Query psy8987
Match_columns 173
No_of_seqs 147 out of 1082
Neff 3.1
Searched_HMMs 46136
Date Sat Aug 17 00:47:43 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8987.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8987hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2660|consensus 99.9 9.8E-23 2.1E-27 180.5 3.3 93 19-142 4-96 (331)
2 PF15227 zf-C3HC4_4: zinc fing 99.1 3.6E-11 7.8E-16 77.7 2.0 38 33-90 1-42 (42)
3 smart00504 Ubox Modified RING 99.0 1.9E-10 4.1E-15 76.0 1.6 49 30-98 1-49 (63)
4 PF13923 zf-C3HC4_2: Zinc fing 98.9 3.1E-10 6.8E-15 70.9 1.6 39 33-90 1-39 (39)
5 TIGR00599 rad18 DNA repair pro 98.8 4.3E-09 9.4E-14 95.6 4.3 66 22-107 18-83 (397)
6 PLN03208 E3 ubiquitin-protein 98.8 4.6E-09 1E-13 88.0 3.0 59 20-98 8-82 (193)
7 PF00097 zf-C3HC4: Zinc finger 98.7 7.3E-09 1.6E-13 64.2 1.6 39 33-90 1-41 (41)
8 KOG2177|consensus 98.7 1.2E-08 2.5E-13 77.2 2.4 50 22-91 5-54 (386)
9 PF14835 zf-RING_6: zf-RING of 98.6 2.8E-09 6.1E-14 76.5 -1.1 60 26-106 3-62 (65)
10 PF13639 zf-RING_2: Ring finge 98.6 8E-09 1.7E-13 65.5 0.9 41 32-91 2-44 (44)
11 cd00162 RING RING-finger (Real 98.6 2.1E-08 4.5E-13 60.1 2.5 43 32-93 1-44 (45)
12 PF04564 U-box: U-box domain; 98.6 4.3E-08 9.3E-13 68.8 3.8 51 29-99 3-54 (73)
13 PHA02929 N1R/p28-like protein; 98.5 4.8E-08 1E-12 83.6 2.9 51 26-95 170-227 (238)
14 KOG0311|consensus 98.5 3.8E-08 8.3E-13 89.4 1.6 66 20-107 33-99 (381)
15 KOG0287|consensus 98.5 2.9E-08 6.2E-13 90.7 0.0 56 23-98 16-71 (442)
16 PF13920 zf-C3HC4_3: Zinc fing 98.4 1.2E-07 2.7E-12 61.6 1.4 47 30-95 2-48 (50)
17 PHA02926 zinc finger-like prot 98.3 2E-07 4.4E-12 80.7 2.0 71 7-97 148-232 (242)
18 KOG0317|consensus 98.3 6.5E-07 1.4E-11 79.3 3.6 49 30-98 239-287 (293)
19 PF14634 zf-RING_5: zinc-RING 98.1 1.3E-06 2.8E-11 56.0 2.2 42 32-92 1-44 (44)
20 KOG0320|consensus 98.1 1.4E-06 3E-11 73.2 2.8 50 29-97 130-180 (187)
21 COG5432 RAD18 RING-finger-cont 98.1 8.4E-07 1.8E-11 80.1 1.3 53 23-95 18-70 (391)
22 smart00184 RING Ring finger. E 98.1 1.8E-06 3.9E-11 49.8 2.1 38 33-90 1-39 (39)
23 TIGR00570 cdk7 CDK-activating 98.1 2.9E-06 6.3E-11 75.6 3.5 48 31-98 4-57 (309)
24 PF12678 zf-rbx1: RING-H2 zinc 98.1 2.5E-06 5.5E-11 60.3 2.4 41 32-91 21-73 (73)
25 KOG0823|consensus 97.9 5.3E-06 1.1E-10 71.6 2.0 50 28-97 45-97 (230)
26 KOG2164|consensus 97.8 1.2E-05 2.5E-10 75.9 2.4 49 30-98 186-239 (513)
27 PF13445 zf-RING_UBOX: RING-ty 97.7 1.2E-05 2.6E-10 52.8 1.4 31 33-84 1-35 (43)
28 PF11789 zf-Nse: Zinc-finger o 97.7 1.6E-05 3.5E-10 54.7 1.0 44 27-89 8-53 (57)
29 KOG0297|consensus 97.5 6.7E-05 1.5E-09 67.5 3.2 55 23-96 14-68 (391)
30 KOG0802|consensus 97.5 5E-05 1.1E-09 70.3 2.1 51 26-95 287-341 (543)
31 KOG0978|consensus 97.5 3.9E-05 8.5E-10 74.5 1.4 55 24-98 637-692 (698)
32 KOG4159|consensus 97.4 0.00013 2.7E-09 66.9 3.0 50 27-96 81-130 (398)
33 KOG1813|consensus 97.3 7.7E-05 1.7E-09 66.9 1.1 46 31-96 242-287 (313)
34 PF12861 zf-Apc11: Anaphase-pr 97.0 0.00055 1.2E-08 51.4 2.5 51 26-95 17-82 (85)
35 KOG4628|consensus 96.9 0.00047 1E-08 62.6 2.4 46 31-95 230-278 (348)
36 KOG1039|consensus 96.7 0.00083 1.8E-08 60.7 2.1 54 28-100 159-226 (344)
37 COG5574 PEX10 RING-finger-cont 96.4 0.0015 3.3E-08 57.8 1.6 49 29-97 214-264 (271)
38 COG5152 Uncharacterized conser 96.4 0.0015 3.3E-08 56.9 1.6 46 30-95 196-241 (259)
39 COG5222 Uncharacterized conser 96.4 0.0018 3.9E-08 59.4 1.9 44 30-92 274-318 (427)
40 COG5243 HRD1 HRD ubiquitin lig 96.4 0.0021 4.6E-08 60.1 2.4 49 27-94 284-344 (491)
41 COG5540 RING-finger-containing 96.2 0.0023 5E-08 58.4 2.0 48 29-95 322-372 (374)
42 KOG2879|consensus 95.9 0.0057 1.2E-07 54.8 2.6 50 27-95 236-287 (298)
43 KOG4172|consensus 95.2 0.0066 1.4E-07 43.5 0.5 46 31-95 8-54 (62)
44 KOG4265|consensus 94.9 0.01 2.3E-07 54.1 1.0 49 28-95 288-336 (349)
45 KOG0826|consensus 94.9 0.016 3.6E-07 53.0 2.2 72 5-95 275-346 (357)
46 KOG1002|consensus 94.7 0.035 7.5E-07 54.2 4.0 49 27-95 533-586 (791)
47 KOG3039|consensus 94.6 0.031 6.8E-07 50.0 3.2 55 26-99 217-274 (303)
48 KOG0804|consensus 94.6 0.017 3.7E-07 54.7 1.6 52 23-95 168-222 (493)
49 PF14447 Prok-RING_4: Prokaryo 94.0 0.032 6.8E-07 39.2 1.6 51 27-99 4-54 (55)
