Query 028047
Match_columns 214
No_of_seqs 275 out of 1438
Neff 8.3
Searched_HMMs 46136
Date Fri Mar 29 05:25:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028047.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028047hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1571 Predicted E3 ubiquitin 100.0 1.9E-31 4E-36 224.5 6.1 202 4-214 139-355 (355)
2 PF12483 GIDE: E3 Ubiquitin li 99.9 9.3E-22 2E-26 153.3 7.0 107 1-107 44-156 (160)
3 KOG4172 Predicted E3 ubiquitin 99.5 8.2E-16 1.8E-20 95.2 -2.0 55 160-214 8-62 (62)
4 PF13920 zf-C3HC4_3: Zinc fing 99.4 1.5E-13 3.2E-18 86.4 2.8 49 159-208 2-50 (50)
5 KOG4265 Predicted E3 ubiquitin 99.4 3E-13 6.6E-18 114.6 3.0 56 157-213 288-343 (349)
6 KOG4275 Predicted E3 ubiquitin 99.2 8.5E-13 1.8E-17 108.7 -1.8 52 158-214 299-350 (350)
7 KOG0317 Predicted E3 ubiquitin 99.2 2E-11 4.3E-16 100.8 5.8 52 158-211 238-289 (293)
8 PLN03208 E3 ubiquitin-protein 99.2 2.1E-11 4.5E-16 96.2 4.7 58 155-213 14-88 (193)
9 PF15227 zf-C3HC4_4: zinc fing 99.1 8E-11 1.7E-15 71.0 3.1 39 162-201 1-42 (42)
10 KOG0823 Predicted E3 ubiquitin 99.1 8.8E-11 1.9E-15 94.4 3.2 53 159-212 47-103 (230)
11 KOG4628 Predicted E3 ubiquitin 99.0 2.8E-10 6.1E-15 97.4 5.4 48 160-208 230-280 (348)
12 PF13923 zf-C3HC4_2: Zinc fing 99.0 2.7E-10 5.8E-15 67.7 2.4 38 162-201 1-39 (39)
13 PHA02929 N1R/p28-like protein; 98.9 7.3E-10 1.6E-14 90.9 3.4 52 158-211 173-232 (238)
14 PF13639 zf-RING_2: Ring finge 98.8 1.2E-09 2.6E-14 66.6 1.7 40 161-202 2-44 (44)
15 PF00097 zf-C3HC4: Zinc finger 98.8 4.8E-09 1E-13 62.8 2.6 39 162-201 1-41 (41)
16 KOG0320 Predicted E3 ubiquitin 98.7 4.4E-09 9.5E-14 81.3 2.4 52 159-212 131-186 (187)
17 PHA02926 zinc finger-like prot 98.7 5.1E-09 1.1E-13 83.9 1.6 53 157-210 168-234 (242)
18 cd00162 RING RING-finger (Real 98.7 1.1E-08 2.4E-13 61.6 2.5 44 161-205 1-45 (45)
19 PF14634 zf-RING_5: zinc-RING 98.6 2E-08 4.3E-13 61.2 2.7 41 161-203 1-44 (44)
20 smart00504 Ubox Modified RING 98.6 2.5E-08 5.3E-13 65.2 2.8 46 160-207 2-47 (63)
21 KOG2164 Predicted E3 ubiquitin 98.6 1.9E-08 4.2E-13 89.1 2.9 53 159-212 186-244 (513)
22 smart00184 RING Ring finger. E 98.6 2.3E-08 4.9E-13 58.2 2.2 39 162-201 1-39 (39)
23 COG5243 HRD1 HRD ubiquitin lig 98.6 6.1E-08 1.3E-12 82.8 4.4 47 157-205 285-344 (491)
24 TIGR00599 rad18 DNA repair pro 98.5 3.5E-08 7.5E-13 86.6 2.6 53 153-207 20-72 (397)
25 COG5574 PEX10 RING-finger-cont 98.5 3.8E-08 8.3E-13 80.6 1.7 48 159-207 215-263 (271)
26 PF13445 zf-RING_UBOX: RING-ty 98.5 6.7E-08 1.5E-12 58.4 1.7 30 162-193 1-34 (43)
27 COG5540 RING-finger-containing 98.4 1.7E-07 3.6E-12 78.2 2.0 48 158-206 322-372 (374)
28 PF12678 zf-rbx1: RING-H2 zinc 98.3 3.7E-07 8E-12 61.7 2.9 40 161-202 21-73 (73)
29 KOG1785 Tyrosine kinase negati 98.3 1.8E-07 3.8E-12 80.7 1.5 51 160-211 370-421 (563)
30 PF04564 U-box: U-box domain; 98.3 6.7E-07 1.5E-11 60.4 3.7 50 157-207 2-51 (73)
31 KOG1100 Predicted E3 ubiquitin 98.3 2.3E-07 5.1E-12 74.9 1.2 48 161-213 160-207 (207)
32 KOG0287 Postreplication repair 98.3 2.5E-07 5.4E-12 78.3 1.1 51 155-207 19-69 (442)
33 KOG0978 E3 ubiquitin ligase in 98.3 1.4E-07 3.1E-12 87.2 -0.6 56 156-212 640-697 (698)
34 KOG2177 Predicted E3 ubiquitin 98.2 4E-07 8.6E-12 76.3 1.3 47 155-203 9-55 (386)
35 COG5432 RAD18 RING-finger-cont 98.2 6.4E-07 1.4E-11 74.4 2.0 50 155-206 21-70 (391)
36 KOG0824 Predicted E3 ubiquitin 98.1 7E-07 1.5E-11 74.5 1.2 50 159-209 7-56 (324)
37 PF12861 zf-Apc11: Anaphase-pr 97.9 6.4E-06 1.4E-10 56.7 2.7 33 173-206 48-82 (85)
38 PF14835 zf-RING_6: zf-RING of 97.9 1.8E-06 4E-11 56.0 -0.3 45 157-205 5-50 (65)
39 KOG0802 E3 ubiquitin ligase [P 97.9 1.2E-05 2.5E-10 74.2 4.1 47 157-205 289-340 (543)
40 KOG0804 Cytoplasmic Zn-finger 97.8 1.1E-05 2.4E-10 70.8 2.6 46 155-204 171-220 (493)
41 KOG0311 Predicted E3 ubiquitin 97.7 3.4E-06 7.3E-11 71.9 -2.3 52 156-208 40-92 (381)
42 KOG4692 Predicted E3 ubiquitin 97.6 2.1E-05 4.5E-10 67.2 1.7 48 158-207 421-468 (489)
43 PF14447 Prok-RING_4: Prokaryo 97.6 1.8E-05 3.8E-10 49.8 0.8 45 159-207 7-51 (55)
44 KOG0828 Predicted E3 ubiquitin 97.5 4.6E-05 9.9E-10 67.7 1.3 50 157-207 569-635 (636)
45 TIGR00570 cdk7 CDK-activating 97.4 7.2E-05 1.6E-09 63.6 2.3 31 176-207 25-55 (309)
46 KOG4159 Predicted E3 ubiquitin 97.3 0.0001 2.2E-09 65.0 2.2 51 155-207 80-130 (398)
47 KOG1039 Predicted E3 ubiquitin 97.3 8.4E-05 1.8E-09 64.3 1.4 52 158-210 160-225 (344)
48 COG5236 Uncharacterized conser 97.2 0.00029 6.3E-09 60.2 3.3 51 157-208 59-110 (493)
49 COG5152 Uncharacterized conser 97.1 0.00021 4.6E-09 56.5 1.7 47 160-208 197-243 (259)
50 PF14570 zf-RING_4: RING/Ubox 96.9 0.00046 9.9E-09 42.4 1.5 43 162-205 1-47 (48)
51 KOG0297 TNF receptor-associate 96.9 0.00041 9E-09 61.5 1.5 52 156-209 18-70 (391)
52 KOG2879 Predicted E3 ubiquitin 96.9 0.00085 1.8E-08 55.7 3.0 53 155-208 235-289 (298)
53 KOG1813 Predicted E3 ubiquitin 96.9 0.00036 7.8E-09 58.4 0.8 46 161-208 243-288 (313)
54 KOG1734 Predicted RING-contain 96.8 0.00059 1.3E-08 56.5 1.8 50 157-207 222-282 (328)
55 smart00744 RINGv The RING-vari 96.7 0.0013 2.9E-08 40.7 2.2 41 161-202 1-49 (49)
56 COG5222 Uncharacterized conser 96.4 0.0033 7.2E-08 52.9 3.4 43 160-203 275-318 (427)
57 KOG2660 Locus-specific chromos 96.4 0.00079 1.7E-08 57.3 -0.3 55 155-211 11-66 (331)
58 KOG3002 Zn finger protein [Gen 96.4 0.0016 3.5E-08 55.5 1.5 45 158-208 47-93 (299)
59 KOG0826 Predicted E3 ubiquitin 96.3 0.0084 1.8E-07 51.1 5.3 56 156-213 297-355 (357)
60 KOG1002 Nucleotide excision re 95.8 0.0033 7.2E-08 56.7 0.8 48 157-205 534-585 (791)
61 KOG0825 PHD Zn-finger protein 95.8 0.0026 5.6E-08 59.7 0.1 50 159-210 123-175 (1134)
62 PF11789 zf-Nse: Zinc-finger o 95.7 0.01 2.2E-07 38.0 2.5 42 158-200 10-53 (57)
63 KOG1814 Predicted E3 ubiquitin 95.7 0.0051 1.1E-07 53.9 1.4 33 159-192 184-219 (445)
64 PF07800 DUF1644: Protein of u 95.6 0.012 2.6E-07 45.2 3.1 53 159-211 2-96 (162)
65 KOG1001 Helicase-like transcri 95.5 0.0056 1.2E-07 57.8 1.3 46 160-207 455-501 (674)
66 PF05290 Baculo_IE-1: Baculovi 95.5 0.0076 1.6E-07 44.9 1.6 50 159-209 80-135 (140)
67 PF11793 FANCL_C: FANCL C-term 95.4 0.0042 9.2E-08 41.5 0.1 47 160-207 3-67 (70)
68 COG5175 MOT2 Transcriptional r 95.1 0.01 2.2E-07 50.9 1.5 48 159-207 14-65 (480)
69 PF04641 Rtf2: Rtf2 RING-finge 95.1 0.019 4.2E-07 48.1 3.2 48 157-207 111-162 (260)
70 COG5219 Uncharacterized conser 95.0 0.0081 1.8E-07 57.7 0.7 48 158-206 1468-1523(1525)
71 KOG1428 Inhibitor of type V ad 94.5 0.017 3.6E-07 57.9 1.4 51 157-208 3484-3546(3738)
72 KOG3039 Uncharacterized conser 94.5 0.032 6.8E-07 45.9 2.7 47 159-207 221-271 (303)
73 KOG2932 E3 ubiquitin ligase in 94.2 0.013 2.8E-07 49.6 0.0 45 160-208 91-136 (389)
74 KOG1493 Anaphase-promoting com 94.2 0.013 2.9E-07 39.3 0.0 30 176-206 50-81 (84)
75 PF10272 Tmpp129: Putative tra 93.9 0.058 1.3E-06 47.1 3.5 24 183-206 316-351 (358)
76 PF10367 Vps39_2: Vacuolar sor 93.7 0.036 7.9E-07 39.5 1.6 32 156-188 75-108 (109)
77 KOG4445 Uncharacterized conser 93.7 0.018 3.8E-07 48.6 -0.2 47 159-206 115-186 (368)
78 COG5194 APC11 Component of SCF 93.0 0.078 1.7E-06 36.0 2.2 31 174-206 51-81 (88)
79 PF03854 zf-P11: P-11 zinc fin 91.9 0.15 3.2E-06 31.1 2.1 46 161-209 4-49 (50)
80 KOG2113 Predicted RNA binding 91.8 0.15 3.3E-06 43.4 3.0 53 156-211 340-392 (394)
81 COG5220 TFB3 Cdk activating ki 91.4 0.079 1.7E-06 43.5 0.8 45 158-203 9-61 (314)
82 KOG1941 Acetylcholine receptor 91.4 0.059 1.3E-06 47.2 0.1 49 159-208 365-418 (518)
83 KOG1571 Predicted E3 ubiquitin 90.9 0.022 4.8E-07 49.2 -2.9 119 1-123 176-294 (355)
84 KOG4185 Predicted E3 ubiquitin 90.5 0.15 3.3E-06 43.3 1.8 34 171-205 21-54 (296)
85 PHA02862 5L protein; Provision 90.0 0.26 5.7E-06 37.3 2.4 51 159-212 2-58 (156)
86 KOG0827 Predicted E3 ubiquitin 89.4 0.17 3.8E-06 44.3 1.2 34 169-203 17-53 (465)
87 PHA02825 LAP/PHD finger-like p 89.3 0.33 7.3E-06 37.4 2.6 48 157-206 6-59 (162)
88 PF05883 Baculo_RING: Baculovi 89.2 0.17 3.7E-06 37.9 1.0 32 159-191 26-66 (134)
89 KOG3161 Predicted E3 ubiquitin 88.6 0.16 3.5E-06 47.2 0.6 40 158-202 10-53 (861)
90 KOG2114 Vacuolar assembly/sort 87.0 0.23 5.1E-06 47.5 0.6 46 159-209 840-886 (933)
91 PF04710 Pellino: Pellino; In 86.8 0.2 4.3E-06 44.1 0.0 48 159-207 328-402 (416)
92 PHA03096 p28-like protein; Pro 86.4 0.38 8.2E-06 40.9 1.5 32 160-192 179-218 (284)
93 KOG2817 Predicted E3 ubiquitin 86.2 0.51 1.1E-05 41.5 2.2 46 159-205 334-384 (394)
94 KOG4362 Transcriptional regula 84.9 0.27 5.8E-06 46.3 -0.1 48 159-207 21-70 (684)
95 KOG3842 Adaptor protein Pellin 83.1 0.87 1.9E-05 39.0 2.2 48 158-207 340-415 (429)
96 KOG2930 SCF ubiquitin ligase, 82.4 0.64 1.4E-05 33.2 1.0 28 175-204 79-106 (114)
97 KOG3579 Predicted E3 ubiquitin 82.2 0.58 1.3E-05 39.4 0.8 33 159-192 268-304 (352)
98 PF12906 RINGv: RING-variant d 82.2 0.76 1.7E-05 28.0 1.2 39 162-201 1-47 (47)
99 PF08114 PMP1_2: ATPase proteo 81.7 2.4 5.1E-05 25.0 3.0 24 102-125 15-38 (43)
100 KOG1940 Zn-finger protein [Gen 81.5 0.39 8.4E-06 40.5 -0.5 44 161-207 160-207 (276)
101 KOG3970 Predicted E3 ubiquitin 81.3 0.96 2.1E-05 36.9 1.7 47 159-206 50-105 (299)
102 KOG1101 Apoptosis inhibitor IA 77.4 0.24 5.2E-06 37.9 -2.7 59 65-131 16-79 (147)
103 KOG0825 PHD Zn-finger protein 76.2 1.4 3.1E-05 42.2 1.5 54 155-209 92-157 (1134)
104 PLN02189 cellulose synthase 75.9 1.7 3.6E-05 43.0 1.9 49 158-207 33-88 (1040)
105 KOG2113 Predicted RNA binding 75.5 0.71 1.5E-05 39.4 -0.6 54 158-211 135-188 (394)
106 PF14569 zf-UDP: Zinc-binding 75.2 2.1 4.6E-05 29.0 1.7 49 158-207 8-63 (80)
107 KOG3899 Uncharacterized conser 73.2 1.7 3.8E-05 36.8 1.1 24 183-206 330-365 (381)
108 PF08746 zf-RING-like: RING-li 73.0 4.2 9.2E-05 24.2 2.5 39 162-201 1-43 (43)
109 KOG1812 Predicted E3 ubiquitin 72.0 1.6 3.4E-05 38.8 0.6 33 159-192 146-182 (384)
110 COG5183 SSM4 Protein involved 71.5 3 6.5E-05 40.2 2.4 50 157-206 10-66 (1175)
111 PF07191 zinc-ribbons_6: zinc- 69.6 0.87 1.9E-05 30.2 -1.1 42 160-208 2-43 (70)
112 KOG3113 Uncharacterized conser 65.7 5.5 0.00012 33.2 2.5 47 158-208 110-160 (293)
113 PF02891 zf-MIZ: MIZ/SP-RING z 64.6 5.6 0.00012 24.5 1.9 43 160-204 3-50 (50)
114 KOG3799 Rab3 effector RIM1 and 64.3 3.2 6.8E-05 31.2 0.8 29 155-189 61-90 (169)
115 KOG0298 DEAD box-containing he 63.6 2.2 4.8E-05 43.0 -0.2 46 158-205 1152-1198(1394)
116 smart00238 BIR Baculoviral inh 63.4 0.19 4.1E-06 33.2 -5.4 55 66-129 4-62 (71)
117 KOG1952 Transcription factor N 61.5 4 8.6E-05 39.5 1.1 47 159-206 191-247 (950)
118 PF07948 Nairovirus_M: Nairovi 57.1 1.1 2.4E-05 40.9 -3.2 41 159-200 494-543 (645)
119 KOG1645 RING-finger-containing 56.8 6.7 0.00015 34.9 1.7 32 172-204 22-54 (463)
120 KOG3053 Uncharacterized conser 55.6 6.1 0.00013 33.0 1.1 53 154-207 15-83 (293)
121 PLN02436 cellulose synthase A 55.0 8.4 0.00018 38.5 2.2 49 158-207 35-90 (1094)
122 KOG1815 Predicted E3 ubiquitin 53.4 6.5 0.00014 35.6 1.1 33 159-192 70-103 (444)
123 COG3768 Predicted membrane pro 52.3 42 0.00092 29.0 5.6 40 83-122 83-122 (350)
124 PF09723 Zn-ribbon_8: Zinc rib 51.7 3.7 8E-05 24.2 -0.5 25 176-203 10-34 (42)
125 cd00022 BIR Baculoviral inhibi 49.3 0.56 1.2E-05 30.7 -4.9 55 66-129 2-60 (69)
126 PLN02638 cellulose synthase A 47.8 19 0.0004 36.2 3.3 49 158-207 16-71 (1079)
127 KOG4185 Predicted E3 ubiquitin 47.8 3 6.5E-05 35.3 -1.9 46 158-204 206-265 (296)
128 KOG2034 Vacuolar sorting prote 47.5 9.3 0.0002 37.2 1.1 35 156-191 814-850 (911)
129 PF10571 UPF0547: Uncharacteri 47.5 7 0.00015 20.7 0.2 22 183-205 3-24 (26)
130 PLN02400 cellulose synthase 46.8 12 0.00027 37.4 1.9 49 158-207 35-90 (1085)
131 PF04423 Rad50_zn_hook: Rad50 46.4 6.8 0.00015 24.3 0.1 12 196-207 21-32 (54)
132 KOG2068 MOT2 transcription fac 45.5 13 0.00029 32.1 1.7 46 160-207 250-299 (327)
133 PF11669 WBP-1: WW domain-bind 45.5 26 0.00057 25.0 3.0 24 96-122 22-45 (102)
134 KOG3268 Predicted E3 ubiquitin 45.5 12 0.00027 29.5 1.4 49 159-208 165-230 (234)
135 PF04216 FdhE: Protein involve 45.0 8.5 0.00018 32.7 0.4 51 159-211 172-227 (290)
136 COG5109 Uncharacterized conser 44.4 15 0.00033 31.6 1.9 43 159-202 336-383 (396)
137 COG3813 Uncharacterized protei 42.8 14 0.0003 24.7 1.1 23 179-205 29-51 (84)
138 TIGR03141 cytochro_ccmD heme e 42.6 73 0.0016 18.9 4.4 14 96-109 6-19 (45)
139 PLN02915 cellulose synthase A 42.6 24 0.00053 35.3 3.2 49 158-207 14-69 (1044)
140 PF12669 P12: Virus attachment 41.9 28 0.0006 22.1 2.4 20 103-122 3-23 (58)
141 KOG3039 Uncharacterized conser 41.9 19 0.0004 30.0 1.9 33 157-190 41-73 (303)
142 PF02318 FYVE_2: FYVE-type zin 41.2 5.6 0.00012 29.1 -1.1 46 158-204 53-103 (118)
143 PF10235 Cript: Microtubule-as 40.2 13 0.00027 26.1 0.6 38 159-207 44-81 (90)
144 PF05605 zf-Di19: Drought indu 40.1 8.6 0.00019 23.8 -0.2 39 160-206 3-42 (54)
145 PF09577 Spore_YpjB: Sporulati 39.9 36 0.00079 28.1 3.4 31 96-126 198-228 (232)
146 PF11044 TMEMspv1-c74-12: Plec 38.7 70 0.0015 19.2 3.5 29 99-127 4-33 (49)
147 COG4306 Uncharacterized protei 38.5 14 0.0003 27.5 0.6 22 183-208 31-52 (160)
148 PF09835 DUF2062: Uncharacteri 38.1 99 0.0021 23.3 5.4 46 82-127 105-150 (154)
149 PF10083 DUF2321: Uncharacteri 37.8 15 0.00032 28.4 0.7 25 179-208 28-52 (158)
150 PF10883 DUF2681: Protein of u 36.8 72 0.0016 22.1 4.0 22 104-125 10-31 (87)
151 PF12273 RCR: Chitin synthesis 36.6 29 0.00063 25.6 2.2 6 96-101 2-7 (130)
152 PF06906 DUF1272: Protein of u 35.6 27 0.00059 22.1 1.5 23 180-206 30-52 (57)
153 cd00928 Cyt_c_Oxidase_VIIa Cyt 34.2 68 0.0015 20.2 3.2 21 67-87 11-31 (55)
154 PF00653 BIR: Inhibitor of Apo 33.9 0.9 2E-05 29.9 -5.8 57 67-129 1-62 (70)
155 PF13240 zinc_ribbon_2: zinc-r 33.9 9.5 0.00021 19.4 -0.6 22 183-205 2-23 (23)
156 PF10146 zf-C4H2: Zinc finger- 33.3 25 0.00054 29.0 1.4 23 182-205 196-218 (230)
157 PF08763 Ca_chan_IQ: Voltage g 31.9 1E+02 0.0022 17.5 3.3 21 108-128 7-27 (35)
158 smart00734 ZnF_Rad18 Rad18-lik 31.7 18 0.0004 18.9 0.3 9 197-205 3-11 (26)
159 PF07975 C1_4: TFIIH C1-like d 31.0 38 0.00082 21.0 1.6 25 176-202 26-50 (51)
160 COG4647 AcxC Acetone carboxyla 30.9 27 0.00059 26.1 1.2 23 159-181 57-79 (165)
161 PF04995 CcmD: Heme exporter p 30.9 1.2E+02 0.0026 18.0 4.5 10 97-106 6-15 (46)
162 KOG3251 Golgi SNAP receptor co 30.9 44 0.00096 27.1 2.5 33 84-120 180-212 (213)
163 KOG4021 Mitochondrial ribosoma 30.7 25 0.00054 28.2 1.0 20 185-204 98-117 (239)
164 COG5132 BUD31 Cell cycle contr 30.5 17 0.00038 26.7 0.1 22 183-205 102-123 (146)
165 PLN02195 cellulose synthase A 30.4 41 0.00089 33.5 2.6 47 159-206 6-59 (977)
166 TIGR02605 CxxC_CxxC_SSSS putat 29.9 17 0.00036 22.1 -0.1 8 196-203 27-34 (52)
167 PF10883 DUF2681: Protein of u 29.5 1.6E+02 0.0034 20.4 4.7 27 103-129 6-32 (87)
168 PF09237 GAGA: GAGA factor; I 29.1 20 0.00044 22.3 0.2 12 196-207 25-36 (54)
169 PF14311 DUF4379: Domain of un 28.9 31 0.00067 21.3 1.0 23 176-201 33-55 (55)
170 KOG1609 Protein involved in mR 28.5 47 0.001 28.0 2.4 49 159-208 78-136 (323)
171 PF09297 zf-NADH-PPase: NADH p 28.3 16 0.00034 20.0 -0.4 25 179-204 3-30 (32)
172 PRK01343 zinc-binding protein; 27.8 26 0.00056 22.3 0.5 10 197-206 11-20 (57)
173 PRK11677 hypothetical protein; 27.8 78 0.0017 23.8 3.2 22 99-120 3-24 (134)
174 PRK05415 hypothetical protein; 27.4 1.6E+02 0.0035 25.8 5.4 43 85-127 87-129 (341)
175 KOG4218 Nuclear hormone recept 27.3 33 0.00071 30.1 1.2 14 159-172 15-28 (475)
176 PF02132 RecR: RecR protein; 26.3 17 0.00036 21.3 -0.5 14 158-171 28-41 (41)
177 KOG4451 Uncharacterized conser 25.7 38 0.00082 27.9 1.2 23 183-206 252-274 (286)
178 cd00729 rubredoxin_SM Rubredox 25.4 15 0.00032 20.7 -0.9 14 196-209 19-32 (34)
179 KOG0006 E3 ubiquitin-protein l 25.2 46 0.001 28.8 1.7 31 159-190 221-253 (446)
180 PHA02610 uvsY.-2 hypothetical 25.1 39 0.00086 21.0 0.9 15 196-210 2-16 (53)
181 PF10882 bPH_5: Bacterial PH d 25.0 86 0.0019 21.6 2.9 30 63-93 70-99 (100)
182 PF01102 Glycophorin_A: Glycop 24.9 19 0.00042 26.6 -0.5 9 100-108 71-79 (122)
183 PF10764 Gin: Inhibitor of sig 24.7 55 0.0012 19.8 1.5 30 161-192 1-30 (46)
184 TIGR01562 FdhE formate dehydro 24.7 19 0.00041 31.0 -0.7 45 159-204 184-233 (305)
185 PF06679 DUF1180: Protein of u 24.3 61 0.0013 25.2 2.1 19 106-124 103-121 (163)
186 PF14316 DUF4381: Domain of un 24.3 1.3E+02 0.0029 22.5 4.0 12 111-122 36-47 (146)
187 PF14169 YdjO: Cold-inducible 23.9 45 0.00097 21.4 1.1 16 195-210 39-54 (59)
188 PRK03564 formate dehydrogenase 23.7 27 0.00059 30.1 0.1 45 158-203 186-234 (309)
189 COG0068 HypF Hydrogenase matur 23.6 55 0.0012 31.5 2.0 50 156-205 98-183 (750)
190 PF10217 DUF2039: Uncharacteri 23.6 34 0.00073 24.0 0.5 36 159-204 55-90 (92)
191 KOG0801 Predicted E3 ubiquitin 23.6 45 0.00097 26.0 1.2 23 157-179 175-200 (205)
192 PF15616 TerY-C: TerY-C metal 22.8 48 0.001 24.9 1.2 44 155-206 73-116 (131)
193 PF03884 DUF329: Domain of unk 22.7 29 0.00062 22.1 0.0 12 196-207 3-14 (57)
194 TIGR01620 hyp_HI0043 conserved 22.6 2.2E+02 0.0047 24.4 5.2 42 85-126 35-76 (289)
195 PF12123 Amidase02_C: N-acetyl 22.4 87 0.0019 18.9 2.1 26 65-90 7-32 (45)
196 COG1592 Rubrerythrin [Energy p 22.3 25 0.00055 27.5 -0.4 13 195-207 149-161 (166)
197 cd00730 rubredoxin Rubredoxin; 21.7 34 0.00073 21.1 0.2 9 197-205 36-44 (50)
198 PRK00418 DNA gyrase inhibitor; 21.7 36 0.00079 22.0 0.4 11 196-206 7-17 (62)
199 cd00350 rubredoxin_like Rubred 21.7 36 0.00077 18.8 0.3 14 196-209 18-31 (33)
200 COG0364 Zwf Glucose-6-phosphat 21.6 94 0.002 28.5 3.0 43 33-81 292-336 (483)
201 smart00290 ZnF_UBP Ubiquitin C 21.2 63 0.0014 19.2 1.4 20 162-181 2-21 (50)
202 COG3364 Zn-ribbon containing p 21.1 42 0.0009 24.0 0.6 24 175-204 6-29 (112)
203 PF06724 DUF1206: Domain of Un 20.9 2.5E+02 0.0054 18.2 4.7 39 81-123 31-69 (73)
204 KOG0269 WD40 repeat-containing 20.4 81 0.0018 30.6 2.4 40 159-200 779-820 (839)
205 COG5216 Uncharacterized conser 20.3 39 0.00084 21.6 0.2 28 176-205 26-54 (67)
206 PF15135 UPF0515: Uncharacteri 20.3 43 0.00093 27.9 0.6 12 197-208 157-168 (278)
207 PF10886 DUF2685: Protein of u 20.2 62 0.0013 20.3 1.1 14 197-210 3-16 (54)
208 KOG0309 Conserved WD40 repeat- 20.2 77 0.0017 30.9 2.2 38 161-200 1030-1069(1081)
209 PF01363 FYVE: FYVE zinc finge 20.1 30 0.00065 22.2 -0.3 33 158-191 8-44 (69)
210 PRK00398 rpoP DNA-directed RNA 20.0 20 0.00043 21.4 -1.1 12 195-206 21-32 (46)
No 1
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.97 E-value=1.9e-31 Score=224.48 Aligned_cols=202 Identities=24% Similarity=0.444 Sum_probs=163.1
Q ss_pred CCCCCCceeeeeceeeCC-CchhhhhhhhhcCceeceeeeeeeeecCCCeeeeEe-eeeecCCceeecCC-CCCCeeeec
Q 028047 4 SRQPLPLTTAYQRLELAN-VSPFTFLQAMFGLKCPIGVLAEEKILPLGKDISAVG-ICSFKNGIPEIKSC-KDLPYFLSE 80 (214)
Q Consensus 4 ~~~~l~~~~v~~~f~p~~-~~~~~~~~~~~sg~~~~G~~~~E~~L~~g~~it~vG-l~~~~~g~~~l~~~-~~~p~~ls~ 80 (214)
++..++++++|+.|+|+. -++.++.+++++|.++.|++++|++||+|+.+|++| ++.++.+..++++| +|.+|+.+.
