Query 010219
Match_columns 515
No_of_seqs 220 out of 1174
Neff 4.0
Searched_HMMs 46136
Date Thu Mar 28 22:26:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/010219.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/010219hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1609 Protein involved in mR 99.7 5.9E-18 1.3E-22 166.5 6.4 204 267-471 69-282 (323)
2 smart00744 RINGv The RING-vari 99.5 1.6E-14 3.5E-19 111.0 3.4 49 278-327 1-49 (49)
3 PHA02825 LAP/PHD finger-like p 99.4 6.9E-13 1.5E-17 124.2 6.7 59 271-333 3-61 (162)
4 PHA02862 5L protein; Provision 99.3 1.4E-12 3.1E-17 120.6 5.3 55 276-334 2-56 (156)
5 PF12906 RINGv: RING-variant d 99.3 6.1E-13 1.3E-17 101.5 2.4 47 279-326 1-47 (47)
6 COG5183 SSM4 Protein involved 99.1 1E-10 2.3E-15 129.8 7.5 63 272-335 8-70 (1175)
7 KOG4628 Predicted E3 ubiquitin 99.1 4.5E-11 9.7E-16 123.9 3.5 51 277-333 230-280 (348)
8 PF13639 zf-RING_2: Ring finge 99.0 4.3E-10 9.4E-15 83.2 3.1 44 277-327 1-44 (44)
9 KOG3053 Uncharacterized conser 98.8 1.5E-09 3.2E-14 108.6 1.3 66 273-338 17-89 (293)
10 PF12678 zf-rbx1: RING-H2 zinc 98.6 7.1E-08 1.5E-12 79.5 4.4 44 277-327 20-73 (73)
11 COG5540 RING-finger-containing 98.4 1.4E-07 3E-12 96.6 3.9 52 274-331 321-372 (374)
12 PHA02929 N1R/p28-like protein; 98.3 4.5E-07 9.7E-12 90.4 3.6 51 276-333 174-229 (238)
13 COG5243 HRD1 HRD ubiquitin lig 98.2 8.5E-07 1.8E-11 93.0 3.1 52 273-331 284-345 (491)
14 PF12861 zf-Apc11: Anaphase-pr 98.1 1.3E-06 2.7E-11 75.1 2.6 52 276-332 21-83 (85)
15 cd00162 RING RING-finger (Real 98.1 3.4E-06 7.4E-11 59.7 3.2 45 278-330 1-45 (45)
16 PLN03208 E3 ubiquitin-protein 98.0 4.6E-06 1E-10 81.0 4.2 50 275-332 17-80 (193)
17 PF13920 zf-C3HC4_3: Zinc fing 97.9 1.3E-05 2.8E-10 60.9 3.9 47 276-332 2-49 (50)
18 KOG0802 E3 ubiquitin ligase [P 97.9 5E-06 1.1E-10 90.8 2.1 50 274-330 289-340 (543)
19 KOG1493 Anaphase-promoting com 97.7 8.9E-06 1.9E-10 69.0 1.0 50 278-332 22-82 (84)
20 smart00184 RING Ring finger. E 97.7 2.2E-05 4.7E-10 53.6 2.7 39 279-326 1-39 (39)
21 PF00097 zf-C3HC4: Zinc finger 97.6 6.2E-05 1.3E-09 54.5 3.3 41 279-326 1-41 (41)
22 PHA02926 zinc finger-like prot 97.6 4.8E-05 1E-09 75.7 3.1 56 274-334 168-233 (242)
23 COG5194 APC11 Component of SCF 97.5 4.9E-05 1.1E-09 65.0 2.4 49 277-332 21-82 (88)
24 PF13923 zf-C3HC4_2: Zinc fing 97.5 8.6E-05 1.9E-09 53.9 3.2 39 279-326 1-39 (39)
25 COG5219 Uncharacterized conser 97.4 3.4E-05 7.3E-10 88.3 0.2 51 275-332 1468-1524(1525)
26 KOG0823 Predicted E3 ubiquitin 97.3 0.00033 7.1E-09 69.8 4.9 52 273-332 44-96 (230)
27 PF11793 FANCL_C: FANCL C-term 97.1 0.00016 3.4E-09 59.6 1.1 53 276-331 2-66 (70)
28 KOG0828 Predicted E3 ubiquitin 97.1 0.00022 4.8E-09 77.4 1.9 58 268-331 563-634 (636)
29 KOG1734 Predicted RING-contain 97.1 0.00015 3.3E-09 73.9 0.4 51 276-331 224-281 (328)
30 PF14634 zf-RING_5: zinc-RING 97.0 0.00043 9.4E-09 51.6 2.5 44 278-328 1-44 (44)
31 KOG0317 Predicted E3 ubiquitin 97.0 0.00044 9.4E-09 70.9 3.1 58 268-335 231-288 (293)
32 smart00504 Ubox Modified RING 97.0 0.00079 1.7E-08 52.3 3.7 45 277-331 2-46 (63)
33 KOG0320 Predicted E3 ubiquitin 96.7 0.0011 2.3E-08 64.3 2.9 60 264-331 119-178 (187)
34 KOG0804 Cytoplasmic Zn-finger 96.6 0.00083 1.8E-08 72.3 1.3 49 274-331 173-222 (493)
35 TIGR00599 rad18 DNA repair pro 96.5 0.0014 3.1E-08 70.0 2.5 48 275-332 25-72 (397)
36 KOG0827 Predicted E3 ubiquitin 96.5 0.0012 2.6E-08 70.2 1.9 47 276-327 4-52 (465)
37 KOG0825 PHD Zn-finger protein 96.5 0.0022 4.7E-08 73.0 3.7 54 275-335 122-175 (1134)
38 KOG4265 Predicted E3 ubiquitin 96.4 0.0034 7.3E-08 66.0 4.3 51 272-332 286-337 (349)
39 KOG2930 SCF ubiquitin ligase, 96.3 0.0019 4.1E-08 57.9 1.8 29 296-331 80-108 (114)
40 PF09679 TraQ: Type-F conjugat 96.1 0.0065 1.4E-07 52.8 4.0 42 431-472 21-62 (93)
41 PF15227 zf-C3HC4_4: zinc fing 96.1 0.0059 1.3E-07 45.7 3.1 40 279-326 1-42 (42)
42 KOG1645 RING-finger-containing 95.9 0.0049 1.1E-07 66.0 3.0 53 275-332 3-57 (463)
43 KOG2164 Predicted E3 ubiquitin 95.4 0.18 4E-06 55.6 12.3 49 276-332 186-237 (513)
44 PF04564 U-box: U-box domain; 95.4 0.019 4.2E-07 47.1 3.8 49 275-332 3-51 (73)
45 KOG4445 Uncharacterized conser 95.3 0.0059 1.3E-07 63.4 0.6 52 276-332 115-187 (368)
46 PF13445 zf-RING_UBOX: RING-ty 95.3 0.017 3.7E-07 43.9 2.9 40 279-324 1-43 (43)
47 KOG2177 Predicted E3 ubiquitin 94.5 0.015 3.2E-07 54.1 1.1 45 274-328 11-55 (386)
48 PF05883 Baculo_RING: Baculovi 93.9 0.027 5.8E-07 52.5 1.3 41 276-316 26-67 (134)
49 TIGR00570 cdk7 CDK-activating 93.5 0.067 1.5E-06 55.8 3.6 51 276-332 3-55 (309)
50 COG5432 RAD18 RING-finger-cont 92.3 0.068 1.5E-06 55.7 1.6 47 276-332 25-71 (391)
51 KOG1785 Tyrosine kinase negati 91.9 0.063 1.4E-06 57.8 0.9 48 277-332 370-417 (563)
52 COG5574 PEX10 RING-finger-cont 91.6 0.12 2.6E-06 53.0 2.4 53 273-334 212-265 (271)
53 PF14570 zf-RING_4: RING/Ubox 91.5 0.11 2.5E-06 40.7 1.7 46 279-331 1-48 (48)
54 KOG0801 Predicted E3 ubiquitin 91.2 0.087 1.9E-06 50.9 1.1 28 276-308 177-204 (205)
55 PF10367 Vps39_2: Vacuolar sor 91.2 0.11 2.3E-06 44.0 1.5 31 276-312 78-108 (109)
56 KOG1428 Inhibitor of type V ad 91.1 0.14 3.1E-06 62.1 2.7 55 273-332 3483-3545(3738)
57 KOG1039 Predicted E3 ubiquitin 90.4 0.13 2.9E-06 54.3 1.6 57 274-335 159-225 (344)
58 KOG0287 Postreplication repair 89.7 0.14 3E-06 54.4 1.0 46 277-332 24-69 (442)
59 KOG1941 Acetylcholine receptor 89.4 0.11 2.3E-06 56.1 -0.1 51 273-328 362-413 (518)
60 PF07800 DUF1644: Protein of u 89.2 0.44 9.5E-06 45.8 3.9 53 275-332 1-92 (162)
61 PF08746 zf-RING-like: RING-li 87.8 0.26 5.6E-06 37.4 1.1 23 304-326 21-43 (43)
62 KOG1952 Transcription factor N 84.7 0.5 1.1E-05 55.0 1.9 59 275-337 190-253 (950)
63 KOG0824 Predicted E3 ubiquitin 84.3 0.48 1E-05 49.6 1.4 47 276-331 7-53 (324)
64 KOG0311 Predicted E3 ubiquitin 83.5 0.19 4.1E-06 53.5 -1.9 48 276-331 43-90 (381)
65 COG5175 MOT2 Transcriptional r 82.6 0.82 1.8E-05 48.8 2.3 54 274-334 12-67 (480)
66 COG2246 Predicted membrane pro 80.7 10 0.00022 35.3 8.4 56 422-477 83-138 (139)
67 KOG3970 Predicted E3 ubiquitin 80.5 1.4 3E-05 44.9 2.9 50 276-331 50-105 (299)
68 PF11789 zf-Nse: Zinc-finger o 79.1 1.8 3.9E-05 34.7 2.6 43 276-325 11-53 (57)
69 COG5152 Uncharacterized conser 77.8 1.1 2.5E-05 44.7 1.4 47 276-332 196-242 (259)
70 COG5236 Uncharacterized conser 76.6 2.2 4.9E-05 45.7 3.2 54 274-335 59-112 (493)
71 KOG4172 Predicted E3 ubiquitin 75.1 0.94 2E-05 37.0 0.0 48 277-333 8-56 (62)
72 PF14012 DUF4229: Protein of u 75.1 6.6 0.00014 32.7 5.0 60 420-482 1-62 (69)
73 KOG1002 Nucleotide excision re 75.0 1.1 2.5E-05 50.1 0.6 49 275-331 535-586 (791)
74 PF07895 DUF1673: Protein of u 74.9 18 0.0004 35.6 8.9 34 440-479 151-184 (205)
75 PF10272 Tmpp129: Putative tra 72.6 3.9 8.4E-05 43.9 3.8 29 307-335 316-355 (358)
76 KOG0802 E3 ubiquitin ligase [P 70.1 2.5 5.4E-05 46.9 1.8 53 266-332 469-521 (543)
77 PF14446 Prok-RING_1: Prokaryo 69.9 4.4 9.5E-05 32.7 2.7 45 275-330 4-51 (54)
78 KOG0827 Predicted E3 ubiquitin 69.8 0.5 1.1E-05 51.0 -3.5 49 277-332 197-246 (465)
79 KOG0309 Conserved WD40 repeat- 69.2 2.7 5.9E-05 48.9 1.9 41 277-325 1029-1069(1081)
80 KOG3039 Uncharacterized conser 68.4 15 0.00033 38.1 6.7 52 275-333 220-272 (303)
81 KOG2879 Predicted E3 ubiquitin 68.0 6.9 0.00015 40.9 4.3 52 274-333 237-289 (298)
82 KOG0978 E3 ubiquitin ligase in 68.0 1.7 3.7E-05 50.0 0.0 46 277-331 644-689 (698)
83 KOG1973 Chromatin remodeling p 67.1 2.9 6.3E-05 42.7 1.5 37 295-331 233-270 (274)
84 COG2995 PqiA Uncharacterized p 66.7 9.3 0.0002 41.7 5.2 81 397-478 273-354 (418)
85 KOG2114 Vacuolar assembly/sort 64.9 3.1 6.8E-05 48.8 1.3 45 277-333 841-885 (933)
86 KOG4159 Predicted E3 ubiquitin 64.8 2.6 5.7E-05 45.7 0.7 51 274-334 82-132 (398)
87 PLN02189 cellulose synthase 64.7 5.1 0.00011 48.1 3.0 53 276-333 34-89 (1040)
88 PF05290 Baculo_IE-1: Baculovi 64.4 3.9 8.6E-05 38.6 1.6 54 277-333 81-134 (140)
89 KOG1100 Predicted E3 ubiquitin 64.3 3.5 7.6E-05 40.9 1.4 40 278-331 160-200 (207)
90 PLN02195 cellulose synthase A 64.0 6.9 0.00015 46.8 3.8 52 274-331 4-59 (977)
91 PF14569 zf-UDP: Zinc-binding 62.9 7.5 0.00016 33.7 2.9 53 276-334 9-65 (80)
92 PLN02638 cellulose synthase A 61.9 6.8 0.00015 47.3 3.3 52 276-333 17-72 (1079)
93 PF04641 Rtf2: Rtf2 RING-finge 61.4 11 0.00023 38.2 4.2 54 273-334 110-164 (260)
94 KOG1940 Zn-finger protein [Gen 60.8 4.2 9.2E-05 42.2 1.3 47 278-332 160-207 (276)
95 PLN02915 cellulose synthase A 60.6 9.1 0.0002 46.1 4.1 53 274-332 13-69 (1044)
96 KOG1571 Predicted E3 ubiquitin 60.4 6.2 0.00014 42.3 2.5 46 274-332 303-348 (355)
97 KOG4692 Predicted E3 ubiquitin 60.3 6.3 0.00014 42.6 2.5 49 274-332 420-468 (489)
98 PLN02400 cellulose synthase 57.3 7.2 0.00016 47.1 2.6 52 276-333 36-91 (1085)
99 PLN02436 cellulose synthase A 57.1 8.3 0.00018 46.6 3.0 52 276-332 36-90 (1094)
100 PF09726 Macoilin: Transmembra 57.1 33 0.00072 39.9 7.7 18 385-402 65-82 (697)
101 KOG3268 Predicted E3 ubiquitin 57.0 7.3 0.00016 38.7 2.1 52 274-331 163-228 (234)
102 COG5034 TNG2 Chromatin remodel 56.1 7.9 0.00017 40.0 2.3 26 304-329 245-270 (271)
103 KOG2660 Locus-specific chromos 55.6 3.6 7.9E-05 43.6 -0.2 50 276-334 15-64 (331)
104 KOG2034 Vacuolar sorting prote 55.3 5.5 0.00012 47.0 1.2 36 275-316 816-851 (911)
105 PRK07668 hypothetical protein; 55.0 29 0.00063 35.7 6.1 105 362-467 74-195 (254)
106 COG4769 Predicted membrane pro 54.6 66 0.0014 31.7 8.1 39 446-485 140-178 (181)
107 PF02932 Neur_chan_memb: Neuro 53.4 56 0.0012 28.6 6.9 22 420-441 59-82 (237)
108 PRK05978 hypothetical protein; 52.1 84 0.0018 30.0 8.3 19 313-333 47-65 (148)
109 PRK11098 microcin B17 transpor 51.1 29 0.00063 37.9 5.7 53 365-427 16-68 (409)
110 PF10947 DUF2628: Protein of u 51.1 24 0.00052 30.8 4.2 52 421-473 56-107 (108)
111 KOG2568 Predicted membrane pro 50.5 49 0.0011 37.4 7.4 34 446-479 387-420 (518)
112 KOG1813 Predicted E3 ubiquitin 49.1 9.4 0.0002 40.2 1.6 48 276-333 241-288 (313)
113 KOG1814 Predicted E3 ubiquitin 49.0 10 0.00022 41.6 1.8 53 277-334 185-243 (445)
114 PF14447 Prok-RING_4: Prokaryo 48.7 9.9 0.00021 30.9 1.3 45 276-332 7-51 (55)
115 COG0842 ABC-type multidrug tra 47.9 1.1E+02 0.0025 28.7 8.5 47 386-440 115-161 (286)
116 PF01146 Caveolin: Caveolin; 47.1 68 0.0015 30.7 6.8 28 392-424 75-102 (148)
117 PF02487 CLN3: CLN3 protein; 47.1 48 0.001 36.1 6.6 73 370-442 248-332 (402)
118 KOG4583 Membrane-associated ER 44.9 66 0.0014 34.8 7.0 50 419-481 263-312 (391)
119 KOG0955 PHD finger protein BR1 44.1 9.2 0.0002 46.2 0.7 53 274-331 217-271 (1051)
120 smart00249 PHD PHD zinc finger 43.6 8.2 0.00018 27.2 0.1 29 278-312 1-30 (47)
121 KOG0956 PHD finger protein AF1 43.4 10 0.00022 44.0 0.9 59 276-334 117-185 (900)
122 PF01306 LacY_symp: LacY proto 43.4 77 0.0017 34.6 7.5 80 380-459 30-117 (412)
123 KOG0826 Predicted E3 ubiquitin 42.7 21 0.00046 38.2 3.0 59 264-331 288-346 (357)
124 TIGR00927 2A1904 K+-dependent 42.4 58 0.0013 39.6 6.7 24 74-97 362-386 (1096)
125 PF11712 Vma12: Endoplasmic re 40.9 26 0.00056 32.4 3.0 31 443-473 106-136 (142)
126 KOG3676 Ca2+-permeable cation 39.8 92 0.002 36.9 7.7 28 417-444 544-571 (782)
127 KOG1451 Oligophrenin-1 and rel 36.8 1.5E+02 0.0033 34.5 8.5 30 165-194 697-726 (812)
128 PHA03096 p28-like protein; Pro 35.1 21 0.00046 37.2 1.6 50 277-331 179-234 (284)
129 PRK01766 multidrug efflux prot 35.1 1.1E+02 0.0024 32.3 6.9 57 419-476 390-446 (456)
130 PF06570 DUF1129: Protein of u 35.0 1E+02 0.0023 29.9 6.3 14 397-410 117-130 (206)
131 PF14835 zf-RING_6: zf-RING of 34.9 12 0.00026 31.4 -0.2 44 277-331 8-51 (65)
132 PF02592 DUF165: Uncharacteriz 34.8 1.3E+02 0.0028 27.8 6.6 30 446-475 66-95 (145)
133 PF15013 CCSMST1: CCSMST1 fami 34.4 29 0.00063 30.0 2.0 22 360-381 29-51 (77)
134 KOG0297 TNF receptor-associate 34.4 19 0.00042 38.7 1.2 49 274-331 19-67 (391)
135 KOG3005 GIY-YIG type nuclease 34.2 32 0.0007 35.9 2.7 54 277-331 183-243 (276)
136 KOG4275 Predicted E3 ubiquitin 34.1 15 0.00033 38.9 0.4 43 276-332 300-343 (350)
137 PF04138 GtrA: GtrA-like prote 33.9 1.9E+02 0.0041 24.7 7.0 41 427-471 74-114 (117)
138 COG3671 Predicted membrane pro 32.5 57 0.0012 30.5 3.7 18 447-465 78-95 (125)
139 PF06123 CreD: Inner membrane 32.2 1.4E+02 0.0031 33.0 7.3 11 33-43 51-61 (430)
140 COG1682 TagG ABC-type polysacc 31.7 1.2E+02 0.0027 31.0 6.4 26 446-471 147-172 (263)
141 PRK13727 conjugal transfer pil 31.5 39 0.00085 29.2 2.3 46 431-478 21-66 (80)
142 PF03616 Glt_symporter: Sodium 31.2 70 0.0015 34.2 4.7 47 422-468 310-357 (368)
143 PF05297 Herpes_LMP1: Herpesvi 31.2 16 0.00035 38.7 0.0 15 367-381 30-44 (381)
144 COG5232 SEC62 Preprotein trans 31.0 55 0.0012 33.5 3.6 48 373-436 162-209 (259)
145 PRK12911 bifunctional preprote 30.9 81 0.0018 39.5 5.6 59 419-477 932-990 (1403)
146 KOG0825 PHD Zn-finger protein 30.7 20 0.00044 42.3 0.7 52 270-327 209-264 (1134)
147 COG4331 Predicted membrane pro 29.9 1.2E+02 0.0026 29.4 5.5 60 412-475 98-157 (167)
148 TIGR01129 secD protein-export 29.5 74 0.0016 34.5 4.6 49 428-476 280-328 (397)
149 KOG1729 FYVE finger containing 29.2 11 0.00025 39.3 -1.5 37 277-318 215-251 (288)
150 KOG4443 Putative transcription 28.7 25 0.00055 40.6 1.0 33 293-327 34-75 (694)
151 TIGR00955 3a01204 The Eye Pigm 28.4 3.2E+02 0.0069 30.9 9.5 23 393-415 441-463 (617)
152 MTH00107 ND4L NADH dehydrogena 27.6 2.5E+02 0.0053 24.6 6.7 57 416-473 23-83 (98)
153 COG4847 Uncharacterized protei 27.4 49 0.0011 29.9 2.3 35 276-316 6-40 (103)
154 KOG3618 Adenylyl cyclase [Gene 27.4 1.4E+02 0.0031 35.9 6.5 59 385-444 100-162 (1318)
155 PF00628 PHD: PHD-finger; Int 27.2 29 0.00064 25.9 0.8 45 278-328 1-50 (51)
156 cd03512 Alkane-hydroxylase Alk 26.7 1.8E+02 0.0038 30.5 6.6 44 417-461 41-84 (314)
157 TIGR02741 TraQ type-F conjugat 26.7 58 0.0013 28.2 2.5 46 431-478 21-66 (80)
158 COG4792 EscU Type III secretor 26.7 2.5E+02 0.0055 30.3 7.7 75 370-466 35-114 (349)
159 COG5220 TFB3 Cdk activating ki 26.4 26 0.00057 36.3 0.6 50 276-331 10-64 (314)
160 KOG0269 WD40 repeat-containing 26.3 47 0.001 39.1 2.6 44 277-328 780-825 (839)
161 PF11674 DUF3270: Protein of u 26.1 1.2E+02 0.0027 26.8 4.6 34 431-465 52-85 (90)
162 PF04973 NMN_transporter: Nico 25.9 4.5E+02 0.0097 25.0 8.7 34 408-443 123-156 (181)
163 KOG4185 Predicted E3 ubiquitin 25.7 54 0.0012 33.2 2.6 48 277-330 4-54 (296)
164 PRK05415 hypothetical protein; 25.5 1.1E+02 0.0024 32.9 5.0 48 439-486 90-137 (341)
165 PF13901 DUF4206: Domain of un 25.4 46 0.00099 32.7 2.0 41 276-328 152-197 (202)
166 KOG1074 Transcriptional repres 24.8 2.8E+02 0.0061 33.5 8.3 14 320-333 665-681 (958)
167 KOG4323 Polycomb-like PHD Zn-f 24.8 22 0.00047 39.6 -0.3 54 277-334 169-229 (464)
168 KOG0956 PHD finger protein AF1 24.4 45 0.00098 39.0 2.0 62 274-336 3-78 (900)
169 PF03854 zf-P11: P-11 zinc fin 24.4 41 0.00089 26.9 1.2 26 304-331 21-46 (50)
170 COG4485 Predicted membrane pro 24.3 3.1E+02 0.0066 32.8 8.3 14 412-425 347-360 (858)
171 COG3256 NorB Nitric oxide redu 24.2 2.4E+02 0.0052 33.1 7.4 90 386-476 331-452 (717)
172 KOG3059 N-acetylglucosaminyltr 24.1 1.8E+02 0.0039 30.8 6.1 40 375-414 151-191 (292)
173 TIGR00918 2A060602 The Eukaryo 24.0 1.3E+02 0.0029 37.1 5.9 50 420-469 993-1042(1145)
174 PF07907 YibE_F: YibE/F-like p 23.4 2.3E+02 0.0049 28.9 6.6 100 371-474 4-103 (244)
175 MTH00043 ND4L NADH dehydrogena 23.4 3.6E+02 0.0077 23.5 6.9 57 416-473 23-83 (98)
176 KOG2927 Membrane component of 23.3 82 0.0018 34.2 3.5 19 386-404 212-230 (372)
177 PF06305 DUF1049: Protein of u 23.2 51 0.0011 26.1 1.6 21 457-477 29-49 (68)
178 PF12811 BaxI_1: Bax inhibitor 22.9 3.6E+02 0.0079 28.3 8.0 19 394-412 205-223 (274)
179 KOG3161 Predicted E3 ubiquitin 22.8 28 0.0006 40.4 -0.0 44 277-330 12-56 (861)
180 KOG3899 Uncharacterized conser 22.7 43 0.00092 35.7 1.3 31 306-336 329-370 (381)
181 PRK13735 conjugal transfer mat 22.4 2.8E+02 0.0061 33.8 7.9 30 397-428 340-369 (942)
182 COG0670 Integral membrane prot 22.4 4.4E+02 0.0095 26.8 8.3 33 431-463 129-161 (233)
183 PLN03211 ABC transporter G-25; 22.4 2.5E+02 0.0055 32.3 7.4 22 394-415 488-509 (659)
184 KOG1001 Helicase-like transcri 22.1 43 0.00093 38.9 1.2 48 277-333 455-502 (674)
185 TIGR01129 secD protein-export 21.8 2.5E+02 0.0053 30.6 6.8 27 40-68 47-73 (397)
186 PF01440 Gemini_AL2: Geminivir 21.5 23 0.0005 33.4 -0.8 34 292-328 32-65 (134)
187 KOG4556 Predicted membrane pro 21.3 4.3E+02 0.0093 26.6 7.6 68 377-444 16-83 (205)
188 TIGR00697 conserved hypothetic 21.3 4.2E+02 0.0092 26.1 7.8 29 447-475 101-129 (202)
189 PF15038 Jiraiya: Jiraiya 21.3 2.7E+02 0.0059 27.5 6.3 43 436-478 124-166 (175)
190 PRK11644 sensory histidine kin 21.3 3.8E+02 0.0083 29.4 8.2 56 400-457 82-144 (495)
191 KOG4812 Golgi-associated prote 21.0 34 0.00074 35.3 0.2 47 434-484 211-257 (262)
192 PRK11652 emrD multidrug resist 21.0 6.3E+02 0.014 25.5 9.2 10 453-462 306-315 (394)
193 PRK05812 secD preprotein trans 21.0 2.4E+02 0.0051 31.8 6.6 43 433-475 370-412 (498)
194 KOG0510 Ankyrin repeat protein 20.7 2.9E+02 0.0063 33.3 7.4 26 430-455 651-676 (929)
195 PF10112 Halogen_Hydrol: 5-bro 20.7 1.5E+02 0.0033 28.5 4.5 17 443-459 30-46 (199)
196 PF01102 Glycophorin_A: Glycop 20.7 42 0.00091 31.1 0.7 35 445-483 64-98 (122)
197 PF14256 YwiC: YwiC-like prote 20.6 5.3E+02 0.011 23.8 7.8 78 361-445 24-106 (129)
198 COG0765 HisM ABC-type amino ac 20.6 1.8E+02 0.0039 29.4 5.1 70 396-473 32-112 (222)
199 PF15110 TMEM141: TMEM141 prot 20.6 65 0.0014 28.9 1.8 56 399-479 33-88 (94)
200 PF10571 UPF0547: Uncharacteri 20.2 29 0.00063 24.0 -0.4 12 320-331 14-25 (26)
201 KOG2290 Rhomboid family protei 20.1 2.5E+02 0.0053 32.0 6.3 30 257-286 349-378 (652)
No 1
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=99.72 E-value=5.9e-18 Score=166.49 Aligned_cols=204 Identities=27% Similarity=0.374 Sum_probs=143.0
Q ss_pred CCCCCCCCCcccceecccccccCC-ceEeecCCCCCccceecHhhHHHHHhhcCCCcccccccccccccccccccccccc
Q 010219 267 ADGEDIPEEEAVCRICLVELCEGG-ETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQNLPVTLLRIQSTRF 345 (515)
Q Consensus 267 d~~ed~~Eee~~CRIClee~ee~d-~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~nlpv~llRiq~~~t 345 (515)
++.++.+.++..||||+++.++.. ..++.||.|+|+++++|+.|+++|+..|++..||+|++.+.+..+...+......
T Consensus 69 ~~~~~~~~~~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~~~~~~~~~~~~~ 148 (323)
T KOG1609|consen 69 ESLEESPSSGPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINVGTKLKPLIVISK 148 (323)
T ss_pred CccccCCCCCCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceecceeecceeehhh
Confidence 344445555789999998764432 1688999999999999999999999999999999999999987655433322111
Q ss_pred ccCCCCCccccc----ccceeccccchhhHHHHHHHHHHHHHHHhhcccchhhhcc-chHHHHHHHHhhhhhhhhhhHHH
Q 010219 346 RNGARGQLSDLN----GYRVWQEVPVLVIVSMLAYFCFLEQLLVAKMGTGAIAISL-PFSCVLGLLASMTSSTMVKRRFV 420 (515)
Q Consensus 346 ~~~~~a~~~~~~----~yr~Wq~~pvLViismLayF~fLeqLlv~~lg~~Alaisl-Pfs~iLGlL~s~~as~mv~r~yi 420 (515)
.. .+....... ....|....+.+.+..++++++.+..+....+........ +..+.+|++...+...+....|+
T Consensus 149 ~~-~~~~~~~~~~~~~~~~~~~~~~i~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~ 227 (323)
T KOG1609|consen 149 VR-SGALSERTLSGMILLKVALLVAIIVSVLPLLLGLLFELVLGVPSLVVESPLANPLALVALGLLGFKIWIFIILSGYI 227 (323)
T ss_pred hh-hHhhhheeeehhhhhhhhhhheeeEEeehhhhhhhHHHhccccccccCCCccCchhheeecceechHHHHHHHHHHH
Confidence 00 001100101 1112333444445566778888777776666654443344 45566999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhh--hhHHHH-HH-HhhcccceeeehhhhHHHH
Q 010219 421 WVYASFQFALVVLFAHIFYSLVGV--QAVLSI-LL-ATFSGFGVAMSGSSILVEF 471 (515)
Q Consensus 421 W~yA~~qF~lvvl~~hiFY~~~~~--~~v~~i-ll-~t~~gfgi~m~~~~~~~~~ 471 (515)
|++.+..+.++.+...+|+....+ .+++.. ++ +.+.|++++.+.-.+++..
