Query 018432
Match_columns 356
No_of_seqs 293 out of 1394
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 08:58:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018432.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018432hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0804 Cytoplasmic Zn-finger 100.0 3E-103 7E-108 774.0 26.0 296 1-298 4-308 (493)
2 PF07576 BRAP2: BRCA1-associat 100.0 2E-31 4.3E-36 224.1 12.9 104 57-161 4-108 (110)
3 PF02148 zf-UBP: Zn-finger in 99.8 1.1E-19 2.4E-24 138.3 5.6 60 221-280 1-61 (63)
4 KOG0944 Ubiquitin-specific pro 99.6 2.3E-16 5.1E-21 163.7 3.3 100 197-296 148-282 (763)
5 COG5207 UBP14 Isopeptidase T [ 99.4 5.9E-14 1.3E-18 142.5 3.9 62 217-278 172-243 (749)
6 smart00290 ZnF_UBP Ubiquitin C 99.3 9.8E-13 2.1E-17 95.0 4.1 49 220-268 1-49 (50)
7 cd02669 Peptidase_C19M A subfa 99.1 4.4E-11 9.6E-16 122.0 5.9 61 218-278 16-76 (440)
8 KOG1873 Ubiquitin-specific pro 99.0 1.1E-10 2.4E-15 123.1 1.9 88 189-276 45-143 (877)
9 PF13639 zf-RING_2: Ring finge 98.8 9.5E-10 2.1E-14 77.5 0.9 41 169-210 2-44 (44)
10 KOG4628 Predicted E3 ubiquitin 98.6 2.1E-08 4.5E-13 99.4 2.9 57 168-225 230-289 (348)
11 PF12678 zf-rbx1: RING-H2 zinc 98.4 1.1E-07 2.5E-12 74.4 2.4 44 167-210 19-73 (73)
12 PHA02929 N1R/p28-like protein; 98.2 5.3E-07 1.1E-11 85.7 2.6 48 166-213 173-226 (238)
13 COG5540 RING-finger-containing 98.2 7.2E-07 1.6E-11 86.6 1.7 45 168-213 324-371 (374)
14 KOG0804 Cytoplasmic Zn-finger 97.9 3.3E-06 7.1E-11 85.6 1.6 31 320-350 311-341 (493)
15 cd00162 RING RING-finger (Real 97.9 6.5E-06 1.4E-10 56.0 1.6 40 169-211 1-43 (45)
16 PF13923 zf-C3HC4_2: Zinc fing 97.7 1E-05 2.2E-10 55.6 1.0 37 170-209 1-39 (39)
17 PLN03208 E3 ubiquitin-protein 97.7 1.9E-05 4.1E-10 72.8 2.4 45 165-213 16-78 (193)
18 PHA02926 zinc finger-like prot 97.7 1.5E-05 3.3E-10 74.7 1.7 48 165-213 168-229 (242)
19 PF15227 zf-C3HC4_4: zinc fing 97.6 2.1E-05 4.6E-10 55.3 1.5 36 170-209 1-42 (42)
20 PF14634 zf-RING_5: zinc-RING 97.6 3.6E-05 7.7E-10 54.3 2.2 42 169-211 1-44 (44)
21 PF13920 zf-C3HC4_3: Zinc fing 97.5 4.1E-05 8.9E-10 55.2 1.7 44 166-213 1-47 (50)
22 PF00097 zf-C3HC4: Zinc finger 97.5 4.5E-05 9.7E-10 52.4 1.0 37 170-209 1-41 (41)
23 smart00184 RING Ring finger. E 97.4 6.8E-05 1.5E-09 49.0 1.5 36 170-209 1-39 (39)
24 PF12861 zf-Apc11: Anaphase-pr 97.4 8.2E-05 1.8E-09 60.2 2.1 42 169-212 34-80 (85)
25 KOG0320 Predicted E3 ubiquitin 97.3 0.00012 2.5E-09 66.7 1.5 45 165-211 129-175 (187)
26 KOG0802 E3 ubiquitin ligase [P 97.2 9.2E-05 2E-09 78.0 0.3 47 166-212 290-339 (543)
27 PF14259 RRM_6: RNA recognitio 97.2 0.0022 4.7E-08 48.1 7.7 65 68-133 1-65 (70)
28 KOG0823 Predicted E3 ubiquitin 97.0 0.00026 5.5E-09 66.8 1.5 43 167-213 47-94 (230)
29 TIGR00599 rad18 DNA repair pro 97.0 0.00031 6.8E-09 71.4 1.7 47 163-213 22-70 (397)
30 COG5243 HRD1 HRD ubiquitin lig 97.0 0.0003 6.4E-09 70.4 1.3 49 165-213 285-344 (491)
31 KOG0317 Predicted E3 ubiquitin 96.9 0.00045 9.7E-09 67.0 2.2 44 166-213 238-283 (293)
32 PF00076 RRM_1: RNA recognitio 96.9 0.0064 1.4E-07 44.7 7.7 66 68-134 1-66 (70)
33 KOG2177 Predicted E3 ubiquitin 96.9 0.00033 7E-09 64.2 0.7 44 163-210 9-54 (386)
34 COG5194 APC11 Component of SCF 96.9 0.00057 1.2E-08 54.7 2.0 45 168-212 32-79 (88)
35 smart00744 RINGv The RING-vari 96.8 0.00064 1.4E-08 49.4 1.6 40 169-210 1-49 (49)
36 smart00504 Ubox Modified RING 96.8 0.00087 1.9E-08 49.8 2.2 41 169-213 3-45 (63)
37 PF13445 zf-RING_UBOX: RING-ty 96.7 0.00061 1.3E-08 48.4 0.9 33 170-203 1-33 (43)
38 cd00590 RRM RRM (RNA recogniti 96.6 0.016 3.5E-07 41.8 7.9 67 68-135 2-68 (74)
39 KOG0828 Predicted E3 ubiquitin 96.2 0.0011 2.4E-08 68.5 -0.3 48 166-213 570-633 (636)
40 KOG1734 Predicted RING-contain 96.1 0.0021 4.6E-08 62.0 1.2 50 164-213 221-280 (328)
41 PF14835 zf-RING_6: zf-RING of 96.1 0.004 8.6E-08 48.0 2.2 46 165-213 5-50 (65)
42 smart00362 RRM_2 RNA recogniti 96.1 0.036 7.7E-07 39.7 7.3 65 68-134 2-66 (72)
43 TIGR00570 cdk7 CDK-activating 96.0 0.0041 8.9E-08 61.3 2.7 46 167-213 3-53 (309)
44 KOG2164 Predicted E3 ubiquitin 96.0 0.003 6.5E-08 65.5 1.8 43 167-213 186-235 (513)
45 PF11793 FANCL_C: FANCL C-term 95.8 0.0032 7E-08 49.0 0.8 35 168-202 3-41 (70)
46 KOG0827 Predicted E3 ubiquitin 95.7 0.0033 7.3E-08 63.3 0.5 42 168-210 5-52 (465)
47 COG5219 Uncharacterized conser 95.6 0.0026 5.5E-08 70.0 -0.8 45 167-211 1469-1520(1525)
48 KOG0825 PHD Zn-finger protein 95.4 0.0043 9.2E-08 67.2 -0.1 73 165-238 121-238 (1134)
49 smart00360 RRM RNA recognition 95.2 0.083 1.8E-06 37.5 6.4 62 72-134 3-65 (71)
50 COG5574 PEX10 RING-finger-cont 94.6 0.02 4.2E-07 55.3 2.2 45 165-213 213-261 (271)
51 PF04059 RRM_2: RNA recognitio 94.5 0.28 6E-06 40.8 8.5 79 66-144 2-83 (97)
52 KOG1493 Anaphase-promoting com 94.5 0.0075 1.6E-07 48.0 -0.9 28 185-212 47-79 (84)
53 KOG1039 Predicted E3 ubiquitin 94.1 0.02 4.3E-07 57.4 1.1 48 165-213 159-220 (344)
54 KOG2930 SCF ubiquitin ligase, 94.1 0.014 3.1E-07 48.9 0.1 25 187-211 79-105 (114)
55 PF04564 U-box: U-box domain; 93.9 0.031 6.7E-07 43.5 1.6 42 168-213 5-49 (73)
56 COG5432 RAD18 RING-finger-cont 93.9 0.021 4.5E-07 55.9 0.7 47 163-213 21-69 (391)
57 PF05883 Baculo_RING: Baculovi 93.3 0.023 5E-07 49.8 -0.0 35 167-202 26-66 (134)
58 KOG1645 RING-finger-containing 93.2 0.042 9.1E-07 55.9 1.5 45 167-211 4-53 (463)
59 PLN03134 glycine-rich RNA-bind 93.2 0.81 1.8E-05 40.2 9.5 70 64-134 33-103 (144)
60 KOG0311 Predicted E3 ubiquitin 92.1 0.014 3E-07 58.4 -3.4 47 164-213 40-89 (381)
61 PF11789 zf-Nse: Zinc-finger o 92.0 0.073 1.6E-06 39.9 1.1 41 165-208 9-53 (57)
62 KOG0287 Postreplication repair 91.8 0.037 7.9E-07 55.2 -0.8 47 163-213 19-67 (442)
63 PF10367 Vps39_2: Vacuolar sor 90.3 0.18 3.9E-06 40.9 2.1 33 165-199 76-108 (109)
64 KOG1941 Acetylcholine receptor 90.2 0.083 1.8E-06 53.7 -0.1 45 167-211 365-413 (518)
65 KOG4445 Uncharacterized conser 90.0 0.067 1.4E-06 52.6 -0.9 36 165-201 113-148 (368)
66 PF07800 DUF1644: Protein of u 89.8 0.09 1.9E-06 47.3 -0.2 37 166-202 1-46 (162)
67 TIGR01659 sex-lethal sex-letha 88.2 2.8 6E-05 42.2 9.1 73 61-134 103-176 (346)
68 TIGR01649 hnRNP-L_PTB hnRNP-L/ 87.0 5.7 0.00012 41.3 10.9 85 64-152 393-478 (481)
69 KOG0824 Predicted E3 ubiquitin 86.7 0.43 9.3E-06 47.1 2.2 45 165-213 5-52 (324)
70 KOG0297 TNF receptor-associate 86.6 0.34 7.4E-06 49.4 1.6 47 164-213 18-66 (391)
71 TIGR01661 ELAV_HUD_SF ELAV/HuD 86.0 4.9 0.00011 39.2 9.3 69 65-134 269-338 (352)
72 TIGR01622 SF-CC1 splicing fact 85.9 4.3 9.3E-05 41.3 9.2 70 62-133 86-156 (457)
73 KOG0978 E3 ubiquitin ligase in 85.4 0.21 4.6E-06 54.2 -0.6 46 164-213 640-688 (698)
74 KOG1952 Transcription factor N 84.9 0.44 9.4E-06 52.6 1.5 49 166-214 190-247 (950)
75 PF13893 RRM_5: RNA recognitio 84.9 2.2 4.8E-05 30.5 4.8 39 92-134 10-48 (56)
76 KOG1940 Zn-finger protein [Gen 84.9 0.46 1E-05 46.4 1.5 43 169-211 160-204 (276)
77 TIGR01622 SF-CC1 splicing fact 84.1 4.1 9E-05 41.4 8.1 68 65-133 186-254 (457)
78 PF14570 zf-RING_4: RING/Ubox 83.1 0.71 1.5E-05 33.7 1.5 42 170-211 1-45 (48)
79 KOG3970 Predicted E3 ubiquitin 81.1 0.79 1.7E-05 43.7 1.4 46 165-212 48-103 (299)
80 TIGR01661 ELAV_HUD_SF ELAV/HuD 81.0 7.1 0.00015 38.0 8.1 69 65-134 3-72 (352)
81 TIGR01649 hnRNP-L_PTB hnRNP-L/ 80.4 6.2 0.00013 41.1 7.9 64 66-133 97-160 (481)
82 TIGR01628 PABP-1234 polyadenyl 80.1 7.2 0.00016 41.0 8.3 69 65-134 285-353 (562)
83 TIGR01628 PABP-1234 polyadenyl 78.9 8.6 0.00019 40.5 8.4 69 64-133 177-245 (562)
84 PRK14890 putative Zn-ribbon RN 78.8 0.78 1.7E-05 34.9 0.5 32 205-240 27-58 (59)
85 COG2888 Predicted Zn-ribbon RN 78.5 0.8 1.7E-05 34.9 0.5 52 167-240 9-60 (61)
86 KOG2932 E3 ubiquitin ligase in 78.1 0.7 1.5E-05 45.9 0.0 51 186-244 106-156 (389)
87 KOG1785 Tyrosine kinase negati 77.7 0.86 1.9E-05 46.7 0.5 41 169-213 371-415 (563)
88 PHA02825 LAP/PHD finger-like p 76.8 1.8 4E-05 39.1 2.3 42 165-211 6-56 (162)
89 TIGR01659 sex-lethal sex-letha 76.6 12 0.00027 37.6 8.4 70 64-134 192-262 (346)
90 PF12906 RINGv: RING-variant d 76.4 1.1 2.4E-05 32.1 0.7 38 170-209 1-47 (47)
91 PHA02862 5L protein; Provision 75.1 1.2 2.7E-05 39.7 0.7 40 168-212 3-51 (156)
92 PLN03120 nucleic acid binding 75.0 14 0.00031 35.9 8.0 67 65-135 4-70 (260)
93 TIGR01642 U2AF_lg U2 snRNP aux 72.9 16 0.00034 37.7 8.3 69 65-134 295-364 (509)
94 TIGR01648 hnRNP-R-Q heterogene 71.9 16 0.00034 39.4 8.3 70 63-133 56-125 (578)
95 smart00160 RanBD Ran-binding d 71.8 6 0.00013 34.2 4.2 109 13-128 10-128 (130)
96 KOG2660 Locus-specific chromos 68.6 0.99 2.1E-05 45.0 -1.5 47 164-213 12-60 (331)
97 PF05715 zf-piccolo: Piccolo Z 68.6 4.1 8.9E-05 31.1 2.2 19 220-238 32-57 (61)
98 KOG1867 Ubiquitin-specific pro 68.4 2.2 4.8E-05 45.0 0.9 62 217-280 42-105 (492)
99 KOG3039 Uncharacterized conser 67.0 3.5 7.5E-05 39.9 1.9 47 166-212 220-268 (303)
100 PF03467 Smg4_UPF3: Smg-4/UPF3 66.7 9.8 0.00021 34.6 4.7 82 67-152 9-96 (176)
101 KOG4265 Predicted E3 ubiquitin 66.2 7.2 0.00016 39.4 4.0 43 167-213 290-335 (349)
102 PF07045 DUF1330: Protein of u 65.8 7 0.00015 29.5 3.0 21 105-125 37-57 (65)
103 PF00638 Ran_BP1: RanBP1 domai 65.5 23 0.00051 29.6 6.5 83 37-128 27-117 (122)
104 KOG2026 Spindle pole body prot 64.9 7.6 0.00017 39.8 3.9 72 218-290 29-100 (442)
105 KOG2114 Vacuolar assembly/sort 64.4 3.5 7.7E-05 45.8 1.5 43 165-211 838-880 (933)
106 cd00835 RanBD Ran-binding doma 64.1 26 0.00056 29.6 6.5 101 22-129 11-119 (122)
107 TIGR01642 U2AF_lg U2 snRNP aux 63.6 20 0.00043 36.9 6.9 66 63-134 173-249 (509)
108 PF04641 Rtf2: Rtf2 RING-finge 63.2 4.9 0.00011 38.6 2.2 47 166-212 112-159 (260)
109 KOG3268 Predicted E3 ubiquitin 62.9 3.3 7.1E-05 38.3 0.8 38 165-202 163-203 (234)
110 COG5175 MOT2 Transcriptional r 62.6 3.5 7.6E-05 41.6 1.0 48 165-212 12-62 (480)
111 KOG4159 Predicted E3 ubiquitin 62.0 3.4 7.4E-05 42.5 0.9 44 166-213 83-128 (398)
112 PHA03096 p28-like protein; Pro 60.4 3.4 7.3E-05 40.6 0.5 34 168-202 179-217 (284)
113 PF09416 UPF1_Zn_bind: RNA hel 60.4 17 0.00037 32.7 4.9 75 221-295 3-90 (152)
114 smart00361 RRM_1 RNA recogniti 60.2 26 0.00057 26.3 5.3 44 91-134 17-64 (70)
115 KOG1457 RNA binding protein (c 58.1 50 0.0011 31.9 7.8 71 64-134 33-104 (284)
116 TIGR01648 hnRNP-R-Q heterogene 58.1 33 0.00071 37.1 7.4 64 64-134 232-296 (578)
117 PF14369 zf-RING_3: zinc-finge 57.5 7.2 0.00016 26.4 1.6 16 267-282 1-16 (35)
118 COG0724 RNA-binding proteins ( 55.1 62 0.0013 28.5 7.8 70 65-135 115-185 (306)
119 PLN03121 nucleic acid binding 54.4 66 0.0014 31.1 8.1 68 64-135 4-71 (243)
120 KOG4660 Protein Mei2, essentia 53.2 16 0.00034 39.0 3.9 65 65-134 75-139 (549)
121 COG5222 Uncharacterized conser 51.2 6.2 0.00014 39.2 0.7 41 168-211 275-318 (427)
122 KOG1571 Predicted E3 ubiquitin 51.2 8.3 0.00018 39.0 1.5 42 166-212 304-345 (355)
123 cd00729 rubredoxin_SM Rubredox 50.2 8.3 0.00018 25.8 1.0 13 230-242 2-14 (34)
124 COG5152 Uncharacterized conser 49.0 5.3 0.00011 37.6 -0.2 27 169-199 198-224 (259)
125 KOG1428 Inhibitor of type V ad 48.8 8.3 0.00018 45.7 1.2 44 167-212 3486-3542(3738)
126 PF12773 DZR: Double zinc ribb 48.2 20 0.00042 25.3 2.7 9 219-227 30-38 (50)
127 cd00350 rubredoxin_like Rubred 47.7 7.8 0.00017 25.6 0.5 10 229-238 16-25 (33)
128 KOG3002 Zn finger protein [Gen 47.4 33 0.00071 34.1 5.0 108 161-281 42-187 (299)
129 KOG4185 Predicted E3 ubiquitin 47.3 11 0.00024 36.4 1.7 46 167-212 3-53 (296)
130 TIGR01645 half-pint poly-U bin 46.5 87 0.0019 34.2 8.4 69 65-134 204-273 (612)
131 PHA00626 hypothetical protein 45.9 12 0.00027 28.2 1.4 31 205-239 2-32 (59)
132 PF08274 PhnA_Zn_Ribbon: PhnA 44.1 14 0.0003 24.4 1.2 21 219-239 3-28 (30)
133 KOG1705 Uncharacterized conser 43.4 13 0.00027 30.9 1.2 39 203-241 27-66 (110)
134 PF03992 ABM: Antibiotic biosy 43.4 94 0.002 22.7 6.0 36 90-125 33-68 (78)
135 KOG1002 Nucleotide excision re 42.7 6 0.00013 42.1 -1.0 45 165-213 534-585 (791)
136 PRK10220 hypothetical protein; 42.4 18 0.00038 30.9 1.9 21 219-239 4-29 (111)
137 KOG3161 Predicted E3 ubiquitin 41.4 5.1 0.00011 43.5 -1.7 50 163-213 7-56 (861)
138 TIGR00686 phnA alkylphosphonat 41.2 18 0.00039 30.8 1.8 21 219-239 3-28 (109)
139 COG5470 Uncharacterized conser 41.2 22 0.00047 29.7 2.2 17 109-125 55-71 (96)
140 KOG2879 Predicted E3 ubiquitin 40.9 24 0.00052 34.7 2.9 45 165-212 237-285 (298)
141 PF08777 RRM_3: RNA binding mo 40.7 98 0.0021 25.7 6.2 59 66-130 2-60 (105)
142 KOG0825 PHD Zn-finger protein 39.7 10 0.00023 42.1 0.2 61 165-225 94-167 (1134)
143 PRK14873 primosome assembly pr 39.3 17 0.00036 39.9 1.7 35 205-239 394-431 (665)
144 KOG4443 Putative transcription 38.5 12 0.00026 40.7 0.5 26 188-213 40-72 (694)
145 KOG0117 Heterogeneous nuclear 37.8 1.6E+02 0.0035 31.1 8.3 73 62-135 80-153 (506)
146 KOG1295 Nonsense-mediated deca 37.4 26 0.00057 35.8 2.6 65 68-132 10-77 (376)
147 PF14446 Prok-RING_1: Prokaryo 36.6 30 0.00066 25.9 2.2 33 166-198 4-36 (54)
148 KOG1813 Predicted E3 ubiquitin 36.4 17 0.00037 36.1 1.1 39 169-211 243-283 (313)
149 TIGR01645 half-pint poly-U bin 36.4 1.1E+02 0.0023 33.6 7.1 69 65-134 107-176 (612)
150 KOG2034 Vacuolar sorting prote 36.1 13 0.00029 41.6 0.4 36 165-202 815-850 (911)
151 KOG4739 Uncharacterized protei 35.8 24 0.00051 33.9 1.9 42 170-213 6-47 (233)
152 KOG4307 RNA binding protein RB 35.2 92 0.002 34.6 6.3 67 65-132 867-934 (944)
153 KOG1609 Protein involved in mR 35.0 14 0.0003 35.5 0.2 47 167-213 78-133 (323)
154 KOG1100 Predicted E3 ubiquitin 34.0 25 0.00055 32.9 1.8 36 170-211 161-197 (207)
155 COG1592 Rubrerythrin [Energy p 33.5 18 0.00038 33.0 0.7 19 219-237 135-156 (166)
156 KOG1001 Helicase-like transcri 33.5 21 0.00046 39.2 1.4 41 168-213 455-499 (674)
157 PF11608 Limkain-b1: Limkain b 31.9 2E+02 0.0043 23.7 6.4 56 66-130 3-62 (90)
158 PF06906 DUF1272: Protein of u 31.9 46 0.001 25.2 2.5 43 166-210 4-48 (57)
159 PF11781 RRN7: RNA polymerase 31.4 30 0.00066 23.5 1.4 19 221-239 11-34 (36)
160 PRK14559 putative protein seri 31.3 37 0.0008 37.2 2.8 52 169-231 3-55 (645)
161 TIGR00595 priA primosomal prot 30.9 30 0.00064 36.5 1.9 35 205-239 224-262 (505)
162 KOG4212 RNA-binding protein hn 30.6 1.4E+02 0.003 31.6 6.5 72 59-130 38-109 (608)
163 KOG0298 DEAD box-containing he 30.2 12 0.00025 43.7 -1.3 47 163-212 1149-1197(1394)
164 KOG2068 MOT2 transcription fac 30.1 37 0.00081 34.1 2.3 46 167-212 249-296 (327)
165 PF03920 TLE_N: Groucho/TLE N- 30.0 57 0.0012 28.8 3.2 35 320-355 21-55 (135)
166 KOG3053 Uncharacterized conser 30.0 15 0.00032 35.9 -0.4 46 167-212 20-80 (293)
167 KOG0801 Predicted E3 ubiquitin 29.4 18 0.00038 33.1 -0.0 28 167-195 177-204 (205)
168 KOG4692 Predicted E3 ubiquitin 29.0 30 0.00065 35.3 1.5 44 165-212 420-465 (489)
169 PLN02931 nucleoside diphosphat 26.9 1.6E+02 0.0035 27.0 5.7 55 64-133 29-86 (177)
170 KOG4208 Nucleolar RNA-binding 26.7 2.3E+02 0.0049 27.0 6.7 70 63-132 47-117 (214)
171 PF07282 OrfB_Zn_ribbon: Putat 26.3 51 0.0011 24.7 2.1 28 203-239 28-55 (69)
172 KOG3800 Predicted E3 ubiquitin 25.5 37 0.0008 33.6 1.4 44 169-213 2-50 (300)
173 KOG4362 Transcriptional regula 25.2 23 0.0005 38.9 -0.1 45 164-212 18-67 (684)
174 smart00249 PHD PHD zinc finger 24.9 78 0.0017 20.8 2.6 29 169-198 1-29 (47)
175 KOG4330 Uncharacterized conser 24.9 97 0.0021 28.8 3.8 30 317-346 156-185 (206)
176 KOG1512 PHD Zn-finger protein 24.5 36 0.00078 33.8 1.1 60 166-225 257-336 (381)
177 PLN03213 repressor of silencin 24.2 2.9E+02 0.0063 29.8 7.5 67 64-134 9-77 (759)
178 PF10571 UPF0547: Uncharacteri 23.8 44 0.00096 21.2 1.1 20 205-225 2-21 (26)
179 PF04073 tRNA_edit: Aminoacyl- 23.7 1.4E+02 0.0031 24.6 4.5 61 74-135 2-62 (123)
180 PRK11788 tetratricopeptide rep 23.6 44 0.00096 32.4 1.6 26 215-240 351-378 (389)
181 KOG4660 Protein Mei2, essentia 23.4 80 0.0017 33.8 3.4 77 64-144 360-469 (549)
182 PF08746 zf-RING-like: RING-li 23.2 53 0.0011 23.1 1.5 37 170-209 1-43 (43)
183 KOG4275 Predicted E3 ubiquitin 22.7 32 0.00069 34.3 0.4 40 167-212 300-340 (350)
184 smart00661 RPOL9 RNA polymeras 22.7 72 0.0016 22.4 2.1 11 229-239 19-29 (52)
185 smart00132 LIM Zinc-binding do 22.7 70 0.0015 20.3 1.9 35 169-211 1-35 (39)
186 cd04414 NDPk6 Nucleoside dipho 22.6 1.5E+02 0.0032 25.7 4.5 40 80-133 19-58 (135)
187 PF01412 ArfGap: Putative GTPa 22.0 96 0.0021 26.0 3.1 53 215-271 10-62 (116)
188 KOG4172 Predicted E3 ubiquitin 22.0 18 0.00039 27.4 -1.2 42 168-213 8-53 (62)
189 KOG4680 Uncharacterized conser 21.8 4.6E+02 0.01 23.5 7.3 78 14-117 49-130 (153)
190 PF14447 Prok-RING_4: Prokaryo 21.3 44 0.00095 25.2 0.8 29 185-213 21-49 (55)
191 KOG1456 Heterogeneous nuclear 21.1 3.3E+02 0.0071 28.3 7.1 71 64-135 405-475 (494)
192 KOG0145 RNA-binding protein EL 21.1 1.3E+02 0.0029 29.7 4.1 70 64-134 126-196 (360)
193 PF15616 TerY-C: TerY-C metal 21.0 72 0.0016 28.0 2.1 43 162-212 72-114 (131)
194 PF08271 TF_Zn_Ribbon: TFIIB z 20.8 73 0.0016 22.0 1.8 11 229-239 18-28 (43)
195 PRK14559 putative protein seri 20.4 60 0.0013 35.6 1.9 34 205-239 3-36 (645)
196 PF10567 Nab6_mRNP_bdg: RNA-re 20.3 2.5E+02 0.0055 28.1 5.9 63 66-130 16-87 (309)
197 KOG0704 ADP-ribosylation facto 20.1 57 0.0012 33.2 1.5 23 216-238 17-47 (386)
198 PRK04023 DNA polymerase II lar 20.0 81 0.0018 36.4 2.8 20 219-238 652-671 (1121)
No 1
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=100.00 E-value=3.3e-103 Score=773.96 Aligned_cols=296 Identities=50% Similarity=0.953 Sum_probs=275.9
Q ss_pred CeEEEEee---cCCCCcccc-cccceeeecccc---cccccCCCCceeeeeeEEEEccCCCCCcCCCCCCCccEEEEEec
Q 018432 1 MFVLRVHS---VDDNHPITI-EEAGFCTVSSTA---TRSRANPNPKFSERRGLVHLFRGTSQSYQQNPNSRSTCIFVVAV 73 (356)
Q Consensus 1 ~~~~~~~~---~~~~~~~~~-~~~~~~~~~s~~---~~~~~~gnp~v~~~~G~vhl~r~~~~~~~~~~~~~~~~lciLaV 73 (356)
|++.++++ +++.++++. .+.-++.-.|.. ++-|+||||.|++|+|||||||.++.++.+.+.. ++|||||||
T Consensus 4 v~~e~~~~~~~~~ssr~i~~r~~d~g~~~~s~~~~~~~~~~sgnp~ve~t~GiiHLyk~n~~~s~~~~~~-~~mLcilaV 82 (493)
T KOG0804|consen 4 VIIESLVSEPLVDSSREISGRSEDSGFTSASERLPSQIKYSSGNPSVEETHGIIHLYKKNSHSSLKNASS-STMLCILAV 82 (493)
T ss_pred chhhhcccCcccccccccCCcccccccchhhhccCCcccccCCCCceeeeceeEEEEecCcccccccCCC-CcEEEEEec
Confidence 45677776 888888888 334477777765 3449999999999999999999999888776543 999999999
Q ss_pred CCCCCHHHHHHHhcccccceeEEEEeecCCCCcceEEEEEeCChhhHHHHHhhhcCCcCCCCCcCceEEEEEEEEEEeee
Q 018432 74 PNYLSSDEFVRFCGSHIDHVEELIFIRNDAMEDRYSVLIKLVDQLTADEFYSNLNGKRFSPAEAEVCHMLFMLSVEYTEL 153 (356)
Q Consensus 74 P~~ms~~d~l~F~~~~~~~i~~iriir~~~~~~~ymvLikF~s~~~A~eF~~~~ng~~Fnsle~e~C~vvfv~~v~~~~~ 153 (356)
|+|||++||++|++++..+|++||||| |++||||||||||++|++|+.||.+|||++||++||++||++||.+|+++.+
T Consensus 83 P~~mt~~Dll~F~~~~~~~I~~irivR-d~~pnrymvLIkFr~q~da~~Fy~efNGk~Fn~le~e~Chll~V~~ve~~~s 161 (493)
T KOG0804|consen 83 PAYMTSHDLLRFCASFIKQISDIRIVR-DGMPNRYMVLIKFRDQADADTFYEEFNGKQFNSLEPEVCHLLYVDRVEVTES 161 (493)
T ss_pred cccccHHHHHHHHHHHhhhhheeEEee-cCCCceEEEEEEeccchhHHHHHHHcCCCcCCCCCccceeEEEEEEEEEEec
Confidence 999999999999999999999999999 7899999999999999999999999999999999999999999999999999
Q ss_pred ccccCCCCCCCCCCCCCCccccccCCCCcceeeecCCCccchhhhhcccccccccccccccc--CCCCcccccCCCCcee
Q 018432 154 AEIASTPPAGFTELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWTVLSCQVCRFCHQQ--DERPTCSVCGTVENLW 231 (356)
Q Consensus 154 ~~~~~~~~~~~~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~~ssCPvCR~~~~~--~~~~~C~~C~~~~nlW 231 (356)
.+.+++++.+++|||||||||||||++++||++++|+|+||+.|+.+|.+++||||||++.+ .+...|.+|+..+|||
T Consensus 162 ~d~as~~~~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~scpvcR~~q~p~~ve~~~c~~c~~~~~Lw 241 (493)
T KOG0804|consen 162 EDGASEPPTGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDSSCPVCRYCQSPSVVESSLCLACGCTEDLW 241 (493)
T ss_pred ccCCCCCCCCcccCCCcchhHhhcCccccceeeeecccccchHHHhhcccCcChhhhhhcCcchhhhhhhhhhcccccEE
Confidence 99999999999999999999999999999999999999999999999999999999999873 1467899999999999
Q ss_pred eeccccceeccCCCCcHHhhhhhhcCCeeeEeCCCceEEEccCCceeecccccccCCceeeecCCCC
Q 018432 232 VCLICGFVGCGRYKEGHAVRHWKDTQHWYSLDLRTQQIWDYVGDNYVHRLNQSKADGKLVEMNSPCM 298 (356)
Q Consensus 232 iCL~CG~vGCgr~~~~HA~~H~~~t~H~~al~l~t~~VwcY~cd~yVHrl~q~k~dgklvel~~~~~ 298 (356)
|||+||+||||||..|||++||++|+|+|+|+|+|+|||||+||+|||||+|+|+|||+||++..+.