T Consensus 139 ~~~~l~l~~~~d~f~~s~p~s~~~~~~~~~sg~~~~~~~~~~~~l~~~~~~t~l~e~v~d~~~~~r~~~~~~g~~~v~~s 218 (355)
T KOG1571|consen 139 GRLFLPLNVVYDLFEPSDPCSLVDVGGGYHSGVRRGGFRETERVLPLGTRLTALGELVRDGYCGVRVQPPMQGPLYVTKS 218 (355)
T ss_pred eeeeecceeeeccccccCcceeeecccccccceeeecccceEEeeccccceeeeehheecCCCceEecCCccCcceeecc
Confidence 345789999999999999 599999999999999999999999999999999999 87888778899987 455555555
Q ss_pred cCHHHHHHHhhhhhhhhhhhhhhhchhHHHHHHHHHHHHHHH--HHHHHHHHHHHhhhCCCc-----ccc-----ccCCC
Q 028047 81 KTKDLMVVDLVNRSKILFWSGIVLGSLSIGILGYAIVRNWNR--WKDRQQRMSRQLTEAPSD-----DAD-----SQIGS 148 (214)
Q Consensus 81 ~~~d~Li~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~r~~~~--~~~~~~~~~~~~~~~~~~-----~~~-----~~~~~ 148 (214)
. .++||.++....+..+|.+++++..++.++.+....++.. ++++++. .+.++.+.. ..+ ..+.
T Consensus 219 ~-~d~LIsr~g~~s~~~kv~~~~~~~~~~ills~~~~d~~led~r~~r~~l--~k~~~~~~~~rae~~s~g~~gtr~~~- 294 (355)
T KOG1571|consen 219 A-ADRLISREGDLSFFVKVNGMVFGTLGVILLSFIVKDNYLEDDRRQRREL--VKRVEDLATVRAELLSRGVRGTRIQN- 294 (355)
T ss_pred c-hhhHHHhhccceeeeeecceeeeeeeEEeehHHHHHHHHHHHHHHHHHH--HHhhhhhhhheeeeeccccccccccc-
Confidence 5 9999999999999999999999999999999999988876 5554444 222222211 000 0111
Q ss_pred CccccCCCccccccccccccccceEEccCCCccccHhhHHHhhcCCCcccccccccccceEEeeeC
Q 028047 149 DEDVAGDIPDGQLCVVCLTRRRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRSSMRIYFS 214 (214)
Q Consensus 149 ~~~~~~~~~~~~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~~~~i~~s 214 (214)
+.....+.+....|+||.+++.+++++||||+|||..|+..+. .||+||+.|...+++|.+
T Consensus 295 ~~~~~~~~~~p~lcVVcl~e~~~~~fvpcGh~ccct~cs~~l~-----~CPvCR~rI~~~~k~y~~ 355 (355)
T KOG1571|consen 295 ENGTFRELPQPDLCVVCLDEPKSAVFVPCGHVCCCTLCSKHLP-----QCPVCRQRIRLVRKRYRS 355 (355)
T ss_pred ccCcccccCCCCceEEecCCccceeeecCCcEEEchHHHhhCC-----CCchhHHHHHHHHHHhcC
Confidence 1112233445669999999999999999999999999999886 699999999999999975
No 2
>PF12483 GIDE: E3 Ubiquitin ligase; InterPro: IPR022170 This domain family is found in bacteria, archaea and eukaryotes, and is typically between 150 and 163 amino acids in length. There is a single completely conserved residue E that may be functionally important. GIDE is an E3 ubiquitin ligase which is involved in inducing apoptosis. ; GO: 0016881 acid-amino acid ligase activity
Probab=99.85 E-value=9.3e-22 Score=153.27 Aligned_cols=107 Identities=31% Similarity=0.472 Sum_probs=100.8
Q ss_pred CCCCCCCCCceeeeeceeeCCCchhhhhhhhhcCce---eceeeeeeeeecCCCeeeeEe-eeeecCCceeecCCCC--C
Q 028047 1 MDGSRQPLPLTTAYQRLELANVSPFTFLQAMFGLKC---PIGVLAEEKILPLGKDISAVG-ICSFKNGIPEIKSCKD--L 74 (214)
Q Consensus 1 ~~~~~~~l~~~~v~~~f~p~~~~~~~~~~~~~sg~~---~~G~~~~E~~L~~g~~it~vG-l~~~~~g~~~l~~~~~--~ 74 (214)
+|.++++|++++||++|+|...+..+.++++++|++ ++|++++|+|||+|+.||++| +..+.+|.++|++|.. .
T Consensus 44 ~~p~~a~l~l~~v~~~f~p~~~~~~~~~~~~~~~~~~~~~~G~r~~E~~L~~G~~ltvvGe~~~~~~g~~~i~~p~~g~~ 123 (160)
T PF12483_consen 44 DDPEGAELDLETVYDRFEPSPSSPPDGLFGFFSGERELEPKGYRYTEEILPVGTPLTVVGELVRDGDGNLVIQPPKDGGQ 123 (160)
T ss_pred cCcccCccceeeEEEEeEECCCCccceeeeeeccceeccccccEEEEEEcCCCCEEEEEEEEEEcCCCcEEEeCCCCCCc
Confidence 377899999999999999999999999999999999 999999999999999999999 7788899999999943 5
Q ss_pred CeeeeccCHHHHHHHhhhhhhhhhhhhhhhchh
Q 028047 75 PYFLSEKTKDLMVVDLVNRSKILFWSGIVLGSL 107 (214)
Q Consensus 75 p~~ls~~~~d~Li~~l~~~~~~~~~~~i~~~~~ 107 (214)
|||++..+.++|+.++++++++|+|++++++.+
T Consensus 124 ~f~iS~~s~~~l~~~~~~~~~~~~~~~i~~~~~ 156 (160)
T PF12483_consen 124 PFFISTKSEEELIRSLRSSARWWKWLAIALGVV 156 (160)
T ss_pred cEEEeCCCHHHHHHHHHHHHHHHHHHHhheeEE
Confidence 999999999999999999999999999988876
No 3
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.50 E-value=8.2e-16 Score=95.23 Aligned_cols=55 Identities=25% Similarity=0.758 Sum_probs=51.5
Q ss_pred cccccccccccceEEccCCCccccHhhHHHhhcCCCcccccccccccceEEeeeC
Q 028047 160 QLCVVCLTRRRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRSSMRIYFS 214 (214)
Q Consensus 160 ~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~~~~i~~s 214 (214)
.+|.||++.+.+.++.-|||.+.|..|..++++.....||+||++|..+++.|.|
T Consensus 8 dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~dvIkTY~s 62 (62)
T KOG4172|consen 8 DECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKDVIKTYRS 62 (62)
T ss_pred cceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHHHHHhhcC
Confidence 5799999999999999999999999999999987777899999999999999976
No 4
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.40 E-value=1.5e-13 Score=86.37 Aligned_cols=49 Identities=35% Similarity=0.869 Sum_probs=41.4
Q ss_pred ccccccccccccceEEccCCCccccHhhHHHhhcCCCcccccccccccce
Q 028047 159 GQLCVVCLTRRRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRSS 208 (214)
Q Consensus 159 ~~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~~ 208 (214)
+..|.||+++..+++++||||.+.|..|+.++.. ....||+||++|+++
T Consensus 2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~-~~~~CP~Cr~~i~~V 50 (50)
T PF13920_consen 2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLK-RKKKCPICRQPIESV 50 (50)
T ss_dssp HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHH-TTSBBTTTTBB-SEE
T ss_pred cCCCccCCccCCceEEeCCCChHHHHHHhHHhcc-cCCCCCcCChhhcCC
Confidence 4689999999999999999999559999999975 456899999999864
No 5
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.36 E-value=3e-13 Score=114.60 Aligned_cols=56 Identities=36% Similarity=0.885 Sum_probs=49.4
Q ss_pred ccccccccccccccceEEccCCCccccHhhHHHhhcCCCcccccccccccceEEeee
Q 028047 157 PDGQLCVVCLTRRRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRSSMRIYF 213 (214)
Q Consensus 157 ~~~~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~~~~i~~ 213 (214)
++...|+||++..++.++|||.|.|.|..|++.+.-+ ..+||+||++|...+.|+.
T Consensus 288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q-~n~CPICRqpi~~ll~i~~ 343 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQ-TNNCPICRQPIEELLEIYV 343 (349)
T ss_pred cCCCeeEEEecCCcceEEecchhhehhHhHHHHHHHh-hcCCCccccchHhhheecc
Confidence 4567999999999999999999999999999988733 3479999999999988874
No 6
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.22 E-value=8.5e-13 Score=108.72 Aligned_cols=52 Identities=33% Similarity=0.899 Sum_probs=48.8
Q ss_pred cccccccccccccceEEccCCCccccHhhHHHhhcCCCcccccccccccceEEeeeC
Q 028047 158 DGQLCVVCLTRRRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRSSMRIYFS 214 (214)
Q Consensus 158 ~~~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~~~~i~~s 214 (214)
...+|.||+|.+++++||+|||.+.|..|-.++. .||+||+.|.++++||.+
T Consensus 299 ~~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm~-----eCPICRqyi~rvvrif~~ 350 (350)
T KOG4275|consen 299 TRRLCAICMDAPRDCVFLECGHMVTCTKCGKRMN-----ECPICRQYIVRVVRIFRV 350 (350)
T ss_pred HHHHHHHHhcCCcceEEeecCcEEeehhhccccc-----cCchHHHHHHHHHhhhcC
Confidence 3679999999999999999999999999999987 799999999999999974
No 7
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.21 E-value=2e-11 Score=100.84 Aligned_cols=52 Identities=33% Similarity=0.800 Sum_probs=44.5
Q ss_pred cccccccccccccceEEccCCCccccHhhHHHhhcCCCcccccccccccceEEe
Q 028047 158 DGQLCVVCLTRRRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRSSMRI 211 (214)
Q Consensus 158 ~~~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~~~~i 211 (214)
....|.+|+++..++..+||||.| |..|+..|... +..||.||.++....-|
T Consensus 238 a~~kC~LCLe~~~~pSaTpCGHiF-CWsCI~~w~~e-k~eCPlCR~~~~pskvi 289 (293)
T KOG0317|consen 238 ATRKCSLCLENRSNPSATPCGHIF-CWSCILEWCSE-KAECPLCREKFQPSKVI 289 (293)
T ss_pred CCCceEEEecCCCCCCcCcCcchH-HHHHHHHHHcc-ccCCCcccccCCCccee
Confidence 357999999999999999999999 99999999854 44699999998765444
No 8
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.18 E-value=2.1e-11 Score=96.22 Aligned_cols=58 Identities=34% Similarity=0.681 Sum_probs=47.2
Q ss_pred CCccccccccccccccceEEccCCCccccHhhHHHhhcC---------------CCcccccccccccc--eEEeee
Q 028047 155 DIPDGQLCVVCLTRRRISAFNPCGHLVCCRRCAISVERE---------------ASPKCPVCRMTVRS--SMRIYF 213 (214)
Q Consensus 155 ~~~~~~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~---------------~~~~CP~CR~~i~~--~~~i~~ 213 (214)
+..+...|+||++...+++.++|||.| |..|+..|... ....||+||.+|+. ++++|.
T Consensus 14 ~~~~~~~CpICld~~~dPVvT~CGH~F-C~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiyg 88 (193)
T PLN03208 14 DSGGDFDCNICLDQVRDPVVTLCGHLF-CWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIYG 88 (193)
T ss_pred cCCCccCCccCCCcCCCcEEcCCCchh-HHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEeec
Confidence 344567899999999999999999999 99999988531 23479999999965 677763
No 9
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.09 E-value=8e-11 Score=71.04 Aligned_cols=39 Identities=38% Similarity=0.881 Sum_probs=31.4
Q ss_pred cccccccccceEEccCCCccccHhhHHHhhcCCCc---ccccc
Q 028047 162 CVVCLTRRRISAFNPCGHLVCCRRCAISVEREASP---KCPVC 201 (214)
Q Consensus 162 C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~---~CP~C 201 (214)
|+||++.+.+++.++|||.| |..|+.++++.... .||.|
T Consensus 1 CpiC~~~~~~Pv~l~CGH~F-C~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSLPCGHSF-CRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE-SSSSEE-EHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCccccCCcCHH-HHHHHHHHHHccCCcCCCCcCC
Confidence 89999999999999999999 99999999975433 59987
No 10
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.06 E-value=8.8e-11 Score=94.36 Aligned_cols=53 Identities=30% Similarity=0.673 Sum_probs=45.7
Q ss_pred ccccccccccccceEEccCCCccccHhhHHHhhc--CCCccccccccccc--ceEEee
Q 028047 159 GQLCVVCLTRRRISAFNPCGHLVCCRRCAISVER--EASPKCPVCRMTVR--SSMRIY 212 (214)
Q Consensus 159 ~~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~--~~~~~CP~CR~~i~--~~~~i~ 212 (214)
.-.|.||+|..+++|+..|||.| |..|+-+|.. ...+.||+|+..|+ .+++||
T Consensus 47 ~FdCNICLd~akdPVvTlCGHLF-CWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlY 103 (230)
T KOG0823|consen 47 FFDCNICLDLAKDPVVTLCGHLF-CWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLY 103 (230)
T ss_pred ceeeeeeccccCCCEEeecccce-ehHHHHHHHhhcCCCeeCCccccccccceEEeee
Confidence 45899999999999999999999 9999999985 33456999998875 578887
No 11
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.03 E-value=2.8e-10 Score=97.43 Aligned_cols=48 Identities=25% Similarity=0.619 Sum_probs=40.0
Q ss_pred cccccccccccc---eEEccCCCccccHhhHHHhhcCCCcccccccccccce
Q 028047 160 QLCVVCLTRRRI---SAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRSS 208 (214)
Q Consensus 160 ~~C~IC~~~~~~---~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~~ 208 (214)
..|+||+|.+.. ...|||+|.||| .|++.|..+....||+|++.|..-
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~-~CIDpWL~~~r~~CPvCK~di~~~ 280 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHV-NCIDPWLTQTRTFCPVCKRDIRTD 280 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhh-ccchhhHhhcCccCCCCCCcCCCC
Confidence 589999998765 567999999985 999999876555699999987653
No 12
>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=98.99 E-value=2.7e-10 Score=67.68 Aligned_cols=38 Identities=42% Similarity=1.089 Sum_probs=32.8
Q ss_pred cccccccccce-EEccCCCccccHhhHHHhhcCCCcccccc
Q 028047 162 CVVCLTRRRIS-AFNPCGHLVCCRRCAISVEREASPKCPVC 201 (214)
Q Consensus 162 C~IC~~~~~~~-~~lpCgH~~~C~~C~~~~~~~~~~~CP~C 201 (214)
|+||++...++ ++++|||.| |.+|+.++.+. ...||+|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~f-C~~C~~~~~~~-~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSF-CKECIEKYLEK-NPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEE-EHHHHHHHHHC-TSB-TTT
T ss_pred CCCCCCcccCcCEECCCCCch-hHHHHHHHHHC-cCCCcCC
Confidence 89999999999 689999999 99999999876 6789998
No 13
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.91 E-value=7.3e-10 Score=90.88 Aligned_cols=52 Identities=25% Similarity=0.667 Sum_probs=42.4
Q ss_pred cccccccccccccc--------eEEccCCCccccHhhHHHhhcCCCcccccccccccceEEe
Q 028047 158 DGQLCVVCLTRRRI--------SAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRSSMRI 211 (214)
Q Consensus 158 ~~~~C~IC~~~~~~--------~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~~~~i 211 (214)
.+..|+||++...+ ++..+|||.| |..|+..|... ...||+||.++..+++.
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~F-C~~CI~~Wl~~-~~tCPlCR~~~~~v~~~ 232 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVF-CIECIDIWKKE-KNTCPVCRTPFISVIKS 232 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCCCcc-cHHHHHHHHhc-CCCCCCCCCEeeEEeee
Confidence 45689999997554 3567899999 89999999753 56899999999987664
No 14
>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=98.84 E-value=1.2e-09 Score=66.57 Aligned_cols=40 Identities=35% Similarity=0.798 Sum_probs=33.6
Q ss_pred ccccccccc---cceEEccCCCccccHhhHHHhhcCCCccccccc
Q 028047 161 LCVVCLTRR---RISAFNPCGHLVCCRRCAISVEREASPKCPVCR 202 (214)
Q Consensus 161 ~C~IC~~~~---~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR 202 (214)
.|+||++.. ..++.++|||.| |.+|+..|.+. +..||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~f-h~~Ci~~~~~~-~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVF-HRSCIKEWLKR-NNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEE-EHHHHHHHHHH-SSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCee-CHHHHHHHHHh-CCcCCccC
Confidence 699999987 467889999999 79999999865 45899998
No 15
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.77 E-value=4.8e-09 Score=62.79 Aligned_cols=39 Identities=38% Similarity=0.901 Sum_probs=35.2
Q ss_pred cccccccccceE-EccCCCccccHhhHHHhhc-CCCcccccc
Q 028047 162 CVVCLTRRRISA-FNPCGHLVCCRRCAISVER-EASPKCPVC 201 (214)
Q Consensus 162 C~IC~~~~~~~~-~lpCgH~~~C~~C~~~~~~-~~~~~CP~C 201 (214)
|.||++...++. +++|||.| |..|+.++++ .....||.|
T Consensus 1 C~iC~~~~~~~~~~~~C~H~f-C~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSF-CRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEE-EHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCCEEecCCCcc-hHHHHHHHHHhcCCccCCcC
Confidence 899999999998 99999999 9999999987 556679988
No 16
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.75 E-value=4.4e-09 Score=81.34 Aligned_cols=52 Identities=31% Similarity=0.752 Sum_probs=41.6
Q ss_pred ccccccccccccce--EEccCCCccccHhhHHHhhcCCCcccccccccccc--eEEee
Q 028047 159 GQLCVVCLTRRRIS--AFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRS--SMRIY 212 (214)
Q Consensus 159 ~~~C~IC~~~~~~~--~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~--~~~i~ 212 (214)
...|+|||+....- +-..|||+| |..|+....+. ...||+||..|+. +.+||
T Consensus 131 ~~~CPiCl~~~sek~~vsTkCGHvF-C~~Cik~alk~-~~~CP~C~kkIt~k~~~rI~ 186 (187)
T KOG0320|consen 131 TYKCPICLDSVSEKVPVSTKCGHVF-CSQCIKDALKN-TNKCPTCRKKITHKQFHRIY 186 (187)
T ss_pred ccCCCceecchhhccccccccchhH-HHHHHHHHHHh-CCCCCCcccccchhhheecc
Confidence 35899999987654 458999999 99999988753 4579999988875 56666
No 17
>PHA02926 zinc finger-like protein; Provisional
Probab=98.70 E-value=5.1e-09 Score=83.85 Aligned_cols=53 Identities=25% Similarity=0.627 Sum_probs=40.8
Q ss_pred ccccccccccccc---------cceEEccCCCccccHhhHHHhhcCC-----CcccccccccccceEE
Q 028047 157 PDGQLCVVCLTRR---------RISAFNPCGHLVCCRRCAISVEREA-----SPKCPVCRMTVRSSMR 210 (214)
Q Consensus 157 ~~~~~C~IC~~~~---------~~~~~lpCgH~~~C~~C~~~~~~~~-----~~~CP~CR~~i~~~~~ 210 (214)
..+..|.||++.. +..++.+|+|.| |..|+..|.... ...||+||..+..+.+
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsF-Cl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~p 234 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIF-CITCINIWHRTRRETGASDNCPICRTRFRNITM 234 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchH-HHHHHHHHHHhccccCcCCcCCCCcceeeeecc
Confidence 3467899999863 235778999999 999999998532 2349999999886643
No 18
>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=98.69 E-value=1.1e-08 Score=61.64 Aligned_cols=44 Identities=34% Similarity=0.877 Sum_probs=35.5
Q ss_pred ccccccccccceEEc-cCCCccccHhhHHHhhcCCCcccccccccc
Q 028047 161 LCVVCLTRRRISAFN-PCGHLVCCRRCAISVEREASPKCPVCRMTV 205 (214)
Q Consensus 161 ~C~IC~~~~~~~~~l-pCgH~~~C~~C~~~~~~~~~~~CP~CR~~i 205 (214)
.|+||++...+.+.+ +|||.| |..|+..+.......||+||..+
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~-c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVF-CRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhCceEecCCCChh-cHHHHHHHHHhCcCCCCCCCCcC
Confidence 499999998665554 499999 89999998865456799999764
No 19
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.64 E-value=2e-08 Score=61.18 Aligned_cols=41 Identities=34% Similarity=0.992 Sum_probs=34.2
Q ss_pred ccccccccc---cceEEccCCCccccHhhHHHhhcCCCcccccccc
Q 028047 161 LCVVCLTRR---RISAFNPCGHLVCCRRCAISVEREASPKCPVCRM 203 (214)
Q Consensus 161 ~C~IC~~~~---~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~ 203 (214)
.|.||++.. ..+.+++|||.| |..|+..+. .....||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~-C~~C~~~~~-~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIF-CEKCLKKLK-GKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHH-HHHHHHhhc-CCCCCCcCCCC
Confidence 388999877 457899999999 999999987 34458999985
No 20
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.62 E-value=2.5e-08 Score=65.22 Aligned_cols=46 Identities=20% Similarity=0.192 Sum_probs=41.1
Q ss_pred cccccccccccceEEccCCCccccHhhHHHhhcCCCcccccccccccc
Q 028047 160 QLCVVCLTRRRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRS 207 (214)
Q Consensus 160 ~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~ 207 (214)
..|+||.+...+++.+||||+| |..|+..+... ...||+|+.+++.
T Consensus 2 ~~Cpi~~~~~~~Pv~~~~G~v~-~~~~i~~~~~~-~~~cP~~~~~~~~ 47 (63)
T smart00504 2 FLCPISLEVMKDPVILPSGQTY-ERRAIEKWLLS-HGTDPVTGQPLTH 47 (63)
T ss_pred cCCcCCCCcCCCCEECCCCCEE-eHHHHHHHHHH-CCCCCCCcCCCCh
Confidence 4699999999999999999999 89999999865 5689999998843
No 21
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.61 E-value=1.9e-08 Score=89.10 Aligned_cols=53 Identities=25% Similarity=0.711 Sum_probs=45.7
Q ss_pred ccccccccccccceEEccCCCccccHhhHHHhhcCC----Ccccccccccccc--eEEee
Q 028047 159 GQLCVVCLTRRRISAFNPCGHLVCCRRCAISVEREA----SPKCPVCRMTVRS--SMRIY 212 (214)
Q Consensus 159 ~~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~----~~~CP~CR~~i~~--~~~i~ 212 (214)
+..|+||++.+.-++.+.|||.| |..|+.++|... ...||+||..|.. +.+++
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiF-C~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~ 244 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIF-CGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVF 244 (513)
T ss_pred CCcCCcccCCCCcccccccCcee-eHHHHHHHHhhhcccCCccCCchhhhccccceeeee
Confidence 67999999999999999999999 789999998632 3569999999987 66665
No 22
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.61 E-value=2.3e-08 Score=58.17 Aligned_cols=39 Identities=33% Similarity=0.936 Sum_probs=34.2
Q ss_pred cccccccccceEEccCCCccccHhhHHHhhcCCCcccccc
Q 028047 162 CVVCLTRRRISAFNPCGHLVCCRRCAISVEREASPKCPVC 201 (214)
Q Consensus 162 C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~C 201 (214)
|.||++...+++.++|||.| |..|+..+.......||+|
T Consensus 1 C~iC~~~~~~~~~~~C~H~~-c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTF-CRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEecCCChH-HHHHHHHHHHhCcCCCCCC
Confidence 78999999999999999999 8999999876445579987
No 23
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.56 E-value=6.1e-08 Score=82.82 Aligned_cols=47 Identities=26% Similarity=0.689 Sum_probs=38.2
Q ss_pred ccccccccccccc-------------cceEEccCCCccccHhhHHHhhcCCCcccccccccc
Q 028047 157 PDGQLCVVCLTRR-------------RISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTV 205 (214)
Q Consensus 157 ~~~~~C~IC~~~~-------------~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i 205 (214)
.++..|.||+|+. +.+.-+||||.++ ..|.+.|.++ ...||+||.++
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilH-l~CLknW~ER-qQTCPICr~p~ 344 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILH-LHCLKNWLER-QQTCPICRRPV 344 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCcccccccceee-HHHHHHHHHh-ccCCCcccCcc
Confidence 4567999999972 2356799999997 8999999854 45899999984
No 24
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.55 E-value=3.5e-08 Score=86.59 Aligned_cols=53 Identities=23% Similarity=0.582 Sum_probs=45.5
Q ss_pred cCCCccccccccccccccceEEccCCCccccHhhHHHhhcCCCcccccccccccc
Q 028047 153 AGDIPDGQLCVVCLTRRRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRS 207 (214)
Q Consensus 153 ~~~~~~~~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~ 207 (214)
...++....|.||++.+.++++++|||.| |..|+..++.. ...||+||..+..
T Consensus 20 l~~Le~~l~C~IC~d~~~~PvitpCgH~F-Cs~CI~~~l~~-~~~CP~Cr~~~~~ 72 (397)
T TIGR00599 20 LYPLDTSLRCHICKDFFDVPVLTSCSHTF-CSLCIRRCLSN-QPKCPLCRAEDQE 72 (397)
T ss_pred ccccccccCCCcCchhhhCccCCCCCCch-hHHHHHHHHhC-CCCCCCCCCcccc
Confidence 44566778999999999999999999999 99999998854 3479999998764
No 25
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.51 E-value=3.8e-08 Score=80.61 Aligned_cols=48 Identities=31% Similarity=0.827 Sum_probs=41.0
Q ss_pred ccccccccccccceEEccCCCccccHhhHHH-hhcCCCcccccccccccc
Q 028047 159 GQLCVVCLTRRRISAFNPCGHLVCCRRCAIS-VEREASPKCPVCRMTVRS 207 (214)
Q Consensus 159 ~~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~-~~~~~~~~CP~CR~~i~~ 207 (214)
+..|+||++.+..+..+||||+| |..|+.. |..+....||.||+.+..
T Consensus 215 d~kC~lC~e~~~~ps~t~CgHlF-C~~Cl~~~~t~~k~~~CplCRak~~p 263 (271)
T COG5574 215 DYKCFLCLEEPEVPSCTPCGHLF-CLSCLLISWTKKKYEFCPLCRAKVYP 263 (271)
T ss_pred ccceeeeecccCCcccccccchh-hHHHHHHHHHhhccccCchhhhhccc
Confidence 56899999999999999999999 8999998 665544459999998653
No 26
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.47 E-value=6.7e-08 Score=58.38 Aligned_cols=30 Identities=27% Similarity=0.853 Sum_probs=20.8
Q ss_pred cccccccccc----eEEccCCCccccHhhHHHhhcC
Q 028047 162 CVVCLTRRRI----SAFNPCGHLVCCRRCAISVERE 193 (214)
Q Consensus 162 C~IC~~~~~~----~~~lpCgH~~~C~~C~~~~~~~ 193 (214)
|+||++ +.+ ++.|+|||++ |.+|+.++...
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~-c~~cl~~l~~~ 34 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVF-CKDCLQKLSKK 34 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EE-EHHHHHHHHHH
T ss_pred CCcccc-ccCCCCCCEEEeCccHH-HHHHHHHHHhc
Confidence 899999 777 8999999999 99999999863
No 27
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.36 E-value=1.7e-07 Score=78.24 Aligned_cols=48 Identities=29% Similarity=0.567 Sum_probs=40.0
Q ss_pred ccccccccccccc---ceEEccCCCccccHhhHHHhhcCCCccccccccccc
Q 028047 158 DGQLCVVCLTRRR---ISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVR 206 (214)
Q Consensus 158 ~~~~C~IC~~~~~---~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~ 206 (214)
-+-.|+||++++. ..+.+||.|.|| ..|+.+|....+..||+||.++.