T Consensus 228 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 282 (323)
T KOG1609|consen 228 FILKSLKVKLVLIRAVIFLLLIKVVLAAVVILQLLLQRLVGYLLANSLTPLYIVS 282 (323)
T ss_pred HHHHHHHHHHhHhhhhccchhhhhhhhhHHHHHHHHhcceeEEEecccceeeecc
Confidence 999999999999999999888777 233333 33 3389999999888888775
No 2
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=99.48 E-value=1.6e-14 Score=110.99 Aligned_cols=49 Identities=43% Similarity=1.051 Sum_probs=44.6
Q ss_pred cceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCcccccc
Q 010219 278 VCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCK 327 (515)
Q Consensus 278 ~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk 327 (515)
.||||++ .+++++.+++||.|+|+++++|..||++|+..+++.+||+|+
T Consensus 1 ~CrIC~~-~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC-CCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 5999998 445677889999999999999999999999998899999996
No 3
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=99.37 E-value=6.9e-13 Score=124.19 Aligned_cols=59 Identities=31% Similarity=0.662 Sum_probs=50.6
Q ss_pred CCCCCcccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCcccccccccccc
Q 010219 271 DIPEEEAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQNL 333 (515)
Q Consensus 271 d~~Eee~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~nl 333 (515)
+..+.+..||||+++.+ ....||.|+|+++++|++|+++|+..+++..||+|+++|...
T Consensus 3 ~~s~~~~~CRIC~~~~~----~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 3 DVSLMDKCCWICKDEYD----VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred CcCCCCCeeEecCCCCC----CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 34456789999997742 235799999999999999999999999999999999999854
No 4
>PHA02862 5L protein; Provisional
Probab=99.32 E-value=1.4e-12 Score=120.57 Aligned_cols=55 Identities=25% Similarity=0.591 Sum_probs=48.1
Q ss_pred cccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCccccccccccccc
Q 010219 276 EAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQNLP 334 (515)
Q Consensus 276 e~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~nlp 334 (515)
.+.||||+++.+++ .-||+|+|+++++|++|+.+|++.+++..||+|+++|..-+
T Consensus 2 ~diCWIC~~~~~e~----~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~ 56 (156)
T PHA02862 2 SDICWICNDVCDER----NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKK 56 (156)
T ss_pred CCEEEEecCcCCCC----cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEE
Confidence 45899999875322 58999999999999999999999999999999999998544
No 5
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=99.32 E-value=6.1e-13 Score=101.51 Aligned_cols=47 Identities=36% Similarity=0.977 Sum_probs=37.6
Q ss_pred ceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCccccc
Q 010219 279 CRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVC 326 (515)
Q Consensus 279 CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLC 326 (515)
||||+++.++++ .++.||.|+|+++++|.+||++|+..+++.+|++|
T Consensus 1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 899998875443 78999999999999999999999999999999998
No 6
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=99.11 E-value=1e-10 Score=129.77 Aligned_cols=63 Identities=30% Similarity=0.785 Sum_probs=54.5
Q ss_pred CCCCcccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCcccccccccccccc
Q 010219 272 IPEEEAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQNLPV 335 (515)
Q Consensus 272 ~~Eee~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~nlpv 335 (515)
..++.+.||||+.|.. .|+++--||+|.|+++|+|++|+..|+..+++.+|++|+++|+...+
T Consensus 8 mN~d~~~CRICr~e~~-~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~I 70 (1175)
T COG5183 8 MNEDKRSCRICRTEDI-RDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDI 70 (1175)
T ss_pred CCccchhceeecCCCC-CCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeee
Confidence 3344578999998764 45678899999999999999999999999999999999999997654
No 7
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.09 E-value=4.5e-11 Score=123.86 Aligned_cols=51 Identities=29% Similarity=0.673 Sum_probs=46.1
Q ss_pred ccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCcccccccccccc
Q 010219 277 AVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQNL 333 (515)
Q Consensus 277 ~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~nl 333 (515)
+.|+||+|+|+++|.+++|||+ |.||..||++||... ...||+||++...-
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~-----H~FH~~CIDpWL~~~-r~~CPvCK~di~~~ 280 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCS-----HKFHVNCIDPWLTQT-RTFCPVCKRDIRTD 280 (348)
T ss_pred ceEEEeecccccCCeeeEecCC-----CchhhccchhhHhhc-CccCCCCCCcCCCC
Confidence 6899999999999999999999 999999999999973 45699999988753
No 8
>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=98.95 E-value=4.3e-10 Score=83.23 Aligned_cols=44 Identities=34% Similarity=0.926 Sum_probs=38.8
Q ss_pred ccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCcccccc
Q 010219 277 AVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCK 327 (515)
Q Consensus 277 ~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk 327 (515)
+.|.||+++++.++....++|+ |.||.+||.+|++. +.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C~-----H~fh~~Ci~~~~~~--~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPCG-----HVFHRSCIKEWLKR--NNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETTS-----EEEEHHHHHHHHHH--SSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEccCC-----CeeCHHHHHHHHHh--CCcCCccC
Confidence 3699999999888888999999 99999999999998 56999997
No 9
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=98.79 E-value=1.5e-09 Score=108.59 Aligned_cols=66 Identities=26% Similarity=0.544 Sum_probs=52.4
Q ss_pred CCCcccceecccccccCCce-EeecCCCCCccceecHhhHHHHHhhcC--C----Cccccccccccccccccc
Q 010219 273 PEEEAVCRICLVELCEGGET-FKMECSCKGELALAHKECAIKWFTMKG--N----KTCDVCKQEVQNLPVTLL 338 (515)
Q Consensus 273 ~Eee~~CRIClee~ee~d~~-l~LPC~CkGslh~~H~~CL~kWL~~kg--n----~tCpLCk~~~~nlpv~ll 338 (515)
.|.|..|+||+...+++... .+-||.|+|+.|++|+.|+.+|+..|. + -.|+.|+++|..+-+.+.
T Consensus 17 ~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv~P~l~ 89 (293)
T KOG3053|consen 17 QELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIVFPQLG 89 (293)
T ss_pred cccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheeeccccC
Confidence 45678999999776554433 689999999999999999999998652 2 389999999997655443
No 10
>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=98.55 E-value=7.1e-08 Score=79.50 Aligned_cols=44 Identities=27% Similarity=0.646 Sum_probs=33.5
Q ss_pred ccceecccccccC----------CceEeecCCCCCccceecHhhHHHHHhhcCCCcccccc
Q 010219 277 AVCRICLVELCEG----------GETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCK 327 (515)
Q Consensus 277 ~~CRIClee~ee~----------d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk 327 (515)
+.|.||++.+.+. -.+...+|+ |.||.+||.+||+. +.+||+||
T Consensus 20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~-----H~FH~~Ci~~Wl~~--~~~CP~CR 73 (73)
T PF12678_consen 20 DNCAICREPLEDPCPECQAPQDECPIVWGPCG-----HIFHFHCISQWLKQ--NNTCPLCR 73 (73)
T ss_dssp SBETTTTSBTTSTTCCHHHCTTTS-EEEETTS-----EEEEHHHHHHHHTT--SSB-TTSS
T ss_pred CcccccChhhhChhhhhcCCccccceEecccC-----CCEEHHHHHHHHhc--CCcCCCCC
Confidence 3599999988321 123445799 99999999999987 66999997
No 11
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.43 E-value=1.4e-07 Score=96.65 Aligned_cols=52 Identities=21% Similarity=0.585 Sum_probs=45.5
Q ss_pred CCcccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCcccccccccc
Q 010219 274 EEEAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQ 331 (515)
Q Consensus 274 Eee~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~ 331 (515)
..+-.|.||++.+-.+|..+.+||. |.||..|+++|+.- -+..||+|+.++.
T Consensus 321 ~~GveCaICms~fiK~d~~~vlPC~-----H~FH~~Cv~kW~~~-y~~~CPvCrt~iP 372 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLPCD-----HRFHVGCVDKWLLG-YSNKCPVCRTAIP 372 (374)
T ss_pred CCCceEEEEhhhhcccceEEEeccC-----ceechhHHHHHHhh-hcccCCccCCCCC
Confidence 3457899999999888889999999 99999999999982 2678999999875
No 12
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.29 E-value=4.5e-07 Score=90.36 Aligned_cols=51 Identities=22% Similarity=0.547 Sum_probs=40.5
Q ss_pred cccceecccccccCCc-----eEeecCCCCCccceecHhhHHHHHhhcCCCcccccccccccc
Q 010219 276 EAVCRICLVELCEGGE-----TFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQNL 333 (515)
Q Consensus 276 e~~CRIClee~ee~d~-----~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~nl 333 (515)
+..|.||++++.+.+. ....+|+ |.||.+||.+|++. +.+||+||..+..+
T Consensus 174 ~~eC~ICle~~~~~~~~~~~~~vl~~C~-----H~FC~~CI~~Wl~~--~~tCPlCR~~~~~v 229 (238)
T PHA02929 174 DKECAICMEKVYDKEIKNMYFGILSNCN-----HVFCIECIDIWKKE--KNTCPVCRTPFISV 229 (238)
T ss_pred CCCCccCCcccccCccccccceecCCCC-----CcccHHHHHHHHhc--CCCCCCCCCEeeEE
Confidence 4579999998754321 2345799 99999999999986 77999999998854
No 13
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.19 E-value=8.5e-07 Score=92.96 Aligned_cols=52 Identities=23% Similarity=0.717 Sum_probs=42.4
Q ss_pred CCCcccceecccccccCC----------ceEeecCCCCCccceecHhhHHHHHhhcCCCcccccccccc
Q 010219 273 PEEEAVCRICLVELCEGG----------ETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQ 331 (515)
Q Consensus 273 ~Eee~~CRIClee~ee~d----------~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~ 331 (515)
..++..|.||++|+-+.+ .+.+|||+ |.+|-+|++.|+.. ..+|||||..+.
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCG-----HilHl~CLknW~ER--qQTCPICr~p~i 345 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCG-----HILHLHCLKNWLER--QQTCPICRRPVI 345 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCccccccc-----ceeeHHHHHHHHHh--ccCCCcccCccc
Confidence 344679999999953322 34689999 99999999999987 889999999854
No 14
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.14 E-value=1.3e-06 Score=75.10 Aligned_cols=52 Identities=27% Similarity=0.677 Sum_probs=38.8
Q ss_pred cccceeccccccc--------C-CceEee-cCCCCCccceecHhhHHHHHhhc-CCCccccccccccc
Q 010219 276 EAVCRICLVELCE--------G-GETFKM-ECSCKGELALAHKECAIKWFTMK-GNKTCDVCKQEVQN 332 (515)
Q Consensus 276 e~~CRIClee~ee--------~-d~~l~L-PC~CkGslh~~H~~CL~kWL~~k-gn~tCpLCk~~~~n 332 (515)
++.|.||...++. + +-++.. .|+ |.||.+||.+|+... .+..||+||++++.
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~-----H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCS-----HNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccCc-----cHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 4579999887752 1 122333 488 999999999999863 56799999999873
No 15
>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=98.06 E-value=3.4e-06 Score=59.69 Aligned_cols=45 Identities=29% Similarity=0.794 Sum_probs=36.3
Q ss_pred cceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCccccccccc
Q 010219 278 VCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEV 330 (515)
Q Consensus 278 ~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~ 330 (515)
.|.||++.+ .+.....+|+ |.||..|++.|++. ++..||+|+..+
T Consensus 1 ~C~iC~~~~--~~~~~~~~C~-----H~~c~~C~~~~~~~-~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEF--REPVVLLPCG-----HVFCRSCIDKWLKS-GKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhh--hCceEecCCC-----ChhcHHHHHHHHHh-CcCCCCCCCCcC
Confidence 499999887 3344555699 99999999999985 677899999764
No 16
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.01 E-value=4.6e-06 Score=81.01 Aligned_cols=50 Identities=28% Similarity=0.598 Sum_probs=40.5
Q ss_pred CcccceecccccccCCceEeecCCCCCccceecHhhHHHHHhh--------------cCCCccccccccccc
Q 010219 275 EEAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTM--------------KGNKTCDVCKQEVQN 332 (515)
Q Consensus 275 ee~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~--------------kgn~tCpLCk~~~~n 332 (515)
++..|.||++.+. +...++|+ |.|...||.+|+.. ++...||+|+..+..
T Consensus 17 ~~~~CpICld~~~---dPVvT~CG-----H~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 17 GDFDCNICLDQVR---DPVVTLCG-----HLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred CccCCccCCCcCC---CcEEcCCC-----chhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 4678999998763 35678999 99999999999863 234689999999974
No 17
>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=97.89 E-value=1.3e-05 Score=60.94 Aligned_cols=47 Identities=26% Similarity=0.692 Sum_probs=38.8
Q ss_pred cccceecccccccCCceEeecCCCCCccce-ecHhhHHHHHhhcCCCccccccccccc
Q 010219 276 EAVCRICLVELCEGGETFKMECSCKGELAL-AHKECAIKWFTMKGNKTCDVCKQEVQN 332 (515)
Q Consensus 276 e~~CRIClee~ee~d~~l~LPC~CkGslh~-~H~~CL~kWL~~kgn~tCpLCk~~~~n 332 (515)
+..|.||++.. .+...+||+ |. +-..|+.+|++. +..||+|++.+..
T Consensus 2 ~~~C~iC~~~~---~~~~~~pCg-----H~~~C~~C~~~~~~~--~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 2 DEECPICFENP---RDVVLLPCG-----HLCFCEECAERLLKR--KKKCPICRQPIES 49 (50)
T ss_dssp HSB-TTTSSSB---SSEEEETTC-----EEEEEHHHHHHHHHT--TSBBTTTTBB-SE
T ss_pred cCCCccCCccC---CceEEeCCC-----ChHHHHHHhHHhccc--CCCCCcCChhhcC
Confidence 56899999874 347889999 99 999999999994 8899999998864
No 18
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.89 E-value=5e-06 Score=90.77 Aligned_cols=50 Identities=30% Similarity=0.788 Sum_probs=42.8
Q ss_pred CCcccceecccccccCCc--eEeecCCCCCccceecHhhHHHHHhhcCCCccccccccc
Q 010219 274 EEEAVCRICLVELCEGGE--TFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEV 330 (515)
Q Consensus 274 Eee~~CRIClee~ee~d~--~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~ 330 (515)
+.+..|.||++++..+.+ ..+|+|+ |.||..|+..||+. ..+||+||.++
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~-----Hifh~~CL~~W~er--~qtCP~CR~~~ 340 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLPCG-----HIFHDSCLRSWFER--QQTCPTCRTVL 340 (543)
T ss_pred hcCCeeeeechhhccccccccceeecc-----cchHHHHHHHHHHH--hCcCCcchhhh
Confidence 346789999999865544 6889999 99999999999998 88999999943
No 19
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=97.75 E-value=8.9e-06 Score=68.97 Aligned_cols=50 Identities=24% Similarity=0.580 Sum_probs=39.5
Q ss_pred cceeccccccc---------CCceEeec-CCCCCccceecHhhHHHHHhhcCC-Cccccccccccc
Q 010219 278 VCRICLVELCE---------GGETFKME-CSCKGELALAHKECAIKWFTMKGN-KTCDVCKQEVQN 332 (515)
Q Consensus 278 ~CRIClee~ee---------~d~~l~LP-C~CkGslh~~H~~CL~kWL~~kgn-~tCpLCk~~~~n 332 (515)
+|-||...++. ++-+++++ |. |.||.+||.+|+..+.+ ..||.||++++.
T Consensus 22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~-----h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~ 82 (84)
T KOG1493|consen 22 TCGICRMPFDGCCPDCKLPGDDCPLVWGYCL-----HAFHAHCILKWLNTPTSQGQCPMCRQTWQF 82 (84)
T ss_pred ccceEecccCCcCCCCcCCCCCCccHHHHHH-----HHHHHHHHHHHhcCccccccCCcchheeEe
Confidence 89999988852 23345554 88 99999999999987654 599999999874
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=97.74 E-value=2.2e-05 Score=53.60 Aligned_cols=39 Identities=36% Similarity=0.905 Sum_probs=33.1
Q ss_pred ceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCccccc
Q 010219 279 CRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVC 326 (515)
Q Consensus 279 CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLC 326 (515)
|.||++. ......++|+ |.||..|++.|++ .++..||+|
T Consensus 1 C~iC~~~---~~~~~~~~C~-----H~~c~~C~~~~~~-~~~~~CP~C 39 (39)
T smart00184 1 CPICLEE---LKDPVVLPCG-----HTFCRSCIRKWLK-SGNNTCPIC 39 (39)
T ss_pred CCcCccC---CCCcEEecCC-----ChHHHHHHHHHHH-hCcCCCCCC
Confidence 7899876 3467889999 9999999999998 457789988
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=97.59 E-value=6.2e-05 Score=54.51 Aligned_cols=41 Identities=27% Similarity=0.780 Sum_probs=35.1
Q ss_pred ceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCccccc
Q 010219 279 CRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVC 326 (515)
Q Consensus 279 CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLC 326 (515)
|.||++.+.+ ....++|+ |.|+..|+.+|++.++...||+|
T Consensus 1 C~iC~~~~~~--~~~~~~C~-----H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFED--PVILLPCG-----HSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSS--EEEETTTS-----EEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccC--CCEEecCC-----CcchHHHHHHHHHhcCCccCCcC
Confidence 7899987643 34589999 99999999999997778899998
No 22
>PHA02926 zinc finger-like protein; Provisional
Probab=97.56 E-value=4.8e-05 Score=75.66 Aligned_cols=56 Identities=18% Similarity=0.526 Sum_probs=41.0
Q ss_pred CCcccceecccccccC----C-c-eEeecCCCCCccceecHhhHHHHHhhc----CCCccccccccccccc
Q 010219 274 EEEAVCRICLVELCEG----G-E-TFKMECSCKGELALAHKECAIKWFTMK----GNKTCDVCKQEVQNLP 334 (515)
Q Consensus 274 Eee~~CRIClee~ee~----d-~-~l~LPC~CkGslh~~H~~CL~kWL~~k----gn~tCpLCk~~~~nlp 334 (515)
..+.+|.||++..-+. + . .+..+|+ |.|...||.+|.+.+ ..+.||+||..+..+-
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~Cn-----HsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~ 233 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCN-----HIFCITCINIWHRTRRETGASDNCPICRTRFRNIT 233 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCC-----chHHHHHHHHHHHhccccCcCCcCCCCcceeeeec
Confidence 3457899999865221 1 1 2334699 999999999999864 2467999999998653
No 23
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=97.53 E-value=4.9e-05 Score=65.03 Aligned_cols=49 Identities=24% Similarity=0.568 Sum_probs=36.4
Q ss_pred ccceecccccc-----------cCCc-eEee-cCCCCCccceecHhhHHHHHhhcCCCccccccccccc
Q 010219 277 AVCRICLVELC-----------EGGE-TFKM-ECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQN 332 (515)
Q Consensus 277 ~~CRIClee~e-----------e~d~-~l~L-PC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~n 332 (515)
+.|.||...+. .+++ ...- -|+ |.||.+||.+||.+ +..||+|++.++.
T Consensus 21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~Cn-----HaFH~HCI~rWL~T--k~~CPld~q~w~~ 82 (88)
T COG5194 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCN-----HAFHDHCIYRWLDT--KGVCPLDRQTWVL 82 (88)
T ss_pred chhhhhhccccCcCcccccCCCCCCcceEEEEecc-----hHHHHHHHHHHHhh--CCCCCCCCceeEE
Confidence 57888876542 1222 2222 399 99999999999998 6789999999873
No 24
>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=97.51 E-value=8.6e-05 Score=53.90 Aligned_cols=39 Identities=38% Similarity=0.761 Sum_probs=31.6
Q ss_pred ceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCccccc
Q 010219 279 CRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVC 326 (515)
Q Consensus 279 CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLC 326 (515)
|.||++.+.+ ....++|+ |.|..+|+.+|++. +..||+|
T Consensus 1 C~iC~~~~~~--~~~~~~CG-----H~fC~~C~~~~~~~--~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTPCG-----HSFCKECIEKYLEK--NPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECTTS-----EEEEHHHHHHHHHC--TSB-TTT
T ss_pred CCCCCCcccC--cCEECCCC-----CchhHHHHHHHHHC--cCCCcCC
Confidence 7899987633 44789999 99999999999997 6899998
No 25
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.42 E-value=3.4e-05 Score=88.31 Aligned_cols=51 Identities=25% Similarity=0.619 Sum_probs=39.0
Q ss_pred CcccceecccccccCCceEeec------CCCCCccceecHhhHHHHHhhcCCCccccccccccc
Q 010219 275 EEAVCRICLVELCEGGETFKME------CSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQN 332 (515)
Q Consensus 275 ee~~CRIClee~ee~d~~l~LP------C~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~n 332 (515)
+...|+||..-+..-+ +.+| |+ |.||..|+-+||+++++.+||+||.++..
T Consensus 1468 G~eECaICYsvL~~vd--r~lPskrC~TCk-----nKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219 1468 GHEECAICYSVLDMVD--RSLPSKRCATCK-----NKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred CcchhhHHHHHHHHHh--ccCCccccchhh-----hhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence 4567999976542111 3343 66 89999999999999999999999988753
No 26
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.26 E-value=0.00033 Score=69.83 Aligned_cols=52 Identities=31% Similarity=0.546 Sum_probs=43.2
Q ss_pred CCCcccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCC-Cccccccccccc
Q 010219 273 PEEEAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGN-KTCDVCKQEVQN 332 (515)
Q Consensus 273 ~Eee~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn-~tCpLCk~~~~n 332 (515)
+...-.|-||++.- .++.+..|+ |.|=-.||-+||..+.+ +.||+||.++..
T Consensus 44 ~~~~FdCNICLd~a---kdPVvTlCG-----HLFCWpClyqWl~~~~~~~~cPVCK~~Vs~ 96 (230)
T KOG0823|consen 44 DGGFFDCNICLDLA---KDPVVTLCG-----HLFCWPCLYQWLQTRPNSKECPVCKAEVSI 96 (230)
T ss_pred CCCceeeeeecccc---CCCEEeecc-----cceehHHHHHHHhhcCCCeeCCcccccccc
Confidence 45578899999764 456888999 99999999999997655 567999999984
No 27
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.15 E-value=0.00016 Score=59.56 Aligned_cols=53 Identities=28% Similarity=0.614 Sum_probs=24.4
Q ss_pred cccceecccccccCCceEeecC---CCCCccceecHhhHHHHHhhcCC---------Ccccccccccc
Q 010219 276 EAVCRICLVELCEGGETFKMEC---SCKGELALAHKECAIKWFTMKGN---------KTCDVCKQEVQ 331 (515)
Q Consensus 276 e~~CRIClee~ee~d~~l~LPC---~CkGslh~~H~~CL~kWL~~kgn---------~tCpLCk~~~~ 331 (515)
+..|.||.....++++...+-| .|+ +.||..||.+||....+ ..||.|+.++.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~---~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCG---KKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT-------B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccC---CHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 3469999987643444433433 232 67999999999974211 26999999876
No 28
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.09 E-value=0.00022 Score=77.37 Aligned_cols=58 Identities=21% Similarity=0.571 Sum_probs=41.7
Q ss_pred CCCCCCCCcccceecccccc---cC-C----------ceEeecCCCCCccceecHhhHHHHHhhcCCCcccccccccc
Q 010219 268 DGEDIPEEEAVCRICLVELC---EG-G----------ETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQ 331 (515)
Q Consensus 268 ~~ed~~Eee~~CRIClee~e---e~-d----------~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~ 331 (515)
++|.-.+....|.||+...+ ++ + +-...||+ |.||..|+++|... .+-.||+|+..+.
T Consensus 563 h~~~~~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~-----HifH~~CL~~WMd~-ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 563 HLEAFVRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCH-----HIFHRQCLLQWMDT-YKLICPVCRCPLP 634 (636)
T ss_pred cccchhhccccceEeccccceeeccCcchhhhhhhhccccccchH-----HHHHHHHHHHHHhh-hcccCCccCCCCC
Confidence 33333455788999998763 11 1 23345999 99999999999984 2458999998765
No 29
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.07 E-value=0.00015 Score=73.88 Aligned_cols=51 Identities=27% Similarity=0.724 Sum_probs=42.5
Q ss_pred cccceecccccccC-------CceEeecCCCCCccceecHhhHHHHHhhcCCCcccccccccc
Q 010219 276 EAVCRICLVELCEG-------GETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQ 331 (515)
Q Consensus 276 e~~CRIClee~ee~-------d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~ 331 (515)
+..|+||-..+... +++-+|-|+ |.||..||.-|--..++.+||-||..+.
T Consensus 224 d~vCaVCg~~~~~s~~eegvienty~LsCn-----HvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 224 DSVCAVCGQQIDVSVDEEGVIENTYKLSCN-----HVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred cchhHhhcchheeecchhhhhhhheeeecc-----cchHHHhhhhheeecCCCCCchHHHHhh
Confidence 56899996655322 256789999 9999999999999878899999999887
No 30
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=97.04 E-value=0.00043 Score=51.64 Aligned_cols=44 Identities=20% Similarity=0.532 Sum_probs=37.9
Q ss_pred cceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCccccccc
Q 010219 278 VCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQ 328 (515)
Q Consensus 278 ~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~ 328 (515)
.|.||++.+.+......+.|+ |.|...|++++. .....||+|++
T Consensus 1 ~C~~C~~~~~~~~~~~l~~Cg-----H~~C~~C~~~~~--~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCG-----HIFCEKCLKKLK--GKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccC-----CHHHHHHHHhhc--CCCCCCcCCCC
Confidence 389999999555677889999 999999999999 45779999985
No 31
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.02 E-value=0.00044 Score=70.89 Aligned_cols=58 Identities=22% Similarity=0.577 Sum_probs=47.0
Q ss_pred CCCCCCCCcccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCcccccccccccccc
Q 010219 268 DGEDIPEEEAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQNLPV 335 (515)
Q Consensus 268 ~~ed~~Eee~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~nlpv 335 (515)
++..+++....|-+|++.- .++--.||+ |.|=-.||..|... +.-||+||..+..-.+
T Consensus 231 ~~~~i~~a~~kC~LCLe~~---~~pSaTpCG-----HiFCWsCI~~w~~e--k~eCPlCR~~~~pskv 288 (293)
T KOG0317|consen 231 SLSSIPEATRKCSLCLENR---SNPSATPCG-----HIFCWSCILEWCSE--KAECPLCREKFQPSKV 288 (293)
T ss_pred CCccCCCCCCceEEEecCC---CCCCcCcCc-----chHHHHHHHHHHcc--ccCCCcccccCCCcce
Confidence 3456677789999999764 345679999 99999999999998 5569999999985433
No 32
>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=96.99 E-value=0.00079 Score=52.33 Aligned_cols=45 Identities=18% Similarity=0.268 Sum_probs=38.1
Q ss_pred ccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCcccccccccc
Q 010219 277 AVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQ 331 (515)
Q Consensus 277 ~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~ 331 (515)
-.|.||++-+.+ +..++|+ |.|-+.||.+|++. +.+||+|+..+.
T Consensus 2 ~~Cpi~~~~~~~---Pv~~~~G-----~v~~~~~i~~~~~~--~~~cP~~~~~~~ 46 (63)
T smart00504 2 FLCPISLEVMKD---PVILPSG-----QTYERRAIEKWLLS--HGTDPVTGQPLT 46 (63)
T ss_pred cCCcCCCCcCCC---CEECCCC-----CEEeHHHHHHHHHH--CCCCCCCcCCCC
Confidence 369999987643 5778998 99999999999986 678999998874
No 33
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.72 E-value=0.0011 Score=64.28 Aligned_cols=60 Identities=17% Similarity=0.394 Sum_probs=46.9
Q ss_pred CCCCCCCCCCCCcccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCcccccccccc
Q 010219 264 NNDADGEDIPEEEAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQ 331 (515)
Q Consensus 264 ~~ed~~ed~~Eee~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~ 331 (515)
..++.++..+++-.-|.|||+.+.+ ..+.-..|+ |.|=..||+.-++. .+.||+|+..+.
T Consensus 119 ~~k~v~~~~~~~~~~CPiCl~~~se-k~~vsTkCG-----HvFC~~Cik~alk~--~~~CP~C~kkIt 178 (187)
T KOG0320|consen 119 RDKDVDPLRKEGTYKCPICLDSVSE-KVPVSTKCG-----HVFCSQCIKDALKN--TNKCPTCRKKIT 178 (187)
T ss_pred ccccccccccccccCCCceecchhh-ccccccccc-----hhHHHHHHHHHHHh--CCCCCCcccccc
Confidence 3455556666777899999998854 223447799 99999999999987 889999998554
No 34
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=96.57 E-value=0.00083 Score=72.33 Aligned_cols=49 Identities=24% Similarity=0.647 Sum_probs=39.7
Q ss_pred CCcccceecccccccC-CceEeecCCCCCccceecHhhHHHHHhhcCCCcccccccccc
Q 010219 274 EEEAVCRICLVELCEG-GETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQ 331 (515)
Q Consensus 274 Eee~~CRIClee~ee~-d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~ 331 (515)
-|-..|.|||+.+++. +.++...|. |-||..|+.+|-.. +||+||+.-.
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~c~-----Hsfh~~cl~~w~~~----scpvcR~~q~ 222 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTILCN-----HSFHCSCLMKWWDS----SCPVCRYCQS 222 (493)
T ss_pred ccCCCcchhHhhcCccccceeeeecc-----cccchHHHhhcccC----cChhhhhhcC
Confidence 4467999999988543 234667799 99999999999754 8999999877
No 35
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=96.51 E-value=0.0014 Score=69.99 Aligned_cols=48 Identities=21% Similarity=0.403 Sum_probs=40.0
Q ss_pred CcccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCccccccccccc
Q 010219 275 EEAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQN 332 (515)
Q Consensus 275 ee~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~n 332 (515)
....|.||++.+. ....++|+ |.|...||..|+.. ...||+|+..+..