50 KOG4367|consensus 93.3 0.029 6.3E-07 53.8 0.7 35 27-81 1-35 (699)
51 KOG0298|consensus 92.2 0.055 1.2E-06 56.5 0.9 60 19-97 1142-1201(1394)
52 KOG0824|consensus 92.2 0.068 1.5E-06 48.6 1.4 48 30-97 7-55 (324)
53 KOG1001|consensus 92.0 0.063 1.4E-06 52.3 0.9 54 25-99 449-504 (674)
54 KOG4445|consensus 91.7 0.14 3E-06 47.0 2.7 95 24-144 109-232 (368)
55 KOG3800|consensus 90.7 0.21 4.5E-06 45.1 2.8 47 32-97 2-53 (300)
56 KOG4692|consensus 90.6 0.15 3.4E-06 47.8 2.0 48 28-95 420-467 (489)
57 PF04641 Rtf2: Rtf2 RING-finge 90.5 0.45 9.7E-06 40.6 4.6 51 28-98 111-164 (260)
58 KOG0825|consensus 90.4 0.12 2.6E-06 52.4 1.2 58 29-105 122-181 (1134)
59 KOG1571|consensus 89.9 0.15 3.3E-06 46.8 1.3 46 26-94 301-346 (355)
60 KOG0827|consensus 89.0 0.22 4.8E-06 46.9 1.7 51 31-100 5-61 (465)
61 KOG1734|consensus 88.6 0.16 3.5E-06 46.0 0.5 55 28-101 222-287 (328)
62 KOG1785|consensus 88.3 0.08 1.7E-06 50.3 -1.6 49 31-99 370-420 (563)
63 PF11793 FANCL_C: FANCL C-term 88.3 0.076 1.6E-06 37.5 -1.4 47 30-95 2-66 (70)
64 smart00744 RINGv The RING-vari 88.1 0.3 6.5E-06 32.5 1.4 20 72-91 28-49 (49)
65 KOG1645|consensus 87.9 0.3 6.5E-06 46.2 1.8 73 30-124 4-82 (463)
66 KOG4739|consensus 86.8 0.97 2.1E-05 39.5 4.2 53 31-104 4-57 (233)
67 KOG1493|consensus 86.5 0.18 3.8E-06 38.2 -0.4 23 72-94 55-80 (84)
68 COG5220 TFB3 Cdk activating ki 86.3 0.25 5.5E-06 44.4 0.4 50 28-96 8-65 (314)
69 KOG0828|consensus 85.6 0.38 8.2E-06 46.7 1.2 64 27-95 568-634 (636)
70 COG5219 Uncharacterized conser 85.5 0.46 9.9E-06 49.4 1.8 50 26-94 1465-1522(1525)
71 PHA03096 p28-like protein; Pro 83.6 0.7 1.5E-05 40.9 1.9 43 31-92 179-231 (284)
72 PF03854 zf-P11: P-11 zinc fin 83.3 0.53 1.1E-05 32.7 0.8 24 72-95 23-46 (50)
73 KOG2930|consensus 81.4 0.82 1.8E-05 36.3 1.4 22 72-93 85-106 (114)
74 COG5194 APC11 Component of SCF 81.0 0.91 2E-05 34.7 1.4 26 72-97 58-83 (88)
75 KOG4275|consensus 81.0 0.25 5.5E-06 45.2 -1.8 43 30-95 300-342 (350)
76 KOG4185|consensus 81.0 0.99 2.1E-05 38.2 1.8 45 31-94 4-54 (296)
77 PF05290 Baculo_IE-1: Baculovi 78.1 1.7 3.7E-05 35.7 2.2 48 29-95 79-132 (140)
78 KOG3039|consensus 78.1 1.3 2.9E-05 39.9 1.8 43 22-84 35-77 (303)
79 PF14570 zf-RING_4: RING/Ubox 76.8 2.2 4.8E-05 29.1 2.2 42 33-94 1-47 (48)
80 KOG3002|consensus 75.3 1.6 3.5E-05 38.9 1.5 45 27-95 45-91 (299)
81 PF02891 zf-MIZ: MIZ/SP-RING z 75.2 0.92 2E-05 30.3 -0.0 22 31-52 3-24 (50)
82 PF13240 zinc_ribbon_2: zinc-r 74.5 0.65 1.4E-05 26.9 -0.8 22 72-93 1-22 (23)
83 PF13248 zf-ribbon_3: zinc-rib 72.9 0.78 1.7E-05 26.9 -0.7 23 72-94 4-26 (26)
84 COG5236 Uncharacterized conser 71.3 3.2 6.9E-05 39.3 2.5 47 28-94 59-107 (493)
85 PHA02862 5L protein; Provision 70.2 2.9 6.3E-05 34.9 1.8 49 31-95 3-53 (156)
86 KOG3161|consensus 69.6 2.4 5.1E-05 42.7 1.3 39 28-88 9-51 (861)
87 PHA02825 LAP/PHD finger-like p 69.0 4.2 9.2E-05 34.0 2.5 52 28-95 6-59 (162)
88 KOG2114|consensus 68.8 3.4 7.4E-05 42.3 2.3 40 31-92 841-880 (933)
89 KOG1814|consensus 65.7 6.9 0.00015 37.3 3.5 47 27-92 181-237 (445)
90 KOG1815|consensus 65.4 3.5 7.5E-05 37.7 1.5 38 28-84 68-105 (444)
91 KOG4362|consensus 65.3 1.5 3.3E-05 43.4 -0.9 53 24-96 15-70 (684)
92 PF07191 zinc-ribbons_6: zinc- 64.7 0.83 1.8E-05 33.4 -2.1 41 30-95 1-41 (70)
93 PF08746 zf-RING-like: RING-li 63.3 5.2 0.00011 26.0 1.6 19 72-90 23-43 (43)
94 PLN02638 cellulose synthase A 62.3 6.2 0.00013 41.1 2.7 56 23-98 11-73 (1079)
95 PLN02400 cellulose synthase 62.2 5.7 0.00012 41.4 2.4 56 23-98 30-92 (1085)
96 KOG1940|consensus 61.0 6.1 0.00013 35.3 2.1 47 29-95 157-206 (276)
97 PLN02436 cellulose synthase A 59.1 7.9 0.00017 40.5 2.8 56 23-98 30-92 (1094)
98 KOG2932|consensus 57.8 4.9 0.00011 37.4 1.1 52 24-96 83-135 (389)
99 PF05883 Baculo_RING: Baculovi 57.7 5.1 0.00011 32.5 1.0 39 30-81 26-66 (134)
100 PF10367 Vps39_2: Vacuolar sor 53.4 3.8 8.2E-05 28.9 -0.3 27 26-52 74-101 (109)
101 KOG1812|consensus 48.4 8.9 0.00019 35.0 1.1 36 29-83 145-183 (384)
102 PLN02189 cellulose synthase 48.4 13 0.00029 38.7 2.5 55 24-98 29-90 (1040)
103 KOG1941|consensus 46.9 7.9 0.00017 37.1 0.6 45 29-92 364-413 (518)
104 PF10571 UPF0547: Uncharacteri 45.8 5.4 0.00012 23.9 -0.4 22 73-94 3-24 (26)