T Consensus 242 icliCg~vgcgrY~eghA~rHweet~H~yalel~tqrVWDYAGDnYVhRl~~~~~dGklve~~~~~~ 308 (493)
T KOG0804|consen 242 ICLICGNVGCGRYKEGHARRHWEETGHCYALELETQRVWDYAGDNYVHRLPQSKTDGKLVESSTEGD 308 (493)
T ss_pred EEEEccceecccccchhHHHHHHhhcceEEEeecceeeeecccchhhhhccccCCCCceEEeccccc
Confidence 9999999999999999999999999999999999999999999999999999999999999987653
No 2
>PF07576 BRAP2: BRCA1-associated protein 2; InterPro: IPR011422 These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening []. These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.
Probab=99.97 E-value=2e-31 Score=224.13 Aligned_cols=104 Identities=43% Similarity=0.770 Sum_probs=93.6
Q ss_pred cCCCCCCCccEEEEEecCCCCCHHHHHHHhcc-cccceeEEEEeecCCCCcceEEEEEeCChhhHHHHHhhhcCCcCCCC
Q 018432 57 YQQNPNSRSTCIFVVAVPNYLSSDEFVRFCGS-HIDHVEELIFIRNDAMEDRYSVLIKLVDQLTADEFYSNLNGKRFSPA 135 (356)
Q Consensus 57 ~~~~~~~~~~~lciLaVP~~ms~~d~l~F~~~-~~~~i~~iriir~~~~~~~ymvLikF~s~~~A~eF~~~~ng~~Fnsl 135 (356)
+..++.++++++|+|+||+||++.|+|.|+++ +.+.|+|+|||| +++||||||||||+||.+|++||..||||+||||
T Consensus 4 ~~~~~~~~~~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riir-d~~pnrymVLikF~~~~~Ad~Fy~~fNGk~Fnsl 82 (110)
T PF07576_consen 4 ESDLPDERRSTLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIR-DGTPNRYMVLIKFRDQESADEFYEEFNGKPFNSL 82 (110)
T ss_pred ccCCCCCCCceEEEEEeCcccccHHHHHHhhhcccccEEEEEEee-CCCCceEEEEEEECCHHHHHHHHHHhCCCccCCC
Confidence 34567788999999999999999999877765 589999999999 5679999999999999999999999999999999
Q ss_pred CcCceEEEEEEEEEEeeeccccCCCC
Q 018432 136 EAEVCHMLFMLSVEYTELAEIASTPP 161 (356)
Q Consensus 136 e~e~C~vvfv~~v~~~~~~~~~~~~~ 161 (356)
|+|+|||+||++|+++.+.+.+..++
T Consensus 83 EpE~ChvvfV~~Ve~~~~~~~~~~~~ 108 (110)
T PF07576_consen 83 EPETCHVVFVKSVEFTSSAEGASSPP 108 (110)
T ss_pred CCceeEEEEEEEEEEEcccccccCCC
Confidence 99999999999999999877665544
No 3
>PF02148 zf-UBP: Zn-finger in ubiquitin-hydrolases and other protein; InterPro: IPR001607 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 UBP-type zinc finger domains, which display some similarity with the Zn-binding domain of the insulinase family. The UBP-type zinc finger domain is found only in a small subfamily of ubiquitin C-terminal hydrolases (deubiquitinases or UBP) [, ], All members of this subfamily are isopeptidase-T, which are known to cleave isopeptide bonds between ubiquitin moieties. Some of the proteins containing an UBP zinc finger include: Homo sapiens (Human) deubiquitinating enzyme 13 (UBPD) Human deubiquitinating enzyme 5 (UBP5) Dictyostelium discoideum (Slime mold) deubiquitinating enzyme A (UBPA) Saccharomyces cerevisiae (Baker's yeast) deubiquitinating enzyme 8 (UBP8) Yeast deubiquitinating enzyme 14 (UBP14) More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3GV4_A 3PHD_B 3C5K_A 2UZG_A 3IHP_B 2G43_B 2G45_D 2I50_A 3MHH_A 3MHS_A ....
Probab=99.79 E-value=1.1e-19 Score=138.31 Aligned_cols=60 Identities=55% Similarity=1.242 Sum_probs=53.4
Q ss_pred ccccCCC-CceeeeccccceeccCCCCcHHhhhhhhcCCeeeEeCCCceEEEccCCceeec
Q 018432 221 CSVCGTV-ENLWVCLICGFVGCGRYKEGHAVRHWKDTQHWYSLDLRTQQIWDYVGDNYVHR 280 (356)
Q Consensus 221 C~~C~~~-~nlWiCL~CG~vGCgr~~~~HA~~H~~~t~H~~al~l~t~~VwcY~cd~yVHr 280 (356)
|.+|+.. .++|+||+||++||||+.++||++|+++++|++++++.+..||||.||+||+.
T Consensus 1 C~~C~~~~~~lw~CL~Cg~~~C~~~~~~Ha~~H~~~~~H~l~v~~~~~~i~C~~C~~~v~~ 61 (63)
T PF02148_consen 1 CSVCGSTNSNLWLCLTCGYVGCGRYSNGHALKHYKETGHPLAVSLSTGSIWCYACDDYVYD 61 (63)
T ss_dssp -SSSHTCSSSEEEETTTS-EEETTTSTSHHHHHHHHHT--EEEETTTTCEEETTTTEEEES
T ss_pred CCCCCCcCCceEEeCCCCcccccCCcCcHHHHhhcccCCeEEEECCCCeEEEcCCCcEEeC
Confidence 6788877 89999999999999999999999999999999999999999999999999974
No 4
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=99.61 E-value=2.3e-16 Score=163.72 Aligned_cols=100 Identities=33% Similarity=0.642 Sum_probs=81.2
Q ss_pred hhhcccccccccccccc----------ccCCCCcccccCCCCceeeeccccceeccCCC------CcHHhhhhhhcCCee
Q 018432 197 CTAKWTVLSCQVCRFCH----------QQDERPTCSVCGTVENLWVCLICGFVGCGRYK------EGHAVRHWKDTQHWY 260 (356)
Q Consensus 197 Cl~kW~~ssCPvCR~~~----------~~~~~~~C~~C~~~~nlWiCL~CG~vGCgr~~------~~HA~~H~~~t~H~~ 260 (356)
=+..|....-++|++.. .++..++|..|++++|||+||+||.|||||.+ +|||+.||++|+||+
T Consensus 148 ~~~aWd~Evr~v~k~~~nl~q~dng~~~~~~gwkCs~CDL~~NLWlcLtcG~v~CGR~qfg~~GgNgHA~~HYr~tghPL 227 (763)
T KOG0944|consen 148 RVNAWDNEVRTVSKHANNLSQIDNGKRIPPSGWKCSKCDLTENLWLCLTCGSVGCGRKQFGGSGGNGHALSHYRETGHPL 227 (763)
T ss_pred hhhhhhhheeeccCCCCChhhcccCcccCCCcceecccCcccceEEEeccCceeecceeecCCCCCcchHHhhhhcCCce
Confidence 56678765545666544 14568999999999999999999999999963 889999999999999
Q ss_pred eEeCCC-----ceEEEccCCcee-------ecc-------cccccCCceeeecCC
Q 018432 261 SLDLRT-----QQIWDYVGDNYV-------HRL-------NQSKADGKLVEMNSP 296 (356)
Q Consensus 261 al~l~t-----~~VwcY~cd~yV-------Hrl-------~q~k~dgklvel~~~ 296 (356)
|+.|+| .+||||.||+.| |.. -..|++..++|++..
T Consensus 228 aVKLgsIs~dg~DvycY~cDd~v~dPnl~~hl~hfGId~~~m~kteksl~elel~ 282 (763)
T KOG0944|consen 228 AVKLGSISPDGADVYCYDCDDEVRDPNLESHLSHFGIDMAKMDKTEKSLVELELD 282 (763)
T ss_pred EEEecccCCCccceeeecccccccCccHHHHHHhcCccHHHhccchhHHHHHHHH
Confidence 999986 899999999998 221 156778788877544
No 5
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=99.43 E-value=5.9e-14 Score=142.50 Aligned_cols=62 Identities=44% Similarity=0.962 Sum_probs=57.1
Q ss_pred CCCcccccCCCCceeeeccccceeccCCC-----CcHHhhhhhhcCCeeeEeCCC-----ceEEEccCCcee
Q 018432 217 ERPTCSVCGTVENLWVCLICGFVGCGRYK-----EGHAVRHWKDTQHWYSLDLRT-----QQIWDYVGDNYV 278 (356)
Q Consensus 217 ~~~~C~~C~~~~nlWiCL~CG~vGCgr~~-----~~HA~~H~~~t~H~~al~l~t-----~~VwcY~cd~yV 278 (356)
...+|..|++..|||+||+||++||||-+ +|||+.||++|+||+|+.|.+ .++|||.||+.+
T Consensus 172 ~~~~Cs~CDl~~nLW~Cl~CG~vgCGR~QyG~~GngHAlsHY~~t~Hplavkl~Sls~~~~diyCY~CD~e~ 243 (749)
T COG5207 172 GGLKCSLCDLKTNLWVCLSCGYVGCGRMQYGAEGNGHALSHYEETQHPLAVKLPSLSKEDCDIYCYLCDSEI 243 (749)
T ss_pred CCceeccccchhceEEEEecCcccccceeecCCCCcchhhhhhccCCceEEEccccccccccEEEEecCccc
Confidence 46799999999999999999999999953 789999999999999999874 799999999985
No 6
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=99.33 E-value=9.8e-13 Score=95.04 Aligned_cols=49 Identities=59% Similarity=1.236 Sum_probs=46.2
Q ss_pred cccccCCCCceeeeccccceeccCCCCcHHhhhhhhcCCeeeEeCCCce
Q 018432 220 TCSVCGTVENLWVCLICGFVGCGRYKEGHAVRHWKDTQHWYSLDLRTQQ 268 (356)
Q Consensus 220 ~C~~C~~~~nlWiCL~CG~vGCgr~~~~HA~~H~~~t~H~~al~l~t~~ 268 (356)
+|.+|+...++|+||+||++||+|+..+|+..|+++++|++++++.++.
T Consensus 1 ~C~~C~~~~~l~~CL~C~~~~c~~~~~~h~~~H~~~t~H~~~~~~~~~~ 49 (50)
T smart00290 1 RCSVCGTIENLWLCLTCGQVGCGRYQLGHALEHFEETGHPLVVKLGTQR 49 (50)
T ss_pred CcccCCCcCCeEEecCCCCcccCCCCCcHHHHHhhhhCCCEEEEccccc
Confidence 5899999999999999999999999999999999999999999998864
No 7
>cd02669 Peptidase_C19M A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=99.14 E-value=4.4e-11 Score=122.01 Aligned_cols=61 Identities=30% Similarity=0.441 Sum_probs=57.8
Q ss_pred CCcccccCCCCceeeeccccceeccCCCCcHHhhhhhhcCCeeeEeCCCceEEEccCCcee
Q 018432 218 RPTCSVCGTVENLWVCLICGFVGCGRYKEGHAVRHWKDTQHWYSLDLRTQQIWDYVGDNYV 278 (356)
Q Consensus 218 ~~~C~~C~~~~nlWiCL~CG~vGCgr~~~~HA~~H~~~t~H~~al~l~t~~VwcY~cd~yV 278 (356)
.-.|.+|....|+|+||+||.+.|||..++||..|+.+++|+++++++|++||||.||+||
T Consensus 16 e~~C~~~~~~~n~~~CL~cg~~~~g~~~~~ha~~H~~~~~H~~~v~l~t~~~yc~~~~~~v 76 (440)
T cd02669 16 EKVCSVSLSNLNVYACLVCGKYFQGRGKGSHAYTHSLEDNHHVFLNLETLKFYCLPDNYEI 76 (440)
T ss_pred cccccccCCCCcEEEEcccCCeecCCCCCcHHHHHhhccCCCEEEECCCCCEEEeCCCCEE
Confidence 4579999999999999999988888888999999999999999999999999999999999
No 8
>KOG1873 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=99.00 E-value=1.1e-10 Score=123.12 Aligned_cols=88 Identities=25% Similarity=0.577 Sum_probs=62.2
Q ss_pred CCCccchhhhhccc-------cccccccccccccCCCCcccccCCCCceeeeccccceeccC-CCCcHHhhhhhhc---C
Q 018432 189 CDHSFQCSCTAKWT-------VLSCQVCRFCHQQDERPTCSVCGTVENLWVCLICGFVGCGR-YKEGHAVRHWKDT---Q 257 (356)
Q Consensus 189 C~H~FH~~Cl~kW~-------~ssCPvCR~~~~~~~~~~C~~C~~~~nlWiCL~CG~vGCgr-~~~~HA~~H~~~t---~ 257 (356)
|.|.-|.--+.+.. +..|..|...........=..=.....+|+||.||+.|||| ...+||++||+.. .
T Consensus 45 C~Hi~Kav~l~~lk~~iks~~~~~C~eC~e~~~~k~g~s~~~~~~~~~iWLCLkCG~q~CG~~~~~~halkH~~~~r~~~ 124 (877)
T KOG1873|consen 45 CQHIKKAVDLSHLKRAIKSLLWIKCSECNEEVKVKDGGSSDQFEFDNAIWLCLKCGYQGCGRNSESQHALKHFLTPRSEP 124 (877)
T ss_pred cchHHhhhcHHHHHHHHHHHHHHHHHHhhhcceeccCCCccccccccceeeecccCCeeeCCCcccchhhhhhcccCCCC
Confidence 77776655444432 35677776533211110000011234699999999999999 6789999999875 7
Q ss_pred CeeeEeCCCceEEEccCCc
Q 018432 258 HWYSLDLRTQQIWDYVGDN 276 (356)
Q Consensus 258 H~~al~l~t~~VwcY~cd~ 276 (356)
|+++|++.++.+|||.||.
T Consensus 125 Hclvin~~n~~~WCy~Cd~ 143 (877)
T KOG1873|consen 125 HCLVINLINWLIWCYSCDA 143 (877)
T ss_pred eeEEEEeeeeeeEEEeccc
Confidence 9999999999999999999
No 9
>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=98.82 E-value=9.5e-10 Score=77.47 Aligned_cols=41 Identities=41% Similarity=1.008 Sum_probs=35.3
Q ss_pred CCCccccccCCCCcceeeecCCCccchhhhhccc--cccccccc
Q 018432 169 TCPICLERLDPDTSGILSTICDHSFQCSCTAKWT--VLSCQVCR 210 (356)
Q Consensus 169 tCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~--~ssCPvCR 210 (356)
+|+||++.++.+ ..+..++|+|.||..|+.+|. ..+||+||
T Consensus 2 ~C~IC~~~~~~~-~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDG-EKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTT-SCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCcCCChhhcCC-CeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 699999999874 457788899999999999997 57899997
No 10
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.60 E-value=2.1e-08 Score=99.43 Aligned_cols=57 Identities=26% Similarity=0.556 Sum_probs=46.2
Q ss_pred CCCCccccccCCCCcceeeecCCCccchhhhhccc---cccccccccccccCCCCcccccC
Q 018432 168 PTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT---VLSCQVCRFCHQQDERPTCSVCG 225 (356)
Q Consensus 168 ptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~---~ssCPvCR~~~~~~~~~~C~~C~ 225 (356)
-+|.||||.+.++ +.+..+||+|.||+.|+++|+ ...||+||.....+....+.++.
T Consensus 230 ~~CaIClEdY~~G-dklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~~~~~~e~ 289 (348)
T KOG4628|consen 230 DTCAICLEDYEKG-DKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSGSEPVSED 289 (348)
T ss_pred ceEEEeecccccC-CeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCCCCCCccCC
Confidence 4999999999997 468889999999999999998 25699999865555555555553
No 11
>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=98.42 E-value=1.1e-07 Score=74.40 Aligned_cols=44 Identities=32% Similarity=0.763 Sum_probs=33.8
Q ss_pred CCCCCccccccCCCC---------cceeeecCCCccchhhhhccc--cccccccc
Q 018432 167 LPTCPICLERLDPDT---------SGILSTICDHSFQCSCTAKWT--VLSCQVCR 210 (356)
Q Consensus 167 lptCpICLe~ld~~~---------sgilt~~C~H~FH~~Cl~kW~--~ssCPvCR 210 (356)
...|+||++.|.+.. ..+....|+|.||..|+.+|+ +.+||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 446999999994321 234556899999999999998 57999998
No 12
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.24 E-value=5.3e-07 Score=85.67 Aligned_cols=48 Identities=27% Similarity=0.605 Sum_probs=37.5
Q ss_pred CCCCCCccccccCCCCc----ceeeecCCCccchhhhhccc--ccccccccccc
Q 018432 166 ELPTCPICLERLDPDTS----GILSTICDHSFQCSCTAKWT--VLSCQVCRFCH 213 (356)
Q Consensus 166 elptCpICLe~ld~~~s----gilt~~C~H~FH~~Cl~kW~--~ssCPvCR~~~ 213 (356)
...+||||++.+.+... -.+.++|+|.||..|+.+|. ..+||+||...
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~ 226 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPF 226 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEe
Confidence 45799999998765321 02345899999999999997 57999999854
No 13
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.15 E-value=7.2e-07 Score=86.60 Aligned_cols=45 Identities=31% Similarity=0.775 Sum_probs=39.3
Q ss_pred CCCCccccccCCCCcceeeecCCCccchhhhhccc---ccccccccccc
Q 018432 168 PTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT---VLSCQVCRFCH 213 (356)
Q Consensus 168 ptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~---~ssCPvCR~~~ 213 (356)
-.|.||++.+-.. ..+..+||+|.||..|++||. ...||+||...
T Consensus 324 veCaICms~fiK~-d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~i 371 (374)
T COG5540 324 VECAICMSNFIKN-DRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAI 371 (374)
T ss_pred ceEEEEhhhhccc-ceEEEeccCceechhHHHHHHhhhcccCCccCCCC
Confidence 5899999998765 458889999999999999998 37899999865
No 14
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.93 E-value=3.3e-06 Score=85.65 Aligned_cols=31 Identities=29% Similarity=0.401 Sum_probs=27.0
Q ss_pred hchhHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q 018432 320 FNSKVEAIVDEYNRLLATQLETQRQVSTSFP 350 (356)
Q Consensus 320 ~~~K~e~~~~ey~~ll~sqLe~Qr~yyE~~l 350 (356)
...|.+.+.+||+.||+||||+||.|||+.+
T Consensus 311 ~~~~~~~~~~~~s~ll~sqleSqr~y~e~~~ 341 (493)
T KOG0804|consen 311 RKDDCDSLELEYSPLLTSQLESQRKYYEQIM 341 (493)
T ss_pred cccCcceEEeecchhhhhhhhHHHHHHHHHH
Confidence 3577888999999999999999999999765
No 15
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=97.86 E-value=6.5e-06 Score=55.99 Aligned_cols=40 Identities=40% Similarity=0.939 Sum_probs=32.3
Q ss_pred CCCccccccCCCCcceeeecCCCccchhhhhccc---ccccccccc
Q 018432 169 TCPICLERLDPDTSGILSTICDHSFQCSCTAKWT---VLSCQVCRF 211 (356)
Q Consensus 169 tCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~---~ssCPvCR~ 211 (356)
+|+||++.+.. .+...+|+|.||..|+..|. ...||+||.
T Consensus 1 ~C~iC~~~~~~---~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~ 43 (45)
T cd00162 1 ECPICLEEFRE---PVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRT 43 (45)
T ss_pred CCCcCchhhhC---ceEecCCCChhcHHHHHHHHHhCcCCCCCCCC
Confidence 59999999843 24555699999999999997 357999986
No 16
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=97.74 E-value=1e-05 Score=55.56 Aligned_cols=37 Identities=43% Similarity=0.967 Sum_probs=30.0
Q ss_pred CCccccccCCCCcceeeecCCCccchhhhhccc--ccccccc
Q 018432 170 CPICLERLDPDTSGILSTICDHSFQCSCTAKWT--VLSCQVC 209 (356)
Q Consensus 170 CpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~--~ssCPvC 209 (356)
||||++.+.+ .++.++|+|.|...|+.+|. +..||+|
T Consensus 1 C~iC~~~~~~---~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD---PVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS---EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC---cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 8999999886 35678999999999999996 5678877
No 17
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=97.70 E-value=1.9e-05 Score=72.78 Aligned_cols=45 Identities=33% Similarity=0.725 Sum_probs=35.8
Q ss_pred CCCCCCCccccccCCCCcceeeecCCCccchhhhhcccc------------------cccccccccc
Q 018432 165 TELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWTV------------------LSCQVCRFCH 213 (356)
Q Consensus 165 ~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~~------------------ssCPvCR~~~ 213 (356)
.+..+||||++.+.+. +.++|+|.|+..|+.+|.. ..||+||...
T Consensus 16 ~~~~~CpICld~~~dP----VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~I 78 (193)
T PLN03208 16 GGDFDCNICLDQVRDP----VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDV 78 (193)
T ss_pred CCccCCccCCCcCCCc----EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcC
Confidence 4567999999987653 4458999999999999952 3699999754
No 18
>PHA02926 zinc finger-like protein; Provisional
Probab=97.69 E-value=1.5e-05 Score=74.71 Aligned_cols=48 Identities=27% Similarity=0.666 Sum_probs=36.1
Q ss_pred CCCCCCCccccccCCC------CcceeeecCCCccchhhhhccccc--------ccccccccc
Q 018432 165 TELPTCPICLERLDPD------TSGILSTICDHSFQCSCTAKWTVL--------SCQVCRFCH 213 (356)
Q Consensus 165 ~elptCpICLe~ld~~------~sgilt~~C~H~FH~~Cl~kW~~s--------sCPvCR~~~ 213 (356)
.+.-+|+||+|..-+. .-|+ ...|+|.|+..|+.+|... +||+||...
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGI-L~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f 229 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGL-LDSCNHIFCITCINIWHRTRRETGASDNCPICRTRF 229 (242)
T ss_pred cCCCCCccCccccccccccccccccc-cCCCCchHHHHHHHHHHHhccccCcCCcCCCCccee
Confidence 4467999999986321 1243 4589999999999999853 399999754
No 19
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=97.65 E-value=2.1e-05 Score=55.32 Aligned_cols=36 Identities=42% Similarity=0.878 Sum_probs=26.5
Q ss_pred CCccccccCCCCcceeeecCCCccchhhhhcccc------cccccc
Q 018432 170 CPICLERLDPDTSGILSTICDHSFQCSCTAKWTV------LSCQVC 209 (356)
Q Consensus 170 CpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~~------ssCPvC 209 (356)
||||++-|.+ .+++.|+|+|-..|+.+|.. ..||+|
T Consensus 1 CpiC~~~~~~----Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD----PVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS----EEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCC----ccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999987 47789999999999998852 357665
No 20
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=97.61 E-value=3.6e-05 Score=54.34 Aligned_cols=42 Identities=31% Similarity=0.695 Sum_probs=35.5
Q ss_pred CCCccccccCCCCcceeeecCCCccchhhhhccc--ccccccccc
Q 018432 169 TCPICLERLDPDTSGILSTICDHSFQCSCTAKWT--VLSCQVCRF 211 (356)
Q Consensus 169 tCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~--~ssCPvCR~ 211 (356)
.|++|++++.+. .....+.|+|.|...|+.++. ...||+||+
T Consensus 1 ~C~~C~~~~~~~-~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEE-RRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCC-CCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 499999999443 346778999999999999998 788999984
No 21
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=97.53 E-value=4.1e-05 Score=55.23 Aligned_cols=44 Identities=30% Similarity=0.638 Sum_probs=34.9
Q ss_pred CCCCCCccccccCCCCcceeeecCCCc-cchhhhhccc--ccccccccccc
Q 018432 166 ELPTCPICLERLDPDTSGILSTICDHS-FQCSCTAKWT--VLSCQVCRFCH 213 (356)
Q Consensus 166 elptCpICLe~ld~~~sgilt~~C~H~-FH~~Cl~kW~--~ssCPvCR~~~ 213 (356)
|...|+||++.... ++..+|+|. |...|..+|. ...||+||...
T Consensus 1 ~~~~C~iC~~~~~~----~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i 47 (50)
T PF13920_consen 1 EDEECPICFENPRD----VVLLPCGHLCFCEECAERLLKRKKKCPICRQPI 47 (50)
T ss_dssp -HSB-TTTSSSBSS----EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-
T ss_pred CcCCCccCCccCCc----eEEeCCCChHHHHHHhHHhcccCCCCCcCChhh
Confidence 34689999998653 577799999 9999999995 68899999753
No 22
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=97.45 E-value=4.5e-05 Score=52.44 Aligned_cols=37 Identities=41% Similarity=1.057 Sum_probs=30.7
Q ss_pred CCccccccCCCCcceeeecCCCccchhhhhcccc----cccccc
Q 018432 170 CPICLERLDPDTSGILSTICDHSFQCSCTAKWTV----LSCQVC 209 (356)
Q Consensus 170 CpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~~----ssCPvC 209 (356)
|+||++.+... ...++|+|.|...|+.+|.. ..||+|
T Consensus 1 C~iC~~~~~~~---~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDP---VILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSE---EEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCC---CEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999998864 35789999999999999963 567766
No 23
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=97.41 E-value=6.8e-05 Score=49.04 Aligned_cols=36 Identities=44% Similarity=1.053 Sum_probs=28.9
Q ss_pred CCccccccCCCCcceeeecCCCccchhhhhccc---ccccccc
Q 018432 170 CPICLERLDPDTSGILSTICDHSFQCSCTAKWT---VLSCQVC 209 (356)
Q Consensus 170 CpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~---~ssCPvC 209 (356)
|+||++... ....++|+|.||..|+..|. ...||+|
T Consensus 1 C~iC~~~~~----~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELK----DPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCC----CcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 899999833 35667899999999999996 3568876
No 24
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=97.41 E-value=8.2e-05 Score=60.20 Aligned_cols=42 Identities=31% Similarity=0.679 Sum_probs=30.5
Q ss_pred CCCccccccCCCCcceeeecCCCccchhhhhcccc-----ccccccccc
Q 018432 169 TCPICLERLDPDTSGILSTICDHSFQCSCTAKWTV-----LSCQVCRFC 212 (356)
Q Consensus 169 tCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~~-----ssCPvCR~~ 212 (356)
+||.|...-|+ -.++.-.|+|.||..||.+|.+ ..||+||..
T Consensus 34 ~Cp~Ck~Pgd~--Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~ 80 (85)
T PF12861_consen 34 CCPDCKFPGDD--CPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQP 80 (85)
T ss_pred CCCCccCCCCC--CceeeccCccHHHHHHHHHHHccccCCCCCCCcCCe
Confidence 55555555433 2355567999999999999973 579999964
No 25
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.25 E-value=0.00012 Score=66.65 Aligned_cols=45 Identities=31% Similarity=0.659 Sum_probs=37.7
Q ss_pred CCCCCCCccccccCCCCcceeeecCCCccchhhhhccc--ccccccccc
Q 018432 165 TELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT--VLSCQVCRF 211 (356)
Q Consensus 165 ~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~--~ssCPvCR~ 211 (356)
.+.-.|||||+.+.+-+ +..+.|+|.|...|+..-. ...||+|++
T Consensus 129 ~~~~~CPiCl~~~sek~--~vsTkCGHvFC~~Cik~alk~~~~CP~C~k 175 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKV--PVSTKCGHVFCSQCIKDALKNTNKCPTCRK 175 (187)
T ss_pred ccccCCCceecchhhcc--ccccccchhHHHHHHHHHHHhCCCCCCccc
Confidence 45679999999998742 4678999999999998775 578999996
No 26
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.20 E-value=9.2e-05 Score=77.98 Aligned_cols=47 Identities=32% Similarity=0.644 Sum_probs=38.6
Q ss_pred CCCCCCccccccCCCCc-ceeeecCCCccchhhhhccc--cccccccccc
Q 018432 166 ELPTCPICLERLDPDTS-GILSTICDHSFQCSCTAKWT--VLSCQVCRFC 212 (356)
Q Consensus 166 elptCpICLe~ld~~~s-gilt~~C~H~FH~~Cl~kW~--~ssCPvCR~~ 212 (356)
....|+||+|.|..... ....++|+|.||..|+.+|. ..+||.||..
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~ 339 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTV 339 (543)
T ss_pred cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhh
Confidence 37799999999876311 14567999999999999997 6899999983
No 27
>PF14259 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....