T Consensus 25 ~~l~C~IC~d~~~---~PvitpCg-----H~FCs~CI~~~l~~--~~~CP~Cr~~~~~ 72 (397)
T TIGR00599 25 TSLRCHICKDFFD---VPVLTSCS-----HTFCSLCIRRCLSN--QPKCPLCRAEDQE 72 (397)
T ss_pred cccCCCcCchhhh---CccCCCCC-----CchhHHHHHHHHhC--CCCCCCCCCcccc
Confidence 4568999998763 34578999 99999999999986 4589999998864
No 36
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.51 E-value=0.0012 Score=70.22 Aligned_cols=47 Identities=26% Similarity=0.660 Sum_probs=34.4
Q ss_pred cccceecccccccCCceEee-cCCCCCccceecHhhHHHHHhhcCC-Ccccccc
Q 010219 276 EAVCRICLVELCEGGETFKM-ECSCKGELALAHKECAIKWFTMKGN-KTCDVCK 327 (515)
Q Consensus 276 e~~CRIClee~ee~d~~l~L-PC~CkGslh~~H~~CL~kWL~~kgn-~tCpLCk 327 (515)
.+.|.||-+......+.-.. .|+ |.||..|+.+||..--. +.||+|+
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cG-----hifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCG-----HIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred cceeeEeccCCccccccccccchh-----hHHHHHHHHHHHccCCccCCCCcee
Confidence 46799995443333333333 499 99999999999985444 6999999
No 37
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=96.47 E-value=0.0022 Score=73.00 Aligned_cols=54 Identities=24% Similarity=0.370 Sum_probs=44.2
Q ss_pred CcccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCcccccccccccccc
Q 010219 275 EEAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQNLPV 335 (515)
Q Consensus 275 ee~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~nlpv 335 (515)
....|.+|+..+.++...-..+|. |+||.+||+.|-+. -.+||+|+.+|.-+.|
T Consensus 122 ~~~~CP~Ci~s~~DqL~~~~k~c~-----H~FC~~Ci~sWsR~--aqTCPiDR~EF~~v~V 175 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLEESEKHTA-----HYFCEECVGSWSRC--AQTCPVDRGEFGEVKV 175 (1134)
T ss_pred hhhhhhHHHHHHHHHhhccccccc-----cccHHHHhhhhhhh--cccCchhhhhhheeee
Confidence 356899998877554445567899 99999999999987 8899999999986654
No 38
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.38 E-value=0.0034 Score=66.04 Aligned_cols=51 Identities=27% Similarity=0.569 Sum_probs=40.4
Q ss_pred CCCCcccceecccccccCCceEeecCCCCCccce-ecHhhHHHHHhhcCCCccccccccccc
Q 010219 272 IPEEEAVCRICLVELCEGGETFKMECSCKGELAL-AHKECAIKWFTMKGNKTCDVCKQEVQN 332 (515)
Q Consensus 272 ~~Eee~~CRIClee~ee~d~~l~LPC~CkGslh~-~H~~CL~kWL~~kgn~tCpLCk~~~~n 332 (515)
+.|.+..|-||+.+. .+..+|||+ |. .=..|.+.-.-. ++.|||||+.+.-
T Consensus 286 ~~~~gkeCVIClse~---rdt~vLPCR-----HLCLCs~Ca~~Lr~q--~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 286 ESESGKECVICLSES---RDTVVLPCR-----HLCLCSGCAKSLRYQ--TNNCPICRQPIEE 337 (349)
T ss_pred cccCCCeeEEEecCC---cceEEecch-----hhehhHhHHHHHHHh--hcCCCccccchHh
Confidence 445678999999764 568999998 65 667899887644 6789999999884
No 39
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=96.32 E-value=0.0019 Score=57.86 Aligned_cols=29 Identities=21% Similarity=0.563 Sum_probs=26.8
Q ss_pred cCCCCCccceecHhhHHHHHhhcCCCcccccccccc
Q 010219 296 ECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQ 331 (515)
Q Consensus 296 PC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~ 331 (515)
.|+ |.||.+||.+||++ ++.||+|.++.+
T Consensus 80 ~CN-----HaFH~hCisrWlkt--r~vCPLdn~eW~ 108 (114)
T KOG2930|consen 80 VCN-----HAFHFHCISRWLKT--RNVCPLDNKEWV 108 (114)
T ss_pred ecc-----hHHHHHHHHHHHhh--cCcCCCcCccee
Confidence 399 99999999999998 889999999876
No 40
>PF09679 TraQ: Type-F conjugative transfer system pilin chaperone (TraQ); InterPro: IPR014112 This entry represents TraQ, a protein that makes a specific interaction with pilin (TraA) to aid its transfer through the inner membrane during the process of F-type conjugative pilus assembly [, ].
Probab=96.14 E-value=0.0065 Score=52.80 Aligned_cols=42 Identities=24% Similarity=0.362 Sum_probs=37.9
Q ss_pred HHHHHHHHHhhhhhhhHHHHHHHhhcccceeeehhhhHHHHh
Q 010219 431 VVLFAHIFYSLVGVQAVLSILLATFSGFGVAMSGSSILVEFL 472 (515)
Q Consensus 431 vvl~~hiFY~~~~~~~v~~ill~t~~gfgi~m~~~~~~~~~~ 472 (515)
+.+++|++.++++.+|.++|+||.+.|+|+.|+|-+=+++-+
T Consensus 21 lG~wfHIvarLV~~~P~mA~~LAeiia~~Lvl~GgYrILda~ 62 (93)
T PF09679_consen 21 LGFWFHIVARLVYRQPEMAFFLAEIIAVGLVLSGGYRILDAW 62 (93)
T ss_pred HHHHHHHHHHHHHhChHHHHHHHHHHHHHHhhhhhHHHHHHH
Confidence 456799999999999999999999999999999998877643
No 41
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=96.09 E-value=0.0059 Score=45.71 Aligned_cols=40 Identities=20% Similarity=0.590 Sum_probs=30.4
Q ss_pred ceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCC--ccccc
Q 010219 279 CRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNK--TCDVC 326 (515)
Q Consensus 279 CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~--tCpLC 326 (515)
|.||++-+. ++..++|+ |.|=+.||.+|.+..... .||+|
T Consensus 1 CpiC~~~~~---~Pv~l~CG-----H~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFK---DPVSLPCG-----HSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-S---SEEE-SSS-----SEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhC---CccccCCc-----CHHHHHHHHHHHHccCCcCCCCcCC
Confidence 889997763 47889999 999999999999865543 89988
No 42
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.95 E-value=0.0049 Score=65.99 Aligned_cols=53 Identities=25% Similarity=0.614 Sum_probs=43.2
Q ss_pred CcccceecccccccCCceE--eecCCCCCccceecHhhHHHHHhhcCCCccccccccccc
Q 010219 275 EEAVCRICLVELCEGGETF--KMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQN 332 (515)
Q Consensus 275 ee~~CRIClee~ee~d~~l--~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~n 332 (515)
.+..|.||++.++..++.+ .+.|+ |.|...||++||-.+-...||+|+.+...
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cg-----hlFgs~cie~wl~k~~~~~cp~c~~katk 57 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCG-----HLFGSQCIEKWLGKKTKMQCPLCSGKATK 57 (463)
T ss_pred ccccCceeeeeeeecCceEEeeeccc-----ccccHHHHHHHHhhhhhhhCcccCChhHH
Confidence 3668999999997766653 56799 99999999999975556799999987763
No 43
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.39 E-value=0.18 Score=55.56 Aligned_cols=49 Identities=18% Similarity=0.625 Sum_probs=39.4
Q ss_pred cccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhc---CCCccccccccccc
Q 010219 276 EAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMK---GNKTCDVCKQEVQN 332 (515)
Q Consensus 276 e~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~k---gn~tCpLCk~~~~n 332 (515)
+..|.||++.... +..+-|+ |.|=-.||.+.+... +-..||+|+..+..
T Consensus 186 ~~~CPICL~~~~~---p~~t~CG-----HiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPSV---PVRTNCG-----HIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCCc---ccccccC-----ceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 7789999976432 3445599 999999999998753 55799999999885
No 44
>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=95.36 E-value=0.019 Score=47.15 Aligned_cols=49 Identities=12% Similarity=0.236 Sum_probs=36.8
Q ss_pred CcccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCccccccccccc
Q 010219 275 EEAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQN 332 (515)
Q Consensus 275 ee~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~n 332 (515)
++-.|.||.+-+. ++.+++|+ |.|-+.||++||+. ++.+||+|+..+..
T Consensus 3 ~~f~CpIt~~lM~---dPVi~~~G-----~tyer~~I~~~l~~-~~~~~P~t~~~l~~ 51 (73)
T PF04564_consen 3 DEFLCPITGELMR---DPVILPSG-----HTYERSAIERWLEQ-NGGTDPFTRQPLSE 51 (73)
T ss_dssp GGGB-TTTSSB-S---SEEEETTS-----EEEEHHHHHHHHCT-TSSB-TTT-SB-SG
T ss_pred cccCCcCcCcHhh---CceeCCcC-----CEEcHHHHHHHHHc-CCCCCCCCCCcCCc
Confidence 3568999987663 46789999 99999999999995 67899999987764
No 45
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=95.28 E-value=0.0059 Score=63.40 Aligned_cols=52 Identities=21% Similarity=0.544 Sum_probs=42.6
Q ss_pred cccceecccccccCCceEeecCCCCCccceecHhhHHHHHhh---------------------cCCCccccccccccc
Q 010219 276 EAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTM---------------------KGNKTCDVCKQEVQN 332 (515)
Q Consensus 276 e~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~---------------------kgn~tCpLCk~~~~n 332 (515)
..+|-|||-.+.+++...+.+|- ||+|..|+-+.|.. +-...||||+..+..
T Consensus 115 ~gqCvICLygfa~~~~ft~T~C~-----Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~ 187 (368)
T KOG4445|consen 115 NGQCVICLYGFASSPAFTVTACD-----HYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI 187 (368)
T ss_pred CCceEEEEEeecCCCceeeehhH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence 45799999999888888999999 99999999877642 113589999998873
No 46
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=95.26 E-value=0.017 Score=43.87 Aligned_cols=40 Identities=20% Similarity=0.467 Sum_probs=23.1
Q ss_pred ceecccccccC-CceEeecCCCCCccceecHhhHHHHHhhc--CCCccc
Q 010219 279 CRICLVELCEG-GETFKMECSCKGELALAHKECAIKWFTMK--GNKTCD 324 (515)
Q Consensus 279 CRIClee~ee~-d~~l~LPC~CkGslh~~H~~CL~kWL~~k--gn~tCp 324 (515)
|.||.+ +.++ ..+..|+|+ |.|=++||++|++.+ +..+||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CG-----H~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCG-----HVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS------EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCc-----cHHHHHHHHHHHhcCCCCeeeCc
Confidence 889998 6443 346889999 999999999999964 345665
No 47
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.51 E-value=0.015 Score=54.09 Aligned_cols=45 Identities=29% Similarity=0.655 Sum_probs=39.2
Q ss_pred CCcccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCccccccc
Q 010219 274 EEEAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQ 328 (515)
Q Consensus 274 Eee~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~ 328 (515)
+++..|.||++.+.+. ..++|+ |.|=..|+..|.. ....||.|+.
T Consensus 11 ~~~~~C~iC~~~~~~p---~~l~C~-----H~~c~~C~~~~~~--~~~~Cp~cr~ 55 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP---VLLPCG-----HNFCRACLTRSWE--GPLSCPVCRP 55 (386)
T ss_pred cccccChhhHHHhhcC---cccccc-----chHhHHHHHHhcC--CCcCCcccCC
Confidence 4577899999988553 889999 9999999999998 5689999995
No 48
>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=93.85 E-value=0.027 Score=52.49 Aligned_cols=41 Identities=15% Similarity=0.370 Sum_probs=30.6
Q ss_pred cccceecccccccCCceEeecCCCCCcc-ceecHhhHHHHHh
Q 010219 276 EAVCRICLVELCEGGETFKMECSCKGEL-ALAHKECAIKWFT 316 (515)
Q Consensus 276 e~~CRIClee~ee~d~~l~LPC~CkGsl-h~~H~~CL~kWL~ 316 (515)
.-.|+||++...+++.+..++|+..=.| |.||.+|+++|-+
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence 4579999999876566778888732222 4599999999954
No 49
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=93.46 E-value=0.067 Score=55.83 Aligned_cols=51 Identities=16% Similarity=0.418 Sum_probs=38.2
Q ss_pred cccceecccccccCCc--eEeecCCCCCccceecHhhHHHHHhhcCCCccccccccccc
Q 010219 276 EAVCRICLVELCEGGE--TFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQN 332 (515)
Q Consensus 276 e~~CRIClee~ee~d~--~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~n 332 (515)
+..|.||+.+.-..-. .++.+|+ |.|=..|++..+. ++...||+|+..+..
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CG-----H~~C~sCv~~l~~-~~~~~CP~C~~~lrk 55 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCG-----HTLCESCVDLLFV-RGSGSCPECDTPLRK 55 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCC-----CcccHHHHHHHhc-CCCCCCCCCCCccch
Confidence 3579999975322222 3444899 9999999999876 367799999988774
No 50
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=92.26 E-value=0.068 Score=55.65 Aligned_cols=47 Identities=19% Similarity=0.457 Sum_probs=39.7
Q ss_pred cccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCccccccccccc
Q 010219 276 EAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQN 332 (515)
Q Consensus 276 e~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~n 332 (515)
..-|+||.+-+. -.+..+|+ |-|-.-||...|.. ...||+|+.++..
T Consensus 25 ~lrC~IC~~~i~---ip~~TtCg-----HtFCslCIR~hL~~--qp~CP~Cr~~~~e 71 (391)
T COG5432 25 MLRCRICDCRIS---IPCETTCG-----HTFCSLCIRRHLGT--QPFCPVCREDPCE 71 (391)
T ss_pred HHHhhhhhheee---cceecccc-----cchhHHHHHHHhcC--CCCCccccccHHh
Confidence 457999987653 24678899 99999999999997 7789999999874
No 51
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=91.86 E-value=0.063 Score=57.85 Aligned_cols=48 Identities=23% Similarity=0.630 Sum_probs=41.0
Q ss_pred ccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCccccccccccc
Q 010219 277 AVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQN 332 (515)
Q Consensus 277 ~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~n 332 (515)
..|.||-+. +.++.+-||+ |..-..|+-.|-...+..+||.|+.++..
T Consensus 370 eLCKICaen---dKdvkIEPCG-----HLlCt~CLa~WQ~sd~gq~CPFCRcEIKG 417 (563)
T KOG1785|consen 370 ELCKICAEN---DKDVKIEPCG-----HLLCTSCLAAWQDSDEGQTCPFCRCEIKG 417 (563)
T ss_pred HHHHHhhcc---CCCccccccc-----chHHHHHHHhhcccCCCCCCCceeeEecc
Confidence 569999643 3456788999 99999999999988778899999999985
No 52
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.55 E-value=0.12 Score=52.99 Aligned_cols=53 Identities=23% Similarity=0.466 Sum_probs=42.2
Q ss_pred CCCcccceecccccccCCceEeecCCCCCccceecHhhHHH-HHhhcCCCccccccccccccc
Q 010219 273 PEEEAVCRICLVELCEGGETFKMECSCKGELALAHKECAIK-WFTMKGNKTCDVCKQEVQNLP 334 (515)
Q Consensus 273 ~Eee~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~k-WL~~kgn~tCpLCk~~~~nlp 334 (515)
++.+..|.||++.. ......+|+ |.|=-.||.. |-+. ....||+|++....-.
T Consensus 212 p~~d~kC~lC~e~~---~~ps~t~Cg-----HlFC~~Cl~~~~t~~-k~~~CplCRak~~pk~ 265 (271)
T COG5574 212 PLADYKCFLCLEEP---EVPSCTPCG-----HLFCLSCLLISWTKK-KYEFCPLCRAKVYPKK 265 (271)
T ss_pred cccccceeeeeccc---CCccccccc-----chhhHHHHHHHHHhh-ccccCchhhhhccchh
Confidence 45577899999764 456789999 9999999999 8874 4557999999887443
No 53
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=91.50 E-value=0.11 Score=40.68 Aligned_cols=46 Identities=22% Similarity=0.545 Sum_probs=22.4
Q ss_pred ceecccccccCCceEeecCCCCCccceecHhhHHHHHhhc--CCCcccccccccc
Q 010219 279 CRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMK--GNKTCDVCKQEVQ 331 (515)
Q Consensus 279 CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~k--gn~tCpLCk~~~~ 331 (515)
|.+|.+++.+.+ .-..||.| =++-|..=|.+.+ .+..||-||..|.
T Consensus 1 cp~C~e~~d~~d-~~~~PC~C------gf~IC~~C~~~i~~~~~g~CPgCr~~Y~ 48 (48)
T PF14570_consen 1 CPLCDEELDETD-KDFYPCEC------GFQICRFCYHDILENEGGRCPGCREPYK 48 (48)
T ss_dssp -TTTS-B--CCC-TT--SSTT------S----HHHHHHHTTSS-SB-TTT--B--
T ss_pred CCCcccccccCC-CccccCcC------CCcHHHHHHHHHHhccCCCCCCCCCCCC
Confidence 788988884433 35678887 4567888888765 4789999999874
No 54
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.24 E-value=0.087 Score=50.94 Aligned_cols=28 Identities=36% Similarity=0.833 Sum_probs=24.3
Q ss_pred cccceecccccccCCceEeecCCCCCccceecH
Q 010219 276 EAVCRICLVELCEGGETFKMECSCKGELALAHK 308 (515)
Q Consensus 276 e~~CRIClee~ee~d~~l~LPC~CkGslh~~H~ 308 (515)
..+|-||+++++.++.+-+|||-| .||+
T Consensus 177 kGECvICLEdL~~GdtIARLPCLC-----IYHK 204 (205)
T KOG0801|consen 177 KGECVICLEDLEAGDTIARLPCLC-----IYHK 204 (205)
T ss_pred CCcEEEEhhhccCCCceeccceEE-----Eeec
Confidence 346999999999999999999997 6775
No 55
>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=91.19 E-value=0.11 Score=44.03 Aligned_cols=31 Identities=19% Similarity=0.461 Sum_probs=25.5
Q ss_pred cccceecccccccCCceEeecCCCCCccceecHhhHH
Q 010219 276 EAVCRICLVELCEGGETFKMECSCKGELALAHKECAI 312 (515)
Q Consensus 276 e~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~ 312 (515)
+..|.+|...+.. ......||+ |.||..|+.
T Consensus 78 ~~~C~vC~k~l~~-~~f~~~p~~-----~v~H~~C~~ 108 (109)
T PF10367_consen 78 STKCSVCGKPLGN-SVFVVFPCG-----HVVHYSCIK 108 (109)
T ss_pred CCCccCcCCcCCC-ceEEEeCCC-----eEEeccccc
Confidence 5579999988844 566788999 999999975
No 56
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=91.05 E-value=0.14 Score=62.11 Aligned_cols=55 Identities=22% Similarity=0.688 Sum_probs=42.5
Q ss_pred CCCcccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhc--------CCCccccccccccc
Q 010219 273 PEEEAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMK--------GNKTCDVCKQEVQN 332 (515)
Q Consensus 273 ~Eee~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~k--------gn~tCpLCk~~~~n 332 (515)
.+.+++|-||+.|--.....+.|.|+ |.||-+|..+-|..+ +--.||+|+..+.-
T Consensus 3483 QD~DDmCmICFTE~L~AAP~IqL~C~-----HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSAAPAIQLDCS-----HIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred cccCceEEEEehhhhCCCcceecCCc-----cchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 45678999999876555667889999 999999987655432 22489999998874
No 57
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.39 E-value=0.13 Score=54.34 Aligned_cols=57 Identities=21% Similarity=0.441 Sum_probs=41.7
Q ss_pred CCcccceecccccccCC----ceEeec-CCCCCccceecHhhHHHHHhhcC-----CCcccccccccccccc
Q 010219 274 EEEAVCRICLVELCEGG----ETFKME-CSCKGELALAHKECAIKWFTMKG-----NKTCDVCKQEVQNLPV 335 (515)
Q Consensus 274 Eee~~CRIClee~ee~d----~~l~LP-C~CkGslh~~H~~CL~kWL~~kg-----n~tCpLCk~~~~nlpv 335 (515)
..+.+|.||++...+-- ...++| |. |.|=..|+.+|-..+. ++.||.|+..-..+-.
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~-----H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~p 225 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCN-----HSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVNP 225 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcc-----hhhhhcHhHhhhhhhccccccccCCCcccCccccccc
Confidence 34668999998763311 123455 99 9999999999997654 6899999988776543
No 58
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=89.66 E-value=0.14 Score=54.41 Aligned_cols=46 Identities=22% Similarity=0.452 Sum_probs=39.1
Q ss_pred ccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCccccccccccc
Q 010219 277 AVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQN 332 (515)
Q Consensus 277 ~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~n 332 (515)
--|.||++-+. -+++.||+ |-|-.-||.+.|.. +..||.|...+.-
T Consensus 24 LRC~IC~eyf~---ip~itpCs-----HtfCSlCIR~~L~~--~p~CP~C~~~~~E 69 (442)
T KOG0287|consen 24 LRCGICFEYFN---IPMITPCS-----HTFCSLCIRKFLSY--KPQCPTCCVTVTE 69 (442)
T ss_pred HHHhHHHHHhc---Cceecccc-----chHHHHHHHHHhcc--CCCCCceecccch
Confidence 46999996653 35889999 99999999999987 7789999998873
No 59
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=89.39 E-value=0.11 Score=56.07 Aligned_cols=51 Identities=22% Similarity=0.518 Sum_probs=42.1
Q ss_pred CCCcccceecccccccC-CceEeecCCCCCccceecHhhHHHHHhhcCCCccccccc
Q 010219 273 PEEEAVCRICLVELCEG-GETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQ 328 (515)
Q Consensus 273 ~Eee~~CRIClee~ee~-d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~ 328 (515)
+|-+-.|-.|-+-+... +..-.|||. |.||..|+...|...+.++||-|+.
T Consensus 362 ~e~~L~Cg~CGe~~Glk~e~LqALpCs-----HIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 362 EETELYCGLCGESIGLKNERLQALPCS-----HIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HHHhhhhhhhhhhhcCCcccccccchh-----HHHHHHHHHHHHHhCCCCCCccHHH
Confidence 34567899998777543 345679999 9999999999998888999999993
No 60
>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=89.21 E-value=0.44 Score=45.81 Aligned_cols=53 Identities=26% Similarity=0.684 Sum_probs=37.0
Q ss_pred CcccceecccccccCCceEeecCC----------CCCccceecHhhHHHHHhhcC-------------------------
Q 010219 275 EEAVCRICLVELCEGGETFKMECS----------CKGELALAHKECAIKWFTMKG------------------------- 319 (515)
Q Consensus 275 ee~~CRIClee~ee~d~~l~LPC~----------CkGslh~~H~~CL~kWL~~kg------------------------- 319 (515)
|+..|.||++- .-+...|-|. |.. .+-|..||++.-+..+
T Consensus 1 ed~~CpICme~---PHNAVLLlCSS~~kgcRpymc~T--s~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~ 75 (162)
T PF07800_consen 1 EDVTCPICMEH---PHNAVLLLCSSHEKGCRPYMCDT--SYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSES 75 (162)
T ss_pred CCccCceeccC---CCceEEEEeccccCCccccccCC--ccchhHHHHHHHHHhcCCCCccccccccCcCCCcccccccc
Confidence 35689999864 3455556554 322 4689999999986432
Q ss_pred ----CCccccccccccc
Q 010219 320 ----NKTCDVCKQEVQN 332 (515)
Q Consensus 320 ----n~tCpLCk~~~~n 332 (515)
+-.||+|+-++..
T Consensus 76 ~~~~~L~CPLCRG~V~G 92 (162)
T PF07800_consen 76 QEQPELACPLCRGEVKG 92 (162)
T ss_pred cccccccCccccCceec
Confidence 2379999999884
No 61
>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=87.76 E-value=0.26 Score=37.37 Aligned_cols=23 Identities=30% Similarity=0.758 Sum_probs=16.3
Q ss_pred ceecHhhHHHHHhhcCCCccccc
Q 010219 304 ALAHKECAIKWFTMKGNKTCDVC 326 (515)
Q Consensus 304 h~~H~~CL~kWL~~kgn~tCpLC 326 (515)
--+|..|+.++++.+.+..||.|
T Consensus 21 ~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 21 VRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -EE-HHHHHHHTTT-SS-B-TTT
T ss_pred chHHHHHHHHHHhcCCCCCCcCC
Confidence 45999999999998777789988
No 62
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=84.74 E-value=0.5 Score=54.98 Aligned_cols=59 Identities=22% Similarity=0.515 Sum_probs=44.1
Q ss_pred CcccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhc-----CCCcccccccccccccccc
Q 010219 275 EEAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMK-----GNKTCDVCKQEVQNLPVTL 337 (515)
Q Consensus 275 ee~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~k-----gn~tCpLCk~~~~nlpv~l 337 (515)
..-.|-||.+.+.....+.- |+.=.|.||..||.+|-+.+ ..+.||-|+.++..+|.+.
T Consensus 190 ~~yeCmIC~e~I~~t~~~WS----C~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~~~~~~y 253 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVWS----CKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSKTVPKTY 253 (950)
T ss_pred CceEEEEeeeeccccCCcee----cchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhccCCccc
Confidence 34679999988765555443 22334999999999999753 2369999999999888754
No 63
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.34 E-value=0.48 Score=49.59 Aligned_cols=47 Identities=21% Similarity=0.386 Sum_probs=37.7
Q ss_pred cccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCcccccccccc
Q 010219 276 EAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQ 331 (515)
Q Consensus 276 e~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~ 331 (515)
.+.|.||+.... -...|+|. |.|-..||+-=.+. +..+|++|+.++.
T Consensus 7 ~~eC~IC~nt~n---~Pv~l~C~-----HkFCyiCiKGsy~n-dk~~CavCR~pid 53 (324)
T KOG0824|consen 7 KKECLICYNTGN---CPVNLYCF-----HKFCYICIKGSYKN-DKKTCAVCRFPID 53 (324)
T ss_pred CCcceeeeccCC---cCcccccc-----chhhhhhhcchhhc-CCCCCceecCCCC
Confidence 457999998742 34789999 99999999876663 5678999999987
No 64
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.53 E-value=0.19 Score=53.46 Aligned_cols=48 Identities=27% Similarity=0.562 Sum_probs=39.4
Q ss_pred cccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCcccccccccc
Q 010219 276 EAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQ 331 (515)
Q Consensus 276 e~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~ 331 (515)
+-.|.|||+-+. .......|. |-|-.+||.+=++. +++.||-||+...
T Consensus 43 ~v~c~icl~llk--~tmttkeCl-----hrfc~~ci~~a~r~-gn~ecptcRk~l~ 90 (381)
T KOG0311|consen 43 QVICPICLSLLK--KTMTTKECL-----HRFCFDCIWKALRS-GNNECPTCRKKLV 90 (381)
T ss_pred hhccHHHHHHHH--hhcccHHHH-----HHHHHHHHHHHHHh-cCCCCchHHhhcc
Confidence 468999997652 234566799 99999999999994 8889999999887
No 65
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=82.58 E-value=0.82 Score=48.77 Aligned_cols=54 Identities=20% Similarity=0.594 Sum_probs=35.7
Q ss_pred CCcccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhc--CCCccccccccccccc
Q 010219 274 EEEAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMK--GNKTCDVCKQEVQNLP 334 (515)
Q Consensus 274 Eee~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~k--gn~tCpLCk~~~~nlp 334 (515)
+|++.|..|+++++-.|.. ..||.| | -+-|---|-..+ -+..||-|+..|....
T Consensus 12 deed~cplcie~mditdkn-f~pc~c-g-----y~ic~fc~~~irq~lngrcpacrr~y~den 67 (480)
T COG5175 12 DEEDYCPLCIEPMDITDKN-FFPCPC-G-----YQICQFCYNNIRQNLNGRCPACRRKYDDEN 67 (480)
T ss_pred cccccCcccccccccccCC-cccCCc-c-----cHHHHHHHHHHHhhccCCChHhhhhccccc
Confidence 3456799999988654443 357776 1 245655566543 3569999999987443
No 66
>COG2246 Predicted membrane protein [Function unknown]
Probab=80.71 E-value=10 Score=35.27 Aligned_cols=56 Identities=16% Similarity=0.231 Sum_probs=42.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHhhcccceeeehhhhHHHHhHhhhH
Q 010219 422 VYASFQFALVVLFAHIFYSLVGVQAVLSILLATFSGFGVAMSGSSILVEFLRWKQR 477 (515)
Q Consensus 422 ~yA~~qF~lvvl~~hiFY~~~~~~~v~~ill~t~~gfgi~m~~~~~~~~~~~wr~~ 477 (515)
.+.....+-+...+.++|-+...-...+.++|.+.|.|+++..|+++-...-||.+
T Consensus 83 ~~~~~~~lg~~~~~~~~~~l~~~~~~~~~~~a~~i~~~~~~i~nfi~s~~v~~~~~ 138 (139)
T COG2246 83 KFNVAVLLGLAVLLLVLYILTLGLLLVAYLIANLIGIVAAFIINFLLSKRVFWRVR 138 (139)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhheecc
Confidence 44445555566666666666665566668899999999999999999999888864
No 67
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.45 E-value=1.4 Score=44.90 Aligned_cols=50 Identities=28% Similarity=0.582 Sum_probs=39.3
Q ss_pred cccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhc------CCCcccccccccc
Q 010219 276 EAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMK------GNKTCDVCKQEVQ 331 (515)
Q Consensus 276 e~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~k------gn~tCpLCk~~~~ 331 (515)
..-|+.|...++++ +...|-|- |.||-.|+..|-..= .--.||-|..++-
T Consensus 50 ~pNC~LC~t~La~g-dt~RLvCy-----hlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF 105 (299)
T KOG3970|consen 50 NPNCRLCNTPLASG-DTTRLVCY-----HLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF 105 (299)
T ss_pred CCCCceeCCccccC-cceeehhh-----hhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence 45799999888654 56779999 999999999998521 1238999998874
No 68
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=79.12 E-value=1.8 Score=34.70 Aligned_cols=43 Identities=23% Similarity=0.457 Sum_probs=30.0
Q ss_pred cccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCcccc
Q 010219 276 EAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDV 325 (515)
Q Consensus 276 e~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpL 325 (515)
...|.|.+..+++ ......|+ |.|-++.|.+||+.++...||+
T Consensus 11 ~~~CPiT~~~~~~--PV~s~~C~-----H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 11 SLKCPITLQPFED--PVKSKKCG-----HTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp -SB-TTTSSB-SS--EEEESSS-------EEEHHHHHHHCTTTS-EE-SC
T ss_pred ccCCCCcCChhhC--CcCcCCCC-----CeecHHHHHHHHHhcCCCCCCC
Confidence 4689999988743 45556899 9999999999997777889999
No 69
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=77.76 E-value=1.1 Score=44.73 Aligned_cols=47 Identities=23% Similarity=0.515 Sum_probs=39.4
Q ss_pred cccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCccccccccccc
Q 010219 276 EAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQN 332 (515)
Q Consensus 276 e~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~n 332 (515)
...|-||..+|++ ..+..|+ |+|-..|+.+=++. ...|-+|+.+...
