 99999999998765
No 99
>PRK10540 lipoprotein; Provisional
Probab=92.03 E-value=0.44 Score=34.39 Aligned_cols=35 Identities=31% Similarity=0.482 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHhhcccccccchhhhhhhhhHhhHHhhh
Q 026690 51 LVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFSIE 89 (235)
Q Consensus 51 ~~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav~s~e 89 (235)
..|+..|+++|+++|. |=..|+.+||..|++..=+
T Consensus 35 ~~Ga~~Ga~~Ga~~g~----g~~~g~~~Ga~~G~~~G~~ 69 (72)
T PRK10540 35 AIGAGAGALGGAVLTD----GSTLGTLGGAAVGGVIGHQ 69 (72)
T ss_pred HHHHHHHHHHHHHhcC----CcHHHHHHHHHHHHHHhHh
Confidence 3566677777777653 2335777777777776543
No 100
>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=91.91 E-value=0.12 Score=45.48 Aligned_cols=16 Identities=38% Similarity=0.744 Sum_probs=8.8
Q ss_pred hhhhhhhHhhHHhhhh
Q 026690 75 GAAVGAISGAVFSIEV 90 (235)
Q Consensus 75 ga~~gai~gav~s~e~ 90 (235)
|+.+|++.|++++-++
T Consensus 62 G~~~G~~~G~~~g~~~ 77 (239)
T TIGR03789 62 GAIIGGITGGLIGQAV 77 (239)
T ss_pred HHHHHHHHHHHhhhhc
Confidence 5555555555555443
No 101
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=91.80 E-value=0.1 Score=47.51 Aligned_cols=44 Identities=20% Similarity=0.481 Sum_probs=32.4
Q ss_pred CCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690 186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235 (235)
Q Consensus 186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 235 (235)
+-.+||||.+.+.. .+...+ =||+-|..|=. +.++.||.||.++
T Consensus 47 ~lleCPvC~~~l~~--Pi~QC~-nGHlaCssC~~---~~~~~CP~Cr~~~ 90 (299)
T KOG3002|consen 47 DLLDCPVCFNPLSP--PIFQCD-NGHLACSSCRT---KVSNKCPTCRLPI 90 (299)
T ss_pred hhccCchhhccCcc--cceecC-CCcEehhhhhh---hhcccCCcccccc
Confidence 34689999999884 222222 25999988876 4788999999875
No 102
>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=90.91 E-value=0.13 Score=34.11 Aligned_cols=41 Identities=24% Similarity=0.646 Sum_probs=24.8
Q ss_pred cCccccccccCCCceeecCCCC-CcccHhhHHHHHhcCCCCCCccCCC
Q 026690 189 SCSVCLQDFQLGETARSLPHCH-HMFHIPCIDKWLLGHASCPLCRRDL 235 (235)
Q Consensus 189 ~C~ICle~f~~ge~v~~Lp~C~-H~FH~~CI~~WL~~~~sCPlCR~~v 235 (235)
.|--|+...+. ... |+ |+.+..|+..-|.+...||+|..++
T Consensus 4 nCKsCWf~~k~---Li~---C~dHYLCl~CLt~ml~~s~~C~iC~~~L 45 (50)
T PF03854_consen 4 NCKSCWFANKG---LIK---CSDHYLCLNCLTLMLSRSDRCPICGKPL 45 (50)
T ss_dssp ---SS-S--SS---EEE----SS-EEEHHHHHHT-SSSSEETTTTEE-
T ss_pred cChhhhhcCCC---eee---ecchhHHHHHHHHHhccccCCCcccCcC
Confidence 35556554332 222 65 9999999999999999999998764
No 103
>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=90.86 E-value=0.24 Score=38.02 Aligned_cols=21 Identities=38% Similarity=0.702 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHhhcccccccc
Q 026690 52 VGTLLGAMTGALIGQETESGF 72 (235)
Q Consensus 52 ~g~~~ga~~ga~~g~~~~~g~ 72 (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 555555555555555554443
No 104
>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=90.35 E-value=0.15 Score=39.25 Aligned_cols=36 Identities=44% Similarity=0.651 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHhhcccccccchhhhhhhhhHhhHH
Q 026690 50 ALVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVF 86 (235)
Q Consensus 50 a~~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav~ 86 (235)
|+.|+++|.++|.+.+. ---|++=||+.||++|++.
T Consensus 1 A~~G~~~G~LiGll~~~-pl~G~~~GA~~Gal~G~l~ 36 (102)
T PF06897_consen 1 ALSGALWGLLIGLLFGP-PLLGAAVGAAAGALAGALS 36 (102)
T ss_pred CcchhHHHHHHHHHhhh-HHHHHHHHHHHHHHHhHHh
Confidence 35566666666666443 2235567888888888864
No 105
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=90.24 E-value=0.2 Score=50.66 Aligned_cols=49 Identities=12% Similarity=0.150 Sum_probs=35.9
Q ss_pred CCccCccccccccCCC---ceeecCCCCCcccHhhHHHHHh------cCCCCCCccCC
Q 026690 186 ERVSCSVCLQDFQLGE---TARSLPHCHHMFHIPCIDKWLL------GHASCPLCRRD 234 (235)
Q Consensus 186 e~~~C~ICle~f~~ge---~v~~Lp~C~H~FH~~CI~~WL~------~~~sCPlCR~~ 234 (235)
+...|.||.-++...+ ....+.+|.|.||..||..|+. ++..|+.|..-
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~C 152 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEEC 152 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHH
Confidence 3468999988888632 2333347999999999999986 35568988653
No 106
>PLN02720 complex II
Probab=90.13 E-value=0.24 Score=39.59 Aligned_cols=58 Identities=26% Similarity=0.328 Sum_probs=41.2
Q ss_pred HHHHHHHHHHHHH-HHhhcccccc--cchhhhhhhhhHhhHHhhhhhcchhhhhccCCCCC
Q 026690 48 FFALVGTLLGAMT-GALIGQETES--GFVRGAAVGAISGAVFSIEVFESSLVLWQSDESGI 105 (235)
Q Consensus 48 ~fa~~g~~~ga~~-ga~~g~~~~~--g~~~ga~~gai~gav~s~e~~~s~~~~w~~d~~g~ 105 (235)
-||++|+++||+- |+++=.-+.+ |.+-..+-|+|-|.+++-|+.+.-+.|++.|.-+.
T Consensus 67 ~fa~~Ga~vGa~~tag~a~kysk~phga~lsfl~G~~~G~~~G~EvAnh~lqLYk~d~m~a 127 (140)
T PLN02720 67 TFAVTGAAVGAVSTAGVAWKYSKSPHGAALAFLGGGVFGWAFGQEVANHWLQLYKFDTMAA 127 (140)
T ss_pred HHHhhhhhhhhhhhhHHHHHhhcCCchHHHHHhccchhhhhHhHHHHHHHHHHHhccccch
Confidence 3889999999884 3333222333 44445566888999999999999998888886543
No 107
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=89.99 E-value=0.12 Score=47.14 Aligned_cols=41 Identities=29% Similarity=0.763 Sum_probs=27.8
Q ss_pred cCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690 189 SCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 189 ~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 234 (235)
.|--|--.+.. --|.+| |+|+||++|-.. ..-+.||.|-..
T Consensus 92 fCd~Cd~PI~I--YGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~ 132 (389)
T KOG2932|consen 92 FCDRCDFPIAI--YGRMIP-CKHVFCLECARS--DSDKICPLCDDR 132 (389)
T ss_pred eecccCCccee--eecccc-cchhhhhhhhhc--CccccCcCcccH
Confidence 46666544432 236788 999999999763 235689999543
No 108
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=89.77 E-value=0.084 Score=55.76 Aligned_cols=44 Identities=25% Similarity=0.746 Sum_probs=35.8
Q ss_pred CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccC
Q 026690 187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRR 233 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~ 233 (235)
-..|.||++.+..-. ....|+|.++..|+..|+..+..||+|+.
T Consensus 1153 ~~~c~ic~dil~~~~---~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQG---GIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred ccchHHHHHHHHhcC---CeeeechhHhhhHHHHHHHHhccCcchhh
Confidence 348999999887311 12239999999999999999999999974
No 109
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=88.85 E-value=0.42 Score=42.70 Aligned_cols=47 Identities=26% Similarity=0.677 Sum_probs=35.1
Q ss_pred ccCccccccc-cCCCceee--cCCCCCcccHhhHHHHHh---------cCCCCCCccCC
Q 026690 188 VSCSVCLQDF-QLGETARS--LPHCHHMFHIPCIDKWLL---------GHASCPLCRRD 234 (235)
Q Consensus 188 ~~C~ICle~f-~~ge~v~~--Lp~C~H~FH~~CI~~WL~---------~~~sCPlCR~~ 234 (235)
.+|.+|.+++ +.+..... -|.|.-++|..|+..-+. ....||.|++-
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~ 241 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKF 241 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhce
Confidence 5899999999 54444433 347999999999999554 34579999863
No 110
>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=88.71 E-value=0.25 Score=29.78 Aligned_cols=37 Identities=24% Similarity=0.587 Sum_probs=25.3
Q ss_pred cCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690 189 SCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235 (235)
Q Consensus 189 ~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 235 (235)
.|..|.+.+..++...... ++.||.+|+. |..|+.+|
T Consensus 1 ~C~~C~~~i~~~~~~~~~~--~~~~H~~Cf~--------C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGELVLRAL--GKVWHPECFK--------CSKCGKPL 37 (39)
T ss_pred CccccCCcccCCcEEEEeC--CccccccCCC--------CcccCCcC
Confidence 3888988887764444333 7889988765 77776653
No 111
>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=88.16 E-value=0.5 Score=30.49 Aligned_cols=33 Identities=42% Similarity=0.739 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHhh--cccccccchhhhhhhhhHh
Q 026690 51 LVGTLLGAMTGALI--GQETESGFVRGAAVGAISG 83 (235)
Q Consensus 51 ~~g~~~ga~~ga~~--g~~~~~g~~~ga~~gai~g 83 (235)
++|+++|+++|..+ +--+..+-+=|+.+|++.|
T Consensus 4 ~~Ga~~Ga~~G~~ig~~~g~~~g~~~Ga~~Ga~~G 38 (42)
T PF05433_consen 4 LIGAAVGAVAGSQIGGGNGRTLGAVAGAVAGALIG 38 (42)
T ss_pred HHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHHH
Confidence 34444444444444 4444444444555555444
No 112
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.13 E-value=0.42 Score=44.78 Aligned_cols=45 Identities=18% Similarity=0.363 Sum_probs=38.7
Q ss_pred CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC---CCCCCcc
Q 026690 187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGH---ASCPLCR 232 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~---~sCPlCR 232 (235)
...|||=.|.-.+...+..|+ |||+...+-|.+--+.. -.||.|=
T Consensus 334 vF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP 381 (394)
T KOG2817|consen 334 VFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCP 381 (394)
T ss_pred eeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCC
Confidence 358999999999989999999 99999999999977643 3699994
No 113
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.65 E-value=0.29 Score=46.01 Aligned_cols=37 Identities=16% Similarity=0.505 Sum_probs=28.0
Q ss_pred CCccCccccccccCC-CceeecCCCCCcccHhhHHHHHh
Q 026690 186 ERVSCSVCLQDFQLG-ETARSLPHCHHMFHIPCIDKWLL 223 (235)
Q Consensus 186 e~~~C~ICle~f~~g-e~v~~Lp~C~H~FH~~CI~~WL~ 223 (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 4555 556999999999998887
No 114
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.82 E-value=0.34 Score=47.41 Aligned_cols=41 Identities=39% Similarity=0.990 Sum_probs=34.7
Q ss_pred CCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690 186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 234 (235)
....|.||+++. ..+..+ |. |..|+.+|+..+..||+|+..
T Consensus 478 ~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~ 518 (543)
T KOG0802|consen 478 PNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTY 518 (543)
T ss_pred ccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchh
Confidence 346899999998 356666 88 999999999999999999764
No 115
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=86.69 E-value=0.91 Score=30.21 Aligned_cols=43 Identities=21% Similarity=0.669 Sum_probs=19.2
Q ss_pred ccCccccccccCCCceeecCCCCCcccHhhHHHHHh-----cCCCCCCccCC
Q 026690 188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL-----GHASCPLCRRD 234 (235)
Q Consensus 188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~-----~~~sCPlCR~~ 234 (235)
..|||..+.++. .+|-.. |.|.-+-+ ++.||. ..-.||+|+++
T Consensus 3 L~CPls~~~i~~--P~Rg~~-C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRI--PVRGKN-CKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SS--EEEETT---SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEe--CccCCc-CcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 468998888764 445444 99984311 445664 22369999874
No 116
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=86.58 E-value=0.38 Score=43.60 Aligned_cols=26 Identities=31% Similarity=1.031 Sum_probs=21.1
Q ss_pred CCCcccHhhHHHHHh-------------cCCCCCCccCC
Q 026690 209 CHHMFHIPCIDKWLL-------------GHASCPLCRRD 234 (235)
Q Consensus 209 C~H~FH~~CI~~WL~-------------~~~sCPlCR~~ 234 (235)
|.-..|.+|+.+|+. ++.+||+||+.
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~ 363 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKN 363 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhc
Confidence 567889999999874 45589999975
No 117
>COG4803 Predicted membrane protein [Function unknown]
Probab=85.59 E-value=0.9 Score=37.40 Aligned_cols=37 Identities=30% Similarity=0.514 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHH---HHHHHHHHHHHHhhcccccccc
Q 026690 36 VIGNIFSAIFTFFFA---LVGTLLGAMTGALIGQETESGF 72 (235)
Q Consensus 36 ~~~~~~~~~~t~~fa---~~g~~~ga~~ga~~g~~~~~g~ 72 (235)
.+.+.+=|.|.+++- +.|..+||.+|||.|--++-|.
T Consensus 62 a~sGafWG~LiGllFl~Pl~G~avGAa~GAl~g~l~DvGI 101 (170)
T COG4803 62 AVSGAFWGMLIGLLFLNPLLGMAVGAASGALSGSLTDVGI 101 (170)
T ss_pred cccccHHHHHHHHHHHhHHHHHHHHHhhhhhccceeecCc
Confidence 333444444444322 3666666666666666655443
No 118
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=85.16 E-value=0.3 Score=48.12 Aligned_cols=41 Identities=27% Similarity=0.799 Sum_probs=27.9
Q ss_pred CccCccccc-----cccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCc
Q 026690 187 RVSCSVCLQ-----DFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLC 231 (235)
Q Consensus 187 ~~~C~ICle-----~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlC 231 (235)
...|.+|.. .|+ .+.++..-.|+++||..|... ++..||-|
T Consensus 511 gfiCe~Cq~~~iiyPF~-~~~~~rC~~C~avfH~~C~~r---~s~~CPrC 556 (580)
T KOG1829|consen 511 GFICELCQHNDIIYPFE-TRNTRRCSTCLAVFHKKCLRR---KSPCCPRC 556 (580)
T ss_pred eeeeeeccCCCcccccc-cccceeHHHHHHHHHHHHHhc---cCCCCCch
Confidence 457888843 233 233444445999999999875 56669999
No 119
>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=84.99 E-value=0.51 Score=27.29 Aligned_cols=23 Identities=35% Similarity=0.759 Sum_probs=17.0
Q ss_pred cCccccccccCCCceeecCCCCCcc
Q 026690 189 SCSVCLQDFQLGETARSLPHCHHMF 213 (235)
Q Consensus 189 ~C~ICle~f~~ge~v~~Lp~C~H~F 213 (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 5888888765 3456678899988
No 120
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=84.82 E-value=0.56 Score=47.46 Aligned_cols=23 Identities=30% Similarity=0.831 Sum_probs=21.3
Q ss_pred CCCCcccHhhHHHHHhcCCCCCC
Q 026690 208 HCHHMFHIPCIDKWLLGHASCPL 230 (235)
Q Consensus 208 ~C~H~FH~~CI~~WL~~~~sCPl 230 (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 39999999999999999999984
No 121
>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=84.80 E-value=0.74 Score=40.01 Aligned_cols=35 Identities=43% Similarity=0.693 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHhhcccccccchhhhhhh-hhHhhHHhh
Q 026690 52 VGTLLGAMTGALIGQETESGFVRGAAVG-AISGAVFSI 88 (235)
Q Consensus 52 ~g~~~ga~~ga~~g~~~~~g~~~ga~~g-ai~gav~s~ 88 (235)
.|++.||.+|+.+|-.+.+ -+|+.+| +++||+++.
T Consensus 88 gga~~Ga~~G~~~g~~~~~--~~g~~~G~GlaGalig~ 123 (215)
T PF05818_consen 88 GGALAGAATGAAIGAYNSG--SAGAAIGAGLAGALIGM 123 (215)
T ss_pred hhHHHHhHHhhhhccccCC--ccchhhhhhHHHhHHHH
Confidence 3556666666666644322 2355566 566655443
No 122
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=84.70 E-value=0.6 Score=39.98 Aligned_cols=40 Identities=40% Similarity=0.984 Sum_probs=30.0
Q ss_pred CccCcccccc-----ccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCcc
Q 026690 187 RVSCSVCLQD-----FQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCR 232 (235)
Q Consensus 187 ~~~C~ICle~-----f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR 232 (235)
...|-||-++ |+. +.+...++|+-+||..|..+ ..||-|.
T Consensus 152 GfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~~-----~~CpkC~ 196 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFRK-----KSCPKCA 196 (202)
T ss_pred CCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcCC-----CCCCCcH
Confidence 3578888753 333 45666778999999999882 6799994
No 123
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=84.52 E-value=0.83 Score=36.81 Aligned_cols=48 Identities=15% Similarity=0.361 Sum_probs=34.3
Q ss_pred CccCccccccccCCCceeecCCCCCcccHhhHHHHHh---cCCCCCCccCC
Q 026690 187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL---GHASCPLCRRD 234 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~---~~~sCPlCR~~ 234 (235)
--+|.||.|.-.+..-..--.-||-..|..|-..-++ .++.||+|+.+
T Consensus 80 lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTS 130 (140)
T PF05290_consen 80 LYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTS 130 (140)
T ss_pred ceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccc
Confidence 3589999988665443322224999999998665555 57889999975
No 124
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=83.48 E-value=0.33 Score=48.54 Aligned_cols=44 Identities=32% Similarity=0.810 Sum_probs=34.4
Q ss_pred CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCC---CCCCccCC
Q 026690 187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHA---SCPLCRRD 234 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~---sCPlCR~~ 234 (235)
..+|+||++.+... .+-+|.|.|+..|+..-+..++ .||+|+..
T Consensus 21 ~lEc~ic~~~~~~p----~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~ 67 (684)
T KOG4362|consen 21 ILECPICLEHVKEP----SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSD 67 (684)
T ss_pred hccCCceeEEeecc----chhhhhHHHHhhhhhceeeccCccccchhhhhh
Confidence 46899999998853 3345999999999887776544 69999853
No 125
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=83.44 E-value=0.85 Score=30.72 Aligned_cols=43 Identities=28% Similarity=0.551 Sum_probs=22.2
Q ss_pred CccccccccCC------CceeecCCCCCcccHhhHHHHHhcCCCCCCcc
Q 026690 190 CSVCLQDFQLG------ETARSLPHCHHMFHIPCIDKWLLGHASCPLCR 232 (235)
Q Consensus 190 C~ICle~f~~g------e~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR 232 (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 44566666654 24567888999999999443223445799884
No 126
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=82.34 E-value=0.78 Score=28.58 Aligned_cols=27 Identities=26% Similarity=0.798 Sum_probs=19.4
Q ss_pred ccCccccccccCCCc-------eeecCCCCCccc
Q 026690 188 VSCSVCLQDFQLGET-------ARSLPHCHHMFH 214 (235)
Q Consensus 188 ~~C~ICle~f~~ge~-------v~~Lp~C~H~FH 214 (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 468889888886543 345677999885
No 127
>COG4803 Predicted membrane protein [Function unknown]
Probab=81.90 E-value=0.3 Score=40.11 Aligned_cols=38 Identities=39% Similarity=0.581 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHhhccc---ccccchhhhhhhhhHhhHHhhh
Q 026690 52 VGTLLGAMTGALIGQE---TESGFVRGAAVGAISGAVFSIE 89 (235)
Q Consensus 52 ~g~~~ga~~ga~~g~~---~~~g~~~ga~~gai~gav~s~e 89 (235)
+|++-|++-|.++|+- -=-|+.-||+.||++|++.=+-
T Consensus 60 aGa~sGafWG~LiGllFl~Pl~G~avGAa~GAl~g~l~DvG 100 (170)
T COG4803 60 AGAVSGAFWGMLIGLLFLNPLLGMAVGAASGALSGSLTDVG 100 (170)
T ss_pred hccccccHHHHHHHHHHHhHHHHHHHHHhhhhhccceeecC
Confidence 3666677777777754 3346666788888888775443
No 128
>PRK11677 hypothetical protein; Provisional
Probab=81.30 E-value=1.2 Score=35.86 Aligned_cols=26 Identities=23% Similarity=0.456 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHHHhhcccccccc
Q 026690 47 FFFALVGTLLGAMTGALIGQETESGF 72 (235)
Q Consensus 47 ~~fa~~g~~~ga~~ga~~g~~~~~g~ 72 (235)
-++|++|.++|+|+|+++++.+..+.