Probab=97.18 E-value=0.0022 Score=48.12 Aligned_cols=65 Identities=18% Similarity=0.357 Sum_probs=53.8
Q ss_pred EEEEecCCCCCHHHHHHHhcccccceeEEEEeecCCCCcceEEEEEeCChhhHHHHHhhhcCCcCC
Q 018432 68 IFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDAMEDRYSVLIKLVDQLTADEFYSNLNGKRFS 133 (356)
Q Consensus 68 lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~~~~~ymvLikF~s~~~A~eF~~~~ng~~Fn 133 (356)
|.|=.+|..++..|+..|+..+ ..|..++++++..-..+-.++++|.+.+.|.++....+|..|+
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~-g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~ 65 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRF-GPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEID 65 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTS-SBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEET
T ss_pred CEEeCCCCCCCHHHHHHHHHhc-CCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEEC
Confidence 5678899999999999999887 4699999999643234668999999999999999999988775
No 28
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.03 E-value=0.00026 Score=66.78 Aligned_cols=43 Identities=30% Similarity=0.724 Sum_probs=35.3
Q ss_pred CCCCCccccccCCCCcceeeecCCCccchhhhhccc-----ccccccccccc
Q 018432 167 LPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT-----VLSCQVCRFCH 213 (356)
Q Consensus 167 lptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~-----~ssCPvCR~~~ 213 (356)
.-+|-||||.-.+. +.+.|+|.|.-.||-+|+ ...|||||-..
T Consensus 47 ~FdCNICLd~akdP----VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~V 94 (230)
T KOG0823|consen 47 FFDCNICLDLAKDP----VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEV 94 (230)
T ss_pred ceeeeeeccccCCC----EEeecccceehHHHHHHHhhcCCCeeCCcccccc
Confidence 45899999987653 445899999999999998 25689999754
No 29
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=96.98 E-value=0.00031 Score=71.39 Aligned_cols=47 Identities=26% Similarity=0.547 Sum_probs=38.4
Q ss_pred CCCCCCCCCccccccCCCCcceeeecCCCccchhhhhccc--ccccccccccc
Q 018432 163 GFTELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT--VLSCQVCRFCH 213 (356)
Q Consensus 163 ~~~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~--~ssCPvCR~~~ 213 (356)
.+.....|+||++.+... +.++|+|.|+..|+..|. ...||+||...
T Consensus 22 ~Le~~l~C~IC~d~~~~P----vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~ 70 (397)
T TIGR00599 22 PLDTSLRCHICKDFFDVP----VLTSCSHTFCSLCIRRCLSNQPKCPLCRAED 70 (397)
T ss_pred ccccccCCCcCchhhhCc----cCCCCCCchhHHHHHHHHhCCCCCCCCCCcc
Confidence 345577999999999764 346999999999999997 35799999854
No 30
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=96.96 E-value=0.0003 Score=70.41 Aligned_cols=49 Identities=22% Similarity=0.539 Sum_probs=38.1
Q ss_pred CCCCCCCccccccCCCCc---------ceeeecCCCccchhhhhccc--ccccccccccc
Q 018432 165 TELPTCPICLERLDPDTS---------GILSTICDHSFQCSCTAKWT--VLSCQVCRFCH 213 (356)
Q Consensus 165 ~elptCpICLe~ld~~~s---------gilt~~C~H~FH~~Cl~kW~--~ssCPvCR~~~ 213 (356)
...-+|.||.|.|-.... ....++|+|.||..|+..|. +.+||+||...
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence 346799999999544321 12357999999999999997 68999999873
No 31
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=96.92 E-value=0.00045 Score=67.05 Aligned_cols=44 Identities=32% Similarity=0.709 Sum_probs=36.6
Q ss_pred CCCCCCccccccCCCCcceeeecCCCccchhhhhccc--ccccccccccc
Q 018432 166 ELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT--VLSCQVCRFCH 213 (356)
Q Consensus 166 elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~--~ssCPvCR~~~ 213 (356)
..+.|.+|||..... -.++|+|.|.-.|+..|. -..||+||...
T Consensus 238 a~~kC~LCLe~~~~p----SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~ 283 (293)
T KOG0317|consen 238 ATRKCSLCLENRSNP----SATPCGHIFCWSCILEWCSEKAECPLCREKF 283 (293)
T ss_pred CCCceEEEecCCCCC----CcCcCcchHHHHHHHHHHccccCCCcccccC
Confidence 358999999998543 345999999999999997 46799999855
No 32
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=96.87 E-value=0.0064 Score=44.73 Aligned_cols=66 Identities=18% Similarity=0.397 Sum_probs=55.6
Q ss_pred EEEEecCCCCCHHHHHHHhcccccceeEEEEeecCCCCcceEEEEEeCChhhHHHHHhhhcCCcCCC
Q 018432 68 IFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDAMEDRYSVLIKLVDQLTADEFYSNLNGKRFSP 134 (356)
Q Consensus 68 lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~~~~~ymvLikF~s~~~A~eF~~~~ng~~Fns 134 (356)
|.|-.+|..+|-.+|..+++. ...|..+.+.++.....+-.+.++|.+.++|+.....+||..|+.
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~-~g~i~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~ 66 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQ-FGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKING 66 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHT-TSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEETT
T ss_pred cEEcCCCCcCCHHHHHHHHHH-hhhcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCEECc
Confidence 568899999999999999987 455788899885333456689999999999999999999998764
No 33
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.87 E-value=0.00033 Score=64.21 Aligned_cols=44 Identities=41% Similarity=0.760 Sum_probs=38.4
Q ss_pred CCCCCCCCCccccccCCCCcceeeecCCCccchhhhhcccc--ccccccc
Q 018432 163 GFTELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWTV--LSCQVCR 210 (356)
Q Consensus 163 ~~~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~~--ssCPvCR 210 (356)
...+.-+||||++.+... ..++|+|+|...|+..|.. ..||.||
T Consensus 9 ~~~~~~~C~iC~~~~~~p----~~l~C~H~~c~~C~~~~~~~~~~Cp~cr 54 (386)
T KOG2177|consen 9 VLQEELTCPICLEYFREP----VLLPCGHNFCRACLTRSWEGPLSCPVCR 54 (386)
T ss_pred hccccccChhhHHHhhcC----ccccccchHhHHHHHHhcCCCcCCcccC
Confidence 446788999999999975 6678999999999998875 7899999
No 34
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=96.87 E-value=0.00057 Score=54.67 Aligned_cols=45 Identities=27% Similarity=0.608 Sum_probs=33.5
Q ss_pred CCCCccccccCCCCccee-eecCCCccchhhhhcccc--ccccccccc
Q 018432 168 PTCPICLERLDPDTSGIL-STICDHSFQCSCTAKWTV--LSCQVCRFC 212 (356)
Q Consensus 168 ptCpICLe~ld~~~sgil-t~~C~H~FH~~Cl~kW~~--ssCPvCR~~ 212 (356)
.+||-|-..++++.+-.+ --.|+|.||..|+.+|++ ..||++|..
T Consensus 32 ~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~ 79 (88)
T COG5194 32 GTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQT 79 (88)
T ss_pred CcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCce
Confidence 367777777665543333 348999999999999984 579999864
No 35
>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=96.78 E-value=0.00064 Score=49.40 Aligned_cols=40 Identities=25% Similarity=0.746 Sum_probs=29.9
Q ss_pred CCCccccccCCCCcceeeecCC-----Cccchhhhhccc----cccccccc
Q 018432 169 TCPICLERLDPDTSGILSTICD-----HSFQCSCTAKWT----VLSCQVCR 210 (356)
Q Consensus 169 tCpICLe~ld~~~sgilt~~C~-----H~FH~~Cl~kW~----~ssCPvCR 210 (356)
.|.||++..++ ...+..||. |.+|..|+.+|. ..+||+|+
T Consensus 1 ~CrIC~~~~~~--~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDE--GDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCC--CCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 48999993332 346677885 889999999997 34788884
No 36
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=96.77 E-value=0.00087 Score=49.78 Aligned_cols=41 Identities=20% Similarity=0.284 Sum_probs=34.8
Q ss_pred CCCccccccCCCCcceeeecCCCccchhhhhccc--ccccccccccc
Q 018432 169 TCPICLERLDPDTSGILSTICDHSFQCSCTAKWT--VLSCQVCRFCH 213 (356)
Q Consensus 169 tCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~--~ssCPvCR~~~ 213 (356)
.||||++.|.+. +..+|+|.|...|+.+|. +..||+|+...
T Consensus 3 ~Cpi~~~~~~~P----v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~ 45 (63)
T smart00504 3 LCPISLEVMKDP----VILPSGQTYERRAIEKWLLSHGTDPVTGQPL 45 (63)
T ss_pred CCcCCCCcCCCC----EECCCCCEEeHHHHHHHHHHCCCCCCCcCCC
Confidence 699999999874 456899999999999996 56899998754
No 37
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=96.69 E-value=0.00061 Score=48.38 Aligned_cols=33 Identities=30% Similarity=0.678 Sum_probs=20.2
Q ss_pred CCccccccCCCCcceeeecCCCccchhhhhcccc
Q 018432 170 CPICLERLDPDTSGILSTICDHSFQCSCTAKWTV 203 (356)
Q Consensus 170 CpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~~ 203 (356)
||||.| +..+..-...++|+|+|-..|+.+|..
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~ 33 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSK 33 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHH
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHh
Confidence 899999 755434456678999999999999963
No 38
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Probab=96.58 E-value=0.016 Score=41.78 Aligned_cols=67 Identities=18% Similarity=0.369 Sum_probs=56.4
Q ss_pred EEEEecCCCCCHHHHHHHhcccccceeEEEEeecCCCCcceEEEEEeCChhhHHHHHhhhcCCcCCCC
Q 018432 68 IFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDAMEDRYSVLIKLVDQLTADEFYSNLNGKRFSPA 135 (356)
Q Consensus 68 lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~~~~~ymvLikF~s~~~A~eF~~~~ng~~Fnsl 135 (356)
|.|-++|..++..++.++++.+ ..|..+.+.+......+-.+.++|++.+.|.......++..|+..
T Consensus 2 i~i~~l~~~~~~~~i~~~~~~~-g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~ 68 (74)
T cd00590 2 LFVGNLPPDVTEEDLRELFSKF-GKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELGGR 68 (74)
T ss_pred EEEeCCCCccCHHHHHHHHHhc-CCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeECCe
Confidence 5688999999999999999876 678888888854323366999999999999999999999987743
No 39
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.22 E-value=0.0011 Score=68.46 Aligned_cols=48 Identities=31% Similarity=0.724 Sum_probs=37.2
Q ss_pred CCCCCCccccccCCCCc-------------ceeeecCCCccchhhhhcccc---cccccccccc
Q 018432 166 ELPTCPICLERLDPDTS-------------GILSTICDHSFQCSCTAKWTV---LSCQVCRFCH 213 (356)
Q Consensus 166 elptCpICLe~ld~~~s-------------gilt~~C~H~FH~~Cl~kW~~---ssCPvCR~~~ 213 (356)
..-.|+||....+--.+ ....+||+|.||..|+.+|.+ -.||+||...
T Consensus 570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pL 633 (636)
T KOG0828|consen 570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPL 633 (636)
T ss_pred ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCC
Confidence 45689999998764222 234569999999999999986 4799999754
No 40
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.13 E-value=0.0021 Score=62.01 Aligned_cols=50 Identities=22% Similarity=0.585 Sum_probs=40.1
Q ss_pred CCCCCCCCccccccCCCC--cc----eeeecCCCccchhhhhccc----ccccccccccc
Q 018432 164 FTELPTCPICLERLDPDT--SG----ILSTICDHSFQCSCTAKWT----VLSCQVCRFCH 213 (356)
Q Consensus 164 ~~elptCpICLe~ld~~~--sg----ilt~~C~H~FH~~Cl~kW~----~ssCPvCR~~~ 213 (356)
..+..-|.||-.+++.++ +| +-++.|||+||..|+.-|- -.+||-|+...
T Consensus 221 hl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekV 280 (328)
T KOG1734|consen 221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKV 280 (328)
T ss_pred CCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHh
Confidence 356778999999988764 23 4478999999999999995 47899998643
No 41
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=96.08 E-value=0.004 Score=47.98 Aligned_cols=46 Identities=30% Similarity=0.594 Sum_probs=26.7
Q ss_pred CCCCCCCccccccCCCCcceeeecCCCccchhhhhcccccccccccccc
Q 018432 165 TELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWTVLSCQVCRFCH 213 (356)
Q Consensus 165 ~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~~ssCPvCR~~~ 213 (356)
.++-.|++|.+.|.+. +....|.|.|...|+..-.++.||||+...
T Consensus 5 e~lLrCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~~~CPvC~~Pa 50 (65)
T PF14835_consen 5 EELLRCSICFDILKEP---VCLGGCEHIFCSSCIRDCIGSECPVCHTPA 50 (65)
T ss_dssp HHTTS-SSS-S--SS----B---SSS--B-TTTGGGGTTTB-SSS--B-
T ss_pred HHhcCCcHHHHHhcCC---ceeccCccHHHHHHhHHhcCCCCCCcCChH
Confidence 3577899999999985 456789999999999988888899998743
No 42
>smart00362 RRM_2 RNA recognition motif.
Probab=96.07 E-value=0.036 Score=39.71 Aligned_cols=65 Identities=12% Similarity=0.289 Sum_probs=53.6
Q ss_pred EEEEecCCCCCHHHHHHHhcccccceeEEEEeecCCCCcceEEEEEeCChhhHHHHHhhhcCCcCCC
Q 018432 68 IFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDAMEDRYSVLIKLVDQLTADEFYSNLNGKRFSP 134 (356)
Q Consensus 68 lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~~~~~ymvLikF~s~~~A~eF~~~~ng~~Fns 134 (356)
|.|-++|..++..|+.+++..+- .|..+++.++.+ .++-.++++|.+...|+.....+||..|+.
T Consensus 2 v~i~~l~~~~~~~~l~~~~~~~g-~v~~~~~~~~~~-~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~ 66 (72)
T smart00362 2 LFVGNLPPDVTEEDLKELFSKFG-PIESVKIPKDTG-KSKGFAFVEFESEEDAEKAIEALNGTKLGG 66 (72)
T ss_pred EEEcCCCCcCCHHHHHHHHHhcC-CEEEEEEecCCC-CCCceEEEEeCCHHHHHHHHHHhCCcEECC
Confidence 67889999999999999987543 577888888653 345579999999999999999999988763
No 43
>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=96.04 E-value=0.0041 Score=61.34 Aligned_cols=46 Identities=24% Similarity=0.523 Sum_probs=32.9
Q ss_pred CCCCCccccc--cCCCCcceeeecCCCccchhhhhc-cc--ccccccccccc
Q 018432 167 LPTCPICLER--LDPDTSGILSTICDHSFQCSCTAK-WT--VLSCQVCRFCH 213 (356)
Q Consensus 167 lptCpICLe~--ld~~~sgilt~~C~H~FH~~Cl~k-W~--~ssCPvCR~~~ 213 (356)
...||+|... +.++..-.+. .|+|.|...|+.. |. ...||+|+...
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~-~CGH~~C~sCv~~l~~~~~~~CP~C~~~l 53 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVN-VCGHTLCESCVDLLFVRGSGSCPECDTPL 53 (309)
T ss_pred CCCCCcCCCCCccCcccccccC-CCCCcccHHHHHHHhcCCCCCCCCCCCcc
Confidence 4689999995 3333222233 8999999999998 54 35799998755
No 44
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.03 E-value=0.003 Score=65.54 Aligned_cols=43 Identities=33% Similarity=0.658 Sum_probs=32.9
Q ss_pred CCCCCccccccCCCCcceeeecCCCccchhhhhccc-------ccccccccccc
Q 018432 167 LPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT-------VLSCQVCRFCH 213 (356)
Q Consensus 167 lptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~-------~ssCPvCR~~~ 213 (356)
...|||||+.-... .+| .|+|.|.+.||-+.. .-.||+||-..
T Consensus 186 ~~~CPICL~~~~~p---~~t-~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I 235 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP---VRT-NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTI 235 (513)
T ss_pred CCcCCcccCCCCcc---ccc-ccCceeeHHHHHHHHhhhcccCCccCCchhhhc
Confidence 78999999986542 444 499999999996532 25799999754
No 45
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=95.82 E-value=0.0032 Score=48.98 Aligned_cols=35 Identities=23% Similarity=0.609 Sum_probs=15.6
Q ss_pred CCCCccccccCCCCc--cee--eecCCCccchhhhhccc
Q 018432 168 PTCPICLERLDPDTS--GIL--STICDHSFQCSCTAKWT 202 (356)
Q Consensus 168 ptCpICLe~ld~~~s--gil--t~~C~H~FH~~Cl~kW~ 202 (356)
..|+||.+.+.++.. .++ ...|+..||..||.+|.
T Consensus 3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf 41 (70)
T PF11793_consen 3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWF 41 (70)
T ss_dssp -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHH
T ss_pred CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHH
Confidence 479999997652211 111 34788999999999996
No 46
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.68 E-value=0.0033 Score=63.31 Aligned_cols=42 Identities=26% Similarity=0.809 Sum_probs=30.2
Q ss_pred CCCCccccccCCCCcceeee-cCCCccchhhhhccc----c-ccccccc
Q 018432 168 PTCPICLERLDPDTSGILST-ICDHSFQCSCTAKWT----V-LSCQVCR 210 (356)
Q Consensus 168 ptCpICLe~ld~~~sgilt~-~C~H~FH~~Cl~kW~----~-ssCPvCR 210 (356)
..|.||.+-.+.+ ..+..+ .|+|.||..|+.+|. + ..||.||
T Consensus 5 A~C~Ic~d~~p~~-~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 5 AECHICIDGRPND-HELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred ceeeEeccCCccc-cccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence 4699995555443 334444 599999999999996 2 3677777
No 47
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.59 E-value=0.0026 Score=70.02 Aligned_cols=45 Identities=29% Similarity=0.665 Sum_probs=34.1
Q ss_pred CCCCCccccccCCCCc---ceeeecCCCccchhhhhccc----ccccccccc
Q 018432 167 LPTCPICLERLDPDTS---GILSTICDHSFQCSCTAKWT----VLSCQVCRF 211 (356)
Q Consensus 167 lptCpICLe~ld~~~s---gilt~~C~H~FH~~Cl~kW~----~ssCPvCR~ 211 (356)
-..|+||..-++.... ...-..|.|.||..|+-||. ++.||+||-
T Consensus 1469 ~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRs 1520 (1525)
T COG5219 1469 HEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRS 1520 (1525)
T ss_pred cchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccc
Confidence 4579999887763111 12345799999999999996 588999995
No 48
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=95.35 E-value=0.0043 Score=67.18 Aligned_cols=73 Identities=23% Similarity=0.496 Sum_probs=54.0
Q ss_pred CCCCCCCccccccCCCCcceeeecCCCccchhhhhccc--cccccccccccc-----------------------c----
Q 018432 165 TELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT--VLSCQVCRFCHQ-----------------------Q---- 215 (356)
Q Consensus 165 ~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~--~ssCPvCR~~~~-----------------------~---- 215 (356)
..+..||+||....+... +-..+|.|-||..|+..|. ..+||+||..-. .
T Consensus 121 ~~~~~CP~Ci~s~~DqL~-~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~V~eS~~~~~~vR~lP~EEs~~~~e~ 199 (1134)
T KOG0825|consen 121 HVENQCPNCLKSCNDQLE-ESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEVKVLESTGIEANVRCLPSEESENILEK 199 (1134)
T ss_pred hhhhhhhHHHHHHHHHhh-ccccccccccHHHHhhhhhhhcccCchhhhhhheeeeeccccccceeEecchhhhhhhhhh
Confidence 345689999998765422 3356899999999999997 569999996421 0
Q ss_pred -------------CCCCcccccCCCCc---eeeeccccc
Q 018432 216 -------------DERPTCSVCGTVEN---LWVCLICGF 238 (356)
Q Consensus 216 -------------~~~~~C~~C~~~~n---lWiCL~CG~ 238 (356)
.+...|..|+..+. |.+|-.|..
T Consensus 200 ~~d~~~d~~~~~~~E~~~C~IC~~~DpEdVLLLCDsCN~ 238 (1134)
T KOG0825|consen 200 GGDEKQDQISGLSQEEVKCDICTVHDPEDVLLLCDSCNK 238 (1134)
T ss_pred ccccccccccCcccccccceeeccCChHHhheeeccccc
Confidence 12468999999863 778877765
No 49
>smart00360 RRM RNA recognition motif.
Probab=95.20 E-value=0.083 Score=37.50 Aligned_cols=62 Identities=15% Similarity=0.320 Sum_probs=49.7
Q ss_pred ecCCCCCHHHHHHHhcccccceeEEEEeecCC-CCcceEEEEEeCChhhHHHHHhhhcCCcCCC
Q 018432 72 AVPNYLSSDEFVRFCGSHIDHVEELIFIRNDA-MEDRYSVLIKLVDQLTADEFYSNLNGKRFSP 134 (356)
Q Consensus 72 aVP~~ms~~d~l~F~~~~~~~i~~iriir~~~-~~~~ymvLikF~s~~~A~eF~~~~ng~~Fns 134 (356)
.+|..++..|+.+++..+ ..|..+++.++.. ..++-.++++|.+.+.|......+|+..|+.
T Consensus 3 ~l~~~~~~~~l~~~f~~~-g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~ 65 (71)
T smart00360 3 NLPPDVTEEELRELFSKF-GKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDG 65 (71)
T ss_pred CCCcccCHHHHHHHHHhh-CCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCC
Confidence 579999999999998753 3578888888532 1335689999999999999999999888854
No 50
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.64 E-value=0.02 Score=55.27 Aligned_cols=45 Identities=33% Similarity=0.555 Sum_probs=35.8
Q ss_pred CCCCCCCccccccCCCCcceeeecCCCccchhhhhc-cc--c-cccccccccc
Q 018432 165 TELPTCPICLERLDPDTSGILSTICDHSFQCSCTAK-WT--V-LSCQVCRFCH 213 (356)
Q Consensus 165 ~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~k-W~--~-ssCPvCR~~~ 213 (356)
...-.|++|++.... ...++|+|.|...|+.. |. . .-||+||.-.
T Consensus 213 ~~d~kC~lC~e~~~~----ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~ 261 (271)
T COG5574 213 LADYKCFLCLEEPEV----PSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKV 261 (271)
T ss_pred ccccceeeeecccCC----cccccccchhhHHHHHHHHHhhccccCchhhhhc
Confidence 335589999999775 35669999999999998 96 3 4499999744
No 51
>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2. It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).
Probab=94.53 E-value=0.28 Score=40.76 Aligned_cols=79 Identities=16% Similarity=0.410 Sum_probs=58.3
Q ss_pred cEEEEEecCCCCCHHHHHHHhcccccceeEEEEeecC--CCCcceEEEEEeCChhhHHHHHhhhcCCcCCCCC-cCceEE
Q 018432 66 TCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRND--AMEDRYSVLIKLVDQLTADEFYSNLNGKRFSPAE-AEVCHM 142 (356)
Q Consensus 66 ~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~--~~~~~ymvLikF~s~~~A~eF~~~~ng~~Fnsle-~e~C~v 142 (356)
++|=|=.||+.+|..+|++.+.+....-=.+.-++-| ..-|.--+-|-|.+...|..|+..|+|++.+... .-+|.+
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~i 81 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCEI 81 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEEE
Confidence 5677889999999999999996653322223333322 1235667999999999999999999999998664 447777
Q ss_pred EE
Q 018432 143 LF 144 (356)
Q Consensus 143 vf 144 (356)
.|
T Consensus 82 ~y 83 (97)
T PF04059_consen 82 SY 83 (97)
T ss_pred eh
Confidence 55
No 52
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=94.46 E-value=0.0075 Score=47.98 Aligned_cols=28 Identities=32% Similarity=0.784 Sum_probs=23.2
Q ss_pred eeecCCCccchhhhhccc-----cccccccccc
Q 018432 185 LSTICDHSFQCSCTAKWT-----VLSCQVCRFC 212 (356)
Q Consensus 185 lt~~C~H~FH~~Cl~kW~-----~ssCPvCR~~ 212 (356)
+--.|.|.||..|+.+|. +.-||+||..
T Consensus 47 v~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~ 79 (84)
T KOG1493|consen 47 VWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQT 79 (84)
T ss_pred HHHHHHHHHHHHHHHHHhcCccccccCCcchhe
Confidence 334899999999999998 3569999964
No 53
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.13 E-value=0.02 Score=57.43 Aligned_cols=48 Identities=38% Similarity=0.843 Sum_probs=38.4
Q ss_pred CCCCCCCccccccCCCC-----cceeeecCCCccchhhhhccc---------ccccccccccc
Q 018432 165 TELPTCPICLERLDPDT-----SGILSTICDHSFQCSCTAKWT---------VLSCQVCRFCH 213 (356)
Q Consensus 165 ~elptCpICLe~ld~~~-----sgilt~~C~H~FH~~Cl~kW~---------~ssCPvCR~~~ 213 (356)
...-+|-||+|-.-+.. -||+ .+|+|.|...|+.+|. ...||.||...
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgil-pnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGIL-PNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred cccccceehhhhccccchhhhhcccC-CCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 55779999999877654 3433 4799999999999997 36899999753
No 54
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=94.13 E-value=0.014 Score=48.89 Aligned_cols=25 Identities=24% Similarity=0.780 Sum_probs=21.8
Q ss_pred ecCCCccchhhhhccc--ccccccccc
Q 018432 187 TICDHSFQCSCTAKWT--VLSCQVCRF 211 (356)
Q Consensus 187 ~~C~H~FH~~Cl~kW~--~ssCPvCR~ 211 (356)
-.|||.||--|+++|+ ...||+|..
T Consensus 79 G~CNHaFH~hCisrWlktr~vCPLdn~ 105 (114)
T KOG2930|consen 79 GVCNHAFHFHCISRWLKTRNVCPLDNK 105 (114)
T ss_pred eecchHHHHHHHHHHHhhcCcCCCcCc
Confidence 4799999999999998 568999865
No 55
>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=93.90 E-value=0.031 Score=43.53 Aligned_cols=42 Identities=19% Similarity=0.230 Sum_probs=30.9
Q ss_pred CCCCccccccCCCCcceeeecCCCccchhhhhccc---ccccccccccc
Q 018432 168 PTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT---VLSCQVCRFCH 213 (356)
Q Consensus 168 ptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~---~ssCPvCR~~~ 213 (356)
-.|||+.+-|.+. +.++++|+|...++.+|. +..||.|+...
T Consensus 5 f~CpIt~~lM~dP----Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l 49 (73)
T PF04564_consen 5 FLCPITGELMRDP----VILPSGHTYERSAIERWLEQNGGTDPFTRQPL 49 (73)
T ss_dssp GB-TTTSSB-SSE----EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-
T ss_pred cCCcCcCcHhhCc----eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcC
Confidence 3699999999974 455889999999999997 47899997644
No 56
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=93.86 E-value=0.021 Score=55.90 Aligned_cols=47 Identities=30% Similarity=0.570 Sum_probs=38.3
Q ss_pred CCCCCCCCCccccccCCCCcceeeecCCCccchhhhhccc--ccccccccccc
Q 018432 163 GFTELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT--VLSCQVCRFCH 213 (356)
Q Consensus 163 ~~~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~--~ssCPvCR~~~ 213 (356)
++-....|.||-+++.. .+.++|+|+|..-||...+ +..||+||...
T Consensus 21 ~LDs~lrC~IC~~~i~i----p~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~ 69 (391)
T COG5432 21 GLDSMLRCRICDCRISI----PCETTCGHTFCSLCIRRHLGTQPFCPVCREDP 69 (391)
T ss_pred cchhHHHhhhhhheeec----ceecccccchhHHHHHHHhcCCCCCccccccH
Confidence 44456689999999875 3556899999999999997 57899999753
No 57
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=93.34 E-value=0.023 Score=49.76 Aligned_cols=35 Identities=26% Similarity=0.753 Sum_probs=30.0
Q ss_pred CCCCCccccccCCCCcceeeecCC------Cccchhhhhccc
Q 018432 167 LPTCPICLERLDPDTSGILSTICD------HSFQCSCTAKWT 202 (356)
Q Consensus 167 lptCpICLe~ld~~~sgilt~~C~------H~FH~~Cl~kW~ 202 (356)
...|.||+++++. ..|++.++|+ |.||.+|+.+|.
T Consensus 26 ~~EC~IC~~~I~~-~~GvV~vt~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 26 TVECQICFDRIDN-NDGVVYVTDGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred Ceeehhhhhhhhc-CCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence 4479999999998 5789988884 779999999994
No 58
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.18 E-value=0.042 Score=55.94 Aligned_cols=45 Identities=36% Similarity=0.833 Sum_probs=36.8
Q ss_pred CCCCCccccccCCC-CcceeeecCCCccchhhhhccc----ccccccccc
Q 018432 167 LPTCPICLERLDPD-TSGILSTICDHSFQCSCTAKWT----VLSCQVCRF 211 (356)
Q Consensus 167 lptCpICLe~ld~~-~sgilt~~C~H~FH~~Cl~kW~----~ssCPvCR~ 211 (356)
-.||||||+.+.-. ...++.+.|+|.|=.+|+.+|+ -..||.|.-
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ 53 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSG 53 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCC
Confidence 35899999986643 2356788999999999999998 367999985
No 59
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=93.17 E-value=0.81 Score=40.16 Aligned_cols=70 Identities=16% Similarity=0.140 Sum_probs=58.5
Q ss_pred CccEEEEEecCCCCCHHHHHHHhcccccceeEEEEeecCCC-CcceEEEEEeCChhhHHHHHhhhcCCcCCC
Q 018432 64 RSTCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDAM-EDRYSVLIKLVDQLTADEFYSNLNGKRFSP 134 (356)
Q Consensus 64 ~~~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~~-~~~ymvLikF~s~~~A~eF~~~~ng~~Fns 134 (356)
.++.|.|=.+|..+|-.||..++..+ ..|..++|+++..+ .++-...+.|.+.++|+.-...+|+..++.