T Consensus 196 PF~C~iCKkdy~s---pvvt~CG-----H~FC~~Cai~~y~k--g~~C~~Cgk~t~G 242 (259)
T COG5152 196 PFLCGICKKDYES---PVVTECG-----HSFCSLCAIRKYQK--GDECGVCGKATYG 242 (259)
T ss_pred ceeehhchhhccc---hhhhhcc-----hhHHHHHHHHHhcc--CCcceecchhhcc
Confidence 3589999999854 5778899 99999999988874 6799999988764
No 70
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=76.64 E-value=2.2 Score=45.73 Aligned_cols=54 Identities=22% Similarity=0.509 Sum_probs=38.5
Q ss_pred CCcccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCcccccccccccccc
Q 010219 274 EEEAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQNLPV 335 (515)
Q Consensus 274 Eee~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~nlpv 335 (515)
|+...|-||-.... -...+||+ |..-..|..+-...=.++.|++|+.+...+-.
T Consensus 59 Een~~C~ICA~~~T---Ys~~~PC~-----H~~CH~Ca~RlRALY~~K~C~~CrTE~e~V~f 112 (493)
T COG5236 59 EENMNCQICAGSTT---YSARYPCG-----HQICHACAVRLRALYMQKGCPLCRTETEAVVF 112 (493)
T ss_pred cccceeEEecCCce---EEEeccCC-----chHHHHHHHHHHHHHhccCCCccccccceEEE
Confidence 44568999976542 24679999 77777777665544446789999999886543
No 71
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=75.09 E-value=0.94 Score=36.98 Aligned_cols=48 Identities=15% Similarity=0.533 Sum_probs=31.6
Q ss_pred ccceecccccccCCceEeecCCCCCccce-ecHhhHHHHHhhcCCCcccccccccccc
Q 010219 277 AVCRICLVELCEGGETFKMECSCKGELAL-AHKECAIKWFTMKGNKTCDVCKQEVQNL 333 (515)
Q Consensus 277 ~~CRIClee~ee~d~~l~LPC~CkGslh~-~H~~CL~kWL~~kgn~tCpLCk~~~~nl 333 (515)
++|-||.+.-- +....-|+ |. .-.+|-.+-.+. .+.+||+|+..++.+
T Consensus 8 dECTICye~pv---dsVlYtCG-----HMCmCy~Cg~rl~~~-~~g~CPiCRapi~dv 56 (62)
T KOG4172|consen 8 DECTICYEHPV---DSVLYTCG-----HMCMCYACGLRLKKA-LHGCCPICRAPIKDV 56 (62)
T ss_pred cceeeeccCcc---hHHHHHcc-----hHHhHHHHHHHHHHc-cCCcCcchhhHHHHH
Confidence 57999986531 22334477 44 345776665553 578999999988754
No 72
>PF14012 DUF4229: Protein of unknown function (DUF4229)
Probab=75.08 E-value=6.6 Score=32.68 Aligned_cols=60 Identities=25% Similarity=0.385 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhhH--HHHHHHhhcccceeeehhhhHHHHhHhhhHhhhhc
Q 010219 420 VWVYASFQFALVVLFAHIFYSLVGVQAV--LSILLATFSGFGVAMSGSSILVEFLRWKQRWEARS 482 (515)
Q Consensus 420 iW~yA~~qF~lvvl~~hiFY~~~~~~~v--~~ill~t~~gfgi~m~~~~~~~~~~~wr~~~~~~~ 482 (515)
+|.|....+++++...-++| .+.+... ..++++...++=|+|..++++ +.+||.+..++-
T Consensus 1 v~~Ytl~Rl~lfv~~~~vi~-~v~~~~~~~~p~~~~~l~A~vis~~lS~~l--l~~~R~~~~~~i 62 (69)
T PF14012_consen 1 VLRYTLARLGLFVVLFAVIW-LVGLLIGVEVPLLVAALLALVISMPLSYVL--LRRLRDRASADI 62 (69)
T ss_pred CHHHHHHHHHHHHHHHHHHH-HHHHHhcccchHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHH
Confidence 47899999998888877777 5554444 222333333333555566544 567777665443
No 73
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=74.96 E-value=1.1 Score=50.07 Aligned_cols=49 Identities=20% Similarity=0.466 Sum_probs=38.7
Q ss_pred CcccceecccccccCCceEeecCCCCCccceecHhhHHHHHh---hcCCCcccccccccc
Q 010219 275 EEAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFT---MKGNKTCDVCKQEVQ 331 (515)
Q Consensus 275 ee~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~---~kgn~tCpLCk~~~~ 331 (515)
++..|.+|++.- ++.....|+ |.|-+-|+..+.. ...+-+||+|.-.+.
T Consensus 535 ~~~~C~lc~d~a---ed~i~s~Ch-----H~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls 586 (791)
T KOG1002|consen 535 GEVECGLCHDPA---EDYIESSCH-----HKFCRLCIKEYVESFMENNNVTCPVCHIGLS 586 (791)
T ss_pred CceeecccCChh---hhhHhhhhh-----HHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence 456899999764 346778899 9999999998885 334579999987665
No 74
>PF07895 DUF1673: Protein of unknown function (DUF1673); InterPro: IPR012874 This family contains hypothetical proteins of unknown function found in Methanosarcina acetivorans and Methanosarcina mazei.
Probab=74.87 E-value=18 Score=35.63 Aligned_cols=34 Identities=24% Similarity=0.486 Sum_probs=21.2
Q ss_pred hhhhhhhHHHHHHHhhcccceeeehhhhHHHHhHhhhHhh
Q 010219 440 SLVGVQAVLSILLATFSGFGVAMSGSSILVEFLRWKQRWE 479 (515)
Q Consensus 440 ~~~~~~~v~~ill~t~~gfgi~m~~~~~~~~~~~wr~~~~ 479 (515)
+.+..+.+++. ++|+.+.|=+ .|.+...|+++++
T Consensus 151 ~~~~~~~~~sf----l~g~~~~~wl--~y~q~iywekkn~ 184 (205)
T PF07895_consen 151 SFISFQSLLSF----LSGLLLLMWL--VYFQIIYWEKKNH 184 (205)
T ss_pred HHhhHHHHHHH----HHHHHHHHHH--HHHHHheeeccCc
Confidence 44445555555 5677776444 4578888998754
No 75
>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=72.63 E-value=3.9 Score=43.86 Aligned_cols=29 Identities=34% Similarity=0.748 Sum_probs=23.3
Q ss_pred cHhhHHHHHhhc-----------CCCcccccccccccccc
Q 010219 307 HKECAIKWFTMK-----------GNKTCDVCKQEVQNLPV 335 (515)
Q Consensus 307 H~~CL~kWL~~k-----------gn~tCpLCk~~~~nlpv 335 (515)
=.+|+-+||-.+ ++..||.||..|-.+.|
T Consensus 316 C~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilDV 355 (358)
T PF10272_consen 316 CLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILDV 355 (358)
T ss_pred HHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeeee
Confidence 468999999754 45799999999986654
No 76
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=70.10 E-value=2.5 Score=46.93 Aligned_cols=53 Identities=28% Similarity=0.696 Sum_probs=40.3
Q ss_pred CCCCCCCCCCcccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCccccccccccc
Q 010219 266 DADGEDIPEEEAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQN 332 (515)
Q Consensus 266 ed~~ed~~Eee~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~n 332 (515)
+...++..+..+.|+||..+. ..++.+|. |..|+.+|+.. ...||+|......
T Consensus 469 ~~~~~~l~~~~~~~~~~~~~~----~~~~~~~~--------~~~~l~~~~~~--~~~~pl~~~~~~~ 521 (543)
T KOG0802|consen 469 EATPSQLREPNDVCAICYQEM----SARITPCS--------HALCLRKWLYV--QEVCPLCHTYMKE 521 (543)
T ss_pred CCChhhhhcccCcchHHHHHH----Hhcccccc--------chhHHHhhhhh--ccccCCCchhhhc
Confidence 344556667788999998775 23444554 99999999997 7789999988874
No 77
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=69.87 E-value=4.4 Score=32.73 Aligned_cols=45 Identities=24% Similarity=0.633 Sum_probs=34.1
Q ss_pred CcccceecccccccCCceEeec-CCCCCccceecHhhHHHHHhhcCCCcccc--ccccc
Q 010219 275 EEAVCRICLVELCEGGETFKME-CSCKGELALAHKECAIKWFTMKGNKTCDV--CKQEV 330 (515)
Q Consensus 275 ee~~CRIClee~ee~d~~l~LP-C~CkGslh~~H~~CL~kWL~~kgn~tCpL--Ck~~~ 330 (515)
++..|.+|-+.+..++++.+-| |+ .-+|+.| |.. ...|-+ |+..+
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~Cg-----apyHR~C---~~~---~g~C~~~~c~~~~ 51 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECG-----APYHRDC---WEK---AGGCINYSCGTGF 51 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCC-----CcccHHH---Hhh---CCceEeccCCCCc
Confidence 4568999999997788888887 99 9999999 433 345666 66544
No 78
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=69.78 E-value=0.5 Score=51.04 Aligned_cols=49 Identities=18% Similarity=0.465 Sum_probs=40.7
Q ss_pred ccceecccccccC-CceEeecCCCCCccceecHhhHHHHHhhcCCCccccccccccc
Q 010219 277 AVCRICLVELCEG-GETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQN 332 (515)
Q Consensus 277 ~~CRIClee~ee~-d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~n 332 (515)
..|.||.+.+.+. ++.-.+.|+ |.+|.+||.+||-. ...|+-|..++.-
T Consensus 197 ~sl~I~~~slK~~y~k~~~~~~g-----~~~~~~kL~k~L~~--~~kl~~~~rel~~ 246 (465)
T KOG0827|consen 197 GSLSICFESLKQNYDKISAIVCG-----HIYHHGKLSKWLAT--KRKLPSCRRELPK 246 (465)
T ss_pred hhhHhhHHHHHHHHHHHHHHhhc-----ccchhhHHHHHHHH--HHHhHHHHhhhhh
Confidence 4799999988665 555668899 99999999999997 6679999888763
No 79
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=69.16 E-value=2.7 Score=48.86 Aligned_cols=41 Identities=27% Similarity=0.799 Sum_probs=26.9
Q ss_pred ccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCcccc
Q 010219 277 AVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDV 325 (515)
Q Consensus 277 ~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpL 325 (515)
-+|.||+... .+....-.-|. |..|..|++.||+. ...||-
T Consensus 1029 ~~C~~C~l~V-~gss~~Cg~C~-----Hv~H~sc~~eWf~~--gd~Cps 1069 (1081)
T KOG0309|consen 1029 FQCAICHLAV-RGSSNFCGTCG-----HVGHTSCMMEWFRT--GDVCPS 1069 (1081)
T ss_pred eeeeeEeeEe-eccchhhcccc-----ccccHHHHHHHHhc--CCcCCC
Confidence 4567775443 22223334477 99999999999997 336763
No 80
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=68.39 E-value=15 Score=38.10 Aligned_cols=52 Identities=13% Similarity=0.185 Sum_probs=41.0
Q ss_pred CcccceecccccccCCceE-eecCCCCCccceecHhhHHHHHhhcCCCcccccccccccc
Q 010219 275 EEAVCRICLVELCEGGETF-KMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQNL 333 (515)
Q Consensus 275 ee~~CRIClee~ee~d~~l-~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~nl 333 (515)
.--.|.||.+.+...-... .-||+ |.|-.+|+++.++. ...||+|.....--
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg-----~Vv~~ecvEklir~--D~v~pv~d~plkdr 272 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSG-----HVVTKECVEKLIRK--DMVDPVTDKPLKDR 272 (303)
T ss_pred cceecccchhhhcCccceEEeccCC-----cEeeHHHHHHhccc--cccccCCCCcCccc
Confidence 4578999999885443333 34799 99999999999875 78999999988743
No 81
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=68.01 E-value=6.9 Score=40.89 Aligned_cols=52 Identities=17% Similarity=0.335 Sum_probs=39.1
Q ss_pred CCcccceecccccccCCce-EeecCCCCCccceecHhhHHHHHhhcCCCcccccccccccc
Q 010219 274 EEEAVCRICLVELCEGGET-FKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQNL 333 (515)
Q Consensus 274 Eee~~CRIClee~ee~d~~-l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~nl 333 (515)
+.+.+|.+|.+. .-.+ .+.+|+ |.+-..|+.+=+...-.-+||.|+.....+
T Consensus 237 t~~~~C~~Cg~~---PtiP~~~~~C~-----HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~l 289 (298)
T KOG2879|consen 237 TSDTECPVCGEP---PTIPHVIGKCG-----HIYCYYCIATSRLWDASFTCPLCGENVEPL 289 (298)
T ss_pred cCCceeeccCCC---CCCCeeecccc-----ceeehhhhhhhhcchhhcccCccCCCCcch
Confidence 345689999654 2233 445599 999999999888765567999999998743
No 82
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=67.99 E-value=1.7 Score=50.02 Aligned_cols=46 Identities=15% Similarity=0.508 Sum_probs=37.5
Q ss_pred ccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCcccccccccc
Q 010219 277 AVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQ 331 (515)
Q Consensus 277 ~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~ 331 (515)
-.|..|..-. -+..+.-|. |.|=..|+.+-+.+ +.++||.|...|-
T Consensus 644 LkCs~Cn~R~---Kd~vI~kC~-----H~FC~~Cvq~r~et-RqRKCP~Cn~aFg 689 (698)
T KOG0978|consen 644 LKCSVCNTRW---KDAVITKCG-----HVFCEECVQTRYET-RQRKCPKCNAAFG 689 (698)
T ss_pred eeCCCccCch---hhHHHHhcc-----hHHHHHHHHHHHHH-hcCCCCCCCCCCC
Confidence 5699997543 234566799 99999999999987 6789999999997
No 83
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=67.07 E-value=2.9 Score=42.74 Aligned_cols=37 Identities=27% Similarity=0.367 Sum_probs=28.8
Q ss_pred ecCCCCCcc-ceecHhhHHHHHhhcCCCcccccccccc
Q 010219 295 MECSCKGEL-ALAHKECAIKWFTMKGNKTCDVCKQEVQ 331 (515)
Q Consensus 295 LPC~CkGsl-h~~H~~CL~kWL~~kgn~tCpLCk~~~~ 331 (515)
..|.|.+=- .|||..|+--=..-+|+..|+-|+....
T Consensus 233 i~CDn~~C~~eWFH~~CVGL~~~PkgkWyC~~C~~~~~ 270 (274)
T KOG1973|consen 233 IGCDNPGCPIEWFHFTCVGLKTKPKGKWYCPRCKAENK 270 (274)
T ss_pred cccCCCCCCcceEEEeccccccCCCCcccchhhhhhhh
Confidence 457766544 8999999876566689999999998754
No 84
>COG2995 PqiA Uncharacterized paraquat-inducible protein A [Function unknown]
Probab=66.74 E-value=9.3 Score=41.69 Aligned_cols=81 Identities=22% Similarity=0.328 Sum_probs=48.8
Q ss_pred cchHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHhhc-ccceeeehhhhHHHHhHhh
Q 010219 397 LPFSCVLGLLASMTSSTMVKRRFVWVYASFQFALVVLFAHIFYSLVGVQAVLSILLATFS-GFGVAMSGSSILVEFLRWK 475 (515)
Q Consensus 397 lPfs~iLGlL~s~~as~mv~r~yiW~yA~~qF~lvvl~~hiFY~~~~~~~v~~ill~t~~-gfgi~m~~~~~~~~~~~wr 475 (515)
+|.+++.++-...-.+.|---.|+|-|-..=.++||+.+-+|.-+.++-++ +.||...- --+-..-.-..+.++..|-
T Consensus 273 lPI~i~~~~G~~~~dTI~sGV~~L~~~Gs~~vA~VVFiASilVP~~Ki~~l-a~Ll~~~~fk~~~~~k~~~~lyr~v~~I 351 (418)
T COG2995 273 LPIMITYLLGARQEDTILSGVISLWSSGSYPVAAVVFLASILVPLLKIIAL-AWLLLSAHFKRQRGLKTRMLLYRIVEFV 351 (418)
T ss_pred cceEEEecCCCccccHHHHHHHHHHHCCChhHHHHHHHHHHHHHHHHHHHH-HHHHHHhhcccccChHHHHHHHHHHHHH
Confidence 444434333333233344445678888777778999999999999987544 44443332 2233333445677778887
Q ss_pred hHh
Q 010219 476 QRW 478 (515)
Q Consensus 476 ~~~ 478 (515)
.||
T Consensus 352 GRW 354 (418)
T COG2995 352 GRW 354 (418)
T ss_pred cch
Confidence 777
No 85
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=64.91 E-value=3.1 Score=48.80 Aligned_cols=45 Identities=20% Similarity=0.450 Sum_probs=33.5
Q ss_pred ccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCcccccccccccc
Q 010219 277 AVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQNL 333 (515)
Q Consensus 277 ~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~nl 333 (515)
..|-.|-..++- ...-.-|+ |.||++|+. .+...||-|+-++.+.
T Consensus 841 skCs~C~~~Ldl--P~VhF~Cg-----HsyHqhC~e-----~~~~~CP~C~~e~~~~ 885 (933)
T KOG2114|consen 841 SKCSACEGTLDL--PFVHFLCG-----HSYHQHCLE-----DKEDKCPKCLPELRGV 885 (933)
T ss_pred eeecccCCcccc--ceeeeecc-----cHHHHHhhc-----cCcccCCccchhhhhh
Confidence 579999665522 22334499 999999998 4577999999988864
No 86
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=64.80 E-value=2.6 Score=45.66 Aligned_cols=51 Identities=24% Similarity=0.517 Sum_probs=40.8
Q ss_pred CCcccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCccccccccccccc
Q 010219 274 EEEAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQNLP 334 (515)
Q Consensus 274 Eee~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~nlp 334 (515)
..+-.|.||..-+. +...+||+ |-+=..||++=+.. +..||+|+.++.-.+
T Consensus 82 ~sef~c~vc~~~l~---~pv~tpcg-----hs~c~~Cl~r~ld~--~~~cp~Cr~~l~e~~ 132 (398)
T KOG4159|consen 82 RSEFECCVCSRALY---PPVVTPCG-----HSFCLECLDRSLDQ--ETECPLCRDELVELP 132 (398)
T ss_pred cchhhhhhhHhhcC---CCcccccc-----ccccHHHHHHHhcc--CCCCcccccccccch
Confidence 45778999977653 45677999 99999999996654 789999999998544
No 87
>PLN02189 cellulose synthase
Probab=64.68 E-value=5.1 Score=48.10 Aligned_cols=53 Identities=28% Similarity=0.662 Sum_probs=36.0
Q ss_pred cccceecccccc--cCCceEeecCC-CCCccceecHhhHHHHHhhcCCCcccccccccccc
Q 010219 276 EAVCRICLVELC--EGGETFKMECS-CKGELALAHKECAIKWFTMKGNKTCDVCKQEVQNL 333 (515)
Q Consensus 276 e~~CRIClee~e--e~d~~l~LPC~-CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~nl 333 (515)
...|.||-++.+ .+++.. ..|+ |. --+=+.|.+ .=+..|+..||.||+.|...
T Consensus 34 ~~~C~iCgd~vg~~~~g~~f-vaC~~C~---fpvCr~Cye-yer~eg~q~CpqCkt~Y~r~ 89 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLF-VACNECG---FPVCRPCYE-YERREGTQNCPQCKTRYKRL 89 (1040)
T ss_pred CccccccccccCcCCCCCEE-EeeccCC---Cccccchhh-hhhhcCCccCcccCCchhhc
Confidence 458999988874 444544 4454 20 226678884 34446899999999999943
No 88
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=64.39 E-value=3.9 Score=38.57 Aligned_cols=54 Identities=24% Similarity=0.402 Sum_probs=37.1
Q ss_pred ccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCcccccccccccc
Q 010219 277 AVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQNL 333 (515)
Q Consensus 277 ~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~nl 333 (515)
-+|-||.+.- .|+-..-|=.|-|. ..--.=|+.-|--.+-...||+||+.|...
T Consensus 81 YeCnIC~etS--~ee~FLKPneCCgY-~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 81 YECNICKETS--AEERFLKPNECCGY-SICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred eeccCccccc--chhhcCCcccccch-HHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 4699998764 33444455333343 445566788898877788999999999853
No 89
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=64.28 E-value=3.5 Score=40.85 Aligned_cols=40 Identities=20% Similarity=0.517 Sum_probs=28.3
Q ss_pred cceecccccccCCceEeecCCCCCccceecH-hhHHHHHhhcCCCcccccccccc
Q 010219 278 VCRICLVELCEGGETFKMECSCKGELALAHK-ECAIKWFTMKGNKTCDVCKQEVQ 331 (515)
Q Consensus 278 ~CRIClee~ee~d~~l~LPC~CkGslh~~H~-~CL~kWL~~kgn~tCpLCk~~~~ 331 (515)
.|+.|.+. +..++.+||. |+.|= .|-.. -.+||+|+....
T Consensus 160 ~Cr~C~~~---~~~VlllPCr-----Hl~lC~~C~~~------~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 160 SCRKCGER---EATVLLLPCR-----HLCLCGICDES------LRICPICRSPKT 200 (207)
T ss_pred cceecCcC---CceEEeeccc-----ceEeccccccc------CccCCCCcChhh
Confidence 39999754 3457899999 87663 66443 346999997654
No 90
>PLN02195 cellulose synthase A
Probab=63.98 E-value=6.9 Score=46.80 Aligned_cols=52 Identities=29% Similarity=0.530 Sum_probs=35.3
Q ss_pred CCcccceecccccc--cCCceEee--cCCCCCccceecHhhHHHHHhhcCCCcccccccccc
Q 010219 274 EEEAVCRICLVELC--EGGETFKM--ECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQ 331 (515)
Q Consensus 274 Eee~~CRIClee~e--e~d~~l~L--PC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~ 331 (515)
.....|.||-++.+ .++++.+- .|+ --+=+.|.+ .=+.-|+..||.||+.|.
T Consensus 4 ~~~~~c~~cgd~~~~~~~g~~fvaC~eC~-----~pvCrpCye-yer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 4 SGAPICATCGEEVGVDSNGEAFVACHECS-----YPLCKACLE-YEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CCCccceecccccCcCCCCCeEEEeccCC-----Cccccchhh-hhhhcCCccCCccCCccc
Confidence 34568999987663 34454432 354 346778874 334458999999999999
No 91
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=62.91 E-value=7.5 Score=33.70 Aligned_cols=53 Identities=28% Similarity=0.547 Sum_probs=23.1
Q ss_pred cccceecccccc--cCCceEee--cCCCCCccceecHhhHHHHHhhcCCCccccccccccccc
Q 010219 276 EAVCRICLVELC--EGGETFKM--ECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQNLP 334 (515)
Q Consensus 276 e~~CRIClee~e--e~d~~l~L--PC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~nlp 334 (515)
+..|.||-++.. +++++++. .|+ --+=+.|.+-=.+. |+..||.|+..|....
T Consensus 9 ~qiCqiCGD~VGl~~~Ge~FVAC~eC~-----fPvCr~CyEYErke-g~q~CpqCkt~ykr~k 65 (80)
T PF14569_consen 9 GQICQICGDDVGLTENGEVFVACHECA-----FPVCRPCYEYERKE-GNQVCPQCKTRYKRHK 65 (80)
T ss_dssp S-B-SSS--B--B-SSSSB--S-SSS----------HHHHHHHHHT-S-SB-TTT--B----T
T ss_pred CcccccccCccccCCCCCEEEEEcccC-----CccchhHHHHHhhc-CcccccccCCCccccc
Confidence 568999977663 44555542 465 45677888766664 8999999999998543
No 92
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=61.89 E-value=6.8 Score=47.28 Aligned_cols=52 Identities=27% Similarity=0.562 Sum_probs=35.1
Q ss_pred cccceecccccc--cCCceEee--cCCCCCccceecHhhHHHHHhhcCCCcccccccccccc
Q 010219 276 EAVCRICLVELC--EGGETFKM--ECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQNL 333 (515)
Q Consensus 276 e~~CRIClee~e--e~d~~l~L--PC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~nl 333 (515)
+..|.||-++.+ .+++..+- .|+ --+=+.|.+ .=+.-|+..||.||+.|...
T Consensus 17 ~qiCqICGD~vg~~~~Ge~FVAC~eC~-----FPVCrpCYE-YEr~eG~q~CPqCktrYkr~ 72 (1079)
T PLN02638 17 GQVCQICGDNVGKTVDGEPFVACDVCA-----FPVCRPCYE-YERKDGNQSCPQCKTKYKRH 72 (1079)
T ss_pred CceeeecccccCcCCCCCEEEEeccCC-----Cccccchhh-hhhhcCCccCCccCCchhhh
Confidence 458999988763 34454432 254 236678874 33445899999999999943
No 93
>PF04641 Rtf2: Rtf2 RING-finger
Probab=61.40 E-value=11 Score=38.22 Aligned_cols=54 Identities=15% Similarity=0.258 Sum_probs=39.6
Q ss_pred CCCcccceecccccccCCceE-eecCCCCCccceecHhhHHHHHhhcCCCccccccccccccc
Q 010219 273 PEEEAVCRICLVELCEGGETF-KMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQNLP 334 (515)
Q Consensus 273 ~Eee~~CRIClee~ee~d~~l-~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~nlp 334 (515)
.+..-.|.|+..++....... ..+|+ |.|-..||++-- ....||+|...|....
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG-----~V~s~~alke~k---~~~~Cp~c~~~f~~~D 164 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCG-----CVFSEKALKELK---KSKKCPVCGKPFTEED 164 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCC-----CEeeHHHHHhhc---ccccccccCCccccCC
Confidence 345678999988873323333 45899 799999998872 3567999999999644
No 94
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=60.83 E-value=4.2 Score=42.19 Aligned_cols=47 Identities=21% Similarity=0.475 Sum_probs=36.6
Q ss_pred cceecccccccC-CceEeecCCCCCccceecHhhHHHHHhhcCCCccccccccccc
Q 010219 278 VCRICLVELCEG-GETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQN 332 (515)
Q Consensus 278 ~CRIClee~ee~-d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~n 332 (515)
-|.||.+.+-.. ..+..++|+ |+.|..|+..-... +-+||+|.. ..+
T Consensus 160 ncPic~e~l~~s~~~~~~~~Cg-----H~~h~~cf~e~~~~--~y~CP~C~~-~~d 207 (276)
T KOG1940|consen 160 NCPICKEYLFLSFEDAGVLKCG-----HYMHSRCFEEMICE--GYTCPICSK-PGD 207 (276)
T ss_pred CCchhHHHhccccccCCccCcc-----cchHHHHHHHHhcc--CCCCCcccc-hHH
Confidence 399998776433 345689999 99999998887775 389999999 443
No 95
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=60.55 E-value=9.1 Score=46.09 Aligned_cols=53 Identities=26% Similarity=0.587 Sum_probs=35.8
Q ss_pred CCcccceecccccc--cCCceEee--cCCCCCccceecHhhHHHHHhhcCCCccccccccccc
Q 010219 274 EEEAVCRICLVELC--EGGETFKM--ECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQN 332 (515)
Q Consensus 274 Eee~~CRIClee~e--e~d~~l~L--PC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~n 332 (515)
-....|.||-++.+ .+++..+- .|+ --+-+.|.+ .=+..|+..||.||+.|..
T Consensus 13 ~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~-----fpvCr~cye-ye~~~g~~~cp~c~t~y~~ 69 (1044)
T PLN02915 13 ADAKTCRVCGDEVGVKEDGQPFVACHVCG-----FPVCKPCYE-YERSEGNQCCPQCNTRYKR 69 (1044)
T ss_pred CCcchhhccccccCcCCCCCEEEEeccCC-----Cccccchhh-hhhhcCCccCCccCCchhh
Confidence 34678999987763 34454432 254 336678874 3334589999999999994
No 96
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=60.45 E-value=6.2 Score=42.28 Aligned_cols=46 Identities=22% Similarity=0.539 Sum_probs=30.8
Q ss_pred CCcccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCccccccccccc
Q 010219 274 EEEAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQN 332 (515)
Q Consensus 274 Eee~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~n 332 (515)
.-.+.|-||+++.. +...+||+ |..= |..- -+. ...||+|++....
T Consensus 303 ~~p~lcVVcl~e~~---~~~fvpcG-----h~cc--ct~c-s~~--l~~CPvCR~rI~~ 348 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPK---SAVFVPCG-----HVCC--CTLC-SKH--LPQCPVCRQRIRL 348 (355)
T ss_pred CCCCceEEecCCcc---ceeeecCC-----cEEE--chHH-Hhh--CCCCchhHHHHHH
Confidence 34578999997753 36789999 6532 3322 222 5569999998874
No 97
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=60.34 E-value=6.3 Score=42.56 Aligned_cols=49 Identities=24% Similarity=0.463 Sum_probs=40.4
Q ss_pred CCcccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCccccccccccc
Q 010219 274 EEEAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQN 332 (515)
Q Consensus 274 Eee~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~n 332 (515)
.|+..|.||.... -.....||+ |.--..||.+-+.. ++.|=.||..+..
T Consensus 420 sEd~lCpICyA~p---i~Avf~PC~-----H~SC~~CI~qHlmN--~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 420 SEDNLCPICYAGP---INAVFAPCS-----HRSCYGCITQHLMN--CKRCFFCKTTVID 468 (489)
T ss_pred cccccCcceeccc---chhhccCCC-----CchHHHHHHHHHhc--CCeeeEecceeee
Confidence 4577899997552 245788999 88889999999986 7889999999884
No 98
>PLN02400 cellulose synthase
Probab=57.32 E-value=7.2 Score=47.07 Aligned_cols=52 Identities=25% Similarity=0.589 Sum_probs=34.8
Q ss_pred cccceecccccc--cCCceEee--cCCCCCccceecHhhHHHHHhhcCCCcccccccccccc
Q 010219 276 EAVCRICLVELC--EGGETFKM--ECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQNL 333 (515)
Q Consensus 276 e~~CRIClee~e--e~d~~l~L--PC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~nl 333 (515)
+..|.||-++.+ +++++.+. .|+ --+=+.|.+ .=+.-|+..||.||+.|...