T Consensus 3 W~~a~i~livG~iiG~~~~R~~~~~~ 28 (134)
T PRK11677 3 WEYALIGLVVGIIIGAVAMRFGNRKL 28 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHhhccchh
Confidence 35788999999999999999877665
No 129
>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 PRK15361 pathogenicity island 2 effector protein SseD; Provisional
Probab=78.61 E-value=2.1 Score=36.31 Aligned_cols=51 Identities=18% Similarity=0.314 Sum_probs=39.5
Q ss_pred hhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccc
Q 026690 22 FERVKEFCNFAVSAVIGNIFSAIFTFFFALVGTLLGAMTGALIGQETESGF 72 (235)
Q Consensus 22 ~~~~~~~~~~~~~~~~~~~~~~~~t~~fa~~g~~~ga~~ga~~g~~~~~g~ 72 (235)
.+-|...+..+...-++.+++|++|.-|+++|+..|...|-.+|+.+..++
T Consensus 79 reaIdka~~AAi~sav~~IlsGV~t~g~G~vGg~ag~~~g~gagh~~~g~~ 129 (195)
T PRK15361 79 MKTIDEAFRASMITAGGAMLSGVLTIGLGAVGGETGLIAGQAVGHTAGGVM 129 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHhcccccchHHHHHhhhhhhhhhhccc
Confidence 344555666777778888888888888888888888888888888887544
No 131
>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=78.50 E-value=0.76 Score=32.98 Aligned_cols=39 Identities=26% Similarity=0.551 Sum_probs=18.9
Q ss_pred ccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690 188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235 (235)
Q Consensus 188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 235 (235)
..||.|.++++... +|+++..|-.. +..+..||-|.++|
T Consensus 2 ~~CP~C~~~L~~~~--------~~~~C~~C~~~-~~~~a~CPdC~~~L 40 (70)
T PF07191_consen 2 NTCPKCQQELEWQG--------GHYHCEACQKD-YKKEAFCPDCGQPL 40 (70)
T ss_dssp -B-SSS-SBEEEET--------TEEEETTT--E-EEEEEE-TTT-SB-
T ss_pred CcCCCCCCccEEeC--------CEEECcccccc-ceecccCCCcccHH
Confidence 46999988876533 33334444332 24667788887764
No 132
>COG4980 GvpP Gas vesicle protein [General function prediction only]
Probab=78.42 E-value=1.3 Score=34.77 Aligned_cols=15 Identities=33% Similarity=0.618 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHhhcc
Q 026690 52 VGTLLGAMTGALIGQ 66 (235)
Q Consensus 52 ~g~~~ga~~ga~~g~ 66 (235)
.|+++|+++||.+++
T Consensus 9 ~G~liGgiiGa~aaL 23 (115)
T COG4980 9 FGILIGGIIGAAAAL 23 (115)
T ss_pred HHHHHHHHHHHHHHH
Confidence 355566666555554
No 133
>COG3133 SlyB Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]
Probab=77.54 E-value=0.42 Score=38.72 Aligned_cols=35 Identities=34% Similarity=0.601 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHhhcccccccchhhhhhhhhHhhHHh
Q 026690 51 LVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFS 87 (235)
Q Consensus 51 ~~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav~s 87 (235)
++|+.+|-|.|.-+|--+.+-+ -+.+|||||+|+.
T Consensus 65 igG~~lGG~~g~~iGgG~G~~~--At~~GAvAGgvaG 99 (154)
T COG3133 65 IGGAVLGGFLGNTIGGGTGRSL--ATAAGAVAGGVAG 99 (154)
T ss_pred eccccccceeeccccCCcchHH--HHHHhHhhhhhhh
Confidence 3444555555555554454444 5667888888754
No 134
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.27 E-value=1.1 Score=38.78 Aligned_cols=37 Identities=32% Similarity=0.767 Sum_probs=27.3
Q ss_pred CccccccccCCCceeecCCCCCc-ccHhhHHHHHhcCCCCCCccCC
Q 026690 190 CSVCLQDFQLGETARSLPHCHHM-FHIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 190 C~ICle~f~~ge~v~~Lp~C~H~-FH~~CI~~WL~~~~sCPlCR~~ 234 (235)
|-.|-+. +..|..+| |.|. +|..|=.. -..||+|+.+
T Consensus 161 Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~ 198 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLP-CRHLCLCGICDES----LRICPICRSP 198 (207)
T ss_pred ceecCcC---CceEEeec-ccceEeccccccc----CccCCCCcCh
Confidence 8888765 34589999 9864 66778654 4559999875
No 135
>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=77.27 E-value=1.4 Score=28.66 Aligned_cols=43 Identities=28% Similarity=0.543 Sum_probs=29.7
Q ss_pred CccccccccCCCceeecCCCCCcccHhhHHHHHh------cCCCCCCccC
Q 026690 190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL------GHASCPLCRR 233 (235)
Q Consensus 190 C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~------~~~sCPlCR~ 233 (235)
|.||.+.-.. +....-..|+..||..|+..=.. .+-.||.|+.
T Consensus 2 C~vC~~~~~~-~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 2 CPVCGQSDDD-GDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp BTTTTSSCTT-SSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred CcCCCCcCCC-CCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 8899994444 44444456999999999876543 2446888863
No 136
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=76.90 E-value=2.8 Score=32.81 Aligned_cols=46 Identities=20% Similarity=0.325 Sum_probs=35.7
Q ss_pred ccCccccccccCC----------CceeecCCCCCcccHhhHHHHHhcCCCCCCccC
Q 026690 188 VSCSVCLQDFQLG----------ETARSLPHCHHMFHIPCIDKWLLGHASCPLCRR 233 (235)
Q Consensus 188 ~~C~ICle~f~~g----------e~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~ 233 (235)
..|--|+..|... ......++|++.|+.+|=.-+-+.=.+||-|-.
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~~ 111 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCIH 111 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCCC
Confidence 4699999988643 223457789999999998887777778999963
No 137
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=76.78 E-value=2.2 Score=43.30 Aligned_cols=41 Identities=22% Similarity=0.468 Sum_probs=31.9
Q ss_pred ccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCC
Q 026690 188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPL 230 (235)
Q Consensus 188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPl 230 (235)
..|.+|-..+. |.. ...+.|+|.=|.+|+.+|+.++.-||.
T Consensus 780 ~~CtVC~~vi~-G~~-~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIR-GVD-VWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred cCceeecceee-eeE-eecccccccccHHHHHHHHhcCCCCcc
Confidence 47889866654 233 345669999999999999999888876
No 138
>PRK09430 djlA Dna-J like membrane chaperone protein; Provisional
Probab=76.56 E-value=2.6 Score=37.67 Aligned_cols=36 Identities=36% Similarity=0.653 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccchh
Q 026690 36 VIGNIFSAIFTFFFALVGTLLGAMTGALIGQETESGFVR 74 (235)
Q Consensus 36 ~~~~~~~~~~t~~fa~~g~~~ga~~ga~~g~~~~~g~~~ 74 (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 44566666655554 5588999999999987766544
No 139
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=76.25 E-value=1.8 Score=43.91 Aligned_cols=45 Identities=31% Similarity=0.597 Sum_probs=32.2
Q ss_pred CCccCcccccccc----CC-----CceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690 186 ERVSCSVCLQDFQ----LG-----ETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 186 e~~~C~ICle~f~----~g-----e~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 234 (235)
.+..|+-|...|- .| ......|.|+|--|..=|. +.+.||+|...
T Consensus 1130 ~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs----~y~~CPLCHs~ 1183 (1189)
T KOG2041|consen 1130 YDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEIS----KYNCCPLCHSM 1183 (1189)
T ss_pred cCCCChhhcCcCceeeccCCccccceEEEcccccccccccccc----ccccCccccCh
Confidence 4567888877765 12 2345678899999986664 57899999764
No 140
>PRK10457 hypothetical protein; Provisional
Probab=76.09 E-value=6.6 Score=28.92 Aligned_cols=47 Identities=26% Similarity=0.487 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcccccccchhhhhhhhhHhhHHhhhh
Q 026690 44 IFTFFFALVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFSIEV 90 (235)
Q Consensus 44 ~~t~~fa~~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav~s~e~ 90 (235)
+.|-+...+|+++|..++.+-|....+|+--+.-+.|+.||++-+=+
T Consensus 30 ~~tiilGiiGA~iGg~l~~~~g~~~~~g~~~~~~i~aviGAiill~i 76 (82)
T PRK10457 30 FMTIILGIVGAVVGGWISTFFGFGKVDGFNFGSFVVAVIGAIVVLFI 76 (82)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCccccccccHHHHHHHHHHHHHHHHH
Confidence 46777888899998888877776554555334667888888865543
No 141
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=75.97 E-value=1.6 Score=37.92 Aligned_cols=41 Identities=24% Similarity=0.599 Sum_probs=33.7
Q ss_pred ccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCc
Q 026690 188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLC 231 (235)
Q Consensus 188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlC 231 (235)
..|.+|.+-.-. .+....|+-.+|..|+..++.+...||-|
T Consensus 182 k~Cn~Ch~LvIq---g~rCg~c~i~~h~~c~qty~q~~~~cphc 222 (235)
T KOG4718|consen 182 KNCNLCHCLVIQ---GIRCGSCNIQYHRGCIQTYLQRRDICPHC 222 (235)
T ss_pred HHHhHhHHHhhe---eeccCcccchhhhHHHHHHhcccCcCCch
Confidence 579999887543 33344599999999999999999999999
No 142
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=75.66 E-value=1.1 Score=45.60 Aligned_cols=42 Identities=29% Similarity=0.606 Sum_probs=31.2
Q ss_pred ccCccccccccC-C---CceeecCCCCCcccHhhHHHHHhcCCCCCCc
Q 026690 188 VSCSVCLQDFQL-G---ETARSLPHCHHMFHIPCIDKWLLGHASCPLC 231 (235)
Q Consensus 188 ~~C~ICle~f~~-g---e~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlC 231 (235)
..|+-|.+.... + +.+..+. |+|+||..|+..-..+++ |-.|
T Consensus 785 ~rc~~c~~~~l~~~~~~~~~~v~~-c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 785 ERCSSCFEPNLPSGAAFDSVVVFH-CGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred hhhhhhcccccccCcccceeeEEE-ccchhhhcccccHHHhcc-cChh
Confidence 479999988653 2 3566777 999999999988776655 5444
No 143
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=75.60 E-value=1.8 Score=41.35 Aligned_cols=37 Identities=27% Similarity=0.618 Sum_probs=30.1
Q ss_pred CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhc
Q 026690 185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG 224 (235)
Q Consensus 185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~ 224 (235)
.....|-||.+.+.. ....++ |+|.|+..|....+.+
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~~-c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGLG-CGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcc--hhhhcC-CCcHHHHHHHHHHhhh
Confidence 345789999999875 455566 9999999999999973
No 144
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=75.11 E-value=1.6 Score=27.10 Aligned_cols=27 Identities=19% Similarity=0.720 Sum_probs=18.5
Q ss_pred ccCccccccccCCCc-------eeecCCCCCccc
Q 026690 188 VSCSVCLQDFQLGET-------ARSLPHCHHMFH 214 (235)
Q Consensus 188 ~~C~ICle~f~~ge~-------v~~Lp~C~H~FH 214 (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 468888888886543 234566888885
No 145
>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=73.98 E-value=4.8 Score=27.65 Aligned_cols=44 Identities=23% Similarity=0.526 Sum_probs=33.1
Q ss_pred ccCccccccccCCC-ceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690 188 VSCSVCLQDFQLGE-TARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 188 ~~C~ICle~f~~ge-~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 234 (235)
..|-.|-.++..+. ..++.. =..+|+.+|.+.-| ++.||.|.-+
T Consensus 6 pnCE~C~~dLp~~s~~A~ICS-fECTFC~~C~e~~l--~~~CPNCgGe 50 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYICS-FECTFCADCAETML--NGVCPNCGGE 50 (57)
T ss_pred CCccccCCCCCCCCCcceEEe-EeCcccHHHHHHHh--cCcCcCCCCc
Confidence 46888888888776 455422 23789999999876 8899999644
No 146
>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=73.62 E-value=9.7 Score=26.56 Aligned_cols=6 Identities=33% Similarity=0.158 Sum_probs=2.2
Q ss_pred HHHHHH
Q 026690 36 VIGNIF 41 (235)
Q Consensus 36 ~~~~~~ 41 (235)
++..++
T Consensus 29 ~~~~~~ 34 (65)
T PF10439_consen 29 VGGGAA 34 (65)
T ss_pred HHHHHH
Confidence 333333
No 147
>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=73.52 E-value=3.5 Score=31.21 Aligned_cols=34 Identities=24% Similarity=0.354 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHhhccccccc-chhhhhhhhhHhhH
Q 026690 52 VGTLLGAMTGALIGQETESG-FVRGAAVGAISGAV 85 (235)
Q Consensus 52 ~g~~~ga~~ga~~g~~~~~g-~~~ga~~gai~gav 85 (235)
+..++|++.|+++...+.++ +...+-.|++||+-
T Consensus 39 Is~viGilLG~~~~~~~~~~~l~~~~~aG~laGlA 73 (93)
T PF06946_consen 39 ISVVIGILLGAAAYPLTGDGNLALMAWAGGLAGLA 73 (93)
T ss_pred HHHHHHHHHHHHhhhcCCCccHHHHHHHHHHhhhh
Confidence 46677778888877777554 55556667777764
No 148
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=73.03 E-value=2.8 Score=38.61 Aligned_cols=46 Identities=28% Similarity=0.685 Sum_probs=36.3
Q ss_pred ccCccccccccCCC-ceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690 188 VSCSVCLQDFQLGE-TARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 188 ~~C~ICle~f~~ge-~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 234 (235)
..|+||.++....+ ...-.| |+|.-|..|...-...+.+||.||.+
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~-~~~~~~l~~~~t~~~~~~~~~~~rk~ 296 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCP-CGFRLCLFCHKTISDGDGRCPGCRKP 296 (327)
T ss_pred CCCCCCCCccccccccccccc-ccccchhhhhhcccccCCCCCccCCc
Confidence 58999999875444 333445 88888888988888899999999964
No 149
>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=72.38 E-value=1.4 Score=29.16 Aligned_cols=29 Identities=17% Similarity=0.356 Sum_probs=14.1
Q ss_pred ccCccccccccCCCceeecCCCCCcccHhhHH
Q 026690 188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCID 219 (235)
Q Consensus 188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~ 219 (235)
..|..|...+..++ ..... +..||..|..
T Consensus 27 f~C~~C~~~l~~~~-~~~~~--~~~~C~~c~~ 55 (58)
T PF00412_consen 27 FKCSKCGKPLNDGD-FYEKD--GKPYCKDCYQ 55 (58)
T ss_dssp SBETTTTCBTTTSS-EEEET--TEEEEHHHHH
T ss_pred cccCCCCCccCCCe-eEeEC--CEEECHHHHh
Confidence 35666666555444 22232 3555555543
No 150
>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=72.00 E-value=4.5 Score=35.72 Aligned_cols=19 Identities=47% Similarity=0.900 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHhhccccc
Q 026690 51 LVGTLLGAMTGALIGQETE 69 (235)
Q Consensus 51 ~~g~~~ga~~ga~~g~~~~ 69 (235)
.+|+++|+++|+++|....
T Consensus 60 ~~G~~~G~~~G~~~g~~~~ 78 (239)
T TIGR03789 60 PVGAIIGGITGGLIGQAVN 78 (239)
T ss_pred HHHHHHHHHHHHHhhhhcc
Confidence 3577777777777776533
No 151
>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=71.62 E-value=4.5 Score=30.33 Aligned_cols=36 Identities=25% Similarity=0.540 Sum_probs=30.3
Q ss_pred CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690 187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v 235 (235)
...|+-|.+.+.- .-..| |-.|+..++.|..|++++
T Consensus 33 rS~C~~C~~~L~~---~~lIP----------i~S~l~lrGrCr~C~~~I 68 (92)
T PF06750_consen 33 RSHCPHCGHPLSW---WDLIP----------ILSYLLLRGRCRYCGAPI 68 (92)
T ss_pred CCcCcCCCCcCcc---cccch----------HHHHHHhCCCCcccCCCC
Confidence 4689999998875 44577 899999999999999875
No 152
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=68.79 E-value=2.7 Score=33.36 Aligned_cols=24 Identities=38% Similarity=0.693 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHhhcccccccc
Q 026690 49 FALVGTLLGAMTGALIGQETESGF 72 (235)
Q Consensus 49 fa~~g~~~ga~~ga~~g~~~~~g~ 72 (235)
+|++|.++|.|+|+++++.+..+.
T Consensus 1 y~~i~lvvG~iiG~~~~r~~~~~~ 24 (128)
T PF06295_consen 1 YAIIGLVVGLIIGFLIGRLTSSNQ 24 (128)
T ss_pred ChHHHHHHHHHHHHHHHHHhccch
Confidence 378899999999999998877764
No 153
>COG4980 GvpP Gas vesicle protein [General function prediction only]
Probab=68.74 E-value=2.8 Score=32.93 Aligned_cols=27 Identities=26% Similarity=0.367 Sum_probs=21.9
Q ss_pred ccccchhhhhhhhhHhhHHhhhhhcch
Q 026690 68 TESGFVRGAAVGAISGAVFSIEVFESS 94 (235)
Q Consensus 68 ~~~g~~~ga~~gai~gav~s~e~~~s~ 94 (235)
+...||-|+.+|+|.||++++-....+
T Consensus 3 ~~~~~l~G~liGgiiGa~aaLL~AP~s 29 (115)
T COG4980 3 KGKDFLFGILIGGIIGAAAALLFAPKS 29 (115)
T ss_pred ccchHHHHHHHHHHHHHHHHHHhCCcc
Confidence 345789999999999999998766554
No 154
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=67.97 E-value=5 Score=37.05 Aligned_cols=46 Identities=20% Similarity=0.408 Sum_probs=33.5
Q ss_pred CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccC
Q 026690 187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRR 233 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~ 233 (235)
...|-.|..+.+.....+.- .|+|+||.+|=.---..=..||-|.+
T Consensus 330 ~~~Cf~C~~~~~~~~~y~C~-~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 330 SRFCFACQGELLSSGRYRCE-SCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred CcceeeeccccCCCCcEEch-hccceeeccchHHHHhhhhcCCCcCC
Confidence 34699998887766666654 49999999995543334457999964
No 155
>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=67.89 E-value=2.5 Score=29.36 Aligned_cols=37 Identities=19% Similarity=0.475 Sum_probs=20.5
Q ss_pred CCccCccccccccCCCceeecCCCCCcccHhhHHHHH
Q 026690 186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWL 222 (235)
Q Consensus 186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL 222 (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 3468999999998655555566799999999987554
No 156
>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=67.35 E-value=3.2 Score=29.55 Aligned_cols=16 Identities=56% Similarity=1.036 Sum_probs=10.6
Q ss_pred cchhhhhhhhhHhhHH
Q 026690 71 GFVRGAAVGAISGAVF 86 (235)
Q Consensus 71 g~~~ga~~gai~gav~ 86 (235)
||+=|+.+||++|-++
T Consensus 4 g~l~Ga~~Ga~~glL~ 19 (74)
T PF12732_consen 4 GFLAGAAAGAAAGLLF 19 (74)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 4555666777777774
No 157
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=67.22 E-value=3 Score=39.25 Aligned_cols=44 Identities=25% Similarity=0.547 Sum_probs=33.2
Q ss_pred CccCccccccccCCC--ceeecCCCCCcccHhhHHHHHhcCCCCCCc
Q 026690 187 RVSCSVCLQDFQLGE--TARSLPHCHHMFHIPCIDKWLLGHASCPLC 231 (235)
Q Consensus 187 ~~~C~ICle~f~~ge--~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlC 231 (235)
...|+.|.--++..+ ...... |+|.|++.|...|...+..|..|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCc
Confidence 457999988766444 334455 99999999999998877777544
No 158
>COG3134 Predicted outer membrane lipoprotein [Function unknown]
Probab=64.12 E-value=4.5 Score=33.28 Aligned_cols=42 Identities=29% Similarity=0.533 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHhhcccccccchh--hhhhhhhHhhHHhhhhhc
Q 026690 51 LVGTLLGAMTGALIGQETESGFVR--GAAVGAISGAVFSIEVFE 92 (235)
Q Consensus 51 ~~g~~~ga~~ga~~g~~~~~g~~~--ga~~gai~gav~s~e~~~ 92 (235)
++|+.+||++|.+.|.--.-|==+ -..-||++|....=||-+
T Consensus 71 iaGt~iGAv~GGl~G~Q~GgG~Gk~~aTvAGAv~GGyaGN~Vq~ 114 (179)
T COG3134 71 IAGSVLGAVAGGVIGHQFGGGRGKDVATVAGALGGGYAGNQVQG 114 (179)
T ss_pred chhhhhHHHhhhhccccccCCCcchhhhhhhhhcccccchhhhh
Confidence 479999999999999764333211 123355555544444433
No 159
>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=63.80 E-value=5.9 Score=26.23 Aligned_cols=36 Identities=22% Similarity=0.473 Sum_probs=28.4
Q ss_pred ccCccccccccCCCceeecCCCCCcccHhhHHHHHh
Q 026690 188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL 223 (235)
Q Consensus 188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~ 223 (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 479999999887555555567999999999887654
No 160
>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=63.22 E-value=10 Score=29.20 Aligned_cols=45 Identities=22% Similarity=0.392 Sum_probs=29.7
Q ss_pred ccCccccccccCCCcee-----ecCCC---CCcccHhhHHHHHhc---------CCCCCCccC
Q 026690 188 VSCSVCLQDFQLGETAR-----SLPHC---HHMFHIPCIDKWLLG---------HASCPLCRR 233 (235)
Q Consensus 188 ~~C~ICle~f~~ge~v~-----~Lp~C---~H~FH~~CI~~WL~~---------~~sCPlCR~ 233 (235)
..|-.|.+.-.. ..+. ..+.| .=.|+..||..+... +-.||.||.