T Consensus 33 ~~~~lfVgnL~~~~te~~L~~~F~~~-G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~G 103 (144)
T PLN03134 33 MSTKLFIGGLSWGTDDASLRDAFAHF-GDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNG 103 (144)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcC-CCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECC
Confidence 46779999999999999999999875 46999999985422 246689999999999999999999987653
No 60
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.14 E-value=0.014 Score=58.40 Aligned_cols=47 Identities=32% Similarity=0.558 Sum_probs=38.0
Q ss_pred CCCCCCCCccccccCCCCcceeeecCCCccchhhhhccc---ccccccccccc
Q 018432 164 FTELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT---VLSCQVCRFCH 213 (356)
Q Consensus 164 ~~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~---~ssCPvCR~~~ 213 (356)
+...-.|||||+-+..+ +.+.-|.|.|..+|+.+-. +.+||-||+..
T Consensus 40 ~~~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l 89 (381)
T KOG0311|consen 40 FDIQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKL 89 (381)
T ss_pred hhhhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhc
Confidence 34566899999999864 5678999999999995443 78999999854
No 61
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=91.97 E-value=0.073 Score=39.92 Aligned_cols=41 Identities=27% Similarity=0.551 Sum_probs=27.5
Q ss_pred CCCCCCCccccccCCCCcceeeecCCCccchhhhhccc----cccccc
Q 018432 165 TELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT----VLSCQV 208 (356)
Q Consensus 165 ~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~----~ssCPv 208 (356)
.-.-.|||.+..|.+. +.+..|+|.|....+.+|. ...||+
T Consensus 9 ~~~~~CPiT~~~~~~P---V~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQPFEDP---VKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB-SSE---EEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred EeccCCCCcCChhhCC---cCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 3456899999999874 6777999999999999997 345666
No 62
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=91.82 E-value=0.037 Score=55.25 Aligned_cols=47 Identities=28% Similarity=0.627 Sum_probs=38.9
Q ss_pred CCCCCCCCCccccccCCCCcceeeecCCCccchhhhhccc--ccccccccccc
Q 018432 163 GFTELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT--VLSCQVCRFCH 213 (356)
Q Consensus 163 ~~~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~--~ssCPvCR~~~ 213 (356)
++-.+-.|-||.|-|... +.++|+|+|..-||.+.+ ..-||.|+...
T Consensus 19 ~lD~lLRC~IC~eyf~ip----~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~ 67 (442)
T KOG0287|consen 19 TLDDLLRCGICFEYFNIP----MITPCSHTFCSLCIRKFLSYKPQCPTCCVTV 67 (442)
T ss_pred hhHHHHHHhHHHHHhcCc----eeccccchHHHHHHHHHhccCCCCCceeccc
Confidence 345678999999999863 445799999999999998 57899999864
No 63
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=90.34 E-value=0.18 Score=40.86 Aligned_cols=33 Identities=27% Similarity=0.547 Sum_probs=28.0
Q ss_pred CCCCCCCccccccCCCCcceeeecCCCccchhhhh
Q 018432 165 TELPTCPICLERLDPDTSGILSTICDHSFQCSCTA 199 (356)
Q Consensus 165 ~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~ 199 (356)
.+...|++|-.++..+ .+...||+|.||..|..
T Consensus 76 ~~~~~C~vC~k~l~~~--~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGNS--VFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCCc--eEEEeCCCeEEeccccc
Confidence 4566899999999874 47888999999999975
No 64
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=90.16 E-value=0.083 Score=53.66 Aligned_cols=45 Identities=24% Similarity=0.506 Sum_probs=38.2
Q ss_pred CCCCCccccccCCCCcceeeecCCCccchhhhhccc----ccccccccc
Q 018432 167 LPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT----VLSCQVCRF 211 (356)
Q Consensus 167 lptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~----~ssCPvCR~ 211 (356)
.-.|-.|-|++..-.+..-.+||.|.||..|+...+ ..+||-||+
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 347999999988876777789999999999998554 679999995
No 65
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=89.98 E-value=0.067 Score=52.65 Aligned_cols=36 Identities=28% Similarity=0.619 Sum_probs=29.8
Q ss_pred CCCCCCCccccccCCCCcceeeecCCCccchhhhhcc
Q 018432 165 TELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKW 201 (356)
Q Consensus 165 ~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW 201 (356)
.....|.|||--|.++ ..+..+.|.|-||..|+.++
T Consensus 113 ~p~gqCvICLygfa~~-~~ft~T~C~Hy~H~~ClaRy 148 (368)
T KOG4445|consen 113 HPNGQCVICLYGFASS-PAFTVTACDHYMHFACLARY 148 (368)
T ss_pred CCCCceEEEEEeecCC-CceeeehhHHHHHHHHHHHH
Confidence 4556899999999886 45778899999999999654
No 66
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=89.79 E-value=0.09 Score=47.32 Aligned_cols=37 Identities=32% Similarity=0.753 Sum_probs=25.9
Q ss_pred CCCCCCccccccCCC--------CcceeeecCCCcc-chhhhhccc
Q 018432 166 ELPTCPICLERLDPD--------TSGILSTICDHSF-QCSCTAKWT 202 (356)
Q Consensus 166 elptCpICLe~ld~~--------~sgilt~~C~H~F-H~~Cl~kW~ 202 (356)
|..+||||+|.=-.+ ..|....+|+-++ |..|+++..
T Consensus 1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfk 46 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFK 46 (162)
T ss_pred CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHH
Confidence 467999999973322 2355566787776 888998774
No 67
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=88.23 E-value=2.8 Score=42.16 Aligned_cols=73 Identities=14% Similarity=0.154 Sum_probs=59.1
Q ss_pred CCCCccEEEEEecCCCCCHHHHHHHhcccccceeEEEEeecCCC-CcceEEEEEeCChhhHHHHHhhhcCCcCCC
Q 018432 61 PNSRSTCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDAM-EDRYSVLIKLVDQLTADEFYSNLNGKRFSP 134 (356)
Q Consensus 61 ~~~~~~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~~-~~~ymvLikF~s~~~A~eF~~~~ng~~Fns 134 (356)
+....+.|.|-.+|..+|-.||..++..+- .|..++|+++..+ .++=.+.++|.+.++|+.-...+||..+..
T Consensus 103 ~~~~~~~LfVgnLp~~~te~~L~~lF~~~G-~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~g 176 (346)
T TIGR01659 103 TNNSGTNLIVNYLPQDMTDRELYALFRTIG-PINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRN 176 (346)
T ss_pred CCCCCcEEEEeCCCCCCCHHHHHHHHHhcC-CEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCC
Confidence 334578899999999999999999987654 3999999985321 234469999999999999999999988753
No 68
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=86.97 E-value=5.7 Score=41.33 Aligned_cols=85 Identities=16% Similarity=0.211 Sum_probs=66.5
Q ss_pred CccEEEEEecCCCCCHHHHHHHhccccc-ceeEEEEeecCCCCcceEEEEEeCChhhHHHHHhhhcCCcCCCCCcCceEE
Q 018432 64 RSTCIFVVAVPNYLSSDEFVRFCGSHID-HVEELIFIRNDAMEDRYSVLIKLVDQLTADEFYSNLNGKRFSPAEAEVCHM 142 (356)
Q Consensus 64 ~~~~lciLaVP~~ms~~d~l~F~~~~~~-~i~~iriir~~~~~~~ymvLikF~s~~~A~eF~~~~ng~~Fnsle~e~C~v 142 (356)
.+..|.|-.+|..+|-.+|..+++.+-. .|..+++....+ ..+-+.+++|.+.+.|.+-....||..+..- .+..
T Consensus 393 ps~~L~v~NLp~~~tee~L~~lF~~~G~~~i~~ik~~~~~~-~~~~~gfVeF~~~e~A~~Al~~ln~~~l~~~---~~~~ 468 (481)
T TIGR01649 393 PSATLHLSNIPLSVSEEDLKELFAENGVHKVKKFKFFPKDN-ERSKMGLLEWESVEDAVEALIALNHHQLNEP---NGSA 468 (481)
T ss_pred CCcEEEEecCCCCCCHHHHHHHHHhcCCccceEEEEecCCC-CcceeEEEEcCCHHHHHHHHHHhcCCccCCC---CCCc
Confidence 4678999999999999999999988754 688898876443 2467999999999999999999999987533 2333
Q ss_pred EEEEEEEEee
Q 018432 143 LFMLSVEYTE 152 (356)
Q Consensus 143 vfv~~v~~~~ 152 (356)
.|...|.|.+
T Consensus 469 ~~~lkv~fs~ 478 (481)
T TIGR01649 469 PYHLKVSFST 478 (481)
T ss_pred cceEEEEecc
Confidence 4555555543
No 69
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.70 E-value=0.43 Score=47.07 Aligned_cols=45 Identities=29% Similarity=0.526 Sum_probs=35.8
Q ss_pred CCCCCCCccccccCCCCcceeeecCCCccchhhhh--cccc-cccccccccc
Q 018432 165 TELPTCPICLERLDPDTSGILSTICDHSFQCSCTA--KWTV-LSCQVCRFCH 213 (356)
Q Consensus 165 ~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~--kW~~-ssCPvCR~~~ 213 (356)
...+.|+||+-...-. +.+.|+|.|.-.||. -|.+ ..|+|||...
T Consensus 5 ~~~~eC~IC~nt~n~P----v~l~C~HkFCyiCiKGsy~ndk~~CavCR~pi 52 (324)
T KOG0824|consen 5 TKKKECLICYNTGNCP----VNLYCFHKFCYICIKGSYKNDKKTCAVCRFPI 52 (324)
T ss_pred ccCCcceeeeccCCcC----ccccccchhhhhhhcchhhcCCCCCceecCCC
Confidence 4568999999987653 567999999999994 5665 4599999853
No 70
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=86.64 E-value=0.34 Score=49.42 Aligned_cols=47 Identities=32% Similarity=0.640 Sum_probs=39.6
Q ss_pred CCCCCCCCccccccCCCCcceeeecCCCccchhhhhccc--ccccccccccc
Q 018432 164 FTELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT--VLSCQVCRFCH 213 (356)
Q Consensus 164 ~~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~--~ssCPvCR~~~ 213 (356)
+.+.-.||+|-.-+.+. +.+..|+|.|...|+.+|. ...||+|+...
T Consensus 18 ~~~~l~C~~C~~vl~~p---~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~ 66 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDP---VQTTTCGHRFCAGCLLESLSNHQKCPVCRQEL 66 (391)
T ss_pred CcccccCccccccccCC---CCCCCCCCcccccccchhhccCcCCccccccc
Confidence 56778999999999875 3446899999999999998 46999998754
No 71
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=85.97 E-value=4.9 Score=39.17 Aligned_cols=69 Identities=17% Similarity=0.220 Sum_probs=57.7
Q ss_pred ccEEEEEecCCCCCHHHHHHHhcccccceeEEEEeecCC-CCcceEEEEEeCChhhHHHHHhhhcCCcCCC
Q 018432 65 STCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDA-MEDRYSVLIKLVDQLTADEFYSNLNGKRFSP 134 (356)
Q Consensus 65 ~~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~-~~~~ymvLikF~s~~~A~eF~~~~ng~~Fns 134 (356)
+..|.|=.+|..++-.+|..+++.+ ..|..++|+++.. -..+-...+.|.+.++|..=...+||..|+.
T Consensus 269 ~~~lfV~NL~~~~~e~~L~~~F~~f-G~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~g 338 (352)
T TIGR01661 269 GYCIFVYNLSPDTDETVLWQLFGPF-GAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGN 338 (352)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHhC-CCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECC
Confidence 4469999999999999999998765 4688899998541 1245579999999999999999999999864
No 72
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=85.94 E-value=4.3 Score=41.25 Aligned_cols=70 Identities=11% Similarity=0.196 Sum_probs=57.3
Q ss_pred CCCccEEEEEecCCCCCHHHHHHHhcccccceeEEEEeecCC-CCcceEEEEEeCChhhHHHHHhhhcCCcCC
Q 018432 62 NSRSTCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDA-MEDRYSVLIKLVDQLTADEFYSNLNGKRFS 133 (356)
Q Consensus 62 ~~~~~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~-~~~~ymvLikF~s~~~A~eF~~~~ng~~Fn 133 (356)
......|.|-.+|..++-.||..|+..+- .|..++++++.. -.++-.+.++|.+.+.|..... .||+.|.
T Consensus 86 ~~~~~~l~V~nlp~~~~~~~l~~~F~~~G-~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~~~~ 156 (457)
T TIGR01622 86 ERDDRTVFVLQLALKARERDLYEFFSKVG-KVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALA-LTGQMLL 156 (457)
T ss_pred ccCCcEEEEeCCCCCCCHHHHHHHHHhcC-CeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHH-hCCCEEC
Confidence 34567899999999999999999997764 799999998432 1246689999999999999975 7887765
No 73
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=85.41 E-value=0.21 Score=54.22 Aligned_cols=46 Identities=26% Similarity=0.577 Sum_probs=37.2
Q ss_pred CCCCCCCCccccccCCCCcceeeecCCCccchhhhhccc---ccccccccccc
Q 018432 164 FTELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT---VLSCQVCRFCH 213 (356)
Q Consensus 164 ~~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~---~ssCPvCR~~~ 213 (356)
+-++-+||+|-.|-.+ .+.+.|.|.|+-.|+..-. +..||-|-.+-
T Consensus 640 yK~~LkCs~Cn~R~Kd----~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aF 688 (698)
T KOG0978|consen 640 YKELLKCSVCNTRWKD----AVITKCGHVFCEECVQTRYETRQRKCPKCNAAF 688 (698)
T ss_pred HHhceeCCCccCchhh----HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCC
Confidence 4568899999999876 3455899999999998774 67899997654
No 74
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=84.94 E-value=0.44 Score=52.63 Aligned_cols=49 Identities=27% Similarity=0.611 Sum_probs=36.3
Q ss_pred CCCCCCccccccCCCCcceeeecCCCccchhhhhccc---------cccccccccccc
Q 018432 166 ELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT---------VLSCQVCRFCHQ 214 (356)
Q Consensus 166 elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~---------~ssCPvCR~~~~ 214 (356)
..-.|-||.++++....----..|=|.||..||.+|. ...||.|++.+.
T Consensus 190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~ 247 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSK 247 (950)
T ss_pred CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhc
Confidence 4558999999999753211123467999999999995 367999987654
No 75
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=84.89 E-value=2.2 Score=30.53 Aligned_cols=39 Identities=18% Similarity=0.367 Sum_probs=33.5
Q ss_pred ceeEEEEeecCCCCcceEEEEEeCChhhHHHHHhhhcCCcCCC
Q 018432 92 HVEELIFIRNDAMEDRYSVLIKLVDQLTADEFYSNLNGKRFSP 134 (356)
Q Consensus 92 ~i~~iriir~~~~~~~ymvLikF~s~~~A~eF~~~~ng~~Fns 134 (356)
.|..+++.++. +..++++|.+.++|+.-...+||..|+.
T Consensus 10 ~V~~i~~~~~~----~~~a~V~f~~~~~A~~a~~~l~~~~~~g 48 (56)
T PF13893_consen 10 EVKKIKIFKKK----RGFAFVEFASVEDAQKAIEQLNGRQFNG 48 (56)
T ss_dssp -EEEEEEETTS----TTEEEEEESSHHHHHHHHHHHTTSEETT
T ss_pred cEEEEEEEeCC----CCEEEEEECCHHHHHHHHHHhCCCEECC
Confidence 49999998854 3589999999999999999999999864
No 76
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=84.88 E-value=0.46 Score=46.42 Aligned_cols=43 Identities=26% Similarity=0.535 Sum_probs=36.6
Q ss_pred CCCccccccCCCCcceeeecCCCccchhhhhccc--ccccccccc
Q 018432 169 TCPICLERLDPDTSGILSTICDHSFQCSCTAKWT--VLSCQVCRF 211 (356)
Q Consensus 169 tCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~--~ssCPvCR~ 211 (356)
.||+|.|-+-.....+...+|+|.-|..|...-. +-+||+|..
T Consensus 160 ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 160 NCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred CCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 4999999988877777789999999988887664 578999988
No 77
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=84.10 E-value=4.1 Score=41.37 Aligned_cols=68 Identities=15% Similarity=0.201 Sum_probs=57.5
Q ss_pred ccEEEEEecCCCCCHHHHHHHhcccccceeEEEEeecCCC-CcceEEEEEeCChhhHHHHHhhhcCCcCC
Q 018432 65 STCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDAM-EDRYSVLIKLVDQLTADEFYSNLNGKRFS 133 (356)
Q Consensus 65 ~~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~~-~~~ymvLikF~s~~~A~eF~~~~ng~~Fn 133 (356)
...|.|-.+|..+|-.+|..++..+ ..|..++++++... .++-++.++|.+.+.|..-...+||..+.
T Consensus 186 ~~~l~v~nl~~~~te~~l~~~f~~~-G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~ 254 (457)
T TIGR01622 186 FLKLYVGNLHFNITEQELRQIFEPF-GDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELA 254 (457)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHhc-CCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEEC
Confidence 5789999999999999999988664 34888999986533 45678999999999999999999997765
No 78
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=83.11 E-value=0.71 Score=33.68 Aligned_cols=42 Identities=26% Similarity=0.508 Sum_probs=16.5
Q ss_pred CCccccccCCCCcceeeecCCCccchhhhhccc---ccccccccc
Q 018432 170 CPICLERLDPDTSGILSTICDHSFQCSCTAKWT---VLSCQVCRF 211 (356)
Q Consensus 170 CpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~---~ssCPvCR~ 211 (356)
||+|.+.+|.....+..=.|+......|..+-. +..||.||.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~ 45 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCRE 45 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCC
Confidence 899999997754333333334444444433222 578999986
No 79
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=81.12 E-value=0.79 Score=43.68 Aligned_cols=46 Identities=22% Similarity=0.516 Sum_probs=37.4
Q ss_pred CCCCCCCccccccCCCCcceeeecCCCccchhhhhccc----------cccccccccc
Q 018432 165 TELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT----------VLSCQVCRFC 212 (356)
Q Consensus 165 ~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~----------~ssCPvCR~~ 212 (356)
.-.|.|..|-..|.+.. .+.+.|-|.||-.|++.|. +-.||.|...
T Consensus 48 DY~pNC~LC~t~La~gd--t~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~e 103 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASGD--TTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQE 103 (299)
T ss_pred CCCCCCceeCCccccCc--ceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCc
Confidence 34789999999999864 4677899999999999996 2568888654
No 80
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=81.03 E-value=7.1 Score=38.02 Aligned_cols=69 Identities=19% Similarity=0.277 Sum_probs=57.4
Q ss_pred ccEEEEEecCCCCCHHHHHHHhcccccceeEEEEeecCCC-CcceEEEEEeCChhhHHHHHhhhcCCcCCC
Q 018432 65 STCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDAM-EDRYSVLIKLVDQLTADEFYSNLNGKRFSP 134 (356)
Q Consensus 65 ~~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~~-~~~ymvLikF~s~~~A~eF~~~~ng~~Fns 134 (356)
.+.|.|=.+|..+|-.||..++..+ ..|.+++|+++... .++--.-++|.+.+.|+.-....||+.+..
T Consensus 3 ~~~l~V~nLp~~~~e~~l~~~F~~~-G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g 72 (352)
T TIGR01661 3 KTNLIVNYLPQTMTQEEIRSLFTSI-GEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQN 72 (352)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHcc-CCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECC
Confidence 4679999999999999999998774 37999999985421 245578899999999999999999988753
No 81
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=80.38 E-value=6.2 Score=41.05 Aligned_cols=64 Identities=13% Similarity=0.173 Sum_probs=54.5
Q ss_pred cEEEEEecCCCCCHHHHHHHhcccccceeEEEEeecCCCCcceEEEEEeCChhhHHHHHhhhcCCcCC
Q 018432 66 TCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDAMEDRYSVLIKLVDQLTADEFYSNLNGKRFS 133 (356)
Q Consensus 66 ~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~~~~~ymvLikF~s~~~A~eF~~~~ng~~Fn 133 (356)
..|.|..+|..+|..+|.+.++.+ ..|..+.|.+.. ++..++++|.+.++|+.=....||+.+.
T Consensus 97 ~~v~v~nl~~~vt~~~L~~~F~~~-G~V~~v~i~~~~---~~~~afVef~~~~~A~~A~~~Lng~~i~ 160 (481)
T TIGR01649 97 LRVIVENPMYPITLDVLYQIFNPY-GKVLRIVTFTKN---NVFQALVEFESVNSAQHAKAALNGADIY 160 (481)
T ss_pred EEEEEcCCCCCCCHHHHHHHHhcc-CCEEEEEEEecC---CceEEEEEECCHHHHHHHHHHhcCCccc
Confidence 467889999999999999998875 458899988854 3457999999999999999999999864
No 82
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=80.11 E-value=7.2 Score=41.04 Aligned_cols=69 Identities=6% Similarity=0.155 Sum_probs=58.9
Q ss_pred ccEEEEEecCCCCCHHHHHHHhcccccceeEEEEeecCCCCcceEEEEEeCChhhHHHHHhhhcCCcCCC
Q 018432 65 STCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDAMEDRYSVLIKLVDQLTADEFYSNLNGKRFSP 134 (356)
Q Consensus 65 ~~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~~~~~ymvLikF~s~~~A~eF~~~~ng~~Fns 134 (356)
...|.|=.+|..++-.+|..++..+ ..|..++++++..-.++-.+.++|.+.+.|.+-...+||+.|+.
T Consensus 285 ~~~l~V~nl~~~~~~~~L~~~F~~~-G~i~~~~i~~d~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~g 353 (562)
T TIGR01628 285 GVNLYVKNLDDTVTDEKLRELFSEC-GEITSAKVMLDEKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGG 353 (562)
T ss_pred CCEEEEeCCCCccCHHHHHHHHHhc-CCeEEEEEEECCCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCC
Confidence 4568999999999999999998765 45899999986533456689999999999999999999998874
No 83
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=78.88 E-value=8.6 Score=40.47 Aligned_cols=69 Identities=12% Similarity=0.250 Sum_probs=57.9
Q ss_pred CccEEEEEecCCCCCHHHHHHHhcccccceeEEEEeecCCCCcceEEEEEeCChhhHHHHHhhhcCCcCC
Q 018432 64 RSTCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDAMEDRYSVLIKLVDQLTADEFYSNLNGKRFS 133 (356)
Q Consensus 64 ~~~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~~~~~ymvLikF~s~~~A~eF~~~~ng~~Fn 133 (356)
..+.|.|-.+|..+|-.+|..++..+ ..|..++++++..-.++-.+.++|.+.++|..-....||+.+.
T Consensus 177 ~~~~l~V~nl~~~~tee~L~~~F~~f-G~i~~~~i~~~~~g~~~G~afV~F~~~e~A~~Av~~l~g~~i~ 245 (562)
T TIGR01628 177 KFTNLYVKNLDPSVNEDKLRELFAKF-GEITSAAVMKDGSGRSRGFAFVNFEKHEDAAKAVEEMNGKKIG 245 (562)
T ss_pred CCCeEEEeCCCCcCCHHHHHHHHHhc-CCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCcEec
Confidence 34669999999999999999988765 3488899988653344567999999999999999999999987
No 84
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=78.80 E-value=0.78 Score=34.86 Aligned_cols=32 Identities=31% Similarity=0.698 Sum_probs=26.6
Q ss_pred cccccccccccCCCCcccccCCCCceeeecccccee
Q 018432 205 SCQVCRFCHQQDERPTCSVCGTVENLWVCLICGFVG 240 (356)
Q Consensus 205 sCPvCR~~~~~~~~~~C~~C~~~~nlWiCL~CG~vG 240 (356)
.||.|-.. .-.+|..|....+.+.|..||+.|
T Consensus 27 ~CPnCG~~----~I~RC~~CRk~~~~Y~CP~CGF~G 58 (59)
T PRK14890 27 LCPNCGEV----IIYRCEKCRKQSNPYTCPKCGFEG 58 (59)
T ss_pred eCCCCCCe----eEeechhHHhcCCceECCCCCCcC
Confidence 58888653 257899999999999999999976
No 85
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=78.52 E-value=0.8 Score=34.87 Aligned_cols=52 Identities=31% Similarity=0.752 Sum_probs=37.9
Q ss_pred CCCCCccccccCCCCcceeeecCCCccchhhhhccccccccccccccccCCCCcccccCCCCceeeecccccee
Q 018432 167 LPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWTVLSCQVCRFCHQQDERPTCSVCGTVENLWVCLICGFVG 240 (356)
Q Consensus 167 lptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~~ssCPvCR~~~~~~~~~~C~~C~~~~nlWiCL~CG~vG 240 (356)
.|.|.-|--.+... ++... | .||-|-.. .-.+|..|....+.+.|..||+.|
T Consensus 9 ~~~CtSCg~~i~p~-e~~v~------F-----------~CPnCGe~----~I~Rc~~CRk~g~~Y~Cp~CGF~G 60 (61)
T COG2888 9 PPVCTSCGREIAPG-ETAVK------F-----------PCPNCGEV----EIYRCAKCRKLGNPYRCPKCGFEG 60 (61)
T ss_pred CceeccCCCEeccC-CceeE------e-----------eCCCCCce----eeehhhhHHHcCCceECCCcCccC
Confidence 56777777777553 22332 2 57888643 357899999999999999999976
No 86
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=78.12 E-value=0.7 Score=45.88 Aligned_cols=51 Identities=22% Similarity=0.403 Sum_probs=38.6
Q ss_pred eecCCCccchhhhhccccccccccccccccCCCCcccccCCCCceeeeccccceeccCC
Q 018432 186 STICDHSFQCSCTAKWTVLSCQVCRFCHQQDERPTCSVCGTVENLWVCLICGFVGCGRY 244 (356)
Q Consensus 186 t~~C~H~FH~~Cl~kW~~ssCPvCR~~~~~~~~~~C~~C~~~~nlWiCL~CG~vGCgr~ 244 (356)
.++|.|.|..+|-..-.+..||.|--..+ +=..| ..+.++||- +..||-|.
T Consensus 106 mIPCkHvFCl~CAr~~~dK~Cp~C~d~Vq-----rIeq~-~~g~iFmC~--~~~GC~RT 156 (389)
T KOG2932|consen 106 MIPCKHVFCLECARSDSDKICPLCDDRVQ-----RIEQI-MMGGIFMCA--APHGCLRT 156 (389)
T ss_pred ccccchhhhhhhhhcCccccCcCcccHHH-----HHHHh-cccceEEee--cchhHHHH
Confidence 67999999999987777889999965332 22334 457899996 77889884
No 87
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=77.69 E-value=0.86 Score=46.67 Aligned_cols=41 Identities=32% Similarity=0.663 Sum_probs=33.0
Q ss_pred CCCccccccCCCCcceeeecCCCccchhhhhccc----ccccccccccc
Q 018432 169 TCPICLERLDPDTSGILSTICDHSFQCSCTAKWT----VLSCQVCRFCH 213 (356)
Q Consensus 169 tCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~----~ssCPvCR~~~ 213 (356)
-|-||.|.=.+ +..-+|+|.....|+..|. ...||.||+..
T Consensus 371 LCKICaendKd----vkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEI 415 (563)
T KOG1785|consen 371 LCKICAENDKD----VKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEI 415 (563)
T ss_pred HHHHhhccCCC----cccccccchHHHHHHHhhcccCCCCCCCceeeEe
Confidence 58999886432 4555999999999999997 36799999864
No 88
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=76.81 E-value=1.8 Score=39.08 Aligned_cols=42 Identities=24% Similarity=0.635 Sum_probs=29.5
Q ss_pred CCCCCCCccccccCCCCcceeeecCC--Cc---cchhhhhcccc----cccccccc
Q 018432 165 TELPTCPICLERLDPDTSGILSTICD--HS---FQCSCTAKWTV----LSCQVCRF 211 (356)
Q Consensus 165 ~elptCpICLe~ld~~~sgilt~~C~--H~---FH~~Cl~kW~~----ssCPvCR~ 211 (356)
...+.|-||.+.-++ ...||. .+ -|.+|+.+|.+ .+|+.|++
T Consensus 6 ~~~~~CRIC~~~~~~-----~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~ 56 (162)
T PHA02825 6 LMDKCCWICKDEYDV-----VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNG 56 (162)
T ss_pred CCCCeeEecCCCCCC-----ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCC
Confidence 567899999887542 224663 33 39999999973 56777765
No 89
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=76.58 E-value=12 Score=37.57 Aligned_cols=70 Identities=17% Similarity=0.271 Sum_probs=57.2
Q ss_pred CccEEEEEecCCCCCHHHHHHHhcccccceeEEEEeecCCC-CcceEEEEEeCChhhHHHHHhhhcCCcCCC
Q 018432 64 RSTCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDAM-EDRYSVLIKLVDQLTADEFYSNLNGKRFSP 134 (356)
Q Consensus 64 ~~~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~~-~~~ymvLikF~s~~~A~eF~~~~ng~~Fns 134 (356)
.++.|.|-.+|..+|-.||..+++.+ ..|..++|+++... ..+-.+.++|.+.+.|++=...+|+..|..
T Consensus 192 ~~~~lfV~nLp~~vtee~L~~~F~~f-G~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g 262 (346)
T TIGR01659 192 KDTNLYVTNLPRTITDDQLDTIFGKY-GQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEG 262 (346)
T ss_pred ccceeEEeCCCCcccHHHHHHHHHhc-CCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCC
Confidence 45679999999999999999988654 35888999985321 235689999999999999999999998753
No 90
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=76.35 E-value=1.1 Score=32.10 Aligned_cols=38 Identities=34% Similarity=0.845 Sum_probs=23.9
Q ss_pred CCccccccCCCCcceeeecCC-----Cccchhhhhccc----ccccccc
Q 018432 170 CPICLERLDPDTSGILSTICD-----HSFQCSCTAKWT----VLSCQVC 209 (356)
Q Consensus 170 CpICLe~ld~~~sgilt~~C~-----H~FH~~Cl~kW~----~ssCPvC 209 (356)
|-||++.-+++. .+..||. ..-|..|+.+|. ...|++|
T Consensus 1 CrIC~~~~~~~~--~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE--PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS---EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC--ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 779999877653 4556773 245999999997 3456665
No 91
>PHA02862 5L protein; Provisional
Probab=75.09 E-value=1.2 Score=39.67 Aligned_cols=40 Identities=23% Similarity=0.638 Sum_probs=28.3
Q ss_pred CCCCccccccCCCCcceeeecCC-----Cccchhhhhccc----cccccccccc
Q 018432 168 PTCPICLERLDPDTSGILSTICD-----HSFQCSCTAKWT----VLSCQVCRFC 212 (356)
Q Consensus 168 ptCpICLe~ld~~~sgilt~~C~-----H~FH~~Cl~kW~----~ssCPvCR~~ 212 (356)
+.|-||.+.-+++ ..||. .--|..|+.+|. ...|+.|++.