105 PF05605 zf-Di19: Drought indu 43.8 15 0.00034 24.1 1.5 21 72-92 17-39 (54)
106 KOG1100|consensus 43.5 7.9 0.00017 32.7 0.0 40 33-95 161-200 (207)
107 PRK11595 DNA utilization prote 43.3 16 0.00036 30.2 1.9 23 72-94 22-44 (227)
108 PRK06393 rpoE DNA-directed RNA 42.1 12 0.00027 27.0 0.8 20 72-93 7-26 (64)
109 PF06906 DUF1272: Protein of u 41.8 21 0.00046 25.5 2.0 24 71-96 30-53 (57)
110 PF10272 Tmpp129: Putative tra 41.5 16 0.00035 33.7 1.7 24 72-95 315-351 (358)
111 PRK08351 DNA-directed RNA poly 40.9 16 0.00035 26.1 1.3 21 72-94 5-25 (61)
112 PF14803 Nudix_N_2: Nudix N-te 37.0 9.5 0.00021 24.1 -0.4 15 85-99 1-15 (34)
113 PF12773 DZR: Double zinc ribb 36.4 9.7 0.00021 24.3 -0.4 24 72-95 14-40 (50)
114 PF13228 DUF4037: Domain of un 35.7 85 0.0018 23.5 4.5 48 111-159 18-72 (100)
115 PRK14714 DNA polymerase II lar 34.5 28 0.00062 37.3 2.4 51 30-95 667-720 (1337)
116 PF06844 DUF1244: Protein of u 33.3 22 0.00048 26.2 1.0 56 69-148 9-64 (68)
117 PRK12496 hypothetical protein; 33.1 12 0.00027 30.3 -0.4 28 71-98 128-157 (164)
118 PRK13130 H/ACA RNA-protein com 32.6 11 0.00024 26.4 -0.6 29 69-99 4-32 (56)
119 KOG0824|consensus 31.2 14 0.0003 34.0 -0.4 51 26-95 101-151 (324)
120 PRK04023 DNA polymerase II lar 30.6 44 0.00096 35.3 3.0 25 69-95 650-674 (1121)
121 KOG2113|consensus 29.7 35 0.00076 32.0 1.9 49 25-94 338-386 (394)
122 KOG4718|consensus 29.7 32 0.00069 30.5 1.5 43 31-92 182-224 (235)
123 PLN02195 cellulose synthase A 29.6 33 0.00071 35.7 1.9 24 72-95 35-59 (977)
124 COG5175 MOT2 Transcriptional r 29.3 35 0.00076 32.5 1.8 48 29-95 13-64 (480)
125 TIGR03166 alt_F1F0_F1_eps alte 28.9 1.1E+02 0.0024 23.7 4.3 36 118-153 86-121 (122)
126 PF14319 Zn_Tnp_IS91: Transpos 28.6 25 0.00054 26.8 0.7 11 84-94 60-70 (111)
127 KOG3579|consensus 27.7 25 0.00054 32.5 0.6 48 28-91 266-318 (352)
128 COG1439 Predicted nucleic acid 26.2 18 0.00039 30.6 -0.5 38 59-96 127-165 (177)
129 PF14569 zf-UDP: Zinc-binding 25.6 47 0.001 25.2 1.6 26 72-97 38-64 (80)
130 PF07503 zf-HYPF: HypF finger; 25.3 59 0.0013 20.6 1.8 24 72-95 1-32 (35)
131 TIGR00622 ssl1 transcription f 25.2 43 0.00094 26.4 1.5 43 30-91 55-110 (112)
132 TIGR01405 polC_Gram_pos DNA po 25.1 53 0.0012 34.7 2.5 63 84-146 708-775 (1213)
133 cd08319 Death_RAIDD Death doma 24.6 88 0.0019 23.0 2.9 31 120-151 40-70 (83)
134 PRK06228 F0F1 ATP synthase sub 24.6 1.4E+02 0.0031 23.5 4.3 41 118-158 89-129 (131)
135 KOG2817|consensus 23.8 60 0.0013 30.7 2.3 46 27-92 331-382 (394)
136 KOG3899|consensus 23.8 45 0.00098 31.1 1.5 30 67-96 324-366 (381)
137 PLN02915 cellulose synthase A 23.7 46 0.00099 35.0 1.6 50 29-97 14-70 (1044)
138 PF04423 Rad50_zn_hook: Rad50 23.1 29 0.00063 22.9 0.1 11 86-96 22-32 (54)
139 KOG3993|consensus 21.9 11 0.00024 36.3 -2.9 57 14-96 251-307 (500)
140 PRK00418 DNA gyrase inhibitor; 21.8 47 0.001 23.8 1.0 21 84-104 6-31 (62)
141 PF09538 FYDLN_acid: Protein o 21.7 46 0.00099 25.7 1.0 30 68-97 7-39 (108)
142 COG1110 Reverse gyrase [DNA re 21.5 13 0.00028 39.2 -2.6 76 72-148 696-777 (1187)
143 TIGR00627 tfb4 transcription f 21.4 28 0.00061 30.9 -0.3 27 67-93 252-278 (279)
144 cd08313 Death_TNFR1 Death doma 21.3 1.1E+02 0.0023 22.5 2.8 31 120-150 37-67 (80)
145 KOG0314|consensus 21.0 39 0.00085 32.3 0.6 52 22-92 211-266 (448)
146 cd08784 Death_DRs Death Domain 21.0 90 0.0019 22.2 2.3 30 121-151 38-67 (79)
147 PRK00448 polC DNA polymerase I 20.7 75 0.0016 34.3 2.5 63 84-146 933-1000(1437)
148 PF07975 C1_4: TFIIH C1-like d 20.6 1E+02 0.0022 21.2 2.4 20 72-91 31-50 (51)
149 PRK14559 putative protein seri 20.4 34 0.00074 33.7 0.0 26 71-96 28-53 (645)
150 TIGR00373 conserved hypothetic 20.3 24 0.00053 28.3 -0.8 25 72-96 111-140 (158)
No 1
>KOG2660|consensus
Probab=99.86 E-value=9.8e-23 Score=180.50 Aligned_cols=93 Identities=38% Similarity=0.880 Sum_probs=86.4
Q ss_pred cchhhhhccCCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCcccccccCCC
Q psy8987 19 SDKLLVRDVNPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLNRQD 98 (173)
Q Consensus 19 ~~~~~v~~vn~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~~~~ 98 (173)
...+++.++|+|.+|.+|.|||+|||+|++|+|+ |||+||++|+..+++||.|+..++...