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC~H~FH-~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPCDHRFH-VGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred CCceEEEEhhhhcccceEEEeccCceec-hhHHHHHHhhhcccCCccCCCCC
Confidence 3569999999764 367889999997 89999998655678999999875
No 28
>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=98.33 E-value=3.7e-07 Score=61.72 Aligned_cols=40 Identities=28% Similarity=0.761 Sum_probs=30.7
Q ss_pred ccccccccc-------------cceEEccCCCccccHhhHHHhhcCCCccccccc
Q 028047 161 LCVVCLTRR-------------RISAFNPCGHLVCCRRCAISVEREASPKCPVCR 202 (214)
Q Consensus 161 ~C~IC~~~~-------------~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR 202 (214)
.|.||++.. ...+..+|||.|+ ..|+.+|... +..||+||
T Consensus 21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH-~~Ci~~Wl~~-~~~CP~CR 73 (73)
T PF12678_consen 21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFH-FHCISQWLKQ-NNTCPLCR 73 (73)
T ss_dssp BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEE-HHHHHHHHTT-SSB-TTSS
T ss_pred cccccChhhhChhhhhcCCccccceEecccCCCEE-HHHHHHHHhc-CCcCCCCC
Confidence 499999876 2345678999995 9999999854 44899998
No 29
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=98.33 E-value=1.8e-07 Score=80.71 Aligned_cols=51 Identities=27% Similarity=0.841 Sum_probs=45.0
Q ss_pred cccccccccccceEEccCCCccccHhhHHHhhcCC-CcccccccccccceEEe
Q 028047 160 QLCVVCLTRRRISAFNPCGHLVCCRRCAISVEREA-SPKCPVCRMTVRSSMRI 211 (214)
Q Consensus 160 ~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~-~~~CP~CR~~i~~~~~i 211 (214)
.+|.||-++.+++.+-||||.. |..|+..|.... ...||.||..|.+.-+|
T Consensus 370 eLCKICaendKdvkIEPCGHLl-Ct~CLa~WQ~sd~gq~CPFCRcEIKGte~v 421 (563)
T KOG1785|consen 370 ELCKICAENDKDVKIEPCGHLL-CTSCLAAWQDSDEGQTCPFCRCEIKGTEPV 421 (563)
T ss_pred HHHHHhhccCCCcccccccchH-HHHHHHhhcccCCCCCCCceeeEeccccce
Confidence 4899999999999999999999 999999998543 56899999999886554
No 30
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.31 E-value=6.7e-07 Score=60.43 Aligned_cols=50 Identities=22% Similarity=0.250 Sum_probs=40.6
Q ss_pred ccccccccccccccceEEccCCCccccHhhHHHhhcCCCcccccccccccc
Q 028047 157 PDGQLCVVCLTRRRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRS 207 (214)
Q Consensus 157 ~~~~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~ 207 (214)
++...|+|+.+-..+++.+|+||.| ++.|+.+|.......||+|+.++..
T Consensus 2 P~~f~CpIt~~lM~dPVi~~~G~ty-er~~I~~~l~~~~~~~P~t~~~l~~ 51 (73)
T PF04564_consen 2 PDEFLCPITGELMRDPVILPSGHTY-ERSAIERWLEQNGGTDPFTRQPLSE 51 (73)
T ss_dssp SGGGB-TTTSSB-SSEEEETTSEEE-EHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred CcccCCcCcCcHhhCceeCCcCCEE-cHHHHHHHHHcCCCCCCCCCCcCCc
Confidence 4677999999999999999999999 8999999997767789999998875
No 31
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.28 E-value=2.3e-07 Score=74.93 Aligned_cols=48 Identities=35% Similarity=0.758 Sum_probs=43.1
Q ss_pred ccccccccccceEEccCCCccccHhhHHHhhcCCCcccccccccccceEEeee
Q 028047 161 LCVVCLTRRRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRSSMRIYF 213 (214)
Q Consensus 161 ~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~~~~i~~ 213 (214)
.|..|..+...++++||.|.++|..|..... .||+|+.+....+.+|.
T Consensus 160 ~Cr~C~~~~~~VlllPCrHl~lC~~C~~~~~-----~CPiC~~~~~s~~~v~~ 207 (207)
T KOG1100|consen 160 SCRKCGEREATVLLLPCRHLCLCGICDESLR-----ICPICRSPKTSSVEVNF 207 (207)
T ss_pred cceecCcCCceEEeecccceEecccccccCc-----cCCCCcChhhceeeccC
Confidence 4999999999999999999999999987643 79999999999888874
No 32
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.27 E-value=2.5e-07 Score=78.27 Aligned_cols=51 Identities=29% Similarity=0.690 Sum_probs=43.9
Q ss_pred CCccccccccccccccceEEccCCCccccHhhHHHhhcCCCcccccccccccc
Q 028047 155 DIPDGQLCVVCLTRRRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRS 207 (214)
Q Consensus 155 ~~~~~~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~ 207 (214)
.+.+-..|-||.+.++.++++||||.| |.-|+..+.. ..+.||.|+..+..
T Consensus 19 ~lD~lLRC~IC~eyf~ip~itpCsHtf-CSlCIR~~L~-~~p~CP~C~~~~~E 69 (442)
T KOG0287|consen 19 TLDDLLRCGICFEYFNIPMITPCSHTF-CSLCIRKFLS-YKPQCPTCCVTVTE 69 (442)
T ss_pred hhHHHHHHhHHHHHhcCceeccccchH-HHHHHHHHhc-cCCCCCceecccch
Confidence 345567899999999999999999999 9999999984 35689999988753
No 33
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.26 E-value=1.4e-07 Score=87.19 Aligned_cols=56 Identities=29% Similarity=0.612 Sum_probs=47.0
Q ss_pred CccccccccccccccceEEccCCCccccHhhHHHhhcCCCcccccccccccc--eEEee
Q 028047 156 IPDGQLCVVCLTRRRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRS--SMRIY 212 (214)
Q Consensus 156 ~~~~~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~--~~~i~ 212 (214)
...-..|++|-++++++++..|||+| |..|+.....-...+||.|..+|.. +.+||
T Consensus 640 yK~~LkCs~Cn~R~Kd~vI~kC~H~F-C~~Cvq~r~etRqRKCP~Cn~aFganDv~~I~ 697 (698)
T KOG0978|consen 640 YKELLKCSVCNTRWKDAVITKCGHVF-CEECVQTRYETRQRKCPKCNAAFGANDVHRIH 697 (698)
T ss_pred HHhceeCCCccCchhhHHHHhcchHH-HHHHHHHHHHHhcCCCCCCCCCCCcccccccC
Confidence 34456999999999999999999999 9999998765445689999999864 56666
No 34
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.22 E-value=4e-07 Score=76.27 Aligned_cols=47 Identities=34% Similarity=0.762 Sum_probs=40.6
Q ss_pred CCccccccccccccccceEEccCCCccccHhhHHHhhcCCCcccccccc
Q 028047 155 DIPDGQLCVVCLTRRRISAFNPCGHLVCCRRCAISVEREASPKCPVCRM 203 (214)
Q Consensus 155 ~~~~~~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~ 203 (214)
...+...|+||++.++++.++||||.| |..|+..++. ....||.||.
T Consensus 9 ~~~~~~~C~iC~~~~~~p~~l~C~H~~-c~~C~~~~~~-~~~~Cp~cr~ 55 (386)
T KOG2177|consen 9 VLQEELTCPICLEYFREPVLLPCGHNF-CRACLTRSWE-GPLSCPVCRP 55 (386)
T ss_pred hccccccChhhHHHhhcCccccccchH-hHHHHHHhcC-CCcCCcccCC
Confidence 345677999999999999999999999 9999999986 4457999993
No 35
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.20 E-value=6.4e-07 Score=74.37 Aligned_cols=50 Identities=30% Similarity=0.606 Sum_probs=42.5
Q ss_pred CCccccccccccccccceEEccCCCccccHhhHHHhhcCCCccccccccccc
Q 028047 155 DIPDGQLCVVCLTRRRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVR 206 (214)
Q Consensus 155 ~~~~~~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~ 206 (214)
.+.....|-||.+..+.++..+|||.| |.-|+..... ..+.||+||.+..
T Consensus 21 ~LDs~lrC~IC~~~i~ip~~TtCgHtF-CslCIR~hL~-~qp~CP~Cr~~~~ 70 (391)
T COG5432 21 GLDSMLRCRICDCRISIPCETTCGHTF-CSLCIRRHLG-TQPFCPVCREDPC 70 (391)
T ss_pred cchhHHHhhhhhheeecceecccccch-hHHHHHHHhc-CCCCCccccccHH
Confidence 344566999999999999999999999 9999999984 3568999998753
No 36
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.15 E-value=7e-07 Score=74.54 Aligned_cols=50 Identities=22% Similarity=0.555 Sum_probs=43.0
Q ss_pred ccccccccccccceEEccCCCccccHhhHHHhhcCCCcccccccccccceE
Q 028047 159 GQLCVVCLTRRRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRSSM 209 (214)
Q Consensus 159 ~~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~~~ 209 (214)
...|.||+....-++.++|+|.| |..|++.........|++||.+|.+.+
T Consensus 7 ~~eC~IC~nt~n~Pv~l~C~HkF-CyiCiKGsy~ndk~~CavCR~pids~i 56 (324)
T KOG0824|consen 7 KKECLICYNTGNCPVNLYCFHKF-CYICIKGSYKNDKKTCAVCRFPIDSTI 56 (324)
T ss_pred CCcceeeeccCCcCccccccchh-hhhhhcchhhcCCCCCceecCCCCcch
Confidence 45799999999999999999999 899998766555567999999998754
No 37
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=97.94 E-value=6.4e-06 Score=56.72 Aligned_cols=33 Identities=21% Similarity=0.619 Sum_probs=26.9
Q ss_pred EEccCCCccccHhhHHHhhcC--CCccccccccccc
Q 028047 173 AFNPCGHLVCCRRCAISVERE--ASPKCPVCRMTVR 206 (214)
Q Consensus 173 ~~lpCgH~~~C~~C~~~~~~~--~~~~CP~CR~~i~ 206 (214)
+.-.|+|.|+ ..|+.+|.+. .+..||+||++..
T Consensus 48 v~g~C~H~FH-~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 48 VWGKCSHNFH-MHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred eeccCccHHH-HHHHHHHHccccCCCCCCCcCCeee
Confidence 4567999996 8999999863 3568999999864
No 38
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.92 E-value=1.8e-06 Score=55.96 Aligned_cols=45 Identities=22% Similarity=0.673 Sum_probs=25.2
Q ss_pred ccccccccccccccceE-EccCCCccccHhhHHHhhcCCCcccccccccc
Q 028047 157 PDGQLCVVCLTRRRISA-FNPCGHLVCCRRCAISVEREASPKCPVCRMTV 205 (214)
Q Consensus 157 ~~~~~C~IC~~~~~~~~-~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i 205 (214)
++...|.+|.+-.++++ +..|.|.| |..|+.... ...||+|+.+-
T Consensus 5 e~lLrCs~C~~~l~~pv~l~~CeH~f-Cs~Ci~~~~---~~~CPvC~~Pa 50 (65)
T PF14835_consen 5 EELLRCSICFDILKEPVCLGGCEHIF-CSSCIRDCI---GSECPVCHTPA 50 (65)
T ss_dssp HHTTS-SSS-S--SS-B---SSS--B--TTTGGGGT---TTB-SSS--B-
T ss_pred HHhcCCcHHHHHhcCCceeccCccHH-HHHHhHHhc---CCCCCCcCChH
Confidence 34568999999999997 57899999 999998765 34799999774
No 39
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.88 E-value=1.2e-05 Score=74.19 Aligned_cols=47 Identities=30% Similarity=0.721 Sum_probs=40.2
Q ss_pred ccccccccccccccc-----eEEccCCCccccHhhHHHhhcCCCcccccccccc
Q 028047 157 PDGQLCVVCLTRRRI-----SAFNPCGHLVCCRRCAISVEREASPKCPVCRMTV 205 (214)
Q Consensus 157 ~~~~~C~IC~~~~~~-----~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i 205 (214)
.....|.||++.... +..+||||.| +..|...|.++ ...||+||..+
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hif-h~~CL~~W~er-~qtCP~CR~~~ 340 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLPCGHIF-HDSCLRSWFER-QQTCPTCRTVL 340 (543)
T ss_pred hcCCeeeeechhhccccccccceeecccch-HHHHHHHHHHH-hCcCCcchhhh
Confidence 446799999998887 7899999999 69999999865 56899999843
No 40
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.82 E-value=1.1e-05 Score=70.78 Aligned_cols=46 Identities=30% Similarity=0.645 Sum_probs=36.9
Q ss_pred CCccccccccccccccc----eEEccCCCccccHhhHHHhhcCCCccccccccc
Q 028047 155 DIPDGQLCVVCLTRRRI----SAFNPCGHLVCCRRCAISVEREASPKCPVCRMT 204 (214)
Q Consensus 155 ~~~~~~~C~IC~~~~~~----~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~ 204 (214)
.+-+-.+|+||+++.-. .+...|.|.|+| .|+..|+. ..||+||--
T Consensus 171 ~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~-~cl~~w~~---~scpvcR~~ 220 (493)
T KOG0804|consen 171 GLTELPTCPVCLERMDSSTTGILTILCNHSFHC-SCLMKWWD---SSCPVCRYC 220 (493)
T ss_pred CcccCCCcchhHhhcCccccceeeeecccccch-HHHhhccc---CcChhhhhh
Confidence 34466799999998654 356789999997 99999994 589999854
No 41
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.70 E-value=3.4e-06 Score=71.93 Aligned_cols=52 Identities=25% Similarity=0.574 Sum_probs=43.0
Q ss_pred CccccccccccccccceEEc-cCCCccccHhhHHHhhcCCCcccccccccccce
Q 028047 156 IPDGQLCVVCLTRRRISAFN-PCGHLVCCRRCAISVEREASPKCPVCRMTVRSS 208 (214)
Q Consensus 156 ~~~~~~C~IC~~~~~~~~~l-pCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~~ 208 (214)
+.-+..|+||++..+..... .|+|.| |.+|+..-.+.....||.||+...+.
T Consensus 40 ~~~~v~c~icl~llk~tmttkeClhrf-c~~ci~~a~r~gn~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 40 FDIQVICPICLSLLKKTMTTKECLHRF-CFDCIWKALRSGNNECPTCRKKLVSK 92 (381)
T ss_pred hhhhhccHHHHHHHHhhcccHHHHHHH-HHHHHHHHHHhcCCCCchHHhhcccc
Confidence 34467999999998876654 599999 99999988877778899999987654
No 42
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.65 E-value=2.1e-05 Score=67.22 Aligned_cols=48 Identities=27% Similarity=0.662 Sum_probs=41.7
Q ss_pred cccccccccccccceEEccCCCccccHhhHHHhhcCCCcccccccccccc
Q 028047 158 DGQLCVVCLTRRRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRS 207 (214)
Q Consensus 158 ~~~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~ 207 (214)
++.+|+||+..+.+++|.||+|.- |+.|+.+..- +.+.|-.|+..+..
T Consensus 421 Ed~lCpICyA~pi~Avf~PC~H~S-C~~CI~qHlm-N~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 421 EDNLCPICYAGPINAVFAPCSHRS-CYGCITQHLM-NCKRCFFCKTTVID 468 (489)
T ss_pred ccccCcceecccchhhccCCCCch-HHHHHHHHHh-cCCeeeEecceeee
Confidence 467999999999999999999999 9999998863 35689999988764
No 43
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=97.63 E-value=1.8e-05 Score=49.78 Aligned_cols=45 Identities=31% Similarity=0.675 Sum_probs=37.6
Q ss_pred ccccccccccccceEEccCCCccccHhhHHHhhcCCCcccccccccccc
Q 028047 159 GQLCVVCLTRRRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRS 207 (214)
Q Consensus 159 ~~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~ 207 (214)
...|..|.......+++||||.. |..|..... -+.||+|.++|+.
T Consensus 7 ~~~~~~~~~~~~~~~~~pCgH~I-~~~~f~~~r---YngCPfC~~~~~~ 51 (55)
T PF14447_consen 7 EQPCVFCGFVGTKGTVLPCGHLI-CDNCFPGER---YNGCPFCGTPFEF 51 (55)
T ss_pred ceeEEEcccccccccccccccee-eccccChhh---ccCCCCCCCcccC
Confidence 45799999998889999999999 899976654 3479999998864
No 44
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.45 E-value=4.6e-05 Score=67.67 Aligned_cols=50 Identities=32% Similarity=0.715 Sum_probs=38.8
Q ss_pred cccccccccccc-----------------ccceEEccCCCccccHhhHHHhhcCCCcccccccccccc
Q 028047 157 PDGQLCVVCLTR-----------------RRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRS 207 (214)
Q Consensus 157 ~~~~~C~IC~~~-----------------~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~ 207 (214)
+....|+||+.. .++..+.||.|.|+ ..|..+|...-+-.||+||.++..
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH-~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFH-RQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHH-HHHHHHHHhhhcccCCccCCCCCC
Confidence 445689999963 23456789999996 999999986444579999998753
No 45
>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=97.44 E-value=7.2e-05 Score=63.55 Aligned_cols=31 Identities=32% Similarity=0.776 Sum_probs=27.1
Q ss_pred cCCCccccHhhHHHhhcCCCcccccccccccc
Q 028047 176 PCGHLVCCRRCAISVEREASPKCPVCRMTVRS 207 (214)
Q Consensus 176 pCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~ 207 (214)
+|||.+ |..|+..++......||.|+.++..
T Consensus 25 ~CGH~~-C~sCv~~l~~~~~~~CP~C~~~lrk 55 (309)
T TIGR00570 25 VCGHTL-CESCVDLLFVRGSGSCPECDTPLRK 55 (309)
T ss_pred CCCCcc-cHHHHHHHhcCCCCCCCCCCCccch
Confidence 899999 9999999987666789999988765
No 46
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.34 E-value=0.0001 Score=64.99 Aligned_cols=51 Identities=27% Similarity=0.621 Sum_probs=43.0
Q ss_pred CCccccccccccccccceEEccCCCccccHhhHHHhhcCCCcccccccccccc
Q 028047 155 DIPDGQLCVVCLTRRRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRS 207 (214)
Q Consensus 155 ~~~~~~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~ 207 (214)
.+..+..|.||+.....++.+||||.+ |..|+.+... ....||.||..+..
T Consensus 80 ~~~sef~c~vc~~~l~~pv~tpcghs~-c~~Cl~r~ld-~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 80 EIRSEFECCVCSRALYPPVVTPCGHSF-CLECLDRSLD-QETECPLCRDELVE 130 (398)
T ss_pred cccchhhhhhhHhhcCCCccccccccc-cHHHHHHHhc-cCCCCccccccccc
Confidence 345677999999999999999999999 9999888654 35679999988764
No 47
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.32 E-value=8.4e-05 Score=64.30 Aligned_cols=52 Identities=25% Similarity=0.584 Sum_probs=41.1
Q ss_pred cccccccccccccceE-----E---ccCCCccccHhhHHHhhcCC------CcccccccccccceEE
Q 028047 158 DGQLCVVCLTRRRISA-----F---NPCGHLVCCRRCAISVEREA------SPKCPVCRMTVRSSMR 210 (214)
Q Consensus 158 ~~~~C~IC~~~~~~~~-----~---lpCgH~~~C~~C~~~~~~~~------~~~CP~CR~~i~~~~~ 210 (214)
.+..|-||++...+.. + .+|.|.+ |..|+..|.... .+.||.||.....+.+
T Consensus 160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~-Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~p 225 (344)
T KOG1039|consen 160 SEKECGICMETINEKAASERRFGILPNCNHSF-CLNCIRKWRQATQFESKTSKSCPFCRVPSSFVNP 225 (344)
T ss_pred ccccceehhhhccccchhhhhcccCCCcchhh-hhcHhHhhhhhhccccccccCCCcccCccccccc
Confidence 3568999999877666 5 7799999 999999998422 3579999998776543
No 48
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.21 E-value=0.00029 Score=60.19 Aligned_cols=51 Identities=29% Similarity=0.750 Sum_probs=41.0
Q ss_pred ccccccccccccccceEEccCCCccccHhhHHHhhc-CCCcccccccccccce
Q 028047 157 PDGQLCVVCLTRRRISAFNPCGHLVCCRRCAISVER-EASPKCPVCRMTVRSS 208 (214)
Q Consensus 157 ~~~~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~-~~~~~CP~CR~~i~~~ 208 (214)
+++..|.||-+...-...+||+|.. |-.|+.++.. -..+.||+||..-..+
T Consensus 59 Een~~C~ICA~~~TYs~~~PC~H~~-CH~Ca~RlRALY~~K~C~~CrTE~e~V 110 (493)
T COG5236 59 EENMNCQICAGSTTYSARYPCGHQI-CHACAVRLRALYMQKGCPLCRTETEAV 110 (493)
T ss_pred cccceeEEecCCceEEEeccCCchH-HHHHHHHHHHHHhccCCCccccccceE
Confidence 4567999999999889999999999 8999987653 1235799999875554
No 49
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.13 E-value=0.00021 Score=56.50 Aligned_cols=47 Identities=28% Similarity=0.630 Sum_probs=39.3
Q ss_pred cccccccccccceEEccCCCccccHhhHHHhhcCCCcccccccccccce
Q 028047 160 QLCVVCLTRRRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRSS 208 (214)
Q Consensus 160 ~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~~ 208 (214)
..|.||....+.++...|||.| |..|+.+-.+. ...|-+|.+...+.
T Consensus 197 F~C~iCKkdy~spvvt~CGH~F-C~~Cai~~y~k-g~~C~~Cgk~t~G~ 243 (259)
T COG5152 197 FLCGICKKDYESPVVTECGHSF-CSLCAIRKYQK-GDECGVCGKATYGR 243 (259)
T ss_pred eeehhchhhccchhhhhcchhH-HHHHHHHHhcc-CCcceecchhhccc
Confidence 4899999999999999999999 99999876533 45799998765543
No 50
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.93 E-value=0.00046 Score=42.42 Aligned_cols=43 Identities=30% Similarity=0.762 Sum_probs=21.1
Q ss_pred cccccccc--cceEEcc--CCCccccHhhHHHhhcCCCcccccccccc
Q 028047 162 CVVCLTRR--RISAFNP--CGHLVCCRRCAISVEREASPKCPVCRMTV 205 (214)
Q Consensus 162 C~IC~~~~--~~~~~lp--CgH~~~C~~C~~~~~~~~~~~CP~CR~~i 205 (214)
|++|.+.. ++..+.| ||+.. |..|..++.......||-||.+.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~I-C~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQI-CRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS-----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcH-HHHHHHHHHhccCCCCCCCCCCC
Confidence 55666554 2333454 68888 99999999865677899999875
No 51
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.88 E-value=0.00041 Score=61.46 Aligned_cols=52 Identities=29% Similarity=0.736 Sum_probs=44.8
Q ss_pred CccccccccccccccceEE-ccCCCccccHhhHHHhhcCCCcccccccccccceE
Q 028047 156 IPDGQLCVVCLTRRRISAF-NPCGHLVCCRRCAISVEREASPKCPVCRMTVRSSM 209 (214)
Q Consensus 156 ~~~~~~C~IC~~~~~~~~~-lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~~~ 209 (214)
.+++..|++|....++++. ..|||.| |..|+..+... +..||.|+..+....
T Consensus 18 ~~~~l~C~~C~~vl~~p~~~~~cgh~f-C~~C~~~~~~~-~~~cp~~~~~~~~~~ 70 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQTTTCGHRF-CAGCLLESLSN-HQKCPVCRQELTQAE 70 (391)
T ss_pred CcccccCccccccccCCCCCCCCCCcc-cccccchhhcc-CcCCcccccccchhh
Confidence 5667899999999999998 5999999 99999999865 678999998876543
No 52
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.86 E-value=0.00085 Score=55.70 Aligned_cols=53 Identities=28% Similarity=0.565 Sum_probs=39.9
Q ss_pred CCccccccccccccccceEEc-cCCCccccHhhHHHhhc-CCCcccccccccccce
Q 028047 155 DIPDGQLCVVCLTRRRISAFN-PCGHLVCCRRCAISVER-EASPKCPVCRMTVRSS 208 (214)
Q Consensus 155 ~~~~~~~C~IC~~~~~~~~~l-pCgH~~~C~~C~~~~~~-~~~~~CP~CR~~i~~~ 208 (214)
....+.+|++|-+.+..|... +|||.+ |..|+..-.. ..+-.||.|..+...+
T Consensus 235 ~~t~~~~C~~Cg~~PtiP~~~~~C~Hiy-CY~Ci~ts~~~~asf~Cp~Cg~~~~~l 289 (298)
T KOG2879|consen 235 TGTSDTECPVCGEPPTIPHVIGKCGHIY-CYYCIATSRLWDASFTCPLCGENVEPL 289 (298)
T ss_pred cccCCceeeccCCCCCCCeeecccccee-ehhhhhhhhcchhhcccCccCCCCcch
Confidence 344567999999999887654 599999 9999976432 2234799999887643
No 53
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.86 E-value=0.00036 Score=58.43 Aligned_cols=46 Identities=28% Similarity=0.658 Sum_probs=39.8
Q ss_pred ccccccccccceEEccCCCccccHhhHHHhhcCCCcccccccccccce
Q 028047 161 LCVVCLTRRRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRSS 208 (214)
Q Consensus 161 ~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~~ 208 (214)
.|-||...+.++|...|||.| |..|+.+-... ...|++|.+.+.++
T Consensus 243 ~c~icr~~f~~pVvt~c~h~f-c~~ca~~~~qk-~~~c~vC~~~t~g~ 288 (313)
T KOG1813|consen 243 KCFICRKYFYRPVVTKCGHYF-CEVCALKPYQK-GEKCYVCSQQTHGS 288 (313)
T ss_pred cccccccccccchhhcCCcee-ehhhhcccccc-CCcceecccccccc
Confidence 699999999999999999999 99999876532 45799999988764
No 54
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.82 E-value=0.00059 Score=56.46 Aligned_cols=50 Identities=20% Similarity=0.422 Sum_probs=38.2
Q ss_pred ccccccccccccccc----------eEEccCCCccccHhhHHHhhcC-CCcccccccccccc
Q 028047 157 PDGQLCVVCLTRRRI----------SAFNPCGHLVCCRRCAISVERE-ASPKCPVCRMTVRS 207 (214)
Q Consensus 157 ~~~~~C~IC~~~~~~----------~~~lpCgH~~~C~~C~~~~~~~-~~~~CP~CR~~i~~ 207 (214)
.++..|.||-...-. .-.+.|+|+|+ ..|+..|..- .+..||-|+..++.
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFH-EfCIrGWcivGKkqtCPYCKekVdl 282 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFH-EFCIRGWCIVGKKQTCPYCKEKVDL 282 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeeecccchH-HHhhhhheeecCCCCCchHHHHhhH
Confidence 356799999865433 34689999997 9999999753 34579999988764
No 55
>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=96.67 E-value=0.0013 Score=40.72 Aligned_cols=41 Identities=22% Similarity=0.643 Sum_probs=31.9
Q ss_pred ccccccc--cccceEEccCC-----CccccHhhHHHhhcCC-Cccccccc
Q 028047 161 LCVVCLT--RRRISAFNPCG-----HLVCCRRCAISVEREA-SPKCPVCR 202 (214)
Q Consensus 161 ~C~IC~~--~~~~~~~lpCg-----H~~~C~~C~~~~~~~~-~~~CP~CR 202 (214)
.|.||++ ...++...||. |.++ ..|+.+|.... +..||+|+
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH-~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVH-QECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHH-HHHHHHHHHHcCCCcCCCCC
Confidence 4889997 56677889995 7786 89999998532 45799994
No 56
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.37 E-value=0.0033 Score=52.88 Aligned_cols=43 Identities=30% Similarity=0.670 Sum_probs=36.7
Q ss_pred cccccccccccceEEcc-CCCccccHhhHHHhhcCCCcccccccc
Q 028047 160 QLCVVCLTRRRISAFNP-CGHLVCCRRCAISVEREASPKCPVCRM 203 (214)
Q Consensus 160 ~~C~IC~~~~~~~~~lp-CgH~~~C~~C~~~~~~~~~~~CP~CR~ 203 (214)
..|+.|....++++-.| |||.| |.+|+..........||.|..
T Consensus 275 LkCplc~~Llrnp~kT~cC~~~f-c~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNPMKTPCCGHTF-CDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCcccCccccchH-HHHHHhhhhhhccccCCCccc
Confidence 68999999999998885 79999 999999766555668999976
No 57
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.37 E-value=0.00079 Score=57.26 Aligned_cols=55 Identities=20% Similarity=0.490 Sum_probs=44.6
Q ss_pred CCccccccccccccccceEEc-cCCCccccHhhHHHhhcCCCcccccccccccceEEe
Q 028047 155 DIPDGQLCVVCLTRRRISAFN-PCGHLVCCRRCAISVEREASPKCPVCRMTVRSSMRI 211 (214)
Q Consensus 155 ~~~~~~~C~IC~~~~~~~~~l-pCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~~~~i 211 (214)
++.....|.+|.....++..+ -|-|.| |..|+.+.... ...||.|...|.+..+.
T Consensus 11 ~~n~~itC~LC~GYliDATTI~eCLHTF-CkSCivk~l~~-~~~CP~C~i~ih~t~pl 66 (331)
T KOG2660|consen 11 ELNPHITCRLCGGYLIDATTITECLHTF-CKSCIVKYLEE-SKYCPTCDIVIHKTHPL 66 (331)
T ss_pred hcccceehhhccceeecchhHHHHHHHH-HHHHHHHHHHH-hccCCccceeccCcccc
Confidence 344566899999999998765 599999 99999998754 56899999988876543
No 58
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=96.36 E-value=0.0016 Score=55.48 Aligned_cols=45 Identities=38% Similarity=0.868 Sum_probs=37.5
Q ss_pred cccccccccccccceEEccC--CCccccHhhHHHhhcCCCcccccccccccce
Q 028047 158 DGQLCVVCLTRRRISAFNPC--GHLVCCRRCAISVEREASPKCPVCRMTVRSS 208 (214)
Q Consensus 158 ~~~~C~IC~~~~~~~~~lpC--gH~~~C~~C~~~~~~~~~~~CP~CR~~i~~~ 208 (214)
+-..|+||.+....+++ .| ||.. |..|-..+. ..||.||.+|..+
T Consensus 47 ~lleCPvC~~~l~~Pi~-QC~nGHla-CssC~~~~~----~~CP~Cr~~~g~~ 93 (299)
T KOG3002|consen 47 DLLDCPVCFNPLSPPIF-QCDNGHLA-CSSCRTKVS----NKCPTCRLPIGNI 93 (299)
T ss_pred hhccCchhhccCcccce-ecCCCcEe-hhhhhhhhc----ccCCccccccccH
Confidence 34589999999999887 66 7999 999987765 4899999998753
No 59
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=96.28 E-value=0.0084 Score=51.08 Aligned_cols=56 Identities=29% Similarity=0.597 Sum_probs=41.2
Q ss_pred CccccccccccccccceEEcc-CCCccccHhhHHHhhcCCCccccc--ccccccceEEeee
Q 028047 156 IPDGQLCVVCLTRRRISAFNP-CGHLVCCRRCAISVEREASPKCPV--CRMTVRSSMRIYF 213 (214)
Q Consensus 156 ~~~~~~C~IC~~~~~~~~~lp-CgH~~~C~~C~~~~~~~~~~~CP~--CR~~i~~~~~i~~ 213 (214)
..+...|+||+....++..+. -|-+| |..|+.+... ..+.||+ |-..+...+|+|.