T Consensus 36 gqiCqICGD~VG~t~dGe~FVAC~eCa-----FPVCRpCYE-YERkeGnq~CPQCkTrYkR~ 91 (1085)
T PLN02400 36 GQICQICGDDVGVTETGDVFVACNECA-----FPVCRPCYE-YERKDGTQCCPQCKTRYRRH 91 (1085)
T ss_pred CceeeecccccCcCCCCCEEEEEccCC-----Cccccchhh-eecccCCccCcccCCccccc
Confidence 568999988763 44555532 354 335667863 22335899999999999944
No 99
>PLN02436 cellulose synthase A
Probab=57.12 E-value=8.3 Score=46.55 Aligned_cols=52 Identities=29% Similarity=0.669 Sum_probs=35.2
Q ss_pred cccceecccccc--cCCceEeecCC-CCCccceecHhhHHHHHhhcCCCccccccccccc
Q 010219 276 EAVCRICLVELC--EGGETFKMECS-CKGELALAHKECAIKWFTMKGNKTCDVCKQEVQN 332 (515)
Q Consensus 276 e~~CRIClee~e--e~d~~l~LPC~-CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~n 332 (515)
...|.||-++.+ .+++.. .-|+ |. --+=+.|.+ .=+..|+..||.||+.|..
T Consensus 36 ~~iCqICGD~Vg~t~dGe~F-VACn~C~---fpvCr~Cye-yer~eg~~~Cpqckt~Y~r 90 (1094)
T PLN02436 36 GQTCQICGDEIELTVDGEPF-VACNECA---FPVCRPCYE-YERREGNQACPQCKTRYKR 90 (1094)
T ss_pred CccccccccccCcCCCCCEE-EeeccCC---Cccccchhh-hhhhcCCccCcccCCchhh
Confidence 458999988763 444544 3444 20 236678884 3444689999999999994
No 100
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=57.10 E-value=33 Score=39.88 Aligned_cols=18 Identities=22% Similarity=0.442 Sum_probs=10.4
Q ss_pred HhhcccchhhhccchHHH
Q 010219 385 VAKMGTGAIAISLPFSCV 402 (515)
Q Consensus 385 v~~lg~~AlaislPfs~i 402 (515)
+..+.-++|++++=|=||
T Consensus 65 ~~~~~~~~~~~~~~~~~~ 82 (697)
T PF09726_consen 65 YDSFKYQGLAFSVFFVCI 82 (697)
T ss_pred HHHHhhhhhHHHHHHHHH
Confidence 344455677766655554
No 101
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=56.97 E-value=7.3 Score=38.66 Aligned_cols=52 Identities=21% Similarity=0.572 Sum_probs=33.7
Q ss_pred CCcccceecccccccCCce-----EeecCCCCCccceecHhhHHHHHhh---cCC------Ccccccccccc
Q 010219 274 EEEAVCRICLVELCEGGET-----FKMECSCKGELALAHKECAIKWFTM---KGN------KTCDVCKQEVQ 331 (515)
Q Consensus 274 Eee~~CRIClee~ee~d~~-----l~LPC~CkGslh~~H~~CL~kWL~~---kgn------~tCpLCk~~~~ 331 (515)
++...|.||.. |.-++.. -...|+ +-||+-|+..||+. ++. ..||-|...+.
T Consensus 163 d~~~~cgicya-yqldGTipDqtCdN~qCg-----kpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia 228 (234)
T KOG3268|consen 163 DELGACGICYA-YQLDGTIPDQTCDNIQCG-----KPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA 228 (234)
T ss_pred hhhhcccceee-eecCCccccccccccccC-----CcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence 44567999963 3222221 134588 88999999999973 111 37999987654
No 102
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=56.07 E-value=7.9 Score=40.03 Aligned_cols=26 Identities=31% Similarity=0.387 Sum_probs=19.9
Q ss_pred ceecHhhHHHHHhhcCCCcccccccc
Q 010219 304 ALAHKECAIKWFTMKGNKTCDVCKQE 329 (515)
Q Consensus 304 h~~H~~CL~kWL~~kgn~tCpLCk~~ 329 (515)
.|||..|+--==--||++.||-||..
T Consensus 245 EWFH~~CVGLk~pPKG~WYC~eCk~~ 270 (271)
T COG5034 245 EWFHLECVGLKEPPKGKWYCPECKKA 270 (271)
T ss_pred hheeccccccCCCCCCcEeCHHhHhc
Confidence 58999996533335789999999864
No 103
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=55.58 E-value=3.6 Score=43.59 Aligned_cols=50 Identities=24% Similarity=0.482 Sum_probs=40.5
Q ss_pred cccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCccccccccccccc
Q 010219 276 EAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQNLP 334 (515)
Q Consensus 276 e~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~nlp 334 (515)
...|++|. +|- -|...+..|- |-|=+.||.+.|.. +++||.|+-.+....
T Consensus 15 ~itC~LC~-GYl-iDATTI~eCL-----HTFCkSCivk~l~~--~~~CP~C~i~ih~t~ 64 (331)
T KOG2660|consen 15 HITCRLCG-GYL-IDATTITECL-----HTFCKSCIVKYLEE--SKYCPTCDIVIHKTH 64 (331)
T ss_pred ceehhhcc-cee-ecchhHHHHH-----HHHHHHHHHHHHHH--hccCCccceeccCcc
Confidence 56899996 442 2456778898 99999999999998 899999998887543
No 104
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=55.32 E-value=5.5 Score=46.98 Aligned_cols=36 Identities=19% Similarity=0.426 Sum_probs=27.5
Q ss_pred CcccceecccccccCCceEeecCCCCCccceecHhhHHHHHh
Q 010219 275 EEAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFT 316 (515)
Q Consensus 275 ee~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~ 316 (515)
..+.|.+|...+- ...-.+.||+ |.||++||.+=..
T Consensus 816 p~d~C~~C~~~ll-~~pF~vf~Cg-----H~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 816 PQDSCDHCGRPLL-IKPFYVFPCG-----HCFHRDCLIRHVL 851 (911)
T ss_pred CccchHHhcchhh-cCcceeeecc-----chHHHHHHHHHHH
Confidence 3567999976662 3355678999 9999999988664
No 105
>PRK07668 hypothetical protein; Validated
Probab=55.03 E-value=29 Score=35.73 Aligned_cols=105 Identities=14% Similarity=0.241 Sum_probs=60.4
Q ss_pred eccccchhhHHHHHHHHHHHHHHHh-hc---ccchhhhccchHHHHHHHHhhhhh-------hhhhhHHHHHHHHHHH--
Q 010219 362 WQEVPVLVIVSMLAYFCFLEQLLVA-KM---GTGAIAISLPFSCVLGLLASMTSS-------TMVKRRFVWVYASFQF-- 428 (515)
Q Consensus 362 Wq~~pvLViismLayF~fLeqLlv~-~l---g~~AlaislPfs~iLGlL~s~~as-------~mv~r~yiW~yA~~qF-- 428 (515)
|...-...++++++|+.+..-+.+. +. .+-...+++|+.++||+...+..- .+-.+.|+=.|.+...
T Consensus 74 ~~~~l~~~ii~~l~~~~i~~~~f~~~~~~~~~s~~~iig~~~~~~l~i~~~~~~~r~~~fk~~~~~~~~i~~~~~~~~p~ 153 (254)
T PRK07668 74 NIKLILFIIIGILSFWIIANILFGNPNHPLTYSLIQLIGYPISLILTIIGLIFLLRMASFKSKLTEKWFLIIYLVILIPM 153 (254)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCCceeeeehHHhhHHHHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHH
Confidence 4434455677888888887777665 21 223445666777777766655433 3334556555554443
Q ss_pred HHHHHHHHHH----HhhhhhhhHHHHHHHhhcccceeeehhhh
Q 010219 429 ALVVLFAHIF----YSLVGVQAVLSILLATFSGFGVAMSGSSI 467 (515)
Q Consensus 429 ~lvvl~~hiF----Y~~~~~~~v~~ill~t~~gfgi~m~~~~~ 467 (515)
++.++...++ |.++++....|.+|+... |=|.|++|..
T Consensus 154 ~l~i~i~~l~k~yp~~~~~ls~~qs~il~~~~-~i~~~~~~~~ 195 (254)
T PRK07668 154 LLIVAIMFLNKWYGTPMLQFTQMQSYILAGLI-FLITVIINIY 195 (254)
T ss_pred HHHHHHHHHHhhcCceEEEecchHHHHHHHHH-HHHHHHHHHH
Confidence 3333332222 345677888888887766 5566666544
No 106
>COG4769 Predicted membrane protein [Function unknown]
Probab=54.64 E-value=66 Score=31.73 Aligned_cols=39 Identities=21% Similarity=0.338 Sum_probs=24.9
Q ss_pred hHHHHHHHhhcccceeeehhhhHHHHhHhhhHhhhhcccc
Q 010219 446 AVLSILLATFSGFGVAMSGSSILVEFLRWKQRWEARSNQQ 485 (515)
Q Consensus 446 ~v~~ill~t~~gfgi~m~~~~~~~~~~~wr~~~~~~~~~q 485 (515)
|+++ .|..+.|++++|.+|.++..-.--+.+..+...||
T Consensus 140 Pll~-flGivsG~~vg~~~~~~i~~v~~~~~~~~~a~~q~ 178 (181)
T COG4769 140 PLLI-FLGIVSGTAVGILANTLIITVKINLKRFKAAQKQA 178 (181)
T ss_pred HHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 4443 35578999999999998776544444444444443
No 107
>PF02932 Neur_chan_memb: Neurotransmitter-gated ion-channel transmembrane region ion channel family signature gamma-aminobutyric acid (GABA) receptor signature nicotinic acetylcholine receptor signature; InterPro: IPR006029 Neurotransmitter ligand-gated ion channels are transmembrane receptor-ion channel complexes that open transiently upon binding of specific ligands, allowing rapid transmission of signals at chemical synapses [, ]. Five of these ion channel receptor families have been shown to form a sequence-related superfamily: Nicotinic acetylcholine receptor (AchR), an excitatory cation channel in vertebrates and invertebrates; in vertebrate motor endplates it is composed of alpha, beta, gamma and delta/epsilon subunits; in neurons it is composed of alpha and non-alpha (or beta) subunits []. Glycine receptor, an inhibitory chloride ion channel composed of alpha and beta subunits []. Gamma-aminobutyric acid (GABA) receptor, an inhibitory chloride ion channel; at least four types of subunits (alpha, beta, gamma and delta) are known []. Serotonin 5HT3 receptor, of which there are seven major types (5HT3-5HT7) []. Glutamate receptor, an excitatory cation channel of which at least three types have been described (kainate, N-methyl-D-aspartate (NMDA) and quisqualate) []. These receptors possess a pentameric structure (made up of varying subunits), surrounding a central pore. All known sequences of subunits from neurotransmitter-gated ion-channels are structurally related. They are composed of a large extracellular glycosylated N-terminal ligand-binding domain, followed by three hydrophobic transmembrane regions which form the ionic channel, followed by an intracellular region of variable length. A fourth hydrophobic region is found at the C-terminal of the sequence [, ]. This domain represents four transmembrane helices of a variety of neurotransmitter-gated ion-channels.; GO: 0006811 ion transport, 0016020 membrane; PDB: 1DXZ_A 3MRA_A 1EQ8_C 1OED_C 2PR9_P 1A11_A 1CEK_A 2BG9_E 2KSR_A 2K59_B ....
Probab=53.38 E-value=56 Score=28.64 Aligned_cols=22 Identities=23% Similarity=0.561 Sum_probs=10.0
Q ss_pred HHHHHHHHHH--HHHHHHHHHHhh
Q 010219 420 VWVYASFQFA--LVVLFAHIFYSL 441 (515)
Q Consensus 420 iW~yA~~qF~--lvvl~~hiFY~~ 441 (515)
+|.|+++.|. +.+.++.+.|.+
T Consensus 59 ~~~~~~~~~v~~~~~~~avv~~~~ 82 (237)
T PF02932_consen 59 GWYFICTMFVFSASLEFAVVVYNI 82 (237)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhccccchhhhHHHHhhhhhhhh
Confidence 3555544443 334444445544
No 108
>PRK05978 hypothetical protein; Provisional
Probab=52.09 E-value=84 Score=30.04 Aligned_cols=19 Identities=11% Similarity=0.464 Sum_probs=15.9
Q ss_pred HHHhhcCCCcccccccccccc
Q 010219 313 KWFTMKGNKTCDVCKQEVQNL 333 (515)
Q Consensus 313 kWL~~kgn~tCpLCk~~~~nl 333 (515)
.+|+. +..|+.|+.+|...
T Consensus 47 g~Lkv--~~~C~~CG~~~~~~ 65 (148)
T PRK05978 47 AFLKP--VDHCAACGEDFTHH 65 (148)
T ss_pred ccccc--CCCccccCCccccC
Confidence 67777 88999999999853
No 109
>PRK11098 microcin B17 transporter; Reviewed
Probab=51.13 E-value=29 Score=37.93 Aligned_cols=53 Identities=19% Similarity=0.382 Sum_probs=35.5
Q ss_pred ccchhhHHHHHHHHHHHHHHHhhcccchhhhccchHHHHHHHHhhhhhhhhhhHHHHHHHHHH
Q 010219 365 VPVLVIVSMLAYFCFLEQLLVAKMGTGAIAISLPFSCVLGLLASMTSSTMVKRRFVWVYASFQ 427 (515)
Q Consensus 365 ~pvLViismLayF~fLeqLlv~~lg~~AlaislPfs~iLGlL~s~~as~mv~r~yiW~yA~~q 427 (515)
..++.++.++.|+.+-++.+...+|..+-.-.+|.+ ++......|+|.|.-+-
T Consensus 16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~ 68 (409)
T PRK11098 16 AFVWALIAVIFWYAGGGDWLARLTGLAAASGQLPIG----------AARFWSPDFLWFYAYYL 68 (409)
T ss_pred HHHHHHHHHHHHHHccchhhhhhcCCCccccCCCcc----------hhHhcCchHHHHHHHHH
Confidence 345567778888888888887777754223335533 34556688999988744
No 110
>PF10947 DUF2628: Protein of unknown function (DUF2628) ; InterPro: IPR024399 Some members in this family of proteins have been annotated as YigF. Their function is currently unknown.
Probab=51.05 E-value=24 Score=30.75 Aligned_cols=52 Identities=19% Similarity=0.254 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHhhcccceeeehhhhHHHHhH
Q 010219 421 WVYASFQFALVVLFAHIFYSLVGVQAVLSILLATFSGFGVAMSGSSILVEFLR 473 (515)
Q Consensus 421 W~yA~~qF~lvvl~~hiFY~~~~~~~v~~ill~t~~gfgi~m~~~~~~~~~~~ 473 (515)
|.++.+- +.+.++..++..+++....+...+.-+..+..+|.+|.+|...++
T Consensus 56 w~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~l~~~~~~g~~~n~~y~~~~~ 107 (108)
T PF10947_consen 56 WLYAIIF-LALLVALAIILILLGFPPGLGLGLSLAISLFFGMFANYWYYRHLK 107 (108)
T ss_pred HHHHHHH-HHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4455332 233333344445555454455555555566778888888766543
No 111
>KOG2568 consensus Predicted membrane protein [Function unknown]
Probab=50.49 E-value=49 Score=37.37 Aligned_cols=34 Identities=26% Similarity=0.326 Sum_probs=23.7
Q ss_pred hHHHHHHHhhcccceeeehhhhHHHHhHhhhHhh
Q 010219 446 AVLSILLATFSGFGVAMSGSSILVEFLRWKQRWE 479 (515)
Q Consensus 446 ~v~~ill~t~~gfgi~m~~~~~~~~~~~wr~~~~ 479 (515)
+++.-++|+|++.++.+-.-++...-..||.+|-
T Consensus 387 ~l~~~Vvas~~~i~~~~~~~~~~~~~~~Wk~~Wv 420 (518)
T KOG2568|consen 387 TLAFSVVASFAFILVETIFYSIMSCNKDWKERWV 420 (518)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhh
Confidence 3334466788888887777776666677888873
No 112
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=49.10 E-value=9.4 Score=40.21 Aligned_cols=48 Identities=23% Similarity=0.476 Sum_probs=39.9
Q ss_pred cccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCcccccccccccc
Q 010219 276 EAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQNL 333 (515)
Q Consensus 276 e~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~nl 333 (515)
...|-||...+.. ..+.-|+ |+|-..|..+=++. ...|.||.+...++
T Consensus 241 Pf~c~icr~~f~~---pVvt~c~-----h~fc~~ca~~~~qk--~~~c~vC~~~t~g~ 288 (313)
T KOG1813|consen 241 PFKCFICRKYFYR---PVVTKCG-----HYFCEVCALKPYQK--GEKCYVCSQQTHGS 288 (313)
T ss_pred Ccccccccccccc---chhhcCC-----ceeehhhhcccccc--CCcceecccccccc
Confidence 4679999988743 5778899 99999999888875 67999999988754
No 113
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=49.02 E-value=10 Score=41.62 Aligned_cols=53 Identities=25% Similarity=0.326 Sum_probs=39.6
Q ss_pred ccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhc--C----CCccccccccccccc
Q 010219 277 AVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMK--G----NKTCDVCKQEVQNLP 334 (515)
Q Consensus 277 ~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~k--g----n~tCpLCk~~~~nlp 334 (515)
-.|-||+++.........+||+ |+|-+.|+...+.+- + .-.||-|+..=...|
T Consensus 185 f~C~ICf~e~~G~~c~~~lpC~-----Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a~~ 243 (445)
T KOG1814|consen 185 FDCCICFEEQMGQHCFKFLPCS-----HVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVAPP 243 (445)
T ss_pred ccceeeehhhcCcceeeecccc-----hHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccCCc
Confidence 6799999876444667789999 999999999999742 2 237887766555433
No 114
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=48.75 E-value=9.9 Score=30.89 Aligned_cols=45 Identities=20% Similarity=0.440 Sum_probs=32.4
Q ss_pred cccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCccccccccccc
Q 010219 276 EAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQN 332 (515)
Q Consensus 276 e~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~n 332 (515)
+..|-.|... +..-.++||+ |++=..|.+- .+-+-||+|+..+..
T Consensus 7 ~~~~~~~~~~---~~~~~~~pCg-----H~I~~~~f~~----~rYngCPfC~~~~~~ 51 (55)
T PF14447_consen 7 EQPCVFCGFV---GTKGTVLPCG-----HLICDNCFPG----ERYNGCPFCGTPFEF 51 (55)
T ss_pred ceeEEEcccc---cccccccccc-----ceeeccccCh----hhccCCCCCCCcccC
Confidence 3467777543 3445789999 9998888444 345689999998873
No 115
>COG0842 ABC-type multidrug transport system, permease component [Defense mechanisms]
Probab=47.89 E-value=1.1e+02 Score=28.69 Aligned_cols=47 Identities=26% Similarity=0.275 Sum_probs=27.7
Q ss_pred hhcccchhhhccchHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHh
Q 010219 386 AKMGTGAIAISLPFSCVLGLLASMTSSTMVKRRFVWVYASFQFALVVLFAHIFYS 440 (515)
Q Consensus 386 ~~lg~~AlaislPfs~iLGlL~s~~as~mv~r~yiW~yA~~qF~lvvl~~hiFY~ 440 (515)
...|.-......|.+....++.+.++.. +.+.++..++.+..+.++.
T Consensus 115 ~~~g~~~~~~~sp~~~~~~~~~~~~~~~--------~~~~~~~~~v~~~~~~~~g 161 (286)
T COG0842 115 REFGTLERLLVSPVSRLFILLGKIVPYL--------VVASLIAGLVLLVIAFLLG 161 (286)
T ss_pred HhhCcHHHHHhCCCcHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHc
Confidence 5667777777778775444444444443 2444555666666666665
No 116
>PF01146 Caveolin: Caveolin; InterPro: IPR001612 Caveolins [, , ] are a family of integral membrane proteins which are the principal components of caveolae membranes. Cavoleae are flask-shaped plasma membrane invaginations whose exact cellular function is not yet clear. Caveolins may act as scaffolding proteins within caveolar membranes by compartmentalizing and concentrating signalling molecules. Various classes of signalling molecules, including G-protein subunits, receptor and non-receptor tyrosine kinases, endothelial nitric oxide synthase (eNOS), and small GTPases, bind Cav-1 through its 'caveolin-scaffolding domain'. Currently, three different forms of caveolins are known: caveolin-1 (or VIP21), caveolin-2 and caveolin-3 (or M-caveolin). Caveolins are proteins of about 20 Kd, they form high molecular mass homo-oligomers. Structurally they seem to have N-terminal and C-terminal hydrophilic segments and a long central transmembrane domain that probably forms a hairpin in the membrane. Both extremities are known to face the cytoplasm. Caveolae are enriched with cholesterol and Cav-1 is one of the few proteins that binds cholesterol tightly and specifically.
Probab=47.07 E-value=68 Score=30.66 Aligned_cols=28 Identities=18% Similarity=0.528 Sum_probs=21.8
Q ss_pred hhhhccchHHHHHHHHhhhhhhhhhhHHHHHHH
Q 010219 392 AIAISLPFSCVLGLLASMTSSTMVKRRFVWVYA 424 (515)
Q Consensus 392 AlaislPfs~iLGlL~s~~as~mv~r~yiW~yA 424 (515)
++..++|++++.|++.++++.. +||++.
T Consensus 75 s~ilaiP~A~~~Gi~FA~lsf~-----hIW~v~ 102 (148)
T PF01146_consen 75 SLILAIPLAFLWGILFACLSFL-----HIWCVM 102 (148)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-----HHHHHH
Confidence 4567889999999999887765 566665
No 117
>PF02487 CLN3: CLN3 protein; InterPro: IPR003492 Batten's disease, the juvenile variant of neuronal ceroid lipofuscionosis (NCL), is a recessively inherited disorder affecting children of 5-10 years of age. The disease is characterised by progressive loss of vision, seizures and psychomotor disturbances. Biochemically, the disease is characterised by lysosomal accumulation of hydrophobic material, mainly ATP synthase subunit C, largely in the brain but also in other tissues. The disease is fatal within a decade []. Mutations in the CLN3 gene are believed to cause Batten's disease []. The CLN3 gene, with a predicted 438-residue product, maps to chromosome p16p12.1. The gene contains at least 15 exons spanning 15kb and is highly conserved in mammals []. A 1.02kb deletion in the CLN3 gene, occurring in either one or both alleles, is found in 85% of Batten disease chromosomes causing a frameshift generating a predicted translated product of 181 amino acid residues [, ]. 22 other mutations, including deletions, insertions and point mutations, have been reported. It has been suggested that such mutations result in severely truncated CLN3 proteins, or affect its structure/conformation [, ]. CLN3 proteins, which are believed to associate in complexes, are heavily glycosylated lysosomal membrane proteins [], containing complex Asn-linked oligosaccharides []. Extensive glycosylation is important for the stability of these lysosomal proteins in the highly hydrolytic lysosomal lumen. Lysosomal sequestration of active lysosomal enzymes, transport of degraded molecules from the lysosomes, and fusion and fission between lysosomes and other organelles. The CLN3 protein is a 43kDa, highly hydrophobic, multi-transmembrane (TM), phosphorylated protein []. Hydrophobicity analysis predicts 6-9 TM segments, suggesting that CLN3 is a TM protein that may function as a chaperone or signal transducer. The majority of putative phosphorylation sites are found in the N-terminal domain, encompassing 150 residues []. Phosphorylation is believed to be important for membrane compartment interaction, in the formation of functional complexes, and in regulation and interactions with other proteins []. CLN3 contains several motifs that may undergo lipid post-translational modifications (PTMs). PTMs contribute to targeting and anchoring of modified proteins to distinct biological membranes []. There are three general classes of lipid modification: N-terminal myristoylation, C-terminal prenylation, and palmitoylation of cysteine residues. Such modifications are believed to be a common form of PTM occurring in 0.5% of all cellular proteins, including brain tissue []. The C terminus of the CLN3 contains various lipid modification sites: C435, target for prenylation; G419, target for myristoylation; and C414, target for palmitoylation []. Prenylation results in protein hydrophobicity, influences interaction with upstream regulatory proteins and downstream effectors, facilitates protein-protein interaction (multisubunit assembly) and promotes anchoring to membrane lipids. The prenylation motif, Cys-A-A-X, is highly conserved within CLN3 protein sequences of different species []. Species with known CLN3 protein homologues include: Homo sapiens, Canis familiaris, Mus musculus, Saccharomyces cerevisiae and Drosophila melanogaster.; GO: 0016020 membrane
Probab=47.06 E-value=48 Score=36.12 Aligned_cols=73 Identities=16% Similarity=0.265 Sum_probs=43.4
Q ss_pred hHHHHHHHHHHHHHHHhhc-----------ccchhhhccchHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHH-HHHH
Q 010219 370 IVSMLAYFCFLEQLLVAKM-----------GTGAIAISLPFSCVLGLLASMTSSTMVKRRFVWVYASFQFALVVL-FAHI 437 (515)
Q Consensus 370 iismLayF~fLeqLlv~~l-----------g~~AlaislPfs~iLGlL~s~~as~mv~r~yiW~yA~~qF~lvvl-~~hi 437 (515)
.+-+|....|.|.+.-... ..+....-+-+..=+|++.|..+...+.=+.+|+.+.+|++.+++ +++-
T Consensus 248 ymiPL~lVY~aEY~InqGv~~tl~fp~~~~~~r~~Y~~Y~~~YQ~GVFISRSS~~~~rir~lwils~LQ~~nl~~~~l~s 327 (402)
T PF02487_consen 248 YMIPLFLVYFAEYFINQGVAPTLLFPNSFFSPRDQYRWYQLLYQLGVFISRSSLPFFRIRRLWILSLLQVINLVFLLLQS 327 (402)
T ss_pred HHHHHHHHHHHHHHHHhchHHHhcCCccCCCHHHHHHHHHHHHHHHHhhhhcceeeeehhhHHHHHHHHHHHHHHHHHHH
Confidence 3445555666676652211 122222233334448888887776666667899999999976665 4445
Q ss_pred HHhhh
Q 010219 438 FYSLV 442 (515)
Q Consensus 438 FY~~~ 442 (515)
+|.++
T Consensus 328 ~~~fi 332 (402)
T PF02487_consen 328 WYRFI 332 (402)
T ss_pred HHHHh
Confidence 55553
No 118
>KOG4583 consensus Membrane-associated ER protein involved in stress response (contains ubiquitin-like domain) [Posttranslational modification, protein turnover, chaperones]
Probab=44.85 E-value=66 Score=34.83 Aligned_cols=50 Identities=20% Similarity=0.349 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHhhcccceeeehhhhHHHHhHhhhHhhhh
Q 010219 419 FVWVYASFQFALVVLFAHIFYSLVGVQAVLSILLATFSGFGVAMSGSSILVEFLRWKQRWEAR 481 (515)
Q Consensus 419 yiW~yA~~qF~lvvl~~hiFY~~~~~~~v~~ill~t~~gfgi~m~~~~~~~~~~~wr~~~~~~ 481 (515)
.=|.|..+.+++.+-..+++-++.++--|+.+.| .||+..++|-+++...
T Consensus 263 Ld~~ysf~r~aillSilyfySSf~RfllVm~aal-------------~iYl~q~g~~r~r~e~ 312 (391)
T KOG4583|consen 263 LDWGYSFFRVAILLSILYFYSSFSRFLLVMGAAL-------------FIYLHQLGWFRFRAEA 312 (391)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHhccccccccc
Confidence 3488888887765555555555666555554433 3688888886655433
No 119
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=44.10 E-value=9.2 Score=46.17 Aligned_cols=53 Identities=36% Similarity=0.642 Sum_probs=34.9
Q ss_pred CCcccceecccccccCCceEee--cCCCCCccceecHhhHHHHHhhcCCCcccccccccc
Q 010219 274 EEEAVCRICLVELCEGGETFKM--ECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQ 331 (515)
Q Consensus 274 Eee~~CRIClee~ee~d~~l~L--PC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~ 331 (515)
+++..|.||++...++.+.... .|+ -.+|++|...=+-..|...|--|-+.=.
T Consensus 217 ~~D~~C~iC~~~~~~n~n~ivfCD~Cn-----l~VHq~Cygi~~ipeg~WlCr~Cl~s~~ 271 (1051)
T KOG0955|consen 217 EEDAVCCICLDGECQNSNVIVFCDGCN-----LAVHQECYGIPFIPEGQWLCRRCLQSPQ 271 (1051)
T ss_pred CCCccceeecccccCCCceEEEcCCCc-----chhhhhccCCCCCCCCcEeehhhccCcC
Confidence 4578999999876554444332 366 7899999884333446667777765544
No 120
>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 KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=43.45 E-value=10 Score=43.98 Aligned_cols=59 Identities=25% Similarity=0.338 Sum_probs=38.0
Q ss_pred cccceecccccccCCce--EeecCCCCCccceecHhhHHHHHh--------hcCCCccccccccccccc
Q 010219 276 EAVCRICLVELCEGGET--FKMECSCKGELALAHKECAIKWFT--------MKGNKTCDVCKQEVQNLP 334 (515)
Q Consensus 276 e~~CRIClee~ee~d~~--l~LPC~CkGslh~~H~~CL~kWL~--------~kgn~tCpLCk~~~~nlp 334 (515)
-..|.||.|+..+.+.. --|-|+=.|-...||..|.+.-=. ...-+.|-.|++-|..+.
T Consensus 117 nKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~HfsKlk 185 (900)
T KOG0956|consen 117 NKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYHFSKLK 185 (900)
T ss_pred cceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceeccccccccceechhHHHHHHHhh
Confidence 46899998764333221 235565444447899999876421 112369999999998654
No 122
>PF01306 LacY_symp: LacY proton/sugar symporter; InterPro: IPR022814 In bacteria there are a number of families of transport proteins, including symporters and antiporters, that mediate the intake of a variety of sugars with the concomitant uptake of hydrogen ions (proton symporters) []. The lacY family of Escherichia coli and Klebsiella pneumoniae are proton/beta-galactoside symporters, which, like most sugar transporters, are integral membrane proteins with 12 predicted transmembrane (TM) regions. Also similar to the lacY family are the rafinose (rafB) and sucrose (cscB) permeases from E. coli []. This entry also includes bacterial phenylproprionate permease.; PDB: 1PV7_B 1PV6_A 2Y5Y_B 2CFQ_A 2V8N_B 2CFP_A.