T Consensus 8 ~~CHqCrqKt~~-~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 8 KTCHQCRQKTLD-FKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred CCchhhcCCCCC-CceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 578888885332 1121 22457 778999999988742 346999984
No 161
>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=62.68 E-value=14 Score=37.87 Aligned_cols=33 Identities=18% Similarity=0.466 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHHH-----HHHHHHHHHHHhhccccc
Q 026690 37 IGNIFSAIFTFFFAL-----VGTLLGAMTGALIGQETE 69 (235)
Q Consensus 37 ~~~~~~~~~t~~fa~-----~g~~~ga~~ga~~g~~~~ 69 (235)
+.++++.++..+||. +|+.+|+++|.+.|+++-
T Consensus 177 l~~il~~~~vl~~a~~gG~~~Gaa~Gv~~Gli~~l~~~ 214 (764)
T TIGR02865 177 LENIIARLAVLLISYIGGSGAGAAGGVVIGVILGLANN 214 (764)
T ss_pred HHHHHHHHHHHHHHHhcCchHhHHHHHHHHHHHHhcCc
Confidence 345667777777775 677888888888887744
No 162
>PRK05978 hypothetical protein; Provisional
Probab=62.06 E-value=4.2 Score=33.38 Aligned_cols=24 Identities=29% Similarity=0.744 Sum_probs=18.2
Q ss_pred cCCCC--CcccHhhHHHHHhcCCCCCCccCC
Q 026690 206 LPHCH--HMFHIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 206 Lp~C~--H~FH~~CI~~WL~~~~sCPlCR~~ 234 (235)
.|+|+ |.|+ .+|+.+.+||.|-.+
T Consensus 36 CP~CG~G~LF~-----g~Lkv~~~C~~CG~~ 61 (148)
T PRK05978 36 CPACGEGKLFR-----AFLKPVDHCAACGED 61 (148)
T ss_pred CCCCCCCcccc-----cccccCCCccccCCc
Confidence 44454 7775 788899999999764
No 163
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=61.86 E-value=2.1 Score=38.83 Aligned_cols=37 Identities=24% Similarity=0.769 Sum_probs=29.5
Q ss_pred ccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690 188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 234 (235)
..|+-|.+.+-..+-||+-. .|+||..|.. |-+|++.
T Consensus 93 TKCsaC~~GIpPtqVVRkAq--d~VYHl~CF~--------C~iC~R~ 129 (383)
T KOG4577|consen 93 TKCSACQEGIPPTQVVRKAQ--DFVYHLHCFA--------CFICKRQ 129 (383)
T ss_pred CcchhhcCCCChHHHHHHhh--cceeehhhhh--------hHhhhcc
Confidence 57999999988877788765 8999999987 6666553
No 164
>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 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=61.13 E-value=8.2 Score=31.84 Aligned_cols=35 Identities=34% Similarity=0.619 Sum_probs=20.8
Q ss_pred HHHH-HHHHHHhhccc-----ccccchhhhhhhhhHhhHHh
Q 026690 53 GTLL-GAMTGALIGQE-----TESGFVRGAAVGAISGAVFS 87 (235)
Q Consensus 53 g~~~-ga~~ga~~g~~-----~~~g~~~ga~~gai~gav~s 87 (235)
|+++ |+++-++.... .-..+.+++..|+++|++++
T Consensus 42 Gsl~~~Pi~~~~~~~~~~~~~~~~~~~~~~~~G~l~G~~~g 82 (155)
T PF08560_consen 42 GSLIVGPIYRLLKQPRLNPKELTNRFVKGGRNGALAGAVLG 82 (155)
T ss_pred HHHHhHHHHHHHhCccccHHHHHHHHHHHHHHhHHHHHHHH
Confidence 5566 77776666654 33455566666666666543
No 166
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=60.13 E-value=6.5 Score=35.01 Aligned_cols=34 Identities=24% Similarity=0.267 Sum_probs=28.5
Q ss_pred CCccCccccccccCCCceeecCCCCCcccHhhHHHHHh
Q 026690 186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL 223 (235)
Q Consensus 186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~ 223 (235)
+-..|+.||+.+.. +.+.| =||+|+.+||.+++.
T Consensus 42 ~FdcCsLtLqPc~d---Pvit~-~GylfdrEaILe~il 75 (303)
T KOG3039|consen 42 PFDCCSLTLQPCRD---PVITP-DGYLFDREAILEYIL 75 (303)
T ss_pred CcceeeeecccccC---CccCC-CCeeeeHHHHHHHHH
Confidence 34689999999986 66677 799999999999875
No 167
>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=59.72 E-value=7.8 Score=22.64 Aligned_cols=29 Identities=17% Similarity=0.372 Sum_probs=11.1
Q ss_pred cCccccccccCCCceeecCCCCCcccHhhH
Q 026690 189 SCSVCLQDFQLGETARSLPHCHHMFHIPCI 218 (235)
Q Consensus 189 ~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI 218 (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 58899888775 344445559999999995
No 168
>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=59.70 E-value=2.6 Score=28.16 Aligned_cols=11 Identities=55% Similarity=1.295 Sum_probs=5.4
Q ss_pred CCCCCCccCCC
Q 026690 225 HASCPLCRRDL 235 (235)
Q Consensus 225 ~~sCPlCR~~v 235 (235)
+..||+|.+++
T Consensus 20 ~~~CPlC~r~l 30 (54)
T PF04423_consen 20 KGCCPLCGRPL 30 (54)
T ss_dssp SEE-TTT--EE
T ss_pred CCcCCCCCCCC
Confidence 33899998764
No 169
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=58.51 E-value=7.2 Score=35.40 Aligned_cols=41 Identities=15% Similarity=0.373 Sum_probs=30.8
Q ss_pred CCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCC
Q 026690 186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHA 226 (235)
Q Consensus 186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~ 226 (235)
....|.+|.|.+++..-|..-..=.|.||-.|-.+-++++.
T Consensus 267 apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Qg 307 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQG 307 (352)
T ss_pred CceeehhhhhhhccCceeecCCCcccceecccCHHHHHhhc
Confidence 34689999999987555543223369999999999998654
No 170
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=58.43 E-value=7.1 Score=35.98 Aligned_cols=45 Identities=18% Similarity=0.317 Sum_probs=36.0
Q ss_pred CccCccccccccCCCceeecCCCCCcccHhhHHHHHhc---CCCCCCcc
Q 026690 187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG---HASCPLCR 232 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~---~~sCPlCR 232 (235)
-..||+=.+.-.....+..|. |||+.-.+-++..-+. .-.||.|-
T Consensus 336 ~FiCPVlKe~~t~ENpP~ml~-CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 336 LFICPVLKELCTDENPPVMLE-CGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred eeeccccHhhhcccCCCeeee-ccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 468999999988888888888 9999999988876442 23599993
No 171
>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=58.31 E-value=6.3 Score=35.80 Aligned_cols=12 Identities=50% Similarity=0.944 Sum_probs=8.0
Q ss_pred hhhhhhhhHhhH
Q 026690 74 RGAAVGAISGAV 85 (235)
Q Consensus 74 ~ga~~gai~gav 85 (235)
-||.+||+.|++
T Consensus 173 ~gaaiGal~Gg~ 184 (292)
T PF11981_consen 173 AGAAIGALAGGA 184 (292)
T ss_pred HHHHHHHHHHHH
Confidence 366667777766
No 172
>COG4171 SapC ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]
Probab=57.94 E-value=17 Score=32.13 Aligned_cols=60 Identities=23% Similarity=0.347 Sum_probs=41.3
Q ss_pred hhhhhhhHHHHHHHHH---HHH--HHHHHHHHHHHHHHHHHHhhcccccccchhhhhhhhhHhhHHhhhhhc
Q 026690 26 KEFCNFAVSAVIGNIF---SAI--FTFFFALVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFSIEVFE 92 (235)
Q Consensus 26 ~~~~~~~~~~~~~~~~---~~~--~t~~fa~~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav~s~e~~~ 92 (235)
.|-+++.++|++.+.. .++ .|+.-++.|.++|+++|+..| +|.+-+|=|=-+++|+.-+=
T Consensus 81 DDlGRDvlSRli~Gt~~t~G~allvt~~a~l~g~~lGi~AG~t~g-------l~s~~lnHilDt~lSiPsLL 145 (296)
T COG4171 81 DDLGRDVLSRLISGTAPTVGGALLVTLAATICGGVLGIFAGATHG-------LRSAVLNHILDTLLSIPSLL 145 (296)
T ss_pred ccchHHHHHHHHccCccccchHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHhhHHHH
Confidence 4567888999887743 222 344455678888888888777 45667777777887776443
No 173
>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=56.40 E-value=2.2 Score=40.20 Aligned_cols=44 Identities=30% Similarity=0.642 Sum_probs=0.0
Q ss_pred CCccCccccccccCC----------Cc-eeecCCCCCcccHhhHHHHHh------cCCCCCCccC
Q 026690 186 ERVSCSVCLQDFQLG----------ET-ARSLPHCHHMFHIPCIDKWLL------GHASCPLCRR 233 (235)
Q Consensus 186 e~~~C~ICle~f~~g----------e~-v~~Lp~C~H~FH~~CI~~WL~------~~~sCPlCR~ 233 (235)
....||+=|..+.-. .. -..+ +|||++- ...|-. +..+||+||.
T Consensus 276 ~rpQCPVglnTL~fp~~~~~~~~~~~qP~VYl-~CGHVhG---~h~Wg~~~~~~~~~r~CPlCr~ 336 (416)
T PF04710_consen 276 GRPQCPVGLNTLVFPSKSRKDVPDERQPWVYL-NCGHVHG---YHNWGQDSDRDPRSRTCPLCRQ 336 (416)
T ss_dssp -----------------------------------------------------------------
T ss_pred cCCCCCcCCCccccccccccccccccCceeec-cccceee---ecccccccccccccccCCCccc
Confidence 346788887655421 11 2334 4999887 457754 2457999996
No 174
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=56.09 E-value=6.6 Score=31.67 Aligned_cols=23 Identities=22% Similarity=0.618 Sum_probs=18.1
Q ss_pred eecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690 204 RSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 204 ~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 234 (235)
.+.++|||+|+. -+..||.|+.+
T Consensus 30 ~kC~~CG~v~~P--------Pr~~Cp~C~~~ 52 (140)
T COG1545 30 TKCKKCGRVYFP--------PRAYCPKCGSE 52 (140)
T ss_pred EEcCCCCeEEcC--------CcccCCCCCCC
Confidence 456779999997 56779999764
No 175
>PRK11280 hypothetical protein; Provisional
Probab=55.94 E-value=11 Score=31.66 Aligned_cols=22 Identities=27% Similarity=0.250 Sum_probs=12.6
Q ss_pred cchhhhhhhhhHhhHHhhhhhc
Q 026690 71 GFVRGAAVGAISGAVFSIEVFE 92 (235)
Q Consensus 71 g~~~ga~~gai~gav~s~e~~~ 92 (235)
+-+=||..|+++|.-+.=.+-+
T Consensus 91 at~~Ga~~G~~~G~~i~~~~~~ 112 (170)
T PRK11280 91 ATVAGALGGGYAGNQIQGGMQE 112 (170)
T ss_pred HHHHHHHHHHHHHHHHHHHhhc
Confidence 3344666667776666644433
No 176
>COG5336 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=54.82 E-value=11 Score=29.33 Aligned_cols=34 Identities=26% Similarity=0.337 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHhhccc---ccccchhhhhhhhhHhhH
Q 026690 52 VGTLLGAMTGALIGQE---TESGFVRGAAVGAISGAV 85 (235)
Q Consensus 52 ~g~~~ga~~ga~~g~~---~~~g~~~ga~~gai~gav 85 (235)
+|+|||+++|-+.-+. +-=|++=...+|.+||..
T Consensus 54 sGilVGa~iG~llD~~agTsPwglIv~lllGf~AG~l 90 (116)
T COG5336 54 SGILVGAGIGWLLDKFAGTSPWGLIVFLLLGFGAGVL 90 (116)
T ss_pred HHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHH
Confidence 5777777777776554 445788888888888865
No 177
>COG4239 ABC-type uncharacterized transport system, permease component [General function prediction only]
Probab=54.55 E-value=40 Score=30.75 Aligned_cols=42 Identities=24% Similarity=0.405 Sum_probs=29.6
Q ss_pred hhhhhhhHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHhhccc
Q 026690 26 KEFCNFAVSAVIGNI-FSAIFTFFFALVGTLLGAMTGALIGQE 67 (235)
Q Consensus 26 ~~~~~~~~~~~~~~~-~~~~~t~~fa~~g~~~ga~~ga~~g~~ 67 (235)
.+-.++.+.|++-+. +|-++....++.++++|..+||+.|+.
T Consensus 126 DdqgRDV~ARliygfRiSvLfgL~lT~~SaliGv~~GA~qGyf 168 (341)
T COG4239 126 DDQGRDVLARLIYGFRISVLFGLSLTLISALIGVLAGALQGYF 168 (341)
T ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 445677788876653 555555567777888888888888775
No 178
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=54.18 E-value=5.1 Score=34.00 Aligned_cols=16 Identities=31% Similarity=0.829 Sum_probs=13.3
Q ss_pred CCCccCccccccccCC
Q 026690 185 GERVSCSVCLQDFQLG 200 (235)
Q Consensus 185 ~e~~~C~ICle~f~~g 200 (235)
.+...|+||++.|...
T Consensus 11 ~~~~~C~iC~~~~~~p 26 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP 26 (386)
T ss_pred cccccChhhHHHhhcC
Confidence 4567999999999974
No 179
>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=54.12 E-value=1.7 Score=29.00 Aligned_cols=12 Identities=25% Similarity=0.780 Sum_probs=8.4
Q ss_pred CccCcccccccc
Q 026690 187 RVSCSVCLQDFQ 198 (235)
Q Consensus 187 ~~~C~ICle~f~ 198 (235)
...||.|-+++.
T Consensus 2 ~f~CP~C~~~~~ 13 (54)
T PF05605_consen 2 SFTCPYCGKGFS 13 (54)
T ss_pred CcCCCCCCCccC
Confidence 357888888655
No 180
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=53.41 E-value=6 Score=40.01 Aligned_cols=36 Identities=28% Similarity=0.661 Sum_probs=28.0
Q ss_pred CCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690 199 LGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 199 ~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 234 (235)
++-.+...|.|..+||.+=.+--..+++.||.||.+
T Consensus 1040 Pd~~it~Cp~C~~~F~~eDFEl~vLqKGHCPFCrTS 1075 (1081)
T KOG1538|consen 1040 PDASITMCPSCFQMFHSEDFELLVLQKGHCPFCRTS 1075 (1081)
T ss_pred CcchhhhCchHHhhhccchhhHHHHhcCCCCccccc
Confidence 333456677788888888777777799999999974
No 181
>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=53.11 E-value=16 Score=32.89 Aligned_cols=9 Identities=33% Similarity=0.290 Sum_probs=4.4
Q ss_pred HHHHHHHHH
Q 026690 33 VSAVIGNIF 41 (235)
Q Consensus 33 ~~~~~~~~~ 41 (235)
+..+++++.
T Consensus 58 ~~kIf~wi~ 66 (306)
T PF04888_consen 58 FSKIFGWIG 66 (306)
T ss_pred HHHHHHHHH
Confidence 455555543
No 182
>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=52.43 E-value=9.5 Score=33.18 Aligned_cols=36 Identities=36% Similarity=0.503 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHhhcccccc--c-chhhhhhhhhHhhH
Q 026690 50 ALVGTLLGAMTGALIGQETES--G-FVRGAAVGAISGAV 85 (235)
Q Consensus 50 a~~g~~~ga~~ga~~g~~~~~--g-~~~ga~~gai~gav 85 (235)
|++|+.+|+.+|+.-+-.+.. | -+-|+.+|.++|+.
T Consensus 90 a~~Ga~~G~~~g~~~~~~~g~~~G~GlaGalig~~ada~ 128 (215)
T PF05818_consen 90 ALAGAATGAAIGAYNSGSAGAAIGAGLAGALIGMIADAM 128 (215)
T ss_pred HHHHhHHhhhhccccCCccchhhhhhHHHhHHHHHHhhh
Confidence 556667777776554333221 2 24457777788765
No 183
>PF14019 DUF4235: Protein of unknown function (DUF4235)
Probab=52.22 E-value=17 Score=26.38 Aligned_cols=21 Identities=38% Similarity=0.602 Sum_probs=13.9
Q ss_pred ccccchhhhhhhhhHhhHHhh
Q 026690 68 TESGFVRGAAVGAISGAVFSI 88 (235)
Q Consensus 68 ~~~g~~~ga~~gai~gav~s~ 88 (235)
.+.++..-..-.|++|+++++
T Consensus 39 ~~~~~~e~l~~Aaisgav~av 59 (78)
T PF14019_consen 39 PDRSLREALAFAAISGAVFAV 59 (78)
T ss_pred ccccHHHHHHHHHHHHHHHHH
Confidence 344666666677777777665
No 184
>COG3133 SlyB Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]
Probab=52.09 E-value=6.3 Score=32.05 Aligned_cols=22 Identities=32% Similarity=0.519 Sum_probs=18.8
Q ss_pred HHHHHHHHHHhhcccccccchh
Q 026690 53 GTLLGAMTGALIGQETESGFVR 74 (235)
Q Consensus 53 g~~~ga~~ga~~g~~~~~g~~~ 74 (235)
-+.+|||.|+++|+..|..+-|
T Consensus 87 At~~GAvAGgvaG~~ie~~~n~ 108 (154)
T COG3133 87 ATAAGAVAGGVAGQGIEEAMNK 108 (154)
T ss_pred HHHHhHhhhhhhhhhhHhhhcc
Confidence 3678999999999999988866
No 185
>PF04306 DUF456: Protein of unknown function (DUF456); InterPro: IPR007403 This is a family of putative membrane proteins.