T Consensus 4 ~~~vk~~~~n~~itC~LC~GYliDATTI~eCLHT-------------------FCkSCivk~l~~~~~CP~C~i~ih~t~ 64 (331)
T KOG2660|consen 4 PRRVKLTELNPHITCRLCGGYLIDATTITECLHT-------------------FCKSCIVKYLEESKYCPTCDIVIHKTH 64 (331)
T ss_pred chhhhhhhcccceehhhccceeecchhHHHHHHH-------------------HHHHHHHHHHHHhccCCccceeccCcc
Confidence 4567889999999999999999999999999999 999999999999999999999999999
Q ss_pred CcccccccchhcccCCCCchHHHHHHHHHHHHHHHHHhhhhchh
Q psy8987 99 PFLSLKYSYIAFASDDYDNDTRIYEQVLQIVLRIYLRKNVLRGT 142 (173)
Q Consensus 99 p~~slk~~~~a~~s~~y~~d~~~qe~VykLvp~ly~re~~~rg~ 142 (173)
|.+++++|+ ++|++||||||+++.||+-.+-+
T Consensus 65 pl~ni~~Dr------------tlqdiVyKLVPgl~erE~k~~rd 96 (331)
T KOG2660|consen 65 PLLNIRSDR------------TLQDIVYKLVPGLQEREMKRRRD 96 (331)
T ss_pred ccccCCcch------------HHHHHHHHHcchHHHHHHHHHHH
Confidence 999999985 59999999999999998765544
No 2
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.10 E-value=3.6e-11 Score=77.66 Aligned_cols=38 Identities=37% Similarity=0.930 Sum_probs=31.1
Q ss_pred ecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCC----CCCCcc
Q psy8987 33 CVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTS----RYCPIC 90 (173)
Q Consensus 33 C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s----~~CP~C 90 (173)
|+||+++|.+|+++ +|||+ ||++||.++++.. ..||.|
T Consensus 1 CpiC~~~~~~Pv~l-~CGH~-------------------FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSL-PCGHS-------------------FCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE--SSSSE-------------------EEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCcccc-CCcCH-------------------HHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999999985 99999 9999999999874 479987
No 3
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.97 E-value=1.9e-10 Score=75.99 Aligned_cols=49 Identities=14% Similarity=0.274 Sum_probs=43.7
Q ss_pred ceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCcccccccCCC
Q psy8987 30 HLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLNRQD 98 (173)
Q Consensus 30 ~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~~~~ 98 (173)
++.|+||.+.+.+|+. +.|||+ ||++||.+|++....||.|+..+...+
T Consensus 1 ~~~Cpi~~~~~~~Pv~-~~~G~v-------------------~~~~~i~~~~~~~~~cP~~~~~~~~~~ 49 (63)
T smart00504 1 EFLCPISLEVMKDPVI-LPSGQT-------------------YERRAIEKWLLSHGTDPVTGQPLTHED 49 (63)
T ss_pred CcCCcCCCCcCCCCEE-CCCCCE-------------------EeHHHHHHHHHHCCCCCCCcCCCChhh
Confidence 4789999999999986 599999 999999999999889999998876544
No 4
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=98.94 E-value=3.1e-10 Score=70.88 Aligned_cols=39 Identities=36% Similarity=0.977 Sum_probs=35.2
Q ss_pred ecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCcc
Q psy8987 33 CVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPIC 90 (173)
Q Consensus 33 C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C 90 (173)
|+||.+.+.+|+.++.|||+ ||++||.+|++....||.|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~-------------------fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHS-------------------FCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEE-------------------EEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccCcCEECCCCCc-------------------hhHHHHHHHHHCcCCCcCC
Confidence 89999999999778899999 9999999999999999988
No 5
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.79 E-value=4.3e-09 Score=95.61 Aligned_cols=66 Identities=20% Similarity=0.492 Sum_probs=54.7
Q ss_pred hhhhccCCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCcccccccCCCCcc
Q psy8987 22 LLVRDVNPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLNRQDPFL 101 (173)
Q Consensus 22 ~~v~~vn~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~~~~p~~ 101 (173)
..++++...+.|+||.++|.+|+. +.|+|. ||..||..|+.....||.|+..+.......
T Consensus 18 ~~l~~Le~~l~C~IC~d~~~~Pvi-tpCgH~-------------------FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr~ 77 (397)
T TIGR00599 18 PSLYPLDTSLRCHICKDFFDVPVL-TSCSHT-------------------FCSLCIRRCLSNQPKCPLCRAEDQESKLRS 77 (397)
T ss_pred ccccccccccCCCcCchhhhCccC-CCCCCc-------------------hhHHHHHHHHhCCCCCCCCCCccccccCcc
Confidence 346789999999999999999984 699999 999999999998889999999887554444
Q ss_pred cccccc
Q psy8987 102 SLKYSY 107 (173)
Q Consensus 102 slk~~~ 107 (173)
|..+++
T Consensus 78 N~~L~~ 83 (397)
T TIGR00599 78 NWLVSE 83 (397)
T ss_pred chHHHH
Confidence 444443
No 6
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.75 E-value=4.6e-09 Score=88.04 Aligned_cols=59 Identities=22% Similarity=0.526 Sum_probs=48.9
Q ss_pred chhhhhccCCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcC----------------
Q psy8987 20 DKLLVRDVNPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKT---------------- 83 (173)
Q Consensus 20 ~~~~v~~vn~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~---------------- 83 (173)
++..+.+....+.|+||.+.+.+|+. +.|||. ||..||.+|+..
T Consensus 8 ~~~~~~~~~~~~~CpICld~~~dPVv-T~CGH~-------------------FC~~CI~~wl~~s~~s~~~~~~~~~~k~ 67 (193)
T PLN03208 8 DDTTLVDSGGDFDCNICLDQVRDPVV-TLCGHL-------------------FCWPCIHKWTYASNNSRQRVDQYDHKRE 67 (193)
T ss_pred ccceeccCCCccCCccCCCcCCCcEE-cCCCch-------------------hHHHHHHHHHHhccccccccccccccCC
Confidence 45556677788999999999999986 699999 999999999752
Q ss_pred CCCCCcccccccCCC
Q psy8987 84 SRYCPICDVQLNRQD 98 (173)
Q Consensus 84 s~~CP~C~~~l~~~~ 98 (173)
...||.|+..+...+
T Consensus 68 ~~~CPvCR~~Is~~~ 82 (193)
T PLN03208 68 PPKCPVCKSDVSEAT 82 (193)
T ss_pred CCcCCCCCCcCChhc
Confidence 257999999887543
No 7
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.68 E-value=7.3e-09 Score=64.24 Aligned_cols=39 Identities=33% Similarity=0.960 Sum_probs=36.0
Q ss_pred ecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhc--CCCCCCcc
Q psy8987 33 CVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIK--TSRYCPIC 90 (173)
Q Consensus 33 C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~--~s~~CP~C 90 (173)
|+||.+.+.+|+.+++|+|+ ||..|+.+|++ ....||.|
T Consensus 1 C~iC~~~~~~~~~~~~C~H~-------------------fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHS-------------------FCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEE-------------------EEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCCEEecCCCc-------------------chHHHHHHHHHhcCCccCCcC
Confidence 89999999999977899999 99999999999 56789988
No 8
>KOG2177|consensus