Probab=43.36 E-value=77 Score=34.64 Aligned_cols=80 Identities=16% Similarity=0.283 Sum_probs=46.2
Q ss_pred HHHHHHhhcccchhhhccchHH------HHHHHHhhhhhhhhhhHH-HHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHH
Q 010219 380 LEQLLVAKMGTGAIAISLPFSC------VLGLLASMTSSTMVKRRF-VWVYASFQFALVVLFAHIFYSLVGVQAVLSILL 452 (515)
Q Consensus 380 LeqLlv~~lg~~AlaislPfs~------iLGlL~s~~as~mv~r~y-iW~yA~~qF~lvvl~~hiFY~~~~~~~v~~ill 452 (515)
+-.-|....|.++-.+++-|++ ++..+.++++.+...|++ +|..+.+-.++..+|..+|.-+++.+-.+..++
T Consensus 30 ~~iWL~~~~GLs~~~iG~i~s~~~~~~l~~qp~~G~i~Dklg~kK~Ll~~i~~l~~l~~pff~~v~~pll~~n~~lg~ii 109 (412)
T PF01306_consen 30 FPIWLTQVAGLSGTEIGIIFSAGSLFALLAQPVYGFISDKLGLKKHLLWFIAILLLLFGPFFIYVFGPLLQSNFWLGAII 109 (412)
T ss_dssp HHHHHHHHH---HHHHHHHHHHHHHHHHHTHHHHHHHHHHCTTCSHHHHHHHHHHHTCHHHHHHTHHHHHHTT-HHHHHH
T ss_pred HHHHHccccCCCHHHHHHHHHHHHHHHHHHHHhHHHhcchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333444566666666655553 233334455677766555 688888776667777778888888877666555
Q ss_pred H-hhcccc
Q 010219 453 A-TFSGFG 459 (515)
Q Consensus 453 ~-t~~gfg 459 (515)
. .+.||+
T Consensus 110 g~i~l~~~ 117 (412)
T PF01306_consen 110 GGIYLGLV 117 (412)
T ss_dssp TTTTTTTT
T ss_pred HHHHHHHH
Confidence 3 234443
No 123
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=42.75 E-value=21 Score=38.20 Aligned_cols=59 Identities=15% Similarity=0.300 Sum_probs=40.6
Q ss_pred CCCCCCCCCCCCcccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCcccccccccc
Q 010219 264 NNDADGEDIPEEEAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQ 331 (515)
Q Consensus 264 ~~ed~~ed~~Eee~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~ 331 (515)
+..++.++.+.....|.||+... .-||-|--+-..|-..|+.+.+.. ..+||+=+....
T Consensus 288 ~~~se~e~l~~~~~~CpvClk~r-------~Nptvl~vSGyVfCY~Ci~~Yv~~--~~~CPVT~~p~~ 346 (357)
T KOG0826|consen 288 QYNSESELLPPDREVCPVCLKKR-------QNPTVLEVSGYVFCYPCIFSYVVN--YGHCPVTGYPAS 346 (357)
T ss_pred hcccccccCCCccccChhHHhcc-------CCCceEEecceEEeHHHHHHHHHh--cCCCCccCCcch
Confidence 33455566666678999998653 344444333366889999999996 778998766554
No 124
>TIGR00927 2A1904 K+-dependent Na+/Ca+ exchanger.
Probab=42.37 E-value=58 Score=39.56 Aligned_cols=24 Identities=29% Similarity=0.362 Sum_probs=10.1
Q ss_pred cccCceee-ecCCCCCCCCCCcccc
Q 010219 74 SSQDSVIV-RMPPTPSPTPTPRRVN 97 (515)
Q Consensus 74 ~~~~~~~~-~~~~t~s~~~~~~r~~ 97 (515)
++-+|-.. +-|.+..++|..-||.
T Consensus 362 ~~~~~~~~~~~~~~~~~~~~~~~~~ 386 (1096)
T TIGR00927 362 ASATFRGLEKNPSTAPSTPATPRVR 386 (1096)
T ss_pred ehhhhhhhhcCCCCCCCCCCCCcee
Confidence 34444432 4444444444444443
No 125
>PF11712 Vma12: Endoplasmic reticulum-based factor for assembly of V-ATPase; InterPro: IPR021013 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. The yeast vacuolar proton-translocating ATPase (V-ATPase) is the best characterised member of the V-ATPase family. A total of thirteen genes are required for encoding the subunits of the enzyme complex itself and an additional three for providing factors necessary for the assembly of the whole. Vma12 is one of these latter, all three of which are localised to the endoplasmic reticulum [].
Probab=40.89 E-value=26 Score=32.37 Aligned_cols=31 Identities=23% Similarity=0.409 Sum_probs=20.5
Q ss_pred hhhhHHHHHHHhhcccceeeehhhhHHHHhH
Q 010219 443 GVQAVLSILLATFSGFGVAMSGSSILVEFLR 473 (515)
Q Consensus 443 ~~~~v~~ill~t~~gfgi~m~~~~~~~~~~~ 473 (515)
.....+.++|+-|.|+.|+..=-.+|+.|++
T Consensus 106 ~~~~~~Rvllgl~~al~vlvAEv~l~~~y~~ 136 (142)
T PF11712_consen 106 GWSFPYRVLLGLFGALLVLVAEVVLYIRYLR 136 (142)
T ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4455666777777777777666666666553
No 126
>KOG3676 consensus Ca2+-permeable cation channel OSM-9 and related channels (OTRPC family) [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=39.85 E-value=92 Score=36.90 Aligned_cols=28 Identities=25% Similarity=0.355 Sum_probs=21.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 010219 417 RRFVWVYASFQFALVVLFAHIFYSLVGV 444 (515)
Q Consensus 417 r~yiW~yA~~qF~lvvl~~hiFY~~~~~ 444 (515)
=+|.|+|+.+=+.|..+|..||-..-+-
T Consensus 544 ~RF~~IY~Vfl~GFsqAfy~if~~~~~~ 571 (782)
T KOG3676|consen 544 FRFLLIYLVFLVGFSQAFYSIFQTCDRD 571 (782)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCCcc
Confidence 5899999999888888777777544443
No 127
>KOG1451 consensus Oligophrenin-1 and related Rho GTPase-activating proteins [Signal transduction mechanisms]
Probab=36.84 E-value=1.5e+02 Score=34.52 Aligned_cols=30 Identities=17% Similarity=0.170 Sum_probs=19.9
Q ss_pred cccccccccccccccccCCCCCcccCCCCC
Q 010219 165 RSLSLTKIFTPRIKRTSSLPVTPIAQSNLD 194 (515)
Q Consensus 165 ~s~Sl~k~~~~~~krt~SLPvt~~~~s~~~ 194 (515)
..-+.+++=...||++++.++|.+......
T Consensus 697 ~~S~~~~~p~f~sk~~a~~sLt~v~S~~~~ 726 (812)
T KOG1451|consen 697 YASTYNRIPAFSSKLTASISLTTVDSTGVV 726 (812)
T ss_pred CCCCcccCcccccccccceeeeeccCCCcc
Confidence 333456776667888888888777665543
No 128
>PHA03096 p28-like protein; Provisional
Probab=35.06 E-value=21 Score=37.17 Aligned_cols=50 Identities=16% Similarity=0.160 Sum_probs=33.0
Q ss_pred ccceecccccccC----CceEeec-CCCCCccceecHhhHHHHHhhcC-CCcccccccccc
Q 010219 277 AVCRICLVELCEG----GETFKME-CSCKGELALAHKECAIKWFTMKG-NKTCDVCKQEVQ 331 (515)
Q Consensus 277 ~~CRIClee~ee~----d~~l~LP-C~CkGslh~~H~~CL~kWL~~kg-n~tCpLCk~~~~ 331 (515)
..|.||++...+. ..--+|+ |. |.|=..|+..|...+. +.+|+.|+.--.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~-----h~fc~~ci~~wr~~~~~~e~~~~c~~~~~ 234 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIK-----HEFNIFCIKIWMTESLYKETEPENRRLNT 234 (284)
T ss_pred hhcccchhhhhhhccccccccccccCC-----cHHHHHHHHHHHHhhhhcccCccccchhh
Confidence 6799999866432 1122444 88 9999999999997642 345666654433
No 129
>PRK01766 multidrug efflux protein; Reviewed
Probab=35.05 E-value=1.1e+02 Score=32.25 Aligned_cols=57 Identities=9% Similarity=0.036 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHhhcccceeeehhhhHHHHhHhhh
Q 010219 419 FVWVYASFQFALVVLFAHIFYSLVGVQAVLSILLATFSGFGVAMSGSSILVEFLRWKQ 476 (515)
Q Consensus 419 yiW~yA~~qF~lvvl~~hiFY~~~~~~~v~~ill~t~~gfgi~m~~~~~~~~~~~wr~ 476 (515)
-+++.....+++.+.+.+++..+.++ -+..+.++++.+..+....+..++...+||.
T Consensus 390 ~~~~~~~~~~~~~i~~~~~l~~~~~~-G~~G~~~~~~~~~~~~~~~~~~~~~~~~~~~ 446 (456)
T PRK01766 390 IFFITFIAYWVLGLPLGYILALTDPM-GPFGFWIGLIIGLTAAAILLLLRLRKLQRQP 446 (456)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccCC-CceehHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33343333434444444444333222 2445555555555555555555555555554
No 130
>PF06570 DUF1129: Protein of unknown function (DUF1129); InterPro: IPR009214 There are currently no experimental data for members of this group or their homologues. However, these proteins contain predicted integral membrane proteins (with several transmembrane segments).
Probab=34.98 E-value=1e+02 Score=29.93 Aligned_cols=14 Identities=29% Similarity=0.237 Sum_probs=6.7
Q ss_pred cchHHHHHHHHhhh
Q 010219 397 LPFSCVLGLLASMT 410 (515)
Q Consensus 397 lPfs~iLGlL~s~~ 410 (515)
+.++++.|++.-++
T Consensus 117 i~~~i~~G~~~~~~ 130 (206)
T PF06570_consen 117 ILVSIVGGLVFYFI 130 (206)
T ss_pred HHHHHHHHHHHHHH
Confidence 33455555554433
No 131
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=34.91 E-value=12 Score=31.35 Aligned_cols=44 Identities=23% Similarity=0.443 Sum_probs=21.0
Q ss_pred ccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCcccccccccc
Q 010219 277 AVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQ 331 (515)
Q Consensus 277 ~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~ 331 (515)
--|.+|.+-+.+ ....-.|. |.|=..|+..-+. ..||+|+...-
T Consensus 8 LrCs~C~~~l~~--pv~l~~Ce-----H~fCs~Ci~~~~~----~~CPvC~~Paw 51 (65)
T PF14835_consen 8 LRCSICFDILKE--PVCLGGCE-----HIFCSSCIRDCIG----SECPVCHTPAW 51 (65)
T ss_dssp TS-SSS-S--SS---B---SSS-------B-TTTGGGGTT----TB-SSS--B-S
T ss_pred cCCcHHHHHhcC--CceeccCc-----cHHHHHHhHHhcC----CCCCCcCChHH
Confidence 359999866532 33445699 9999999977544 35999998775
No 132
>PF02592 DUF165: Uncharacterized ACR, YhhQ family COG1738; InterPro: IPR003744 This is a family of uncharacterised proteins. Conserved regions of hydrophobicity suggest that all members of the family may be integral membrane proteins.
Probab=34.82 E-value=1.3e+02 Score=27.78 Aligned_cols=30 Identities=20% Similarity=0.173 Sum_probs=25.5
Q ss_pred hHHHHHHHhhcccceeeehhhhHHHHhHhh
Q 010219 446 AVLSILLATFSGFGVAMSGSSILVEFLRWK 475 (515)
Q Consensus 446 ~v~~ill~t~~gfgi~m~~~~~~~~~~~wr 475 (515)
+...|++|++++|.++.-.|..+..++|-+
T Consensus 66 ~~~ri~~aS~~a~lisq~~d~~if~~lk~~ 95 (145)
T PF02592_consen 66 PTPRIALASLIAFLISQLLDVYIFSKLKRK 95 (145)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 477889999999999999999888777655
No 133
>PF15013 CCSMST1: CCSMST1 family
Probab=34.36 E-value=29 Score=29.95 Aligned_cols=22 Identities=36% Similarity=0.797 Sum_probs=14.5
Q ss_pred ceeccccchhh-HHHHHHHHHHH
Q 010219 360 RVWQEVPVLVI-VSMLAYFCFLE 381 (515)
Q Consensus 360 r~Wq~~pvLVi-ismLayF~fLe 381 (515)
-.||-.|+.+. ..+|+|||+|.
T Consensus 29 PWyq~~~is~sl~~fliyFC~lR 51 (77)
T PF15013_consen 29 PWYQVYPISLSLAAFLIYFCFLR 51 (77)
T ss_pred cceeeehhHHHHHHHHHHHhhcc
Confidence 35776665433 45889999953
No 134
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=34.36 E-value=19 Score=38.68 Aligned_cols=49 Identities=24% Similarity=0.615 Sum_probs=38.8
Q ss_pred CCcccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCcccccccccc
Q 010219 274 EEEAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQ 331 (515)
Q Consensus 274 Eee~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~ 331 (515)
++.-.|.||..-..+ ......|+ |.|=..|+..|+.. +..||.|.....
T Consensus 19 ~~~l~C~~C~~vl~~--p~~~~~cg-----h~fC~~C~~~~~~~--~~~cp~~~~~~~ 67 (391)
T KOG0297|consen 19 DENLLCPICMSVLRD--PVQTTTCG-----HRFCAGCLLESLSN--HQKCPVCRQELT 67 (391)
T ss_pred cccccCccccccccC--CCCCCCCC-----Ccccccccchhhcc--CcCCcccccccc
Confidence 445689999877643 22336899 99999999999997 889999976655
No 135
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=34.21 E-value=32 Score=35.89 Aligned_cols=54 Identities=20% Similarity=0.430 Sum_probs=34.2
Q ss_pred ccceecccccccCCceEeecCCCCCccceecHhhHHHHHhh--cC-----CCcccccccccc
Q 010219 277 AVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTM--KG-----NKTCDVCKQEVQ 331 (515)
Q Consensus 277 ~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~--kg-----n~tCpLCk~~~~ 331 (515)
..|.+|.+++.+.+.. ++.|.=++-.-..|..|+-.-+.. .| ...||.|++.+.
T Consensus 183 ~~celc~~ei~e~~~~-~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~~ 243 (276)
T KOG3005|consen 183 VECELCEKEILETDWS-RATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFLS 243 (276)
T ss_pred hhhHHHHHHhccccce-eccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhceee
Confidence 5899999988544433 333332222267999999884432 12 258999998554
No 136
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.06 E-value=15 Score=38.87 Aligned_cols=43 Identities=23% Similarity=0.680 Sum_probs=29.4
Q ss_pred cccceecccccccCCceEeecCCCCCccceec-HhhHHHHHhhcCCCccccccccccc
Q 010219 276 EAVCRICLVELCEGGETFKMECSCKGELALAH-KECAIKWFTMKGNKTCDVCKQEVQN 332 (515)
Q Consensus 276 e~~CRIClee~ee~d~~l~LPC~CkGslh~~H-~~CL~kWL~~kgn~tCpLCk~~~~n 332 (515)
...|+||++.- -+-..|+|+ |.+- .+|= +.-+-|||||+.++.
T Consensus 300 ~~LC~ICmDaP---~DCvfLeCG-----HmVtCt~CG------krm~eCPICRqyi~r 343 (350)
T KOG4275|consen 300 RRLCAICMDAP---RDCVFLECG-----HMVTCTKCG------KRMNECPICRQYIVR 343 (350)
T ss_pred HHHHHHHhcCC---cceEEeecC-----cEEeehhhc------cccccCchHHHHHHH
Confidence 67899999653 345779999 7653 2331 223489999998874
No 137
>PF04138 GtrA: GtrA-like protein; InterPro: IPR007267 Members of this entry belong to the GtrA family and are predicted to be integral membrane proteins with three or four transmembrane spans. They are involved in the synthesis of cell surface polysaccharides. GtrA is predicted to be an integral membrane protein with 4 transmembrane spans. It is involved in O antigen modification by Shigella flexneri bacteriophage X (SfX), but does not determine the specificity of glucosylation. Its function remains unknown, but it may play a role in translocation of undecaprenyl phosphate linked glucose (UndP-Glc) across the cytoplasmic membrane []. Another member of this family is a DTDP-glucose-4-keto-6-deoxy-D-glucose reductase, which catalyses the conversion of dTDP-4-keto-6-deoxy-D-glucose to dTDP-D-fucose, which is involved in the biosynthesis of the serotype-specific polysaccharide antigen of Actinobacillus actinomycetemcomitans Y4 (serotype b) []. This family also includes the teichoic acid glycosylation protein, GtcA, which is a serotype-specific protein in some Listeria innocua and Listeria monocytogenes strains. Its exact function is not known, but it is essential for decoration of cell wall teichoic acids with glucose and galactose [].; GO: 0000271 polysaccharide biosynthetic process, 0006810 transport, 0016021 integral to membrane
Probab=33.86 E-value=1.9e+02 Score=24.72 Aligned_cols=41 Identities=15% Similarity=0.358 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHhhhhhhhHHHHHHHhhcccceeeehhhhHHHH
Q 010219 427 QFALVVLFAHIFYSLVGVQAVLSILLATFSGFGVAMSGSSILVEF 471 (515)
Q Consensus 427 qF~lvvl~~hiFY~~~~~~~v~~ill~t~~gfgi~m~~~~~~~~~ 471 (515)
.+++-.+..+++-.+++.++.++ .+.|.++++..|+++..+
T Consensus 74 ~~~~~~~~~~~~~~~~~~~~~~a----~~~~~~i~~~~~f~~~k~ 114 (117)
T PF04138_consen 74 GLLLNTLILWLLVDWLGIPYLIA----KLIAIGIVFVVNFLLSKF 114 (117)
T ss_pred HHHHHHHHHHHHHHHhCchHHHH----HHHHHHHHHHHHHHHHhe
Confidence 33444444555556666666554 444566677777777654
No 138
>COG3671 Predicted membrane protein [Function unknown]
Probab=32.54 E-value=57 Score=30.52 Aligned_cols=18 Identities=39% Similarity=0.748 Sum_probs=11.6
Q ss_pred HHHHHHHhhcccceeeehh
Q 010219 447 VLSILLATFSGFGVAMSGS 465 (515)
Q Consensus 447 v~~ill~t~~gfgi~m~~~ 465 (515)
|++.|| |+.|+||+|-.-
T Consensus 78 iIg~Ll-t~lgiGv~i~~A 95 (125)
T COG3671 78 IIGLLL-TFLGIGVVILVA 95 (125)
T ss_pred HHHHHH-HHHHHHHHHHHH
Confidence 344444 888889887543
No 139
>PF06123 CreD: Inner membrane protein CreD; InterPro: IPR010364 This family consists of several bacterial CreD or Cet inner membrane proteins. Dominant mutations of the cet gene of Escherichia coli result in tolerance to colicin E2 and increased amounts of an inner membrane protein with a Mr of 42,000. The cet gene is shown to be in the same operon as the phoM gene, which is required in a phoR background for expression of the structural gene for alkaline phosphatase, phoA. Although the Cet protein is not required for phoA expression, it has been suggested that the Cet protein has an enhancing effect on the transcription of phoA [].
Probab=32.17 E-value=1.4e+02 Score=32.95 Aligned_cols=11 Identities=27% Similarity=0.326 Sum_probs=5.9
Q ss_pred CCCCCccccCC
Q 010219 33 KAAGPVHKAED 43 (515)
Q Consensus 33 ~~~~p~~~~~~ 43 (515)
++..|+-.++=
T Consensus 51 ~i~GPvL~vPy 61 (430)
T PF06123_consen 51 TITGPVLVVPY 61 (430)
T ss_pred EEeeCEEEEEE
Confidence 55666644443
No 140
>COG1682 TagG ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]
Probab=31.69 E-value=1.2e+02 Score=30.97 Aligned_cols=26 Identities=23% Similarity=0.336 Sum_probs=19.0
Q ss_pred hHHHHHHHhhcccceeeehhhhHHHH
Q 010219 446 AVLSILLATFSGFGVAMSGSSILVEF 471 (515)
Q Consensus 446 ~v~~ill~t~~gfgi~m~~~~~~~~~ 471 (515)
-.+++++..+.++|+++...++-+.|
T Consensus 147 ~~~~l~~l~l~~~g~~l~~a~l~v~f 172 (263)
T COG1682 147 LLPALLLLILFSVGLGLILASLGVRF 172 (263)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHhhhc
Confidence 44555677778899998888876655
No 141
>PRK13727 conjugal transfer pilin chaperone TraQ; Provisional
Probab=31.50 E-value=39 Score=29.21 Aligned_cols=46 Identities=20% Similarity=0.266 Sum_probs=36.3
Q ss_pred HHHHHHHHHhhhhhhhHHHHHHHhhcccceeeehhhhHHHHhHhhhHh
Q 010219 431 VVLFAHIFYSLVGVQAVLSILLATFSGFGVAMSGSSILVEFLRWKQRW 478 (515)
Q Consensus 431 vvl~~hiFY~~~~~~~v~~ill~t~~gfgi~m~~~~~~~~~~~wr~~~ 478 (515)
+..++|+.-+.+.-+|-+++.||-+.|.|+...|-|=+ .-+|-+|.
T Consensus 21 lG~wfhiVarlVy~~PemA~~laeiiav~lVl~GgYRi--lda~iarv 66 (80)
T PRK13727 21 LGVWFHIVARLVYSKPWMAFFLAELIAAILVLFGAYRV--LDAWIARV 66 (80)
T ss_pred hhHHHHHHHHHHHcChHHHHHHHHHHHHHHHhhhHHHH--HHHHHHHH
Confidence 45578999999999999999999998888777776544 45666554
No 142
>PF03616 Glt_symporter: Sodium/glutamate symporter; InterPro: IPR004445 This is a family of sodium/glutamate symporters (glutamate permeases), which catalyse the sodium-dependent uptake of extracellular glutamate. The protein is located in the inner membrane.; GO: 0015501 glutamate:sodium symporter activity, 0015813 L-glutamate transport, 0016021 integral to membrane
Probab=31.22 E-value=70 Score=34.23 Aligned_cols=47 Identities=26% Similarity=0.477 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHHHHH-HHhhhhhhhHHHHHHHhhcccceeeehhhhH
Q 010219 422 VYASFQFALVVLFAHI-FYSLVGVQAVLSILLATFSGFGVAMSGSSIL 468 (515)
Q Consensus 422 ~yA~~qF~lvvl~~hi-FY~~~~~~~v~~ill~t~~gfgi~m~~~~~~ 468 (515)
+.-.+|.++.++|+.+ .|++++-.-=-+++-+.+.|||++++-|.+.
T Consensus 310 iil~~q~i~~~~f~~fv~fr~~gkdydaavm~~G~~G~glGatp~a~a 357 (368)
T PF03616_consen 310 IILAVQTILMVLFAYFVTFRVMGKDYDAAVMSAGFCGFGLGATPNAMA 357 (368)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhCCChhHHHHhhhhhccCCCccHHHHH
Confidence 3446787777777544 5667776644455667999999999999875
No 143
>PF05297 Herpes_LMP1: Herpesvirus latent membrane protein 1 (LMP1); InterPro: IPR007961 This family consists of several latent membrane protein 1 or LMP1s mostly from Epstein-Barr virus (strain GD1) (HHV-4) (Human herpesvirus 4). LMP1 of HHV-4 is a 62-65 kDa plasma membrane protein possessing six membrane spanning regions, a short cytoplasmic N terminus and a long cytoplasmic carboxy tail of 200 amino acids. HHV-4 virus latent membrane protein 1 (LMP1) is essential for HHV-4 mediated transformation and has been associated with several cases of malignancies. HHV-4-like viruses in Macaca fascicularis (Cynomolgus monkeys) have been associated with high lymphoma rates in immunosuppressed monkeys [].; GO: 0019087 transformation of host cell by virus, 0016021 integral to membrane; PDB: 1CZY_E 1ZMS_B.
Probab=31.18 E-value=16 Score=38.71 Aligned_cols=15 Identities=27% Similarity=0.746 Sum_probs=0.0
Q ss_pred chhhHHHHHHHHHHH
Q 010219 367 VLVIVSMLAYFCFLE 381 (515)
Q Consensus 367 vLViismLayF~fLe 381 (515)
+|.++++|.||++.+
T Consensus 30 llll~ail~w~~iim 44 (381)
T PF05297_consen 30 LLLLVAILVWFFIIM 44 (381)
T ss_dssp ---------------
T ss_pred HHHHHHHHHHHHHHH
Confidence 344455566665533
No 144
>COG5232 SEC62 Preprotein translocase subunit Sec62 [Intracellular trafficking and secretion]
Probab=30.98 E-value=55 Score=33.46 Aligned_cols=48 Identities=21% Similarity=0.249 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHhhcccchhhhccchHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHH
Q 010219 373 MLAYFCFLEQLLVAKMGTGAIAISLPFSCVLGLLASMTSSTMVKRRFVWVYASFQFALVVLFAH 436 (515)
Q Consensus 373 mLayF~fLeqLlv~~lg~~AlaislPfs~iLGlL~s~~as~mv~r~yiW~yA~~qF~lvvl~~h 436 (515)
+|+..|| -|--..|.-++-.+++|..-+||++. +.|++.|+|.+++..
T Consensus 162 ~lalVlf--plWPr~mr~g~~Y~s~g~~G~i~~ff--------------vlaIlRliLf~it~~ 209 (259)
T COG5232 162 TLALVLF--PLWPRNMRQGLFYMSYGLGGFITFFF--------------VLAILRLILFSITYL 209 (259)
T ss_pred HHHHHHH--hcCchHhhcCeeeeeeccchHHHHHH--------------HHHHHHHHHHHhhhe
Confidence 4455554 23346666666777777543333222 466666665555443
No 145
>PRK12911 bifunctional preprotein translocase subunit SecD/SecF; Reviewed
Probab=30.89 E-value=81 Score=39.50 Aligned_cols=59 Identities=22% Similarity=0.168 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHhhcccceeeehhhhHHHHhHhhhH
Q 010219 419 FVWVYASFQFALVVLFAHIFYSLVGVQAVLSILLATFSGFGVAMSGSSILVEFLRWKQR 477 (515)
Q Consensus 419 yiW~yA~~qF~lvvl~~hiFY~~~~~~~v~~ill~t~~gfgi~m~~~~~~~~~~~wr~~ 477 (515)
|-++.+.+=..+.++++..++.+++..-=+.-+.+-++.+|+++=.|.++.|.+|=..+
T Consensus 932 f~GliA~IALll~VlltLg~LsLlGitLTLpgIAGIILlIGmAVDdnIVIfERIREELr 990 (1403)
T PRK12911 932 FGGVIASGAVLLNLLLIWAALQYLDAPLTLSGLAGIVLAMGMAVDANVLVFERIREEYL 990 (1403)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHHhhcCCEEEehHHHHHHH
Confidence 34455554445555566666666665544444455556778888888888887765543
No 146
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=30.67 E-value=20 Score=42.29 Aligned_cols=52 Identities=21% Similarity=0.449 Sum_probs=33.4
Q ss_pred CCCCCCcccceecccccccCCceEeec--CCCCCccceecHhhHHHHHhh--cCCCcccccc
Q 010219 270 EDIPEEEAVCRICLVELCEGGETFKME--CSCKGELALAHKECAIKWFTM--KGNKTCDVCK 327 (515)
Q Consensus 270 ed~~Eee~~CRIClee~ee~d~~l~LP--C~CkGslh~~H~~CL~kWL~~--kgn~tCpLCk 327 (515)
++..++..-|-||-.. +.++++.|- |. ..+||..||+.=|.. -+..+|+-|-
T Consensus 209 ~~~~~E~~~C~IC~~~--DpEdVLLLCDsCN----~~~YH~YCLDPdl~eiP~~eWYC~NC~ 264 (1134)
T KOG0825|consen 209 SGLSQEEVKCDICTVH--DPEDVLLLCDSCN----KVYYHVYCLDPDLSESPVNEWYCTNCS 264 (1134)
T ss_pred cCcccccccceeeccC--ChHHhheeecccc----cceeeccccCcccccccccceecCcch
Confidence 3444567789999644 334455443 55 256999999985521 2467898884
No 147
>COG4331 Predicted membrane protein [Function unknown]
Probab=29.88 E-value=1.2e+02 Score=29.42 Aligned_cols=60 Identities=20% Similarity=0.328 Sum_probs=36.7
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHhhcccceeeehhhhHHHHhHhh
Q 010219 412 STMVKRRFVWVYASFQFALVVLFAHIFYSLVGVQAVLSILLATFSGFGVAMSGSSILVEFLRWK 475 (515)
Q Consensus 412 s~mv~r~yiW~yA~~qF~lvvl~~hiFY~~~~~~~v~~ill~t~~gfgi~m~~~~~~~~~~~wr 475 (515)
..|++|.=.|.|...=+.++.+..+..|++..--.+.-|+|. -|.+.|.. ..++||-+-|
T Consensus 98 i~~LwkkklwaYPlsi~vl~lFI~YQlyr~~~t~Si~livlt---i~Dv~vii-LtllEYR~lk 157 (167)
T COG4331 98 IALLWKKKLWAYPLSILVLVLFILYQLYRFFNTGSISLIVLT---IFDVFVII-LTLLEYRLLK 157 (167)
T ss_pred HHHHHHHHHhhccHHHHHHHHHHHHHHHHHHhcccHHHHHHH---HHHHHHHH-HHHHHHHHHH
Confidence 367789999999997777776666666666555544444443 34444322 2245554444
No 148
>TIGR01129 secD protein-export membrane protein SecD. SecD from Mycobacterium tuberculosis has a long Pro-rich insert.
Probab=29.51 E-value=74 Score=34.46 Aligned_cols=49 Identities=12% Similarity=0.219 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHhhhhhhhHHHHHHHhhcccceeeehhhhHHHHhHhhh
Q 010219 428 FALVVLFAHIFYSLVGVQAVLSILLATFSGFGVAMSGSSILVEFLRWKQ 476 (515)
Q Consensus 428 F~lvvl~~hiFY~~~~~~~v~~ill~t~~gfgi~m~~~~~~~~~~~wr~ 476 (515)
..+.+++...++.+++..-=+..+.+-++.+|+++--+.++.|.+|-..