Probab=51.72 E-value=36 Score=27.38 Aligned_cols=14 Identities=36% Similarity=0.959 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHhhc
Q 026690 52 VGTLLGAMTGALIG 65 (235)
Q Consensus 52 ~g~~~ga~~ga~~g 65 (235)
.|.++|++.|++.+
T Consensus 82 ~G~iiG~~~Ga~l~ 95 (140)
T PF04306_consen 82 LGLIIGPFLGAFLG 95 (140)
T ss_pred HHHHHHHHHHHHHH
Confidence 36666666665544
No 186
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=51.31 E-value=18 Score=26.48 Aligned_cols=47 Identities=28% Similarity=0.603 Sum_probs=20.5
Q ss_pred ccCccccccccC---CCceeecCCCCCcccHhhHHHHHh-cCCCCCCccCC
Q 026690 188 VSCSVCLQDFQL---GETARSLPHCHHMFHIPCIDKWLL-GHASCPLCRRD 234 (235)
Q Consensus 188 ~~C~ICle~f~~---ge~v~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~~ 234 (235)
..|-||-++... |+.......|+--.+..|.+-=.+ .+..||-|+.+
T Consensus 10 qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ 60 (80)
T PF14569_consen 10 QICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTR 60 (80)
T ss_dssp -B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B
T ss_pred cccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCC
Confidence 579999999763 343444445888899999885444 56789999864
No 187
>PF05461 ApoL: Apolipoprotein L; InterPro: IPR008405 Apo L belongs to the high density lipoprotein family that plays a central role in cholesterol transport. The cholesterol content of membranes is important in cellular processes such as modulating gene transcription and signal transduction both in the adult brain and during neurodevelopment. There are six apo L genes located in close proximity to each other on chromosome 22q12 in humans. 22q12 is a confirmed high-susceptibility locus for schizophrenia and close to the region associated with velocardiofacial syndrome that includes symptoms of schizophrenia []. The various functions of apoL are still not entirely clear. Apolipoprotein L-I has been identified as a trypanolytic agent [] and displays similar phylogenetic distribution to the programmed cell death protein Bcl-2 and BH-3 domain-containing proteins, suggesting a possible role in apoptosis [].; GO: 0008289 lipid binding, 0006869 lipid transport, 0042157 lipoprotein metabolic process, 0005576 extracellular region
Probab=51.22 E-value=15 Score=33.65 Aligned_cols=38 Identities=18% Similarity=0.259 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccc
Q 026690 33 VSAVIGNIFSAIFTFFFALVGTLLGAMTGALIGQETESG 71 (235)
Q Consensus 33 ~~~~~~~~~~~~~t~~fa~~g~~~ga~~ga~~g~~~~~g 71 (235)
.++++++..+ +..++.+++|-.+.|+|++..=.-+..|
T Consensus 97 isnvv~ss~g-~vsGilsIlGLaLAPvT~G~SL~LsaaG 134 (313)
T PF05461_consen 97 ISNVVGSSTG-AVSGILSILGLALAPVTAGGSLALSAAG 134 (313)
T ss_pred HHHHHhhhHH-HHhhHHHHHhHHhccccccchHHHHHhh
Confidence 6777777665 3466777778888888877654444443
No 188
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=51.13 E-value=12 Score=25.03 Aligned_cols=25 Identities=24% Similarity=0.713 Sum_probs=14.0
Q ss_pred cCCCCCcccHhhHHHHHhcCCCCCCc
Q 026690 206 LPHCHHMFHIPCIDKWLLGHASCPLC 231 (235)
Q Consensus 206 Lp~C~H~FH~~CI~~WL~~~~sCPlC 231 (235)
.+.|+|.|... |..-......||.|
T Consensus 31 C~~Cgh~w~~~-v~~R~~~~~~CP~C 55 (55)
T PF14311_consen 31 CPKCGHEWKAS-VNDRTRRGKGCPYC 55 (55)
T ss_pred CCCCCCeeEcc-HhhhccCCCCCCCC
Confidence 44566666543 22222466789988
No 189
>PLN02189 cellulose synthase
Probab=50.81 E-value=13 Score=39.20 Aligned_cols=47 Identities=21% Similarity=0.523 Sum_probs=34.6
Q ss_pred ccCcccccccc---CCCceeecCCCCCcccHhhHHHHH-hcCCCCCCccCC
Q 026690 188 VSCSVCLQDFQ---LGETARSLPHCHHMFHIPCIDKWL-LGHASCPLCRRD 234 (235)
Q Consensus 188 ~~C~ICle~f~---~ge~v~~Lp~C~H~FH~~CI~~WL-~~~~sCPlCR~~ 234 (235)
..|.||-++.. .|+.......|+--.|..|.+-=- ..+++||-||..
T Consensus 35 ~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~ 85 (1040)
T PLN02189 35 QVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTR 85 (1040)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCc
Confidence 47999999976 445555566688889999995322 256789999864
No 190
>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=50.62 E-value=10 Score=29.51 Aligned_cols=45 Identities=20% Similarity=0.414 Sum_probs=27.8
Q ss_pred CccCccccccccCC-CceeecCCCCCcccHhhHHHHHhcCC--CCCCcc
Q 026690 187 RVSCSVCLQDFQLG-ETARSLPHCHHMFHIPCIDKWLLGHA--SCPLCR 232 (235)
Q Consensus 187 ~~~C~ICle~f~~g-e~v~~Lp~C~H~FH~~CI~~WL~~~~--sCPlCR 232 (235)
+..|.+|...|.-- ..-...+.|+|.+|..|-.. ..+.. -|.+|.
T Consensus 54 ~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~ 101 (118)
T PF02318_consen 54 ERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQ 101 (118)
T ss_dssp CSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHH
T ss_pred CcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhH
Confidence 46899999987532 23355667999999999654 11111 377774
No 191
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=50.45 E-value=14 Score=33.11 Aligned_cols=46 Identities=17% Similarity=0.317 Sum_probs=35.3
Q ss_pred CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690 187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 234 (235)
...|||=--++...-....+-.|||+|-..-+.+- +..+|++|...
T Consensus 111 ~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~ 156 (293)
T KOG3113|consen 111 RFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAA 156 (293)
T ss_pred eeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCc
Confidence 35799988887765555566669999998887774 57789999764
No 192
>KOG4608 consensus Uncharacterized conserved protein [Function unknown]
Probab=50.13 E-value=2.4 Score=37.44 Aligned_cols=36 Identities=22% Similarity=0.397 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHhhcccccccchhhhhhhhhHhhHHhhh
Q 026690 51 LVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFSIE 89 (235)
Q Consensus 51 ~~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav~s~e 89 (235)
.+|+++|++.+..+|+ .|+.+|-.+|++.|+.++.-
T Consensus 166 aaga~tgsvF~~~~gL---~g~aa~vilG~~lG~tv~~~ 201 (270)
T KOG4608|consen 166 AAGAVTGSVFRINVGL---RGLAAGVILGALLGTTVGGL 201 (270)
T ss_pred ccccceeeeEEeehhh---HHHhhcceeehhhcchHHHH
Confidence 4888888888888884 45566666666666665443
No 193
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=49.37 E-value=5.2 Score=26.79 Aligned_cols=22 Identities=27% Similarity=0.670 Sum_probs=17.1
Q ss_pred CCceeecCCCCCcccHhhHHHH
Q 026690 200 GETARSLPHCHHMFHIPCIDKW 221 (235)
Q Consensus 200 ge~v~~Lp~C~H~FH~~CI~~W 221 (235)
+......|.|+|.|+..|-.+|
T Consensus 37 ~~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 37 GCNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CCCeeECCCCCCeECCCCCCcC
Confidence 3445566679999999999888
No 194
>PF11240 DUF3042: Protein of unknown function (DUF3042); InterPro: IPR021402 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=48.41 E-value=19 Score=24.53 Aligned_cols=21 Identities=19% Similarity=0.137 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 026690 40 IFSAIFTFFFALVGTLLGAMT 60 (235)
Q Consensus 40 ~~~~~~t~~fa~~g~~~ga~~ 60 (235)
...|.++++++.++++.|++.
T Consensus 4 F~~G~l~G~~~t~aa~a~av~ 24 (54)
T PF11240_consen 4 FGKGFLTGVAATLAAIAGAVF 24 (54)
T ss_pred hhhhHHHhHHHHHHHHHHHHH
Confidence 445666666666655555543
No 195
>PRK13731 conjugal transfer surface exclusion protein TraT; Provisional
Probab=48.24 E-value=15 Score=32.53 Aligned_cols=12 Identities=50% Similarity=0.650 Sum_probs=6.6
Q ss_pred HHHHHHHHHHhh
Q 026690 53 GTLLGAMTGALI 64 (235)
Q Consensus 53 g~~~ga~~ga~~ 64 (235)
|++.||.+|+-+
T Consensus 119 ga~~Gaa~G~~~ 130 (243)
T PRK13731 119 GAAVGAALGAGI 130 (243)
T ss_pred hHHHHHHhhhhh
Confidence 555555555544
No 196
>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=48.07 E-value=18 Score=23.72 Aligned_cols=37 Identities=24% Similarity=0.453 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHhhcccccccchhhhhhhhhHhhHHhh
Q 026690 50 ALVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFSI 88 (235)
Q Consensus 50 a~~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav~s~ 88 (235)
.++|+++|......-|. +. ++.=+.-+.|+-||+.-+
T Consensus 4 GiiGa~vGg~l~~~lg~-~~-~~~~~~~i~aviGAiill 40 (48)
T PF04226_consen 4 GIIGAFVGGWLFGLLGI-NG-GGSWGSFIVAVIGAIILL 40 (48)
T ss_pred ehHHHHHHHHHHHHhcc-cC-CchHHHHHHHHHHHHHHH
Confidence 45677787777777777 33 333355578888887644
No 197
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=47.95 E-value=9 Score=26.58 Aligned_cols=11 Identities=36% Similarity=1.069 Sum_probs=8.4
Q ss_pred cCCCCCCccCC
Q 026690 224 GHASCPLCRRD 234 (235)
Q Consensus 224 ~~~sCPlCR~~ 234 (235)
.+..||+|..+
T Consensus 38 ~~p~CPlC~s~ 48 (59)
T PF14169_consen 38 EEPVCPLCKSP 48 (59)
T ss_pred CCccCCCcCCc
Confidence 45689999875
No 198
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=47.91 E-value=17 Score=27.42 Aligned_cols=33 Identities=33% Similarity=0.721 Sum_probs=22.8
Q ss_pred CccCccccccccCCCcee-ecCCCCCcccHhhHHHH
Q 026690 187 RVSCSVCLQDFQLGETAR-SLPHCHHMFHIPCIDKW 221 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~-~Lp~C~H~FH~~CI~~W 221 (235)
...|.||... .|-.+. .-++|...||..|..+.
T Consensus 55 ~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 55 KLKCSICGKS--GGACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred CCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHHC
Confidence 4689999988 232222 23359999999998764
No 199
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=47.23 E-value=6.9 Score=35.75 Aligned_cols=45 Identities=22% Similarity=0.565 Sum_probs=36.6
Q ss_pred CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690 187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 234 (235)
...|-||.-.+.. ......|.|.|+..|-..|....+.||.||..
T Consensus 105 ~~~~~~~~g~l~v---pt~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~ 149 (324)
T KOG0824|consen 105 HDICYICYGKLTV---PTRIQGCWHQFCYVCPKSNFAMGNDCPDCRGK 149 (324)
T ss_pred ccceeeeeeeEEe---cccccCceeeeeecCCchhhhhhhccchhhcC
Confidence 4579999888875 33344599999999999999999999999763
No 200
>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=47.19 E-value=19 Score=27.80 Aligned_cols=28 Identities=46% Similarity=0.687 Sum_probs=12.5
Q ss_pred HHHHHHhhcccccccchhhhhhhhhHhhHHh
Q 026690 57 GAMTGALIGQETESGFVRGAAVGAISGAVFS 87 (235)
Q Consensus 57 ga~~ga~~g~~~~~g~~~ga~~gai~gav~s 87 (235)
|+++|++.|..+ =++++..|++.+++++
T Consensus 91 G~~aGa~~~~~~---g~~~~~~~~~~~a~~~ 118 (128)
T PF02466_consen 91 GAAAGAVLGLRS---GPRGMASGAALGAAFA 118 (128)
T ss_pred HHHHHHHHHhcc---ChHHHHHHHHHHHHHH
Confidence 444444444432 3445555555555443
No 201
>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=47.13 E-value=12 Score=26.63 Aligned_cols=11 Identities=36% Similarity=0.981 Sum_probs=8.4
Q ss_pred ccHhhHHHHHh
Q 026690 213 FHIPCIDKWLL 223 (235)
Q Consensus 213 FH~~CI~~WL~ 223 (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 202
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=46.59 E-value=14 Score=28.94 Aligned_cols=14 Identities=29% Similarity=0.536 Sum_probs=8.5
Q ss_pred HhcCCCCCCccCCC
Q 026690 222 LLGHASCPLCRRDL 235 (235)
Q Consensus 222 L~~~~sCPlCR~~v 235 (235)
|.+...|+-||+++
T Consensus 82 LGr~D~CM~C~~pL 95 (114)
T PF11023_consen 82 LGRVDACMHCKEPL 95 (114)
T ss_pred hchhhccCcCCCcC
Confidence 34555677777664
No 203
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=46.50 E-value=16 Score=26.39 Aligned_cols=32 Identities=38% Similarity=0.893 Sum_probs=23.1
Q ss_pred CccCccccccccCCCce-eecCCCCCcccHhhHHH
Q 026690 187 RVSCSVCLQDFQLGETA-RSLPHCHHMFHIPCIDK 220 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v-~~Lp~C~H~FH~~CI~~ 220 (235)
...|.+|.+. .|-.+ -..++|.-.||..|-.+
T Consensus 36 ~~~C~~C~~~--~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 36 KLKCSICKKK--GGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred CCCCcCCCCC--CCeEEEEeCCCCCcEEChHHHcc
Confidence 4589999976 23222 34567999999999765
No 204
>COG3105 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=45.33 E-value=19 Score=28.94 Aligned_cols=27 Identities=37% Similarity=0.663 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHhhcccccccc
Q 026690 46 TFFFALVGTLLGAMTGALIGQETESGF 72 (235)
Q Consensus 46 t~~fa~~g~~~ga~~ga~~g~~~~~g~ 72 (235)
+-+.|+.|-+||.++|+++-+-+...+
T Consensus 7 ~W~~a~igLvvGi~IG~li~Rlt~~~~ 33 (138)
T COG3105 7 TWEYALIGLVVGIIIGALIARLTNRKL 33 (138)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcchhh
Confidence 556888999999999999988765444
No 205
>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=45.24 E-value=5.8 Score=25.23 Aligned_cols=24 Identities=29% Similarity=0.668 Sum_probs=13.4
Q ss_pred CCCCcccHhh-HHHHHhcCCCCCCccC
Q 026690 208 HCHHMFHIPC-IDKWLLGHASCPLCRR 233 (235)
Q Consensus 208 ~C~H~FH~~C-I~~WL~~~~sCPlCR~ 233 (235)
+|||.|-..- +.. .....||.|..
T Consensus 10 ~Cg~~fe~~~~~~~--~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQSISE--DDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEEcCC--CCCCcCCCCCC
Confidence 4777775422 111 23456999976
No 206
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=45.19 E-value=18 Score=38.36 Aligned_cols=46 Identities=26% Similarity=0.631 Sum_probs=33.6
Q ss_pred ccCcccccccc---CCCceeecCCCCCcccHhhHHHHHh--cCCCCCCccCC
Q 026690 188 VSCSVCLQDFQ---LGETARSLPHCHHMFHIPCIDKWLL--GHASCPLCRRD 234 (235)
Q Consensus 188 ~~C~ICle~f~---~ge~v~~Lp~C~H~FH~~CI~~WL~--~~~sCPlCR~~ 234 (235)
..|-||-++.. .|+.......|+--.|..|-+ +=+ .+++||-|+..
T Consensus 18 qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYE-YEr~eG~q~CPqCktr 68 (1079)
T PLN02638 18 QVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYE-YERKDGNQSCPQCKTK 68 (1079)
T ss_pred ceeeecccccCcCCCCCEEEEeccCCCccccchhh-hhhhcCCccCCccCCc
Confidence 47999999976 344445555588889999995 333 56689999864
No 207
>PRK04023 DNA polymerase II large subunit; Validated
Probab=44.18 E-value=18 Score=38.14 Aligned_cols=43 Identities=23% Similarity=0.481 Sum_probs=30.9
Q ss_pred CCccCccccccccCCCceeecCCCC-----CcccHhhHHHHHhcCCCCCCccCC
Q 026690 186 ERVSCSVCLQDFQLGETARSLPHCH-----HMFHIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 186 e~~~C~ICle~f~~ge~v~~Lp~C~-----H~FH~~CI~~WL~~~~sCPlCR~~ 234 (235)
....|+=|=... ....+|+|| +.||..| .+......||-|..+
T Consensus 625 g~RfCpsCG~~t----~~frCP~CG~~Te~i~fCP~C--G~~~~~y~CPKCG~E 672 (1121)
T PRK04023 625 GRRKCPSCGKET----FYRRCPFCGTHTEPVYRCPRC--GIEVEEDECEKCGRE 672 (1121)
T ss_pred cCccCCCCCCcC----CcccCCCCCCCCCcceeCccc--cCcCCCCcCCCCCCC
Confidence 346899998774 245678898 5699999 333455679999765
No 208
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=43.37 E-value=22 Score=25.75 Aligned_cols=43 Identities=28% Similarity=0.584 Sum_probs=28.6
Q ss_pred cCccccccccCCCc-eeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690 189 SCSVCLQDFQLGET-ARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 189 ~C~ICle~f~~ge~-v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 234 (235)
.|--|-.|+-.+.. .++.. =.|+||.+|.+.- -+..||.|--+
T Consensus 7 nCECCDrDLpp~s~dA~ICt-fEcTFCadCae~~--l~g~CPnCGGe 50 (84)
T COG3813 7 NCECCDRDLPPDSTDARICT-FECTFCADCAENR--LHGLCPNCGGE 50 (84)
T ss_pred CCcccCCCCCCCCCceeEEE-EeeehhHhHHHHh--hcCcCCCCCch
Confidence 45556666665543 33322 3599999999874 57889999543
No 209
>PTZ00236 mitochondrial import inner membrane translocase subunit tim17; Provisional
Probab=42.91 E-value=25 Score=29.37 Aligned_cols=10 Identities=10% Similarity=0.055 Sum_probs=5.9
Q ss_pred ccccCCCccc
Q 026690 2 EFYAYPSRFS 11 (235)
Q Consensus 2 ~~~~~~~~~~ 11 (235)
||.-.|||..
T Consensus 5 ~~~r~pcp~r 14 (164)
T PTZ00236 5 DLSREPCPDR 14 (164)
T ss_pred hhCcCCCchH
Confidence 4556666654
No 210
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=42.85 E-value=4.4 Score=36.14 Aligned_cols=47 Identities=26% Similarity=0.550 Sum_probs=36.5
Q ss_pred CccCccccccccCCC---ceeecCC-------CCCcccHhhHHHHHhcC-CCCCCccC
Q 026690 187 RVSCSVCLQDFQLGE---TARSLPH-------CHHMFHIPCIDKWLLGH-ASCPLCRR 233 (235)
Q Consensus 187 ~~~C~ICle~f~~ge---~v~~Lp~-------C~H~FH~~CI~~WL~~~-~sCPlCR~ 233 (235)
+..|.||...|...+ ..+.+.. |+|..+..|++.-+.+. ..||.||.
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~ 264 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTW 264 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccc
Confidence 357999999998432 3344444 99999999999998765 48999975
No 211
>COG1173 DppC ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]
Probab=42.69 E-value=50 Score=29.85 Aligned_cols=40 Identities=15% Similarity=0.227 Sum_probs=26.7
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHhhccc
Q 026690 28 FCNFAVSAVIGNIFSAIFTFFFAL-VGTLLGAMTGALIGQE 67 (235)
Q Consensus 28 ~~~~~~~~~~~~~~~~~~t~~fa~-~g~~~ga~~ga~~g~~ 67 (235)
-+++.++|++-+.=..+...+.|. ...++|.+.|.++|+.
T Consensus 73 ~GRDi~srli~G~r~SL~I~~~~~~~~~~iG~~lG~iaGy~ 113 (289)
T COG1173 73 LGRDILSRLLYGARISLLIGLLAVLISLVIGTLLGLLAGYF 113 (289)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 447888998888665555555443 5666777777777765
No 212
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=42.41 E-value=14 Score=32.71 Aligned_cols=41 Identities=22% Similarity=0.343 Sum_probs=31.5
Q ss_pred CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCC--CCC
Q 026690 187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHAS--CPL 230 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~s--CPl 230 (235)
+..|||=++.+.. ...-.+|+|.|-++-|.+.|....+ ||.
T Consensus 189 ~nrCpitl~p~~~---pils~kcnh~~e~D~I~~~lq~~~trvcp~ 231 (275)
T COG5627 189 SNRCPITLNPDFY---PILSSKCNHKPEMDLINKKLQVECTRVCPR 231 (275)
T ss_pred cccCCcccCcchh---HHHHhhhcccccHHHHHHHhcCCceeecch
Confidence 4589999988764 4444579999999999999985544 663
No 213
>PLN02436 cellulose synthase A
Probab=42.23 E-value=22 Score=37.84 Aligned_cols=47 Identities=23% Similarity=0.597 Sum_probs=34.6
Q ss_pred ccCcccccccc---CCCceeecCCCCCcccHhhHHHHHh-cCCCCCCccCC
Q 026690 188 VSCSVCLQDFQ---LGETARSLPHCHHMFHIPCIDKWLL-GHASCPLCRRD 234 (235)
Q Consensus 188 ~~C~ICle~f~---~ge~v~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~~ 234 (235)
..|.||-++.. .||.......|+--.|..|.+-=-+ .+++||-||..