Probab=98.66 E-value=1.2e-08 Score=77.16 Aligned_cols=50 Identities=28% Similarity=0.803 Sum_probs=44.7
Q ss_pred hhhhccCCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCccc
Q psy8987 22 LLVRDVNPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICD 91 (173)
Q Consensus 22 ~~v~~vn~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~ 91 (173)
.....+...+.|+||.++|.+| .++.|+|+ ||+.|+...+.....||.|+
T Consensus 5 ~~~~~~~~~~~C~iC~~~~~~p-~~l~C~H~-------------------~c~~C~~~~~~~~~~Cp~cr 54 (386)
T KOG2177|consen 5 ALLEVLQEELTCPICLEYFREP-VLLPCGHN-------------------FCRACLTRSWEGPLSCPVCR 54 (386)
T ss_pred hhhhhccccccChhhHHHhhcC-ccccccch-------------------HhHHHHHHhcCCCcCCcccC
Confidence 3455678899999999999999 56799999 99999999999778899999
No 9
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.65 E-value=2.8e-09 Score=76.52 Aligned_cols=60 Identities=27% Similarity=0.573 Sum_probs=32.4
Q ss_pred ccCCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCcccccccCCCCcccccc
Q psy8987 26 DVNPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLNRQDPFLSLKY 105 (173)
Q Consensus 26 ~vn~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~~~~p~~slk~ 105 (173)
.+..-|.|++|.+++.+|+.+..|.|. ||.+||...+.+. ||.|..+-..+|...|..+
T Consensus 3 ~le~lLrCs~C~~~l~~pv~l~~CeH~-------------------fCs~Ci~~~~~~~--CPvC~~Paw~qD~~~NrqL 61 (65)
T PF14835_consen 3 RLEELLRCSICFDILKEPVCLGGCEHI-------------------FCSSCIRDCIGSE--CPVCHTPAWIQDIQINRQL 61 (65)
T ss_dssp HHHHTTS-SSS-S--SS-B---SSS---------------------B-TTTGGGGTTTB---SSS--B-S-SS----HHH
T ss_pred HHHHhcCCcHHHHHhcCCceeccCccH-------------------HHHHHhHHhcCCC--CCCcCChHHHHHHHhhhhh
Confidence 455678999999999999999999999 9999998877653 9999998877776555444
Q ss_pred c
Q psy8987 106 S 106 (173)
Q Consensus 106 ~ 106 (173)
|
T Consensus 62 d 62 (65)
T PF14835_consen 62 D 62 (65)
T ss_dssp H
T ss_pred h
Confidence 4
No 10
>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=98.64 E-value=8e-09 Score=65.53 Aligned_cols=41 Identities=32% Similarity=0.775 Sum_probs=35.6
Q ss_pred eecccchhhh--hhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCccc
Q psy8987 32 LCVLCRGYFV--EATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICD 91 (173)
Q Consensus 32 ~C~iC~~~f~--~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~ 91 (173)
.|+||.+.|. +.+..+.|+|. ||.+||.+|++.+..||.||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~-------------------fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHV-------------------FHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEE-------------------EEHHHHHHHHHHSSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCe-------------------eCHHHHHHHHHhCCcCCccC
Confidence 5999999995 45566789999 99999999999999999996
No 11
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.63 E-value=2.1e-08 Score=60.06 Aligned_cols=43 Identities=35% Similarity=0.890 Sum_probs=38.5
Q ss_pred eecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcC-CCCCCccccc
Q psy8987 32 LCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKT-SRYCPICDVQ 93 (173)
Q Consensus 32 ~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~-s~~CP~C~~~ 93 (173)
.|+||.+.+.+++.+..|+|. ||..|+.+|++. +..||.|+..
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~-------------------~c~~C~~~~~~~~~~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHV-------------------FCRSCIDKWLKSGKNTCPLCRTP 44 (45)
T ss_pred CCCcCchhhhCceEecCCCCh-------------------hcHHHHHHHHHhCcCCCCCCCCc
Confidence 489999999888887779999 999999999997 7889999864
No 12
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.60 E-value=4.3e-08 Score=68.79 Aligned_cols=51 Identities=16% Similarity=0.287 Sum_probs=40.6
Q ss_pred CceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcC-CCCCCcccccccCCCC
Q psy8987 29 PHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKT-SRYCPICDVQLNRQDP 99 (173)
Q Consensus 29 ~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~-s~~CP~C~~~l~~~~p 99 (173)
+++.|+|+.++|.||+. +.+||+ |+++||.+|+.. ...||.|+..+...+.
T Consensus 3 ~~f~CpIt~~lM~dPVi-~~~G~t-------------------yer~~I~~~l~~~~~~~P~t~~~l~~~~l 54 (73)
T PF04564_consen 3 DEFLCPITGELMRDPVI-LPSGHT-------------------YERSAIERWLEQNGGTDPFTRQPLSESDL 54 (73)
T ss_dssp GGGB-TTTSSB-SSEEE-ETTSEE-------------------EEHHHHHHHHCTTSSB-TTT-SB-SGGGS
T ss_pred cccCCcCcCcHhhCcee-CCcCCE-------------------EcHHHHHHHHHcCCCCCCCCCCcCCcccc
Confidence 57999999999999996 588899 999999999999 8999999988875443
No 13
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.53 E-value=4.8e-08 Score=83.64 Aligned_cols=51 Identities=22% Similarity=0.583 Sum_probs=42.8
Q ss_pred ccCCceeecccchhhhhhc-------cccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCccccccc
Q psy8987 26 DVNPHLLCVLCRGYFVEAT-------SIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLN 95 (173)
Q Consensus 26 ~vn~~l~C~iC~~~f~~p~-------si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~ 95 (173)
+..+...|+||.+.+.++. .+++|+|. ||..||.+|.+.+..||.||..+.
T Consensus 170 ~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~-------------------FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 170 NRSKDKECAICMEKVYDKEIKNMYFGILSNCNHV-------------------FCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred cCCCCCCCccCCcccccCccccccceecCCCCCc-------------------ccHHHHHHHHhcCCCCCCCCCEee
Confidence 3456789999999887642 34689999 999999999999999999997664
No 14
>KOG0311|consensus
Probab=98.50 E-value=3.8e-08 Score=89.37 Aligned_cols=66 Identities=24% Similarity=0.548 Sum_probs=56.1
Q ss_pred chhhhhccCCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcC-CCCCCcccccccCCC
Q psy8987 20 DKLLVRDVNPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKT-SRYCPICDVQLNRQD 98 (173)
Q Consensus 20 ~~~~v~~vn~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~-s~~CP~C~~~l~~~~ 98 (173)
-.+.++.+...+.|+||.++++..++..+|+|. ||.+||.+.... ...||.|++.+...
T Consensus 33 i~~~l~~~~~~v~c~icl~llk~tmttkeClhr-------------------fc~~ci~~a~r~gn~ecptcRk~l~Sk- 92 (381)
T KOG0311|consen 33 IMVDLAMFDIQVICPICLSLLKKTMTTKECLHR-------------------FCFDCIWKALRSGNNECPTCRKKLVSK- 92 (381)
T ss_pred heecHHHhhhhhccHHHHHHHHhhcccHHHHHH-------------------HHHHHHHHHHHhcCCCCchHHhhcccc-
Confidence 445678899999999999999999999999999 999999998876 68999999988633
Q ss_pred Ccccccccc
Q psy8987 99 PFLSLKYSY 107 (173)
Q Consensus 99 p~~slk~~~ 107 (173)
.+|+.|.