T Consensus 280 l~~~v~~~l~~~~l~g~~l~l~siaglil~iG~~VD~~Ivi~erire~l 328 (397)
T TIGR01129 280 LVINIVLILAILSAFGATLTLPGIAGLILTIGMAVDANVLIYERIKEEL 328 (397)
T ss_pred HHHHHHHHHHHHHHHCCCccHHHHHHHHHHhheeeeceEEEeHHHHHHH
Confidence 3344455555666666554444455556677888877877777666443
No 149
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=29.18 E-value=11 Score=39.27 Aligned_cols=37 Identities=30% Similarity=0.592 Sum_probs=30.0
Q ss_pred ccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhc
Q 010219 277 AVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMK 318 (515)
Q Consensus 277 ~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~k 318 (515)
.+|.+|+++++.++..-...|.| ++|..|+-.|+...
T Consensus 215 rvC~~CF~el~~~~~~~~~~~~~-----~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDREDSLP-----VFHGKCYPNWLTTG 251 (288)
T ss_pred eecHHHHHHHhcccccchhhccc-----cccccccccccccc
Confidence 38999999997655556677886 89999999999863
No 150
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=28.72 E-value=25 Score=40.56 Aligned_cols=33 Identities=27% Similarity=0.642 Sum_probs=23.8
Q ss_pred EeecCCCCCccceecHhhHHHHHhhc---C------CCcccccc
Q 010219 293 FKMECSCKGELALAHKECAIKWFTMK---G------NKTCDVCK 327 (515)
Q Consensus 293 l~LPC~CkGslh~~H~~CL~kWL~~k---g------n~tCpLCk 327 (515)
+.+-|.|.| ..+|..|+.-|+... + .+.|+.|+
T Consensus 34 ~m~ac~~c~--~~yH~~cvt~~~~~~~l~~gWrC~~crvCe~c~ 75 (694)
T KOG4443|consen 34 RLLACSDCG--QKYHPYCVTSWAQHAVLSGGWRCPSCRVCEACG 75 (694)
T ss_pred cchhhhhhc--ccCCcchhhHHHhHHHhcCCcccCCceeeeecc
Confidence 345588777 579999999999753 2 24667776
No 151
>TIGR00955 3a01204 The Eye Pigment Precursor Transporter (EPP) Family protein.
Probab=28.42 E-value=3.2e+02 Score=30.95 Aligned_cols=23 Identities=22% Similarity=0.244 Sum_probs=16.3
Q ss_pred hhhccchHHHHHHHHhhhhhhhh
Q 010219 393 IAISLPFSCVLGLLASMTSSTMV 415 (515)
Q Consensus 393 laislPfs~iLGlL~s~~as~mv 415 (515)
+..-+|+.++..++.+++...|+
T Consensus 441 ~l~~lp~~~~~~~if~~i~Y~~~ 463 (617)
T TIGR00955 441 TIAELPLFIILPALFTSITYWMI 463 (617)
T ss_pred HHHHHHHHHHHHHHHHhhhheec
Confidence 34458888888888877766554
No 152
>MTH00107 ND4L NADH dehydrogenase subunit 4L; Provisional
Probab=27.60 E-value=2.5e+02 Score=24.63 Aligned_cols=57 Identities=14% Similarity=0.265 Sum_probs=30.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhhhhh----hhHHHHHHHhhcccceeeehhhhHHHHhH
Q 010219 416 KRRFVWVYASFQFALVVLFAHIFYSLVGV----QAVLSILLATFSGFGVAMSGSSILVEFLR 473 (515)
Q Consensus 416 ~r~yiW~yA~~qF~lvvl~~hiFY~~~~~----~~v~~ill~t~~gfgi~m~~~~~~~~~~~ 473 (515)
.|+.+.+.-++||.+..++.-+++.+... ..++++..-+++.--.|++.+ +++-+.|
T Consensus 23 rk~ll~~LlslE~m~l~v~l~~~~~~~~~~~~~~~~~~l~~L~~avcEaalGLs-lLV~~~R 83 (98)
T MTH00107 23 RSHLMSSLLCLEGMMLSLFIMATLTILNTHFTLASMMPIILLVFAACEAAVGLA-LLVMVSN 83 (98)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHHHHH-HHHHHHH
Confidence 57777788899998776665444333221 235555554554444444433 3344443
No 153
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=27.40 E-value=49 Score=29.87 Aligned_cols=35 Identities=29% Similarity=0.394 Sum_probs=25.4
Q ss_pred cccceecccccccCCceEeecCCCCCccceecHhhHHHHHh
Q 010219 276 EAVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFT 316 (515)
Q Consensus 276 e~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~ 316 (515)
+-.|.||-...-+++...-.+ ||+ +|.+|+..=.+
T Consensus 6 ewkC~VCg~~iieGqkFTF~~---kGs---VH~eCl~~s~~ 40 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFTK---KGS---VHYECLAESKR 40 (103)
T ss_pred eeeEeeeCCEeeeccEEEEee---CCc---chHHHHHHHHh
Confidence 346999988887776655555 555 89999876554
No 154
>KOG3618 consensus Adenylyl cyclase [General function prediction only]
Probab=27.36 E-value=1.4e+02 Score=35.91 Aligned_cols=59 Identities=17% Similarity=0.319 Sum_probs=34.1
Q ss_pred HhhcccchhhhccchHHHHHHHHhhhh----hhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 010219 385 VAKMGTGAIAISLPFSCVLGLLASMTS----STMVKRRFVWVYASFQFALVVLFAHIFYSLVGV 444 (515)
Q Consensus 385 v~~lg~~AlaislPfs~iLGlL~s~~a----s~mv~r~yiW~yA~~qF~lvvl~~hiFY~~~~~ 444 (515)
..+++++=+-...|-=|.|.|+..|+. +.+-.|.|.|.-+++-|+ +++....|++.-..
T Consensus 100 av~~rs~fi~~~~~slc~lslv~~mf~~ft~~~lY~rhy~~TS~~~tlL-vc~~tLa~ltat~r 162 (1318)
T KOG3618|consen 100 AVHMRSRFIVMVAPSLCFLSLVCVMFFLFTFTKLYARHYAWTSLALTLL-VCALTLANLTATAR 162 (1318)
T ss_pred eeccCceeeeehHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHH-HHHHHHHHhhhccc
Confidence 446666544444444456666666542 355669999998887764 44444444444443
No 155
>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=27.20 E-value=29 Score=25.94 Aligned_cols=45 Identities=22% Similarity=0.497 Sum_probs=27.1
Q ss_pred cceecccccccCCceEe-ecCCCCCccceecHhhHHHHHh----hcCCCccccccc
Q 010219 278 VCRICLVELCEGGETFK-MECSCKGELALAHKECAIKWFT----MKGNKTCDVCKQ 328 (515)
Q Consensus 278 ~CRIClee~ee~d~~l~-LPC~CkGslh~~H~~CL~kWL~----~kgn~tCpLCk~ 328 (515)
.|.||.... ++++.+. -.|. .+||..|+..=.. ..+...|+.|+.
T Consensus 1 ~C~vC~~~~-~~~~~i~C~~C~-----~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSD-DDGDMIQCDSCN-----RWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSC-TTSSEEEBSTTS-----CEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcC-CCCCeEEcCCCC-----hhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 488998733 3333333 2477 8999999764433 123567877753
No 156
>cd03512 Alkane-hydroxylase Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes in Pseudomonas oleovorans encode conversion of alkanes to acyl CoA. The alkane omega-hydroxylase (AlkB) system is responsible for the initial oxidation of inactivated alkanes. It is a three-component system comprising a soluble NADH-rubredoxin reductase (AlkT), a soluble rubredoxin (AlkG), and the integral membrane oxygenase (AlkB). AlkB utilizes the oxygen rebound mechanism to hydroxylate alkanes. This mechanism involves homolytic cleavage of the C-H bond by an electrophilic metal-oxo intermediate to generate a substrate-based radical. As with other members of this superfamily, this domain family has extensive hydrophobic regions that would be capable of spanning the membrane bilayer at least twice. The active
Probab=26.72 E-value=1.8e+02 Score=30.52 Aligned_cols=44 Identities=20% Similarity=0.219 Sum_probs=21.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHhhccccee
Q 010219 417 RRFVWVYASFQFALVVLFAHIFYSLVGVQAVLSILLATFSGFGVA 461 (515)
Q Consensus 417 r~yiW~yA~~qF~lvvl~~hiFY~~~~~~~v~~ill~t~~gfgi~ 461 (515)
+..+|+++.++|+++++...+... -.......|++.-.+|+..+
T Consensus 41 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~G~~~g 84 (314)
T cd03512 41 RWLLYLLLPLQFALLFLGVWAVST-GDLSALEKVGLILSLGLLSG 84 (314)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHc-CCCcHHHHHHHHHHHHHHHH
Confidence 444566777777666544433222 23444444444333344333
No 157
>TIGR02741 TraQ type-F conjugative transfer system pilin chaperone TraQ. This protein makes a specific interaction with the pilin (TraA) protein to aid its transfer through the inner membrane during the process of F-type conjugative pilus assembly.
Probab=26.69 E-value=58 Score=28.16 Aligned_cols=46 Identities=20% Similarity=0.280 Sum_probs=36.0
Q ss_pred HHHHHHHHHhhhhhhhHHHHHHHhhcccceeeehhhhHHHHhHhhhHh
Q 010219 431 VVLFAHIFYSLVGVQAVLSILLATFSGFGVAMSGSSILVEFLRWKQRW 478 (515)
Q Consensus 431 vvl~~hiFY~~~~~~~v~~ill~t~~gfgi~m~~~~~~~~~~~wr~~~ 478 (515)
+..++|+.-+.+..+|-+++.||-+.|.|+...|-|=++ -.|-+|.
T Consensus 21 lG~wfhiVarlVy~~P~mA~~laeliav~lVl~G~YRiL--dawiarv 66 (80)
T TIGR02741 21 LGIWFHIVSRLVYRKPWMAFFLAELIAVILVLWGAYRVL--DAWIARV 66 (80)
T ss_pred hhHHHHHHHHHHHcChHHHHHHHHHHHHHHHHhhHHHHH--HHHHHHH
Confidence 345789999999999999999999988887777765444 4566554
No 158
>COG4792 EscU Type III secretory pathway, component EscU [Intracellular trafficking and secretion]
Probab=26.68 E-value=2.5e+02 Score=30.26 Aligned_cols=75 Identities=19% Similarity=0.310 Sum_probs=41.1
Q ss_pred hHHHHHHHHHHHHHHHhh----cccchhhhccchHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhh-hhh
Q 010219 370 IVSMLAYFCFLEQLLVAK----MGTGAIAISLPFSCVLGLLASMTSSTMVKRRFVWVYASFQFALVVLFAHIFYSL-VGV 444 (515)
Q Consensus 370 iismLayF~fLeqLlv~~----lg~~AlaislPfs~iLGlL~s~~as~mv~r~yiW~yA~~qF~lvvl~~hiFY~~-~~~ 444 (515)
+++.++||++...-+..+ +-..+...-+||. ||.-|..-+++...++|-. +.+
T Consensus 35 ~~al~~yf~l~g~~~~~~~~~ll~~~~~~~n~PF~----------------------~Al~~il~~ll~~~l~~v~pl~~ 92 (349)
T COG4792 35 LLALVAYFMLFGDSYFEHLVELLLFTIELLNLPFS----------------------YALRQILGALLEELLYLVLPLLL 92 (349)
T ss_pred HHHHHHHHHHhhHHHHHHHHHHHhhHHHHhcCcHH----------------------HHHHHHHHHHHHHHHHHHHHHHH
Confidence 456677777643333222 2233555667775 7776654444433333322 233
Q ss_pred hhHHHHHHHhhcccceeeehhh
Q 010219 445 QAVLSILLATFSGFGVAMSGSS 466 (515)
Q Consensus 445 ~~v~~ill~t~~gfgi~m~~~~ 466 (515)
-.+++.++|.+.-.|.-.++-+
T Consensus 93 ~~~v~tv~s~v~q~Gfl~a~ea 114 (349)
T COG4792 93 VVIVATVLSGVLQVGFLFALEA 114 (349)
T ss_pred HHHHHHHHHHHhhheeeEeecc
Confidence 5677778888877776665544
No 159
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=26.41 E-value=26 Score=36.29 Aligned_cols=50 Identities=16% Similarity=0.443 Sum_probs=37.3
Q ss_pred cccceecccccc--cCCceEeec-CCCCCccceecHhhHHHHHhhcCCCccc--ccccccc
Q 010219 276 EAVCRICLVELC--EGGETFKME-CSCKGELALAHKECAIKWFTMKGNKTCD--VCKQEVQ 331 (515)
Q Consensus 276 e~~CRIClee~e--e~d~~l~LP-C~CkGslh~~H~~CL~kWL~~kgn~tCp--LCk~~~~ 331 (515)
+..|.||..+-- .+-..++-| |- |..-..|+++-|. .|-..|| -|..-++
T Consensus 10 d~~CPvCksDrYLnPdik~linPECy-----HrmCESCvdRIFs-~GpAqCP~~gC~kILR 64 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECY-----HRMCESCVDRIFS-RGPAQCPYKGCGKILR 64 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHH-----HHHHHHHHHHHhc-CCCCCCCCccHHHHHH
Confidence 458999987642 222446667 87 7778899999998 4889999 8877655
No 160
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=26.31 E-value=47 Score=39.14 Aligned_cols=44 Identities=23% Similarity=0.592 Sum_probs=28.3
Q ss_pred ccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCcccc--ccc
Q 010219 277 AVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDV--CKQ 328 (515)
Q Consensus 277 ~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpL--Ck~ 328 (515)
..|.+|.... .+....--.|+ |.-|.+|+.+||.. +..|+. |..
T Consensus 780 ~~CtVC~~vi-~G~~~~c~~C~-----H~gH~sh~~sw~~~--~s~ca~~~C~~ 825 (839)
T KOG0269|consen 780 AKCTVCDLVI-RGVDVWCQVCG-----HGGHDSHLKSWFFK--ASPCAKSICPH 825 (839)
T ss_pred cCceeeccee-eeeEeeccccc-----ccccHHHHHHHHhc--CCCCccccCCc
Confidence 4677775433 11112222366 99999999999986 667776 654
No 161
>PF11674 DUF3270: Protein of unknown function (DUF3270); InterPro: IPR021688 This family of proteins with unknown function appears to be restricted to Streptococcus.
Probab=26.06 E-value=1.2e+02 Score=26.83 Aligned_cols=34 Identities=21% Similarity=0.361 Sum_probs=24.2
Q ss_pred HHHHHHHHHhhhhhhhHHHHHHHhhcccceeeehh
Q 010219 431 VVLFAHIFYSLVGVQAVLSILLATFSGFGVAMSGS 465 (515)
Q Consensus 431 vvl~~hiFY~~~~~~~v~~ill~t~~gfgi~m~~~ 465 (515)
.|+++++|-+ +++++++|+++|...|||+.-...
T Consensus 52 tvlfsFvfLs-~kl~t~~Af~~Ai~~Sl~~~~~~~ 85 (90)
T PF11674_consen 52 TVLFSFVFLS-LKLNTFWAFPLAILISLAITQLVR 85 (90)
T ss_pred HHHHHHHHHH-HhhhHHHHHHHHHHHHHHHHHHHH
Confidence 3445555554 478899999999999988764433
No 162
>PF04973 NMN_transporter: Nicotinamide mononucleotide transporter; InterPro: IPR006419 The PnuC protein of Escherichia coli is membrane protein responsible for nicotinamide mononucleotide transport, subject to regulation by interaction with the NadR (also called NadI) protein (see IPR006417 from INTERPRO). The extreme N- and C-terminal regions are poorly conserved. ; GO: 0006810 transport, 0016020 membrane
Probab=25.92 E-value=4.5e+02 Score=24.95 Aligned_cols=34 Identities=12% Similarity=0.323 Sum_probs=16.8
Q ss_pred hhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 010219 408 SMTSSTMVKRRFVWVYASFQFALVVLFAHIFYSLVG 443 (515)
Q Consensus 408 s~~as~mv~r~yiW~yA~~qF~lvvl~~hiFY~~~~ 443 (515)
|++|..|..|+|. ..++=+.++.++....|-...
T Consensus 123 siva~~l~~~k~~--e~W~~Wi~~ni~~i~l~~~~~ 156 (181)
T PF04973_consen 123 SIVAQWLMARKYR--EQWILWIVVNIISIVLWFMKG 156 (181)
T ss_pred HHHHHHHHHHHHH--HhHHHHHHHHHHHHHHHHHHH
Confidence 4556777777765 222233444444444444333
No 163
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=25.74 E-value=54 Score=33.16 Aligned_cols=48 Identities=19% Similarity=0.467 Sum_probs=38.0
Q ss_pred ccceecccccccCC---ceEeecCCCCCccceecHhhHHHHHhhcCCCccccccccc
Q 010219 277 AVCRICLVELCEGG---ETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEV 330 (515)
Q Consensus 277 ~~CRIClee~ee~d---~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~ 330 (515)
..|-||-++|...+ -++.|-|+ |.+=+.|+.+-+.. +...||.|+..-
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~-----h~~c~~c~~~l~~~-~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCG-----HTICQNCASKLLGN-SRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccccC-----ceehHhHHHHHhcC-ceeeccCCCCcc
Confidence 47999999996542 34677799 99999999887774 566889999984
No 164
>PRK05415 hypothetical protein; Provisional
Probab=25.46 E-value=1.1e+02 Score=32.87 Aligned_cols=48 Identities=10% Similarity=0.023 Sum_probs=26.3
Q ss_pred HhhhhhhhHHHHHHHhhcccceeeehhhhHHHHhHhhhHhhhhccccC
Q 010219 439 YSLVGVQAVLSILLATFSGFGVAMSGSSILVEFLRWKQRWEARSNQQH 486 (515)
Q Consensus 439 Y~~~~~~~v~~ill~t~~gfgi~m~~~~~~~~~~~wr~~~~~~~~~q~ 486 (515)
|..|.-++.+..+.+++.|+.+......++.|+.+.++-+..+..|+.
T Consensus 90 ~~~~~~~~wlg~~~~~~~~~~~~~~~~~~~rE~~~l~rL~~~~~~r~~ 137 (341)
T PRK05415 90 RDAFQRSDWLGLGAAVVGALIVLAGLGIVVREWRRLRRLRQRAHLRDE 137 (341)
T ss_pred HHHHHhCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444455544444444444555556678888777665555544443
No 165
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=25.44 E-value=46 Score=32.66 Aligned_cols=41 Identities=29% Similarity=0.651 Sum_probs=25.7
Q ss_pred cccceecccccc----cCCceEeec-CCCCCccceecHhhHHHHHhhcCCCccccccc
Q 010219 276 EAVCRICLVELC----EGGETFKME-CSCKGELALAHKECAIKWFTMKGNKTCDVCKQ 328 (515)
Q Consensus 276 e~~CRIClee~e----e~d~~l~LP-C~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~ 328 (515)
+..|.||..+.- +.+.+..-+ |+ ..||+.|..+ ..||-|..
T Consensus 152 GfiCe~C~~~~~IfPF~~~~~~~C~~C~-----~v~H~~C~~~-------~~CpkC~R 197 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQIDTTVRCPKCK-----SVFHKSCFRK-------KSCPKCAR 197 (202)
T ss_pred CCCCccCCCCCCCCCCCCCCeeeCCcCc-----cccchhhcCC-------CCCCCcHh
Confidence 567888864310 122333333 88 8999999652 45999964
No 166
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=24.84 E-value=2.8e+02 Score=33.51 Aligned_cols=14 Identities=21% Similarity=0.743 Sum_probs=11.3
Q ss_pred CCccc---ccccccccc
Q 010219 320 NKTCD---VCKQEVQNL 333 (515)
Q Consensus 320 n~tCp---LCk~~~~nl 333 (515)
...|| ||.+.|.|-
T Consensus 665 q~ScP~~~ic~~kftn~ 681 (958)
T KOG1074|consen 665 QFSCPSTFICQKKFTNA 681 (958)
T ss_pred cccCCchhhhccccccc
Confidence 35899 999999873
No 167
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=24.82 E-value=22 Score=39.55 Aligned_cols=54 Identities=20% Similarity=0.455 Sum_probs=35.8
Q ss_pred ccceecccccccCCceEeec-CCCCCccceecHhhHHHHHhh------cCCCccccccccccccc
Q 010219 277 AVCRICLVELCEGGETFKME-CSCKGELALAHKECAIKWFTM------KGNKTCDVCKQEVQNLP 334 (515)
Q Consensus 277 ~~CRIClee~ee~d~~l~LP-C~CkGslh~~H~~CL~kWL~~------kgn~tCpLCk~~~~nlp 334 (515)
.+|.+|.+..-...+ +.+. |+|+ .+||+.|-+.-.+. .....|.+|...-..++
T Consensus 169 ~qc~vC~~g~~~~~N-rmlqC~~C~---~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~~~~~ 229 (464)
T KOG4323|consen 169 LQCSVCYCGGPGAGN-RMLQCDKCR---QWYHQACHQPLIKDELAGDPFYEWFCDVCNRGPKKVP 229 (464)
T ss_pred ceeeeeecCCcCccc-eeeeecccc---cHHHHHhccCCCCHhhccCccceEeehhhccchhhcc
Confidence 349999876533334 5554 3442 68999998766542 23469999998877654
No 168
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=24.43 E-value=45 Score=39.03 Aligned_cols=62 Identities=23% Similarity=0.411 Sum_probs=40.3
Q ss_pred CCcccceecccccccCCceEeecCCCCCccceecHhhH-------HHHHhhcC-------CCccccccccccccccc
Q 010219 274 EEEAVCRICLVELCEGGETFKMECSCKGELALAHKECA-------IKWFTMKG-------NKTCDVCKQEVQNLPVT 336 (515)
Q Consensus 274 Eee~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL-------~kWL~~kg-------n~tCpLCk~~~~nlpv~ 336 (515)
|.-..|.+|-+|-.=.++.++. |.-.+---.+|+.|- -.||-.|- ..+||+|-+++-.|..+
T Consensus 3 EMVGGCCVCSDErGWaeNPLVY-CDG~nCsVAVHQaCYGIvqVPtGpWfCrKCesqeraarvrCeLCP~kdGALKkT 78 (900)
T KOG0956|consen 3 EMVGGCCVCSDERGWAENPLVY-CDGHNCSVAVHQACYGIVQVPTGPWFCRKCESQERAARVRCELCPHKDGALKKT 78 (900)
T ss_pred ccccceeeecCcCCCccCceee-ecCCCceeeeehhcceeEecCCCchhhhhhhhhhhhccceeecccCcccceecc
Confidence 3445799998876555666643 221111167999996 37995432 25999999998876543
No 169
>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=24.41 E-value=41 Score=26.91 Aligned_cols=26 Identities=12% Similarity=0.411 Sum_probs=19.6
Q ss_pred ceecHhhHHHHHhhcCCCcccccccccc
Q 010219 304 ALAHKECAIKWFTMKGNKTCDVCKQEVQ 331 (515)
Q Consensus 304 h~~H~~CL~kWL~~kgn~tCpLCk~~~~ 331 (515)
||.-..|+..-+.. +..||||++++.
T Consensus 21 HYLCl~CLt~ml~~--s~~C~iC~~~LP 46 (50)
T PF03854_consen 21 HYLCLNCLTLMLSR--SDRCPICGKPLP 46 (50)
T ss_dssp -EEEHHHHHHT-SS--SSEETTTTEE--
T ss_pred hhHHHHHHHHHhcc--ccCCCcccCcCc
Confidence 89999999987776 789999999875
No 170
>COG4485 Predicted membrane protein [Function unknown]
Probab=24.26 E-value=3.1e+02 Score=32.78 Aligned_cols=14 Identities=14% Similarity=0.596 Sum_probs=10.0
Q ss_pred hhhhhhHHHHHHHH
Q 010219 412 STMVKRRFVWVYAS 425 (515)
Q Consensus 412 s~mv~r~yiW~yA~ 425 (515)
--|..+||.|++|.
T Consensus 347 PnmflhRya~ifs~ 360 (858)
T COG4485 347 PNMFLHRYAYIFSL 360 (858)
T ss_pred chHHHHHHHHHHHH
Confidence 36777888887764
No 171
>COG3256 NorB Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]
Probab=24.21 E-value=2.4e+02 Score=33.06 Aligned_cols=90 Identities=22% Similarity=0.326 Sum_probs=50.0
Q ss_pred hhcccchhhhccchHHHHHHHHhhhhhh------------------hhhhHHHHHHHHHHHHHHHHHHHHHHhh--hh--
Q 010219 386 AKMGTGAIAISLPFSCVLGLLASMTSST------------------MVKRRFVWVYASFQFALVVLFAHIFYSL--VG-- 443 (515)
Q Consensus 386 ~~lg~~AlaislPfs~iLGlL~s~~as~------------------mv~r~yiW~yA~~qF~lvvl~~hiFY~~--~~-- 443 (515)
.++|+.++++++-|- ++|.++....+. -+.|.++|-...+.-.++......-+++ .+
T Consensus 331 ~~l~s~~L~~al~~v-~~gs~~g~~~gyl~~l~~~~~F~~G~QG~~~~~~g~lwqlll~~~ll~~v~Lmfra~~t~~~~~ 409 (717)
T COG3256 331 QELGSPKLLIALFFV-VVGSLAGAWLGYLQLLPAPFWFWFGHQGYEYLGRGRLWQLLLIKGLLVWVALMFRANVTATKLK 409 (717)
T ss_pred hhhccHHHHHHHHHH-HHHHHHHHHHHHHhccCCccceeecccCCccccchHHHHHHHHHHHHHHHHHHHHhcchhhhcC
Confidence 377888888887654 344444433221 2257889987766544433332222221 11
Q ss_pred h--hhHHHHHHHhhcccce------eeeh--hhhHHHHhHhhh
Q 010219 444 V--QAVLSILLATFSGFGV------AMSG--SSILVEFLRWKQ 476 (515)
Q Consensus 444 ~--~~v~~ill~t~~gfgi------~m~~--~~~~~~~~~wr~ 476 (515)
. ..++.|++.+.+|+|+ -..- |.-+.||.||--
T Consensus 410 grkt~~i~~~~~~~~gig~Ff~~~~~~~~~~n~t~dey~rWwv 452 (717)
T COG3256 410 GRKTTLIAILLLSLTGIGLFFLFGLYNPEWTNLAVDEYWRWWV 452 (717)
T ss_pred CcchhHHHHHHHHHHHHHHHHhhhhccCCCCCchHHHHHHHHH
Confidence 1 1455555555555544 4444 788899999964
No 172
>KOG3059 consensus N-acetylglucosaminyltransferase complex, subunit PIG-C/GPI2, required for phosphatidylinositol biosynthesis [Lipid transport and metabolism]
Probab=24.10 E-value=1.8e+02 Score=30.81 Aligned_cols=40 Identities=25% Similarity=0.358 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHhhcccchhhhccchHHHHHHHHhhh-hhhh
Q 010219 375 AYFCFLEQLLVAKMGTGAIAISLPFSCVLGLLASMT-SSTM 414 (515)
Q Consensus 375 ayF~fLeqLlv~~lg~~AlaislPfs~iLGlL~s~~-as~m 414 (515)
..+++|+.++..++|..+.-++.|.+.-.++++++. ++++
T Consensus 151 sv~l~L~~~ff~~y~~s~~~vs~~lS~na~v~~sv~LaSRl 191 (292)
T KOG3059|consen 151 SVWLLLGNLFFHDYGISTIRVSGPLSLNAAVSASVLLASRL 191 (292)
T ss_pred HHHHHHHHHhcccccccccccCCcchHHHHHHHHHHHHHhc
Confidence 455667888889999999999998887777777554 4443
No 173
>TIGR00918 2A060602 The Eukaryotic (Putative) Sterol Transporter (EST) Family.
Probab=24.02 E-value=1.3e+02 Score=37.08 Aligned_cols=50 Identities=18% Similarity=0.185 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHhhcccceeeehhhhHH
Q 010219 420 VWVYASFQFALVVLFAHIFYSLVGVQAVLSILLATFSGFGVAMSGSSILV 469 (515)
Q Consensus 420 iW~yA~~qF~lvvl~~hiFY~~~~~~~v~~ill~t~~gfgi~m~~~~~~~ 469 (515)
+|+-.++=+.++.++..+.+-=+.+++|-.|.|....||||..+.-..+.
T Consensus 993 ~iv~l~v~~i~v~v~G~M~lwgI~LnaVS~vnLimsIGisVefsaHI~~~ 1042 (1145)
T TIGR00918 993 GLIVLVLALMTVELFGMMGLLGIKLSAIPVVILIASVGIGVEFTVHIALG 1042 (1145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCccHHHHHHHHHHHhhhhhhhHHHHHH
Confidence 34444444455556666666666778999998989999999887664443
No 174
>PF07907 YibE_F: YibE/F-like protein; InterPro: IPR012507 The sequences featured in this family are similar to two proteins expressed by Lactococcus lactis, YibE (Q9CHC5 from SWISSPROT) and YibF (Q9CHC4 from SWISSPROT). Most of the members of this family are annotated as being putative membrane proteins, and in fact the sequences contain a high proportion of hydrophobic residues.