T Consensus 297 ~~~~~~CpvClk~r~Nptvl~vSGyVf-CY~Ci~~Yv~-~~~~CPVT~~p~~v~~l~rl~~ 355 (357)
T KOG0826|consen 297 PPDREVCPVCLKKRQNPTVLEVSGYVF-CYPCIFSYVV-NYGHCPVTGYPASVDHLIRLFN 355 (357)
T ss_pred CCccccChhHHhccCCCceEEecceEE-eHHHHHHHHH-hcCCCCccCCcchHHHHHHHhc
Confidence 345679999999887765554 58888 9999999885 4568998 4445556666654
No 60
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=95.79 E-value=0.0033 Score=56.70 Aligned_cols=48 Identities=23% Similarity=0.526 Sum_probs=38.9
Q ss_pred ccccccccccccccceEEccCCCccccHhhHHHhh----cCCCcccccccccc
Q 028047 157 PDGQLCVVCLTRRRISAFNPCGHLVCCRRCAISVE----REASPKCPVCRMTV 205 (214)
Q Consensus 157 ~~~~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~----~~~~~~CP~CR~~i 205 (214)
.....|.+|.+...+++...|.|.| |+-|+..+. ...+-+||+|-...
T Consensus 534 k~~~~C~lc~d~aed~i~s~ChH~F-CrlCi~eyv~~f~~~~nvtCP~C~i~L 585 (791)
T KOG1002|consen 534 KGEVECGLCHDPAEDYIESSCHHKF-CRLCIKEYVESFMENNNVTCPVCHIGL 585 (791)
T ss_pred cCceeecccCChhhhhHhhhhhHHH-HHHHHHHHHHhhhcccCCCCccccccc
Confidence 3456899999999999999999999 999996554 34456899996543
No 61
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=95.78 E-value=0.0026 Score=59.73 Aligned_cols=50 Identities=24% Similarity=0.374 Sum_probs=37.2
Q ss_pred ccccccccccccce---EEccCCCccccHhhHHHhhcCCCcccccccccccceEE
Q 028047 159 GQLCVVCLTRRRIS---AFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRSSMR 210 (214)
Q Consensus 159 ~~~C~IC~~~~~~~---~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~~~~ 210 (214)
...|++|+....+- .-.+|+|.| |..|+..|.+. ...||+||..+..++.
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~c~H~F-C~~Ci~sWsR~-aqTCPiDR~EF~~v~V 175 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKHTAHYF-CEECVGSWSRC-AQTCPVDRGEFGEVKV 175 (1134)
T ss_pred hhhhhHHHHHHHHHhhcccccccccc-HHHHhhhhhhh-cccCchhhhhhheeee
Confidence 34677777655543 236899999 89999999853 4589999998877643
No 62
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=95.67 E-value=0.01 Score=38.00 Aligned_cols=42 Identities=21% Similarity=0.404 Sum_probs=28.5
Q ss_pred cccccccccccccceEE-ccCCCccccHhhHHHhhc-CCCccccc
Q 028047 158 DGQLCVVCLTRRRISAF-NPCGHLVCCRRCAISVER-EASPKCPV 200 (214)
Q Consensus 158 ~~~~C~IC~~~~~~~~~-lpCgH~~~C~~C~~~~~~-~~~~~CP~ 200 (214)
-...|+|.+..+.+++. ..|||.| ..+.+..+.. .....||+
T Consensus 10 ~~~~CPiT~~~~~~PV~s~~C~H~f-ek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFEDPVKSKKCGHTF-EKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SSEEEESSS--EE-EHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhCCcCcCCCCCee-cHHHHHHHHHhcCCCCCCC
Confidence 35689999999999986 5899999 7999999883 33457998
No 63
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.65 E-value=0.0051 Score=53.88 Aligned_cols=33 Identities=24% Similarity=0.590 Sum_probs=27.8
Q ss_pred ccccccccccccc---eEEccCCCccccHhhHHHhhc
Q 028047 159 GQLCVVCLTRRRI---SAFNPCGHLVCCRRCAISVER 192 (214)
Q Consensus 159 ~~~C~IC~~~~~~---~~~lpCgH~~~C~~C~~~~~~ 192 (214)
...|.||++...- ..++||+|++ |..|......
T Consensus 184 lf~C~ICf~e~~G~~c~~~lpC~Hv~-Ck~C~kdY~~ 219 (445)
T KOG1814|consen 184 LFDCCICFEEQMGQHCFKFLPCSHVF-CKSCLKDYFT 219 (445)
T ss_pred cccceeeehhhcCcceeeecccchHH-HHHHHHHHHH
Confidence 4579999998754 6799999999 9999998754
No 64
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=95.62 E-value=0.012 Score=45.19 Aligned_cols=53 Identities=21% Similarity=0.563 Sum_probs=37.2
Q ss_pred ccccccccccccceEEccCC-Ccc-----cc------HhhHHHhhcC------------------------------CCc
Q 028047 159 GQLCVVCLTRRRISAFNPCG-HLV-----CC------RRCAISVERE------------------------------ASP 196 (214)
Q Consensus 159 ~~~C~IC~~~~~~~~~lpCg-H~~-----~C------~~C~~~~~~~------------------------------~~~ 196 (214)
+..|+|||+-+=++|+|-|. |-- .| ..|++++.+. ...
T Consensus 2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L 81 (162)
T PF07800_consen 2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPEL 81 (162)
T ss_pred CccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCcccccccccccccc
Confidence 45899999999999999885 321 12 4677766430 023
Q ss_pred ccccccccccceEEe
Q 028047 197 KCPVCRMTVRSSMRI 211 (214)
Q Consensus 197 ~CP~CR~~i~~~~~i 211 (214)
.||+||..|.+-..+
T Consensus 82 ~CPLCRG~V~GWtvv 96 (162)
T PF07800_consen 82 ACPLCRGEVKGWTVV 96 (162)
T ss_pred cCccccCceeceEEc
Confidence 599999999876544
No 65
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=95.51 E-value=0.0056 Score=57.80 Aligned_cols=46 Identities=24% Similarity=0.678 Sum_probs=38.2
Q ss_pred cccccccccccceEEccCCCccccHhhHHHhhcCC-Ccccccccccccc
Q 028047 160 QLCVVCLTRRRISAFNPCGHLVCCRRCAISVEREA-SPKCPVCRMTVRS 207 (214)
Q Consensus 160 ~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~-~~~CP~CR~~i~~ 207 (214)
..|.+|.+ ...++..+|||.+ |.+|........ ...||+||..+..
T Consensus 455 ~~c~ic~~-~~~~~it~c~h~~-c~~c~~~~i~~~~~~~~~~cr~~l~~ 501 (674)
T KOG1001|consen 455 HWCHICCD-LDSFFITRCGHDF-CVECLKKSIQQSENAPCPLCRNVLKE 501 (674)
T ss_pred cccccccc-cccceeecccchH-HHHHHHhccccccCCCCcHHHHHHHH
Confidence 68999999 8888999999999 999998876532 3369999987653
No 66
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=95.47 E-value=0.0076 Score=44.86 Aligned_cols=50 Identities=28% Similarity=0.646 Sum_probs=40.6
Q ss_pred ccccccccccccceEEcc----CCCccccHhhHHHhhc--CCCcccccccccccceE
Q 028047 159 GQLCVVCLTRRRISAFNP----CGHLVCCRRCAISVER--EASPKCPVCRMTVRSSM 209 (214)
Q Consensus 159 ~~~C~IC~~~~~~~~~lp----CgH~~~C~~C~~~~~~--~~~~~CP~CR~~i~~~~ 209 (214)
-.+|-||.+...+..||. ||-.. |..|...+|+ ...+.||+|+.++.+.-
T Consensus 80 lYeCnIC~etS~ee~FLKPneCCgY~i-Cn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 80 LYECNICKETSAEERFLKPNECCGYSI-CNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred ceeccCcccccchhhcCCcccccchHH-HHHHHHHHHHHcccCCCCCcccccccccc
Confidence 347999999988888863 89887 8999999986 33457999999987654
No 67
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=95.41 E-value=0.0042 Score=41.45 Aligned_cols=47 Identities=19% Similarity=0.365 Sum_probs=22.6
Q ss_pred ccccccccccc-c---eEE----ccCCCccccHhhHHHhhcC----------CCcccccccccccc
Q 028047 160 QLCVVCLTRRR-I---SAF----NPCGHLVCCRRCAISVERE----------ASPKCPVCRMTVRS 207 (214)
Q Consensus 160 ~~C~IC~~~~~-~---~~~----lpCgH~~~C~~C~~~~~~~----------~~~~CP~CR~~i~~ 207 (214)
..|.||+...- + +.. -.|++.|| ..|+..|... ....||.|+.+|+-
T Consensus 3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH-~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~ 67 (70)
T PF11793_consen 3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFH-LLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW 67 (70)
T ss_dssp -S-SSS--SS-TT-----B--S-TT----B--SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred CCCCcCCcEecCCCCcCceEcCCcccCCHHH-HHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence 47999997643 1 111 36888887 8999999641 12469999999863
No 68
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=95.14 E-value=0.01 Score=50.87 Aligned_cols=48 Identities=27% Similarity=0.789 Sum_probs=36.4
Q ss_pred ccccccccccccc--eEE--ccCCCccccHhhHHHhhcCCCcccccccccccc
Q 028047 159 GQLCVVCLTRRRI--SAF--NPCGHLVCCRRCAISVEREASPKCPVCRMTVRS 207 (214)
Q Consensus 159 ~~~C~IC~~~~~~--~~~--lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~ 207 (214)
+..|+.|++..-. --| -|||... |..|...+....+.+||-||+..+.
T Consensus 14 ed~cplcie~mditdknf~pc~cgy~i-c~fc~~~irq~lngrcpacrr~y~d 65 (480)
T COG5175 14 EDYCPLCIEPMDITDKNFFPCPCGYQI-CQFCYNNIRQNLNGRCPACRRKYDD 65 (480)
T ss_pred cccCcccccccccccCCcccCCcccHH-HHHHHHHHHhhccCCChHhhhhccc
Confidence 3459999986532 223 4678888 8999998887677899999987654
No 69
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.13 E-value=0.019 Score=48.10 Aligned_cols=48 Identities=23% Similarity=0.509 Sum_probs=38.1
Q ss_pred ccccccccccccc----cceEEccCCCccccHhhHHHhhcCCCcccccccccccc
Q 028047 157 PDGQLCVVCLTRR----RISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRS 207 (214)
Q Consensus 157 ~~~~~C~IC~~~~----~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~ 207 (214)
.....|+|....+ +-+.+.||||+| +..++..+. ....||+|-.++..
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~-s~~alke~k--~~~~Cp~c~~~f~~ 162 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVF-SEKALKELK--KSKKCPVCGKPFTE 162 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEe-eHHHHHhhc--ccccccccCCcccc
Confidence 4456999998765 346678999999 799999985 23579999999875
No 70
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.02 E-value=0.0081 Score=57.68 Aligned_cols=48 Identities=21% Similarity=0.522 Sum_probs=34.6
Q ss_pred ccccccccccccc-------ceEEccCCCccccHhhHHHhhc-CCCccccccccccc
Q 028047 158 DGQLCVVCLTRRR-------ISAFNPCGHLVCCRRCAISVER-EASPKCPVCRMTVR 206 (214)
Q Consensus 158 ~~~~C~IC~~~~~-------~~~~lpCgH~~~C~~C~~~~~~-~~~~~CP~CR~~i~ 206 (214)
.-.+|+||+.-.. +-.--.|.|.|| ..|+-+|.+ .++.+||.||..|+
T Consensus 1468 G~eECaICYsvL~~vdr~lPskrC~TCknKFH-~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1468 GHEECAICYSVLDMVDRSLPSKRCATCKNKFH-TRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CcchhhHHHHHHHHHhccCCccccchhhhhhh-HHHHHHHHHhcCCCCCCccccccc
Confidence 3457999996422 112235899997 899999976 44568999998875
No 71
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=94.53 E-value=0.017 Score=57.91 Aligned_cols=51 Identities=20% Similarity=0.549 Sum_probs=37.9
Q ss_pred cccccccccccccc---ceEEccCCCccccHhhHHHhhcCC---------Ccccccccccccce
Q 028047 157 PDGQLCVVCLTRRR---ISAFNPCGHLVCCRRCAISVEREA---------SPKCPVCRMTVRSS 208 (214)
Q Consensus 157 ~~~~~C~IC~~~~~---~~~~lpCgH~~~C~~C~~~~~~~~---------~~~CP~CR~~i~~~ 208 (214)
+.+..|+||+.+.- .++-+.|+|.|+ ..|..++.... -..||+|.++|..+
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFH-lqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~ 3546 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFH-LQCCRRVLENRWLGPRITFGFISCPICKNKINHI 3546 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecCCccchh-HHHHHHHHHhcccCCeeEEeeeecccccchhhhH
Confidence 34569999998754 467899999996 78877665311 13599999999764
No 72
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.47 E-value=0.032 Score=45.89 Aligned_cols=47 Identities=21% Similarity=0.400 Sum_probs=37.5
Q ss_pred ccccccccccccc----eEEccCCCccccHhhHHHhhcCCCcccccccccccc
Q 028047 159 GQLCVVCLTRRRI----SAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRS 207 (214)
Q Consensus 159 ~~~C~IC~~~~~~----~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~ 207 (214)
...|+||.+...+ +++-||||++ |.+|..++.+ ....||+|-.+...
T Consensus 221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv-~~ecvEklir-~D~v~pv~d~plkd 271 (303)
T KOG3039|consen 221 RYICPVTRDTLTNTTPCAVLRPSGHVV-TKECVEKLIR-KDMVDPVTDKPLKD 271 (303)
T ss_pred ceecccchhhhcCccceEEeccCCcEe-eHHHHHHhcc-ccccccCCCCcCcc
Confidence 3589999987655 4567999999 8999999974 35679999877654
No 73
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=94.22 E-value=0.013 Score=49.63 Aligned_cols=45 Identities=31% Similarity=0.667 Sum_probs=32.0
Q ss_pred cccccccccccc-eEEccCCCccccHhhHHHhhcCCCcccccccccccce
Q 028047 160 QLCVVCLTRRRI-SAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRSS 208 (214)
Q Consensus 160 ~~C~IC~~~~~~-~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~~ 208 (214)
.-|.-|--.... -.++||.|+| |.+|+..-. .+.||.|--+|.++
T Consensus 91 HfCd~Cd~PI~IYGRmIPCkHvF-Cl~CAr~~~---dK~Cp~C~d~VqrI 136 (389)
T KOG2932|consen 91 HFCDRCDFPIAIYGRMIPCKHVF-CLECARSDS---DKICPLCDDRVQRI 136 (389)
T ss_pred EeecccCCcceeeecccccchhh-hhhhhhcCc---cccCcCcccHHHHH
Confidence 356666543322 3468999999 999998765 45899998777654
No 74
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=94.19 E-value=0.013 Score=39.29 Aligned_cols=30 Identities=27% Similarity=0.606 Sum_probs=23.6
Q ss_pred cCCCccccHhhHHHhhcC--CCccccccccccc
Q 028047 176 PCGHLVCCRRCAISVERE--ASPKCPVCRMTVR 206 (214)
Q Consensus 176 pCgH~~~C~~C~~~~~~~--~~~~CP~CR~~i~ 206 (214)
-|.|.|+ ..|+.+|... +...||+||+...
T Consensus 50 ~C~h~fh-~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 50 YCLHAFH-AHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred HHHHHHH-HHHHHHHhcCccccccCCcchheeE
Confidence 5999997 8999999752 2346999998754
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=93.93 E-value=0.058 Score=47.12 Aligned_cols=24 Identities=25% Similarity=0.538 Sum_probs=18.3
Q ss_pred cHhhHHHhhc------------CCCccccccccccc
Q 028047 183 CRRCAISVER------------EASPKCPVCRMTVR 206 (214)
Q Consensus 183 C~~C~~~~~~------------~~~~~CP~CR~~i~ 206 (214)
|.+|+-+|.. ..+..||.||+++-
T Consensus 316 C~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 316 CLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred HHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence 8899998863 23457999999864
No 76
>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=93.74 E-value=0.036 Score=39.51 Aligned_cols=32 Identities=34% Similarity=0.634 Sum_probs=24.2
Q ss_pred Cccccccccccccccce--EEccCCCccccHhhHH
Q 028047 156 IPDGQLCVVCLTRRRIS--AFNPCGHLVCCRRCAI 188 (214)
Q Consensus 156 ~~~~~~C~IC~~~~~~~--~~lpCgH~~~C~~C~~ 188 (214)
+.++..|.+|.....+. +..||||.+| ..|+.
T Consensus 75 i~~~~~C~vC~k~l~~~~f~~~p~~~v~H-~~C~~ 108 (109)
T PF10367_consen 75 ITESTKCSVCGKPLGNSVFVVFPCGHVVH-YSCIK 108 (109)
T ss_pred ECCCCCccCcCCcCCCceEEEeCCCeEEe-ccccc
Confidence 34567899999876653 4579999995 78864
No 77
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=93.68 E-value=0.018 Score=48.65 Aligned_cols=47 Identities=26% Similarity=0.611 Sum_probs=33.2
Q ss_pred ccccccccccccc---eEEccCCCccccHhhHHHhhc----------------------CCCccccccccccc
Q 028047 159 GQLCVVCLTRRRI---SAFNPCGHLVCCRRCAISVER----------------------EASPKCPVCRMTVR 206 (214)
Q Consensus 159 ~~~C~IC~~~~~~---~~~lpCgH~~~C~~C~~~~~~----------------------~~~~~CP~CR~~i~ 206 (214)
...|+||+--+.+ ....+|-|.++| .|+.++.. +....||+||-.|.
T Consensus 115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~-~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~ 186 (368)
T KOG4445|consen 115 NGQCVICLYGFASSPAFTVTACDHYMHF-ACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK 186 (368)
T ss_pred CCceEEEEEeecCCCceeeehhHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence 3479999977654 456799999985 88876432 11235999998875
No 78
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=93.04 E-value=0.078 Score=35.95 Aligned_cols=31 Identities=23% Similarity=0.411 Sum_probs=25.2
Q ss_pred EccCCCccccHhhHHHhhcCCCccccccccccc
Q 028047 174 FNPCGHLVCCRRCAISVEREASPKCPVCRMTVR 206 (214)
Q Consensus 174 ~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~ 206 (214)
---|.|.|+ ..|+.+|... ...||++|+...
T Consensus 51 wG~CnHaFH-~HCI~rWL~T-k~~CPld~q~w~ 81 (88)
T COG5194 51 WGVCNHAFH-DHCIYRWLDT-KGVCPLDRQTWV 81 (88)
T ss_pred EEecchHHH-HHHHHHHHhh-CCCCCCCCceeE
Confidence 346999997 9999999853 557999998764
No 79
>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=91.90 E-value=0.15 Score=31.11 Aligned_cols=46 Identities=20% Similarity=0.518 Sum_probs=24.7
Q ss_pred ccccccccccceEEccCCCccccHhhHHHhhcCCCcccccccccccceE
Q 028047 161 LCVVCLTRRRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRSSM 209 (214)
Q Consensus 161 ~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~~~ 209 (214)
.|.-|.-..+.- +.|..-+.|..|...+... +..||+|..+....+
T Consensus 4 nCKsCWf~~k~L--i~C~dHYLCl~CLt~ml~~-s~~C~iC~~~LPtki 49 (50)
T PF03854_consen 4 NCKSCWFANKGL--IKCSDHYLCLNCLTLMLSR-SDRCPICGKPLPTKI 49 (50)
T ss_dssp ---SS-S--SSE--EE-SS-EEEHHHHHHT-SS-SSEETTTTEE----S
T ss_pred cChhhhhcCCCe--eeecchhHHHHHHHHHhcc-ccCCCcccCcCcccc
Confidence 477777666554 4587555599999998854 558999998876554
No 80
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=91.85 E-value=0.15 Score=43.38 Aligned_cols=53 Identities=9% Similarity=-0.008 Sum_probs=44.4
Q ss_pred CccccccccccccccceEEccCCCccccHhhHHHhhcCCCcccccccccccceEEe
Q 028047 156 IPDGQLCVVCLTRRRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRSSMRI 211 (214)
Q Consensus 156 ~~~~~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~~~~i 211 (214)
+-....|.+|-...-..+..||||+..|.+|+..-. +..||+|.......++|
T Consensus 340 ~~s~~~~~~~~~~~~st~~~~~~~n~~~~~~a~~s~---~~~~~~c~~~~~~~~~i 392 (394)
T KOG2113|consen 340 LMSSLKGTSAGFGLLSTIWSGGNMNLSPGSLASASA---SPTSSTCDHNDHTLVPI 392 (394)
T ss_pred chhhcccccccCceeeeEeecCCcccChhhhhhccc---CCccccccccceeeeec
Confidence 345679999999999999999999999999998433 46899998888777776
No 81
>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=91.44 E-value=0.079 Score=43.45 Aligned_cols=45 Identities=29% Similarity=0.705 Sum_probs=33.7
Q ss_pred cccccccccccc---cceEE--cc-CCCccccHhhHHHhhcCCCcccc--cccc
Q 028047 158 DGQLCVVCLTRR---RISAF--NP-CGHLVCCRRCAISVEREASPKCP--VCRM 203 (214)
Q Consensus 158 ~~~~C~IC~~~~---~~~~~--lp-CgH~~~C~~C~~~~~~~~~~~CP--~CR~ 203 (214)
.+..|+||.... -++.+ -| |-|.. |.+|..++.......|| -|..
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrm-CESCvdRIFs~GpAqCP~~gC~k 61 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRM-CESCVDRIFSRGPAQCPYKGCGK 61 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHH-HHHHHHHHhcCCCCCCCCccHHH
Confidence 355899998642 23333 35 99999 99999999987777899 7854
No 82
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=91.40 E-value=0.059 Score=47.15 Aligned_cols=49 Identities=24% Similarity=0.512 Sum_probs=36.0
Q ss_pred cccccccccc----ccceEEccCCCccccHhhHHHhhcC-CCcccccccccccce
Q 028047 159 GQLCVVCLTR----RRISAFNPCGHLVCCRRCAISVERE-ASPKCPVCRMTVRSS 208 (214)
Q Consensus 159 ~~~C~IC~~~----~~~~~~lpCgH~~~C~~C~~~~~~~-~~~~CP~CR~~i~~~ 208 (214)
+..|-.|-+. +.+.--+||.|.|+ ..|+..+..+ ....||.||.-++++
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH-~rCl~e~L~~n~~rsCP~CrklrSs~ 418 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFH-LRCLQEILENNGTRSCPNCRKLRSSM 418 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHH-HHHHHHHHHhCCCCCCccHHHHHhhc
Confidence 4578889864 34455689999997 8999987653 345699999665543
No 83
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.90 E-value=0.022 Score=49.16 Aligned_cols=119 Identities=18% Similarity=-0.003 Sum_probs=79.2
Q ss_pred CCCCCCCCCceeeeeceeeCCCchhhhhhhhhcCceeceeeeeeeeecCCCeeeeEeeeeecCCceeecCCCCCCeeeec
Q 028047 1 MDGSRQPLPLTTAYQRLELANVSPFTFLQAMFGLKCPIGVLAEEKILPLGKDISAVGICSFKNGIPEIKSCKDLPYFLSE 80 (214)
Q Consensus 1 ~~~~~~~l~~~~v~~~f~p~~~~~~~~~~~~~sg~~~~G~~~~E~~L~~g~~it~vGl~~~~~g~~~l~~~~~~p~~ls~ 80 (214)
|++....||+.+++....+.+...++-+ .--.++.|.+..++.. .++-|+.+|..+...+-..+.-..-++|+|+.
T Consensus 176 ~~~~~~~l~~~~~~t~l~e~v~d~~~~~---r~~~~~~g~~~v~~s~-~d~LIsr~g~~s~~~kv~~~~~~~~~~ills~ 251 (355)
T KOG1571|consen 176 FRETERVLPLGTRLTALGELVRDGYCGV---RVQPPMQGPLYVTKSA-ADRLISREGDLSFFVKVNGMVFGTLGVILLSF 251 (355)
T ss_pred ccceEEeeccccceeeeehheecCCCce---EecCCccCcceeeccc-hhhHHHhhccceeeeeecceeeeeeeEEeehH
Confidence 4667788888888888888876443322 1223468999999988 99999999933555544444444667899999
Q ss_pred cCHHHHHHHhhhhhhhhhhhhhhhchhHHHHHHHHHHHHHHHH
Q 028047 81 KTKDLMVVDLVNRSKILFWSGIVLGSLSIGILGYAIVRNWNRW 123 (214)
Q Consensus 81 ~~~d~Li~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~r~~~~~ 123 (214)
..+|.++++..+..+.++-....++....-.+.....+.|..|
T Consensus 252 ~~~d~~led~r~~r~~l~k~~~~~~~~rae~~s~g~~gtr~~~ 294 (355)
T KOG1571|consen 252 IVKDNYLEDDRRQRRELVKRVEDLATVRAELLSRGVRGTRIQN 294 (355)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhheeeeeccccccccccc
Confidence 9999999987777665554443333333333444555555554
No 84
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.51 E-value=0.15 Score=43.32 Aligned_cols=34 Identities=35% Similarity=0.811 Sum_probs=28.1
Q ss_pred ceEEccCCCccccHhhHHHhhcCCCcccccccccc
Q 028047 171 ISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTV 205 (214)
Q Consensus 171 ~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i 205 (214)
.+..+.|||.+ |..|+..+.......||.||.+.
T Consensus 21 ~p~~l~c~h~~-c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 21 IPRVLKCGHTI-CQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CCcccccCcee-hHhHHHHHhcCceeeccCCCCcc
Confidence 45566699999 89999999876666799999884
No 85
>PHA02862 5L protein; Provisional
Probab=89.95 E-value=0.26 Score=37.33 Aligned_cols=51 Identities=20% Similarity=0.436 Sum_probs=35.2
Q ss_pred ccccccccccccceEEccCCC-----ccccHhhHHHhhcC-CCcccccccccccceEEee
Q 028047 159 GQLCVVCLTRRRISAFNPCGH-----LVCCRRCAISVERE-ASPKCPVCRMTVRSSMRIY 212 (214)
Q Consensus 159 ~~~C~IC~~~~~~~~~lpCgH-----~~~C~~C~~~~~~~-~~~~CP~CR~~i~~~~~i~ 212 (214)
+..|-||++...+. .-||.- ..| .+|..+|... .+..||+|+.+.. +.+.|
T Consensus 2 ~diCWIC~~~~~e~-~~PC~C~GS~K~VH-q~CL~~WIn~S~k~~CeLCkteY~-Ik~~y 58 (156)
T PHA02862 2 SDICWICNDVCDER-NNFCGCNEEYKVVH-IKCMQLWINYSKKKECNLCKTKYN-IKKTY 58 (156)
T ss_pred CCEEEEecCcCCCC-cccccccCcchhHH-HHHHHHHHhcCCCcCccCCCCeEE-EEEcc
Confidence 35799999986554 468863 233 7999999753 3456999998864 44443
No 86
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.40 E-value=0.17 Score=44.26 Aligned_cols=34 Identities=21% Similarity=0.510 Sum_probs=24.3
Q ss_pred ccceEEcc-CCCccccHhhHHHhhcCCC--cccccccc
Q 028047 169 RRISAFNP-CGHLVCCRRCAISVEREAS--PKCPVCRM 203 (214)
Q Consensus 169 ~~~~~~lp-CgH~~~C~~C~~~~~~~~~--~~CP~CR~ 203 (214)
..+..-+. |||.|+ ..|...|..-.. ..||+|+-
T Consensus 17 ~~~l~~i~~cGhifh-~~cl~qwfe~~Ps~R~cpic~i 53 (465)
T KOG0827|consen 17 DHELGPIGTCGHIFH-TTCLTQWFEGDPSNRGCPICQI 53 (465)
T ss_pred ccccccccchhhHHH-HHHHHHHHccCCccCCCCceee
Confidence 33433334 999997 899999986322 47999983
No 87
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=89.27 E-value=0.33 Score=37.40 Aligned_cols=48 Identities=17% Similarity=0.411 Sum_probs=34.4
Q ss_pred ccccccccccccccceEEccCCC-----ccccHhhHHHhhcC-CCccccccccccc
Q 028047 157 PDGQLCVVCLTRRRISAFNPCGH-----LVCCRRCAISVERE-ASPKCPVCRMTVR 206 (214)
Q Consensus 157 ~~~~~C~IC~~~~~~~~~lpCgH-----~~~C~~C~~~~~~~-~~~~CP~CR~~i~ 206 (214)
..+..|-||++...+ ..-||.- ..| .+|..+|... ....|++|+.++.