T Consensus 93 --rsLr~Dp 99 (381)
T KOG0311|consen 93 --RSLRIDP 99 (381)
T ss_pred --ccCCCCc
Confidence 4566554
No 15
>KOG0287|consensus
Probab=98.47 E-value=2.9e-08 Score=90.70 Aligned_cols=56 Identities=30% Similarity=0.725 Sum_probs=50.4
Q ss_pred hhhccCCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCcccccccCCC
Q psy8987 23 LVRDVNPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLNRQD 98 (173)
Q Consensus 23 ~v~~vn~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~~~~ 98 (173)
.+..+..-|.|.||.+||.-|+ |+.|+|+ ||.-||.+|+.....||.|.+.+.+.+
T Consensus 16 slk~lD~lLRC~IC~eyf~ip~-itpCsHt-------------------fCSlCIR~~L~~~p~CP~C~~~~~Es~ 71 (442)
T KOG0287|consen 16 SLKTLDDLLRCGICFEYFNIPM-ITPCSHT-------------------FCSLCIRKFLSYKPQCPTCCVTVTESD 71 (442)
T ss_pred hhhhhHHHHHHhHHHHHhcCce-eccccch-------------------HHHHHHHHHhccCCCCCceecccchhh
Confidence 4567788899999999999998 6789999 999999999999999999999887654
No 16
>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=98.38 E-value=1.2e-07 Score=61.63 Aligned_cols=47 Identities=23% Similarity=0.624 Sum_probs=40.3
Q ss_pred ceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCccccccc
Q psy8987 30 HLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLN 95 (173)
Q Consensus 30 ~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~ 95 (173)
+..|+||.+-..+++. .+|+|. .||..|+.++++....||+|+.+++
T Consensus 2 ~~~C~iC~~~~~~~~~-~pCgH~------------------~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRDVVL-LPCGHL------------------CFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSSEEE-ETTCEE------------------EEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCceEE-eCCCCh------------------HHHHHHhHHhcccCCCCCcCChhhc
Confidence 5789999999998764 699998 4999999999999999999998775
No 17
>PHA02926 zinc finger-like protein; Provisional
Probab=98.34 E-value=2e-07 Score=80.68 Aligned_cols=71 Identities=21% Similarity=0.419 Sum_probs=50.0
Q ss_pred cccccccccCCccchhhhhccCCceeecccchhhhhhc--------cccccCCccccccccchhhhhccccccchHHhHH
Q psy8987 7 TYNAIEMRPTSRSDKLLVRDVNPHLLCVLCRGYFVEAT--------SIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIV 78 (173)
Q Consensus 7 ~~na~~m~~~sr~~~~~v~~vn~~l~C~iC~~~f~~p~--------si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~ 78 (173)
+|+|+.+. .-......+-....+..|+||++...++. -+..|+|+ ||.+||.
T Consensus 148 ~~~ai~i~-~il~~ye~~~~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHs-------------------FCl~CIr 207 (242)
T PHA02926 148 TISELDII-KILDKYEDVYRVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHI-------------------FCITCIN 207 (242)
T ss_pred eeeeechh-HHHHHHHHHHhccCCCCCccCccccccccccccccccccCCCCch-------------------HHHHHHH
Confidence 36676322 12223334456677899999999876641 24599999 9999999
Q ss_pred HhhcCC------CCCCcccccccCC
Q psy8987 79 KYIKTS------RYCPICDVQLNRQ 97 (173)
Q Consensus 79 k~i~~s------~~CP~C~~~l~~~ 97 (173)
+|-++. +.||+||..+..-
T Consensus 208 ~Wr~~r~~~~~~rsCPiCR~~f~~I 232 (242)
T PHA02926 208 IWHRTRRETGASDNCPICRTRFRNI 232 (242)
T ss_pred HHHHhccccCcCCcCCCCcceeeee
Confidence 998753 5699999877643
No 18
>KOG0317|consensus
Probab=98.26 E-value=6.5e-07 Score=79.34 Aligned_cols=49 Identities=24% Similarity=0.608 Sum_probs=44.3
Q ss_pred ceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCcccccccCCC
Q psy8987 30 HLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLNRQD 98 (173)
Q Consensus 30 ~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~~~~ 98 (173)
.-.|.||.+--.+|. .++|||- ||-+||..|.++...||.||..+..++
T Consensus 239 ~~kC~LCLe~~~~pS-aTpCGHi-------------------FCWsCI~~w~~ek~eCPlCR~~~~psk 287 (293)
T KOG0317|consen 239 TRKCSLCLENRSNPS-ATPCGHI-------------------FCWSCILEWCSEKAECPLCREKFQPSK 287 (293)
T ss_pred CCceEEEecCCCCCC-cCcCcch-------------------HHHHHHHHHHccccCCCcccccCCCcc
Confidence 478999999999996 6799999 999999999999999999998887554
No 19
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.15 E-value=1.3e-06 Score=56.02 Aligned_cols=42 Identities=29% Similarity=0.707 Sum_probs=35.7
Q ss_pred eecccchhh--hhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCcccc
Q psy8987 32 LCVLCRGYF--VEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDV 92 (173)
Q Consensus 32 ~C~iC~~~f--~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~ 92 (173)
.|++|.+.+ .++..+++|||+ ||.+|+.+.......||+|+.
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~-------------------~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHI-------------------FCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCH-------------------HHHHHHHhhcCCCCCCcCCCC
Confidence 388999888 345668899999 999999999877789999974
No 20
>KOG0320|consensus
Probab=98.14 E-value=1.4e-06 Score=73.21 Aligned_cols=50 Identities=24% Similarity=0.626 Sum_probs=42.7
Q ss_pred Cceeecccchhhhhhc-cccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCcccccccCC
Q psy8987 29 PHLLCVLCRGYFVEAT-SIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLNRQ 97 (173)
Q Consensus 29 ~~l~C~iC~~~f~~p~-si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~~~ 97 (173)
+-..||||+.-+.+-+ ..+.|||. ||+.||...++....||+|++.+...
T Consensus 130 ~~~~CPiCl~~~sek~~vsTkCGHv-------------------FC~~Cik~alk~~~~CP~C~kkIt~k 180 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEKVPVSTKCGHV-------------------FCSQCIKDALKNTNKCPTCRKKITHK 180 (187)
T ss_pred cccCCCceecchhhccccccccchh-------------------HHHHHHHHHHHhCCCCCCcccccchh
Confidence 4478999999887744 33699999 99999999999999999999877644
No 21
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.12 E-value=8.4e-07 Score=80.14 Aligned_cols=53 Identities=23% Similarity=0.607 Sum_probs=47.7
Q ss_pred hhhccCCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCccccccc
Q psy8987 23 LVRDVNPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLN 95 (173)
Q Consensus 23 ~v~~vn~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~ 95 (173)
.+..+..-+.|-||..+|..|+ ++.|||+ ||.-||.+|+.+...||.|+....