Probab=23.43 E-value=2.3e+02 Score=28.92 Aligned_cols=100 Identities=14% Similarity=0.197 Sum_probs=50.0
Q ss_pred HHHHHHHHHHHHHHHhhcccchhhhccchHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHH
Q 010219 371 VSMLAYFCFLEQLLVAKMGTGAIAISLPFSCVLGLLASMTSSTMVKRRFVWVYASFQFALVVLFAHIFYSLVGVQAVLSI 450 (515)
Q Consensus 371 ismLayF~fLeqLlv~~lg~~AlaislPfs~iLGlL~s~~as~mv~r~yiW~yA~~qF~lvvl~~hiFY~~~~~~~v~~i 450 (515)
+..+..|.++-.+..++-|..++ +++-|++++=++. ++-..+--..-+|+....-.++.++..++.+.+ +.... +-
T Consensus 4 ~~l~~if~~lll~igg~~G~~sl-lsL~~n~~~i~~~-~i~~~~~G~~~~~v~~i~~~~~~~vtl~lv~G~-n~kt~-~A 79 (244)
T PF07907_consen 4 VILLIIFILLLLLIGGKKGLRSL-LSLIFNFLIIFFV-LIPLILNGYNPILVTIIAAILITAVTLFLVNGF-NKKTL-AA 79 (244)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH-HHHHHhCCCCHHHHHHHHHHHHHHHHHHHhcCc-hHHHH-HH
Confidence 34455566666777788888776 5555553321111 111111113455665554444444444444433 33333 44
Q ss_pred HHHhhcccceeeehhhhHHHHhHh
Q 010219 451 LLATFSGFGVAMSGSSILVEFLRW 474 (515)
Q Consensus 451 ll~t~~gfgi~m~~~~~~~~~~~w 474 (515)
+++|+.|..+++....+..+..+-
T Consensus 80 ~~~tl~~~~~~~~l~~~~~~~~~~ 103 (244)
T PF07907_consen 80 FIGTLIGVLLAGILALLVMKLAHL 103 (244)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcC
Confidence 566666766666655555554443
No 175
>MTH00043 ND4L NADH dehydrogenase subunit 4L; Validated
Probab=23.37 E-value=3.6e+02 Score=23.54 Aligned_cols=57 Identities=21% Similarity=0.277 Sum_probs=34.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhhhhh----hhHHHHHHHhhcccceeeehhhhHHHHhH
Q 010219 416 KRRFVWVYASFQFALVVLFAHIFYSLVGV----QAVLSILLATFSGFGVAMSGSSILVEFLR 473 (515)
Q Consensus 416 ~r~yiW~yA~~qF~lvvl~~hiFY~~~~~----~~v~~ill~t~~gfgi~m~~~~~~~~~~~ 473 (515)
.|+++++.-++||.+..++.-+++..... ..++++.+-++++-..|++.+- ++-+.|
T Consensus 23 r~~ll~~Ll~lE~m~l~l~l~~~~~~~~~~~~~~~~~~l~~L~~~vcEaalGLsL-LV~~~R 83 (98)
T MTH00043 23 RLHLLSILLCLELLLISLFLNISIWSLNYGNFSNLSFSLLLLTLSACEASIGLSL-MVLLSR 83 (98)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcchHHHHHHHHHHHHHHHHHHHHHHH-HHHHHH
Confidence 46788888899999887765554443222 2456666666655555555543 444433
No 176
>KOG2927 consensus Membrane component of ER protein translocation complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.28 E-value=82 Score=34.22 Aligned_cols=19 Identities=21% Similarity=0.284 Sum_probs=8.9
Q ss_pred hhcccchhhhccchHHHHH
Q 010219 386 AKMGTGAIAISLPFSCVLG 404 (515)
Q Consensus 386 ~~lg~~AlaislPfs~iLG 404 (515)
..|...+...|++-+|+|+
T Consensus 212 ~~mR~gvyY~sig~~gfl~ 230 (372)
T KOG2927|consen 212 RRMRQGVYYLSIGAGGFLA 230 (372)
T ss_pred HHHhcceeeeecchhHHHH
Confidence 3444444555555444443
No 177
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=23.22 E-value=51 Score=26.12 Aligned_cols=21 Identities=24% Similarity=0.199 Sum_probs=9.1
Q ss_pred ccceeeehhhhHHHHhHhhhH
Q 010219 457 GFGVAMSGSSILVEFLRWKQR 477 (515)
Q Consensus 457 gfgi~m~~~~~~~~~~~wr~~ 477 (515)
++|+..+.-..+..++++|++
T Consensus 29 ~~G~llg~l~~~~~~~~~r~~ 49 (68)
T PF06305_consen 29 LLGALLGWLLSLPSRLRLRRR 49 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444445444443
No 178
>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=22.86 E-value=3.6e+02 Score=28.27 Aligned_cols=19 Identities=11% Similarity=0.048 Sum_probs=10.1
Q ss_pred hhccchHHHHHHHHhhhhh
Q 010219 394 AISLPFSCVLGLLASMTSS 412 (515)
Q Consensus 394 aislPfs~iLGlL~s~~as 412 (515)
.-+.|+++++|++...+|+
T Consensus 205 ~~~gplgI~~slv~v~iAa 223 (274)
T PF12811_consen 205 RDGGPLGIGFSLVVVGIAA 223 (274)
T ss_pred ccCChHHHHHHHHHHHHHH
Confidence 3345555555655555544
No 179
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.83 E-value=28 Score=40.40 Aligned_cols=44 Identities=20% Similarity=0.499 Sum_probs=33.1
Q ss_pred ccceeccccccc-CCceEeecCCCCCccceecHhhHHHHHhhcCCCccccccccc
Q 010219 277 AVCRICLVELCE-GGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEV 330 (515)
Q Consensus 277 ~~CRIClee~ee-~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~ 330 (515)
..|.||+..+.. .-+...+.|+ |..-.+|+++-.+ .+|| |+++=
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cg-----htic~~c~~~lyn----~scp-~~~De 56 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCG-----HTICGHCVQLLYN----ASCP-TKRDE 56 (861)
T ss_pred hhchHHHHHHHHHhcCccccccc-----chHHHHHHHhHhh----ccCC-CCccc
Confidence 469999877743 2345678899 9999999988775 4899 87653
No 180
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.70 E-value=43 Score=35.70 Aligned_cols=31 Identities=19% Similarity=0.457 Sum_probs=24.8
Q ss_pred ecHhhHHHHHhh-----------cCCCccccccccccccccc
Q 010219 306 AHKECAIKWFTM-----------KGNKTCDVCKQEVQNLPVT 336 (515)
Q Consensus 306 ~H~~CL~kWL~~-----------kgn~tCpLCk~~~~nlpv~ 336 (515)
.-.+|+-+||.. +++.+||.|++.|..+.|.
T Consensus 329 wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv~ 370 (381)
T KOG3899|consen 329 WCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDVH 370 (381)
T ss_pred HHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeeee
Confidence 557999999954 3667999999999876654
No 181
>PRK13735 conjugal transfer mating pair stabilization protein TraG; Provisional
Probab=22.41 E-value=2.8e+02 Score=33.79 Aligned_cols=30 Identities=13% Similarity=0.322 Sum_probs=18.5
Q ss_pred cchHHHHHHHHhhhhhhhhhhHHHHHHHHHHH
Q 010219 397 LPFSCVLGLLASMTSSTMVKRRFVWVYASFQF 428 (515)
Q Consensus 397 lPfs~iLGlL~s~~as~mv~r~yiW~yA~~qF 428 (515)
.|+-++|.+|-++ +..+++-|+..+.++|+
T Consensus 340 FPlV~llallp~~--g~~vLkgY~~~~iwLql 369 (942)
T PRK13735 340 FPLLVLAAVFNKL--TLSVLKGYVFALMWLQS 369 (942)
T ss_pred HHHHHHHHHhccc--hHHHHHHHHHHHHHHHH
Confidence 3555555555542 45567788777776664
No 182
>COG0670 Integral membrane protein, interacts with FtsH [General function prediction only]
Probab=22.41 E-value=4.4e+02 Score=26.76 Aligned_cols=33 Identities=15% Similarity=0.070 Sum_probs=16.6
Q ss_pred HHHHHHHHHhhhhhhhHHHHHHHhhcccceeee
Q 010219 431 VVLFAHIFYSLVGVQAVLSILLATFSGFGVAMS 463 (515)
Q Consensus 431 vvl~~hiFY~~~~~~~v~~ill~t~~gfgi~m~ 463 (515)
.++-.+.++....+...-+.+..+..|..||+-
T Consensus 129 ~~ls~~g~~tk~Dls~l~~~l~~aligLiiasv 161 (233)
T COG0670 129 GALSLYGYTTKRDLSSLGSFLFMALIGLIIASL 161 (233)
T ss_pred HHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555555555555544444444443
No 183
>PLN03211 ABC transporter G-25; Provisional
Probab=22.39 E-value=2.5e+02 Score=32.28 Aligned_cols=22 Identities=18% Similarity=0.161 Sum_probs=16.5
Q ss_pred hhccchHHHHHHHHhhhhhhhh
Q 010219 394 AISLPFSCVLGLLASMTSSTMV 415 (515)
Q Consensus 394 aislPfs~iLGlL~s~~as~mv 415 (515)
.+-+|+.++..++.+++...|+
T Consensus 488 l~elP~~~~~~~if~~i~Y~m~ 509 (659)
T PLN03211 488 VGDLPMELILPTIFLTVTYWMA 509 (659)
T ss_pred HHHHHHHHHHHHHHHhheeEcC
Confidence 3447999888888887777665
No 184
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=22.06 E-value=43 Score=38.87 Aligned_cols=48 Identities=23% Similarity=0.433 Sum_probs=35.6
Q ss_pred ccceecccccccCCceEeecCCCCCccceecHhhHHHHHhhcCCCcccccccccccc
Q 010219 277 AVCRICLVELCEGGETFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQEVQNL 333 (515)
Q Consensus 277 ~~CRIClee~ee~d~~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~~~~nl 333 (515)
..|.||++ .+...+.+|+ |.+=.+|+.+-+..+....||+|+......
T Consensus 455 ~~c~ic~~----~~~~~it~c~-----h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~ 502 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITRCG-----HDFCVECLKKSIQQSENAPCPLCRNVLKEK 502 (674)
T ss_pred cccccccc----cccceeeccc-----chHHHHHHHhccccccCCCCcHHHHHHHHH
Confidence 58999986 3467888999 666666666655555666899999988854
No 185
>TIGR01129 secD protein-export membrane protein SecD. SecD from Mycobacterium tuberculosis has a long Pro-rich insert.
Probab=21.83 E-value=2.5e+02 Score=30.56 Aligned_cols=27 Identities=19% Similarity=0.480 Sum_probs=14.4
Q ss_pred ccCCCCCccccccccccccCCcceeeccC
Q 010219 40 KAEDPMGITEETSNLQHWKRRNLFLEIPS 68 (515)
Q Consensus 40 ~~~~s~~i~e~~~~~~~~rr~nl~l~iP~ 68 (515)
+--|+.|++|-.-..+ -...+.+|+|-
T Consensus 47 ~Rv~~~Gv~e~~i~~~--G~~~I~V~lPg 73 (397)
T TIGR01129 47 NRVNALGVSEPVVQRQ--GKDRIVVELPG 73 (397)
T ss_pred HHHhhcCCCCcEEEEe--CCceEEEECCC
Confidence 3345666666653212 23347788885
No 186
>PF01440 Gemini_AL2: Geminivirus AL2 protein; InterPro: IPR000942 Geminiviruses are characterised by a genome of circular single-stranded DNA encapsidated in twinned (geminate) quasi-isometric particles, from which the group derives its name []. Most geminiviruses can be divided into two subgroups on the basis of host range and/or insect vector: i.e. those that infect dicotyledenous plants and are transmitted by the same whitefly species, and those that infect monocotyledenous plants and are transmitted by different leafhopper vectors. The genomes of the whitefly-transmitted African cassava mosaic virus, Tomato golden mosaic virus (TGMV) and Bean golden mosaic virus (BGMV) possess a bipartite genome. By contrast, only a single DNA component has been identified for the leafhopper-transmitted Maize streak virus (MSV) and Wheat dwarf virus (WDV) [, ]. Beet curly top virus (BCTV), and Tobacco yellow dwarf virus belong to a third possible subgroup. Like MSV and WDV, BCTV is transmitted by a specific leafhopper species, yet like the whitefly-transmitted geminiviruses it has a host range confined to dicotyledenous plants. Sequence comparison of the whitefly-transmitted Squash leaf curl virus (SqLCV) and Tomato yellow leaf curl virus (TYLCV) with the genomic components of TGMV and BGMV reveals a close evolutionary relationship [, , ]. Amino acid sequence alignments of Potato yellow mosaic virus (PYMV) proteins with those encoded by other geminiviruses show that PYMV is closely related to geminiviruses isolated from the New World, especially in the putative coat protein gene regions []. Comparison of MSV DNA-encoded proteins with those of other geminiviruses infecting monocotyledonous plants, including Panicum streak virus [] and Miscanthus streak virus (MiSV) [], reveal high levels of similarity.; GO: 0005198 structural molecule activity, 0019028 viral capsid
Probab=21.55 E-value=23 Score=33.38 Aligned_cols=34 Identities=24% Similarity=0.659 Sum_probs=26.6
Q ss_pred eEeecCCCCCccceecHhhHHHHHhhcCCCccccccc
Q 010219 292 TFKMECSCKGELALAHKECAIKWFTMKGNKTCDVCKQ 328 (515)
Q Consensus 292 ~l~LPC~CkGslh~~H~~CL~kWL~~kgn~tCpLCk~ 328 (515)
-+.|+|+|. .|+|-+|-...|..+|.-.|--.+.
T Consensus 32 RIDL~CGCS---yyihinC~~hGFTHRGthhCsS~~E 65 (134)
T PF01440_consen 32 RIDLPCGCS---YYIHINCHNHGFTHRGTHHCSSSRE 65 (134)
T ss_pred ccccCCCCE---EEeecccCCCCcCCCcCccCCCcCc
Confidence 356889983 5689999999999998877765543
No 187
>KOG4556 consensus Predicted membrane protein [Function unknown]
Probab=21.29 E-value=4.3e+02 Score=26.56 Aligned_cols=68 Identities=19% Similarity=0.259 Sum_probs=43.6
Q ss_pred HHHHHHHHHhhcccchhhhccchHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 010219 377 FCFLEQLLVAKMGTGAIAISLPFSCVLGLLASMTSSTMVKRRFVWVYASFQFALVVLFAHIFYSLVGV 444 (515)
Q Consensus 377 F~fLeqLlv~~lg~~AlaislPfs~iLGlL~s~~as~mv~r~yiW~yA~~qF~lvvl~~hiFY~~~~~ 444 (515)
.+-+|.+.-.-+|-+=.-|-.-|-=|+-++.+++.++--.|+|+-.|++.--+-|-...++|-.++.+
T Consensus 16 v~~l~RqvFDflGyqWapilanFvhIiivIlGLFGtiQyR~ryl~~y~~w~alwVtwNvfIicfYlev 83 (205)
T KOG4556|consen 16 VLSLERQVFDFLGYQWAPILANFVHIIIVILGLFGTIQYRRRYLYTYASWLALWVTWNVFIICFYLEV 83 (205)
T ss_pred HHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhhcchhHHHHHHHHHHHHHHHhHHhhhhhhhc
Confidence 34456665566665433333334334666677778888889999999987766666666666555554
No 188
>TIGR00697 conserved hypothetical integral membrane protein. All known members of this family are proteins or 210-250 amino acids in length. Conserved regions of hydrophobicity suggest that all members of the family are integral membrane proteins.
Probab=21.29 E-value=4.2e+02 Score=26.13 Aligned_cols=29 Identities=21% Similarity=0.213 Sum_probs=23.0
Q ss_pred HHHHHHHhhcccceeeehhhhHHHHhHhh
Q 010219 447 VLSILLATFSGFGVAMSGSSILVEFLRWK 475 (515)
Q Consensus 447 v~~ill~t~~gfgi~m~~~~~~~~~~~wr 475 (515)
...|++|++.+|-++.-.|..+..++|-+
T Consensus 101 ~~ri~~aS~~Aylisq~~dv~if~~lK~~ 129 (202)
T TIGR00697 101 SPRIALASLVAYIVSQLLDVKVFTFLKKR 129 (202)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45779999999999999998776665543
No 189
>PF15038 Jiraiya: Jiraiya
Probab=21.28 E-value=2.7e+02 Score=27.51 Aligned_cols=43 Identities=21% Similarity=0.448 Sum_probs=30.9
Q ss_pred HHHHhhhhhhhHHHHHHHhhcccceeeehhhhHHHHhHhhhHh
Q 010219 436 HIFYSLVGVQAVLSILLATFSGFGVAMSGSSILVEFLRWKQRW 478 (515)
Q Consensus 436 hiFY~~~~~~~v~~ill~t~~gfgi~m~~~~~~~~~~~wr~~~ 478 (515)
...|.++...-.-+|.-+.+.|-|+..++-.+.--+.+|.+-.
T Consensus 124 l~ly~~l~f~~~~~~~~s~ilG~g~vfl~~~~vh~l~~w~r~~ 166 (175)
T PF15038_consen 124 LILYMLLQFHSEPGIATSIILGSGAVFLGAAMVHNLYRWQRET 166 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3344444455555666667789999999999999999998643
No 190
>PRK11644 sensory histidine kinase UhpB; Provisional
Probab=21.27 E-value=3.8e+02 Score=29.39 Aligned_cols=56 Identities=18% Similarity=0.128 Sum_probs=28.1
Q ss_pred HHHHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhh-------hhHHHHHHHhhcc
Q 010219 400 SCVLGLLASMTSSTMVKRRFVWVYASFQFALVVLFAHIFYSLVGV-------QAVLSILLATFSG 457 (515)
Q Consensus 400 s~iLGlL~s~~as~mv~r~yiW~yA~~qF~lvvl~~hiFY~~~~~-------~~v~~ill~t~~g 457 (515)
-..++.+.++.+..++.|.|.=.| +|...+.+...++-.+++- ...+.+.|.+++|
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~g 144 (495)
T PRK11644 82 LLLIGSLLTLLPVALASRYRHQRD--WRTLLLQGAALTAAALLQSLPWLWHGKEGWNALLLTLTG 144 (495)
T ss_pred HHHHHHHHHHHHHHHHHHhcchhh--HHHHHHHHHHHHHHHHHHHHHHHHhccchHHHHHHHHhc
Confidence 334556666666666666443222 4555554444444343332 2233556667766
No 191
>KOG4812 consensus Golgi-associated protein/Nedd4 WW domain-binding protein [General function prediction only]
Probab=21.05 E-value=34 Score=35.34 Aligned_cols=47 Identities=23% Similarity=0.299 Sum_probs=25.6
Q ss_pred HHHHHHhhhhhhhHHHHHHHhhcccceeeehhhhHHHHhHhhhHhhhhccc
Q 010219 434 FAHIFYSLVGVQAVLSILLATFSGFGVAMSGSSILVEFLRWKQRWEARSNQ 484 (515)
Q Consensus 434 ~~hiFY~~~~~~~v~~ill~t~~gfgi~m~~~~~~~~~~~wr~~~~~~~~~ 484 (515)
|.--||++++.|..|..++ .+.||=|..-+ ++.|++=|+-+..-+++
T Consensus 211 ~sd~f~~y~n~q~wLwwi~-~vlG~ll~lr~---~i~YikVrrm~~~~s~~ 257 (262)
T KOG4812|consen 211 FSDDFESYFNGQYWLWWIF-LVLGLLLFLRG---FINYIKVRRMEEKYSNQ 257 (262)
T ss_pred cccccccccccchHHHHHH-HHHHHHHHHHH---HHhHHHHhhHHHHHhcc
Confidence 5556677777666666554 23344333222 45566666666555554
No 192
>PRK11652 emrD multidrug resistance protein D; Provisional
Probab=20.99 E-value=6.3e+02 Score=25.54 Aligned_cols=10 Identities=40% Similarity=0.517 Sum_probs=5.2
Q ss_pred Hhhcccceee
Q 010219 453 ATFSGFGVAM 462 (515)
Q Consensus 453 ~t~~gfgi~m 462 (515)
..+.|+|.++
T Consensus 306 ~~~~~~g~~~ 315 (394)
T PRK11652 306 AALFFFGAGM 315 (394)
T ss_pred HHHHHHHHHH
Confidence 3445555554
No 193
>PRK05812 secD preprotein translocase subunit SecD; Reviewed
Probab=20.98 E-value=2.4e+02 Score=31.78 Aligned_cols=43 Identities=19% Similarity=0.287 Sum_probs=25.0
Q ss_pred HHHHHHHhhhhhhhHHHHHHHhhcccceeeehhhhHHHHhHhh
Q 010219 433 LFAHIFYSLVGVQAVLSILLATFSGFGVAMSGSSILVEFLRWK 475 (515)
Q Consensus 433 l~~hiFY~~~~~~~v~~ill~t~~gfgi~m~~~~~~~~~~~wr 475 (515)
+....+|.+++..-=+..+.+-++.+|+++-.|.++.|.+|-.
T Consensus 370 ~~~l~~~~l~g~~l~l~siaGlil~iG~~VD~~IVI~ErIree 412 (498)
T PRK05812 370 VLILAVLSLLGATLTLPGIAGIVLTIGMAVDANVLIFERIREE 412 (498)
T ss_pred HHHHHHHHHHCCCchHHHHHHHHHhheeEEeceEEEeHHHHHH
Confidence 3444445555544334444445567778877777777776643
No 194
>KOG0510 consensus Ankyrin repeat protein [General function prediction only]
Probab=20.73 E-value=2.9e+02 Score=33.34 Aligned_cols=26 Identities=35% Similarity=0.536 Sum_probs=21.7
Q ss_pred HHHHHHHHHHhhhhhhhHHHHHHHhh
Q 010219 430 LVVLFAHIFYSLVGVQAVLSILLATF 455 (515)
Q Consensus 430 lvvl~~hiFY~~~~~~~v~~ill~t~ 455 (515)
+|+++..++=++++.-.|++|+|-+|
T Consensus 651 fvvM~~~I~ktflk~f~vfs~lliaF 676 (929)
T KOG0510|consen 651 FVVMLEVILKTFLKSFMVFSILLIAF 676 (929)
T ss_pred ehHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 57788888999999999999988544
No 195
>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=20.69 E-value=1.5e+02 Score=28.53 Aligned_cols=17 Identities=18% Similarity=0.102 Sum_probs=7.9
Q ss_pred hhhhHHHHHHHhhcccc
Q 010219 443 GVQAVLSILLATFSGFG 459 (515)
Q Consensus 443 ~~~~v~~ill~t~~gfg 459 (515)
+...+++++++.++|++
T Consensus 30 ~~~~~l~~l~~~~~~~~ 46 (199)
T PF10112_consen 30 DHSFLLSLLIGAVAFAV 46 (199)
T ss_pred hHHHHHHHHHHHHHHHH
Confidence 34445555554444433
No 196
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=20.69 E-value=42 Score=31.10 Aligned_cols=35 Identities=17% Similarity=0.477 Sum_probs=19.4
Q ss_pred hhHHHHHHHhhcccceeeehhhhHHHHhHhhhHhhhhcc
Q 010219 445 QAVLSILLATFSGFGVAMSGSSILVEFLRWKQRWEARSN 483 (515)
Q Consensus 445 ~~v~~ill~t~~gfgi~m~~~~~~~~~~~wr~~~~~~~~ 483 (515)
.+|..|+|+.++|+ |++. ++|-|+-||+|......
T Consensus 64 ~~i~~Ii~gv~aGv-Ig~I---lli~y~irR~~Kk~~~~ 98 (122)
T PF01102_consen 64 PAIIGIIFGVMAGV-IGII---LLISYCIRRLRKKSSSD 98 (122)
T ss_dssp TCHHHHHHHHHHHH-HHHH---HHHHHHHHHHS------
T ss_pred cceeehhHHHHHHH-HHHH---HHHHHHHHHHhccCCCC
Confidence 47778888777776 4433 46667767766554333
No 197
>PF14256 YwiC: YwiC-like protein
Probab=20.64 E-value=5.3e+02 Score=23.80 Aligned_cols=78 Identities=14% Similarity=0.290 Sum_probs=36.7
Q ss_pred eeccccchhhHHHHHHHHH--HHHHHHhhc--ccchhhhccchHHHHHHHHhhhhhhhhh-hHHHHHHHHHHHHHHHHHH
Q 010219 361 VWQEVPVLVIVSMLAYFCF--LEQLLVAKM--GTGAIAISLPFSCVLGLLASMTSSTMVK-RRFVWVYASFQFALVVLFA 435 (515)
Q Consensus 361 ~Wq~~pvLViismLayF~f--LeqLlv~~l--g~~AlaislPfs~iLGlL~s~~as~mv~-r~yiW~yA~~qF~lvvl~~ 435 (515)
.|...+.++.+. ++|+.+ +.+.+..+- ..+ -.+...+.|.++.+++...+. +-.+..++. -++..+..
T Consensus 24 ~w~~~~L~~aw~-~~yl~~~p~~~~~k~r~~~~~~----~~~~~~~Yg~~a~~~~l~~l~~~p~ll~~~~--~~~pl~~v 96 (129)
T PF14256_consen 24 SWAHLPLLLAWL-FGYLAFYPFLLWLKQRRRRRPR----YLKWALIYGAIALVFGLPALLYAPRLLWWAL--LFLPLFAV 96 (129)
T ss_pred cHHHHHHHHHHH-HHHHHHHHHHHHHhcccccchh----HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH--HHHHHHHH
Confidence 466666665553 345444 333333332 222 245567778777666553322 222222222 22333445
Q ss_pred HHHHhhhhhh
Q 010219 436 HIFYSLVGVQ 445 (515)
Q Consensus 436 hiFY~~~~~~ 445 (515)
.++|.+-+.+
T Consensus 97 ~~~~~~~~~e 106 (129)
T PF14256_consen 97 NLYFAKRKRE 106 (129)
T ss_pred HHHHHHhcCc
Confidence 5666666654
No 198
>COG0765 HisM ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]
Probab=20.64 E-value=1.8e+02 Score=29.38 Aligned_cols=70 Identities=20% Similarity=0.458 Sum_probs=32.8
Q ss_pred ccchHHHHHHHHhhhhh------hhhhhHHHHHHHHHHHHHHHHHHHHHHhh-----hhhhhHHHHHHHhhcccceeeeh
Q 010219 396 SLPFSCVLGLLASMTSS------TMVKRRFVWVYASFQFALVVLFAHIFYSL-----VGVQAVLSILLATFSGFGVAMSG 464 (515)
Q Consensus 396 slPfs~iLGlL~s~~as------~mv~r~yiW~yA~~qF~lvvl~~hiFY~~-----~~~~~v~~ill~t~~gfgi~m~~ 464 (515)
+..+++++|++..+... .-+.+-|+|+.--.=.++..++. ||-. +++.+ +.+.+.|++ ...
T Consensus 32 ~~~~g~vlG~~la~~r~s~~~~l~~~~~~Yv~~~RgtPlLvqlf~~--yfg~lp~~g~~~~~----~~aaiial~--l~~ 103 (222)
T COG0765 32 SIVLGLVLGLLLALMRLSGNKPLRWLARAYVEIFRGTPLLVQLFFI--YFGLLPLLGIELDP----FTAAVIALS--LNS 103 (222)
T ss_pred HHHHHHHHHHHHHHHHHCCcHHHHHHHHHHHHHHhCccHHHHHHHH--HHHhHHHhccCCCH----HHHHHHHHH--HHH
Confidence 34456667766655421 23335566665432222111111 3331 33444 333444444 556
Q ss_pred hhhHHHHhH
Q 010219 465 SSILVEFLR 473 (515)
Q Consensus 465 ~~~~~~~~~ 473 (515)
.+-+.|++|
T Consensus 104 ~AY~aEi~R 112 (222)
T COG0765 104 GAYLAEIVR 112 (222)
T ss_pred HHHHHHHHH
Confidence 667778765
No 199
>PF15110 TMEM141: TMEM141 protein family; PDB: 2LOR_A.
Probab=20.60 E-value=65 Score=28.86 Aligned_cols=56 Identities=25% Similarity=0.510 Sum_probs=35.0
Q ss_pred hHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHhhcccceeeehhhhHHHHhHhhhHh
Q 010219 399 FSCVLGLLASMTSSTMVKRRFVWVYASFQFALVVLFAHIFYSLVGVQAVLSILLATFSGFGVAMSGSSILVEFLRWKQRW 478 (515)
Q Consensus 399 fs~iLGlL~s~~as~mv~r~yiW~yA~~qF~lvvl~~hiFY~~~~~~~v~~ill~t~~gfgi~m~~~~~~~~~~~wr~~~ 478 (515)
+++++|..+.++.-.++.|+|-|.. |+ +-++|++.++++|.+|+ -+|-.++...|
T Consensus 33 ~tFv~G~~~~f~~Q~~iqrrlpYp~---q~----------------~~LVS~v~~sv~sY~vT------~~et~~Cq~~W 87 (94)
T PF15110_consen 33 FTFVLGTGATFFLQKAIQRRLPYPF---QW----------------NILVSVVVASVASYQVT------RVETQKCQNLW 87 (94)
T ss_dssp HHHHGGGGHHHHHHHHHHTTSSSSS----H----------------HHHHHHHHHHHHHHHHH------HHHHHHHHHHH
T ss_pred HHHHHhhHHHHHHHHHHHHhCCCCC---Cc----------------hhHHHHHHhhhhhhhhh------hHHHHHHHHHH
Confidence 6777887777777777777777552 22 33456666777777766 44555555555
Q ss_pred h
Q 010219 479 E 479 (515)
Q Consensus 479 ~ 479 (515)
.
T Consensus 88 ~ 88 (94)
T PF15110_consen 88 M 88 (94)
T ss_dssp H
T ss_pred H
Confidence 4
No 200
>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=20.19 E-value=29 Score=24.00 Aligned_cols=12 Identities=25% Similarity=0.631 Sum_probs=8.7
Q ss_pred CCcccccccccc
Q 010219 320 NKTCDVCKQEVQ 331 (515)
Q Consensus 320 n~tCpLCk~~~~ 331 (515)
...||.|+++|.
T Consensus 14 ~~~Cp~CG~~F~ 25 (26)
T PF10571_consen 14 AKFCPHCGYDFE 25 (26)
T ss_pred cCcCCCCCCCCc
Confidence 567888887764
No 201
>KOG2290 consensus Rhomboid family proteins [Signal transduction mechanisms]
Probab=20.09 E-value=2.5e+02 Score=32.02 Aligned_cols=30 Identities=13% Similarity=0.102 Sum_probs=16.8
Q ss_pred CccccCCCCCCCCCCCCCCcccceeccccc
Q 010219 257 SQIVDTENNDADGEDIPEEEAVCRICLVEL 286 (515)
Q Consensus 257 ~~~~~~~~~ed~~ed~~Eee~~CRIClee~ 286 (515)
||..-++..-.+.-+-+++-..-.||.+.-
T Consensus 349 DPr~cd~P~s~~p~eWPdDiTkWPICt~n~ 378 (652)
T KOG2290|consen 349 DPRYCDEPLSVAPYEWPDDITKWPICTKNH 378 (652)
T ss_pred CcccccCcCccCcccCCcccccCccccccC
Confidence 333333333344445566677788887654
Done!