T Consensus 3 diCWIC~~~~~e~-----~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkte 51 (156)
T PHA02862 3 DICWICNDVCDER-----NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTK 51 (156)
T ss_pred CEEEEecCcCCCC-----cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCe
Confidence 5799999985543 24663 234999999997 3568888763
No 92
>PLN03120 nucleic acid binding protein; Provisional
Probab=75.01 E-value=14 Score=35.91 Aligned_cols=67 Identities=12% Similarity=0.110 Sum_probs=55.0
Q ss_pred ccEEEEEecCCCCCHHHHHHHhcccccceeEEEEeecCCCCcceEEEEEeCChhhHHHHHhhhcCCcCCCC
Q 018432 65 STCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDAMEDRYSVLIKLVDQLTADEFYSNLNGKRFSPA 135 (356)
Q Consensus 65 ~~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~~~~~ymvLikF~s~~~A~eF~~~~ng~~Fnsl 135 (356)
...|.|=.+|...|-.||..|++. ...|.+++|+++.. .+-...+.|.+...|+.-.. .||..+...
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~-~G~I~~V~I~~d~~--~~GfAFVtF~d~eaAe~All-LnG~~l~gr 70 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSF-SGDIEYVEMQSENE--RSQIAYVTFKDPQGAETALL-LSGATIVDQ 70 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHh-cCCeEEEEEeecCC--CCCEEEEEeCcHHHHHHHHH-hcCCeeCCc
Confidence 457899999999999999998855 35799999999642 35578999999999998884 899887643
No 93
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=72.88 E-value=16 Score=37.70 Aligned_cols=69 Identities=20% Similarity=0.283 Sum_probs=56.7
Q ss_pred ccEEEEEecCCCCCHHHHHHHhcccccceeEEEEeecCCC-CcceEEEEEeCChhhHHHHHhhhcCCcCCC
Q 018432 65 STCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDAM-EDRYSVLIKLVDQLTADEFYSNLNGKRFSP 134 (356)
Q Consensus 65 ~~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~~-~~~ymvLikF~s~~~A~eF~~~~ng~~Fns 134 (356)
...|.|-.+|..+|-.+|..++..+ ..|..++++++..+ .++-.+.+.|.+...|+.=...+||..|..
T Consensus 295 ~~~l~v~nlp~~~~~~~l~~~f~~~-G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~ 364 (509)
T TIGR01642 295 KDRIYIGNLPLYLGEDQIKELLESF-GDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGD 364 (509)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhc-CCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECC
Confidence 3579999999999999999888765 35888888885321 356789999999999999999999998753
No 94
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=71.87 E-value=16 Score=39.45 Aligned_cols=70 Identities=21% Similarity=0.257 Sum_probs=58.6
Q ss_pred CCccEEEEEecCCCCCHHHHHHHhcccccceeEEEEeecCCCCcceEEEEEeCChhhHHHHHhhhcCCcCC
Q 018432 63 SRSTCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDAMEDRYSVLIKLVDQLTADEFYSNLNGKRFS 133 (356)
Q Consensus 63 ~~~~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~~~~~ymvLikF~s~~~A~eF~~~~ng~~Fn 133 (356)
...+.|.|=.+|..++-.||..++..+ -.|.++||+++..-.+|=...++|.+.++|+.=....|+..+.
T Consensus 56 ~~~~~lFVgnLp~~~tEd~L~~~F~~~-G~I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~ 125 (578)
T TIGR01648 56 GRGCEVFVGKIPRDLYEDELVPLFEKA-GPIYELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIR 125 (578)
T ss_pred CCCCEEEeCCCCCCCCHHHHHHHHHhh-CCEEEEEEEECCCCCccceEEEEeCCHHHHHHHHHHcCCCeec
Confidence 456889999999999999999988664 3588999999643346778999999999999999999987763
No 95
>smart00160 RanBD Ran-binding domain. Domain of apporximately 150 residues that stabilises the GTP-bound form of Ran (the Ras-like nuclear small GTPase).
Probab=71.77 E-value=6 Score=34.20 Aligned_cols=109 Identities=9% Similarity=0.046 Sum_probs=54.9
Q ss_pred Cccccccc-ceeeeccccccc-cc-CCCCceeeeeeEEEEccCCCC-Cc--CC-CCCCCccEEEEEecCCCCCHHHHHHH
Q 018432 13 HPITIEEA-GFCTVSSTATRS-RA-NPNPKFSERRGLVHLFRGTSQ-SY--QQ-NPNSRSTCIFVVAVPNYLSSDEFVRF 85 (356)
Q Consensus 13 ~~~~~~~~-~~~~~~s~~~~~-~~-~gnp~v~~~~G~vhl~r~~~~-~~--~~-~~~~~~~~lciLaVP~~ms~~d~l~F 85 (356)
.++..+|| +...|...+.+= |. ..+...+-+.|.+||.++.+. .. .- ...+...+++=..|-..|.+...
T Consensus 10 ve~~tgEE~E~~lf~~r~KL~~~~~~~~~WkerG~G~lki~~~~~~~~~~RivmR~~~~~kv~lN~~i~~~~~~~~~--- 86 (130)
T smart00160 10 VEVKTGEEDEEVIFSARAKLYRFANDKKEWKERGVGDLKILKSKDNGGKVRIVMRRDGVLKVCANHPIFKSMTLKPL--- 86 (130)
T ss_pred ccccCCCcCeEEEEEEEeEEEEEcCCCCCCeeccEEEEEEEEcCCCCCeEEEEEEECCCceEEeccEecCCcEEeec---
Confidence 34444443 456666666664 33 357899999999999998654 11 10 00011122222222233322211
Q ss_pred hcccccceeEEEEeec---CCCCcceEEEEEeCChhhHHHHHhhhc
Q 018432 86 CGSHIDHVEELIFIRN---DAMEDRYSVLIKLVDQLTADEFYSNLN 128 (356)
Q Consensus 86 ~~~~~~~i~~iriir~---~~~~~~ymvLikF~s~~~A~eF~~~~n 128 (356)
+. ....+.+... ++....-.-+|+|.+.+.|++|+..+.
T Consensus 87 -~~---~~~~~~~~~~d~~d~~~~~~~~~irfk~~e~a~~f~~~~~ 128 (130)
T smart00160 87 -AG---SNRALKWTPEDFADDIPKLVLYAVRFKTKEEADSFKNIFE 128 (130)
T ss_pred -CC---CcceEEEeeeecCCCCCceEEEEEEeCCHHHHHHHHHHHH
Confidence 11 1111122221 111122367789999999999998763
No 96
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=68.64 E-value=0.99 Score=45.02 Aligned_cols=47 Identities=30% Similarity=0.487 Sum_probs=37.6
Q ss_pred CCCCCCCCccccccCCCCcceeeecCCCccchhhhhccc--ccccccccccc
Q 018432 164 FTELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT--VLSCQVCRFCH 213 (356)
Q Consensus 164 ~~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~--~ssCPvCR~~~ 213 (356)
+....+|++|---|-+++ ..+-|-|+|...||.+.. ...||.|....
T Consensus 12 ~n~~itC~LC~GYliDAT---TI~eCLHTFCkSCivk~l~~~~~CP~C~i~i 60 (331)
T KOG2660|consen 12 LNPHITCRLCGGYLIDAT---TITECLHTFCKSCIVKYLEESKYCPTCDIVI 60 (331)
T ss_pred cccceehhhccceeecch---hHHHHHHHHHHHHHHHHHHHhccCCccceec
Confidence 356779999998887653 345799999999998886 67899998754
No 97
>PF05715 zf-piccolo: Piccolo Zn-finger; InterPro: IPR008899 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 (predicted) zinc finger is found in the bassoon and piccolo proteins, both of which are components of the presynaptic cytoskeletal matrix (PCM) assembled at the active zone of neurotransmitter release, where Piccolo plays a role in the trafficking of synaptic vesicles (SVs) [, , ]. The Piccolo zinc fingers were found to interact with the dual prenylated rab3A and VAMP2/Synaptobrevin II receptor PRA1. There are eight conserved cysteines in Piccolo-type zinc fingers, suggesting that they coordinates two zinc ligands. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding, 0045202 synapse
Probab=68.57 E-value=4.1 Score=31.05 Aligned_cols=19 Identities=37% Similarity=1.160 Sum_probs=13.2
Q ss_pred cccccCCCC-------ceeeeccccc
Q 018432 220 TCSVCGTVE-------NLWVCLICGF 238 (356)
Q Consensus 220 ~C~~C~~~~-------nlWiCL~CG~ 238 (356)
.|..||..- .-|+||-|..
T Consensus 32 VCnlCGFNP~Phl~E~~eWLCLnCQ~ 57 (61)
T PF05715_consen 32 VCNLCGFNPTPHLTEVKEWLCLNCQM 57 (61)
T ss_pred hhcccCCCCCccccccceeeeecchh
Confidence 466777642 5899998864
No 98
>KOG1867 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=68.41 E-value=2.2 Score=44.97 Aligned_cols=62 Identities=24% Similarity=0.640 Sum_probs=50.0
Q ss_pred CCCcccccCCCC-ceee-eccccceeccCCCCcHHhhhhhhcCCeeeEeCCCceEEEccCCceeec
Q 018432 217 ERPTCSVCGTVE-NLWV-CLICGFVGCGRYKEGHAVRHWKDTQHWYSLDLRTQQIWDYVGDNYVHR 280 (356)
Q Consensus 217 ~~~~C~~C~~~~-nlWi-CL~CG~vGCgr~~~~HA~~H~~~t~H~~al~l~t~~VwcY~cd~yVHr 280 (356)
....|..|+.-. .+.+ |+.|+.++|- .+.|...|....+|...++..++..+||.|++||+-
T Consensus 42 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~g~~~~~~c~~~i~~ 105 (492)
T KOG1867|consen 42 KTINCGTCGVLQIRLAVPCLICDSLGCL--SNSHKLEHSGNKKHNNTIDVNNGLLYCFACPDFIYD 105 (492)
T ss_pred ccceeEEechhhhhhcccceechhcccc--cccccccccccccccccceeehhhheeccCCcEeec
Confidence 345677776553 3444 8999999995 455788898889999999999999999999999964
No 99
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=67.04 E-value=3.5 Score=39.95 Aligned_cols=47 Identities=17% Similarity=0.181 Sum_probs=39.3
Q ss_pred CCCCCCccccccCCCCcceeeecCCCccchhhhhccc--cccccccccc
Q 018432 166 ELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT--VLSCQVCRFC 212 (356)
Q Consensus 166 elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~--~ssCPvCR~~ 212 (356)
+---||||-+.|...+.-...-+|+|.|...|+.+.. |-.||+|-..
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~p 268 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKP 268 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCc
Confidence 3457999999999887766777999999999999985 7889988764
No 100
>PF03467 Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120 Nonsense-mediated mRNA decay (NMD) is a surveillance mechanism by which eukaryotic cells detect and degrade transcripts containing premature termination codons. Three 'up-frameshift' proteins, UPF1, UPF2 and UPF3, are essential for this process in organisms ranging from yeast, human to plants []. Exon junction complexes (EJCs) are deposited ~24 nucleotides upstream of exon-exon junctions after splicing. Translation causes displacement of the EJCs, however, premature translation termination upstream of one or more EJCs triggers the recruitment of UPF1, UPF2 and UPF3 and activates the NMD pathway [, ]. This family contains UPF3. The crystal structure of the complex between human UPF2 and UPF3b, which are, respectively, a MIF4G (middle portion of eIF4G) domain and an RNP domain (ribonucleoprotein-type RNA-binding domain) has been determined to 1.95A. The protein-protein interface is mediated by highly conserved charged residues in UPF2 and UPF3b and involves the beta-sheet surface of the UPF3b ribonucleoprotein (RNP) domain, which is generally used by these domains to bind nucleic acids. In UPF3b the RNP domain does not bind RNA, whereas the UPF2 construct and the complex do. It is clear that some RNP domains have evolved for specific protein-protein interactions rather than as nucleic acid binding modules [].; PDB: 1UW4_A 2L08_A.
Probab=66.67 E-value=9.8 Score=34.64 Aligned_cols=82 Identities=17% Similarity=0.183 Sum_probs=51.0
Q ss_pred EEEEEecCCCCCHHHHHHHhccc-ccce--eEEEEeec--CCCCcceE-EEEEeCChhhHHHHHhhhcCCcCCCCCcCce
Q 018432 67 CIFVVAVPNYLSSDEFVRFCGSH-IDHV--EELIFIRN--DAMEDRYS-VLIKLVDQLTADEFYSNLNGKRFSPAEAEVC 140 (356)
Q Consensus 67 ~lciLaVP~~ms~~d~l~F~~~~-~~~i--~~iriir~--~~~~~~ym-vLikF~s~~~A~eF~~~~ng~~Fnsle~e~C 140 (356)
=|-|=-+|..||-++|+.-+.++ .+.+ ..+.+... ...++.|+ +.|.|.+.+.+.+|...|+|..|-.-.
T Consensus 9 KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D~k---- 84 (176)
T PF03467_consen 9 KVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVDSK---- 84 (176)
T ss_dssp EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-TT----
T ss_pred eEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEECCC----
Confidence 46777899999999999977763 2332 33443331 22244554 999999999999999999999994332
Q ss_pred EEEEEEEEEEee
Q 018432 141 HMLFMLSVEYTE 152 (356)
Q Consensus 141 ~vvfv~~v~~~~ 152 (356)
-..+...|++.-
T Consensus 85 g~~~~~~VE~Ap 96 (176)
T PF03467_consen 85 GNEYPAVVEFAP 96 (176)
T ss_dssp S-EEEEEEEE-S
T ss_pred CCCcceeEEEcc
Confidence 123555566543
No 101
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=66.19 E-value=7.2 Score=39.37 Aligned_cols=43 Identities=23% Similarity=0.480 Sum_probs=32.2
Q ss_pred CCCCCccccccCCCCcceeeecCCCcc-chhhhhccc--ccccccccccc
Q 018432 167 LPTCPICLERLDPDTSGILSTICDHSF-QCSCTAKWT--VLSCQVCRFCH 213 (356)
Q Consensus 167 lptCpICLe~ld~~~sgilt~~C~H~F-H~~Cl~kW~--~ssCPvCR~~~ 213 (356)
--.|-||+....+ .+.+||.|.= ...|.+... ...||+||...
T Consensus 290 gkeCVIClse~rd----t~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi 335 (349)
T KOG4265|consen 290 GKECVICLSESRD----TVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPI 335 (349)
T ss_pred CCeeEEEecCCcc----eEEecchhhehhHhHHHHHHHhhcCCCccccch
Confidence 5689999998775 4677999984 556665554 56799999743
No 102
>PF07045 DUF1330: Protein of unknown function (DUF1330); InterPro: IPR010753 This family consists of several hypothetical bacterial proteins of around 90 residues in length. The function of this family is unknown.; PDB: 2FIU_B 3HHL_A 3DCA_D 3LO3_I.
Probab=65.75 E-value=7 Score=29.48 Aligned_cols=21 Identities=19% Similarity=0.366 Sum_probs=18.8
Q ss_pred CcceEEEEEeCChhhHHHHHh
Q 018432 105 EDRYSVLIKLVDQLTADEFYS 125 (356)
Q Consensus 105 ~~~ymvLikF~s~~~A~eF~~ 125 (356)
+...+|||+|.|.++|.+|+.
T Consensus 37 ~~~~~viieFPs~~aa~~~~~ 57 (65)
T PF07045_consen 37 DPDRVVIIEFPSMEAAKAWYN 57 (65)
T ss_dssp SSSEEEEEEESSHHHHHHHHC
T ss_pred CCCeEEEEECCCHHHHHHHHC
Confidence 457799999999999999986
No 103
>PF00638 Ran_BP1: RanBP1 domain; InterPro: IPR000156 Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran Binding Protein 1 (RanBP1) has guanine nucleotide dissociation inhibitory activity, specific for the GTP form of Ran and also functions to stimulate Ran GTPase activating protein(GAP)-mediated GTP hydrolysis by Ran. RanBP1 contributes to maintaining the gradient of RanGTP across the nuclear envelope high (GDI activity) or the cytoplasmic levels of RanGTP low (GAP cofactor) []. All RanBP1 proteins contain an approx 150 amino acid residue Ran binding domain. Ran BP1 binds directly to RanGTP with high affinity. There are four sites of contact between Ran and the Ran binding domain. One of these involves binding of the C-terminal segment of Ran to a groove on the Ran binding domain that is analogous to the surface utilised in the EVH1-peptide interaction []. Nup358 contains four Ran binding domains. The structure of the first of these is known [].; GO: 0046907 intracellular transport; PDB: 2Y8F_A 2Y8G_B 2CRF_A 1XKE_A 1RRP_D 2EC1_A 3M1I_B 1K5D_E 3OAN_A 3N7C_A ....
Probab=65.48 E-value=23 Score=29.57 Aligned_cols=83 Identities=11% Similarity=0.156 Sum_probs=45.2
Q ss_pred CCceeeeeeEEEEccCCCCCcC-----CCCCCCccEEEEEecCCCCCHHHHHHHhcccccceeEEEEee---cCCCCcce
Q 018432 37 NPKFSERRGLVHLFRGTSQSYQ-----QNPNSRSTCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIR---NDAMEDRY 108 (356)
Q Consensus 37 np~v~~~~G~vhl~r~~~~~~~-----~~~~~~~~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir---~~~~~~~y 108 (356)
+...+.+.|.+||.++.+.... ..+ -..+++=..|...|.+...- ..-..+..+. .+..+.--
T Consensus 27 ~~W~erG~G~l~i~~~k~~~~~RlvmR~d~--~~kv~lN~~i~~~m~~~~~~-------~~~~~~~~~~~~~~~~~~~~~ 97 (122)
T PF00638_consen 27 KEWKERGVGTLKILKHKETGKYRLVMRRDG--TGKVLLNHPIFKGMKLKPMK-------GSEKSLVWTAIDYADEEGKPE 97 (122)
T ss_dssp TEEEEEEEEEEEEEEETTSCEEEEEEEETT--TTEEEEEEE--TTC-EEEST-------TTTTEEEEEEEECTTSSSEEE
T ss_pred CCccccceeEEEEEEccCCcceEEEEEEcc--cCceeEEEEecCCceecccc-------cCCcEEEEEeccccCCCCceE
Confidence 6789999999999988654321 112 22344444455555442111 1111222211 12222345
Q ss_pred EEEEEeCChhhHHHHHhhhc
Q 018432 109 SVLIKLVDQLTADEFYSNLN 128 (356)
Q Consensus 109 mvLikF~s~~~A~eF~~~~n 128 (356)
..+|+|.+.+.|++|+..+.
T Consensus 98 ~~~irf~~~e~a~~f~~~i~ 117 (122)
T PF00638_consen 98 TYLIRFKSAEDADEFKKKIE 117 (122)
T ss_dssp EEEEE-SSHHHHHHHHHHHH
T ss_pred EEEEEECCHHHHHHHHHHHH
Confidence 78899999999999998764
No 104
>KOG2026 consensus Spindle pole body protein - Sad1p [Cytoskeleton]
Probab=64.90 E-value=7.6 Score=39.85 Aligned_cols=72 Identities=31% Similarity=0.394 Sum_probs=51.3
Q ss_pred CCcccccCCCCceeeeccccceeccCCCCcHHhhhhhhcCCeeeEeCCCceEEEccCCceeecccccccCCce
Q 018432 218 RPTCSVCGTVENLWVCLICGFVGCGRYKEGHAVRHWKDTQHWYSLDLRTQQIWDYVGDNYVHRLNQSKADGKL 290 (356)
Q Consensus 218 ~~~C~~C~~~~nlWiCL~CG~vGCgr~~~~HA~~H~~~t~H~~al~l~t~~VwcY~cd~yVHrl~q~k~dgkl 290 (356)
...|.+--..-+.+.||.||.--=||....||..|.-+.+|-..+++.|...++-.-++|= -...++.|||.
T Consensus 29 ek~c~vslsnLnvyAclvcg~y~qgr~~kS~A~~h~l~~ghhvf~nl~telkfyvlpe~~e-i~d~s~~~ikh 100 (442)
T KOG2026|consen 29 EKPCSVSLSNLNVYACLVCGKYFQGRGEKSHAYTHSLEEGHHVFLNLSTELKFYVLPENYE-IDDPSLGDIKH 100 (442)
T ss_pred CCCCcccccccceeeeeeeCchhhCcCccccchhccccccccceeccccceeEEecchhcc-ccCchhhhhhc
Confidence 3456555556789999999988779999999999999999999999999555543332221 11234555554
No 105
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=64.36 E-value=3.5 Score=45.83 Aligned_cols=43 Identities=23% Similarity=0.539 Sum_probs=34.5
Q ss_pred CCCCCCCccccccCCCCcceeeecCCCccchhhhhcccccccccccc
Q 018432 165 TELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWTVLSCQVCRF 211 (356)
Q Consensus 165 ~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~~ssCPvCR~ 211 (356)
....+|..|--.||-. .+-..|+|+||..|+..- ...||-|+-
T Consensus 838 ~q~skCs~C~~~LdlP---~VhF~CgHsyHqhC~e~~-~~~CP~C~~ 880 (933)
T KOG2114|consen 838 FQVSKCSACEGTLDLP---FVHFLCGHSYHQHCLEDK-EDKCPKCLP 880 (933)
T ss_pred eeeeeecccCCccccc---eeeeecccHHHHHhhccC-cccCCccch
Confidence 3457999999999864 578899999999999722 357999986
No 106
>cd00835 RanBD Ran-binding domain. Ran-binding domain; This domain of approximately 150 residues shares structural similarity to the PH domain, but lacks detectable sequence similarity. Ran is a Ras-like nuclear small GTPase, which regulates receptor-mediated transport between the nucleus and the cytoplasm. RanGTP hydrolysis is stimulated by RanGAP together with the Ran-binding domain containing acessory proteins RanBP1 and RanBP2. These accessory proteins stabilize the active GTP-bound form of Ran . The Ran-binding domain is found in multiple copies in Nuclear pore complex proteins.
Probab=64.06 E-value=26 Score=29.58 Aligned_cols=101 Identities=10% Similarity=0.036 Sum_probs=50.9
Q ss_pred eeeeccccccc-ccCC-CCceeeeeeEEEEccCCCCCcC--C-CCCCCccEEEEEecCCCCCHHHHHHHhcccccceeEE
Q 018432 22 FCTVSSTATRS-RANP-NPKFSERRGLVHLFRGTSQSYQ--Q-NPNSRSTCIFVVAVPNYLSSDEFVRFCGSHIDHVEEL 96 (356)
Q Consensus 22 ~~~~~s~~~~~-~~~g-np~v~~~~G~vhl~r~~~~~~~--~-~~~~~~~~lciLaVP~~ms~~d~l~F~~~~~~~i~~i 96 (356)
.-.|...+-+= |..+ +...+-+.|.+||.++.+.... - ...+-..+++=..|-..|.+. ..+. .-..+
T Consensus 11 ~~if~~r~KLy~~~~~~~~WkerG~G~lki~~~k~~~~~RivmR~d~~~kv~lN~~i~~~~~~~----~~~~---~~k~~ 83 (122)
T cd00835 11 EVIFSVRAKLYRFDDETKEWKERGVGELKILKHKDTGKYRLLMRRDQVLKLCLNHKLVPGMKLQ----PMGN---SDKSI 83 (122)
T ss_pred EEEEEEEeEEEEEcCCCCCCeeceEEEEEEEEcCCCCcEEEEEEeCCccEEEEeeEecCCcEEe----ecCC---CCcEE
Confidence 33344444444 3322 6789999999999998753211 0 000112233322233333222 1110 01122
Q ss_pred EEeecCCC---CcceEEEEEeCChhhHHHHHhhhcC
Q 018432 97 IFIRNDAM---EDRYSVLIKLVDQLTADEFYSNLNG 129 (356)
Q Consensus 97 riir~~~~---~~~ymvLikF~s~~~A~eF~~~~ng 129 (356)
++.-.+.. +..-..+|+|.+.+.|++|+..++.
T Consensus 84 ~~~~~d~~~~~~~~~~~~lrfk~~~~a~~f~~~~~~ 119 (122)
T cd00835 84 VWAAMDFSDDEPKPETFAIRFKTEEIADEFKEAIEE 119 (122)
T ss_pred EEEeeecCCCCCcEEEEEEEECCHHHHHHHHHHHHH
Confidence 22211111 2234688999999999999987754
No 107
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=63.62 E-value=20 Score=36.89 Aligned_cols=66 Identities=14% Similarity=0.207 Sum_probs=50.3
Q ss_pred CCccEEEEEecCCCCCHHHHHHHhccc-----------ccceeEEEEeecCCCCcceEEEEEeCChhhHHHHHhhhcCCc
Q 018432 63 SRSTCIFVVAVPNYLSSDEFVRFCGSH-----------IDHVEELIFIRNDAMEDRYSVLIKLVDQLTADEFYSNLNGKR 131 (356)
Q Consensus 63 ~~~~~lciLaVP~~ms~~d~l~F~~~~-----------~~~i~~iriir~~~~~~~ymvLikF~s~~~A~eF~~~~ng~~ 131 (356)
.....|.|=.+|..+|-.+|..|+..+ ...|..+.+.+ ++-.+.+.|.+.+.|..-. .+||..
T Consensus 173 ~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~~-----~kg~afVeF~~~e~A~~Al-~l~g~~ 246 (509)
T TIGR01642 173 RQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNINK-----EKNFAFLEFRTVEEATFAM-ALDSII 246 (509)
T ss_pred ccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEECC-----CCCEEEEEeCCHHHHhhhh-cCCCeE
Confidence 456789999999999999999998754 12344444443 2336899999999999887 589988
Q ss_pred CCC
Q 018432 132 FSP 134 (356)
Q Consensus 132 Fns 134 (356)
|+.
T Consensus 247 ~~g 249 (509)
T TIGR01642 247 YSN 249 (509)
T ss_pred eeC
Confidence 764
No 108
>PF04641 Rtf2: Rtf2 RING-finger
Probab=63.24 E-value=4.9 Score=38.64 Aligned_cols=47 Identities=15% Similarity=0.258 Sum_probs=34.8
Q ss_pred CCCCCCccccccCCCCcceeeecCCCccchhhhhccc-cccccccccc
Q 018432 166 ELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT-VLSCQVCRFC 212 (356)
Q Consensus 166 elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~-~ssCPvCR~~ 212 (356)
..--|||....|.....-+...+|+|.|=..++..-. +..||+|-..
T Consensus 112 ~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k~~~~Cp~c~~~ 159 (260)
T PF04641_consen 112 GRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELKKSKKCPVCGKP 159 (260)
T ss_pred ceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhcccccccccCCc
Confidence 3447999999996654445567999999888887766 5567777653
No 109
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=62.89 E-value=3.3 Score=38.31 Aligned_cols=38 Identities=29% Similarity=0.626 Sum_probs=25.2
Q ss_pred CCCCCCCccccc-cCCCCcc--eeeecCCCccchhhhhccc
Q 018432 165 TELPTCPICLER-LDPDTSG--ILSTICDHSFQCSCTAKWT 202 (356)
Q Consensus 165 ~elptCpICLe~-ld~~~sg--ilt~~C~H~FH~~Cl~kW~ 202 (356)
.++..|-||..- |+-.+.. .-++.|+..||.-|+..|+
T Consensus 163 d~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWL 203 (234)
T KOG3268|consen 163 DELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWL 203 (234)
T ss_pred hhhhcccceeeeecCCccccccccccccCCcHHHHHHHHHH
Confidence 456677777653 2221111 1257899999999999997
No 110
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=62.65 E-value=3.5 Score=41.59 Aligned_cols=48 Identities=23% Similarity=0.461 Sum_probs=28.9
Q ss_pred CCCCCCCccccccCCCCcceeeecCCCccchhhh---hccccccccccccc
Q 018432 165 TELPTCPICLERLDPDTSGILSTICDHSFQCSCT---AKWTVLSCQVCRFC 212 (356)
Q Consensus 165 ~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl---~kW~~ssCPvCR~~ 212 (356)
.|..-||.|.|.||-.......-+|+---..-|- .+-++..||.||..
T Consensus 12 deed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~ 62 (480)
T COG5175 12 DEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRK 62 (480)
T ss_pred cccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhh
Confidence 4556699999999976543333344332222332 22236899999963
No 111
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=62.02 E-value=3.4 Score=42.47 Aligned_cols=44 Identities=30% Similarity=0.538 Sum_probs=34.5
Q ss_pred CCCCCCccccccCCCCcceeeecCCCccchhhhhccc--ccccccccccc
Q 018432 166 ELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT--VLSCQVCRFCH 213 (356)
Q Consensus 166 elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~--~ssCPvCR~~~ 213 (356)
..-.|-||..-+.+. ++++|+|+|...||.+-. .+.||.||...
T Consensus 83 sef~c~vc~~~l~~p----v~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l 128 (398)
T KOG4159|consen 83 SEFECCVCSRALYPP----VVTPCGHSFCLECLDRSLDQETECPLCRDEL 128 (398)
T ss_pred chhhhhhhHhhcCCC----ccccccccccHHHHHHHhccCCCCccccccc
Confidence 345799998887764 444999999999988765 47899999754
No 112
>PHA03096 p28-like protein; Provisional
Probab=60.44 E-value=3.4 Score=40.64 Aligned_cols=34 Identities=35% Similarity=0.757 Sum_probs=26.4
Q ss_pred CCCCccccccCCC-----CcceeeecCCCccchhhhhccc
Q 018432 168 PTCPICLERLDPD-----TSGILSTICDHSFQCSCTAKWT 202 (356)
Q Consensus 168 ptCpICLe~ld~~-----~sgilt~~C~H~FH~~Cl~kW~ 202 (356)
-.|.||+|....- .-|++ .-|+|.|...|+..|.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil-~~c~h~fc~~ci~~wr 217 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGIL-SEIKHEFNIFCIKIWM 217 (284)
T ss_pred hhcccchhhhhhhcccccccccc-ccCCcHHHHHHHHHHH
Confidence 6899999985532 22444 3799999999999996
No 113
>PF09416 UPF1_Zn_bind: RNA helicase (UPF2 interacting domain); InterPro: IPR018999 UPF1 (or regulator of nonsense transcripts 1 homologue) is an essential RNA helicase that detects mRNAs containing premature stop codons and triggers their degradation. This domain contains 3 zinc binding motifs and forms interactions with another protein (UPF2) that is also involved nonsense-mediated mRNA decay (NMD) []. ; GO: 0003677 DNA binding, 0004386 helicase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay, 0005737 cytoplasm; PDB: 2IYK_B 2WJY_A 2WJV_A 2XZL_A.