T Consensus 37 ~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~ 87 (1094)
T PLN02436 37 QTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTR 87 (1094)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCc
Confidence 47999999964 5555566666888899999953222 46689999874
No 214
>PF14015 DUF4231: Protein of unknown function (DUF4231)
Probab=41.89 E-value=44 Score=24.96 Aligned_cols=19 Identities=21% Similarity=0.322 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHHHHhhccc
Q 026690 49 FALVGTLLGAMTGALIGQE 67 (235)
Q Consensus 49 fa~~g~~~ga~~ga~~g~~ 67 (235)
..++++++||+++++.++.
T Consensus 24 ~~i~~~~~~a~i~~l~~~~ 42 (112)
T PF14015_consen 24 ASIILSVLGAVIPVLASLS 42 (112)
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 3445556666666644443
No 215
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=41.39 E-value=23 Score=26.98 Aligned_cols=36 Identities=17% Similarity=0.223 Sum_probs=31.0
Q ss_pred ccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC
Q 026690 188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGH 225 (235)
Q Consensus 188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~ 225 (235)
..|.||-..+..|+.....+ .-..|.+|+..-.+++
T Consensus 7 wkC~VCg~~iieGqkFTF~~--kGsVH~eCl~~s~~~k 42 (103)
T COG4847 7 WKCYVCGGTIIEGQKFTFTK--KGSVHYECLAESKRKK 42 (103)
T ss_pred eeEeeeCCEeeeccEEEEee--CCcchHHHHHHHHhcC
Confidence 57999999999999988887 7789999998876654
No 216
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=41.20 E-value=8.5 Score=36.76 Aligned_cols=38 Identities=16% Similarity=0.309 Sum_probs=28.4
Q ss_pred CccCccccccccCCCc----eeecCCCCCcccHhhHHHHHhc
Q 026690 187 RVSCSVCLQDFQLGET----ARSLPHCHHMFHIPCIDKWLLG 224 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~----v~~Lp~C~H~FH~~CI~~WL~~ 224 (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 3459999999987662 2222249999999999988664
No 217
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=40.96 E-value=17 Score=32.41 Aligned_cols=41 Identities=15% Similarity=0.255 Sum_probs=31.8
Q ss_pred CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCC--CCCC
Q 026690 187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHA--SCPL 230 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~--sCPl 230 (235)
...|||=...+.. +.+-.+|+|+|-.+=|.+.+..+. .||+
T Consensus 176 s~rdPis~~~I~n---PviSkkC~HvydrDsI~~~l~~~~~i~CPv 218 (262)
T KOG2979|consen 176 SNRDPISKKPIVN---PVISKKCGHVYDRDSIMQILCDEITIRCPV 218 (262)
T ss_pred cccCchhhhhhhc---hhhhcCcCcchhhhhHHHHhccCceeeccc
Confidence 3579999888875 444456999999999999998643 5886
No 218
>PF13828 DUF4190: Domain of unknown function (DUF4190)
Probab=40.83 E-value=83 Score=21.80 Aligned_cols=36 Identities=19% Similarity=0.272 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHhhcccccccchhhhhhhhhHhhHHh
Q 026690 51 LVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFS 87 (235)
Q Consensus 51 ~~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav~s 87 (235)
...+++|.+.|-++=...+.+=.+|.++ |++|-+++
T Consensus 17 ~~~~i~aiilG~ial~~i~r~~~~G~g~-A~aGivlG 52 (62)
T PF13828_consen 17 GLLGIVAIILGHIALRQIRRSGQRGRGM-AIAGIVLG 52 (62)
T ss_pred HHhHHHHHHHHHHHHHHHhccCCCChHH-HHHHHHHH
Confidence 3455556666655544432222666555 56665554
No 219
>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=39.84 E-value=5 Score=36.03 Aligned_cols=47 Identities=21% Similarity=0.377 Sum_probs=20.3
Q ss_pred CccCccccccccCCCceeec-CCCCCcccHhhHHHHHhcCCCCCCccC
Q 026690 187 RVSCSVCLQDFQLGETARSL-PHCHHMFHIPCIDKWLLGHASCPLCRR 233 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~~L-p~C~H~FH~~CI~~WL~~~~sCPlCR~ 233 (235)
...||||=..-..+.....- ..=.|.+|.-|=..|--.+..||.|-.
T Consensus 172 ~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~ 219 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGN 219 (290)
T ss_dssp -SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT--
T ss_pred CCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCC
Confidence 46899997664321111110 012567777888888778889999953
No 220
>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=39.72 E-value=21 Score=29.64 Aligned_cols=9 Identities=56% Similarity=1.623 Sum_probs=7.5
Q ss_pred CCCCccCCC
Q 026690 227 SCPLCRRDL 235 (235)
Q Consensus 227 sCPlCR~~v 235 (235)
.||+||-+|
T Consensus 82 ~CPLCRG~V 90 (162)
T PF07800_consen 82 ACPLCRGEV 90 (162)
T ss_pred cCccccCce
Confidence 599999765
No 221
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=39.51 E-value=11 Score=41.22 Aligned_cols=50 Identities=28% Similarity=0.513 Sum_probs=39.7
Q ss_pred CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhc----CCCCCCccCC
Q 026690 184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG----HASCPLCRRD 234 (235)
Q Consensus 184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~----~~sCPlCR~~ 234 (235)
+.....|.||+...+..+.+...- |.--||..|+.+-+.. ...||-||..
T Consensus 1105 s~~~~~c~~cr~k~~~~~m~lc~~-c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e 1158 (1404)
T KOG1245|consen 1105 SAVNALCKVCRRKKQDEKMLLCDE-CLSGFHLFCLRPALSSVPPGDWMCPSCRKE 1158 (1404)
T ss_pred ccchhhhhhhhhcccchhhhhhHh-hhhhHHHHhhhhhhccCCcCCccCCccchh
Confidence 344578999999988766666666 9999999999998873 4579999863
No 222
>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=39.34 E-value=53 Score=20.86 Aligned_cols=21 Identities=24% Similarity=0.178 Sum_probs=13.7
Q ss_pred HHHHHHHHHhhcccccccchh
Q 026690 54 TLLGAMTGALIGQETESGFVR 74 (235)
Q Consensus 54 ~~~ga~~ga~~g~~~~~g~~~ 74 (235)
.+++++++|+++....|-+-|
T Consensus 18 iVv~~i~~ali~VSq~D~v~R 38 (39)
T PF06596_consen 18 IVVIPIAGALIFVSQFDRVKR 38 (39)
T ss_dssp HHHHHHHHHHHHHHCCS----
T ss_pred hhhhhhhhheEEEeccCcccc
Confidence 678889999888776665444
No 223
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=39.24 E-value=34 Score=31.65 Aligned_cols=47 Identities=26% Similarity=0.565 Sum_probs=31.2
Q ss_pred CccCcccccccc---------------CCCc-eeecCCCCCcccHhhHHHHHhc---------CCCCCCccCC
Q 026690 187 RVSCSVCLQDFQ---------------LGET-ARSLPHCHHMFHIPCIDKWLLG---------HASCPLCRRD 234 (235)
Q Consensus 187 ~~~C~ICle~f~---------------~ge~-v~~Lp~C~H~FH~~CI~~WL~~---------~~sCPlCR~~ 234 (235)
+.+||+|+..=. .|-. ...-| |||+--..=..-|-+. +..||.|-+.
T Consensus 341 ~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~P-CGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~ 412 (429)
T KOG3842|consen 341 ERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNP-CGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQ 412 (429)
T ss_pred cCcCCeeeeecceeeeeccccceeEecCCCcccccCC-cccccchhhhhHhhcCcCCCccccccccCcchhhh
Confidence 568999996521 1111 13356 9999888888888762 4469999654
No 224
>PF10112 Halogen_Hydrol: 5-bromo-4-chloroindolyl phosphate hydrolysis protein; InterPro: IPR018770 This entry consists of prokaryotic proteins that mediate the hydrolysis of 5-bromo-4-chloroindolyl phosphate bonds.
Probab=38.93 E-value=36 Score=28.59 Aligned_cols=19 Identities=26% Similarity=0.399 Sum_probs=10.5
Q ss_pred ccchhhhhhhhhHhhHHhh
Q 026690 70 SGFVRGAAVGAISGAVFSI 88 (235)
Q Consensus 70 ~g~~~ga~~gai~gav~s~ 88 (235)
..++=+..+|+++++++.+
T Consensus 31 ~~~~l~~l~~~~~~~~~~~ 49 (199)
T PF10112_consen 31 HSFLLSLLIGAVAFAVVYL 49 (199)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344466666666666544
No 225
>TIGR00980 3a0801so1tim17 mitochondrial import inner membrane translocase subunit tim17.
Probab=37.48 E-value=84 Score=26.33 Aligned_cols=12 Identities=17% Similarity=0.437 Sum_probs=8.5
Q ss_pred CccccCCCcccc
Q 026690 1 MEFYAYPSRFSM 12 (235)
Q Consensus 1 ~~~~~~~~~~~~ 12 (235)
|||.-.|||..+
T Consensus 2 ~~~~r~pcp~r~ 13 (170)
T TIGR00980 2 EEYTREPCPYRI 13 (170)
T ss_pred cccccCCCcchh
Confidence 467778888754
No 226
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=37.10 E-value=27 Score=28.14 Aligned_cols=13 Identities=15% Similarity=0.631 Sum_probs=7.8
Q ss_pred CccCccccccccC
Q 026690 187 RVSCSVCLQDFQL 199 (235)
Q Consensus 187 ~~~C~ICle~f~~ 199 (235)
.-.||-|-..|..
T Consensus 99 ~Y~Cp~C~~~y~~ 111 (147)
T smart00531 99 YYKCPNCQSKYTF 111 (147)
T ss_pred EEECcCCCCEeeH
Confidence 3467777666654
No 227
>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=36.81 E-value=11 Score=35.56 Aligned_cols=48 Identities=29% Similarity=0.576 Sum_probs=0.0
Q ss_pred CccCcccccccc-------------CCC---ceeecCCCCCcccHhhHHHHHhc---------CCCCCCccCCC
Q 026690 187 RVSCSVCLQDFQ-------------LGE---TARSLPHCHHMFHIPCIDKWLLG---------HASCPLCRRDL 235 (235)
Q Consensus 187 ~~~C~ICle~f~-------------~ge---~v~~Lp~C~H~FH~~CI~~WL~~---------~~sCPlCR~~v 235 (235)
..+||+|++.=. .+. +...-| |||+--.....-|-+. +..||.|-.+|
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~P-CGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L 400 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNP-CGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPL 400 (416)
T ss_dssp --------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecc-cccccchhhhhhhhcCCCCCCcccccccCCcccCcc
Confidence 568999997522 111 123467 9999999999999762 34699996653
No 228
>PF03253 UT: Urea transporter; InterPro: IPR004937 Proteins in this entry include low-affinity urea transporters found in the erythrocytes and kidneys of higher organisms. The erythrocyte proteins carry the clinically important Kidd (Jk) blood group antigens which help determine blood type. The two commonest forms are Jk(a) and Jk(b), which arise from a single residue variation at position 280; aspartate in Jk(a) and asparagine in Jk(b) []. A much rarer phenotype, Jk(null), arises when the protein is not expressed on the erythrocyte surface, and is linked to a urine-concentrating defect []. The Kidd blood group is clinically significant as Jk antibodies can cause acute transfusion reactions and haemolytic disease of the newborn (HDN), where the mother's body creates antibodies against the foetal blood cells. HDN associated with Jk antibodies is generally mild, but fatal cases can occur []. The bacterial proteins in this entry also appear to be involved in urea transport, promoting its entry into the cell []. This uptake of urea can be advantageous for bacteria as its hydrolysis by urease generates ammonium which is an efficient source of nitrogen and, through its buffering capacity, can also provide resistance to acidic conditions.; GO: 0015204 urea transmembrane transporter activity, 0071918 urea transmembrane transport, 0016021 integral to membrane; PDB: 3M6E_A 3K3G_A 3ME1_B 3K3F_A.
Probab=36.68 E-value=70 Score=29.09 Aligned_cols=33 Identities=30% Similarity=0.645 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhccccc
Q 026690 37 IGNIFSAIFTFFFALVGTLLGAMTGALIGQETE 69 (235)
Q Consensus 37 ~~~~~~~~~t~~fa~~g~~~ga~~ga~~g~~~~ 69 (235)
++=.++.-..+++|+.|+++|.+++.+.|-..+
T Consensus 188 ~gi~i~S~~~a~~al~Gs~lg~~~~~~lg~~~~ 220 (301)
T PF03253_consen 188 IGILIASRIAALYALLGSLLGTLVALLLGAPHA 220 (301)
T ss_dssp HHHHHH-HHHHHHHHHHHHHHHHHHHHTT--HH
T ss_pred HHHHHcCHHHHHHHHHHHHHHHHHHHhcCCCHH
Confidence 333444555788999999999999998886654
No 229
>PLN02400 cellulose synthase
Probab=35.92 E-value=23 Score=37.64 Aligned_cols=46 Identities=24% Similarity=0.640 Sum_probs=33.1
Q ss_pred ccCcccccccc---CCCceeecCCCCCcccHhhHHHHHh--cCCCCCCccCC
Q 026690 188 VSCSVCLQDFQ---LGETARSLPHCHHMFHIPCIDKWLL--GHASCPLCRRD 234 (235)
Q Consensus 188 ~~C~ICle~f~---~ge~v~~Lp~C~H~FH~~CI~~WL~--~~~sCPlCR~~ 234 (235)
..|-||-++.. .||.......|+--.|..|-+ +=+ .+++||-||..
T Consensus 37 qiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYE-YERkeGnq~CPQCkTr 87 (1085)
T PLN02400 37 QICQICGDDVGVTETGDVFVACNECAFPVCRPCYE-YERKDGTQCCPQCKTR 87 (1085)
T ss_pred ceeeecccccCcCCCCCEEEEEccCCCccccchhh-eecccCCccCcccCCc
Confidence 47999999976 344444455588889999984 322 46689999864
No 230
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=35.89 E-value=7.3 Score=35.35 Aligned_cols=36 Identities=22% Similarity=0.634 Sum_probs=28.9
Q ss_pred cCccccccccCCCceeecCCCCCcccHhhHHHHHhcC
Q 026690 189 SCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGH 225 (235)
Q Consensus 189 ~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~ 225 (235)
.|.+|++++..+....... |--.||..|+-.|+...
T Consensus 216 vC~~CF~el~~~~~~~~~~-~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 216 VCDICFEELEKGARGDRED-SLPVFHGKCYPNWLTTG 251 (288)
T ss_pred ecHHHHHHHhcccccchhh-ccccccccccccccccc
Confidence 8999999998755555554 55599999999999754
No 231
>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=35.66 E-value=37 Score=23.33 Aligned_cols=32 Identities=13% Similarity=0.243 Sum_probs=24.6
Q ss_pred CccCccccccccC--CCceeecCCCCCcccHhhH
Q 026690 187 RVSCSVCLQDFQL--GETARSLPHCHHMFHIPCI 218 (235)
Q Consensus 187 ~~~C~ICle~f~~--ge~v~~Lp~C~H~FH~~CI 218 (235)
...|+.|-...+. .......|.||+.+|.+--
T Consensus 28 Sq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~n 61 (69)
T PF07282_consen 28 SQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVN 61 (69)
T ss_pred ccCccCcccccccccccceEEcCCCCCEECcHHH
Confidence 3579999988776 5566777889999987753
No 232
>TIGR03441 urea_trans_yut urea transporter, Yersinia type. Members of this protein family are bacterial urea transporters, found not only is species that contain urease, but adjacent to the urease operon. It was characterized in Yersinia pseudotuberculosis. Members are homologous to eukaryotic members of solute carrier family 14, a family that includes urea transporters, and to bacterial proteins in species with no detectable urea degradation system.
Probab=35.61 E-value=60 Score=29.44 Aligned_cols=31 Identities=23% Similarity=0.505 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhcccccc
Q 026690 40 IFSAIFTFFFALVGTLLGAMTGALIGQETES 70 (235)
Q Consensus 40 ~~~~~~t~~fa~~g~~~ga~~ga~~g~~~~~ 70 (235)
.+..-..+++|+.|+++|.+++.+.|...++
T Consensus 191 ~i~S~~~a~~al~gs~i~~~~a~~lg~~~~~ 221 (292)
T TIGR03441 191 LIASRKAAIMALIGALISILAAILLGADLDS 221 (292)
T ss_pred HHcCHHHHHHHHHHHHHHHHHHHHhCCCHHH
Confidence 3444557889999999999999888875443
No 233
>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=35.57 E-value=50 Score=25.37 Aligned_cols=42 Identities=26% Similarity=0.287 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHHhhcccccccchhhhhhhhhHhhHHhh
Q 026690 47 FFFALVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFSI 88 (235)
Q Consensus 47 ~~fa~~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav~s~ 88 (235)
..||..+.+-..+.-++.-.-.++..+..+.-|+++|++++.
T Consensus 59 ~~~g~~~~~y~~~~~~l~~~R~k~D~~N~~~aG~~aGa~~~~ 100 (128)
T PF02466_consen 59 ARFGSFGGLYSGIECALERLRGKDDPWNSAIAGAAAGAVLGL 100 (128)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHh
Confidence 345555555555555666655667788888889999998766
No 234
>PF04829 PT-VENN: Pre-toxin domain with VENN motif; InterPro: IPR006914 This group of proteins, mainly from Neisseria meningitidis, may have haemagglutinin or haemolysin activity. A number of them have a second conserved domain, IPR006915 from INTERPRO, which is found in possible Pseudomonas aeruginosa haemagglutinins []. Filamentous haemagglutinin (FHA) is a major virulence attachment factor produced by certain bacterial species that functions as both a primary adhesin and an immunomodulator. Haemolysin is pore-forming toxin.
Probab=35.46 E-value=43 Score=22.75 Aligned_cols=12 Identities=42% Similarity=0.689 Sum_probs=5.7
Q ss_pred HHHHHHHHHhhc
Q 026690 54 TLLGAMTGALIG 65 (235)
Q Consensus 54 ~~~ga~~ga~~g 65 (235)
.++|.++|++.|
T Consensus 18 ~l~ag~ag~~~g 29 (55)
T PF04829_consen 18 QLAAGVAGALAG 29 (55)
T ss_pred HHHHHHHHHHHc
Confidence 344444554444
No 235
>PF01024 Colicin: Colicin pore forming domain; InterPro: IPR000293 Colicins are plasmid-encoded polypeptide toxins produced by and active against Escherichia coli and closely related bacteria. Colicins are released into the environment to reduce competition from other bacterial strains. Colicins bind to outer membrane receptors, using them to translocate to the cytoplasm or cytoplasmic membrane, where they exert their cytotoxic effect, including depolarisation of the cytoplasmic membrane, DNase activity, RNase activity, or inhibition of murein synthesis. Channel-forming colicins (colicins A, B, E1, Ia, Ib, and N) are transmembrane proteins that depolarize the cytoplasmic membrane, leading to dissipation of cellular energy []. These colicins contain at least three domains: an N-terminal translocation domain responsible for movement across the outer membrane and periplasmic space; a central domain responsible for receptor recognition; and a C-terminal cytotoxic domain responsible for channel formation in the cytoplasmic membrane []. This entry represents the C-terminal cytotoxic domain, which has a globin-like fold with additional helices at either end.; GO: 0019835 cytolysis, 0050829 defense response to Gram-negative bacterium, 0016021 integral to membrane; PDB: 2I88_A 1CII_A 1RH1_A 1COL_B 1A87_A 3FEW_X.
Probab=35.14 E-value=1.1e+02 Score=26.14 Aligned_cols=32 Identities=38% Similarity=0.468 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHhh
Q 026690 33 VSAVIGNIFSAIFTFFFALVGT-LLGAMTGALI 64 (235)
Q Consensus 33 ~~~~~~~~~~~~~t~~fa~~g~-~~ga~~ga~~ 64 (235)
++.++..+++.+++.-.+.+|. ++-+++|+++
T Consensus 143 As~v~a~~fs~~~~t~igi~g~ail~a~v~s~I 175 (187)
T PF01024_consen 143 ASAVAAFAFSFILGTPIGILGIAILMAVVGSLI 175 (187)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHh
Confidence 4555556666666555555555 5555565554
No 236
>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=35.13 E-value=23 Score=20.72 Aligned_cols=29 Identities=21% Similarity=0.442 Sum_probs=19.7
Q ss_pred cCccccccccCCCceeecCCCCCcccHhhH
Q 026690 189 SCSVCLQDFQLGETARSLPHCHHMFHIPCI 218 (235)
Q Consensus 189 ~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI 218 (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 5889977766543 3333458888888773
No 237
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=34.68 E-value=25 Score=26.97 Aligned_cols=34 Identities=15% Similarity=0.224 Sum_probs=29.0
Q ss_pred ccCccccccccCCCceeecCCCCCcccHhhHHHHHh
Q 026690 188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL 223 (235)
Q Consensus 188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~ 223 (235)
..|.||-.++..|+....+++ =..|.+|+..=..