T Consensus 6 ~~~~~CRIC~~~~~~-~~~PC~CkGs~k~VH-~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 6 LMDKCCWICKDEYDV-VTNYCNCKNENKIVH-KECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred CCCCeeEecCCCCCC-ccCCcccCCCchHHH-HHHHHHHHhcCCCCcccccCCeEE
Confidence 346689999988654 3458864 234 7899999753 3457999998864
No 88
>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=89.24 E-value=0.17 Score=37.92 Aligned_cols=32 Identities=19% Similarity=0.487 Sum_probs=26.1
Q ss_pred ccccccccccccc---eEEccCC------CccccHhhHHHhh
Q 028047 159 GQLCVVCLTRRRI---SAFNPCG------HLVCCRRCAISVE 191 (214)
Q Consensus 159 ~~~C~IC~~~~~~---~~~lpCg------H~~~C~~C~~~~~ 191 (214)
..+|.||++...+ .+.++|| |+| |.+|..+|.
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmf-c~~C~~rw~ 66 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMF-CADCDKRWR 66 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHH-HHHHHHHHH
Confidence 4479999987655 7778898 677 899999995
No 89
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.64 E-value=0.16 Score=47.17 Aligned_cols=40 Identities=28% Similarity=0.597 Sum_probs=32.0
Q ss_pred cccccccccccc----cceEEccCCCccccHhhHHHhhcCCCccccccc
Q 028047 158 DGQLCVVCLTRR----RISAFNPCGHLVCCRRCAISVEREASPKCPVCR 202 (214)
Q Consensus 158 ~~~~C~IC~~~~----~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR 202 (214)
+-..|.||+..+ ..++++-|||.. |..|++.+.. ..|| |.
T Consensus 10 ~~l~c~ic~n~f~~~~~~Pvsl~cghti-c~~c~~~lyn---~scp-~~ 53 (861)
T KOG3161|consen 10 LLLLCDICLNLFVVQRLEPVSLQCGHTI-CGHCVQLLYN---ASCP-TK 53 (861)
T ss_pred HHhhchHHHHHHHHHhcCcccccccchH-HHHHHHhHhh---ccCC-CC
Confidence 456899997654 568899999999 9999999884 3788 54
No 90
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=87.00 E-value=0.23 Score=47.47 Aligned_cols=46 Identities=26% Similarity=0.518 Sum_probs=33.6
Q ss_pred ccccccccccccc-eEEccCCCccccHhhHHHhhcCCCcccccccccccceE
Q 028047 159 GQLCVVCLTRRRI-SAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRSSM 209 (214)
Q Consensus 159 ~~~C~IC~~~~~~-~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~~~ 209 (214)
...|..|.....- .|..-|||.+| ..|... ....||.|+....+..
T Consensus 840 ~skCs~C~~~LdlP~VhF~CgHsyH-qhC~e~----~~~~CP~C~~e~~~~m 886 (933)
T KOG2114|consen 840 VSKCSACEGTLDLPFVHFLCGHSYH-QHCLED----KEDKCPKCLPELRGVM 886 (933)
T ss_pred eeeecccCCccccceeeeecccHHH-HHhhcc----CcccCCccchhhhhhH
Confidence 3589999876554 46678999997 899882 2347999998555443
No 91
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=86.83 E-value=0.2 Score=44.08 Aligned_cols=48 Identities=27% Similarity=0.640 Sum_probs=0.0
Q ss_pred cccccccccc-------------------ccceEEccCCCccccHhhHHHhhc---C-----CCcccccccccccc
Q 028047 159 GQLCVVCLTR-------------------RRISAFNPCGHLVCCRRCAISVER---E-----ASPKCPVCRMTVRS 207 (214)
Q Consensus 159 ~~~C~IC~~~-------------------~~~~~~lpCgH~~~C~~C~~~~~~---~-----~~~~CP~CR~~i~~ 207 (214)
...|++|+.. +-..+|-||||++. ...+.-|.. . -...||.|-.++..
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~S-ekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g 402 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCS-EKTAKYWSQIPLPHGTHAFHAACPFCATPLDG 402 (416)
T ss_dssp ----------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecccccccc-hhhhhhhhcCCCCCCcccccccCCcccCcccC
Confidence 6689999952 23457899999972 444444432 1 12469999998875
No 92
>PHA03096 p28-like protein; Provisional
Probab=86.37 E-value=0.38 Score=40.89 Aligned_cols=32 Identities=16% Similarity=0.299 Sum_probs=25.3
Q ss_pred ccccccccccc--------ceEEccCCCccccHhhHHHhhc
Q 028047 160 QLCVVCLTRRR--------ISAFNPCGHLVCCRRCAISVER 192 (214)
Q Consensus 160 ~~C~IC~~~~~--------~~~~lpCgH~~~C~~C~~~~~~ 192 (214)
..|-||++... ..++-.|.|.| |..|+..|..
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~f-c~~ci~~wr~ 218 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEF-NIFCIKIWMT 218 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHH-HHHHHHHHHH
Confidence 67999998643 24456799999 9999998864
No 93
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.17 E-value=0.51 Score=41.47 Aligned_cols=46 Identities=22% Similarity=0.469 Sum_probs=34.7
Q ss_pred cccccccccccc---ceEEccCCCccccHhhHHHhhcCCC--cccccccccc
Q 028047 159 GQLCVVCLTRRR---ISAFNPCGHLVCCRRCAISVEREAS--PKCPVCRMTV 205 (214)
Q Consensus 159 ~~~C~IC~~~~~---~~~~lpCgH~~~C~~C~~~~~~~~~--~~CP~CR~~i 205 (214)
--.|+|=.+.-. .|..+.|||+. |.+=+.++..... -+||.|-...
T Consensus 334 vF~CPVlKeqtsdeNPPm~L~CGHVI-SkdAlnrLS~ng~~sfKCPYCP~e~ 384 (394)
T KOG2817|consen 334 VFICPVLKEQTSDENPPMMLICGHVI-SKDALNRLSKNGSQSFKCPYCPVEQ 384 (394)
T ss_pred eeecccchhhccCCCCCeeeecccee-cHHHHHHHhhCCCeeeeCCCCCccc
Confidence 458999776543 47889999999 8998888876554 5699996443
No 94
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=84.93 E-value=0.27 Score=46.28 Aligned_cols=48 Identities=17% Similarity=0.523 Sum_probs=39.2
Q ss_pred ccccccccccccceEEccCCCccccHhhHHHhhc--CCCcccccccccccc
Q 028047 159 GQLCVVCLTRRRISAFNPCGHLVCCRRCAISVER--EASPKCPVCRMTVRS 207 (214)
Q Consensus 159 ~~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~--~~~~~CP~CR~~i~~ 207 (214)
...|.||.....+++.+.|.|.| |..|...... .....||+|+..+.+
T Consensus 21 ~lEc~ic~~~~~~p~~~kc~~~~-l~~~~n~~f~~~~~~~~~~lc~~~~eK 70 (684)
T KOG4362|consen 21 ILECPICLEHVKEPSLLKCDHIF-LKFCLNKLFESKKGPKQCALCKSDIEK 70 (684)
T ss_pred hccCCceeEEeeccchhhhhHHH-HhhhhhceeeccCccccchhhhhhhhh
Confidence 34799999999999999999999 8999876543 334679999977654
No 95
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=83.06 E-value=0.87 Score=39.00 Aligned_cols=48 Identities=25% Similarity=0.609 Sum_probs=31.6
Q ss_pred ccccccccccc-------------------ccceEEccCCCccccHhhHHHhhcCC---------Ccccccccccccc
Q 028047 158 DGQLCVVCLTR-------------------RRISAFNPCGHLVCCRRCAISVEREA---------SPKCPVCRMTVRS 207 (214)
Q Consensus 158 ~~~~C~IC~~~-------------------~~~~~~lpCgH~~~C~~C~~~~~~~~---------~~~CP~CR~~i~~ 207 (214)
.+..|++|+.. +-+-.|-||||++ .+=...+|.+. ...||.|-+....
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~--sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~g 415 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVC--SEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG 415 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCCccccc--chhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence 35689999863 2234678999995 45445555421 2359999877654
No 96
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=82.42 E-value=0.64 Score=33.17 Aligned_cols=28 Identities=18% Similarity=0.371 Sum_probs=22.6
Q ss_pred ccCCCccccHhhHHHhhcCCCccccccccc
Q 028047 175 NPCGHLVCCRRCAISVEREASPKCPVCRMT 204 (214)
Q Consensus 175 lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~ 204 (214)
-.|.|.|+ .-|+.+|.+. ...||+|.+.
T Consensus 79 G~CNHaFH-~hCisrWlkt-r~vCPLdn~e 106 (114)
T KOG2930|consen 79 GVCNHAFH-FHCISRWLKT-RNVCPLDNKE 106 (114)
T ss_pred eecchHHH-HHHHHHHHhh-cCcCCCcCcc
Confidence 46999997 8999999853 4579999765
No 97
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.23 E-value=0.58 Score=39.40 Aligned_cols=33 Identities=24% Similarity=0.558 Sum_probs=28.5
Q ss_pred ccccccccccccceEEccC----CCccccHhhHHHhhc
Q 028047 159 GQLCVVCLTRRRISAFNPC----GHLVCCRRCAISVER 192 (214)
Q Consensus 159 ~~~C~IC~~~~~~~~~lpC----gH~~~C~~C~~~~~~ 192 (214)
...|.+|.++..|.-|+.| .|.| |+.|...-.+
T Consensus 268 pLcCTLC~ERLEDTHFVQCPSVp~HKF-CFPCSResIK 304 (352)
T KOG3579|consen 268 PLCCTLCHERLEDTHFVQCPSVPSHKF-CFPCSRESIK 304 (352)
T ss_pred ceeehhhhhhhccCceeecCCCcccce-ecccCHHHHH
Confidence 3689999999999999999 5999 9999976543
No 98
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=82.22 E-value=0.76 Score=27.98 Aligned_cols=39 Identities=31% Similarity=0.734 Sum_probs=23.0
Q ss_pred cccccccccc--eEEccCCC-----ccccHhhHHHhhc-CCCcccccc
Q 028047 162 CVVCLTRRRI--SAFNPCGH-----LVCCRRCAISVER-EASPKCPVC 201 (214)
Q Consensus 162 C~IC~~~~~~--~~~lpCgH-----~~~C~~C~~~~~~-~~~~~CP~C 201 (214)
|-||++...+ +...||+- .+| ..|+.+|.. ..+..|++|
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH-~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVH-RSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEE-CCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCceecccccCCCcchhH-HHHHHHHHHhcCCCcCCCC
Confidence 6788876443 57789862 333 689999975 334569887
No 99
>PF08114 PMP1_2: ATPase proteolipid family; InterPro: IPR012589 This family consists of small proteolipids associated with the plasma membrane H+ ATPase. Two proteolipids (PMP1 and PMP2) are associated with the ATPase and both genes are similarly expressed in the wild-type strain of yeast. No modification of the level of transcription of one PMP gene is detected in a strain deleted of the other. Though both proteolipids show similarity with other small proteolipids associated with other cation -transporting ATPases, their functions remain unclear [].
Probab=81.68 E-value=2.4 Score=24.96 Aligned_cols=24 Identities=33% Similarity=0.664 Sum_probs=17.0
Q ss_pred hhhchhHHHHHHHHHHHHHHHHHH
Q 028047 102 IVLGSLSIGILGYAIVRNWNRWKD 125 (214)
Q Consensus 102 i~~~~~~~~~~~~~~~r~~~~~~~ 125 (214)
++.+.+++++++..++|.|..+|+
T Consensus 15 ~lVglv~i~iva~~iYRKw~aRkr 38 (43)
T PF08114_consen 15 CLVGLVGIGIVALFIYRKWQARKR 38 (43)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345666777777888888876554
No 100
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=81.46 E-value=0.39 Score=40.52 Aligned_cols=44 Identities=25% Similarity=0.546 Sum_probs=34.5
Q ss_pred cccccccc----ccceEEccCCCccccHhhHHHhhcCCCcccccccccccc
Q 028047 161 LCVVCLTR----RRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRS 207 (214)
Q Consensus 161 ~C~IC~~~----~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~ 207 (214)
.|+||.+. ...+..++|||.-+ ..|........ -.||+|.. +..
T Consensus 160 ncPic~e~l~~s~~~~~~~~CgH~~h-~~cf~e~~~~~-y~CP~C~~-~~d 207 (276)
T KOG1940|consen 160 NCPICKEYLFLSFEDAGVLKCGHYMH-SRCFEEMICEG-YTCPICSK-PGD 207 (276)
T ss_pred CCchhHHHhccccccCCccCcccchH-HHHHHHHhccC-CCCCcccc-hHH
Confidence 49999875 45677899999987 89998876554 68999988 443
No 101
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=81.32 E-value=0.96 Score=36.91 Aligned_cols=47 Identities=23% Similarity=0.427 Sum_probs=35.3
Q ss_pred cccccccccc--ccceEEccCCCccccHhhHHHhhc-------CCCccccccccccc
Q 028047 159 GQLCVVCLTR--RRISAFNPCGHLVCCRRCAISVER-------EASPKCPVCRMTVR 206 (214)
Q Consensus 159 ~~~C~IC~~~--~~~~~~lpCgH~~~C~~C~~~~~~-------~~~~~CP~CR~~i~ 206 (214)
...|..|-.. ..+++-+-|-|.|+ ..|...+.. ...-.||.|.+.|-
T Consensus 50 ~pNC~LC~t~La~gdt~RLvCyhlfH-W~ClneraA~lPanTAPaGyqCP~Cs~eiF 105 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDTTRLVCYHLFH-WKCLNERAANLPANTAPAGYQCPCCSQEIF 105 (299)
T ss_pred CCCCceeCCccccCcceeehhhhhHH-HHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence 3468888764 56788899999997 999988754 12346999988774
No 102
>KOG1101 consensus Apoptosis inhibitor IAP1 and related BIR domain proteins [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=77.41 E-value=0.24 Score=37.93 Aligned_cols=59 Identities=15% Similarity=0.354 Sum_probs=44.6
Q ss_pred ceeecCCCCCCeeeec-cCHHHHHHHhhhhhhhhhhhhhhhchhHHHHHHHHHHHHHH----HHHHHHHHHH
Q 028047 65 IPEIKSCKDLPYFLSE-KTKDLMVVDLVNRSKILFWSGIVLGSLSIGILGYAIVRNWN----RWKDRQQRMS 131 (214)
Q Consensus 65 ~~~l~~~~~~p~~ls~-~~~d~Li~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~r~~~----~~~~~~~~~~ 131 (214)
..||+++.+|||.... -..+ .|+.+ +|+|.+ .++.+.|+.|...+..|+ +|.+|+++.+
T Consensus 16 ~aRl~TF~~Wp~~~~~~c~p~----~lA~A--GFy~~g--~~D~~~Cf~C~~~L~~We~~DDPW~EH~k~~p 79 (147)
T KOG1101|consen 16 EARLKTFKNWPYSDMDKCTPE----QLAEA--GFYYTG--KQDCVKCFFCSGGLDDWEPGDDPWEEHAKWSP 79 (147)
T ss_pred HHHHhhhhcCCCCCCCCcCHH----HHHhC--CceeeC--CCCceECcccCcccccCCCCCCcHHHHHhhCC
Confidence 3578889999986532 2222 34444 888888 567888999999999998 5999999966
No 103
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=76.25 E-value=1.4 Score=42.16 Aligned_cols=54 Identities=17% Similarity=0.210 Sum_probs=33.5
Q ss_pred CCccccccccccccccc-------eEEccCCCccccHhhHHHhhc-----CCCcccccccccccceE
Q 028047 155 DIPDGQLCVVCLTRRRI-------SAFNPCGHLVCCRRCAISVER-----EASPKCPVCRMTVRSSM 209 (214)
Q Consensus 155 ~~~~~~~C~IC~~~~~~-------~~~lpCgH~~~C~~C~~~~~~-----~~~~~CP~CR~~i~~~~ 209 (214)
+..+...|.+|.....+ +..-.|+|.+ |..|+..|.. .....|+.|..-|...-
T Consensus 92 K~a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~-CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWs 157 (1134)
T KOG0825|consen 92 KTAESDTSPVCEKEHSPDVDSSNICPVQTHVENQ-CPNCLKSCNDQLEESEKHTAHYFCEECVGSWS 157 (1134)
T ss_pred ccccccccchhheecCCcccccCcCchhhhhhhh-hhHHHHHHHHHhhccccccccccHHHHhhhhh
Confidence 33344455555544443 2233499999 8999999865 23446888877665543
No 104
>PLN02189 cellulose synthase
Probab=75.87 E-value=1.7 Score=43.02 Aligned_cols=49 Identities=33% Similarity=0.729 Sum_probs=34.6
Q ss_pred ccccccccccccc----ceEEccCC---CccccHhhHHHhhcCCCcccccccccccc
Q 028047 158 DGQLCVVCLTRRR----ISAFNPCG---HLVCCRRCAISVEREASPKCPVCRMTVRS 207 (214)
Q Consensus 158 ~~~~C~IC~~~~~----~~~~lpCg---H~~~C~~C~~~~~~~~~~~CP~CR~~i~~ 207 (214)
....|.||-|... .-.|+.|. --. |+.|.+--.+..+..||.|++...+
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpv-Cr~Cyeyer~eg~q~CpqCkt~Y~r 88 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPV-CRPCYEYERREGTQNCPQCKTRYKR 88 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCcc-ccchhhhhhhcCCccCcccCCchhh
Confidence 3559999998732 23566665 334 9999965555667789999988763
No 105
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=75.53 E-value=0.71 Score=39.44 Aligned_cols=54 Identities=19% Similarity=0.197 Sum_probs=40.8
Q ss_pred cccccccccccccceEEccCCCccccHhhHHHhhcCCCcccccccccccceEEe
Q 028047 158 DGQLCVVCLTRRRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRSSMRI 211 (214)
Q Consensus 158 ~~~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~~~~i 211 (214)
..-.|++|+.+.......+|||.+.|..|+.....+....||+|-..+.....|
T Consensus 135 ~ti~~iqq~tnt~I~T~v~~~~~Vf~Vtg~~~nC~kra~s~eie~ta~~ra~~i 188 (394)
T KOG2113|consen 135 ATIKRIQQFTNTYIATPVRCGEPVFCVTGAPKNCVKRARSCEIEQTAVTRAGQI 188 (394)
T ss_pred CccchheecccceEeeeccCCCceEEEecCCcchhhhccccchhhhhhhhhhcc
Confidence 345899999999999999999988899997665333344699997666554443
No 106
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=75.24 E-value=2.1 Score=28.95 Aligned_cols=49 Identities=29% Similarity=0.742 Sum_probs=20.1
Q ss_pred cccccccccccccc----eEEcc---CCCccccHhhHHHhhcCCCcccccccccccc
Q 028047 158 DGQLCVVCLTRRRI----SAFNP---CGHLVCCRRCAISVEREASPKCPVCRMTVRS 207 (214)
Q Consensus 158 ~~~~C~IC~~~~~~----~~~lp---CgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~ 207 (214)
+...|.||-+...- -+|+- |+--+ |+.|..-=.+...+.||.|+++...
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPv-Cr~CyEYErkeg~q~CpqCkt~ykr 63 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPV-CRPCYEYERKEGNQVCPQCKTRYKR 63 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS------HHHHHHHHHTS-SB-TTT--B---
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCcc-chhHHHHHhhcCcccccccCCCccc
Confidence 45689999986432 23444 44444 8999875555556689999987654
No 107
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=73.19 E-value=1.7 Score=36.80 Aligned_cols=24 Identities=33% Similarity=0.829 Sum_probs=18.3
Q ss_pred cHhhHHHhhc------------CCCccccccccccc
Q 028047 183 CRRCAISVER------------EASPKCPVCRMTVR 206 (214)
Q Consensus 183 C~~C~~~~~~------------~~~~~CP~CR~~i~ 206 (214)
|.+|+.+|.. ..+..||.||+.+-
T Consensus 330 c~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fc 365 (381)
T KOG3899|consen 330 CRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFC 365 (381)
T ss_pred HHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceE
Confidence 7899888753 34568999999864
No 108
>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=73.01 E-value=4.2 Score=24.19 Aligned_cols=39 Identities=28% Similarity=0.537 Sum_probs=17.6
Q ss_pred cccccccccceEEc---cCCCccccHhhHHHhhcCCC-cccccc
Q 028047 162 CVVCLTRRRISAFN---PCGHLVCCRRCAISVEREAS-PKCPVC 201 (214)
Q Consensus 162 C~IC~~~~~~~~~l---pCgH~~~C~~C~~~~~~~~~-~~CP~C 201 (214)
|.+|.+-....+.= .|+=..+ ..|+..+++..+ ..||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H-~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLH-DDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE--HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHH-HHHHHHHHhcCCCCCCcCC
Confidence 44555444333332 2665565 789999886433 369987
No 109
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.01 E-value=1.6 Score=38.84 Aligned_cols=33 Identities=21% Similarity=0.597 Sum_probs=23.5
Q ss_pred ccccccccccccce----EEccCCCccccHhhHHHhhc
Q 028047 159 GQLCVVCLTRRRIS----AFNPCGHLVCCRRCAISVER 192 (214)
Q Consensus 159 ~~~C~IC~~~~~~~----~~lpCgH~~~C~~C~~~~~~ 192 (214)
...|.||+...... ....|+|.| |.+|..+...
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~f-C~~C~k~~ie 182 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRF-CKDCVKQHIE 182 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchh-hhHHhHHHhh
Confidence 45899999433221 246799999 9999987653
No 110
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=71.54 E-value=3 Score=40.18 Aligned_cols=50 Identities=26% Similarity=0.595 Sum_probs=37.0
Q ss_pred cccccccccccc--ccceEEccCCCc----cccHhhHHHhhcC-CCccccccccccc
Q 028047 157 PDGQLCVVCLTR--RRISAFNPCGHL----VCCRRCAISVERE-ASPKCPVCRMTVR 206 (214)
Q Consensus 157 ~~~~~C~IC~~~--~~~~~~lpCgH~----~~C~~C~~~~~~~-~~~~CP~CR~~i~ 206 (214)
+|+..|.||..+ +.++.+.||... +.-.+|...|... .+.+|-+|..+++
T Consensus 10 ~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~ 66 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK 66 (1175)
T ss_pred ccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence 456799999965 567999999743 1237899999763 3457999998864
No 111
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=69.61 E-value=0.87 Score=30.23 Aligned_cols=42 Identities=24% Similarity=0.593 Sum_probs=21.3
Q ss_pred cccccccccccceEEccCCCccccHhhHHHhhcCCCcccccccccccce
Q 028047 160 QLCVVCLTRRRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRSS 208 (214)
Q Consensus 160 ~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~~ 208 (214)
..|+.|.......- ||.. |..|...+... ..||-|.++.+.+
T Consensus 2 ~~CP~C~~~L~~~~----~~~~-C~~C~~~~~~~--a~CPdC~~~Le~L 43 (70)
T PF07191_consen 2 NTCPKCQQELEWQG----GHYH-CEACQKDYKKE--AFCPDCGQPLEVL 43 (70)
T ss_dssp -B-SSS-SBEEEET----TEEE-ETTT--EEEEE--EE-TTT-SB-EEE
T ss_pred CcCCCCCCccEEeC----CEEE-Cccccccceec--ccCCCcccHHHHH
Confidence 46888887633221 4444 89998877642 4699998887654
No 112
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=65.73 E-value=5.5 Score=33.15 Aligned_cols=47 Identities=21% Similarity=0.461 Sum_probs=32.8
Q ss_pred cccccccccc----cccceEEccCCCccccHhhHHHhhcCCCcccccccccccce
Q 028047 158 DGQLCVVCLT----RRRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRSS 208 (214)
Q Consensus 158 ~~~~C~IC~~----~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~~ 208 (214)
....|+|=-- ..+-.++.+|||+|. ..=...+. ...|++|.+.+...
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~S-erAlKeik---as~C~~C~a~y~~~ 160 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFS-ERALKEIK---ASVCHVCGAAYQED 160 (293)
T ss_pred ceeecccccceecceEEEEEEeccceecc-HHHHHHhh---hccccccCCccccc
Confidence 3458988654 355678899999994 44444444 45899999987653
No 113
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=64.57 E-value=5.6 Score=24.48 Aligned_cols=43 Identities=30% Similarity=0.544 Sum_probs=19.1
Q ss_pred cccccccccccceE-EccCCCccccHhhHHHhhc----CCCccccccccc
Q 028047 160 QLCVVCLTRRRISA-FNPCGHLVCCRRCAISVER----EASPKCPVCRMT 204 (214)
Q Consensus 160 ~~C~IC~~~~~~~~-~lpCgH~~~C~~C~~~~~~----~~~~~CP~CR~~ 204 (214)
..|++.......++ -..|.|.- |.+ +..+.. ...=.||+|.++
T Consensus 3 L~CPls~~~i~~P~Rg~~C~H~~-CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIPVRGKNCKHLQ-CFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSEEEETT--SS---EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeCccCCcCcccc-eEC-HHHHHHHhhccCCeECcCCcCc
Confidence 46888888887776 56899986 533 222221 222369999864
No 114
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=64.31 E-value=3.2 Score=31.18 Aligned_cols=29 Identities=24% Similarity=0.531 Sum_probs=18.6
Q ss_pred CCcccccccccccc-ccceEEccCCCccccHhhHHH
Q 028047 155 DIPDGQLCVVCLTR-RRISAFNPCGHLVCCRRCAIS 189 (214)
Q Consensus 155 ~~~~~~~C~IC~~~-~~~~~~lpCgH~~~C~~C~~~ 189 (214)
...++..|-||... +.| .|||.| ..|-.+
T Consensus 61 Gv~ddatC~IC~KTKFAD----G~GH~C--~YCq~r 90 (169)
T KOG3799|consen 61 GVGDDATCGICHKTKFAD----GCGHNC--SYCQTR 90 (169)
T ss_pred ccCcCcchhhhhhccccc----ccCccc--chhhhh
Confidence 34567899999843 333 589985 455444
No 115
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=63.57 E-value=2.2 Score=42.99 Aligned_cols=46 Identities=30% Similarity=0.689 Sum_probs=35.7
Q ss_pred ccccccccccccc-ceEEccCCCccccHhhHHHhhcCCCcccccccccc
Q 028047 158 DGQLCVVCLTRRR-ISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTV 205 (214)
Q Consensus 158 ~~~~C~IC~~~~~-~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i 205 (214)
....|.||++..+ ......|||.+ |..|...|... +..||+|...+
T Consensus 1152 ~~~~c~ic~dil~~~~~I~~cgh~~-c~~c~~~~l~~-~s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQGGIAGCGHEP-CCRCDELWLYA-SSRCPICKSIK 1198 (1394)
T ss_pred cccchHHHHHHHHhcCCeeeechhH-hhhHHHHHHHH-hccCcchhhhh
Confidence 3458999999887 45566899999 67999998753 45899997443
No 116
>smart00238 BIR Baculoviral inhibition of apoptosis protein repeat. Domain found in inhibitor of apoptosis proteins (IAPs) and other proteins. Acts as a direct inhibitor of caspase enzymes.
Probab=63.38 E-value=0.19 Score=33.16 Aligned_cols=55 Identities=16% Similarity=0.432 Sum_probs=37.1
Q ss_pred eeecCCCCCCeeeeccCHHHHHHHhhhhhhhhhhhhhhhchhHHHHHHHHHHHHHH----HHHHHHHH
Q 028047 66 PEIKSCKDLPYFLSEKTKDLMVVDLVNRSKILFWSGIVLGSLSIGILGYAIVRNWN----RWKDRQQR 129 (214)
Q Consensus 66 ~~l~~~~~~p~~ls~~~~d~Li~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~r~~~----~~~~~~~~ 129 (214)
.|++++.+||+... . .+.+|+.+ +|+|.+. ++...|+.+...+..|. .+++|.+.
T Consensus 4 ~R~~sF~~w~~~~~-~----~~~~LA~~--Gfyy~~~--~d~v~C~~C~~~l~~w~~~d~p~~~H~~~ 62 (71)
T smart00238 4 ARLKTFQNWPYNSK-L----TPEQLAEA--GFYYTGV--GDEVKCFFCGGELDNWEPGDDPWEEHKKW 62 (71)
T ss_pred HHHHHHHcCCCCcc-C----CHHHHHHc--CCeECCC--CCEEEeCCCCCCcCCCCCCCCHHHHHhHh
Confidence 46778888886222 1 24556666 8888873 66677777777787886 47777665
No 117
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=61.53 E-value=4 Score=39.49 Aligned_cols=47 Identities=23% Similarity=0.561 Sum_probs=33.2
Q ss_pred ccccccccccccceE-Ec---cCCCccccHhhHHHhhcCC------Cccccccccccc
Q 028047 159 GQLCVVCLTRRRISA-FN---PCGHLVCCRRCAISVEREA------SPKCPVCRMTVR 206 (214)
Q Consensus 159 ~~~C~IC~~~~~~~~-~l---pCgH~~~C~~C~~~~~~~~------~~~CP~CR~~i~ 206 (214)
...|.||++...... ++ .|-|+|+ ..|+..|.+.. .=+||.|...-.