Probab=60.43 E-value=17 Score=32.67 Aligned_cols=75 Identities=21% Similarity=0.332 Sum_probs=41.0
Q ss_pred ccccCCC--CceeeeccccceeccC---CCCcHHhhhhhhcCCe-eeEeCC----CceEEEccCCc---eeecccccccC
Q 018432 221 CSVCGTV--ENLWVCLICGFVGCGR---YKEGHAVRHWKDTQHW-YSLDLR----TQQIWDYVGDN---YVHRLNQSKAD 287 (356)
Q Consensus 221 C~~C~~~--~nlWiCL~CG~vGCgr---~~~~HA~~H~~~t~H~-~al~l~----t~~VwcY~cd~---yVHrl~q~k~d 287 (356)
|.-||.. ..+-.|++|+.-.|-- ....|...|...++|- +.+.-+ ...+-||.|.. |+=..+..|+|
T Consensus 3 C~YCG~~~p~~vv~C~~c~kWFCNg~~~~s~SHIv~HLv~srh~ev~LH~~s~lgdt~leCy~Cg~~NvF~LGFipak~d 82 (152)
T PF09416_consen 3 CAYCGIHDPSCVVKCNTCNKWFCNGRGNTSGSHIVNHLVRSRHKEVSLHPDSPLGDTVLECYNCGSRNVFLLGFIPAKSD 82 (152)
T ss_dssp -TTT----CCCEEEETTTTEEEES--TTSSS-HHHHHHHHHT---EEE-TTSTT-S-B---TTT----TTTEEEEEETTS
T ss_pred ccccCCCCcccEeEcCCCCcEeecCCCCCcccHHHHHHHHccCCceeeCCCCCCCCcEEEEEecCCCceeeEEEEEeccC
Confidence 5556633 3466666666666632 2467999999999986 555544 35788999975 44445678888
Q ss_pred CceeeecC
Q 018432 288 GKLVEMNS 295 (356)
Q Consensus 288 gklvel~~ 295 (356)
.-+|-+-.
T Consensus 83 ~vvvllCR 90 (152)
T PF09416_consen 83 SVVVLLCR 90 (152)
T ss_dssp CEEEEEET
T ss_pred CeEEEEeC
Confidence 77777753
No 114
>smart00361 RRM_1 RNA recognition motif.
Probab=60.20 E-value=26 Score=26.30 Aligned_cols=44 Identities=20% Similarity=0.246 Sum_probs=31.9
Q ss_pred cceeEEE-EeecCCC---CcceEEEEEeCChhhHHHHHhhhcCCcCCC
Q 018432 91 DHVEELI-FIRNDAM---EDRYSVLIKLVDQLTADEFYSNLNGKRFSP 134 (356)
Q Consensus 91 ~~i~~ir-iir~~~~---~~~ymvLikF~s~~~A~eF~~~~ng~~Fns 134 (356)
..|..+. |+.+... ..+--+.++|.+.+.|..-.+.+||+.|..
T Consensus 17 G~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~g 64 (70)
T smart00361 17 GEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDG 64 (70)
T ss_pred CCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECC
Confidence 3477664 4443211 135569999999999999999999998864
No 115
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=58.12 E-value=50 Score=31.89 Aligned_cols=71 Identities=18% Similarity=0.229 Sum_probs=56.9
Q ss_pred CccEEEEEecCCCCCHHHHHHHhccccc-ceeEEEEeecCCCCcceEEEEEeCChhhHHHHHhhhcCCcCCC
Q 018432 64 RSTCIFVVAVPNYLSSDEFVRFCGSHID-HVEELIFIRNDAMEDRYSVLIKLVDQLTADEFYSNLNGKRFSP 134 (356)
Q Consensus 64 ~~~~lciLaVP~~ms~~d~l~F~~~~~~-~i~~iriir~~~~~~~ymvLikF~s~~~A~eF~~~~ng~~Fns 134 (356)
.-.+|+|-++|...-+.++...++.+.. .-+++|.-...+.+.+-.....|.|+..|..-.+..||.+|..
T Consensus 33 ~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDp 104 (284)
T KOG1457|consen 33 AVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDP 104 (284)
T ss_pred ccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeecc
Confidence 3578999999999999999998888743 4566666543333444588899999999999999999999973
No 116
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=58.10 E-value=33 Score=37.09 Aligned_cols=64 Identities=17% Similarity=0.237 Sum_probs=55.3
Q ss_pred CccEEEEEecCCCCCHHHHHHHhccc-ccceeEEEEeecCCCCcceEEEEEeCChhhHHHHHhhhcCCcCCC
Q 018432 64 RSTCIFVVAVPNYLSSDEFVRFCGSH-IDHVEELIFIRNDAMEDRYSVLIKLVDQLTADEFYSNLNGKRFSP 134 (356)
Q Consensus 64 ~~~~lciLaVP~~ms~~d~l~F~~~~-~~~i~~iriir~~~~~~~ymvLikF~s~~~A~eF~~~~ng~~Fns 134 (356)
....|.|=.+|..+|-.+|.++++.+ ...|..++++++ .+.++|.+.++|+.=....||+.|..
T Consensus 232 ~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~rg-------fAFVeF~s~e~A~kAi~~lnG~~i~G 296 (578)
T TIGR01648 232 KVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKIRD-------YAFVHFEDREDAVKAMDELNGKELEG 296 (578)
T ss_pred cccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEeecC-------eEEEEeCCHHHHHHHHHHhCCCEECC
Confidence 35789999999999999999999887 257888888873 58899999999999999999998864
No 117
>PF14369 zf-RING_3: zinc-finger
Probab=57.53 E-value=7.2 Score=26.42 Aligned_cols=16 Identities=19% Similarity=0.333 Sum_probs=13.0
Q ss_pred ceEEEccCCceeeccc
Q 018432 267 QQIWDYVGDNYVHRLN 282 (356)
Q Consensus 267 ~~VwcY~cd~yVHrl~ 282 (356)
++-|||.|+..|+...
T Consensus 1 ~~ywCh~C~~~V~~~~ 16 (35)
T PF14369_consen 1 QRYWCHQCNRFVRIAP 16 (35)
T ss_pred CCEeCccCCCEeEeCc
Confidence 4679999999998643
No 118
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=55.15 E-value=62 Score=28.48 Aligned_cols=70 Identities=16% Similarity=0.319 Sum_probs=56.6
Q ss_pred ccEEEEEecCCCCCHHHHHHHhcccccceeEEEEeecC-CCCcceEEEEEeCChhhHHHHHhhhcCCcCCCC
Q 018432 65 STCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRND-AMEDRYSVLIKLVDQLTADEFYSNLNGKRFSPA 135 (356)
Q Consensus 65 ~~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~-~~~~~ymvLikF~s~~~A~eF~~~~ng~~Fnsl 135 (356)
...|.|-.+|..++-.+|..++..+ ..|..+++.++. ....+-...+.|.+...|..-...+||..|..-
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~-g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~ 185 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKF-GPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGR 185 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhc-CceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCc
Confidence 4889999999999999999987654 225777777752 224577899999999999999999998888643
No 119
>PLN03121 nucleic acid binding protein; Provisional
Probab=54.41 E-value=66 Score=31.11 Aligned_cols=68 Identities=12% Similarity=0.161 Sum_probs=53.5
Q ss_pred CccEEEEEecCCCCCHHHHHHHhcccccceeEEEEeecCCCCcceEEEEEeCChhhHHHHHhhhcCCcCCCC
Q 018432 64 RSTCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDAMEDRYSVLIKLVDQLTADEFYSNLNGKRFSPA 135 (356)
Q Consensus 64 ~~~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~~~~~ymvLikF~s~~~A~eF~~~~ng~~Fnsl 135 (356)
.+.+|.|-.++...|..||-.|++. ...|.+++|+++... .-...++|++..+|+.= -..||..+...
T Consensus 4 ~g~TV~V~NLS~~tTE~dLrefFS~-~G~I~~V~I~~D~et--~gfAfVtF~d~~aaetA-llLnGa~l~d~ 71 (243)
T PLN03121 4 GGYTAEVTNLSPKATEKDVYDFFSH-CGAIEHVEIIRSGEY--ACTAYVTFKDAYALETA-VLLSGATIVDQ 71 (243)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHh-cCCeEEEEEecCCCc--ceEEEEEECCHHHHHHH-HhcCCCeeCCc
Confidence 3478999999999999999988754 456999999996432 34799999999988554 47899987533
No 120
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=53.17 E-value=16 Score=38.99 Aligned_cols=65 Identities=23% Similarity=0.350 Sum_probs=50.9
Q ss_pred ccEEEEEecCCCCCHHHHHHHhcccccceeEEEEeecCCCCcceEEEEEeCChhhHHHHHhhhcCCcCCC
Q 018432 65 STCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDAMEDRYSVLIKLVDQLTADEFYSNLNGKRFSP 134 (356)
Q Consensus 65 ~~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~~~~~ymvLikF~s~~~A~eF~~~~ng~~Fns 134 (356)
...|-|+.||..+|-++|++.++.+ =+||-||.. ...+..+.+.|.|...|+.=.+..|++.+-.
T Consensus 75 ~~~L~v~nl~~~Vsn~~L~~~f~~y----Geir~ir~t-~~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~ 139 (549)
T KOG4660|consen 75 QGTLVVFNLPRSVSNDTLLRIFGAY----GEIREIRET-PNKRGIVFVEFYDVRDAERALKALNRREIAG 139 (549)
T ss_pred cceEEEEecCCcCCHHHHHHHHHhh----cchhhhhcc-cccCceEEEEEeehHhHHHHHHHHHHHHhhh
Confidence 5779999999999999999998773 334445532 2347799999999999998888888877654
No 121
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=51.24 E-value=6.2 Score=39.22 Aligned_cols=41 Identities=24% Similarity=0.576 Sum_probs=32.4
Q ss_pred CCCCccccccCCCCcceeeecCCCccchhhhhccc---ccccccccc
Q 018432 168 PTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT---VLSCQVCRF 211 (356)
Q Consensus 168 ptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~---~ssCPvCR~ 211 (356)
..||.|--.+... ..+.-|+|.|..+|+..-+ +-.||.|-.
T Consensus 275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 5799998888764 4567889999999997654 667888865
No 122
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.21 E-value=8.3 Score=39.01 Aligned_cols=42 Identities=26% Similarity=0.609 Sum_probs=28.5
Q ss_pred CCCCCCccccccCCCCcceeeecCCCccchhhhhccccccccccccc
Q 018432 166 ELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWTVLSCQVCRFC 212 (356)
Q Consensus 166 elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~~ssCPvCR~~ 212 (356)
.-+.|-||++.-.+ ..-++|+|.-.+.-.++- ...||+||..
T Consensus 304 ~p~lcVVcl~e~~~----~~fvpcGh~ccct~cs~~-l~~CPvCR~r 345 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKS----AVFVPCGHVCCCTLCSKH-LPQCPVCRQR 345 (355)
T ss_pred CCCceEEecCCccc----eeeecCCcEEEchHHHhh-CCCCchhHHH
Confidence 35689999998765 466799999543222222 3569999964
No 123
>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=50.20 E-value=8.3 Score=25.83 Aligned_cols=13 Identities=46% Similarity=1.541 Sum_probs=10.7
Q ss_pred eeeeccccceecc
Q 018432 230 LWVCLICGFVGCG 242 (356)
Q Consensus 230 lWiCL~CG~vGCg 242 (356)
.|+|.+||++.=|
T Consensus 2 ~~~C~~CG~i~~g 14 (34)
T cd00729 2 VWVCPVCGYIHEG 14 (34)
T ss_pred eEECCCCCCEeEC
Confidence 6999999998544
No 124
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=48.96 E-value=5.3 Score=37.57 Aligned_cols=27 Identities=33% Similarity=0.736 Sum_probs=21.5
Q ss_pred CCCccccccCCCCcceeeecCCCccchhhhh
Q 018432 169 TCPICLERLDPDTSGILSTICDHSFQCSCTA 199 (356)
Q Consensus 169 tCpICLe~ld~~~sgilt~~C~H~FH~~Cl~ 199 (356)
-|.||-+.+... +.+.|+|.|...|..
T Consensus 198 ~C~iCKkdy~sp----vvt~CGH~FC~~Cai 224 (259)
T COG5152 198 LCGICKKDYESP----VVTECGHSFCSLCAI 224 (259)
T ss_pred eehhchhhccch----hhhhcchhHHHHHHH
Confidence 899999999864 445899999776653
No 125
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=48.85 E-value=8.3 Score=45.70 Aligned_cols=44 Identities=27% Similarity=0.723 Sum_probs=31.9
Q ss_pred CCCCCccccc-cCCCCcceeeecCCCccchhhh-----hcccc-------ccccccccc
Q 018432 167 LPTCPICLER-LDPDTSGILSTICDHSFQCSCT-----AKWTV-------LSCQVCRFC 212 (356)
Q Consensus 167 lptCpICLe~-ld~~~sgilt~~C~H~FH~~Cl-----~kW~~-------ssCPvCR~~ 212 (356)
...|-||..+ |... ..+.+-|.|.||..|. .+|+. -+||+|+..
T Consensus 3486 DDmCmICFTE~L~AA--P~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~ 3542 (3738)
T KOG1428|consen 3486 DDMCMICFTEALSAA--PAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNK 3542 (3738)
T ss_pred CceEEEEehhhhCCC--cceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccch
Confidence 4567788754 4332 3567899999999998 46863 689999853
No 126
>PF12773 DZR: Double zinc ribbon
Probab=48.17 E-value=20 Score=25.34 Aligned_cols=9 Identities=33% Similarity=0.936 Sum_probs=4.4
Q ss_pred CcccccCCC
Q 018432 219 PTCSVCGTV 227 (356)
Q Consensus 219 ~~C~~C~~~ 227 (356)
..|..|+..
T Consensus 30 ~~C~~Cg~~ 38 (50)
T PF12773_consen 30 KICPNCGAE 38 (50)
T ss_pred CCCcCCcCC
Confidence 345555544
No 127
>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=47.70 E-value=7.8 Score=25.61 Aligned_cols=10 Identities=50% Similarity=1.434 Sum_probs=5.7
Q ss_pred ceeeeccccc
Q 018432 229 NLWVCLICGF 238 (356)
Q Consensus 229 nlWiCL~CG~ 238 (356)
..|.|.+||.
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 4566666654
No 128
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=47.35 E-value=33 Score=34.07 Aligned_cols=108 Identities=22% Similarity=0.389 Sum_probs=64.9
Q ss_pred CCCCCCCCCCCccccccCCCCcceeeecCCCccchhhhhcc--ccccccccccccccC------------------CCCc
Q 018432 161 PAGFTELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKW--TVLSCQVCRFCHQQD------------------ERPT 220 (356)
Q Consensus 161 ~~~~~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW--~~ssCPvCR~~~~~~------------------~~~~ 220 (356)
.-...++-+||||.+.|... ...|+ .+|..|.+-- ....||.||...... ....
T Consensus 42 ~~~~~~lleCPvC~~~l~~P-----i~QC~-nGHlaCssC~~~~~~~CP~Cr~~~g~~R~~amEkV~e~~~vpC~~~~~G 115 (299)
T KOG3002|consen 42 TLLDLDLLDCPVCFNPLSPP-----IFQCD-NGHLACSSCRTKVSNKCPTCRLPIGNIRCRAMEKVAEAVLVPCKNAKLG 115 (299)
T ss_pred cccchhhccCchhhccCccc-----ceecC-CCcEehhhhhhhhcccCCccccccccHHHHHHHHHHHhceecccccccC
Confidence 34567899999999999864 23563 5566665433 256899999865310 0111
Q ss_pred c-------------cccCCCCceeeec----cccceeccCCCCcHHhhhhhhcCCeeeE-eCCCceEEEccCCceeecc
Q 018432 221 C-------------SVCGTVENLWVCL----ICGFVGCGRYKEGHAVRHWKDTQHWYSL-DLRTQQIWDYVGDNYVHRL 281 (356)
Q Consensus 221 C-------------~~C~~~~nlWiCL----~CG~vGCgr~~~~HA~~H~~~t~H~~al-~l~t~~VwcY~cd~yVHrl 281 (356)
| ..|.. .+|-|. .|.+.| + ..--..|+..+ |...+ .+.+.+++++..|.+.+.+
T Consensus 116 C~~~~~Y~~~~~HE~~C~f--~~~~CP~p~~~C~~~G--~--~~~l~~H~~~~-hk~~~~~~~~~~~~~~~~~~~~~~~ 187 (299)
T KOG3002|consen 116 CTKSFPYGEKSKHEKVCEF--RPCSCPVPGAECKYTG--S--YKDLYAHLNDT-HKSDIITLTGFDFVFVATDENLLGA 187 (299)
T ss_pred Cceeecccccccccccccc--CCcCCCCCcccCCccC--c--HHHHHHHHHhh-ChhhhhhccccceecccCCcccccc
Confidence 1 11222 355443 344432 2 23456787777 88855 5666799999998887543
No 129
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=47.29 E-value=11 Score=36.43 Aligned_cols=46 Identities=26% Similarity=0.569 Sum_probs=35.3
Q ss_pred CCCCCccccccCCCC--cceeeecCCCccchhhhhccc---cccccccccc
Q 018432 167 LPTCPICLERLDPDT--SGILSTICDHSFQCSCTAKWT---VLSCQVCRFC 212 (356)
Q Consensus 167 lptCpICLe~ld~~~--sgilt~~C~H~FH~~Cl~kW~---~ssCPvCR~~ 212 (356)
.|.|-||-+.+.... .....+.|+|+|...|..+-. ...||.||..
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~ 53 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRET 53 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCc
Confidence 578999999988752 122356799999999998776 3568999986
No 130
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=46.50 E-value=87 Score=34.18 Aligned_cols=69 Identities=13% Similarity=0.097 Sum_probs=57.5
Q ss_pred ccEEEEEecCCCCCHHHHHHHhcccccceeEEEEeecCC-CCcceEEEEEeCChhhHHHHHhhhcCCcCCC
Q 018432 65 STCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDA-MEDRYSVLIKLVDQLTADEFYSNLNGKRFSP 134 (356)
Q Consensus 65 ~~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~-~~~~ymvLikF~s~~~A~eF~~~~ng~~Fns 134 (356)
...|.|-.+|..++-.||..++..| ..|..++|.++.. -..+-...++|.+.++|.+=....||..++.
T Consensus 204 ~~rLfVgnLp~~vteedLk~lFs~F-G~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgG 273 (612)
T TIGR01645 204 FNRIYVASVHPDLSETDIKSVFEAF-GEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGG 273 (612)
T ss_pred cceEEeecCCCCCCHHHHHHHHhhc-CCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCC
Confidence 4679999999999999999988764 4589999998542 1346688999999999999999999987764
No 131
>PHA00626 hypothetical protein
Probab=45.94 E-value=12 Score=28.24 Aligned_cols=31 Identities=23% Similarity=0.445 Sum_probs=24.6
Q ss_pred cccccccccccCCCCcccccCCCCceeeeccccce
Q 018432 205 SCQVCRFCHQQDERPTCSVCGTVENLWVCLICGFV 239 (356)
Q Consensus 205 sCPvCR~~~~~~~~~~C~~C~~~~nlWiCL~CG~v 239 (356)
.||-|-... ..+|..|....+++.|-.||+.
T Consensus 2 ~CP~CGS~~----Ivrcg~cr~~snrYkCkdCGY~ 32 (59)
T PHA00626 2 SCPKCGSGN----IAKEKTMRGWSDDYVCCDCGYN 32 (59)
T ss_pred CCCCCCCce----eeeeceecccCcceEcCCCCCe
Confidence 588886532 3578899988999999999984
No 132
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=44.05 E-value=14 Score=24.36 Aligned_cols=21 Identities=43% Similarity=1.086 Sum_probs=11.4
Q ss_pred CcccccCCC-----Cceeeeccccce
Q 018432 219 PTCSVCGTV-----ENLWVCLICGFV 239 (356)
Q Consensus 219 ~~C~~C~~~-----~nlWiCL~CG~v 239 (356)
++|..|+.. +.+++|-.||+.
T Consensus 3 p~Cp~C~se~~y~D~~~~vCp~C~~e 28 (30)
T PF08274_consen 3 PKCPLCGSEYTYEDGELLVCPECGHE 28 (30)
T ss_dssp ---TTT-----EE-SSSEEETTTTEE
T ss_pred CCCCCCCCcceeccCCEEeCCccccc
Confidence 455666554 458999999874
No 133
>KOG1705 consensus Uncharacterized conserved protein, contains CXXC motifs [Function unknown]
Probab=43.43 E-value=13 Score=30.91 Aligned_cols=39 Identities=26% Similarity=0.465 Sum_probs=23.9
Q ss_pred cccccccccccccCCC-CcccccCCCCceeeeccccceec
Q 018432 203 VLSCQVCRFCHQQDER-PTCSVCGTVENLWVCLICGFVGC 241 (356)
Q Consensus 203 ~ssCPvCR~~~~~~~~-~~C~~C~~~~nlWiCL~CG~vGC 241 (356)
+..||+|-.-..+-.+ -.|.+|......--|.+||.+|=
T Consensus 27 DgkC~ICDS~VRP~tlVRiC~eC~~Gs~q~~ciic~~~gV 66 (110)
T KOG1705|consen 27 DGKCVICDSYVRPCTLVRICDECNYGSYQGRCVICGGVGV 66 (110)
T ss_pred CCcccccccccccceeeeeehhcCCccccCceEEecCCcc
Confidence 4567777654433322 24777777666667777777764
No 134
>PF03992 ABM: Antibiotic biosynthesis monooxygenase; InterPro: IPR007138 This domain is found in monooxygenases involved in the biosynthesis of several antibiotics by Streptomyces species, which can carry out oxygenation without the assistance of any of the prosthetic groups, metal ions or cofactors normally associated with activation of molecular oxygen. The structure of ActVA-Orf6 monooxygenase from Streptomyces coelicolor (Q53908 from SWISSPROT), which is involved in actinorhodin biosynthesis, reveals a dimeric alpha+beta barrel topology []. There is also a conserved histidine that is likely to be an active site residue. In S. coelicolor SCO1909 (Q9X9W3 from SWISSPROT) this domain occurs as a repeat. This domain is also found in protein LsrG, involved in the degradation of quorum-sensing molecule autoinducer-2 [], and in several uncharacterised proteins.; PDB: 1X7V_A 3F44_A 4DN9_B 1N5T_B 1LQ9_A 1N5Q_B 1N5V_A 1N5S_A 2GFF_B 3BM7_A ....
Probab=43.36 E-value=94 Score=22.67 Aligned_cols=36 Identities=8% Similarity=0.083 Sum_probs=29.4
Q ss_pred ccceeEEEEeecCCCCcceEEEEEeCChhhHHHHHh
Q 018432 90 IDHVEELIFIRNDAMEDRYSVLIKLVDQLTADEFYS 125 (356)
Q Consensus 90 ~~~i~~iriir~~~~~~~ymvLikF~s~~~A~eF~~ 125 (356)
.+....+.+.+....|++|+++-+++|.++-+++.+
T Consensus 33 ~~G~~~~~~~~~~~~~~~~~~~~~W~s~~a~~~~~~ 68 (78)
T PF03992_consen 33 EPGCLSYELYRSLDDPNRYVIVERWESEEAFQAHFK 68 (78)
T ss_dssp STTEEEEEEEEESSSTTEEEEEEEESSHHHHHHHHT
T ss_pred CCCcEEEEEEEecCCCCEEEEEEEECCHHHHHHHHc
Confidence 456788888886667999999999999888776654
No 135
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=42.69 E-value=6 Score=42.14 Aligned_cols=45 Identities=20% Similarity=0.598 Sum_probs=34.8
Q ss_pred CCCCCCCccccccCCCCcceeeecCCCccchhhhhccc-------ccccccccccc
Q 018432 165 TELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT-------VLSCQVCRFCH 213 (356)
Q Consensus 165 ~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~-------~ssCPvCR~~~ 213 (356)
.+.-.|-+|-+.-.+ .+...|.|.|...|+..+- +.+||+|-..+
T Consensus 534 k~~~~C~lc~d~aed----~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~L 585 (791)
T KOG1002|consen 534 KGEVECGLCHDPAED----YIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGL 585 (791)
T ss_pred cCceeecccCChhhh----hHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccc
Confidence 345679999887654 4566899999999996663 58999998644
No 136
>PRK10220 hypothetical protein; Provisional
Probab=42.44 E-value=18 Score=30.90 Aligned_cols=21 Identities=24% Similarity=0.901 Sum_probs=14.4
Q ss_pred CcccccCCC-----Cceeeeccccce
Q 018432 219 PTCSVCGTV-----ENLWVCLICGFV 239 (356)
Q Consensus 219 ~~C~~C~~~-----~nlWiCL~CG~v 239 (356)
+.|..|+.. .++|+|..||+.
T Consensus 4 P~CP~C~seytY~d~~~~vCpeC~hE 29 (111)
T PRK10220 4 PHCPKCNSEYTYEDNGMYICPECAHE 29 (111)
T ss_pred CcCCCCCCcceEcCCCeEECCcccCc
Confidence 345555543 469999999984
No 137
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=41.41 E-value=5.1 Score=43.47 Aligned_cols=50 Identities=22% Similarity=0.340 Sum_probs=40.0
Q ss_pred CCCCCCCCCccccccCCCCcceeeecCCCccchhhhhcccccccccccccc
Q 018432 163 GFTELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWTVLSCQVCRFCH 213 (356)
Q Consensus 163 ~~~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~~ssCPvCR~~~ 213 (356)
..+++.-|+||+-++-...-.-+.+.|+|+-...|+.+-.+.+|| |++.+
T Consensus 7 ~w~~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~scp-~~~De 56 (861)
T KOG3161|consen 7 KWVLLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNASCP-TKRDE 56 (861)
T ss_pred hhHHHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhccCC-CCccc
Confidence 346788999998887665444567899999999999999899999 77643
No 138
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=41.24 E-value=18 Score=30.80 Aligned_cols=21 Identities=24% Similarity=0.755 Sum_probs=14.5
Q ss_pred CcccccCCC-----Cceeeeccccce
Q 018432 219 PTCSVCGTV-----ENLWVCLICGFV 239 (356)
Q Consensus 219 ~~C~~C~~~-----~nlWiCL~CG~v 239 (356)
+.|..|+.. .++|+|..||+.
T Consensus 3 p~CP~C~seytY~dg~~~iCpeC~~E 28 (109)
T TIGR00686 3 PPCPKCNSEYTYHDGTQLICPSCLYE 28 (109)
T ss_pred CcCCcCCCcceEecCCeeECcccccc
Confidence 345555543 479999999984
No 139
>COG5470 Uncharacterized conserved protein [Function unknown]
Probab=41.20 E-value=22 Score=29.66 Aligned_cols=17 Identities=24% Similarity=0.411 Sum_probs=16.1
Q ss_pred EEEEEeCChhhHHHHHh
Q 018432 109 SVLIKLVDQLTADEFYS 125 (356)
Q Consensus 109 mvLikF~s~~~A~eF~~ 125 (356)
+|+|+|+|.+.|.+||+
T Consensus 55 ~vviEFps~~~ar~~y~ 71 (96)
T COG5470 55 NVVIEFPSLEAARDCYN 71 (96)
T ss_pred EEEEEcCCHHHHHHHhc
Confidence 99999999999999976
No 140
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=40.93 E-value=24 Score=34.74 Aligned_cols=45 Identities=24% Similarity=0.484 Sum_probs=31.8
Q ss_pred CCCCCCCccccccCCCCcceeeecCCCccchhhhhccc----cccccccccc
Q 018432 165 TELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT----VLSCQVCRFC 212 (356)
Q Consensus 165 ~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~----~ssCPvCR~~ 212 (356)
+..-+||+|-++=.- -....+|+|.|.--|+.+=. .-+||.|-..
T Consensus 237 t~~~~C~~Cg~~Pti---P~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~ 285 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTI---PHVIGKCGHIYCYYCIATSRLWDASFTCPLCGEN 285 (298)
T ss_pred cCCceeeccCCCCCC---CeeeccccceeehhhhhhhhcchhhcccCccCCC
Confidence 557799999987332 13445799999999997543 3578888653
No 141
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=40.70 E-value=98 Score=25.72 Aligned_cols=59 Identities=12% Similarity=0.090 Sum_probs=36.2
Q ss_pred cEEEEEecCCCCCHHHHHHHhcccccceeEEEEeecCCCCcceEEEEEeCChhhHHHHHhhhcCC
Q 018432 66 TCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDAMEDRYSVLIKLVDQLTADEFYSNLNGK 130 (356)
Q Consensus 66 ~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~~~~~ymvLikF~s~~~A~eF~~~~ng~ 130 (356)
.+|.|-+++..+|..||...+..+- .|..|-+.+.+ . ...|+|.+.+.|..+...+.-.
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g-~V~yVD~~~G~--~---~g~VRf~~~~~A~~a~~~~~~~ 60 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFG-EVAYVDFSRGD--T---EGYVRFKTPEAAQKALEKLKEA 60 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS---EEEEE--TT---S---EEEEEESS---HHHHHHHHHHT
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcC-CcceEEecCCC--C---EEEEEECCcchHHHHHHHHHhc
Confidence 4678888999999999999988744 67777666633 3 7999999999999998766554
No 142
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=39.66 E-value=10 Score=42.13 Aligned_cols=61 Identities=20% Similarity=0.247 Sum_probs=42.4
Q ss_pred CCCCCCCccccccCCCCcceeeec---CCCccchhhhhcccc--------ccccccccccccCC--CCcccccC
Q 018432 165 TELPTCPICLERLDPDTSGILSTI---CDHSFQCSCTAKWTV--------LSCQVCRFCHQQDE--RPTCSVCG 225 (356)
Q Consensus 165 ~elptCpICLe~ld~~~sgilt~~---C~H~FH~~Cl~kW~~--------ssCPvCR~~~~~~~--~~~C~~C~ 225 (356)
.+.-+|++|+-.+-+++.+....+ |.|.|.-.||.+|.+ ..|+.|..+..... ...|..|.