T Consensus 3 WkC~iCg~~I~~gqlFTF~~k--G~VH~~C~~~~~~ 36 (101)
T PF09943_consen 3 WKCYICGKPIYEGQLFTFTKK--GPVHYECFREKAS 36 (101)
T ss_pred eEEEecCCeeeecceEEEecC--CcEeHHHHHHHHh
Confidence 479999999999999888874 7899999987554
No 238
>PF10779 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemolysin XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes [].
Probab=33.81 E-value=29 Score=24.51 Aligned_cols=14 Identities=36% Similarity=0.465 Sum_probs=7.5
Q ss_pred HHHHHHHHHHHhhc
Q 026690 52 VGTLLGAMTGALIG 65 (235)
Q Consensus 52 ~g~~~ga~~ga~~g 65 (235)
.|+++||+++++.+
T Consensus 54 ~r~iiGaiI~~i~~ 67 (71)
T PF10779_consen 54 WRTIIGAIITAIIY 67 (71)
T ss_pred HHHHHHHHHHHHHH
Confidence 45555655555443
No 239
>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=33.44 E-value=34 Score=20.73 Aligned_cols=27 Identities=19% Similarity=0.594 Sum_probs=15.1
Q ss_pred ccCccccccccCCCc-------eeecCCCCCccc
Q 026690 188 VSCSVCLQDFQLGET-------ARSLPHCHHMFH 214 (235)
Q Consensus 188 ~~C~ICle~f~~ge~-------v~~Lp~C~H~FH 214 (235)
..||-|-..|...+. ....|+|+|.|.
T Consensus 3 ~~CP~C~~~~~v~~~~~~~~~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQLGANGGKVRCGKCGHVWY 36 (38)
T ss_pred EECCCCCCEEEeCHHHcCCCCCEEECCCCCCEEE
Confidence 357777776664321 234556666653
No 240
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=32.71 E-value=24 Score=35.51 Aligned_cols=27 Identities=30% Similarity=0.824 Sum_probs=21.5
Q ss_pred CCCCCcccHhhHHHHHhc-----CCCCCCccC
Q 026690 207 PHCHHMFHIPCIDKWLLG-----HASCPLCRR 233 (235)
Q Consensus 207 p~C~H~FH~~CI~~WL~~-----~~sCPlCR~ 233 (235)
..|+-.||..|+..|+.. -..||-||.
T Consensus 39 ~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 39 SDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRV 70 (694)
T ss_pred hhhcccCCcchhhHHHhHHHhcCCcccCCcee
Confidence 358999999999999863 235998875
No 241
>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=32.67 E-value=30 Score=24.06 Aligned_cols=13 Identities=23% Similarity=0.483 Sum_probs=7.1
Q ss_pred CceeecCCCCCcc
Q 026690 201 ETARSLPHCHHMF 213 (235)
Q Consensus 201 e~v~~Lp~C~H~F 213 (235)
+..-+.|+|+|.|
T Consensus 51 eg~L~Cp~c~r~Y 63 (68)
T PF03966_consen 51 EGELICPECGREY 63 (68)
T ss_dssp TTEEEETTTTEEE
T ss_pred CCEEEcCCCCCEE
Confidence 3344555666665
No 242
>PF15616 TerY-C: TerY-C metal binding domain
Probab=32.35 E-value=20 Score=28.86 Aligned_cols=39 Identities=26% Similarity=0.669 Sum_probs=27.9
Q ss_pred CCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690 186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 234 (235)
+...||=|-..+- ..... |+++|| |+. ....+||-|.+.
T Consensus 76 g~PgCP~CGn~~~----fa~C~-CGkl~C---i~g--~~~~~CPwCg~~ 114 (131)
T PF15616_consen 76 GAPGCPHCGNQYA----FAVCG-CGKLFC---IDG--EGEVTCPWCGNE 114 (131)
T ss_pred CCCCCCCCcChhc----EEEec-CCCEEE---eCC--CCCEECCCCCCe
Confidence 3478999988765 44555 999996 433 346789999764
No 243
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=32.19 E-value=30 Score=23.65 Aligned_cols=9 Identities=22% Similarity=0.899 Sum_probs=6.0
Q ss_pred ccCcccccc
Q 026690 188 VSCSVCLQD 196 (235)
Q Consensus 188 ~~C~ICle~ 196 (235)
..||||-..
T Consensus 5 i~CP~CgnK 13 (55)
T PF14205_consen 5 ILCPICGNK 13 (55)
T ss_pred EECCCCCCc
Confidence 468888643
No 244
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=31.16 E-value=36 Score=22.65 Aligned_cols=10 Identities=30% Similarity=0.889 Sum_probs=6.7
Q ss_pred cCCCCCCccC
Q 026690 224 GHASCPLCRR 233 (235)
Q Consensus 224 ~~~sCPlCR~ 233 (235)
..-.||+|..
T Consensus 33 ~~w~CP~C~a 42 (50)
T cd00730 33 DDWVCPVCGA 42 (50)
T ss_pred CCCCCCCCCC
Confidence 4457888865
No 245
>PHA01757 hypothetical protein
Probab=31.13 E-value=70 Score=23.70 Aligned_cols=21 Identities=24% Similarity=0.469 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 026690 40 IFSAIFTFFFALVGTLLGAMT 60 (235)
Q Consensus 40 ~~~~~~t~~fa~~g~~~ga~~ 60 (235)
++-++|-++||+-|++.|.++
T Consensus 5 l~e~al~gf~a~~g~l~~~fi 25 (98)
T PHA01757 5 LLEGALYGFFAVTGALSASFI 25 (98)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 456778888888888888754
No 246
>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=31.01 E-value=24 Score=20.15 Aligned_cols=7 Identities=57% Similarity=1.621 Sum_probs=3.6
Q ss_pred CCCCccC
Q 026690 227 SCPLCRR 233 (235)
Q Consensus 227 sCPlCR~ 233 (235)
.||+|.+
T Consensus 3 ~CPiC~~ 9 (26)
T smart00734 3 QCPVCFR 9 (26)
T ss_pred cCCCCcC
Confidence 3666643
No 247
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=30.59 E-value=17 Score=37.45 Aligned_cols=35 Identities=23% Similarity=0.539 Sum_probs=26.9
Q ss_pred CCccCccccccccCCCceeecCCCCCcccHhhHHHHH
Q 026690 186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWL 222 (235)
Q Consensus 186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL 222 (235)
....|..|....- ....+.+.|+|.||..|+..|.
T Consensus 228 ~~~mC~~C~~tlf--n~hw~C~~C~~~~Cl~C~r~~~ 262 (889)
T KOG1356|consen 228 IREMCDRCETTLF--NIHWRCPRCGFGVCLDCYRKWY 262 (889)
T ss_pred cchhhhhhccccc--ceeEEccccCCeeeecchhhcc
Confidence 3457888876522 2467788999999999999995
No 248
>PRK15021 microcin C ABC transporter permease; Provisional
Probab=30.53 E-value=1e+02 Score=28.51 Aligned_cols=41 Identities=15% Similarity=0.205 Sum_probs=28.2
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHhhccc
Q 026690 27 EFCNFAVSAVIGNIFSAIFTFFFA-LVGTLLGAMTGALIGQE 67 (235)
Q Consensus 27 ~~~~~~~~~~~~~~~~~~~t~~fa-~~g~~~ga~~ga~~g~~ 67 (235)
+.+++.++|++.+.-..+...+.+ +..+++|.++|.++|+.
T Consensus 127 ~~GRDV~srll~G~r~SL~l~l~a~~is~iiGi~lG~iag~~ 168 (341)
T PRK15021 127 ANGGDVLARILYGTRISVLFGLMLTLCSSVMGVLAGALQGYY 168 (341)
T ss_pred CCCccHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 356777888888766655544443 35777788888888876
No 249
>TIGR00983 3a0801s02tim23 mitochondrial import inner membrane translocase subunit tim23.
Probab=30.15 E-value=54 Score=26.81 Aligned_cols=14 Identities=36% Similarity=0.418 Sum_probs=7.3
Q ss_pred hhhhhhhhhHhhHH
Q 026690 73 VRGAAVGAISGAVF 86 (235)
Q Consensus 73 ~~ga~~gai~gav~ 86 (235)
+|.+++|++.|+++
T Consensus 132 ~r~~~~g~~~G~~l 145 (149)
T TIGR00983 132 LRGMARSGALGATA 145 (149)
T ss_pred hHHHHHHhHHHHHH
Confidence 45555555555544
No 250
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=30.14 E-value=25 Score=34.88 Aligned_cols=34 Identities=24% Similarity=0.663 Sum_probs=23.8
Q ss_pred CCccCccccccccCC-----------CceeecCCCCCcccHhhHHHH
Q 026690 186 ERVSCSVCLQDFQLG-----------ETARSLPHCHHMFHIPCIDKW 221 (235)
Q Consensus 186 e~~~C~ICle~f~~g-----------e~v~~Lp~C~H~FH~~CI~~W 221 (235)
....|+||.|.|++- +.+. +. =|-+||..|+..-
T Consensus 512 ~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~-le-~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 512 RQASCPICQEKFEVVFDQEEDLWMYKDAVY-LE-FGRIFHSKCLSEK 556 (579)
T ss_pred cccCCcccccccceeecchhhheeecceee-ec-cCceeeccccchH
Confidence 346899999999832 1222 32 4889999998754
No 251
>KOG4021 consensus Mitochondrial ribosomal protein S18b [Translation, ribosomal structure and biogenesis]
Probab=29.63 E-value=26 Score=30.18 Aligned_cols=20 Identities=35% Similarity=0.683 Sum_probs=13.9
Q ss_pred HhhHHHHHh-cCCCCCCccCC
Q 026690 215 IPCIDKWLL-GHASCPLCRRD 234 (235)
Q Consensus 215 ~~CI~~WL~-~~~sCPlCR~~ 234 (235)
+.||++-=. ..+-||+||.+
T Consensus 97 ktCIrkn~~~~gnpCPICRDe 117 (239)
T KOG4021|consen 97 KTCIRKNGRFLGNPCPICRDE 117 (239)
T ss_pred hHHHhhcCeecCCCCCccccc
Confidence 558887533 45679999975
No 252
>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=29.54 E-value=45 Score=30.08 Aligned_cols=43 Identities=26% Similarity=0.503 Sum_probs=27.0
Q ss_pred ccCccccccccCCCceeecCCCC-CcccHhhHHHHHh-cCCCCCC
Q 026690 188 VSCSVCLQDFQLGETARSLPHCH-HMFHIPCIDKWLL-GHASCPL 230 (235)
Q Consensus 188 ~~C~ICle~f~~ge~v~~Lp~C~-H~FH~~CI~~WL~-~~~sCPl 230 (235)
..|.||++---+|-.-..|..=+ =.=|.+|.++|-. -+..||-
T Consensus 31 sfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~pr 75 (285)
T PF06937_consen 31 SFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCPR 75 (285)
T ss_pred eecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCCc
Confidence 46888887765554333333112 1458999999954 5777883
No 253
>PTZ00236 mitochondrial import inner membrane translocase subunit tim17; Provisional
Probab=29.50 E-value=94 Score=25.92 Aligned_cols=23 Identities=30% Similarity=0.414 Sum_probs=10.3
Q ss_pred hhhhhhhhhHhhHH--hhhhhcchh
Q 026690 73 VRGAAVGAISGAVF--SIEVFESSL 95 (235)
Q Consensus 73 ~~ga~~gai~gav~--s~e~~~s~~ 95 (235)
.+.+..+|+-|+++ .||.+....
T Consensus 109 ~~~~~~~a~~Gg~~~~~ie~~~i~~ 133 (164)
T PTZ00236 109 WRSAVRNAIFGGILLGIIELVSIGM 133 (164)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444444443 145444443
No 254
>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=29.42 E-value=1.2e+02 Score=27.42 Aligned_cols=12 Identities=33% Similarity=0.756 Sum_probs=6.7
Q ss_pred HHHHHHHHHHHh
Q 026690 52 VGTLLGAMTGAL 63 (235)
Q Consensus 52 ~g~~~ga~~ga~ 63 (235)
+||++|+++|++
T Consensus 173 ~gaaiGal~Gg~ 184 (292)
T PF11981_consen 173 AGAAIGALAGGA 184 (292)
T ss_pred HHHHHHHHHHHH
Confidence 455555555555
No 255
>PF04306 DUF456: Protein of unknown function (DUF456); InterPro: IPR007403 This is a family of putative membrane proteins.
Probab=29.04 E-value=83 Score=25.29 Aligned_cols=13 Identities=31% Similarity=0.641 Sum_probs=8.3
Q ss_pred hhhhhhhHhhHHh
Q 026690 75 GAAVGAISGAVFS 87 (235)
Q Consensus 75 ga~~gai~gav~s 87 (235)
|.-+|++.||.+.
T Consensus 83 G~iiG~~~Ga~l~ 95 (140)
T PF04306_consen 83 GLIIGPFLGAFLG 95 (140)
T ss_pred HHHHHHHHHHHHH
Confidence 5566777777643
No 256
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=28.72 E-value=68 Score=34.17 Aligned_cols=48 Identities=23% Similarity=0.497 Sum_probs=34.0
Q ss_pred CccCcccccccc---CCCceeecCCCCCcccHhhHHHHHh-cCCCCCCccCC
Q 026690 187 RVSCSVCLQDFQ---LGETARSLPHCHHMFHIPCIDKWLL-GHASCPLCRRD 234 (235)
Q Consensus 187 ~~~C~ICle~f~---~ge~v~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~~ 234 (235)
...|-||-++.. .||.......|+--.|..|.+-=.+ .+.+||-|+.+
T Consensus 15 ~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~ 66 (1044)
T PLN02915 15 AKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTR 66 (1044)
T ss_pred cchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCc
Confidence 357999999976 3444455556888899999953222 46689999864
No 257
>PF14353 CpXC: CpXC protein
Probab=28.59 E-value=40 Score=26.20 Aligned_cols=11 Identities=27% Similarity=1.035 Sum_probs=6.8
Q ss_pred ccCcccccccc
Q 026690 188 VSCSVCLQDFQ 198 (235)
Q Consensus 188 ~~C~ICle~f~ 198 (235)
.+||-|...|.
T Consensus 2 itCP~C~~~~~ 12 (128)
T PF14353_consen 2 ITCPHCGHEFE 12 (128)
T ss_pred cCCCCCCCeeE
Confidence 35666666655
No 258
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=28.18 E-value=38 Score=26.34 Aligned_cols=28 Identities=18% Similarity=0.415 Sum_probs=17.9
Q ss_pred ccCccccccccCC-CceeecCCCCCcccH
Q 026690 188 VSCSVCLQDFQLG-ETARSLPHCHHMFHI 215 (235)
Q Consensus 188 ~~C~ICle~f~~g-e~v~~Lp~C~H~FH~ 215 (235)
..||-|..+|.-. ....+.|.|+|-+-.
T Consensus 3 p~CP~C~seytY~dg~~~iCpeC~~EW~~ 31 (109)
T TIGR00686 3 PPCPKCNSEYTYHDGTQLICPSCLYEWNE 31 (109)
T ss_pred CcCCcCCCcceEecCCeeECccccccccc
Confidence 4688898886632 234556777776643
No 259
>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=28.15 E-value=20 Score=21.96 Aligned_cols=10 Identities=50% Similarity=1.082 Sum_probs=6.2
Q ss_pred CCCCCCccCC
Q 026690 225 HASCPLCRRD 234 (235)
Q Consensus 225 ~~sCPlCR~~ 234 (235)
...||.|..+
T Consensus 26 ~~~CP~Cg~~ 35 (41)
T smart00834 26 LATCPECGGD 35 (41)
T ss_pred CCCCCCCCCc
Confidence 4458877653
No 260
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=27.82 E-value=30 Score=33.64 Aligned_cols=14 Identities=29% Similarity=0.574 Sum_probs=9.9
Q ss_pred ccCccccccccCCC
Q 026690 188 VSCSVCLQDFQLGE 201 (235)
Q Consensus 188 ~~C~ICle~f~~ge 201 (235)
.-||-||+++-..+
T Consensus 27 ~yCp~CL~~~p~~e 40 (483)
T PF05502_consen 27 YYCPNCLFEVPSSE 40 (483)
T ss_pred eECccccccCChhh
Confidence 46888888876544
No 261
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=27.80 E-value=32 Score=20.49 Aligned_cols=26 Identities=19% Similarity=0.591 Sum_probs=10.7
Q ss_pred ccCccccccccC-CCceeecCCCCCcc
Q 026690 188 VSCSVCLQDFQL-GETARSLPHCHHMF 213 (235)
Q Consensus 188 ~~C~ICle~f~~-ge~v~~Lp~C~H~F 213 (235)
..|+-|-.++.- +..+.+.|.|+|.+
T Consensus 3 p~Cp~C~se~~y~D~~~~vCp~C~~ew 29 (30)
T PF08274_consen 3 PKCPLCGSEYTYEDGELLVCPECGHEW 29 (30)
T ss_dssp ---TTT-----EE-SSSEEETTTTEEE
T ss_pred CCCCCCCCcceeccCCEEeCCcccccC
Confidence 368888877663 23455566687753
No 262
>PF11151 DUF2929: Protein of unknown function (DUF2929); InterPro: IPR021324 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=27.49 E-value=1e+02 Score=20.95 Aligned_cols=34 Identities=24% Similarity=0.491 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHhhcccccccchhhhhhhhhHhhHHh
Q 026690 52 VGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFS 87 (235)
Q Consensus 52 ~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav~s 87 (235)
-|-++|=|.++|.|.+ -.+.+++-++++-|.++.
T Consensus 13 l~~vvgyI~ssL~~~~--~n~~~~~Ii~vi~~i~~~ 46 (57)
T PF11151_consen 13 LGEVVGYIGSSLTGVT--YNFTTAAIIAVIFGIIVA 46 (57)
T ss_pred HHHHHHHHHHHHhCCC--CChHHHHHHHHHHHHHHH
Confidence 4777888888888883 338888888887776654
No 263
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=27.43 E-value=76 Score=26.57 Aligned_cols=13 Identities=31% Similarity=0.480 Sum_probs=8.7
Q ss_pred hcCCCCCCccCCC
Q 026690 223 LGHASCPLCRRDL 235 (235)
Q Consensus 223 ~~~~sCPlCR~~v 235 (235)
.....||.|..++
T Consensus 134 ~~~F~Cp~Cg~~L 146 (178)
T PRK06266 134 EYGFRCPQCGEML 146 (178)
T ss_pred hcCCcCCCCCCCC
Confidence 3466788887653
No 264
>PRK04201 zinc transporter ZupT; Provisional
Probab=26.94 E-value=1.2e+02 Score=26.81 Aligned_cols=49 Identities=29% Similarity=0.341 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHHHhhcccccccchhhhhhhhhHhhHHhh---hhhcchh
Q 026690 47 FFFALVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFSI---EVFESSL 95 (235)
Q Consensus 47 ~~fa~~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav~s~---e~~~s~~ 95 (235)
.++...-+.+|+++|.+......+..+.|..++..+|+.+-+ |++....