T Consensus 191 ~yeCmIC~e~I~~t~~~WSC~sCYhVFH-l~CI~~WArs~ek~~~~~WrCP~Cqsv~~ 247 (950)
T KOG1952|consen 191 KYECMICTERIKRTAPVWSCKSCYHVFH-LNCIKKWARSSEKTGQDGWRCPACQSVSK 247 (950)
T ss_pred ceEEEEeeeeccccCCceecchhhhhhh-HHHHHHHHHHhhhccCccccCCcccchhc
Confidence 458999999865432 23 4669997 89999997632 225999985443
No 118
>PF07948 Nairovirus_M: Nairovirus M polyprotein-like; InterPro: IPR012487 The sequences in this family are similar to the Dugbe virus (Dugbe nairovirus) M polyprotein precursor (Q02004 from SWISSPROT), which includes glycoproteins G1 and G2. Both are thought to be inserted in the membrane of the Golgi complex of the infected host cell, and G1 is known to have a role in infection of vertebrate hosts []. ; PDB: 2L7X_A.
Probab=57.07 E-value=1.1 Score=40.93 Aligned_cols=41 Identities=29% Similarity=0.634 Sum_probs=17.2
Q ss_pred ccccccccccccceE-----EccCCCccccHhhHHHhhcC----CCccccc
Q 028047 159 GQLCVVCLTRRRISA-----FNPCGHLVCCRRCAISVERE----ASPKCPV 200 (214)
Q Consensus 159 ~~~C~IC~~~~~~~~-----~lpCgH~~~C~~C~~~~~~~----~~~~CP~ 200 (214)
...|.+|-....+.. -++|.-+. |..|+.++... ...+||.
T Consensus 494 ~~~C~kCEq~~vN~~DqElHdLNCsyNi-CPYCanRLs~eGL~RHV~~CPK 543 (645)
T PF07948_consen 494 GQTCIKCEQKPVNAIDQELHDLNCSYNI-CPYCANRLSDEGLVRHVPQCPK 543 (645)
T ss_dssp ----TTT----SSHHHHHHHHHHHTTT---TTT-----TTTHHHHHTT-SH
T ss_pred CceeeeecccccchhhHHHHhcCCCccc-ChhhhhccCccchhhhcccCCc
Confidence 447999988766543 47899988 89999998753 2346774
No 119
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=56.81 E-value=6.7 Score=34.87 Aligned_cols=32 Identities=25% Similarity=0.535 Sum_probs=24.9
Q ss_pred eEEccCCCccccHhhHHHhhcC-CCccccccccc
Q 028047 172 SAFNPCGHLVCCRRCAISVERE-ASPKCPVCRMT 204 (214)
Q Consensus 172 ~~~lpCgH~~~C~~C~~~~~~~-~~~~CP~CR~~ 204 (214)
.+.+.|||.| -.+|+++|..+ ....||.|...
T Consensus 22 ~vsl~cghlF-gs~cie~wl~k~~~~~cp~c~~k 54 (463)
T KOG1645|consen 22 IVSLQCGHLF-GSQCIEKWLGKKTKMQCPLCSGK 54 (463)
T ss_pred Eeeecccccc-cHHHHHHHHhhhhhhhCcccCCh
Confidence 5678899999 59999999842 23469999754
No 120
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=55.55 E-value=6.1 Score=32.99 Aligned_cols=53 Identities=19% Similarity=0.426 Sum_probs=35.5
Q ss_pred CCCccccccccccccccce----EEccCC-----CccccHhhHHHhhcCC-------Ccccccccccccc
Q 028047 154 GDIPDGQLCVVCLTRRRIS----AFNPCG-----HLVCCRRCAISVEREA-------SPKCPVCRMTVRS 207 (214)
Q Consensus 154 ~~~~~~~~C~IC~~~~~~~----~~lpCg-----H~~~C~~C~~~~~~~~-------~~~CP~CR~~i~~ 207 (214)
++.+.+..|-||+....|- -.-||. |-+| .+|+.+|-.+. .-.||.|++....
T Consensus 15 ~~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVH-qsCL~rWiDEK~~~n~~q~V~C~QCqTEYii 83 (293)
T KOG3053|consen 15 DNQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVH-QSCLSRWIDEKQRGNPLQTVSCPQCQTEYII 83 (293)
T ss_pred CccccceeEEEEeccCcccchhhhcccccccCccHHHH-HHHHHHHHhHHhcCCCCceeechhhcchhee
Confidence 3455678999999765543 345885 4554 79999986521 1249999876543
No 121
>PLN02436 cellulose synthase A
Probab=55.02 E-value=8.4 Score=38.48 Aligned_cols=49 Identities=31% Similarity=0.737 Sum_probs=34.3
Q ss_pred cccccccccccccc----eEEccCC---CccccHhhHHHhhcCCCcccccccccccc
Q 028047 158 DGQLCVVCLTRRRI----SAFNPCG---HLVCCRRCAISVEREASPKCPVCRMTVRS 207 (214)
Q Consensus 158 ~~~~C~IC~~~~~~----~~~lpCg---H~~~C~~C~~~~~~~~~~~CP~CR~~i~~ 207 (214)
....|.||-|.-.. =.|+-|. --. |+.|.+--.+..+..||.|++...+
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpv-Cr~Cyeyer~eg~~~Cpqckt~Y~r 90 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPV-CRPCYEYERREGNQACPQCKTRYKR 90 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCcc-ccchhhhhhhcCCccCcccCCchhh
Confidence 45599999987422 2455555 335 9999965555666789999988763
No 122
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=53.41 E-value=6.5 Score=35.56 Aligned_cols=33 Identities=21% Similarity=0.372 Sum_probs=28.0
Q ss_pred ccccccccccccc-eEEccCCCccccHhhHHHhhc
Q 028047 159 GQLCVVCLTRRRI-SAFNPCGHLVCCRRCAISVER 192 (214)
Q Consensus 159 ~~~C~IC~~~~~~-~~~lpCgH~~~C~~C~~~~~~ 192 (214)
...|-||.+.... ++.++|||.| |..|......
T Consensus 70 ~~~c~ic~~~~~~~~~~~~c~H~~-c~~cw~~yl~ 103 (444)
T KOG1815|consen 70 DVQCGICVESYDGEIIGLGCGHPF-CPPCWTGYLG 103 (444)
T ss_pred cccCCcccCCCcchhhhcCCCcHH-HHHHHHHHhh
Confidence 4589999998885 8889999999 8999988653
No 123
>COG3768 Predicted membrane protein [Function unknown]
Probab=52.31 E-value=42 Score=29.00 Aligned_cols=40 Identities=25% Similarity=0.321 Sum_probs=30.4
Q ss_pred HHHHHHHhhhhhhhhhhhhhhhchhHHHHHHHHHHHHHHH
Q 028047 83 KDLMVVDLVNRSKILFWSGIVLGSLSIGILGYAIVRNWNR 122 (214)
Q Consensus 83 ~d~Li~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~r~~~~ 122 (214)
.++|+.++=....|+.|.+...+.+.+......+.|.|++
T Consensus 83 ~~qwi~d~~qr~dWl~~~a~~v~~l~vlagv~~v~rEw~r 122 (350)
T COG3768 83 SVQWIRDLFQRADWLGLGAAAVGALIVLAGVGSVVREWRR 122 (350)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5888988888888888888776666655555667788875
No 124
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=51.66 E-value=3.7 Score=24.24 Aligned_cols=25 Identities=28% Similarity=0.606 Sum_probs=13.6
Q ss_pred cCCCccccHhhHHHhhcCCCcccccccc
Q 028047 176 PCGHLVCCRRCAISVEREASPKCPVCRM 203 (214)
Q Consensus 176 pCgH~~~C~~C~~~~~~~~~~~CP~CR~ 203 (214)
.|||.|- . ...+.......||.|..
T Consensus 10 ~Cg~~fe-~--~~~~~~~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFE-V--LQSISEDDPVPCPECGS 34 (42)
T ss_pred CCCCEEE-E--EEEcCCCCCCcCCCCCC
Confidence 6777762 1 11222223456999988
No 125
>cd00022 BIR Baculoviral inhibition of apoptosis protein repeat domain; Found in inhibitors of apoptosis proteins (IAPs) and other proteins. In higher eukaryotes, BIR domains inhibit apoptosis by acting as direct inhibitors of the caspase family of protease enzymes. In yeast, BIR domains are involved in regulating cytokinesis. This novel fold is stabilized by zinc tetrahedrally coordinated by one histidine and three cysteine residues and resembles a classical zinc finger.
Probab=49.28 E-value=0.56 Score=30.68 Aligned_cols=55 Identities=18% Similarity=0.425 Sum_probs=35.3
Q ss_pred eeecCCCCCCeeeeccCHHHHHHHhhhhhhhhhhhhhhhchhHHHHHHHHHHHHHH----HHHHHHHH
Q 028047 66 PEIKSCKDLPYFLSEKTKDLMVVDLVNRSKILFWSGIVLGSLSIGILGYAIVRNWN----RWKDRQQR 129 (214)
Q Consensus 66 ~~l~~~~~~p~~ls~~~~d~Li~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~r~~~----~~~~~~~~ 129 (214)
.|++++.+||+-+. ..+.+|+.+ +|+|.+. .+...|+.+...+..|. .+.+|.+.
T Consensus 2 ~R~~TF~~w~~~~~-----~~~~~La~~--Gfyy~~~--~d~v~C~~C~~~~~~w~~~d~p~~~H~~~ 60 (69)
T cd00022 2 ARLKTFKNWPISLK-----VTPEKLAEA--GFYYTGR--GDEVKCFFCGLELKNWEPGDDPWEEHKRW 60 (69)
T ss_pred hHHHHHHcCCCCcc-----CCHHHHHHc--CCeEcCC--CCEEEeCCCCCCccCCCCCCCHHHHHhHh
Confidence 36778878875311 124556666 8888763 45566777777777786 46777665
No 126
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=47.82 E-value=19 Score=36.18 Aligned_cols=49 Identities=27% Similarity=0.699 Sum_probs=32.9
Q ss_pred cccccccccccccc----eEEccCC---CccccHhhHHHhhcCCCcccccccccccc
Q 028047 158 DGQLCVVCLTRRRI----SAFNPCG---HLVCCRRCAISVEREASPKCPVCRMTVRS 207 (214)
Q Consensus 158 ~~~~C~IC~~~~~~----~~~lpCg---H~~~C~~C~~~~~~~~~~~CP~CR~~i~~ 207 (214)
....|.||-|...- -.|+-|. --+ |+.|.+==.+..+..||.|++...+
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPV-CrpCYEYEr~eG~q~CPqCktrYkr 71 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPV-CRPCYEYERKDGNQSCPQCKTKYKR 71 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCcc-ccchhhhhhhcCCccCCccCCchhh
Confidence 45699999987322 1345554 335 8999954444556789999988763
No 127
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=47.76 E-value=3 Score=35.34 Aligned_cols=46 Identities=26% Similarity=0.587 Sum_probs=35.2
Q ss_pred ccccccccccccc------ceEEcc--------CCCccccHhhHHHhhcCCCccccccccc
Q 028047 158 DGQLCVVCLTRRR------ISAFNP--------CGHLVCCRRCAISVEREASPKCPVCRMT 204 (214)
Q Consensus 158 ~~~~C~IC~~~~~------~~~~lp--------CgH~~~C~~C~~~~~~~~~~~CP~CR~~ 204 (214)
....|.||..... .+.++. |||.. |..|+.....+....||.||..
T Consensus 206 ~~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htl-c~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 206 IEKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTL-CKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHH-HhcchHHHHHHhhhcCCcccce
Confidence 3468999987655 245566 99999 8999998876545679999864
No 128
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=47.50 E-value=9.3 Score=37.24 Aligned_cols=35 Identities=29% Similarity=0.450 Sum_probs=25.0
Q ss_pred Cccccccccccccccc--eEEccCCCccccHhhHHHhh
Q 028047 156 IPDGQLCVVCLTRRRI--SAFNPCGHLVCCRRCAISVE 191 (214)
Q Consensus 156 ~~~~~~C~IC~~~~~~--~~~lpCgH~~~C~~C~~~~~ 191 (214)
++....|-+|.-..-. -...||||.|+ ++|+.+..
T Consensus 814 ~ep~d~C~~C~~~ll~~pF~vf~CgH~FH-~~Cl~~~v 850 (911)
T KOG2034|consen 814 LEPQDSCDHCGRPLLIKPFYVFPCGHCFH-RDCLIRHV 850 (911)
T ss_pred ecCccchHHhcchhhcCcceeeeccchHH-HHHHHHHH
Confidence 3445689999876433 23459999997 99998754
No 129
>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=47.47 E-value=7 Score=20.66 Aligned_cols=22 Identities=27% Similarity=0.780 Sum_probs=11.1
Q ss_pred cHhhHHHhhcCCCcccccccccc
Q 028047 183 CRRCAISVEREASPKCPVCRMTV 205 (214)
Q Consensus 183 C~~C~~~~~~~~~~~CP~CR~~i 205 (214)
|.+|...+.. ....||.|.-.+
T Consensus 3 CP~C~~~V~~-~~~~Cp~CG~~F 24 (26)
T PF10571_consen 3 CPECGAEVPE-SAKFCPHCGYDF 24 (26)
T ss_pred CCCCcCCchh-hcCcCCCCCCCC
Confidence 4455544432 234677775444
No 130
>PLN02400 cellulose synthase
Probab=46.79 E-value=12 Score=37.39 Aligned_cols=49 Identities=29% Similarity=0.757 Sum_probs=32.6
Q ss_pred cccccccccccccce----EEccC---CCccccHhhHHHhhcCCCcccccccccccc
Q 028047 158 DGQLCVVCLTRRRIS----AFNPC---GHLVCCRRCAISVEREASPKCPVCRMTVRS 207 (214)
Q Consensus 158 ~~~~C~IC~~~~~~~----~~lpC---gH~~~C~~C~~~~~~~~~~~CP~CR~~i~~ 207 (214)
....|.||-|.-.-. .|+-| +--+ |+.|.+==.+..+..||.|++...+
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPV-CRpCYEYERkeGnq~CPQCkTrYkR 90 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPV-CRPCYEYERKDGTQCCPQCKTRYRR 90 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCcc-ccchhheecccCCccCcccCCcccc
Confidence 456999999873321 34444 4445 8999854334556679999988764
No 131
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=46.41 E-value=6.8 Score=24.32 Aligned_cols=12 Identities=25% Similarity=0.753 Sum_probs=5.7
Q ss_pred cccccccccccc
Q 028047 196 PKCPVCRMTVRS 207 (214)
Q Consensus 196 ~~CP~CR~~i~~ 207 (214)
..||+|.++++.
T Consensus 21 ~~CPlC~r~l~~ 32 (54)
T PF04423_consen 21 GCCPLCGRPLDE 32 (54)
T ss_dssp EE-TTT--EE-H
T ss_pred CcCCCCCCCCCH
Confidence 379999887753
No 132
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=45.48 E-value=13 Score=32.09 Aligned_cols=46 Identities=28% Similarity=0.716 Sum_probs=32.8
Q ss_pred cccccccccc--cceEE--ccCCCccccHhhHHHhhcCCCcccccccccccc
Q 028047 160 QLCVVCLTRR--RISAF--NPCGHLVCCRRCAISVEREASPKCPVCRMTVRS 207 (214)
Q Consensus 160 ~~C~IC~~~~--~~~~~--lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~ 207 (214)
..|++|.+.. .+..+ .||||.. |..|...... ....||.||.+...
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~-~l~~~~t~~~-~~~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRL-CLFCHKTISD-GDGRCPGCRKPYER 299 (327)
T ss_pred CCCCCCCCcccccccccccccccccc-hhhhhhcccc-cCCCCCccCCcccc
Confidence 6899999854 23334 4578885 8889887753 35689999977654
No 133
>PF11669 WBP-1: WW domain-binding protein 1; InterPro: IPR021684 This family of proteins represents WBP-1, a ligand of the WW domain of Yes-associated protein. This protein has a proline-rich domain. WBP-1 does not bind to the SH3 domain [].
Probab=45.48 E-value=26 Score=24.96 Aligned_cols=24 Identities=29% Similarity=0.342 Sum_probs=11.7
Q ss_pred hhhhhhhhhchhHHHHHHHHHHHHHHH
Q 028047 96 ILFWSGIVLGSLSIGILGYAIVRNWNR 122 (214)
Q Consensus 96 ~~~~~~i~~~~~~~~~~~~~~~r~~~~ 122 (214)
||||+.+++.++ +.+..+.+.|++
T Consensus 22 w~FWlv~~liil---l~c~c~~~~~r~ 45 (102)
T PF11669_consen 22 WYFWLVWVLIIL---LSCCCACRHRRR 45 (102)
T ss_pred HHHHHHHHHHHH---HHHHHHHHHHHH
Confidence 677775333222 233445555554
No 134
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=45.45 E-value=12 Score=29.48 Aligned_cols=49 Identities=18% Similarity=0.346 Sum_probs=33.8
Q ss_pred ccccccccccccc-------eEEccCCCccccHhhHHHhhcC-----C-----Ccccccccccccce
Q 028047 159 GQLCVVCLTRRRI-------SAFNPCGHLVCCRRCAISVERE-----A-----SPKCPVCRMTVRSS 208 (214)
Q Consensus 159 ~~~C~IC~~~~~~-------~~~lpCgH~~~C~~C~~~~~~~-----~-----~~~CP~CR~~i~~~ 208 (214)
-..|-||+...-+ +-...||.-|+ .-|+..|.+. . -..||.|..+|.-.
T Consensus 165 ~~~cgicyayqldGTipDqtCdN~qCgkpFH-qiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 165 LGACGICYAYQLDGTIPDQTCDNIQCGKPFH-QICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred hhcccceeeeecCCccccccccccccCCcHH-HHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 3467788754333 33468999996 8999999761 1 23699999988643
No 135
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=45.03 E-value=8.5 Score=32.67 Aligned_cols=51 Identities=25% Similarity=0.453 Sum_probs=23.8
Q ss_pred ccccccccccccceEEccC---C--CccccHhhHHHhhcCCCcccccccccccceEEe
Q 028047 159 GQLCVVCLTRRRISAFNPC---G--HLVCCRRCAISVEREASPKCPVCRMTVRSSMRI 211 (214)
Q Consensus 159 ~~~C~IC~~~~~~~~~lpC---g--H~~~C~~C~~~~~~~~~~~CP~CR~~i~~~~~i 211 (214)
...|+||-..+.-.++..= | |.. |.-|...|.-. ...||.|-..-...+..
T Consensus 172 ~g~CPvCGs~P~~s~l~~~~~~G~R~L~-Cs~C~t~W~~~-R~~Cp~Cg~~~~~~l~~ 227 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSVLRGGEREGKRYLH-CSLCGTEWRFV-RIKCPYCGNTDHEKLEY 227 (290)
T ss_dssp -SS-TTT---EEEEEEE------EEEEE-ETTT--EEE---TTS-TTT---SS-EEE-
T ss_pred CCcCCCCCCcCceEEEecCCCCccEEEE-cCCCCCeeeec-CCCCcCCCCCCCcceee
Confidence 4699999998877766554 4 344 89999988643 34799998765544443
No 136
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=44.35 E-value=15 Score=31.63 Aligned_cols=43 Identities=21% Similarity=0.448 Sum_probs=29.0
Q ss_pred ccccccccccc---cceEEccCCCccccHhhHHHhhcCCC--ccccccc
Q 028047 159 GQLCVVCLTRR---RISAFNPCGHLVCCRRCAISVEREAS--PKCPVCR 202 (214)
Q Consensus 159 ~~~C~IC~~~~---~~~~~lpCgH~~~C~~C~~~~~~~~~--~~CP~CR 202 (214)
--.|++=.+.. -.|+.+.|||+.. ..=+..+.+.+. -+||.|-
T Consensus 336 ~FiCPVlKe~~t~ENpP~ml~CgHVIs-keal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 336 LFICPVLKELCTDENPPVMLECGHVIS-KEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred eeeccccHhhhcccCCCeeeeccceee-HHHHHHHhhcCcEEeeCCCCC
Confidence 34788855432 3478889999994 677777665332 2599995
No 137
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=42.83 E-value=14 Score=24.68 Aligned_cols=23 Identities=26% Similarity=0.538 Sum_probs=17.1
Q ss_pred CccccHhhHHHhhcCCCcccccccccc
Q 028047 179 HLVCCRRCAISVEREASPKCPVCRMTV 205 (214)
Q Consensus 179 H~~~C~~C~~~~~~~~~~~CP~CR~~i 205 (214)
|.| |..|+.... ...||-|...+
T Consensus 29 cTF-CadCae~~l---~g~CPnCGGel 51 (84)
T COG3813 29 CTF-CADCAENRL---HGLCPNCGGEL 51 (84)
T ss_pred eeh-hHhHHHHhh---cCcCCCCCchh
Confidence 567 899998765 34899997544
No 138
>TIGR03141 cytochro_ccmD heme exporter protein CcmD. The model for this protein family describes a small, hydrophobic, and only moderately well-conserved protein, tricky to identify accurately for all of these reasons. However, members are found as part of large operons involved in heme export across the inner membrane for assembly of c-type cytochromes in a large number of bacteria. The gray zone between the trusted cutoff (13.0) and noise cutoff (4.75) includes both low-scoring examples and false-positive matches to hydrophobic domains of longer proteins.
Probab=42.64 E-value=73 Score=18.94 Aligned_cols=14 Identities=14% Similarity=0.437 Sum_probs=6.4
Q ss_pred hhhhhhhhhchhHH
Q 028047 96 ILFWSGIVLGSLSI 109 (214)
Q Consensus 96 ~~~~~~i~~~~~~~ 109 (214)
++-|++..++.+.+
T Consensus 6 ~yVW~sYg~t~l~l 19 (45)
T TIGR03141 6 FYVWLAYGITALVL 19 (45)
T ss_pred HHHHHHHHHHHHHH
Confidence 34456644444333
No 139
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=42.56 E-value=24 Score=35.26 Aligned_cols=49 Identities=29% Similarity=0.672 Sum_probs=32.9
Q ss_pred cccccccccccccce----EEccC---CCccccHhhHHHhhcCCCcccccccccccc
Q 028047 158 DGQLCVVCLTRRRIS----AFNPC---GHLVCCRRCAISVEREASPKCPVCRMTVRS 207 (214)
Q Consensus 158 ~~~~C~IC~~~~~~~----~~lpC---gH~~~C~~C~~~~~~~~~~~CP~CR~~i~~ 207 (214)
....|.||-|...-. .|+-| +--. |+.|.+==.+..+..||.|++....
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpv-Cr~cyeye~~~g~~~cp~c~t~y~~ 69 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPV-CKPCYEYERSEGNQCCPQCNTRYKR 69 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCcc-ccchhhhhhhcCCccCCccCCchhh
Confidence 466899999873321 34444 4445 8999954444556679999988763
No 140
>PF12669 P12: Virus attachment protein p12 family
Probab=41.88 E-value=28 Score=22.13 Aligned_cols=20 Identities=10% Similarity=0.333 Sum_probs=9.5
Q ss_pred hhchhHHHHHHHHH-HHHHHH
Q 028047 103 VLGSLSIGILGYAI-VRNWNR 122 (214)
Q Consensus 103 ~~~~~~~~~~~~~~-~r~~~~ 122 (214)
+++.+.++++.|.+ ++.|++
T Consensus 3 II~~Ii~~~~~~v~~r~~~k~ 23 (58)
T PF12669_consen 3 IIGIIILAAVAYVAIRKFIKD 23 (58)
T ss_pred eHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444543 555554
No 141
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=41.87 E-value=19 Score=30.05 Aligned_cols=33 Identities=21% Similarity=0.253 Sum_probs=28.9
Q ss_pred ccccccccccccccceEEccCCCccccHhhHHHh
Q 028047 157 PDGQLCVVCLTRRRISAFNPCGHLVCCRRCAISV 190 (214)
Q Consensus 157 ~~~~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~ 190 (214)
.+-.-|..|+...++++..|=||+| |++|+...
T Consensus 41 K~FdcCsLtLqPc~dPvit~~Gylf-drEaILe~ 73 (303)
T KOG3039|consen 41 KPFDCCSLTLQPCRDPVITPDGYLF-DREAILEY 73 (303)
T ss_pred CCcceeeeecccccCCccCCCCeee-eHHHHHHH
Confidence 3455899999999999999999999 89998764
No 142
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=41.24 E-value=5.6 Score=29.06 Aligned_cols=46 Identities=26% Similarity=0.577 Sum_probs=28.4
Q ss_pred cccccccccccc-----cceEEccCCCccccHhhHHHhhcCCCccccccccc
Q 028047 158 DGQLCVVCLTRR-----RISAFNPCGHLVCCRRCAISVEREASPKCPVCRMT 204 (214)
Q Consensus 158 ~~~~C~IC~~~~-----~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~ 204 (214)
....|.+|...+ ....-..|+|.+ |..|.........-.|-+|...
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~V-C~~C~~~~~~~~~WlC~vC~k~ 103 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRV-CKKCGVYSKKEPIWLCKVCQKQ 103 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEE-ETTSEEETSSSCCEEEHHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccc-cCccCCcCCCCCCEEChhhHHH
Confidence 355899998754 235567899998 8998665322222258888653
No 143
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=40.25 E-value=13 Score=26.06 Aligned_cols=38 Identities=24% Similarity=0.618 Sum_probs=26.9
Q ss_pred ccccccccccccceEEccCCCccccHhhHHHhhcCCCcccccccccccc
Q 028047 159 GQLCVVCLTRRRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVRS 207 (214)
Q Consensus 159 ~~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~~ 207 (214)
...|.||....-.. ||.+ |..|+-.- ..|.+|-..|..
T Consensus 44 ~~~C~~CK~~v~q~-----g~~Y-Cq~CAYkk-----GiCamCGKki~d 81 (90)
T PF10235_consen 44 SSKCKICKTKVHQP-----GAKY-CQTCAYKK-----GICAMCGKKILD 81 (90)
T ss_pred CccccccccccccC-----CCcc-Chhhhccc-----CcccccCCeecc
Confidence 45899998653322 6677 89997653 379999988743
No 144
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=40.09 E-value=8.6 Score=23.81 Aligned_cols=39 Identities=23% Similarity=0.453 Sum_probs=21.0
Q ss_pred cccccccccccceEEccCCCccccHhhHHHhhcC-CCccccccccccc
Q 028047 160 QLCVVCLTRRRISAFNPCGHLVCCRRCAISVERE-ASPKCPVCRMTVR 206 (214)
Q Consensus 160 ~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~-~~~~CP~CR~~i~ 206 (214)
..|+.|........+ +.-|....... ..-.||+|...+.
T Consensus 3 f~CP~C~~~~~~~~L--------~~H~~~~H~~~~~~v~CPiC~~~~~ 42 (54)
T PF05605_consen 3 FTCPYCGKGFSESSL--------VEHCEDEHRSESKNVVCPICSSRVT 42 (54)
T ss_pred cCCCCCCCccCHHHH--------HHHHHhHCcCCCCCccCCCchhhhh
Confidence 468888773222211 34444544432 2346999987544
No 145
>PF09577 Spore_YpjB: Sporulation protein YpjB (SpoYpjB); InterPro: IPR014231 Proteins in thie entry, typified by YpjB, are restricted to a subset of the endospore-forming bacteria which includes Bacillus species, but not species. In Bacillus subtilis, ypjB was found to be part of the sigma-E regulon []. Sigma-E is a sporulation sigma factor that regulates expression in the mother cell compartment. Null mutants of ypjB show a sporulation defect, but this gene is not, however, a part of the endospore formation minimal gene set.
Probab=39.87 E-value=36 Score=28.09 Aligned_cols=31 Identities=26% Similarity=0.499 Sum_probs=23.1
Q ss_pred hhhhhhhhhchhHHHHHHHHHHHHHHHHHHH
Q 028047 96 ILFWSGIVLGSLSIGILGYAIVRNWNRWKDR 126 (214)
Q Consensus 96 ~~~~~~i~~~~~~~~~~~~~~~r~~~~~~~~ 126 (214)
.+.|..+.+|.+.+..+.|+++|.|+--++.
T Consensus 198 sl~Wv~l~iG~iIi~tLtYvGwRKYrgek~~ 228 (232)
T PF09577_consen 198 SLIWVMLSIGGIIIATLTYVGWRKYRGEKEK 228 (232)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3457766788888888999999988764443
No 146
>PF11044 TMEMspv1-c74-12: Plectrovirus spv1-c74 ORF 12 transmembrane protein; InterPro: IPR022743 This is a group of proteins expressed by Plectroviruses. The Plectroviruses are single-stranded DNA viruses belonging to the Inoviridae. This entry represents putative transmembrane proteins of unknown function.