T Consensus 18 SL~~LDs~lrC~IC~~~i~ip~-~TtCgHt-------------------FCslCIR~hL~~qp~CP~Cr~~~~ 70 (391)
T COG5432 18 SLKGLDSMLRCRICDCRISIPC-ETTCGHT-------------------FCSLCIRRHLGTQPFCPVCREDPC 70 (391)
T ss_pred chhcchhHHHhhhhhheeecce-ecccccc-------------------hhHHHHHHHhcCCCCCccccccHH
Confidence 4567788899999999999997 6799999 999999999999999999987554
No 22
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.11 E-value=1.8e-06 Score=49.80 Aligned_cols=38 Identities=37% Similarity=1.023 Sum_probs=32.4
Q ss_pred ecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhc-CCCCCCcc
Q psy8987 33 CVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIK-TSRYCPIC 90 (173)
Q Consensus 33 C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~-~s~~CP~C 90 (173)
|+||.+...+++ ++.|+|. ||..|+.+|++ ....||.|
T Consensus 1 C~iC~~~~~~~~-~~~C~H~-------------------~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPV-VLPCGHT-------------------FCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCcE-EecCCCh-------------------HHHHHHHHHHHhCcCCCCCC
Confidence 789999876665 5699999 99999999998 56779987
No 23
>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=98.06 E-value=2.9e-06 Score=75.55 Aligned_cols=48 Identities=29% Similarity=0.702 Sum_probs=37.6
Q ss_pred eeecccch--hhhhhc---cccccCCccccccccchhhhhccccccchHHhHHHhhcC-CCCCCcccccccCCC
Q psy8987 31 LLCVLCRG--YFVEAT---SIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKT-SRYCPICDVQLNRQD 98 (173)
Q Consensus 31 l~C~iC~~--~f~~p~---si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~-s~~CP~C~~~l~~~~ 98 (173)
-.||+|.. |+ +|- .+.+|||+ ||++|+...+.. +..||.|+..+.+..
T Consensus 4 ~~CP~Ck~~~y~-np~~kl~i~~CGH~-------------------~C~sCv~~l~~~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 4 QGCPRCKTTKYR-NPSLKLMVNVCGHT-------------------LCESCVDLLFVRGSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCcCCCCCcc-CcccccccCCCCCc-------------------ccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence 57999997 44 443 23379999 999999997754 578999999887665
No 24
>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=98.05 E-value=2.5e-06 Score=60.30 Aligned_cols=41 Identities=27% Similarity=0.689 Sum_probs=34.0
Q ss_pred eecccchhhhhh------------ccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCccc
Q psy8987 32 LCVLCRGYFVEA------------TSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICD 91 (173)
Q Consensus 32 ~C~iC~~~f~~p------------~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~ 91 (173)
.|.||++-|.+| +....|+|. |...||.+|++.+..||.||
T Consensus 21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~-------------------FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHI-------------------FHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEE-------------------EEHHHHHHHHTTSSB-TTSS
T ss_pred cccccChhhhChhhhhcCCccccceEecccCCC-------------------EEHHHHHHHHhcCCcCCCCC
Confidence 399999999443 344579999 99999999999999999996
No 25
>KOG0823|consensus
Probab=97.90 E-value=5.3e-06 Score=71.57 Aligned_cols=50 Identities=22% Similarity=0.653 Sum_probs=43.6
Q ss_pred CCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcC---CCCCCcccccccCC
Q psy8987 28 NPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKT---SRYCPICDVQLNRQ 97 (173)
Q Consensus 28 n~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~---s~~CP~C~~~l~~~ 97 (173)
.....|.||.+.-.|||. +.|||- ||-.||.+|+.. ++.||+|+..+...
T Consensus 45 ~~~FdCNICLd~akdPVv-TlCGHL-------------------FCWpClyqWl~~~~~~~~cPVCK~~Vs~~ 97 (230)
T KOG0823|consen 45 GGFFDCNICLDLAKDPVV-TLCGHL-------------------FCWPCLYQWLQTRPNSKECPVCKAEVSID 97 (230)
T ss_pred CCceeeeeeccccCCCEE-eecccc-------------------eehHHHHHHHhhcCCCeeCCccccccccc
Confidence 456899999999999984 699999 999999999987 47899999877643
No 26
>KOG2164|consensus
Probab=97.78 E-value=1.2e-05 Score=75.88 Aligned_cols=49 Identities=29% Similarity=0.670 Sum_probs=42.8
Q ss_pred ceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCC-----CCCCcccccccCCC
Q psy8987 30 HLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTS-----RYCPICDVQLNRQD 98 (173)
Q Consensus 30 ~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s-----~~CP~C~~~l~~~~ 98 (173)
...||||.+...-|.. +.|||- ||-.||..||..+ +.||+|+..+...+
T Consensus 186 ~~~CPICL~~~~~p~~-t~CGHi-------------------FC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kd 239 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVR-TNCGHI-------------------FCGPCILQYWNYSAIKGPCSCPICRSTITLKD 239 (513)
T ss_pred CCcCCcccCCCCcccc-cccCce-------------------eeHHHHHHHHhhhcccCCccCCchhhhccccc
Confidence 7899999999999985 579999 9999999999875 78999998877543
No 27
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=97.75 E-value=1.2e-05 Score=52.81 Aligned_cols=31 Identities=35% Similarity=0.859 Sum_probs=21.1
Q ss_pred ecccchhhhh----hccccccCCccccccccchhhhhccccccchHHhHHHhhcCC
Q psy8987 33 CVLCRGYFVE----ATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTS 84 (173)
Q Consensus 33 C~iC~~~f~~----p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s 84 (173)
|+||++ |.+ |+.+ .|||+ ||++|+.+..+.+
T Consensus 1 CpIc~e-~~~~~n~P~~L-~CGH~-------------------~c~~cl~~l~~~~ 35 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVL-PCGHV-------------------FCKDCLQKLSKKS 35 (43)
T ss_dssp -TTT-----TTSS-EEE--SSS-E-------------------EEHHHHHHHHHH-
T ss_pred CCcccc-ccCCCCCCEEE-eCccH-------------------HHHHHHHHHHhcC
Confidence 899999 888 8875 69999 9999999998853
No 28
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.66 E-value=1.6e-05 Score=54.73 Aligned_cols=44 Identities=27% Similarity=0.525 Sum_probs=32.3
Q ss_pred cCCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcC--CCCCCc
Q psy8987 27 VNPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKT--SRYCPI 89 (173)
Q Consensus 27 vn~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~--s~~CP~ 89 (173)
-.-.+.|||....|.+|+....|+|+ |.++.|..|++. +..||+
T Consensus 8 ~~~~~~CPiT~~~~~~PV~s~~C~H~-------------------fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 8 GTISLKCPITLQPFEDPVKSKKCGHT-------------------FEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp SB--SB-TTTSSB-SSEEEESSS--E-------------------EEHHHHHHHCTTTS-EE-SC
T ss_pred cEeccCCCCcCChhhCCcCcCCCCCe-------------------ecHHHHHHHHHhcCCCCCCC
Confidence 34568999999999999998899999 999999999944 567998
No 29
>KOG0297|consensus
Probab=97.51 E-value=6.7e-05 Score=67.49 Aligned_cols=55 Identities=25% Similarity=0.749 Sum_probs=48.4
Q ss_pred hhhccCCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCcccccccC
Q psy8987 23 LVRDVNPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLNR 96 (173)
Q Consensus 23 ~v~~vn~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~~ 96 (173)
..+.+.+.+.|++|...+.+|+..+.|+|. ||..|+.++...+..||.|+..+..