T Consensus 187 ~~~~~l~~p~G~~~g~~~~~~~~~~~~~~~~l~~aaG~~lyv~~~el~pea~ 238 (265)
T PRK04201 187 SFLSGLAEPLGAVLGYLLLGPFISPVVMGAIFAAVAGIMVFISLDELLPAAK 238 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333344566677777655432234557789999999998876 6555543
No 265
>PRK09609 hypothetical protein; Provisional
Probab=26.72 E-value=30 Score=31.83 Aligned_cols=20 Identities=20% Similarity=0.552 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHhhccccc
Q 026690 50 ALVGTLLGAMTGALIGQETE 69 (235)
Q Consensus 50 a~~g~~~ga~~ga~~g~~~~ 69 (235)
+++|.+.|+++|++.|..++
T Consensus 48 iI~G~LFGPv~G~ivG~lsD 67 (312)
T PRK09609 48 KITGFIFGPIVGFFTGLLSD 67 (312)
T ss_pred HHHHHHhchHHHHHHHHHHH
Confidence 45666666666666665543
No 266
>PHA00094 VI minor coat protein
Probab=26.64 E-value=1e+02 Score=24.06 Aligned_cols=12 Identities=33% Similarity=0.631 Sum_probs=4.4
Q ss_pred HHHHHHHHHHHH
Q 026690 46 TFFFALVGTLLG 57 (235)
Q Consensus 46 t~~fa~~g~~~g 57 (235)
+++++++.++.|
T Consensus 12 rfi~~la~~~~g 23 (112)
T PHA00094 12 RFLGTLAANLIG 23 (112)
T ss_pred HHHHHHHHHHHH
Confidence 333333333333
No 267
>COG2261 Predicted membrane protein [Function unknown]
Probab=26.52 E-value=1.7e+02 Score=21.59 Aligned_cols=43 Identities=21% Similarity=0.319 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHHHhhcccccccchhhhhhhhhHhhHHhhh
Q 026690 46 TFFFALVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFSIE 89 (235)
Q Consensus 46 t~~fa~~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav~s~e 89 (235)
|.+..++|+++|-.....-|... .++-=.+-+.|+-||+.-+=
T Consensus 32 nIilGIVGA~vg~~l~~~~g~~~-~~~~~~~~i~avIGAvIll~ 74 (82)
T COG2261 32 NIILGIVGAFVGGWLLGALGFGG-PGGNIASFIVAVIGAVILLA 74 (82)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCC-CcchHHHHHHHHHHHHHHHH
Confidence 44555666666666555555444 55555666677777775443
No 268
>PRK04201 zinc transporter ZupT; Provisional
Probab=26.47 E-value=1.1e+02 Score=27.08 Aligned_cols=53 Identities=15% Similarity=0.273 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcccccccchhhhhhhhhHhhHHhh---hhhcchhh
Q 026690 42 SAIFTFFFALVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFSI---EVFESSLV 96 (235)
Q Consensus 42 ~~~~t~~fa~~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav~s~---e~~~s~~~ 96 (235)
.+++...++.+++.+|++.+.+....++. +.+..++.-+|..+++ |++-.+.+
T Consensus 6 ~a~~~~~l~~~~t~lGal~~~~~~~~~~~--~l~~~lafAaGvml~~~~~~LiPea~~ 61 (265)
T PRK04201 6 VALLLTLLAGLATGIGSLIAFFGKKPNNR--FLSFSLGFAAGVMLYVSFMEILPKALA 61 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcccHH--HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455566667888888887765544443 3366666666665554 44444443
No 269
>TIGR02811 formate_TAT formate dehydrogenase region TAT target. Members of this uncharacterized protein family are all small, extending 70 or fewer residues from their respective likely start codons. All have the twin-arginine-dependent tranport (TAT) signal sequence at the N-terminus and a conserved 20-residue C-terminal region that includes the motif Y-[HRK]-X-[TS]-X-H-[IV]-X-X-[YF]-Y. The TAT signal sequence suggests a bound cofactor. All members are encoded near genes for subunits of formate dehydrogenase, and may themselves be a subunit or accessory protein.
Probab=26.46 E-value=33 Score=24.19 Aligned_cols=19 Identities=37% Similarity=0.649 Sum_probs=14.0
Q ss_pred ccccchhhhhhhhhHhhHH
Q 026690 68 TESGFVRGAAVGAISGAVF 86 (235)
Q Consensus 68 ~~~g~~~ga~~gai~gav~ 86 (235)
+...||.|+|+|+.+++++
T Consensus 10 sRR~Flk~lg~~aaa~~aa 28 (66)
T TIGR02811 10 SRRDLLKGLGVGAAAGAVA 28 (66)
T ss_pred cHHHHHHHHHHHHHHHHHH
Confidence 5668889888888766554
No 270
>PRK15406 oligopeptide ABC transporter permease OppC; Provisional
Probab=26.39 E-value=1.2e+02 Score=27.33 Aligned_cols=40 Identities=18% Similarity=0.051 Sum_probs=26.6
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHhhccc
Q 026690 28 FCNFAVSAVIGNIFSAIFTFFFAL-VGTLLGAMTGALIGQE 67 (235)
Q Consensus 28 ~~~~~~~~~~~~~~~~~~t~~fa~-~g~~~ga~~ga~~g~~ 67 (235)
.+++.++|++.+.-..+...+.|+ ..+++|.+.|.++|+.
T Consensus 89 ~GrDv~sr~l~G~r~SL~i~l~a~~l~~~iGi~lG~~ag~~ 129 (302)
T PRK15406 89 SGRDLLVRVAIGGRISLMVGVAAALVAVVVGTLYGSLSGYL 129 (302)
T ss_pred CcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 467888998877655554444433 5667777777777774
No 271
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=26.31 E-value=27 Score=22.72 Aligned_cols=8 Identities=50% Similarity=1.236 Sum_probs=5.8
Q ss_pred CCCCCccC
Q 026690 226 ASCPLCRR 233 (235)
Q Consensus 226 ~sCPlCR~ 233 (235)
..||.|..
T Consensus 27 ~~CP~Cg~ 34 (52)
T TIGR02605 27 ATCPECGG 34 (52)
T ss_pred CCCCCCCC
Confidence 36888875
No 272
>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=25.93 E-value=69 Score=26.21 Aligned_cols=12 Identities=25% Similarity=0.473 Sum_probs=8.2
Q ss_pred hcCCCCCCccCC
Q 026690 223 LGHASCPLCRRD 234 (235)
Q Consensus 223 ~~~~sCPlCR~~ 234 (235)
.....||.|..+
T Consensus 126 ~~~F~Cp~Cg~~ 137 (158)
T TIGR00373 126 ELNFTCPRCGAM 137 (158)
T ss_pred HcCCcCCCCCCE
Confidence 346678888764
No 273
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=25.90 E-value=36 Score=32.99 Aligned_cols=47 Identities=26% Similarity=0.615 Sum_probs=31.1
Q ss_pred CccCcccccc-ccCCCceeecCCCCCcccHhhHHHHHh----c----CCCCCCccC
Q 026690 187 RVSCSVCLQD-FQLGETARSLPHCHHMFHIPCIDKWLL----G----HASCPLCRR 233 (235)
Q Consensus 187 ~~~C~ICle~-f~~ge~v~~Lp~C~H~FH~~CI~~WL~----~----~~sCPlCR~ 233 (235)
+..|++|++- .-.+..+...-+|+-.||..|-+.-.+ . ..-|-+|+.
T Consensus 168 n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~ 223 (464)
T KOG4323|consen 168 NLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNR 223 (464)
T ss_pred cceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhcc
Confidence 3459999954 334445555667999999999776543 1 224888854
No 274
>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=25.71 E-value=62 Score=19.98 Aligned_cols=34 Identities=21% Similarity=0.392 Sum_probs=24.7
Q ss_pred CccCccccccccCCCceeecCCCCCcccHhhHHH
Q 026690 187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDK 220 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~ 220 (235)
...|.+|.+.+.........+.|+=..|..|..+
T Consensus 11 ~~~C~~C~~~i~~~~~~~~C~~C~~~~H~~C~~~ 44 (49)
T smart00109 11 PTKCCVCRKSIWGSFQGLRCSWCKVKCHKKCAEK 44 (49)
T ss_pred CCCccccccccCcCCCCcCCCCCCchHHHHHHhh
Confidence 3579999998875432333445999999999876
No 275
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=25.35 E-value=45 Score=20.20 Aligned_cols=7 Identities=43% Similarity=1.516 Sum_probs=4.1
Q ss_pred CCCCccC
Q 026690 227 SCPLCRR 233 (235)
Q Consensus 227 sCPlCR~ 233 (235)
.||+|..
T Consensus 20 ~CP~Cg~ 26 (34)
T cd00729 20 KCPICGA 26 (34)
T ss_pred cCcCCCC
Confidence 5666654
No 276
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=25.32 E-value=16 Score=33.73 Aligned_cols=43 Identities=28% Similarity=0.652 Sum_probs=26.5
Q ss_pred CccCccccccccCC-----------CceeecCCCCCcccHhhHHHHHhc------CCCCCCccC
Q 026690 187 RVSCSVCLQDFQLG-----------ETARSLPHCHHMFHIPCIDKWLLG------HASCPLCRR 233 (235)
Q Consensus 187 ~~~C~ICle~f~~g-----------e~v~~Lp~C~H~FH~~CI~~WL~~------~~sCPlCR~ 233 (235)
...||+=|..+.-. +.-..|. |||+-.+ ..|=.+ ...||+||.
T Consensus 290 RPQCPVglnTL~~P~~~~~~~~~~~QP~vYl~-CGHV~G~---H~WG~~e~~g~~~r~CPmC~~ 349 (429)
T KOG3842|consen 290 RPQCPVGLNTLAFPSKRRKRVVDEKQPWVYLN-CGHVHGY---HNWGVRENTGQRERECPMCRV 349 (429)
T ss_pred CCCCCcccceeecccccccccccccCCeEEEe-ccccccc---cccccccccCcccCcCCeeee
Confidence 45788888665422 2234566 9987432 367543 346999985
No 277
>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=25.27 E-value=33 Score=21.20 Aligned_cols=28 Identities=21% Similarity=0.484 Sum_probs=17.0
Q ss_pred ecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690 205 SLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 205 ~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 234 (235)
+.|+||++||..=-- -+....|..|..+
T Consensus 3 ~C~~Cg~~Yh~~~~p--P~~~~~Cd~cg~~ 30 (36)
T PF05191_consen 3 ICPKCGRIYHIEFNP--PKVEGVCDNCGGE 30 (36)
T ss_dssp EETTTTEEEETTTB----SSTTBCTTTTEB
T ss_pred CcCCCCCccccccCC--CCCCCccCCCCCe
Confidence 457799999942111 1245578888654
No 278
>PRK10220 hypothetical protein; Provisional
Probab=24.95 E-value=55 Score=25.52 Aligned_cols=27 Identities=19% Similarity=0.583 Sum_probs=16.7
Q ss_pred ccCccccccccCCC-ceeecCCCCCccc
Q 026690 188 VSCSVCLQDFQLGE-TARSLPHCHHMFH 214 (235)
Q Consensus 188 ~~C~ICle~f~~ge-~v~~Lp~C~H~FH 214 (235)
..||-|-.+|.-.+ ...+.|.|+|-+-
T Consensus 4 P~CP~C~seytY~d~~~~vCpeC~hEW~ 31 (111)
T PRK10220 4 PHCPKCNSEYTYEDNGMYICPECAHEWN 31 (111)
T ss_pred CcCCCCCCcceEcCCCeEECCcccCcCC
Confidence 46888888766332 3455666777653
No 279
>PF10031 DUF2273: Small integral membrane protein (DUF2273); InterPro: IPR018730 Members of this family of hypothetical bacterial proteins have no known function.
Probab=24.69 E-value=2.2e+02 Score=18.93 Aligned_cols=31 Identities=19% Similarity=0.417 Sum_probs=19.4
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026690 29 CNFAVSAVIGNIFSAIFTFFFALVGTLLGAM 59 (235)
Q Consensus 29 ~~~~~~~~~~~~~~~~~t~~fa~~g~~~ga~ 59 (235)
...++.-+.-+....++..+|++.|..+|..
T Consensus 18 ~ila~l~l~~GF~~tl~i~~~~~iG~~iG~~ 48 (51)
T PF10031_consen 18 LILALLILTFGFWKTLFILLFAAIGYYIGKY 48 (51)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444445555666677777777777776654
No 280
>PRK02870 heat shock protein HtpX; Provisional
Probab=24.68 E-value=95 Score=28.75 Aligned_cols=24 Identities=21% Similarity=0.325 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 026690 38 GNIFSAIFTFFFALVGTLLGAMTG 61 (235)
Q Consensus 38 ~~~~~~~~t~~fa~~g~~~ga~~g 61 (235)
-.++-+.++.+|+++|.++|.+.|
T Consensus 24 t~~l~~~~~~l~~~~g~~~~~~~~ 47 (336)
T PRK02870 24 TRAVIATYLAIFLFIGLLVDAIRI 47 (336)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhc
Confidence 346778889999999998886554
No 281
>TIGR01495 ETRAMP Plasmodium ring stage membrane protein ETRAMP. These genes have been shown to be found in the sub-telomeric regions of both P. falciparum and P. yoelii chromosomes.
Probab=24.67 E-value=63 Score=23.96 Aligned_cols=18 Identities=33% Similarity=0.488 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 026690 40 IFSAIFTFFFALVGTLLG 57 (235)
Q Consensus 40 ~~~~~~t~~fa~~g~~~g 57 (235)
++|++.|.+.+++||.+|
T Consensus 53 ~iS~ias~la~lv~t~~G 70 (85)
T TIGR01495 53 LYSSIASGLALLVGAGVG 70 (85)
T ss_pred ehHHHHHHHHHHHHHHHH
Confidence 577788888788887777
No 282
>PF10785 NADH-u_ox-rdase: NADH-ubiquinone oxidoreductase complex I, 21 kDa subunit; InterPro: IPR019721 This domain is found in the N-terminal region of NADH-ubiquinone oxidoreductase 21kDa subunits from plants and fungi [].
Probab=24.39 E-value=1.8e+02 Score=21.42 Aligned_cols=50 Identities=14% Similarity=0.130 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhcccccccchhhhhhhhhHhhHHhhh
Q 026690 40 IFSAIFTFFFALVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFSIE 89 (235)
Q Consensus 40 ~~~~~~t~~fa~~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav~s~e 89 (235)
++.+.+|..+-.+|-+.|-....-.+......+.-++.+|.++|-+++.+
T Consensus 26 ~~~a~~ta~~p~~~~~~~~~~~~~~~~~~~~~~~~a~~ig~~gGfl~ayq 75 (86)
T PF10785_consen 26 AIWAGATAASPPLGYYMERSAPSRVGRGGGPAMRLAGAIGFFGGFLLAYQ 75 (86)
T ss_pred HHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHH
Confidence 34444454444444444444433333333566777888899999887765
No 283
>PHA00380 tail protein
Probab=24.36 E-value=35 Score=33.34 Aligned_cols=27 Identities=22% Similarity=0.342 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhccc
Q 026690 41 FSAIFTFFFALVGTLLGAMTGALIGQE 67 (235)
Q Consensus 41 ~~~~~t~~fa~~g~~~ga~~ga~~g~~ 67 (235)
=|+++.+|.-.+|..++|+-||+.|.+
T Consensus 429 ds~~~~gi~~~~g~~~~a~gsa~~g~a 455 (599)
T PHA00380 429 DSILFNGIMNMIGSGISAVGSAAAGSA 455 (599)
T ss_pred hhhhhhhHHHHhhcchhhccccccccc
Confidence 356677888888999998888888776
No 284
>PF10247 Romo1: Reactive mitochondrial oxygen species modulator 1; InterPro: IPR018450 The majority of endogenous reactive oxygen species (ROS) in cells are produced by the mitochondrial respiratory chain. An increase or imbalance in ROS alters the intracellular redox homeostasis, triggers DNA damage, and may contribute to cancer development and progression. This entry contains the mitochondrial protein, reactive oxygen species modulator 1 (Romo1), that is responsible for increasing the level of ROS in cells. In various cancer cell lines with elevated levels of ROS there is also an increased abundance of Romo1 []. Increased Romo1 expression can have a number of other affects including: inducing premature senescence of cultured human fibroblasts [, ] and increased resistance to 5-fluorouracil [].
Probab=24.07 E-value=51 Score=23.41 Aligned_cols=9 Identities=22% Similarity=0.416 Sum_probs=4.1
Q ss_pred ccchhhhhh
Q 026690 70 SGFVRGAAV 78 (235)
Q Consensus 70 ~g~~~ga~~ 78 (235)
.+++|-.+.
T Consensus 38 ~~~~~~lg~ 46 (67)
T PF10247_consen 38 RGLMRTLGK 46 (67)
T ss_pred cchHhHHhH
Confidence 344554443
No 285
>PF12811 BaxI_1: Bax inhibitor 1 like ; InterPro: IPR010539 Bax inhibitor-1 (BI1) family contains six known genes in human. Some members of BI1 family have been proved to play important roles in cell death [, ].
Probab=23.83 E-value=4.4e+02 Score=23.79 Aligned_cols=38 Identities=24% Similarity=0.397 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHhhcccccc---------cchhhhhhhhhHhhHH
Q 026690 49 FALVGTLLGAMTGALIGQETES---------GFVRGAAVGAISGAVF 86 (235)
Q Consensus 49 fa~~g~~~ga~~ga~~g~~~~~---------g~~~ga~~gai~gav~ 86 (235)
.+++|+++|-+.+.+..+..+- .++.|..+|+||....
T Consensus 90 ~~~~g~i~glvl~lv~~F~~~~~sp~l~~~YA~~EG~flG~iS~~f~ 136 (274)
T PF12811_consen 90 LAIVGAIGGLVLALVISFKRKVWSPALAPIYAVLEGVFLGGISAVFE 136 (274)
T ss_pred HHHHHHHHHHHHHHHHHhCCccCChHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567777777777777776332 3568888888887654
No 286
>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=23.40 E-value=54 Score=19.53 Aligned_cols=19 Identities=21% Similarity=0.588 Sum_probs=10.3
Q ss_pred CCCcccHhhHHHHHhcCCCCCCccC
Q 026690 209 CHHMFHIPCIDKWLLGHASCPLCRR 233 (235)
Q Consensus 209 C~H~FH~~CI~~WL~~~~sCPlCR~ 233 (235)
|||++-..- ....||+|..
T Consensus 7 CGy~y~~~~------~~~~CP~Cg~ 25 (33)
T cd00350 7 CGYIYDGEE------APWVCPVCGA 25 (33)
T ss_pred CCCEECCCc------CCCcCcCCCC
Confidence 565554322 3346777754
No 287
>PF10821 DUF2567: Protein of unknown function (DUF2567); InterPro: IPR021213 This is a bacterial family of proteins with unknown function.
Probab=23.40 E-value=1.1e+02 Score=25.62 Aligned_cols=55 Identities=20% Similarity=0.248 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHHHHHhhccccc---ccchhhhhhhhhHhhHHhhhhhcchhhhhccCC
Q 026690 47 FFFALVGTLLGAMTGALIGQETE---SGFVRGAAVGAISGAVFSIEVFESSLVLWQSDE 102 (235)
Q Consensus 47 ~~fa~~g~~~ga~~ga~~g~~~~---~g~~~ga~~gai~gav~s~e~~~s~~~~w~~d~ 102 (235)
++|.+.+..+|.+++...=+..+ -.++=+..+|.+.|+.++.++=.-- .-|+.+.
T Consensus 49 a~f~~l~lv~Gvvaav~~W~~R~~RGP~~~~~l~~Gsv~aa~lA~~vG~~v-a~~r~~~ 106 (167)
T PF10821_consen 49 ALFVLLGLVLGVVAAVAVWLWRRRRGPVMVLALAVGSVAAAALAARVGAWV-ARLRYPD 106 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHHHHHHHHHHHHHH-HHHhcCC
Confidence 55666677788887777655433 2466788889999999988665443 3345444
No 288
>PF08566 Pam17: Mitochondrial import protein Pam17; InterPro: IPR013875 The presequence translocase-associated motor (PAM) drives the completion of preprotein translocation into the mitochondrial matrix. The Pam17 subunit is required for formation of a stable complex between cochaperones Pam16 and Pam18 and promotes the association of Pam16-Pam18 with the presequence translocase []. Mitochondria lacking Pam17 are selectively impaired in the import of matrix proteins [].
Probab=22.84 E-value=79 Score=26.63 Aligned_cols=15 Identities=20% Similarity=0.503 Sum_probs=6.8
Q ss_pred HHHhcchhhhhccCh
Q 026690 116 ASLLSGRLVRERIGP 130 (235)
Q Consensus 116 ~sll~GRl~re~i~p 130 (235)
+.-+-.|+.+.|+.|
T Consensus 118 e~eF~~rIkknRvDp 132 (173)
T PF08566_consen 118 EKEFLARIKKNRVDP 132 (173)
T ss_pred HHHHHHHHHHcCCCc
Confidence 333344555555443
No 289
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.80 E-value=43 Score=25.36 Aligned_cols=12 Identities=25% Similarity=0.736 Sum_probs=10.4
Q ss_pred cccHhhHHHHHh
Q 026690 212 MFHIPCIDKWLL 223 (235)
Q Consensus 212 ~FH~~CI~~WL~ 223 (235)
-||..|+.+|.+
T Consensus 42 gFCRNCLs~Wy~ 53 (104)
T COG3492 42 GFCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHHH
Confidence 489999999986
No 290
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=22.76 E-value=31 Score=32.36 Aligned_cols=47 Identities=26% Similarity=0.526 Sum_probs=25.7
Q ss_pred CCccCccccccccCCCceeecC--CCCCcc--------cHhhHHHHH-----hcCCCCCCccC
Q 026690 186 ERVSCSVCLQDFQLGETARSLP--HCHHMF--------HIPCIDKWL-----LGHASCPLCRR 233 (235)
Q Consensus 186 e~~~C~ICle~f~~ge~v~~Lp--~C~H~F--------H~~CI~~WL-----~~~~sCPlCR~ 233 (235)
.+.-||+|-+... |=....|. .|+-.| |+.|+++-- .++..||-||.