Probab=38.65 E-value=70 Score=19.21 Aligned_cols=29 Identities=14% Similarity=0.430 Sum_probs=15.5
Q ss_pred hhhhhhchh-HHHHHHHHHHHHHHHHHHHH
Q 028047 99 WSGIVLGSL-SIGILGYAIVRNWNRWKDRQ 127 (214)
Q Consensus 99 ~~~i~~~~~-~~~~~~~~~~r~~~~~~~~~ 127 (214)
|++.+|+++ .++++.+..+..++..++-+
T Consensus 4 wlt~iFsvvIil~If~~iGl~IyQkikqIr 33 (49)
T PF11044_consen 4 WLTTIFSVVIILGIFAWIGLSIYQKIKQIR 33 (49)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555554 44555566666666544433
No 147
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.45 E-value=14 Score=27.51 Aligned_cols=22 Identities=27% Similarity=1.004 Sum_probs=16.3
Q ss_pred cHhhHHHhhcCCCcccccccccccce
Q 028047 183 CRRCAISVEREASPKCPVCRMTVRSS 208 (214)
Q Consensus 183 C~~C~~~~~~~~~~~CP~CR~~i~~~ 208 (214)
|..|-..-- ..||+|..+|..-
T Consensus 31 cskcgeati----~qcp~csasirgd 52 (160)
T COG4306 31 CSKCGEATI----TQCPICSASIRGD 52 (160)
T ss_pred HhhhchHHH----hcCCccCCccccc
Confidence 778876544 2699999998763
No 148
>PF09835 DUF2062: Uncharacterized protein conserved in bacteria (DUF2062); InterPro: IPR018639 This domain, found in various prokaryotic proteins, has no known function. It is found at the C-terminal of family 2 glycosyltransferase proteins, in addition to proteins of unknown function.
Probab=38.06 E-value=99 Score=23.29 Aligned_cols=46 Identities=11% Similarity=0.087 Sum_probs=21.1
Q ss_pred CHHHHHHHhhhhhhhhhhhhhhhchhHHHHHHHHHHHHHHHHHHHH
Q 028047 82 TKDLMVVDLVNRSKILFWSGIVLGSLSIGILGYAIVRNWNRWKDRQ 127 (214)
Q Consensus 82 ~~d~Li~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~r~~~~~~~~~ 127 (214)
..+++...+.....-+...++++|.+......+..+..|+++++++
T Consensus 105 ~~~~~~~~~~~~~~~~~~G~~i~~~v~~~i~Y~l~~~~~~~~r~~r 150 (154)
T PF09835_consen 105 HWSDLLESLWEFGLPFLLGSLILGIVLGIISYFLVYFLVRKYRKRR 150 (154)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444443345555555555533333344445555444433
No 149
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=37.84 E-value=15 Score=28.38 Aligned_cols=25 Identities=24% Similarity=0.764 Sum_probs=20.0
Q ss_pred CccccHhhHHHhhcCCCcccccccccccce
Q 028047 179 HLVCCRRCAISVEREASPKCPVCRMTVRSS 208 (214)
Q Consensus 179 H~~~C~~C~~~~~~~~~~~CP~CR~~i~~~ 208 (214)
+.| |..|-...-. .||.|..+|.+-
T Consensus 28 ~~f-C~kCG~~tI~----~Cp~C~~~IrG~ 52 (158)
T PF10083_consen 28 EKF-CSKCGAKTIT----SCPNCSTPIRGD 52 (158)
T ss_pred HHH-HHHhhHHHHH----HCcCCCCCCCCc
Confidence 466 8999887763 699999999864
No 150
>PF10883 DUF2681: Protein of unknown function (DUF2681); InterPro: IPR020274 This entry contains membrane proteins with no known function.
Probab=36.85 E-value=72 Score=22.12 Aligned_cols=22 Identities=23% Similarity=0.208 Sum_probs=12.1
Q ss_pred hchhHHHHHHHHHHHHHHHHHH
Q 028047 104 LGSLSIGILGYAIVRNWNRWKD 125 (214)
Q Consensus 104 ~~~~~~~~~~~~~~r~~~~~~~ 125 (214)
++.+++++++|..++.|+-.++
T Consensus 10 ~~~v~~~i~~y~~~k~~ka~~~ 31 (87)
T PF10883_consen 10 VGAVVALILAYLWWKVKKAKKQ 31 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555556666666664443
No 151
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=36.58 E-value=29 Score=25.62 Aligned_cols=6 Identities=0% Similarity=0.124 Sum_probs=2.2
Q ss_pred hhhhhh
Q 028047 96 ILFWSG 101 (214)
Q Consensus 96 ~~~~~~ 101 (214)
|.+|+.
T Consensus 2 W~l~~i 7 (130)
T PF12273_consen 2 WVLFAI 7 (130)
T ss_pred eeeHHH
Confidence 333333
No 152
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=35.57 E-value=27 Score=22.11 Aligned_cols=23 Identities=26% Similarity=0.602 Sum_probs=17.5
Q ss_pred ccccHhhHHHhhcCCCccccccccccc
Q 028047 180 LVCCRRCAISVEREASPKCPVCRMTVR 206 (214)
Q Consensus 180 ~~~C~~C~~~~~~~~~~~CP~CR~~i~ 206 (214)
.| |..|+..... ..||-|...+.
T Consensus 30 TF-C~~C~e~~l~---~~CPNCgGelv 52 (57)
T PF06906_consen 30 TF-CADCAETMLN---GVCPNCGGELV 52 (57)
T ss_pred cc-cHHHHHHHhc---CcCcCCCCccc
Confidence 45 8999999862 48999976654
No 153
>cd00928 Cyt_c_Oxidase_VIIa Cytochrome c oxidase subunit VIIa. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit VIIa has two tissue-specific isoforms that are expressed in a developmental manner. VIIa-H is expressed in heart and skeletal muscle but not smooth muscle. VIIa-L is expressed in liver and non-muscle tissues.
Probab=34.22 E-value=68 Score=20.23 Aligned_cols=21 Identities=19% Similarity=0.317 Sum_probs=15.8
Q ss_pred eecCCCCCCeeeeccCHHHHH
Q 028047 67 EIKSCKDLPYFLSEKTKDLMV 87 (214)
Q Consensus 67 ~l~~~~~~p~~ls~~~~d~Li 87 (214)
.+|.+++.|-+|.-...|.++
T Consensus 11 ~FQ~~ng~PV~LKGG~~D~~L 31 (55)
T cd00928 11 KFQADDGLPVHLKGGVVDRIL 31 (55)
T ss_pred HhcCCCCceEEecCCchhHHH
Confidence 356678999999888877644
No 154
>PF00653 BIR: Inhibitor of Apoptosis domain; InterPro: IPR001370 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. The baculovirus inhibitor of apoptosis protein repeat (BIR) is a domain of tandem repeats separated by a variable length linker that seems to confer cell death-preventing activity [, ]. The BIR domains characterise the Inhibitor of Apoptosis (IAP) family of proteins (MEROPS proteinase inhibitor family I32, clan IV) that suppress apoptosis by interacting with and inhibiting the enzymatic activity of both initiator and effector caspases (MEROPS peptidase family C14, IPR002398 from INTERPRO). Several distinct mammalian IAPs including XIAP, c-IAP1, c-IAP2, and ML-IAP, have been identified, and they all exhibit antiapoptotic activity in cell culture. The functional unit in each IAP protein is the baculoviral IAP repeat (BIR), which contains approximately 80 amino acids folded around a zinc atom. Most mammalian IAPs have more than one BIR domain, with the different BIR domains performing distinct functions. For example, in XIAP, the third BIR domain (BIR3) potently inhibits the catalytic activity of caspase-9, whereas the linker sequences immediately preceding the second BIR domain (BIR2) selectively targets caspase-3 or -7. The first-recognised members of family MEROPS inhibitor family I32 were viral proteins that inhibited the apoptosis of infected cells: Cp-IAP from Cydia pomonella granulosis virus (CpGV) [] and Op-IAP from Orgyia pseudotsugata multicapsid polyhedrosis virus(OpMNPV) []. The discovery of homologous proteins in mammals followed soon after with the recognition that mutations in the gene for neuronal apoptosis inhibitory protein (NIAP) underlie spinal muscular atrophy []. The inhibitors in family I32 all possess one or more 80-residue domains known as BIR (baculovirus inhibitor repeat) domains and have accordingly been termed 'BIR-containing' or 'BIRC' proteins as well as IAP proteins. The mechanism of inhibition of caspases by the IAP proteins is complex, and reactive site residues cannot yet be identified with any confidence. Despite the conservation of the BIR or IAP (inhibitor of apoptosis) domains throughout the family it seems clear that other parts of the molecules also make essential contributions to inhibitory activity. Homologs of most components in the mammalian apoptotic pathway have been identified in fruit flies. The Drosophila Apaf-1, known as Dapaf-1, HAC-1 or Dark, shares significant sequence similarity with its mammalian counterpart, and is critically important for the activation of the Drosophila initiator caspase Dronc. Dronc, in turn, cleaves and activates the effector caspase DrICE. The Drosophila IAP, DIAP1, binds to and in-activates both DrICE and Dronc through its BIR1 and BIR2 domains. During apoptosis, the anti-death function of DIAP1 is countered by at least four pro-apoptotic proteins, Reaper, Hid, Grim, and sickle, through direct physical interactions. These four proteins represent the functional homologs of the mammalian protein Smac, and they all share a conserved IAP-binding motif at their N termini. The three proteins Reaper, Hid, and Grim are collectively referred to as the RHG proteins [, ]. Both XIAP and DIAP1 contain a RING domain at their C termini, and can act as an E3 ubiquitin ligase. Indeed, both XIAP and DIAP1 have been shown to promote self-ubiquitination and degradation as well as to negatively regulate the target caspases. Nonetheless, important differences exist between XIAP and DIAP1. The primary function of XIAP is thought to inhibit the catalytic activities of caspases; to what extent the ubiquitinating activity of XIAP contributes to its function remains unclear. For DIAP1, however, the ubiquitinating activity appears to be essential for its function. Recently a Drosophila p53 protein has been identified that mediates apoptosis via a novel pathway involving the activation of the Reaper gene and subsequent inhibition of the inhibitors of apoptosis (IAPs). CIAP1, a major mammalian homologue of Drosophila IAPs, is irreversibly inhibited (cleaved) during p53-dependent apoptosis and this cleavage is mediated by a serine protease. Serine protease inhibitors that block CIAP1 cleavage inhibit p53-dependent apoptosis. Furthermore, activation of the p53 protein increases the transcription of the HTRA2 gene, which encodes a serine protease that interacts with CIAP1 and potentiates apoptosis. Therefore mammalian p53 protein activates apoptosis through a novel pathway functionally similar to that in Drosophila, which involves HTRA2 and subsequent inhibition of CIAP1 by cleavage [].; GO: 0005622 intracellular; PDB: 3HL5_B 3UW5_A 3CM7_A 1G3F_A 1G73_C 3G76_G 3CM2_C 2VSL_A 2OPZ_B 3CLX_A ....
Probab=33.92 E-value=0.9 Score=29.93 Aligned_cols=57 Identities=16% Similarity=0.352 Sum_probs=36.2
Q ss_pred eecCCC-CCCeeeeccCHHHHHHHhhhhhhhhhhhhhhhchhHHHHHHHHHHHHHH----HHHHHHHH
Q 028047 67 EIKSCK-DLPYFLSEKTKDLMVVDLVNRSKILFWSGIVLGSLSIGILGYAIVRNWN----RWKDRQQR 129 (214)
Q Consensus 67 ~l~~~~-~~p~~ls~~~~d~Li~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~r~~~----~~~~~~~~ 129 (214)
||+++. +||..... ......+|+.+ +|+|.+. ++.+.|+.+...+..|. .+.+|.+.
T Consensus 1 Rl~SF~~~wp~~~~~--~~~~~~~LA~a--GFyy~~~--~d~v~C~~C~~~l~~w~~~Ddp~~~H~~~ 62 (70)
T PF00653_consen 1 RLKSFRSNWPHSNDH--DPVSPEKLARA--GFYYTGT--GDRVRCFYCGLELDNWEPNDDPWEEHKRH 62 (70)
T ss_dssp HHHGGTTGSSTTTTT--SSSHHHHHHHT--TEEEESS--TTEEEETTTTEEEES-STT--HHHHHHHH
T ss_pred ChhHHCCcccCcccc--CCCCHHHHHHC--CCEEcCC--CCEEEEeccCCEEeCCCCCCCHHHHHHHH
Confidence 467774 58732211 12233566666 8888884 67777888877777886 57777776
No 155
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=33.89 E-value=9.5 Score=19.45 Aligned_cols=22 Identities=27% Similarity=0.868 Sum_probs=12.0
Q ss_pred cHhhHHHhhcCCCcccccccccc
Q 028047 183 CRRCAISVEREASPKCPVCRMTV 205 (214)
Q Consensus 183 C~~C~~~~~~~~~~~CP~CR~~i 205 (214)
|..|-..+. .....||.|..++
T Consensus 2 Cp~CG~~~~-~~~~fC~~CG~~l 23 (23)
T PF13240_consen 2 CPNCGAEIE-DDAKFCPNCGTPL 23 (23)
T ss_pred CcccCCCCC-CcCcchhhhCCcC
Confidence 445554444 2344688886653
No 156
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=33.27 E-value=25 Score=28.99 Aligned_cols=23 Identities=30% Similarity=1.003 Sum_probs=17.9
Q ss_pred ccHhhHHHhhcCCCcccccccccc
Q 028047 182 CCRRCAISVEREASPKCPVCRMTV 205 (214)
Q Consensus 182 ~C~~C~~~~~~~~~~~CP~CR~~i 205 (214)
.|.+|-..+-+ +.+.||+|.+.-
T Consensus 196 ~C~sC~qqIHR-NAPiCPlCK~Ks 218 (230)
T PF10146_consen 196 TCQSCHQQIHR-NAPICPLCKAKS 218 (230)
T ss_pred hhHhHHHHHhc-CCCCCccccccc
Confidence 48999988864 467899998763
No 157
>PF08763 Ca_chan_IQ: Voltage gated calcium channel IQ domain; InterPro: IPR014873 Ca2+ ions are unique in that they not only carry charge but they are also the most widely used of diffusible second messengers. Voltage-dependent Ca2+ channels (VDCC) are a family of molecules that allow cells to couple electrical activity to intracellular Ca2+ signalling. The opening and closing of these channels by depolarizing stimuli, such as action potentials, allows Ca2+ ions to enter neurons down a steep electrochemical gradient, producing transient intracellular Ca2+ signals. Many of the processes that occur in neurons, including transmitter release, gene transcription and metabolism are controlled by Ca2+ influx occurring simultaneously at different cellular locales. The pore is formed by the alpha-1 subunit which incorporates the conduction pore, the voltage sensor and gating apparatus, and the known sites of channel regulation by second messengers, drugs, and toxins []. The activity of this pore is modulated by 4 tightly-coupled subunits: an intracellular beta subunit; a transmembrane gamma subunit; and a disulphide-linked complex of alpha-2 and delta subunits, which are proteolytically cleaved from the same gene product. Properties of the protein including gating voltage-dependence, G protein modulation and kinase susceptibility can be influenced by these subunits. Voltage-gated calcium channels are classified as T, L, N, P, Q and R, and are distinguished by their sensitivity to pharmacological blocks, single-channel conductance kinetics, and voltage-dependence. On the basis of their voltage activation properties, the voltage-gated calcium classes can be further divided into two broad groups: the low (T-type) and high (L, N, P, Q and R-type) threshold-activated channels. The voltage-gated calcium channel alpha 1 subunit contains an IQ domain, named for its isoleucine-glutamine (IQ) motif, which interacts with hydrophobic pockets of Ca2+/calmodulin []. The interaction regulates two self-regulatory calcium dependent feedback mechanisms, calcium dependent inactivation (CDI), and calcium-dependent facilitation (CDF). ; PDB: 3OXQ_F 2F3Z_B 3G43_E 2F3Y_B 2BE6_D 3DVM_B 3BXK_D 2VAY_B 3DVK_B 3BXL_B ....
Probab=31.90 E-value=1e+02 Score=17.55 Aligned_cols=21 Identities=14% Similarity=0.165 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 028047 108 SIGILGYAIVRNWNRWKDRQQ 128 (214)
Q Consensus 108 ~~~~~~~~~~r~~~~~~~~~~ 128 (214)
+-.+..+++.-+|++++.++.
T Consensus 7 GK~YAt~lI~dyfr~~K~rk~ 27 (35)
T PF08763_consen 7 GKFYATLLIQDYFRQFKKRKE 27 (35)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344455566666766665444
No 158
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=31.75 E-value=18 Score=18.94 Aligned_cols=9 Identities=56% Similarity=1.254 Sum_probs=7.4
Q ss_pred ccccccccc
Q 028047 197 KCPVCRMTV 205 (214)
Q Consensus 197 ~CP~CR~~i 205 (214)
.||+|.+.+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 599998776
No 159
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=31.05 E-value=38 Score=21.02 Aligned_cols=25 Identities=28% Similarity=0.833 Sum_probs=12.9
Q ss_pred cCCCccccHhhHHHhhcCCCccccccc
Q 028047 176 PCGHLVCCRRCAISVEREASPKCPVCR 202 (214)
Q Consensus 176 pCgH~~~C~~C~~~~~~~~~~~CP~CR 202 (214)
.|++.| |.+|-.=+- ..-..||.|-
T Consensus 26 ~C~~~F-C~dCD~fiH-E~LH~CPGC~ 50 (51)
T PF07975_consen 26 KCKNHF-CIDCDVFIH-ETLHNCPGCE 50 (51)
T ss_dssp TTT--B--HHHHHTTT-TTS-SSSTT-
T ss_pred CCCCcc-ccCcChhhh-ccccCCcCCC
Confidence 578888 899954332 2223699884
No 160
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=30.95 E-value=27 Score=26.09 Aligned_cols=23 Identities=22% Similarity=0.504 Sum_probs=18.9
Q ss_pred ccccccccccccceEEccCCCcc
Q 028047 159 GQLCVVCLTRRRISAFNPCGHLV 181 (214)
Q Consensus 159 ~~~C~IC~~~~~~~~~lpCgH~~ 181 (214)
...=-||.+..+.++--.|||.|
T Consensus 57 g~hlfi~qs~~~rv~rcecghsf 79 (165)
T COG4647 57 GDHLFICQSAQKRVIRCECGHSF 79 (165)
T ss_pred CCcEEEEecccccEEEEeccccc
Confidence 34456889988888888999999
No 161
>PF04995 CcmD: Heme exporter protein D (CcmD); InterPro: IPR007078 The CcmD protein is part of a C-type cytochrome biogenesis operon []. The exact function of this protein is uncertain. It has been proposed that CcmC, CcmD and CcmE interact directly with each other, establishing a cytoplasm to periplasm haem delivery pathway for cytochrome c maturation []. This protein is found fused to CcmE in P52224 from SWISSPROT. These proteins contain a predicted transmembrane helix.; GO: 0006810 transport, 0016021 integral to membrane
Probab=30.91 E-value=1.2e+02 Score=18.02 Aligned_cols=10 Identities=20% Similarity=0.491 Sum_probs=4.5
Q ss_pred hhhhhhhhch
Q 028047 97 LFWSGIVLGS 106 (214)
Q Consensus 97 ~~~~~i~~~~ 106 (214)
+-|++..++.
T Consensus 6 yVW~sYg~t~ 15 (46)
T PF04995_consen 6 YVWSSYGVTA 15 (46)
T ss_pred HHHHHHHHHH
Confidence 4455543333
No 162
>KOG3251 consensus Golgi SNAP receptor complex member [Intracellular trafficking, secretion, and vesicular transport]
Probab=30.87 E-value=44 Score=27.15 Aligned_cols=33 Identities=21% Similarity=0.371 Sum_probs=18.1
Q ss_pred HHHHHHhhhhhhhhhhhhhhhchhHHHHHHHHHHHHH
Q 028047 84 DLMVVDLVNRSKILFWSGIVLGSLSIGILGYAIVRNW 120 (214)
Q Consensus 84 d~Li~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~r~~ 120 (214)
-.+|++=....+++||.+++ .+.++.|+++++|
T Consensus 180 i~lIeRR~~~Dk~iF~~G~i----~~~v~~yl~~~wl 212 (213)
T KOG3251|consen 180 IRLIERRVREDKIIFYGGVI----LTLVIMYLFYRWL 212 (213)
T ss_pred HHHHHHHHHhhHHHHHHHHH----HHHHHHHHHHHHh
Confidence 34455444555677776643 3334556666665
No 163
>KOG4021 consensus Mitochondrial ribosomal protein S18b [Translation, ribosomal structure and biogenesis]
Probab=30.72 E-value=25 Score=28.19 Aligned_cols=20 Identities=30% Similarity=0.650 Sum_probs=11.6
Q ss_pred hhHHHhhcCCCccccccccc
Q 028047 185 RCAISVEREASPKCPVCRMT 204 (214)
Q Consensus 185 ~C~~~~~~~~~~~CP~CR~~ 204 (214)
.|+.+.......-||+||-.
T Consensus 98 tCIrkn~~~~gnpCPICRDe 117 (239)
T KOG4021|consen 98 TCIRKNGRFLGNPCPICRDE 117 (239)
T ss_pred HHHhhcCeecCCCCCccccc
Confidence 45555433234469999854
No 164
>COG5132 BUD31 Cell cycle control protein, G10 family [Transcription / Cell division and chromosome partitioning]
Probab=30.46 E-value=17 Score=26.68 Aligned_cols=22 Identities=32% Similarity=0.939 Sum_probs=12.6
Q ss_pred cHhhHHHhhcCCCcccccccccc
Q 028047 183 CRRCAISVEREASPKCPVCRMTV 205 (214)
Q Consensus 183 C~~C~~~~~~~~~~~CP~CR~~i 205 (214)
|-.|++.......+.| +||.+-
T Consensus 102 CLRCIQ~~esk~GstC-ICRVP~ 123 (146)
T COG5132 102 CLRCIQPIESKHGSTC-ICRVPQ 123 (146)
T ss_pred hHhhcCcccccCCCEE-EEeCch
Confidence 6666666655444455 566553
No 165
>PLN02195 cellulose synthase A
Probab=30.38 E-value=41 Score=33.51 Aligned_cols=47 Identities=19% Similarity=0.418 Sum_probs=31.0
Q ss_pred cccccccccccc-----c--eEEccCCCccccHhhHHHhhcCCCccccccccccc
Q 028047 159 GQLCVVCLTRRR-----I--SAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVR 206 (214)
Q Consensus 159 ~~~C~IC~~~~~-----~--~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~ 206 (214)
...|.||-|... + ++--.||--+ |+.|.+==.+..+..||.|++...
T Consensus 6 ~~~c~~cgd~~~~~~~g~~fvaC~eC~~pv-CrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 6 APICATCGEEVGVDSNGEAFVACHECSYPL-CKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CccceecccccCcCCCCCeEEEeccCCCcc-ccchhhhhhhcCCccCCccCCccc
Confidence 457999998432 2 2233455556 899995444455667999998765
No 166
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=29.90 E-value=17 Score=22.12 Aligned_cols=8 Identities=38% Similarity=1.024 Sum_probs=6.6
Q ss_pred cccccccc
Q 028047 196 PKCPVCRM 203 (214)
Q Consensus 196 ~~CP~CR~ 203 (214)
..||.|..
T Consensus 27 ~~CP~Cg~ 34 (52)
T TIGR02605 27 ATCPECGG 34 (52)
T ss_pred CCCCCCCC
Confidence 36999987
No 167
>PF10883 DUF2681: Protein of unknown function (DUF2681); InterPro: IPR020274 This entry contains membrane proteins with no known function.
Probab=29.48 E-value=1.6e+02 Score=20.43 Aligned_cols=27 Identities=15% Similarity=0.218 Sum_probs=21.8
Q ss_pred hhchhHHHHHHHHHHHHHHHHHHHHHH
Q 028047 103 VLGSLSIGILGYAIVRNWNRWKDRQQR 129 (214)
Q Consensus 103 ~~~~~~~~~~~~~~~r~~~~~~~~~~~ 129 (214)
+++.++..+++.+++-.|+-++.+++-
T Consensus 6 iv~~~~~v~~~i~~y~~~k~~ka~~~~ 32 (87)
T PF10883_consen 6 IVGGVGAVVALILAYLWWKVKKAKKQN 32 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467777788888888999999888884
No 168
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=29.15 E-value=20 Score=22.30 Aligned_cols=12 Identities=33% Similarity=1.121 Sum_probs=5.2
Q ss_pred cccccccccccc
Q 028047 196 PKCPVCRMTVRS 207 (214)
Q Consensus 196 ~~CP~CR~~i~~ 207 (214)
..||+|.+.|..
T Consensus 25 atCP~C~a~~~~ 36 (54)
T PF09237_consen 25 ATCPICGAVIRQ 36 (54)
T ss_dssp EE-TTT--EESS
T ss_pred CCCCcchhhccc
Confidence 357777666543
No 169
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=28.94 E-value=31 Score=21.32 Aligned_cols=23 Identities=26% Similarity=0.560 Sum_probs=12.6
Q ss_pred cCCCccccHhhHHHhhcCCCcccccc
Q 028047 176 PCGHLVCCRRCAISVEREASPKCPVC 201 (214)
Q Consensus 176 pCgH~~~C~~C~~~~~~~~~~~CP~C 201 (214)
.|||.+-..-.... .....||.|
T Consensus 33 ~Cgh~w~~~v~~R~---~~~~~CP~C 55 (55)
T PF14311_consen 33 KCGHEWKASVNDRT---RRGKGCPYC 55 (55)
T ss_pred CCCCeeEccHhhhc---cCCCCCCCC
Confidence 57887743222221 234579988
No 170
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=28.51 E-value=47 Score=27.99 Aligned_cols=49 Identities=20% Similarity=0.520 Sum_probs=34.2
Q ss_pred ccccccccccccc----eEEccCC-----CccccHhhHHHhhc-CCCcccccccccccce
Q 028047 159 GQLCVVCLTRRRI----SAFNPCG-----HLVCCRRCAISVER-EASPKCPVCRMTVRSS 208 (214)
Q Consensus 159 ~~~C~IC~~~~~~----~~~lpCg-----H~~~C~~C~~~~~~-~~~~~CP~CR~~i~~~ 208 (214)
...|-||....-. ....||. +.++ ..|+..|.. ..+..|.+|.......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH-~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVH-RSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHH-HHHHHhhhccccCeeeecccccceec
Confidence 4689999986543 4677885 3343 789999975 3345799998765543
No 171
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=28.34 E-value=16 Score=20.01 Aligned_cols=25 Identities=28% Similarity=0.767 Sum_probs=12.0
Q ss_pred CccccHhhHHHhhcC---CCccccccccc
Q 028047 179 HLVCCRRCAISVERE---ASPKCPVCRMT 204 (214)
Q Consensus 179 H~~~C~~C~~~~~~~---~~~~CP~CR~~ 204 (214)
|.| |..|-...... ....||.|...
T Consensus 3 ~rf-C~~CG~~t~~~~~g~~r~C~~Cg~~ 30 (32)
T PF09297_consen 3 HRF-CGRCGAPTKPAPGGWARRCPSCGHE 30 (32)
T ss_dssp TSB--TTT--BEEE-SSSS-EEESSSS-E
T ss_pred Ccc-cCcCCccccCCCCcCEeECCCCcCE
Confidence 667 77787765431 23458888653
No 172
>PRK01343 zinc-binding protein; Provisional
Probab=27.83 E-value=26 Score=22.29 Aligned_cols=10 Identities=30% Similarity=0.820 Sum_probs=5.8
Q ss_pred cccccccccc
Q 028047 197 KCPVCRMTVR 206 (214)
Q Consensus 197 ~CP~CR~~i~ 206 (214)
.||+|++++.
T Consensus 11 ~CP~C~k~~~ 20 (57)
T PRK01343 11 PCPECGKPST 20 (57)
T ss_pred cCCCCCCcCc
Confidence 4666666543
No 173
>PRK11677 hypothetical protein; Provisional
Probab=27.79 E-value=78 Score=23.81 Aligned_cols=22 Identities=23% Similarity=0.308 Sum_probs=12.5
Q ss_pred hhhhhhchhHHHHHHHHHHHHH
Q 028047 99 WSGIVLGSLSIGILGYAIVRNW 120 (214)
Q Consensus 99 ~~~i~~~~~~~~~~~~~~~r~~ 120 (214)
|..+++++++.+++|+.+.|.-
T Consensus 3 W~~a~i~livG~iiG~~~~R~~ 24 (134)
T PRK11677 3 WEYALIGLVVGIIIGAVAMRFG 24 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHhhc
Confidence 4444456665556666666643
No 174
>PRK05415 hypothetical protein; Provisional
Probab=27.36 E-value=1.6e+02 Score=25.83 Aligned_cols=43 Identities=26% Similarity=0.288 Sum_probs=20.9
Q ss_pred HHHHHhhhhhhhhhhhhhhhchhHHHHHHHHHHHHHHHHHHHH
Q 028047 85 LMVVDLVNRSKILFWSGIVLGSLSIGILGYAIVRNWNRWKDRQ 127 (214)
Q Consensus 85 ~Li~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~r~~~~~~~~~ 127 (214)
+++.++=....|+.|...++..+.+......+.|.|...++.+
T Consensus 87 ~~i~~~~~~~~wlg~~~~~~~~~~~~~~~~~~~rE~~~l~rL~ 129 (341)
T PRK05415 87 QWLRDAFQRSDWLGLGAAVVGALIVLAGLGIVVREWRRLRRLR 129 (341)
T ss_pred HHHHHHHHhCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333455554443444444444456678887544333
No 175
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=27.28 E-value=33 Score=30.06 Aligned_cols=14 Identities=36% Similarity=0.634 Sum_probs=10.6
Q ss_pred ccccccccccccce
Q 028047 159 GQLCVVCLTRRRIS 172 (214)
Q Consensus 159 ~~~C~IC~~~~~~~ 172 (214)
+..|++|-|...-.