T Consensus 94 a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR 167 (1134)
T KOG0825|consen 94 AESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDR 167 (1134)
T ss_pred ccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhh
Confidence 455688888888777555554444 999999999999973 67888887764322 23455553
No 143
>PRK14873 primosome assembly protein PriA; Provisional
Probab=39.28 E-value=17 Score=39.90 Aligned_cols=35 Identities=29% Similarity=0.671 Sum_probs=26.4
Q ss_pred cccccccccc---cCCCCcccccCCCCceeeeccccce
Q 018432 205 SCQVCRFCHQ---QDERPTCSVCGTVENLWVCLICGFV 239 (356)
Q Consensus 205 sCPvCR~~~~---~~~~~~C~~C~~~~nlWiCL~CG~v 239 (356)
.||-|-..+. ......|.-||.....|.|..||.-
T Consensus 394 ~C~~C~~~L~~h~~~~~l~Ch~CG~~~~p~~Cp~Cgs~ 431 (665)
T PRK14873 394 RCRHCTGPLGLPSAGGTPRCRWCGRAAPDWRCPRCGSD 431 (665)
T ss_pred ECCCCCCceeEecCCCeeECCCCcCCCcCccCCCCcCC
Confidence 5777765443 2345789999998889999999874
No 144
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=38.49 E-value=12 Score=40.66 Aligned_cols=26 Identities=27% Similarity=0.919 Sum_probs=19.7
Q ss_pred cCCCccchhhhhccc-------ccccccccccc
Q 018432 188 ICDHSFQCSCTAKWT-------VLSCQVCRFCH 213 (356)
Q Consensus 188 ~C~H~FH~~Cl~kW~-------~ssCPvCR~~~ 213 (356)
-|+-.+|..|+..|. +..||-||.+.
T Consensus 40 ~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvCe 72 (694)
T KOG4443|consen 40 DCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVCE 72 (694)
T ss_pred hhcccCCcchhhHHHhHHHhcCCcccCCceeee
Confidence 456778999999886 24699998743
No 145
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=37.78 E-value=1.6e+02 Score=31.09 Aligned_cols=73 Identities=22% Similarity=0.321 Sum_probs=60.3
Q ss_pred CCCccEEEEEecCCCCCHHHHHHHhcccccceeEEEEeec-CCCCcceEEEEEeCChhhHHHHHhhhcCCcCCCC
Q 018432 62 NSRSTCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRN-DAMEDRYSVLIKLVDQLTADEFYSNLNGKRFSPA 135 (356)
Q Consensus 62 ~~~~~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~-~~~~~~ymvLikF~s~~~A~eF~~~~ng~~Fnsl 135 (356)
..+..-|.|=.+|..+.=.||.-+++. +..|-++|+.++ ..-.||--+-+.|.+.+.|.+=.+.+|+.-|.+-
T Consensus 80 p~~G~EVfvGkIPrD~~EdeLvplfEk-iG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~G 153 (506)
T KOG0117|consen 80 PPRGCEVFVGKIPRDVFEDELVPLFEK-IGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPG 153 (506)
T ss_pred CCCCceEEecCCCccccchhhHHHHHh-ccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCC
Confidence 368899999999999999999888754 455999999986 2225788899999999999999898988877654
No 146
>KOG1295 consensus Nonsense-mediated decay protein Upf3 [RNA processing and modification]
Probab=37.40 E-value=26 Score=35.78 Aligned_cols=65 Identities=22% Similarity=0.417 Sum_probs=54.2
Q ss_pred EEEEecCCCCCHHHHHHHhcccccceeEEEEeecCC--CCcceE-EEEEeCChhhHHHHHhhhcCCcC
Q 018432 68 IFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDA--MEDRYS-VLIKLVDQLTADEFYSNLNGKRF 132 (356)
Q Consensus 68 lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~--~~~~ym-vLikF~s~~~A~eF~~~~ng~~F 132 (356)
|.|--+|.+|+-.+|+.-|.++.+++.-..+...+. -++.|. +.|.|..+....+|...|+|-.|
T Consensus 10 vv~rrlpp~l~~~~~~eqi~p~~~~v~~~~F~~a~~s~~~~~ysrayinFk~~~dv~ef~~~f~g~if 77 (376)
T KOG1295|consen 10 VVVRRLPPKLTEEQLLEQINPFPEHVNWEFFAKADESLRNHKYSRAYINFKNPEDVEEFRRRFDGYIF 77 (376)
T ss_pred eeeecCCCcccHHHHhhhcCCCccccchheeccccccchhhhhhhhhhccccHHHHHHHHhhCCceEE
Confidence 557778999999999999999888888888875331 245554 89999999999999999999988
No 147
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=36.63 E-value=30 Score=25.89 Aligned_cols=33 Identities=18% Similarity=0.541 Sum_probs=26.0
Q ss_pred CCCCCCccccccCCCCcceeeecCCCccchhhh
Q 018432 166 ELPTCPICLERLDPDTSGILSTICDHSFQCSCT 198 (356)
Q Consensus 166 elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl 198 (356)
+-..|++|-+++.+....++-..|+-..|..|-
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~ 36 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCW 36 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHH
Confidence 456899999999654455677889999999983
No 148
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.42 E-value=17 Score=36.06 Aligned_cols=39 Identities=31% Similarity=0.502 Sum_probs=28.1
Q ss_pred CCCccccccCCCCcceeeecCCCccchhhhhccc--ccccccccc
Q 018432 169 TCPICLERLDPDTSGILSTICDHSFQCSCTAKWT--VLSCQVCRF 211 (356)
Q Consensus 169 tCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~--~ssCPvCR~ 211 (356)
.|-||-..+... +...|+|.|...|-.+-. ...|.+|-.
T Consensus 243 ~c~icr~~f~~p----Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~ 283 (313)
T KOG1813|consen 243 KCFICRKYFYRP----VVTKCGHYFCEVCALKPYQKGEKCYVCSQ 283 (313)
T ss_pred cccccccccccc----hhhcCCceeehhhhccccccCCcceeccc
Confidence 699999998864 445899999877765543 355666643
No 149
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=36.39 E-value=1.1e+02 Score=33.57 Aligned_cols=69 Identities=12% Similarity=0.134 Sum_probs=56.5
Q ss_pred ccEEEEEecCCCCCHHHHHHHhcccccceeEEEEeecCCC-CcceEEEEEeCChhhHHHHHhhhcCCcCCC
Q 018432 65 STCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDAM-EDRYSVLIKLVDQLTADEFYSNLNGKRFSP 134 (356)
Q Consensus 65 ~~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~~-~~~ymvLikF~s~~~A~eF~~~~ng~~Fns 134 (356)
...|.|-.+|..++-.+|..++..+ ..|..++|+++..+ .++-...+.|.+.+.|+.=...+||+.+..
T Consensus 107 ~~rLfVGnLp~~~tEe~Lr~lF~~f-G~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~G 176 (612)
T TIGR01645 107 MCRVYVGSISFELREDTIRRAFDPF-GPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGG 176 (612)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHcc-CCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEec
Confidence 3568999999999999999988764 35889999885321 245589999999999999999999988754
No 150
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=36.06 E-value=13 Score=41.64 Aligned_cols=36 Identities=19% Similarity=0.379 Sum_probs=28.6
Q ss_pred CCCCCCCccccccCCCCcceeeecCCCccchhhhhccc
Q 018432 165 TELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT 202 (356)
Q Consensus 165 ~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~ 202 (356)
....+|-+|--.+-.- .....+|+|.||.+|+.+-.
T Consensus 815 ep~d~C~~C~~~ll~~--pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLIK--PFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred cCccchHHhcchhhcC--cceeeeccchHHHHHHHHHH
Confidence 3466899999887753 46778999999999996653
No 151
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=35.84 E-value=24 Score=33.92 Aligned_cols=42 Identities=21% Similarity=0.474 Sum_probs=29.9
Q ss_pred CCccccccCCCCcceeeecCCCccchhhhhcccccccccccccc
Q 018432 170 CPICLERLDPDTSGILSTICDHSFQCSCTAKWTVLSCQVCRFCH 213 (356)
Q Consensus 170 CpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~~ssCPvCR~~~ 213 (356)
|-.|.-+=.. .+.-.+.|.|.|...|...=....||.||...
T Consensus 6 Cn~C~~~~~~--~~f~LTaC~HvfC~~C~k~~~~~~C~lCkk~i 47 (233)
T KOG4739|consen 6 CNKCFRFPSQ--DPFFLTACRHVFCEPCLKASSPDVCPLCKKSI 47 (233)
T ss_pred eccccccCCC--CceeeeechhhhhhhhcccCCcccccccccee
Confidence 5556555442 34667799999999998666555889998754
No 152
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=35.20 E-value=92 Score=34.62 Aligned_cols=67 Identities=15% Similarity=0.225 Sum_probs=51.5
Q ss_pred ccEEEEEecCCCCCHHHHHHHhcccccceeEEEEeecC-CCCcceEEEEEeCChhhHHHHHhhhcCCcC
Q 018432 65 STCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRND-AMEDRYSVLIKLVDQLTADEFYSNLNGKRF 132 (356)
Q Consensus 65 ~~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~-~~~~~ymvLikF~s~~~A~eF~~~~ng~~F 132 (356)
.++|.+-.+|...|+.|++.|+..+.-.=-.|++-++| ++| .--..+.|.+++.|..=....++++.
T Consensus 867 p~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~G~p-TGe~mvAfes~~eAr~A~~dl~~~~i 934 (944)
T KOG4307|consen 867 PRVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVP-TGECMVAFESQEEARRASMDLDGQKI 934 (944)
T ss_pred CeEEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCCc-ccceeEeecCHHHHHhhhhccccCcc
Confidence 35899999999999999999999886666667776655 333 22345678899888887777888764
No 153
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=35.04 E-value=14 Score=35.49 Aligned_cols=47 Identities=28% Similarity=0.672 Sum_probs=34.0
Q ss_pred CCCCCccccccCCCCcceeeecCC-----Cccchhhhhccc----ccccccccccc
Q 018432 167 LPTCPICLERLDPDTSGILSTICD-----HSFQCSCTAKWT----VLSCQVCRFCH 213 (356)
Q Consensus 167 lptCpICLe~ld~~~sgilt~~C~-----H~FH~~Cl~kW~----~ssCPvCR~~~ 213 (356)
.+.|.||.+..+......+..+|. ...|..|+.+|. +..|.+|....
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~ 133 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFF 133 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccc
Confidence 578999999877643223455663 335999999997 47899998753
No 154
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=33.97 E-value=25 Score=32.93 Aligned_cols=36 Identities=33% Similarity=0.757 Sum_probs=24.2
Q ss_pred CCccccccCCCCcceeeecCCCccch-hhhhcccccccccccc
Q 018432 170 CPICLERLDPDTSGILSTICDHSFQC-SCTAKWTVLSCQVCRF 211 (356)
Q Consensus 170 CpICLe~ld~~~sgilt~~C~H~FH~-~Cl~kW~~ssCPvCR~ 211 (356)
|-.|-++= ..++.+||+|.-+| .|-.. -..||+|+-
T Consensus 161 Cr~C~~~~----~~VlllPCrHl~lC~~C~~~--~~~CPiC~~ 197 (207)
T KOG1100|consen 161 CRKCGERE----ATVLLLPCRHLCLCGICDES--LRICPICRS 197 (207)
T ss_pred ceecCcCC----ceEEeecccceEeccccccc--CccCCCCcC
Confidence 99998873 24889999998654 34433 235777765
No 155
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=33.50 E-value=18 Score=33.02 Aligned_cols=19 Identities=53% Similarity=1.015 Sum_probs=0.0
Q ss_pred CcccccCCC---Cceeeecccc
Q 018432 219 PTCSVCGTV---ENLWVCLICG 237 (356)
Q Consensus 219 ~~C~~C~~~---~nlWiCL~CG 237 (356)
+.|.+||.. +..|.|.+||
T Consensus 135 ~vC~vCGy~~~ge~P~~CPiCg 156 (166)
T COG1592 135 WVCPVCGYTHEGEAPEVCPICG 156 (166)
T ss_pred EEcCCCCCcccCCCCCcCCCCC
No 156
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=33.47 E-value=21 Score=39.18 Aligned_cols=41 Identities=34% Similarity=0.701 Sum_probs=30.9
Q ss_pred CCCCccccccCCCCcceeeecCCCccchhhhhccc----ccccccccccc
Q 018432 168 PTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT----VLSCQVCRFCH 213 (356)
Q Consensus 168 ptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~----~ssCPvCR~~~ 213 (356)
..|++|++ .+. ...+.|.|.|..+|+.+-- +..||.||-..
T Consensus 455 ~~c~ic~~-~~~----~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l 499 (674)
T KOG1001|consen 455 HWCHICCD-LDS----FFITRCGHDFCVECLKKSIQQSENAPCPLCRNVL 499 (674)
T ss_pred cccccccc-ccc----ceeecccchHHHHHHHhccccccCCCCcHHHHHH
Confidence 89999999 332 3556899999988886543 35799999754
No 157
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=31.95 E-value=2e+02 Score=23.74 Aligned_cols=56 Identities=11% Similarity=0.204 Sum_probs=36.6
Q ss_pred cEEEEEecCCCCCHHHHHHHhc----ccccceeEEEEeecCCCCcceEEEEEeCChhhHHHHHhhhcCC
Q 018432 66 TCIFVVAVPNYLSSDEFVRFCG----SHIDHVEELIFIRNDAMEDRYSVLIKLVDQLTADEFYSNLNGK 130 (356)
Q Consensus 66 ~~lciLaVP~~ms~~d~l~F~~----~~~~~i~~iriir~~~~~~~ymvLikF~s~~~A~eF~~~~ng~ 130 (356)
++|.|..+|....+.-+..-+. .+-..|.++ .+ . .++|+|.+++.|+.=.++.+|.
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v-----~~-~---tAilrF~~~~~A~RA~KRmegE 62 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSV-----SG-G---TAILRFPNQEFAERAQKRMEGE 62 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE-------T-T----EEEEESSHHHHHHHHHHHTT-
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEE-----eC-C---EEEEEeCCHHHHHHHHHhhccc
Confidence 5789999999998877665443 334566666 22 2 6999999999999999988775
No 158
>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=31.86 E-value=46 Score=25.17 Aligned_cols=43 Identities=30% Similarity=0.583 Sum_probs=30.7
Q ss_pred CCCCCCccccccCCCCc--ceeeecCCCccchhhhhccccccccccc
Q 018432 166 ELPTCPICLERLDPDTS--GILSTICDHSFQCSCTAKWTVLSCQVCR 210 (356)
Q Consensus 166 elptCpICLe~ld~~~s--gilt~~C~H~FH~~Cl~kW~~ssCPvCR 210 (356)
--|.|-.|-..|.++.. -|-+.-| +|...|...-++..||-|.
T Consensus 4 lrpnCE~C~~dLp~~s~~A~ICSfEC--TFC~~C~e~~l~~~CPNCg 48 (57)
T PF06906_consen 4 LRPNCECCDKDLPPDSPEAYICSFEC--TFCADCAETMLNGVCPNCG 48 (57)
T ss_pred cCCCccccCCCCCCCCCcceEEeEeC--cccHHHHHHHhcCcCcCCC
Confidence 35789999988887641 2334444 7888888888777888775
No 159
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=31.42 E-value=30 Score=23.53 Aligned_cols=19 Identities=37% Similarity=1.097 Sum_probs=12.9
Q ss_pred ccccCCC-----Cceeeeccccce
Q 018432 221 CSVCGTV-----ENLWVCLICGFV 239 (356)
Q Consensus 221 C~~C~~~-----~nlWiCL~CG~v 239 (356)
|.+|+.. +..|.|-.||++
T Consensus 11 C~~C~~~~~~~~dG~~yC~~cG~~ 34 (36)
T PF11781_consen 11 CPVCGSRWFYSDDGFYYCDRCGHQ 34 (36)
T ss_pred CCCCCCeEeEccCCEEEhhhCceE
Confidence 6666543 357788888875
No 160
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=31.33 E-value=37 Score=37.19 Aligned_cols=52 Identities=23% Similarity=0.578 Sum_probs=33.8
Q ss_pred CCCccccccCCCCcceeeecCCCccchhhhhccccccccccccccccCCCCcccccCCCC-cee
Q 018432 169 TCPICLERLDPDTSGILSTICDHSFQCSCTAKWTVLSCQVCRFCHQQDERPTCSVCGTVE-NLW 231 (356)
Q Consensus 169 tCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~~ssCPvCR~~~~~~~~~~C~~C~~~~-nlW 231 (356)
.||-|-....++ +.|...|-.+-....||-|.+.. ++....|..||..- ..|
T Consensus 3 ~Cp~Cg~~n~~~----------akFC~~CG~~l~~~~Cp~CG~~~-~~~~~fC~~CG~~~~~~~ 55 (645)
T PRK14559 3 ICPQCQFENPNN----------NRFCQKCGTSLTHKPCPQCGTEV-PVDEAHCPNCGAETGTIW 55 (645)
T ss_pred cCCCCCCcCCCC----------CccccccCCCCCCCcCCCCCCCC-CcccccccccCCcccchh
Confidence 588887775542 34555555544445799998754 45556799999873 345
No 161
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=30.93 E-value=30 Score=36.54 Aligned_cols=35 Identities=26% Similarity=0.618 Sum_probs=25.4
Q ss_pred cccccccccc---cCCCCcccccCCCCc-eeeeccccce
Q 018432 205 SCQVCRFCHQ---QDERPTCSVCGTVEN-LWVCLICGFV 239 (356)
Q Consensus 205 sCPvCR~~~~---~~~~~~C~~C~~~~n-lWiCL~CG~v 239 (356)
.||.|-..+. ......|.-||.... .|.|..||..
T Consensus 224 ~C~~C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp~C~s~ 262 (505)
T TIGR00595 224 CCPNCDVSLTYHKKEGKLRCHYCGYQEPIPKTCPQCGSE 262 (505)
T ss_pred CCCCCCCceEEecCCCeEEcCCCcCcCCCCCCCCCCCCC
Confidence 5777775442 344668999998865 8999999863
No 162
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=30.60 E-value=1.4e+02 Score=31.56 Aligned_cols=72 Identities=14% Similarity=0.257 Sum_probs=56.2
Q ss_pred CCCCCCccEEEEEecCCCCCHHHHHHHhcccccceeEEEEeecCCCCcceEEEEEeCChhhHHHHHhhhcCC
Q 018432 59 QNPNSRSTCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDAMEDRYSVLIKLVDQLTADEFYSNLNGK 130 (356)
Q Consensus 59 ~~~~~~~~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~~~~~ymvLikF~s~~~A~eF~~~~ng~ 130 (356)
..++.|..++.|-.+|-..-..||...+....-.|..+.++-+..-..|--++++|++.+.++.-....|--
T Consensus 38 gn~~~r~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~ 109 (608)
T KOG4212|consen 38 GNVAARDRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDESGKARGCAVVEFKDPENVQKALEKLNKY 109 (608)
T ss_pred CCcccccceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecccCCCcCCceEEEeeCHHHHHHHHHHhhhc
Confidence 356788999999999999988899888877777788888877443345778999999998887776555433
No 163
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=30.19 E-value=12 Score=43.73 Aligned_cols=47 Identities=30% Similarity=0.736 Sum_probs=38.4
Q ss_pred CCCCCCCCCccccccCCCCcceeeecCCCccchhhhhccc--cccccccccc
Q 018432 163 GFTELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT--VLSCQVCRFC 212 (356)
Q Consensus 163 ~~~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~--~ssCPvCR~~ 212 (356)
.+.+.+.|++|++-+..- .||. .|+|.+.+.|...|+ .+.||.|+..
T Consensus 1149 ~~~~~~~c~ic~dil~~~-~~I~--~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1149 NLSGHFVCEICLDILRNQ-GGIA--GCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred HhhcccchHHHHHHHHhc-CCee--eechhHhhhHHHHHHHHhccCcchhhh
Confidence 456788999999999852 2333 699999999999998 6889999854
No 164
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=30.06 E-value=37 Score=34.13 Aligned_cols=46 Identities=33% Similarity=0.605 Sum_probs=31.3
Q ss_pred CCCCCccccccCCCCcceeeecCCCccchhhhhccc--cccccccccc
Q 018432 167 LPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT--VLSCQVCRFC 212 (356)
Q Consensus 167 lptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~--~ssCPvCR~~ 212 (356)
-|.||+|-+.++......+..+|.+.-+..|+..-. +.+||.||..
T Consensus 249 ~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~ 296 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKP 296 (327)
T ss_pred CCCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCc
Confidence 479999999998766555555665554444544443 5789999963
No 165
>PF03920 TLE_N: Groucho/TLE N-terminal Q-rich domain; InterPro: IPR005617 The N-terminal domain of the Grouch/TLE co-repressor proteins are involved in oligomerisation.; GO: 0005515 protein binding
Probab=30.01 E-value=57 Score=28.81 Aligned_cols=35 Identities=17% Similarity=0.290 Sum_probs=29.7
Q ss_pred hchhHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCC
Q 018432 320 FNSKVEAIVDEYNRLLATQLETQRQVSTSFPDVKTP 355 (356)
Q Consensus 320 ~~~K~e~~~~ey~~ll~sqLe~Qr~yyE~~l~~~~~ 355 (356)
..+..|.|.+||+ +|..|+-++|...|++-..|++
T Consensus 21 ~~es~drIKeEf~-~lqaq~hslk~E~eKla~EK~e 55 (135)
T PF03920_consen 21 TSESCDRIKEEFQ-FLQAQYHSLKLECEKLASEKTE 55 (135)
T ss_pred HHHHHHHHHHHHH-HHHHHHHhhhhhcchhhcccch
Confidence 3677899999999 6899999999999988776664
No 166
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=29.99 E-value=15 Score=35.85 Aligned_cols=46 Identities=22% Similarity=0.499 Sum_probs=31.5
Q ss_pred CCCCCccccccCCCCcceeeecC-----CCccchhhhhcccc----------ccccccccc
Q 018432 167 LPTCPICLERLDPDTSGILSTIC-----DHSFQCSCTAKWTV----------LSCQVCRFC 212 (356)
Q Consensus 167 lptCpICLe~ld~~~sgilt~~C-----~H~FH~~Cl~kW~~----------ssCPvCR~~ 212 (356)
.--|=||+.-=+++...-=..|| +|--|..|+..|-| .+||-|++.
T Consensus 20 eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTE 80 (293)
T KOG3053|consen 20 ERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTE 80 (293)
T ss_pred ceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcch
Confidence 45688888765554322224567 46679999999952 579999864
No 167
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=29.41 E-value=18 Score=33.14 Aligned_cols=28 Identities=29% Similarity=0.493 Sum_probs=21.8
Q ss_pred CCCCCccccccCCCCcceeeecCCCccch
Q 018432 167 LPTCPICLERLDPDTSGILSTICDHSFQC 195 (356)
Q Consensus 167 lptCpICLe~ld~~~sgilt~~C~H~FH~ 195 (356)
--.|-||||.|.... .|..+||--.+|+
T Consensus 177 kGECvICLEdL~~Gd-tIARLPCLCIYHK 204 (205)
T KOG0801|consen 177 KGECVICLEDLEAGD-TIARLPCLCIYHK 204 (205)
T ss_pred CCcEEEEhhhccCCC-ceeccceEEEeec
Confidence 458999999999875 4778888656654
No 168
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=29.00 E-value=30 Score=35.34 Aligned_cols=44 Identities=23% Similarity=0.504 Sum_probs=31.3
Q ss_pred CCCCCCCccccccCCCCcceeeecCCCccchhhhhccc--cccccccccc
Q 018432 165 TELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT--VLSCQVCRFC 212 (356)
Q Consensus 165 ~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~--~ssCPvCR~~ 212 (356)
.|...||||...=- ++ +-.||+|.....||.+.. ...|=.|+..
T Consensus 420 sEd~lCpICyA~pi---~A-vf~PC~H~SC~~CI~qHlmN~k~CFfCktT 465 (489)
T KOG4692|consen 420 SEDNLCPICYAGPI---NA-VFAPCSHRSCYGCITQHLMNCKRCFFCKTT 465 (489)
T ss_pred cccccCcceecccc---hh-hccCCCCchHHHHHHHHHhcCCeeeEecce
Confidence 67889999987632 22 445999999999998886 3345555543
No 169
>PLN02931 nucleoside diphosphate kinase family protein
Probab=26.88 E-value=1.6e+02 Score=27.02 Aligned_cols=55 Identities=13% Similarity=0.155 Sum_probs=35.0
Q ss_pred CccEEEEEecCCCC---CHHHHHHHhcccccceeEEEEeecCCCCcceEEEEEeCChhhHHHHHhhhcCCcCC
Q 018432 64 RSTCIFVVAVPNYL---SSDEFVRFCGSHIDHVEELIFIRNDAMEDRYSVLIKLVDQLTADEFYSNLNGKRFS 133 (356)
Q Consensus 64 ~~~~lciLaVP~~m---s~~d~l~F~~~~~~~i~~iriir~~~~~~~ymvLikF~s~~~A~eF~~~~ng~~Fn 133 (356)
...+|+|+= |..+ -..+.+.-+...--.|..+++++- +.+.|++||..+.|++|-
T Consensus 29 ~erTlalIK-Pdav~~~~~G~Il~~I~~~Gf~I~~~K~~~L--------------t~e~a~~fY~~h~gk~ff 86 (177)
T PLN02931 29 EERTLAMIK-PDGLSGNYTERIKEVILESGFSIVKEMTTQL--------------DEDRASLFYAEHSSRSFF 86 (177)
T ss_pred ceeEEEEEC-chhhhcccHHHHHHHHHHCCCEEEeeeeecC--------------CHHHHHHHHHHhCCCccH
Confidence 445666663 6555 133455544443445666665553 378899999999999983
No 170
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=26.71 E-value=2.3e+02 Score=26.96 Aligned_cols=70 Identities=11% Similarity=0.164 Sum_probs=59.2
Q ss_pred CCccEEEEEecCCCCCHHHHHHHhcccccceeEEEEeecCCCCc-ceEEEEEeCChhhHHHHHhhhcCCcC
Q 018432 63 SRSTCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDAMED-RYSVLIKLVDQLTADEFYSNLNGKRF 132 (356)
Q Consensus 63 ~~~~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~~~~-~ymvLikF~s~~~A~eF~~~~ng~~F 132 (356)
...+++.+--+|.-+--..++.|++.+-..+..+|+-|+-.+.| +--+-++|.|.+-|.=-....|+..|
T Consensus 47 ~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl 117 (214)
T KOG4208|consen 47 EIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLL 117 (214)
T ss_pred CCccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhh
Confidence 34678889999999999999999999888899999988665444 45799999999999988888888877
No 171
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=26.35 E-value=51 Score=24.70 Aligned_cols=28 Identities=21% Similarity=0.630 Sum_probs=18.2
Q ss_pred cccccccccccccCCCCcccccCCCCceeeeccccce
Q 018432 203 VLSCQVCRFCHQQDERPTCSVCGTVENLWVCLICGFV 239 (356)
Q Consensus 203 ~ssCPvCR~~~~~~~~~~C~~C~~~~nlWiCL~CG~v 239 (356)
..+||.|-..... ......|.|..||+.
T Consensus 28 Sq~C~~CG~~~~~---------~~~~r~~~C~~Cg~~ 55 (69)
T PF07282_consen 28 SQTCPRCGHRNKK---------RRSGRVFTCPNCGFE 55 (69)
T ss_pred ccCccCccccccc---------ccccceEEcCCCCCE
Confidence 4567777664321 334568899988886
No 172
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=25.54 E-value=37 Score=33.64 Aligned_cols=44 Identities=27% Similarity=0.626 Sum_probs=31.5
Q ss_pred CCCccccc--cCCCCcceeeecCCCccchhhhhccc---ccccccccccc
Q 018432 169 TCPICLER--LDPDTSGILSTICDHSFQCSCTAKWT---VLSCQVCRFCH 213 (356)
Q Consensus 169 tCpICLe~--ld~~~sgilt~~C~H~FH~~Cl~kW~---~ssCPvCR~~~ 213 (356)
.||+|-.. +.++.--.++ +|.|.-..+|++... +.-||.|-..+
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in-~C~H~lCEsCvd~iF~~g~~~CpeC~~iL 50 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMIN-ECGHRLCESCVDRIFSLGPAQCPECMVIL 50 (300)
T ss_pred CCcccccceecCccceeeec-cccchHHHHHHHHHHhcCCCCCCcccchh
Confidence 58999875 4444332334 999999999998875 56799887654
No 173
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=25.19 E-value=23 Score=38.89 Aligned_cols=45 Identities=31% Similarity=0.648 Sum_probs=34.5
Q ss_pred CCCCCCCCccccccCCCCcceeeecCCCccchhhhhccc-----cccccccccc
Q 018432 164 FTELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWT-----VLSCQVCRFC 212 (356)
Q Consensus 164 ~~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~-----~ssCPvCR~~ 212 (356)
....++||||++.+-.. .++.|+|.|-..|+.+-. ..-||+|+-.