T Consensus 14 l~ElCPVCGDkVS-GYHYGLLTCESCKGFFKRTVQNnK~YtC~e~qnC~iDkTqRKRCP~CRF 75 (475)
T KOG4218|consen 14 LGELCPVCGDKVS-GYHYGLLTCESCKGFFKRTVQNNKQYTCSEEQNCHIDKTQRKRCPSCRF 75 (475)
T ss_pred cccccccccCccc-cceeeeeehhhhhhHHHHHhhcCcceecccccccccchHhhccCCchhH
Confidence 3457999987754 22233333 255443 445554321 13557999984
No 291
>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=22.59 E-value=16 Score=24.24 Aligned_cols=34 Identities=21% Similarity=0.520 Sum_probs=19.6
Q ss_pred ccCcc--ccccccCCCce----eecCCCCCcccHhhHHHH
Q 026690 188 VSCSV--CLQDFQLGETA----RSLPHCHHMFHIPCIDKW 221 (235)
Q Consensus 188 ~~C~I--Cle~f~~ge~v----~~Lp~C~H~FH~~CI~~W 221 (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 77776644322 456669999999888877
No 292
>PRK01343 zinc-binding protein; Provisional
Probab=22.53 E-value=48 Score=22.82 Aligned_cols=9 Identities=33% Similarity=1.058 Sum_probs=4.9
Q ss_pred CCCCCccCC
Q 026690 226 ASCPLCRRD 234 (235)
Q Consensus 226 ~sCPlCR~~ 234 (235)
..||+|+++
T Consensus 10 ~~CP~C~k~ 18 (57)
T PRK01343 10 RPCPECGKP 18 (57)
T ss_pred CcCCCCCCc
Confidence 346666553
No 293
>PRK09881 D-ala-D-ala transporter subunit; Provisional
Probab=22.39 E-value=1.6e+02 Score=26.53 Aligned_cols=40 Identities=18% Similarity=0.243 Sum_probs=27.2
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHhhccc
Q 026690 28 FCNFAVSAVIGNIFSAIFTFFFAL-VGTLLGAMTGALIGQE 67 (235)
Q Consensus 28 ~~~~~~~~~~~~~~~~~~t~~fa~-~g~~~ga~~ga~~g~~ 67 (235)
.+++.++|++.+.-..+...+.+. .++++|.+.|.++|+.
T Consensus 81 ~GrDv~~rl~~g~~~sl~ia~~~~~is~iiG~~lG~~ag~~ 121 (296)
T PRK09881 81 VGRDLFSRVLVGSQQSILAGLVVVAIAGMIGSLLGCLSGVL 121 (296)
T ss_pred CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 455678888877666665555443 5777777888887765
No 294
>PRK09430 djlA Dna-J like membrane chaperone protein; Provisional
Probab=22.14 E-value=53 Score=29.27 Aligned_cols=30 Identities=33% Similarity=0.724 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 026690 34 SAVIGNIFSAIFTFFFALVGTLLGAMTGALIGQ 66 (235)
Q Consensus 34 ~~~~~~~~~~~~t~~fa~~g~~~ga~~ga~~g~ 66 (235)
.+++|+++.=++.+.| |+++|.++|-+...
T Consensus 5 gki~g~~~G~~~~g~~---Ga~~G~~~Gh~~d~ 34 (267)
T PRK09430 5 GKILGFAFGFLFGGFF---GALLGLLIGHMFDK 34 (267)
T ss_pred HHHHHHHHHHHHhhHH---HHHHHHHHHhHHhh
Confidence 3566666666666665 66666666666554
No 295
>KOG4430 consensus Topoisomerase I-binding arginine-serine-rich protein [Transcription]
Probab=21.99 E-value=31 Score=34.06 Aligned_cols=51 Identities=14% Similarity=0.205 Sum_probs=44.1
Q ss_pred CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690 184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234 (235)
Q Consensus 184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~ 234 (235)
......|.+|+......+....+..|.|.+...|+.+|-.....||.|+..
T Consensus 257 q~~~~~~~~~~~~~~~~eqk~l~~~~~~~~g~tsl~~e~~~~~v~~~~~tk 307 (553)
T KOG4430|consen 257 QENKNACGLCLSEADAKEQKGLEGNNQRQTGATSLMEEEAVESVCPLRVTK 307 (553)
T ss_pred hhcccchhhchhhHhHHHhhhhhhcccchhhhhhhhhhhhhhhhhhccccc
Confidence 444678999999988878888888899999999999998888899999764
No 296
>PRK00420 hypothetical protein; Validated
Probab=21.91 E-value=68 Score=25.05 Aligned_cols=25 Identities=16% Similarity=0.214 Sum_probs=14.9
Q ss_pred ccCccccccccC-CCceeecCCCCCc
Q 026690 188 VSCSVCLQDFQL-GETARSLPHCHHM 212 (235)
Q Consensus 188 ~~C~ICle~f~~-ge~v~~Lp~C~H~ 212 (235)
..||+|-.++-. .+.....|.|+..
T Consensus 24 ~~CP~Cg~pLf~lk~g~~~Cp~Cg~~ 49 (112)
T PRK00420 24 KHCPVCGLPLFELKDGEVVCPVHGKV 49 (112)
T ss_pred CCCCCCCCcceecCCCceECCCCCCe
Confidence 578888877553 3444445556653
No 297
>COG4854 Predicted membrane protein [Function unknown]
Probab=21.84 E-value=1.2e+02 Score=23.88 Aligned_cols=37 Identities=24% Similarity=0.243 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHhhcccccccchhhhhhhhhHhhH
Q 026690 49 FALVGTLLGAMTGALIGQETESGFVRGAAVGAISGAV 85 (235)
Q Consensus 49 fa~~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav 85 (235)
|...|-++-+++||+.|++-++|=.-=|.+-.++|+.
T Consensus 7 ~~~~l~~ivm~~GA~~g~a~~sGn~~iav~af~ag~~ 43 (126)
T COG4854 7 YTKILFAIVMAVGAAVGYAVESGNWFIAVIAFFAGAA 43 (126)
T ss_pred HHHHHHHHHHHHHHHHheeecCCCeehHHHHHHHHHH
Confidence 4455667778899999999999987777777777765
No 298
>PF02382 RTX: RTX N-terminal domain; InterPro: IPR018504 Secretion of virulence factors in Gram-negative bacteria involves transportation of the protein across two membranes to reach the cell exterior []. Four principal exotoxin secretion systems have been described. In the type II and IV secretion systems, toxins are first exported to the periplasm by way of a cleaved N-terminal signal sequence; a second set of proteins is used for extracellular transport (type II), or the C terminus of the exotoxin itself is used (type IV). Type III secretion involves at least 20 molecules that assemble into a needle; effector proteins are then translocated through this without need of a signal sequence. In the Type I system, a complete channel is formed through both membranes, and the secretion signal is carried on the C terminus of the exotoxin. The RTX (repeats in toxin) family of cytolytic toxins belong to the Type I secretion system, and are important virulence factors in Gram-negative bacteria. As well as the C-terminal signal sequence, several glycine-rich repeats are also found. These are essential for binding calcium, and are critical for the biological activity of the secreted toxins []. All RTX toxin operons exist in the order rtxCABD, RtxA protein being the structural component of the exotoxin, both RtxB and D being required for its export from the bacterial cell; RtxC is an acyl-carrier-protein-dependent acyl- modification enzyme, required to convert RtxA to its active form []. Escherichia coli haemolysin (HlyA) is often quoted as the model for RTX toxins. Recent work on its relative rtxC gene product HlyC [] has revealed that it provides the acylation aspect for post-translational modification of two internal lysine residues in the HlyA protein. To cause pathogenicity, the HlyA toxin must first bind Ca2+ ions to the set of glycine-rich repeats and then be activated by HlyC []. This has been demonstrated both in vitro and in vivo. A number of the sequences in this family are metallopeptidases belonging to MEROPS peptidase family M10 (clan MA(M)), subfamily M10B: serralysin, epralysin and unassigned peptidases.; GO: 0005509 calcium ion binding, 0009405 pathogenesis, 0005576 extracellular region
Probab=21.84 E-value=83 Score=31.52 Aligned_cols=15 Identities=33% Similarity=0.479 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHhh
Q 026690 50 ALVGTLLGAMTGALI 64 (235)
Q Consensus 50 a~~g~~~ga~~ga~~ 64 (235)
|++|++|||-+.++.
T Consensus 382 AaaaS~VGAPIallV 396 (653)
T PF02382_consen 382 AAAASLVGAPIALLV 396 (653)
T ss_pred HHHhccccchHHHHH
Confidence 445555555555544
No 299
>PF03747 ADP_ribosyl_GH: ADP-ribosylglycohydrolase; InterPro: IPR005502 This family includes enzymes that perform ADP-ribosylations, such as ADP-ribosylarginine hydrolase 3.2.2.19 from EC which cleaves ADP-ribose-L-arginine []. The family also includes dinitrogenase reductase activating glycohydrolase [], and most surprisingly jellyfish crystallins [], although these proteins appear to have lost the presumed active site residues.; PDB: 3G9D_A 3O5T_A 1T5J_A 2QTY_A 2WOE_B 2WOD_B 2WOC_A 3HFW_A 2YZW_A 2CWC_A ....
Probab=21.81 E-value=70 Score=27.40 Aligned_cols=16 Identities=31% Similarity=0.729 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHhhccc
Q 026690 52 VGTLLGAMTGALIGQE 67 (235)
Q Consensus 52 ~g~~~ga~~ga~~g~~ 67 (235)
.|+++|++.||.-|..
T Consensus 268 ~aai~Gal~Ga~~G~~ 283 (289)
T PF03747_consen 268 IAAIVGALLGAYYGID 283 (289)
T ss_dssp HHHHHHHHHHHHHTGG
T ss_pred HHHHHHHHHHHHhCcC
Confidence 5788888888877754
No 300
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=21.69 E-value=1.1e+02 Score=28.16 Aligned_cols=47 Identities=17% Similarity=0.337 Sum_probs=26.9
Q ss_pred CCccCccccccccCCCceee--cCCCCCcccHhhHHHHHhcCCCCCCccC
Q 026690 186 ERVSCSVCLQDFQLGETARS--LPHCHHMFHIPCIDKWLLGHASCPLCRR 233 (235)
Q Consensus 186 e~~~C~ICle~f~~ge~v~~--Lp~C~H~FH~~CI~~WL~~~~sCPlCR~ 233 (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 3568999976632110 000 0111355566677777778888999854
No 301
>TIGR03750 conj_TIGR03750 conjugative transfer region protein, TIGR03750 family. Members of this protein family are found occasionally on plasmids. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=21.50 E-value=1.2e+02 Score=23.73 Aligned_cols=9 Identities=33% Similarity=0.767 Sum_probs=3.4
Q ss_pred hhhHhhHHh
Q 026690 79 GAISGAVFS 87 (235)
Q Consensus 79 gai~gav~s 87 (235)
|++.|.+++
T Consensus 54 ~~lig~~l~ 62 (111)
T TIGR03750 54 GALLGPILV 62 (111)
T ss_pred HHHHHHHHH
Confidence 333333333
No 302
>PRK10913 dipeptide transporter; Provisional
Probab=21.26 E-value=1.8e+02 Score=26.17 Aligned_cols=40 Identities=10% Similarity=0.149 Sum_probs=26.2
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHhhccc
Q 026690 28 FCNFAVSAVIGNIFSAIFTFFFAL-VGTLLGAMTGALIGQE 67 (235)
Q Consensus 28 ~~~~~~~~~~~~~~~~~~t~~fa~-~g~~~ga~~ga~~g~~ 67 (235)
-+++.++|++.+.-..+...+.+. .+.++|.+.|.++|+.
T Consensus 86 ~GrDv~~r~~~g~~~tl~i~~~a~~l~~~iG~~lG~~ag~~ 126 (300)
T PRK10913 86 VGRDVLSRLMYGARLSLLVGCLVVVLSLVMGVILGLIAGYF 126 (300)
T ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 456778888877665555554433 5666777777777765
No 303
>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=21.14 E-value=43 Score=30.65 Aligned_cols=46 Identities=17% Similarity=0.360 Sum_probs=25.6
Q ss_pred CccCccccccccCCCceee---cCCCCCcccHhhHHHHHhcCCCCCCccC
Q 026690 187 RVSCSVCLQDFQLGETARS---LPHCHHMFHIPCIDKWLLGHASCPLCRR 233 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~~---Lp~C~H~FH~~CI~~WL~~~~sCPlCR~ 233 (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 358999976632110 010 0011244555666677677888998854
No 304
>PRK15111 antimicrobial peptide ABC transporter permease SapC; Provisional
Probab=21.12 E-value=1.7e+02 Score=26.17 Aligned_cols=40 Identities=20% Similarity=0.283 Sum_probs=25.1
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHhhccc
Q 026690 28 FCNFAVSAVIGNIFSAIFTFFFA-LVGTLLGAMTGALIGQE 67 (235)
Q Consensus 28 ~~~~~~~~~~~~~~~~~~t~~fa-~~g~~~ga~~ga~~g~~ 67 (235)
.+++.++|++.+.-..+...+.+ +.++++|.+.|.++|+.
T Consensus 83 ~GrDv~srll~g~~~tL~ial~~~~la~viG~~lGi~ag~~ 123 (296)
T PRK15111 83 LGRDVLSRLLSGAAPTVGGAFVVTLAATLCGLVLGVFAGAT 123 (296)
T ss_pred CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45667788888776555444433 35666677777776664
No 305
>PRK12821 aspartyl/glutamyl-tRNA amidotransferase subunit C-like protein; Provisional
Probab=20.90 E-value=73 Score=30.86 Aligned_cols=21 Identities=19% Similarity=0.476 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHhhccccc
Q 026690 49 FALVGTLLGAMTGALIGQETE 69 (235)
Q Consensus 49 fa~~g~~~ga~~ga~~g~~~~ 69 (235)
-+++|.+.|++.|++.|..+|
T Consensus 102 i~l~G~LFGP~~G~l~g~lsD 122 (477)
T PRK12821 102 VKISGLLFGPIIGIFSAATID 122 (477)
T ss_pred HHHHHHHhhhHHHHHHHHHHH
Confidence 467899999999999988866
No 306
>PRK13731 conjugal transfer surface exclusion protein TraT; Provisional
Probab=20.88 E-value=70 Score=28.36 Aligned_cols=13 Identities=38% Similarity=0.424 Sum_probs=6.1
Q ss_pred HHHHHHHHHHHHh
Q 026690 51 LVGTLLGAMTGAL 63 (235)
Q Consensus 51 ~~g~~~ga~~ga~ 63 (235)
++|+.+|+.+|+.
T Consensus 121 ~~Gaa~G~~~~~y 133 (243)
T PRK13731 121 AVGAALGAGITGY 133 (243)
T ss_pred HHHHHhhhhhhcc
Confidence 3455555554443
No 307
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=20.75 E-value=55 Score=26.31 Aligned_cols=26 Identities=15% Similarity=0.181 Sum_probs=14.4
Q ss_pred ccCccccccccCCCceeecCCCCCcc
Q 026690 188 VSCSVCLQDFQLGETARSLPHCHHMF 213 (235)
Q Consensus 188 ~~C~ICle~f~~ge~v~~Lp~C~H~F 213 (235)
.+||.|-..+-..+.-...|.|+|.+
T Consensus 29 ~hCp~Cg~PLF~KdG~v~CPvC~~~~ 54 (131)
T COG1645 29 KHCPKCGTPLFRKDGEVFCPVCGYRE 54 (131)
T ss_pred hhCcccCCcceeeCCeEECCCCCceE
Confidence 46777776633344444455566543
No 308
>PRK13954 mscL large-conductance mechanosensitive channel; Provisional
Probab=20.75 E-value=2.8e+02 Score=21.91 Aligned_cols=55 Identities=22% Similarity=0.386 Sum_probs=30.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccc--hhhhhhhhhHhhHHhh
Q 026690 31 FAVSAVIGNIFSAIFTFFFALVGTLLGAMTGALIGQETESGF--VRGAAVGAISGAVFSI 88 (235)
Q Consensus 31 ~~~~~~~~~~~~~~~t~~fa~~g~~~ga~~ga~~g~~~~~g~--~~ga~~gai~gav~s~ 88 (235)
+++.-++|++++++.|- ++--++=+++|.+.|-.+-++. +.+...|++-.+++..
T Consensus 17 LAVaVvIG~AF~~iV~s---lV~diimPlI~~~~g~~~~~~~~~~~~i~yG~fl~avinF 73 (119)
T PRK13954 17 LAIAVVMGAAFNKIISS---LVENIIMPLIGKIFGSVDFAKEWSFWGIKYGLFIQSVIDF 73 (119)
T ss_pred HHHHHHHHHHHHHHHHH---HHHHhHhhccccccCCcccccchhhhhccHHHHHHHHHHH
Confidence 56666778887777764 4566666666776664422211 1233345555555433
No 309
>PF04286 DUF445: Protein of unknown function (DUF445); InterPro: IPR007383 This entry contains proteins of unknown function. They are predicted to be transmembrane proteins with 2 or 3 TM domains.
Probab=20.57 E-value=53 Score=29.52 Aligned_cols=12 Identities=50% Similarity=0.888 Sum_probs=6.3
Q ss_pred HHHHHHHHHHhh
Q 026690 53 GTLLGAMTGALI 64 (235)
Q Consensus 53 g~~~ga~~ga~~ 64 (235)
|++||+++|.+.
T Consensus 349 GallG~liG~~~ 360 (367)
T PF04286_consen 349 GALLGGLIGLLQ 360 (367)
T ss_pred hHHHHHHHHHHH
Confidence 555555555543
No 310
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=20.27 E-value=26 Score=31.84 Aligned_cols=35 Identities=29% Similarity=0.632 Sum_probs=25.5
Q ss_pred CCccCccccc-cccCCCceeecCCCCCcccHhhHHH
Q 026690 186 ERVSCSVCLQ-DFQLGETARSLPHCHHMFHIPCIDK 220 (235)
Q Consensus 186 e~~~C~ICle-~f~~ge~v~~Lp~C~H~FH~~CI~~ 220 (235)
+...|.+|-. +|..-+.-...-+||++||..|-..
T Consensus 167 ea~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~~Cs~n 202 (288)
T KOG1729|consen 167 EATECMVCGCTEFTLSERRHHCRNCGDIVCAPCSRN 202 (288)
T ss_pred cceecccCCCccccHHHHHHHHHhcchHhhhhhhcC
Confidence 4578999999 7775443333446999999998654
No 311
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=20.22 E-value=65 Score=28.24 Aligned_cols=20 Identities=25% Similarity=0.630 Sum_probs=13.6
Q ss_pred cHhhHHHHHhcCCCCCCccC
Q 026690 214 HIPCIDKWLLGHASCPLCRR 233 (235)
Q Consensus 214 H~~CI~~WL~~~~sCPlCR~ 233 (235)
|..|-..--+.-..||+|+.
T Consensus 197 C~sC~qqIHRNAPiCPlCK~ 216 (230)
T PF10146_consen 197 CQSCHQQIHRNAPICPLCKA 216 (230)
T ss_pred hHhHHHHHhcCCCCCccccc
Confidence 45555554456779999975
No 312
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=20.07 E-value=66 Score=28.22 Aligned_cols=27 Identities=19% Similarity=0.426 Sum_probs=20.1
Q ss_pred CccCccccccccCCCceeecCCCCCcccHh
Q 026690 187 RVSCSVCLQDFQLGETARSLPHCHHMFHIP 216 (235)
Q Consensus 187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~ 216 (235)
...|+.|-. ........|.|||.+|.+
T Consensus 309 S~~C~~cg~---~~~r~~~C~~cg~~~~rD 335 (364)
T COG0675 309 SKTCPCCGH---LSGRLFKCPRCGFVHDRD 335 (364)
T ss_pred cccccccCC---ccceeEECCCCCCeehhh
Confidence 358999988 223455677899999987
No 313
>PF12670 DUF3792: Protein of unknown function (DUF3792); InterPro: IPR023804 Members of this family of strongly hydrophobic putative transmembrane protein average about 125 amino acids in length and occur mostly, but not exclusively, in the Firmicutes. Members are quite diverse in sequence. Their function is unknown.
Probab=20.04 E-value=2.2e+02 Score=21.80 Aligned_cols=33 Identities=21% Similarity=0.412 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHh-hcc-cccccchhhhhhhhhHhh
Q 026690 52 VGTLLGAMTGAL-IGQ-ETESGFVRGAAVGAISGA 84 (235)
Q Consensus 52 ~g~~~ga~~ga~-~g~-~~~~g~~~ga~~gai~ga 84 (235)
+..+++.++|++ +|+ ..+.|++.|...|.+=-.
T Consensus 45 ~i~~ls~~~GG~~a~~~~~~kG~l~G~~~Gl~y~~ 79 (116)
T PF12670_consen 45 IIYILSVFIGGFYAGRKAGSKGWLHGLLVGLLYFL 79 (116)
T ss_pred HHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHH
Confidence 555555555543 333 467799997777755433
Done!