T Consensus 15 ~ElCPVCGDkVSGY 28 (475)
T KOG4218|consen 15 GELCPVCGDKVSGY 28 (475)
T ss_pred ccccccccCccccc
Confidence 55899999876653
No 176
>PF02132 RecR: RecR protein; InterPro: IPR023628 The bacterial protein RecR seems to play a role in a recombinational process of DNA repair []. It may act with RecF and RecO. RecR's structure consists of a N-terminal helix-hairpin-helix (HhH) motif, followed by a Cys4 zinc-finger motif, a Toprim domain and a Walker B motif []. This entry represents the C4-type zinc finger.; PDB: 1VDD_D 2V1C_B.
Probab=26.34 E-value=17 Score=21.26 Aligned_cols=14 Identities=21% Similarity=0.603 Sum_probs=8.2
Q ss_pred cccccccccccccc
Q 028047 158 DGQLCVVCLTRRRI 171 (214)
Q Consensus 158 ~~~~C~IC~~~~~~ 171 (214)
+...|.||.+..++
T Consensus 28 e~~~C~IC~d~~RD 41 (41)
T PF02132_consen 28 EEDPCEICSDPKRD 41 (41)
T ss_dssp SSSS-HHHH-TTSE
T ss_pred CCCcCcCCCCCCCC
Confidence 45578888887664
No 177
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=25.69 E-value=38 Score=27.90 Aligned_cols=23 Identities=35% Similarity=1.025 Sum_probs=17.6
Q ss_pred cHhhHHHhhcCCCccccccccccc
Q 028047 183 CRRCAISVEREASPKCPVCRMTVR 206 (214)
Q Consensus 183 C~~C~~~~~~~~~~~CP~CR~~i~ 206 (214)
|..|-..+-+ +.+.||+|...-.
T Consensus 252 ClsChqqIHR-NAPiCPlCKaKsR 274 (286)
T KOG4451|consen 252 CLSCHQQIHR-NAPICPLCKAKSR 274 (286)
T ss_pred HHHHHHHHhc-CCCCCcchhhccc
Confidence 8899888864 4678999987643
No 178
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=25.40 E-value=15 Score=20.65 Aligned_cols=14 Identities=29% Similarity=0.686 Sum_probs=10.1
Q ss_pred cccccccccccceE
Q 028047 196 PKCPVCRMTVRSSM 209 (214)
Q Consensus 196 ~~CP~CR~~i~~~~ 209 (214)
..||+|.++-..+.
T Consensus 19 ~~CP~Cg~~~~~F~ 32 (34)
T cd00729 19 EKCPICGAPKEKFE 32 (34)
T ss_pred CcCcCCCCchHHcE
Confidence 47999988755544
No 179
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=25.24 E-value=46 Score=28.82 Aligned_cols=31 Identities=23% Similarity=0.525 Sum_probs=26.6
Q ss_pred ccccccccccccceEEccCC--CccccHhhHHHh
Q 028047 159 GQLCVVCLTRRRISAFNPCG--HLVCCRRCAISV 190 (214)
Q Consensus 159 ~~~C~IC~~~~~~~~~lpCg--H~~~C~~C~~~~ 190 (214)
.-.|..|-+....+..++|. |+- |.+|...+
T Consensus 221 ni~C~~Ctdv~~~vlvf~Cns~Hvt-C~dCFr~y 253 (446)
T KOG0006|consen 221 NITCITCTDVRSPVLVFQCNSRHVT-CLDCFRLY 253 (446)
T ss_pred cceeEEecCCccceEEEecCCceee-hHHhhhhH
Confidence 45899999999999999999 988 89998743
No 180
>PHA02610 uvsY.-2 hypothetical protein; Provisional
Probab=25.07 E-value=39 Score=20.96 Aligned_cols=15 Identities=20% Similarity=0.649 Sum_probs=11.3
Q ss_pred cccccccccccceEE
Q 028047 196 PKCPVCRMTVRSSMR 210 (214)
Q Consensus 196 ~~CP~CR~~i~~~~~ 210 (214)
..|++|+++|...+-
T Consensus 2 ~iCvvCK~Pi~~al~ 16 (53)
T PHA02610 2 KICVVCKQPIEKALV 16 (53)
T ss_pred ceeeeeCCchhhceE
Confidence 369999999876543
No 181
>PF10882 bPH_5: Bacterial PH domain; InterPro: IPR020482 This entry contains membrane proteins with no known function.
Probab=25.01 E-value=86 Score=21.59 Aligned_cols=30 Identities=20% Similarity=0.296 Sum_probs=23.2
Q ss_pred CCceeecCCCCCCeeeeccCHHHHHHHhhhh
Q 028047 63 NGIPEIKSCKDLPYFLSEKTKDLMVVDLVNR 93 (214)
Q Consensus 63 ~g~~~l~~~~~~p~~ls~~~~d~Li~~l~~~ 93 (214)
+..+.|+..+ ..|++|..+.+++++.+...
T Consensus 70 ~~~i~I~t~~-~~y~isp~~~~~fi~~l~~r 99 (100)
T PF10882_consen 70 KNVILIKTKD-KTYVISPEDPEEFIEALKKR 99 (100)
T ss_pred CCEEEEEECC-ceEEEcCCCHHHHHHHHHhc
Confidence 4466676666 67999999999999888653
No 182
>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=24.91 E-value=19 Score=26.60 Aligned_cols=9 Identities=22% Similarity=0.597 Sum_probs=3.5
Q ss_pred hhhhhchhH
Q 028047 100 SGIVLGSLS 108 (214)
Q Consensus 100 ~~i~~~~~~ 108 (214)
++++.|+++
T Consensus 71 ~gv~aGvIg 79 (122)
T PF01102_consen 71 FGVMAGVIG 79 (122)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
Confidence 333344433
No 183
>PF10764 Gin: Inhibitor of sigma-G Gin; InterPro: IPR019700 Gin allows sigma-F to delay late forespore transcription by preventing sigma-G to take over before the cell has reached a critical stage of development. Gin is also known as CsfB [].
Probab=24.73 E-value=55 Score=19.77 Aligned_cols=30 Identities=17% Similarity=0.603 Sum_probs=22.0
Q ss_pred ccccccccccceEEccCCCccccHhhHHHhhc
Q 028047 161 LCVVCLTRRRISAFNPCGHLVCCRRCAISVER 192 (214)
Q Consensus 161 ~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~ 192 (214)
.|.||-....+-+.+ .|+.. |.+|-..+.+
T Consensus 1 ~CiiC~~~~~~GI~I-~~~fI-C~~CE~~iv~ 30 (46)
T PF10764_consen 1 KCIICGKEKEEGIHI-YGKFI-CSDCEKEIVN 30 (46)
T ss_pred CeEeCCCcCCCCEEE-ECeEe-hHHHHHHhcc
Confidence 488999888775443 46665 9999988763
No 184
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=24.67 E-value=19 Score=31.02 Aligned_cols=45 Identities=24% Similarity=0.457 Sum_probs=30.3
Q ss_pred ccccccccccccceEEcc----CCCc-cccHhhHHHhhcCCCccccccccc
Q 028047 159 GQLCVVCLTRRRISAFNP----CGHL-VCCRRCAISVEREASPKCPVCRMT 204 (214)
Q Consensus 159 ~~~C~IC~~~~~~~~~lp----CgH~-~~C~~C~~~~~~~~~~~CP~CR~~ 204 (214)
...|+||-..+.-.++.. =|+. .+|.-|...|.-. ...||.|...
T Consensus 184 ~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~-R~~C~~Cg~~ 233 (305)
T TIGR01562 184 RTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYV-RVKCSHCEES 233 (305)
T ss_pred CCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCccccc-CccCCCCCCC
Confidence 458999999886543322 3432 2488998888632 3479999864
No 185
>PF06679 DUF1180: Protein of unknown function (DUF1180); InterPro: IPR009565 This entry consists of several hypothetical eukaryotic proteins thought to be membrane proteins. Their function is unknown.
Probab=24.35 E-value=61 Score=25.25 Aligned_cols=19 Identities=21% Similarity=0.329 Sum_probs=11.3
Q ss_pred hhHHHHHHHHHHHHHHHHH
Q 028047 106 SLSIGILGYAIVRNWNRWK 124 (214)
Q Consensus 106 ~~~~~~~~~~~~r~~~~~~ 124 (214)
.++..++.|.++|.|+-++
T Consensus 103 g~s~l~i~yfvir~~R~r~ 121 (163)
T PF06679_consen 103 GLSALAILYFVIRTFRLRR 121 (163)
T ss_pred HHHHHHHHHHHHHHHhhcc
Confidence 3344455667778777544
No 186
>PF14316 DUF4381: Domain of unknown function (DUF4381)
Probab=24.34 E-value=1.3e+02 Score=22.48 Aligned_cols=12 Identities=33% Similarity=0.841 Sum_probs=5.3
Q ss_pred HHHHHHHHHHHH
Q 028047 111 ILGYAIVRNWNR 122 (214)
Q Consensus 111 ~~~~~~~r~~~~ 122 (214)
++.+..+|.|++
T Consensus 36 ~~~~~~~r~~~~ 47 (146)
T PF14316_consen 36 LLLWRLWRRWRR 47 (146)
T ss_pred HHHHHHHHHHHc
Confidence 333444445544
No 187
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=23.89 E-value=45 Score=21.38 Aligned_cols=16 Identities=38% Similarity=0.962 Sum_probs=11.6
Q ss_pred CcccccccccccceEE
Q 028047 195 SPKCPVCRMTVRSSMR 210 (214)
Q Consensus 195 ~~~CP~CR~~i~~~~~ 210 (214)
.+.||+|..+...-.|
T Consensus 39 ~p~CPlC~s~M~~~~r 54 (59)
T PF14169_consen 39 EPVCPLCKSPMVSGTR 54 (59)
T ss_pred CccCCCcCCcccccee
Confidence 4679999888766544
No 188
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=23.74 E-value=27 Score=30.12 Aligned_cols=45 Identities=24% Similarity=0.437 Sum_probs=30.3
Q ss_pred cccccccccccccceEEc---cCCCc-cccHhhHHHhhcCCCcccccccc
Q 028047 158 DGQLCVVCLTRRRISAFN---PCGHL-VCCRRCAISVEREASPKCPVCRM 203 (214)
Q Consensus 158 ~~~~C~IC~~~~~~~~~l---pCgH~-~~C~~C~~~~~~~~~~~CP~CR~ 203 (214)
....|+||-..+.-.+.. .=|+. .+|.-|...|.-. ...||.|..
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~-R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVV-RVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCccccc-CccCCCCCC
Confidence 456999999988654332 23432 2488998888632 347999986
No 189
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=23.60 E-value=55 Score=31.48 Aligned_cols=50 Identities=26% Similarity=0.541 Sum_probs=33.1
Q ss_pred CccccccccccccccceE-------E---ccCCCcc-------------------ccHhhHHHhhcCC-------Ccccc
Q 028047 156 IPDGQLCVVCLTRRRISA-------F---NPCGHLV-------------------CCRRCAISVEREA-------SPKCP 199 (214)
Q Consensus 156 ~~~~~~C~IC~~~~~~~~-------~---lpCgH~~-------------------~C~~C~~~~~~~~-------~~~CP 199 (214)
.+|-..|.-|+.+..++- | +.||-+| .|..|...+.... ...||
T Consensus 98 ~pD~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfHAQp~aCp 177 (750)
T COG0068 98 PPDAATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFHAQPIACP 177 (750)
T ss_pred CCchhhhHHHHHHhcCCCCcceeccccccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCccccccccccccCc
Confidence 466779999998755431 3 4556555 5999998776422 33599
Q ss_pred cccccc
Q 028047 200 VCRMTV 205 (214)
Q Consensus 200 ~CR~~i 205 (214)
.|.-.+
T Consensus 178 ~CGP~~ 183 (750)
T COG0068 178 KCGPHL 183 (750)
T ss_pred ccCCCe
Confidence 996543
No 190
>PF10217 DUF2039: Uncharacterized conserved protein (DUF2039); InterPro: IPR019351 This entry is a region of approximately 100 residues containing three pairs of cysteine residues. The region is conserved from plants to humans but its function is unknown.
Probab=23.57 E-value=34 Score=24.04 Aligned_cols=36 Identities=25% Similarity=0.693 Sum_probs=26.5
Q ss_pred ccccccccccccceEEccCCCccccHhhHHHhhcCCCccccccccc
Q 028047 159 GQLCVVCLTRRRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMT 204 (214)
Q Consensus 159 ~~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~ 204 (214)
...|..|......-.. |.. |..|+.... .|+-|..+
T Consensus 55 p~kC~~C~qktVk~AY----h~i-C~~Ca~~~~-----vCaKC~k~ 90 (92)
T PF10217_consen 55 PKKCNKCQQKTVKHAY----HVI-CDPCAKELK-----VCAKCGKP 90 (92)
T ss_pred CccccccccchHHHHH----HHH-HHHHHHhhc-----cCcccCCC
Confidence 4579999876544333 666 999999976 79999764
No 191
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.56 E-value=45 Score=26.00 Aligned_cols=23 Identities=35% Similarity=0.546 Sum_probs=15.4
Q ss_pred cccccccccccccc---ceEEccCCC
Q 028047 157 PDGQLCVVCLTRRR---ISAFNPCGH 179 (214)
Q Consensus 157 ~~~~~C~IC~~~~~---~~~~lpCgH 179 (214)
.+.-+|+||++... .+.-|||-.
T Consensus 175 ddkGECvICLEdL~~GdtIARLPCLC 200 (205)
T KOG0801|consen 175 DDKGECVICLEDLEAGDTIARLPCLC 200 (205)
T ss_pred ccCCcEEEEhhhccCCCceeccceEE
Confidence 34568999998643 345678753
No 192
>PF15616 TerY-C: TerY-C metal binding domain
Probab=22.80 E-value=48 Score=24.88 Aligned_cols=44 Identities=23% Similarity=0.512 Sum_probs=29.9
Q ss_pred CCccccccccccccccceEEccCCCccccHhhHHHhhcCCCccccccccccc
Q 028047 155 DIPDGQLCVVCLTRRRISAFNPCGHLVCCRRCAISVEREASPKCPVCRMTVR 206 (214)
Q Consensus 155 ~~~~~~~C~IC~~~~~~~~~lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~i~ 206 (214)
++....-|+-|-....-++- .||+++ |.. ......||-|.+...
T Consensus 73 eL~g~PgCP~CGn~~~fa~C-~CGkl~-Ci~------g~~~~~CPwCg~~g~ 116 (131)
T PF15616_consen 73 ELIGAPGCPHCGNQYAFAVC-GCGKLF-CID------GEGEVTCPWCGNEGS 116 (131)
T ss_pred HhcCCCCCCCCcChhcEEEe-cCCCEE-EeC------CCCCEECCCCCCeee
Confidence 34455789999877666655 899998 632 222347999987653
No 193
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=22.69 E-value=29 Score=22.08 Aligned_cols=12 Identities=42% Similarity=0.924 Sum_probs=6.0
Q ss_pred cccccccccccc
Q 028047 196 PKCPVCRMTVRS 207 (214)
Q Consensus 196 ~~CP~CR~~i~~ 207 (214)
..||+|++++.-
T Consensus 3 v~CP~C~k~~~~ 14 (57)
T PF03884_consen 3 VKCPICGKPVEW 14 (57)
T ss_dssp EE-TTT--EEE-
T ss_pred ccCCCCCCeecc
Confidence 369999988754
No 194
>TIGR01620 hyp_HI0043 conserved hypothetical protein, TIGR01620. This model includes putative membrane proteins from alpha and gamma proteobacteria, each making up their own clade. The two clades have less than 25% identity between them. We could not find support for the assignment to the sequence from Brucella of being a GTP-binding protein.
Probab=22.56 E-value=2.2e+02 Score=24.42 Aligned_cols=42 Identities=19% Similarity=0.098 Sum_probs=18.7
Q ss_pred HHHHHhhhhhhhhhhhhhhhchhHHHHHHHHHHHHHHHHHHH
Q 028047 85 LMVVDLVNRSKILFWSGIVLGSLSIGILGYAIVRNWNRWKDR 126 (214)
Q Consensus 85 ~Li~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~r~~~~~~~~ 126 (214)
+++.++=....|+.|...++..+.+......+.|.|...++.
T Consensus 35 ~~i~~~~~~~~wLg~~~~~l~~~~~l~~~~~~~rE~~~l~RL 76 (289)
T TIGR01620 35 QWIRNLFQRSDWLGLTATIALIVIIFAGLALVGREWRRLMRL 76 (289)
T ss_pred HHHHHHHHhCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444333345554433233322333334466888754333
No 195
>PF12123 Amidase02_C: N-acetylmuramoyl-l-alanine amidase; InterPro: IPR021976 This domain is found in bacteria and viruses. This domain is about 50 amino acids in length. This domain is classified with the enzyme classification code 3.5.1.28 from EC. This domain is the C-terminal of the enzyme which hydrolyses the link between N-acetylmuramoyl residues and L-amino acid residues in certain cell-wall glycopeptides. ; PDB: 2L48_B.
Probab=22.36 E-value=87 Score=18.87 Aligned_cols=26 Identities=23% Similarity=0.368 Sum_probs=11.5
Q ss_pred ceeecCCCCCCeeeeccCHHHHHHHh
Q 028047 65 IPEIKSCKDLPYFLSEKTKDLMVVDL 90 (214)
Q Consensus 65 ~~~l~~~~~~p~~ls~~~~d~Li~~l 90 (214)
.+.+++-+|++|+.+....+.-+.++
T Consensus 7 ki~~~~~~Gl~y~vT~~~s~~~L~k~ 32 (45)
T PF12123_consen 7 KIIFQSKDGLPYFVTDPLSDAELDKF 32 (45)
T ss_dssp EEEE-T-TS-EEEEE----HHHHHHH
T ss_pred EEEEecCCCcEEEEeCCCCHHHHHHH
Confidence 34455558899999876544434433
No 196
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=22.25 E-value=25 Score=27.46 Aligned_cols=13 Identities=23% Similarity=0.746 Sum_probs=9.3
Q ss_pred Ccccccccccccc
Q 028047 195 SPKCPVCRMTVRS 207 (214)
Q Consensus 195 ~~~CP~CR~~i~~ 207 (214)
+..||+|..+-..
T Consensus 149 P~~CPiCga~k~~ 161 (166)
T COG1592 149 PEVCPICGAPKEK 161 (166)
T ss_pred CCcCCCCCChHHH
Confidence 3479999876444
No 197
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=21.74 E-value=34 Score=21.07 Aligned_cols=9 Identities=44% Similarity=1.029 Sum_probs=4.3
Q ss_pred ccccccccc
Q 028047 197 KCPVCRMTV 205 (214)
Q Consensus 197 ~CP~CR~~i 205 (214)
.||+|..+-
T Consensus 36 ~CP~C~a~K 44 (50)
T cd00730 36 VCPVCGAGK 44 (50)
T ss_pred CCCCCCCcH
Confidence 355554443
No 198
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=21.74 E-value=36 Score=22.02 Aligned_cols=11 Identities=36% Similarity=0.942 Sum_probs=8.8
Q ss_pred ccccccccccc
Q 028047 196 PKCPVCRMTVR 206 (214)
Q Consensus 196 ~~CP~CR~~i~ 206 (214)
..||+|++++.
T Consensus 7 v~CP~C~k~~~ 17 (62)
T PRK00418 7 VNCPTCGKPVE 17 (62)
T ss_pred ccCCCCCCccc
Confidence 47999999863
No 199
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=21.72 E-value=36 Score=18.77 Aligned_cols=14 Identities=29% Similarity=0.453 Sum_probs=9.7
Q ss_pred cccccccccccceE
Q 028047 196 PKCPVCRMTVRSSM 209 (214)
Q Consensus 196 ~~CP~CR~~i~~~~ 209 (214)
-.||+|..+-..+.
T Consensus 18 ~~CP~Cg~~~~~F~ 31 (33)
T cd00350 18 WVCPVCGAPKDKFE 31 (33)
T ss_pred CcCcCCCCcHHHcE
Confidence 37999987655444
No 200
>COG0364 Zwf Glucose-6-phosphate 1-dehydrogenase [Carbohydrate transport and metabolism]
Probab=21.63 E-value=94 Score=28.53 Aligned_cols=43 Identities=26% Similarity=0.278 Sum_probs=30.8
Q ss_pred cCceeceeeeeeeeecCCCeeeeEeeeeecCCceeecCC--CCCCeeeecc
Q 028047 33 GLKCPIGVLAEEKILPLGKDISAVGICSFKNGIPEIKSC--KDLPYFLSEK 81 (214)
Q Consensus 33 sg~~~~G~~~~E~~L~~g~~it~vGl~~~~~g~~~l~~~--~~~p~~ls~~ 81 (214)
.|....||++++.+-+.-.+-|=+++ .+.|... .|.||||...
T Consensus 292 ~g~~v~gY~eE~gv~~dS~tETFvA~------k~~IdnwRW~GVPFylRtG 336 (483)
T COG0364 292 DGKKVPGYLEEEGVAKDSNTETFVAI------KLEIDNWRWAGVPFYLRTG 336 (483)
T ss_pred CCcccCccccCCCCCCCCCcceeEEE------EEEecCCccCCCCEEEEcC
Confidence 66677899999988888777777774 2333344 5788888753
No 201
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=21.19 E-value=63 Score=19.17 Aligned_cols=20 Identities=30% Similarity=0.570 Sum_probs=14.3
Q ss_pred cccccccccceEEccCCCcc
Q 028047 162 CVVCLTRRRISAFNPCGHLV 181 (214)
Q Consensus 162 C~IC~~~~~~~~~lpCgH~~ 181 (214)
|..|.......+-|.|+|..
T Consensus 2 C~~C~~~~~l~~CL~C~~~~ 21 (50)
T smart00290 2 CSVCGTIENLWLCLTCGQVG 21 (50)
T ss_pred cccCCCcCCeEEecCCCCcc
Confidence 66777655555667899988
No 202
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=21.06 E-value=42 Score=24.03 Aligned_cols=24 Identities=21% Similarity=0.559 Sum_probs=15.4
Q ss_pred ccCCCccccHhhHHHhhcCCCccccccccc
Q 028047 175 NPCGHLVCCRRCAISVEREASPKCPVCRMT 204 (214)
Q Consensus 175 lpCgH~~~C~~C~~~~~~~~~~~CP~CR~~ 204 (214)
+.|||+|. +=...+. ..||-|...
T Consensus 6 trCG~vf~--~g~~~il----~GCp~CG~n 29 (112)
T COG3364 6 TRCGEVFD--DGSEEIL----SGCPKCGCN 29 (112)
T ss_pred cccccccc--cccHHHH----ccCccccch
Confidence 47999983 3344444 269998754
No 203
>PF06724 DUF1206: Domain of Unknown Function (DUF1206); InterPro: IPR009597 This region consists of two a pair of transmembrane helices and occurs three times in each of the family member proteins.
Probab=20.90 E-value=2.5e+02 Score=18.18 Aligned_cols=39 Identities=18% Similarity=0.371 Sum_probs=24.0
Q ss_pred cCHHHHHHHhhhhhhhhhhhhhhhchhHHHHHHHHHHHHHHHH
Q 028047 81 KTKDLMVVDLVNRSKILFWSGIVLGSLSIGILGYAIVRNWNRW 123 (214)
Q Consensus 81 ~~~d~Li~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~r~~~~~ 123 (214)
...+++...+.+.+ +..++++.++++++++.+++.++-+
T Consensus 31 ~~~~~~~~~l~~~p----~G~~ll~~vg~gli~~gi~~~~~a~ 69 (73)
T PF06724_consen 31 QGSQGALAWLLEQP----FGRWLLGAVGLGLIGYGIWQFVKAV 69 (73)
T ss_pred CCHHHHHHHHHhCC----CcHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566666666554 4555566667777777777666643
No 204
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=20.41 E-value=81 Score=30.58 Aligned_cols=40 Identities=23% Similarity=0.184 Sum_probs=29.9
Q ss_pred ccccccccccccceEEcc--CCCccccHhhHHHhhcCCCccccc
Q 028047 159 GQLCVVCLTRRRISAFNP--CGHLVCCRRCAISVEREASPKCPV 200 (214)
Q Consensus 159 ~~~C~IC~~~~~~~~~lp--CgH~~~C~~C~~~~~~~~~~~CP~ 200 (214)
...|.+|....+...+.+ |||.-+ .+|+.+|... ...||.
T Consensus 779 ~~~CtVC~~vi~G~~~~c~~C~H~gH-~sh~~sw~~~-~s~ca~ 820 (839)
T KOG0269|consen 779 SAKCTVCDLVIRGVDVWCQVCGHGGH-DSHLKSWFFK-ASPCAK 820 (839)
T ss_pred hcCceeecceeeeeEeeccccccccc-HHHHHHHHhc-CCCCcc
Confidence 458999998888777654 999986 8999999743 334554
No 205
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=20.31 E-value=39 Score=21.64 Aligned_cols=28 Identities=29% Similarity=0.737 Sum_probs=16.6
Q ss_pred cCCCccccHhhHHHhhc-CCCcccccccccc
Q 028047 176 PCGHLVCCRRCAISVER-EASPKCPVCRMTV 205 (214)
Q Consensus 176 pCgH~~~C~~C~~~~~~-~~~~~CP~CR~~i 205 (214)
|||..| .--+..+.. .....||.|.--+
T Consensus 26 PCGDRF--eIsLeDl~~GE~VArCPSCSLiv 54 (67)
T COG5216 26 PCGDRF--EISLEDLRNGEVVARCPSCSLIV 54 (67)
T ss_pred CCCCEe--EEEHHHhhCCceEEEcCCceEEE
Confidence 788888 344455543 2234699995443
No 206
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=20.28 E-value=43 Score=27.94 Aligned_cols=12 Identities=42% Similarity=0.993 Sum_probs=7.5
Q ss_pred ccccccccccce
Q 028047 197 KCPVCRMTVRSS 208 (214)
Q Consensus 197 ~CP~CR~~i~~~ 208 (214)
.||.|+..+.+.
T Consensus 157 ~C~~C~h~F~G~ 168 (278)
T PF15135_consen 157 HCPKCRHNFRGF 168 (278)
T ss_pred ecccccccchhh
Confidence 477777666554
No 207
>PF10886 DUF2685: Protein of unknown function (DUF2685); InterPro: IPR024362 This is a family of uncharacterised bacteriophage proteins. Their function in unknown.
Probab=20.17 E-value=62 Score=20.32 Aligned_cols=14 Identities=21% Similarity=0.702 Sum_probs=11.1
Q ss_pred ccccccccccceEE
Q 028047 197 KCPVCRMTVRSSMR 210 (214)
Q Consensus 197 ~CP~CR~~i~~~~~ 210 (214)
.|.+|+++|.....
T Consensus 3 ~CvVCKqpi~~a~~ 16 (54)
T PF10886_consen 3 ICVVCKQPIDDALV 16 (54)
T ss_pred eeeeeCCccCcceE
Confidence 69999999987643
No 208
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=20.16 E-value=77 Score=30.86 Aligned_cols=38 Identities=26% Similarity=0.590 Sum_probs=24.9
Q ss_pred ccccccccccc--eEEccCCCccccHhhHHHhhcCCCccccc
Q 028047 161 LCVVCLTRRRI--SAFNPCGHLVCCRRCAISVEREASPKCPV 200 (214)
Q Consensus 161 ~C~IC~~~~~~--~~~lpCgH~~~C~~C~~~~~~~~~~~CP~ 200 (214)
.|.||.-..+. .+-..|||+-+ .+|+..|++... .||.
T Consensus 1030 ~C~~C~l~V~gss~~Cg~C~Hv~H-~sc~~eWf~~gd-~Cps 1069 (1081)
T KOG0309|consen 1030 QCAICHLAVRGSSNFCGTCGHVGH-TSCMMEWFRTGD-VCPS 1069 (1081)
T ss_pred eeeeEeeEeeccchhhcccccccc-HHHHHHHHhcCC-cCCC
Confidence 46666544332 23368999996 899999996432 5664
No 209
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=20.09 E-value=30 Score=22.23 Aligned_cols=33 Identities=21% Similarity=0.629 Sum_probs=16.4
Q ss_pred cccccccccccccce----EEccCCCccccHhhHHHhh
Q 028047 158 DGQLCVVCLTRRRIS----AFNPCGHLVCCRRCAISVE 191 (214)
Q Consensus 158 ~~~~C~IC~~~~~~~----~~lpCgH~~~C~~C~~~~~ 191 (214)
+...|.+|...+.-. -=-.||+.+ |..|.....
T Consensus 8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~v-C~~Cs~~~~ 44 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRRRHHCRNCGRVV-CSSCSSQRI 44 (69)
T ss_dssp G-SB-TTT--B-BSSS-EEE-TTT--EE-ECCCS-EEE
T ss_pred CCCcCcCcCCcCCCceeeEccCCCCCEE-CCchhCCEE
Confidence 345799999887431 225799999 899987543
No 210
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=20.01 E-value=20 Score=21.35 Aligned_cols=12 Identities=25% Similarity=0.841 Sum_probs=8.8
Q ss_pred Cccccccccccc
Q 028047 195 SPKCPVCRMTVR 206 (214)
Q Consensus 195 ~~~CP~CR~~i~ 206 (214)
...||.|..++.
T Consensus 21 ~~~Cp~CG~~~~ 32 (46)
T PRK00398 21 GVRCPYCGYRIL 32 (46)
T ss_pred ceECCCCCCeEE
Confidence 347999987764
Done!