T Consensus 18 ~~k~lEc~ic~~~~~~p----~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~ 67 (684)
T KOG4362|consen 18 MQKILECPICLEHVKEP----SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSD 67 (684)
T ss_pred HhhhccCCceeEEeecc----chhhhhHHHHhhhhhceeeccCccccchhhhhh
Confidence 35678999999998764 567899999888876532 4679999853
No 174
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the KOG4330 consensus Uncharacterized conserved protein [Function unknown]
Probab=24.87 E-value=97 Score=28.79 Aligned_cols=30 Identities=23% Similarity=0.344 Sum_probs=24.8
Q ss_pred hhhhchhHHHHHHHHHHHHHHHHHHHHHHh
Q 018432 317 GALFNSKVEAIVDEYNRLLATQLETQRQVS 346 (356)
Q Consensus 317 ~~~~~~K~e~~~~ey~~ll~sqLe~Qr~yy 346 (356)
|.++.+..+.+..||..+|+..|.+|-.=|
T Consensus 156 ErllKerE~klReeyE~vLttKLaEQydaf 185 (206)
T KOG4330|consen 156 ERLLKEREIKLREEYEMVLTTKLAEQYDAF 185 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456667778899999999999999996544
No 176
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=24.46 E-value=36 Score=33.84 Aligned_cols=60 Identities=23% Similarity=0.443 Sum_probs=37.8
Q ss_pred CCCCCCccccccCCCCc-----ceeeecCCCccchhhhh------------cccccccccccccccc---CCCCcccccC
Q 018432 166 ELPTCPICLERLDPDTS-----GILSTICDHSFQCSCTA------------KWTVLSCQVCRFCHQQ---DERPTCSVCG 225 (356)
Q Consensus 166 elptCpICLe~ld~~~s-----gilt~~C~H~FH~~Cl~------------kW~~ssCPvCR~~~~~---~~~~~C~~C~ 225 (356)
....|-+||+--..... -|.--+|....|..|++ .|.-..|-+|+.+.++ ++..-|..|+
T Consensus 257 ~~~~~~~~~~~~~~~~~~r~~S~I~C~~C~~~~HP~Ci~M~~elv~~~KTY~W~C~~C~lC~IC~~P~~E~E~~FCD~CD 336 (381)
T KOG1512|consen 257 RRNERKHFWDIQTNIIQSRRNSWIVCKPCATRPHPYCVAMIPELVGQYKTYFWKCSSCELCRICLGPVIESEHLFCDVCD 336 (381)
T ss_pred chhhhhhhhcchhhhhhhhhccceeecccccCCCCcchhcCHHHHhHHhhcchhhcccHhhhccCCcccchheecccccc
Confidence 34578999987544322 24456788888999984 3555667777766654 2344566664
No 177
>PLN03213 repressor of silencing 3; Provisional
Probab=24.19 E-value=2.9e+02 Score=29.79 Aligned_cols=67 Identities=15% Similarity=0.289 Sum_probs=55.7
Q ss_pred CccEEEEEecCCCCCHHHHHHHhcccccceeEEEEeecCCCCcceEEEEEeCCh--hhHHHHHhhhcCCcCCC
Q 018432 64 RSTCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDAMEDRYSVLIKLVDQ--LTADEFYSNLNGKRFSP 134 (356)
Q Consensus 64 ~~~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~~~~~ymvLikF~s~--~~A~eF~~~~ng~~Fns 134 (356)
...-|+|=+++-.++-.||...+++| ..|..+.|+|..+ |--+.++|.+. ..++.-.+.+||..+..
T Consensus 9 ~gMRIYVGNLSydVTEDDLravFSeF-GsVkdVEIpRETG---RGFAFVEMssdddaEeeKAISaLNGAEWKG 77 (759)
T PLN03213 9 GGVRLHVGGLGESVGRDDLLKIFSPM-GTVDAVEFVRTKG---RSFAYIDFSPSSTNSLTKLFSTYNGCVWKG 77 (759)
T ss_pred cceEEEEeCCCCCCCHHHHHHHHHhc-CCeeEEEEecccC---CceEEEEecCCcHHHHHHHHHHhcCCeecC
Confidence 34569999999999999999988876 5699999999765 66788888765 67888889999998854
No 178
>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=23.85 E-value=44 Score=21.17 Aligned_cols=20 Identities=25% Similarity=0.690 Sum_probs=9.1
Q ss_pred cccccccccccCCCCcccccC
Q 018432 205 SCQVCRFCHQQDERPTCSVCG 225 (356)
Q Consensus 205 sCPvCR~~~~~~~~~~C~~C~ 225 (356)
.||.|+... +...-.|..||
T Consensus 2 ~CP~C~~~V-~~~~~~Cp~CG 21 (26)
T PF10571_consen 2 TCPECGAEV-PESAKFCPHCG 21 (26)
T ss_pred cCCCCcCCc-hhhcCcCCCCC
Confidence 466666533 22233344444
No 179
>PF04073 tRNA_edit: Aminoacyl-tRNA editing domain; InterPro: IPR007214 This domain of unknown function is found in numerous prokaryote organisms. The structure of YbaK shows a novel fold. This domain also occurs in a number of prolyl-tRNA synthetases (proRS) from prokaryotes. Thus, the domain is thought to be involved in oligonucleotide binding, with possible roles in recognition/discrimination or editing of prolyl-tRNA [].; PDB: 3MEM_A 2J3L_A 2J3M_A 1WDV_B 2Z0X_A 2Z0K_A 2CX5_C 1DBX_B 1DBU_A 1VJF_A ....
Probab=23.67 E-value=1.4e+02 Score=24.56 Aligned_cols=61 Identities=11% Similarity=0.205 Sum_probs=46.3
Q ss_pred CCCCCHHHHHHHhcccccceeEEEEeecCCCCcceEEEEEeCChhhHHHHHhhhcCCcCCCC
Q 018432 74 PNYLSSDEFVRFCGSHIDHVEELIFIRNDAMEDRYSVLIKLVDQLTADEFYSNLNGKRFSPA 135 (356)
Q Consensus 74 P~~ms~~d~l~F~~~~~~~i~~iriir~~~~~~~ymvLikF~s~~~A~eF~~~~ng~~Fnsl 135 (356)
|..-|+.|..++++-...++..-.+++++. ..-++|++.-+++.+-+.+.+.+..+++.-+
T Consensus 2 ~~~~t~~~~a~~~~~~~~~~~Ktlv~~~~~-~~~~lv~~~~d~~ld~~kl~~~~g~~~l~~a 62 (123)
T PF04073_consen 2 PPTRTIEDAAKALGVPPEQIVKTLVLKDKK-GRPVLVVLPGDHRLDLKKLAKALGARRLRLA 62 (123)
T ss_dssp TTTSSHHHHHHHHTCSGGGEEEEEEEEETT-TEEEEEEEETTSEB-HHHHHHHHT-SSEEE-
T ss_pred cCCCcHHHHHHHcCCCHHHEEEEEEEEECC-CCEEEEEECCCCEecHHHHhccccccchhhc
Confidence 667789999999998888888888888532 3467899999999998999888886666544
No 180
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=23.60 E-value=44 Score=32.42 Aligned_cols=26 Identities=23% Similarity=0.466 Sum_probs=20.3
Q ss_pred cCCCCcccccCCCCcee--eecccccee
Q 018432 215 QDERPTCSVCGTVENLW--VCLICGFVG 240 (356)
Q Consensus 215 ~~~~~~C~~C~~~~nlW--iCL~CG~vG 240 (356)
+++.+.|..||.....| +|..||..+
T Consensus 351 ~~p~~~c~~cg~~~~~~~~~c~~c~~~~ 378 (389)
T PRK11788 351 RKPRYRCRNCGFTARTLYWHCPSCKAWE 378 (389)
T ss_pred CCCCEECCCCCCCCccceeECcCCCCcc
Confidence 45668899999987755 898888764
No 181
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=23.38 E-value=80 Score=33.85 Aligned_cols=77 Identities=18% Similarity=0.436 Sum_probs=50.7
Q ss_pred CccEEEEEecCCCCCHHHHHHHhcccccceeEEEEeecCCCCcce--------------------------------EEE
Q 018432 64 RSTCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDAMEDRY--------------------------------SVL 111 (356)
Q Consensus 64 ~~~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~~~~~y--------------------------------mvL 111 (356)
+.+.+-|=-+|.-.+-.|+++++.-. ......+|++. ||+| -+-
T Consensus 360 ~Rtt~~i~ni~n~~~~~dl~~Ildge--~~rtt~~ikni--pNK~T~~ml~~~d~~~~gtYDFlYLPiDF~nkcNvGYAF 435 (549)
T KOG4660|consen 360 RRTTVMIKNIPNKYGQLDLLRILDGE--CPRTTLMIKNI--PNKYTSKMLLAADEKNKGTYDFLYLPIDFKNKCNVGYAF 435 (549)
T ss_pred chhhhhhhccccchhHHHHHHHHhCc--CchhhhHhhcc--CchhhHHhhhhhhccccCccceEEeccccccccccceeE
Confidence 34566777888999999999998532 12222223321 3331 455
Q ss_pred EEeCChhhHHHHHhhhcCCcCCCCCc-CceEEEE
Q 018432 112 IKLVDQLTADEFYSNLNGKRFSPAEA-EVCHMLF 144 (356)
Q Consensus 112 ikF~s~~~A~eF~~~~ng~~Fnsle~-e~C~vvf 144 (356)
|-|-+..++..||++|||+....... -+|.+.|
T Consensus 436 INm~sp~ai~~F~kAFnGk~W~~FnS~Kia~itY 469 (549)
T KOG4660|consen 436 INMTSPEAIIRFYKAFNGKKWEKFNSEKIASITY 469 (549)
T ss_pred EeecCHHHHHHHHHHHcCCchhhhcceeeeeeeh
Confidence 66789999999999999998655433 3677655
No 182
>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=23.16 E-value=53 Score=23.06 Aligned_cols=37 Identities=24% Similarity=0.577 Sum_probs=17.5
Q ss_pred CCccccccCCCCccee--eecCCCccchhhhhccc----ccccccc
Q 018432 170 CPICLERLDPDTSGIL--STICDHSFQCSCTAKWT----VLSCQVC 209 (356)
Q Consensus 170 CpICLe~ld~~~sgil--t~~C~H~FH~~Cl~kW~----~ssCPvC 209 (356)
|.+|-+-.-. |+. +..|+-.+|..|+.++. +..||.|
T Consensus 1 C~~C~~iv~~---G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQ---GQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SS---SEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHee---eccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 4455554433 344 23577789999999875 2358876
No 183
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.74 E-value=32 Score=34.27 Aligned_cols=40 Identities=23% Similarity=0.570 Sum_probs=26.7
Q ss_pred CCCCCccccccCCCCcceeeecCCCcc-chhhhhccccccccccccc
Q 018432 167 LPTCPICLERLDPDTSGILSTICDHSF-QCSCTAKWTVLSCQVCRFC 212 (356)
Q Consensus 167 lptCpICLe~ld~~~sgilt~~C~H~F-H~~Cl~kW~~ssCPvCR~~ 212 (356)
.--|.||.+--.+ -.-+.|+|.- ...|-... ..||+||..
T Consensus 300 ~~LC~ICmDaP~D----CvfLeCGHmVtCt~CGkrm--~eCPICRqy 340 (350)
T KOG4275|consen 300 RRLCAICMDAPRD----CVFLECGHMVTCTKCGKRM--NECPICRQY 340 (350)
T ss_pred HHHHHHHhcCCcc----eEEeecCcEEeehhhcccc--ccCchHHHH
Confidence 5679999875332 4667999986 33454433 289999963
No 184
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=22.66 E-value=72 Score=22.40 Aligned_cols=11 Identities=36% Similarity=1.017 Sum_probs=8.6
Q ss_pred ceeeeccccce
Q 018432 229 NLWVCLICGFV 239 (356)
Q Consensus 229 nlWiCL~CG~v 239 (356)
+.|+|-.||+.
T Consensus 19 ~~~vC~~Cg~~ 29 (52)
T smart00661 19 RRFVCRKCGYE 29 (52)
T ss_pred CEEECCcCCCe
Confidence 48899888863
No 185
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=22.65 E-value=70 Score=20.30 Aligned_cols=35 Identities=17% Similarity=0.421 Sum_probs=20.8
Q ss_pred CCCccccccCCCCcceeeecCCCccchhhhhcccccccccccc
Q 018432 169 TCPICLERLDPDTSGILSTICDHSFQCSCTAKWTVLSCQVCRF 211 (356)
Q Consensus 169 tCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~~ssCPvCR~ 211 (356)
.|+.|-+.+.... ..+. .=+..||..|. .|..|+.
T Consensus 1 ~C~~C~~~i~~~~-~~~~-~~~~~~H~~Cf------~C~~C~~ 35 (39)
T smart00132 1 KCAGCGKPIRGGE-LVLR-ALGKVWHPECF------KCSKCGK 35 (39)
T ss_pred CccccCCcccCCc-EEEE-eCCccccccCC------CCcccCC
Confidence 3778888877641 1222 23678887765 5666654
No 186
>cd04414 NDPk6 Nucleoside diphosphate kinase 6 (NDP kinase 6, NDPk6, NM23-H6; NME6; Inhibitor of p53-induced apoptosis-alpha, IPIA-alpha): The nm23-H6 gene encoding NDPk6 is expressed mainly in mitochondria, but also found at a lower level in most tissues. NDPk6 has all nine residues considered crucial for enzyme structure and activity, and has been found to have NDP kinase activity. It may play a role in cell growth and cell cycle progression. The nm23-H6 gene locus has been implicated in a variety of malignant tumors.
Probab=22.63 E-value=1.5e+02 Score=25.71 Aligned_cols=40 Identities=20% Similarity=0.172 Sum_probs=29.2
Q ss_pred HHHHHHhcccccceeEEEEeecCCCCcceEEEEEeCChhhHHHHHhhhcCCcCC
Q 018432 80 DEFVRFCGSHIDHVEELIFIRNDAMEDRYSVLIKLVDQLTADEFYSNLNGKRFS 133 (356)
Q Consensus 80 ~d~l~F~~~~~~~i~~iriir~~~~~~~ymvLikF~s~~~A~eF~~~~ng~~Fn 133 (356)
..+++++...--.|..+++++- +.+.|++||..+.|++|-
T Consensus 19 ~~I~~~i~~~Gf~I~~~k~~~l--------------t~~~a~~~Y~~~~~~~f~ 58 (135)
T cd04414 19 EAVRQLILSNGFTIVRKKELRW--------------TTEDAERFYAEHKGKFFY 58 (135)
T ss_pred HHHHHHHHHCCCEEEEeeeecC--------------CHHHHHHHHHHhCCCCch
Confidence 4566666444456777777764 378899999999999983
No 187
>PF01412 ArfGap: Putative GTPase activating protein for Arf; InterPro: IPR001164 This entry describes a family of small GTPase activating proteins, for example ARF1-directed GTPase-activating protein, the cycle control GTPase activating protein (GAP) GCS1 which is important for the regulation of the ADP ribosylation factor ARF, a member of the Ras superfamily of GTP-binding proteins []. The GTP-bound form of ARF is essential for the maintenance of normal Golgi morphology, it participates in recruitment of coat proteins which are required for budding and fission of membranes. Before the fusion with an acceptor compartment the membrane must be uncoated. This step required the hydrolysis of GTP associated to ARF. These proteins contain a characteristic zinc finger motif (Cys-x2-Cys-x(16,17)-x2-Cys) which displays some similarity to the C4-type GATA zinc finger. The ARFGAP domain display no obvious similarity to other GAP proteins. The 3D structure of the ARFGAP domain of the PYK2-associated protein beta has been solved []. It consists of a three-stranded beta-sheet surrounded by 5 alpha helices. The domain is organised around a central zinc atom which is coordinated by 4 cysteines. The ARFGAP domain is clearly unrelated to the other GAP proteins structures which are exclusively helical. Classical GAP proteins accelerate GTPase activity by supplying an arginine finger to the active site. The crystal structure of ARFGAP bound to ARF revealed that the ARFGAP domain does not supply an arginine to the active site which suggests a more indirect role of the ARFGAP domain in the GTPase hydrolysis []. The Rev protein of human immunodeficiency virus type 1 (HIV-1) facilitates nuclear export of unspliced and partly-spliced viral RNAs []. Rev contains an RNA-binding domain and an effector domain; the latter is believed to interact with a cellular cofactor required for the Rev response and hence HIV-1 replication. Human Rev interacting protein (hRIP) specifically interacts with the Rev effector. The amino acid sequence of hRIP is characterised by an N-terminal, C-4 class zinc finger motif.; GO: 0008060 ARF GTPase activator activity, 0008270 zinc ion binding, 0032312 regulation of ARF GTPase activity; PDB: 2P57_A 2CRR_A 2OWA_B 3O47_B 3DWD_A 1DCQ_A 2CRW_A 3MDB_D 3FEH_A 3LJU_X ....
Probab=21.98 E-value=96 Score=26.02 Aligned_cols=53 Identities=23% Similarity=0.361 Sum_probs=27.7
Q ss_pred cCCCCcccccCCCCceeeeccccceeccCCCCcHHhhhhhhcCCeeeEeCCCceEEE
Q 018432 215 QDERPTCSVCGTVENLWVCLICGFVGCGRYKEGHAVRHWKDTQHWYSLDLRTQQIWD 271 (356)
Q Consensus 215 ~~~~~~C~~C~~~~nlWiCL~CG~vGCgr~~~~HA~~H~~~t~H~~al~l~t~~Vwc 271 (356)
.+++..|.+|+..+.-|+++.=|..-|. ..|-.|-.-..|---+..-+.+-|.
T Consensus 10 ~~~N~~CaDCg~~~p~w~s~~~GiflC~----~Cag~HR~lg~~is~VkSi~~d~w~ 62 (116)
T PF01412_consen 10 KPGNKVCADCGAPNPTWASLNYGIFLCL----ECAGIHRSLGVHISRVKSITMDNWS 62 (116)
T ss_dssp STTCTB-TTT-SBS--EEETTTTEEE-H----HHHHHHHHHTTTT--EEETTTS---
T ss_pred CcCcCcCCCCCCCCCCEEEeecChhhhH----HHHHHHHHhcccchhccccccCCCC
Confidence 4677899999999999998887777774 4566663332243333333444454
No 188
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=21.96 E-value=18 Score=27.37 Aligned_cols=42 Identities=24% Similarity=0.453 Sum_probs=27.9
Q ss_pred CCCCccccccCCCCcceeeecCCCcc-chhhh-hccc--ccccccccccc
Q 018432 168 PTCPICLERLDPDTSGILSTICDHSF-QCSCT-AKWT--VLSCQVCRFCH 213 (356)
Q Consensus 168 ptCpICLe~ld~~~sgilt~~C~H~F-H~~Cl-~kW~--~ssCPvCR~~~ 213 (356)
..|.||.|.-.++ +.-.|+|.- .-.|- ..|. ...||+||...
T Consensus 8 dECTICye~pvds----VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi 53 (62)
T KOG4172|consen 8 DECTICYEHPVDS----VLYTCGHMCMCYACGLRLKKALHGCCPICRAPI 53 (62)
T ss_pred cceeeeccCcchH----HHHHcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence 6899999874432 334788873 22343 4565 67899999753
No 189
>KOG4680 consensus Uncharacterized conserved protein, contains ML domain [General function prediction only]
Probab=21.83 E-value=4.6e+02 Score=23.52 Aligned_cols=78 Identities=12% Similarity=0.116 Sum_probs=50.8
Q ss_pred cccccccceeeecccccccccCCCCceeeeeeEEEEccCC----CCCcCCCCCCCccEEEEEecCCCCCHHHHHHHhccc
Q 018432 14 PITIEEAGFCTVSSTATRSRANPNPKFSERRGLVHLFRGT----SQSYQQNPNSRSTCIFVVAVPNYLSSDEFVRFCGSH 89 (356)
Q Consensus 14 ~~~~~~~~~~~~~s~~~~~~~~gnp~v~~~~G~vhl~r~~----~~~~~~~~~~~~~~lciLaVP~~ms~~d~l~F~~~~ 89 (356)
|.-.++.-||....++--.-+.|-=.||+..|-+|+--+. +..+.|...|+=.+-....+|.+.
T Consensus 49 P~a~Ge~aTf~i~~ntg~tIs~Gk~VIeV~y~gi~ihsethDLCdetsCPVepG~f~~~hsq~LPg~t------------ 116 (153)
T KOG4680|consen 49 PPARGENATFSISGNTGETISEGKYVIEVSYGGIRIHSETHDLCDETSCPVEPGDFLVAHSQVLPGYT------------ 116 (153)
T ss_pred CCCCCCccEEEEecccccEeeCCeEEEEEEEeeEEEeeccccccccccCCcCcCceeeeeeEeccCcC------------
Confidence 3334555577777666666677877899999999998764 334445555554444455555553
Q ss_pred ccceeEEEEeecCCCCcceEEEEEeCCh
Q 018432 90 IDHVEELIFIRNDAMEDRYSVLIKLVDQ 117 (356)
Q Consensus 90 ~~~i~~iriir~~~~~~~ymvLikF~s~ 117 (356)
.|.+|.++++-.|.
T Consensus 117 --------------PPG~Y~lkm~~~d~ 130 (153)
T KOG4680|consen 117 --------------PPGSYVLKMTAYDA 130 (153)
T ss_pred --------------CCceEEEEEEeecC
Confidence 47788888887443
No 190
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=21.35 E-value=44 Score=25.16 Aligned_cols=29 Identities=17% Similarity=0.259 Sum_probs=22.4
Q ss_pred eeecCCCccchhhhhcccccccccccccc
Q 018432 185 LSTICDHSFQCSCTAKWTVLSCQVCRFCH 213 (356)
Q Consensus 185 lt~~C~H~FH~~Cl~kW~~ssCPvCR~~~ 213 (356)
...+|+|.--..|-.-|.-+.||.|-...
T Consensus 21 ~~~pCgH~I~~~~f~~~rYngCPfC~~~~ 49 (55)
T PF14447_consen 21 TVLPCGHLICDNCFPGERYNGCPFCGTPF 49 (55)
T ss_pred ccccccceeeccccChhhccCCCCCCCcc
Confidence 34689999877787777778999997643
No 191
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=21.11 E-value=3.3e+02 Score=28.34 Aligned_cols=71 Identities=14% Similarity=0.142 Sum_probs=57.2
Q ss_pred CccEEEEEecCCCCCHHHHHHHhcccccceeEEEEeecCCCCcceEEEEEeCChhhHHHHHhhhcCCcCCCC
Q 018432 64 RSTCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDAMEDRYSVLIKLVDQLTADEFYSNLNGKRFSPA 135 (356)
Q Consensus 64 ~~~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~~~~~ymvLikF~s~~~A~eF~~~~ng~~Fnsl 135 (356)
.+.+|-...+|.-||-..|++.+...-..-..+++... ++.-..+-||+|.+.+.|-+-.-..|..+.++-
T Consensus 405 Ps~vLHffNaP~~vtEe~l~~i~nek~v~~~svkvFp~-kserSssGllEfe~~s~Aveal~~~NH~pi~~p 475 (494)
T KOG1456|consen 405 PSNVLHFFNAPLGVTEEQLIGICNEKDVPPTSVKVFPL-KSERSSSGLLEFENKSDAVEALMKLNHYPIEGP 475 (494)
T ss_pred CcceeEEecCCCccCHHHHHHHhhhcCCCcceEEeecc-cccccccceeeeehHHHHHHHHHHhccccccCC
Confidence 47899999999999999999999876555777888763 344455899999999999998888887776543
No 192
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=21.11 E-value=1.3e+02 Score=29.71 Aligned_cols=70 Identities=16% Similarity=0.267 Sum_probs=54.0
Q ss_pred CccEEEEEecCCCCCHHHHHHHhcccccceeEEEEeecCCC-CcceEEEEEeCChhhHHHHHhhhcCCcCCC
Q 018432 64 RSTCIFVVAVPNYLSSDEFVRFCGSHIDHVEELIFIRNDAM-EDRYSVLIKLVDQLTADEFYSNLNGKRFSP 134 (356)
Q Consensus 64 ~~~~lciLaVP~~ms~~d~l~F~~~~~~~i~~iriir~~~~-~~~ymvLikF~s~~~A~eF~~~~ng~~Fns 134 (356)
++.-|.|-++|-.||-.|+-+.+++|-. |..-||+-+..+ -.|-...|+|+-...|++=-+.+||..=+.
T Consensus 126 k~aNLYvSGlPktMtqkelE~iFs~fGr-IItSRiL~dqvtg~srGVgFiRFDKr~EAe~AIk~lNG~~P~g 196 (360)
T KOG0145|consen 126 KDANLYVSGLPKTMTQKELEQIFSPFGR-IITSRILVDQVTGLSRGVGFIRFDKRIEAEEAIKGLNGQKPSG 196 (360)
T ss_pred cccceEEecCCccchHHHHHHHHHHhhh-hhhhhhhhhcccceecceeEEEecchhHHHHHHHhccCCCCCC
Confidence 5677999999999999999998877632 334455553321 256789999999999999999999986543
No 193
>PF15616 TerY-C: TerY-C metal binding domain
Probab=20.96 E-value=72 Score=28.03 Aligned_cols=43 Identities=21% Similarity=0.480 Sum_probs=28.8
Q ss_pred CCCCCCCCCCccccccCCCCcceeeecCCCccchhhhhccccccccccccc
Q 018432 162 AGFTELPTCPICLERLDPDTSGILSTICDHSFQCSCTAKWTVLSCQVCRFC 212 (356)
Q Consensus 162 ~~~~elptCpICLe~ld~~~sgilt~~C~H~FH~~Cl~kW~~ssCPvCR~~ 212 (356)
..+...|.||.|-..+. ...=.|+..| |+..=...+||-|...
T Consensus 72 seL~g~PgCP~CGn~~~-----fa~C~CGkl~---Ci~g~~~~~CPwCg~~ 114 (131)
T PF15616_consen 72 SELIGAPGCPHCGNQYA-----FAVCGCGKLF---CIDGEGEVTCPWCGNE 114 (131)
T ss_pred HHhcCCCCCCCCcChhc-----EEEecCCCEE---EeCCCCCEECCCCCCe
Confidence 34566699999998754 3444677766 5444335788888764
No 194
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 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 zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=20.77 E-value=73 Score=21.98 Aligned_cols=11 Identities=45% Similarity=0.915 Sum_probs=6.9
Q ss_pred ceeeeccccce
Q 018432 229 NLWVCLICGFV 239 (356)
Q Consensus 229 nlWiCL~CG~v 239 (356)
.-.+|-.||.|
T Consensus 18 g~~vC~~CG~V 28 (43)
T PF08271_consen 18 GELVCPNCGLV 28 (43)
T ss_dssp TEEEETTT-BB
T ss_pred CeEECCCCCCE
Confidence 45588777776
No 195
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=20.36 E-value=60 Score=35.59 Aligned_cols=34 Identities=29% Similarity=0.664 Sum_probs=17.7
Q ss_pred cccccccccccCCCCcccccCCCCceeeeccccce
Q 018432 205 SCQVCRFCHQQDERPTCSVCGTVENLWVCLICGFV 239 (356)
Q Consensus 205 sCPvCR~~~~~~~~~~C~~C~~~~nlWiCL~CG~v 239 (356)
.||-|.+.. ++..-.|..||..-..-.|..||..
T Consensus 3 ~Cp~Cg~~n-~~~akFC~~CG~~l~~~~Cp~CG~~ 36 (645)
T PRK14559 3 ICPQCQFEN-PNNNRFCQKCGTSLTHKPCPQCGTE 36 (645)
T ss_pred cCCCCCCcC-CCCCccccccCCCCCCCcCCCCCCC
Confidence 466666543 3333446666655333356555554
No 196
>PF10567 Nab6_mRNP_bdg: RNA-recognition motif; InterPro: IPR018885 This conserved domain is found in fungal proteins and appears to be involved in RNA-processing. It binds to poly-adenylated RNA, interacts genetically with mRNA 3'-end processing factors, co-purifies with the nuclear cap-binding protein Cbp20p, and is found in complexes containing other translation factors, such as EIF4G as in P39935 from SWISSPROT and P39936 from SWISSPROT.
Probab=20.31 E-value=2.5e+02 Score=28.06 Aligned_cols=63 Identities=17% Similarity=0.415 Sum_probs=45.1
Q ss_pred cEEEEEecCCCCCHHHHHH-HhcccccceeEEEEeecCCC--------CcceEEEEEeCChhhHHHHHhhhcCC
Q 018432 66 TCIFVVAVPNYLSSDEFVR-FCGSHIDHVEELIFIRNDAM--------EDRYSVLIKLVDQLTADEFYSNLNGK 130 (356)
Q Consensus 66 ~~lciLaVP~~ms~~d~l~-F~~~~~~~i~~iriir~~~~--------~~~ymvLikF~s~~~A~eF~~~~ng~ 130 (356)
+-|..-.|...|..+.|+. |+. ...|+.|.++..... .+.-++||.|-+...+-+||..+--|
T Consensus 16 RSLLfeNv~~sidLh~Fl~~fv~--~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLdFYNnvLQr 87 (309)
T PF10567_consen 16 RSLLFENVNNSIDLHSFLTKFVK--FGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLDFYNNVLQR 87 (309)
T ss_pred HHHHHhhccccccHHHHHHHhhc--cCceeEEEEecCCCcccccccccccceEEEEeeechHHHHHHHHHHHHH
Confidence 3355667778897777775 431 234999999984411 23569999999999999999877654
No 197
>KOG0704 consensus ADP-ribosylation factor GTPase activator [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]
Probab=20.13 E-value=57 Score=33.21 Aligned_cols=23 Identities=35% Similarity=0.881 Sum_probs=18.5
Q ss_pred CCCCcccccCCCCc--------eeeeccccc
Q 018432 216 DERPTCSVCGTVEN--------LWVCLICGF 238 (356)
Q Consensus 216 ~~~~~C~~C~~~~n--------lWiCL~CG~ 238 (356)
++...|.+|+.... .||||.|.-
T Consensus 17 deNk~CfeC~a~NPQWvSvsyGIfICLECSG 47 (386)
T KOG0704|consen 17 DENKKCFECGAPNPQWVSVSYGIFICLECSG 47 (386)
T ss_pred ccCCceeecCCCCCCeEeecccEEEEEecCC
Confidence 47889999998753 779999954
No 198
>PRK04023 DNA polymerase II large subunit; Validated
Probab=20.03 E-value=81 Score=36.40 Aligned_cols=20 Identities=30% Similarity=0.547 Sum_probs=9.6
Q ss_pred CcccccCCCCceeeeccccc
Q 018432 219 PTCSVCGTVENLWVCLICGF 238 (356)
Q Consensus 219 ~~C~~C~~~~nlWiCL~CG~ 238 (356)
..|..|+...+...|..||.
T Consensus 652 ~fCP~CG~~~~~y~CPKCG~ 671 (1121)
T PRK04023 652 YRCPRCGIEVEEDECEKCGR 671 (1121)
T ss_pred eeCccccCcCCCCcCCCCCC
Confidence 34555554444444544444
Done!