T Consensus 14 ~~~~~~~~l~C~~C~~vl~~p~~~~~cgh~-------------------fC~~C~~~~~~~~~~cp~~~~~~~~ 68 (391)
T KOG0297|consen 14 LGRPLDENLLCPICMSVLRDPVQTTTCGHR-------------------FCAGCLLESLSNHQKCPVCRQELTQ 68 (391)
T ss_pred cCCCCcccccCccccccccCCCCCCCCCCc-------------------ccccccchhhccCcCCcccccccch
Confidence 344588899999999999999875699999 9999999999999999999876653
No 30
>KOG0802|consensus
Probab=97.49 E-value=5e-05 Score=70.29 Aligned_cols=51 Identities=22% Similarity=0.524 Sum_probs=44.0
Q ss_pred ccCCceeecccchhhhhh----ccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCccccccc
Q psy8987 26 DVNPHLLCVLCRGYFVEA----TSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLN 95 (173)
Q Consensus 26 ~vn~~l~C~iC~~~f~~p----~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~ 95 (173)
..+....|.||++.+..+ ....+|+|. |+-.|+.+|.+.+.+||.|+..+.
T Consensus 287 ~~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hi-------------------fh~~CL~~W~er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 287 LALSDELCIICLEELHSGHNITPKRLPCGHI-------------------FHDSCLRSWFERQQTCPTCRTVLY 341 (543)
T ss_pred hhhcCCeeeeechhhccccccccceeecccc-------------------hHHHHHHHHHHHhCcCCcchhhhh
Confidence 445688999999999984 346799999 999999999999999999998443
No 31
>KOG0978|consensus
Probab=97.48 E-value=3.9e-05 Score=74.55 Aligned_cols=55 Identities=27% Similarity=0.727 Sum_probs=48.3
Q ss_pred hhccCCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcC-CCCCCcccccccCCC
Q psy8987 24 VRDVNPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKT-SRYCPICDVQLNRQD 98 (173)
Q Consensus 24 v~~vn~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~-s~~CP~C~~~l~~~~ 98 (173)
++....-|.|+.|..-.+|.+ |+.|||- ||..||.+.+.+ .+.||.|...++..|
T Consensus 637 lk~yK~~LkCs~Cn~R~Kd~v-I~kC~H~-------------------FC~~Cvq~r~etRqRKCP~Cn~aFganD 692 (698)
T KOG0978|consen 637 LKEYKELLKCSVCNTRWKDAV-ITKCGHV-------------------FCEECVQTRYETRQRKCPKCNAAFGAND 692 (698)
T ss_pred HHHHHhceeCCCccCchhhHH-HHhcchH-------------------HHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence 455678899999999999987 6799999 999999988877 699999999998665
No 32
>KOG4159|consensus
Probab=97.36 E-value=0.00013 Score=66.90 Aligned_cols=50 Identities=22% Similarity=0.636 Sum_probs=45.2
Q ss_pred cCCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCcccccccC
Q psy8987 27 VNPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLNR 96 (173)
Q Consensus 27 vn~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~~ 96 (173)
+..++.|.+|.+.|.+||+. +|||+ ||..||.+-...+..||.|+..+.+
T Consensus 81 ~~sef~c~vc~~~l~~pv~t-pcghs-------------------~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 81 IRSEFECCVCSRALYPPVVT-PCGHS-------------------FCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred ccchhhhhhhHhhcCCCccc-ccccc-------------------ccHHHHHHHhccCCCCccccccccc
Confidence 35688999999999999986 99999 9999999988888999999988864
No 33
>KOG1813|consensus
Probab=97.32 E-value=7.7e-05 Score=66.88 Aligned_cols=46 Identities=28% Similarity=0.745 Sum_probs=41.6
Q ss_pred eeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCcccccccC
Q psy8987 31 LLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLNR 96 (173)
Q Consensus 31 l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~~ 96 (173)
.-|-||+.+|++||. +.|+|. ||..|-.+..+.+..|++|..+...
T Consensus 242 f~c~icr~~f~~pVv-t~c~h~-------------------fc~~ca~~~~qk~~~c~vC~~~t~g 287 (313)
T KOG1813|consen 242 FKCFICRKYFYRPVV-TKCGHY-------------------FCEVCALKPYQKGEKCYVCSQQTHG 287 (313)
T ss_pred ccccccccccccchh-hcCCce-------------------eehhhhccccccCCcceeccccccc
Confidence 349999999999996 699999 9999999999999999999988763
No 34
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=96.96 E-value=0.00055 Score=51.40 Aligned_cols=51 Identities=29% Similarity=0.623 Sum_probs=39.0
Q ss_pred ccCCceeecccchhhhh------------hccccccCCccccccccchhhhhccccccchHHhHHHhhcC---CCCCCcc
Q psy8987 26 DVNPHLLCVLCRGYFVE------------ATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKT---SRYCPIC 90 (173)
Q Consensus 26 ~vn~~l~C~iC~~~f~~------------p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~---s~~CP~C 90 (173)
++..+..|.|||..|-. |+..-.|+|. |-..||.+|+.+ +..||.|
T Consensus 17 d~~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~-------------------FH~hCI~kWl~~~~~~~~CPmC 77 (85)
T PF12861_consen 17 DVANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHN-------------------FHMHCILKWLSTQSSKGQCPMC 77 (85)
T ss_pred ecCCCCceeeEecccccCCCCccCCCCCCceeeccCccH-------------------HHHHHHHHHHccccCCCCCCCc
Confidence 34557889999988762 3334478898 999999999997 3789999
Q ss_pred ccccc
Q psy8987 91 DVQLN 95 (173)
Q Consensus 91 ~~~l~ 95 (173)
|....
T Consensus 78 R~~w~ 82 (85)
T PF12861_consen 78 RQPWK 82 (85)
T ss_pred CCeee
Confidence 87543
No 35
>KOG4628|consensus
Probab=96.95 E-value=0.00047 Score=62.55 Aligned_cols=46 Identities=24% Similarity=0.704 Sum_probs=39.6
Q ss_pred eeecccchhhh--hhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCC-CCccccccc
Q psy8987 31 LLCVLCRGYFV--EATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRY-CPICDVQLN 95 (173)
Q Consensus 31 l~C~iC~~~f~--~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~-CP~C~~~l~ 95 (173)
.+|.||.+-|. |-+.++.|.|. |-..||-+|+...+. ||+|+....
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~-------------------FH~~CIDpWL~~~r~~CPvCK~di~ 278 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHK-------------------FHVNCIDPWLTQTRTFCPVCKRDIR 278 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCc-------------------hhhccchhhHhhcCccCCCCCCcCC
Confidence 49999999887 46788999999 999999999998754 999987554
No 36
>KOG1039|consensus
Probab=96.72 E-value=0.00083 Score=60.68 Aligned_cols=54 Identities=30% Similarity=0.651 Sum_probs=43.0
Q ss_pred CCceeecccchhhhhhc------c-ccccCCccccccccchhhhhccccccchHHhHHHhhc--C-----CCCCCccccc
Q psy8987 28 NPHLLCVLCRGYFVEAT------S-IVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIK--T-----SRYCPICDVQ 93 (173)
Q Consensus 28 n~~l~C~iC~~~f~~p~------s-i~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~--~-----s~~CP~C~~~ 93 (173)
..+-.|.||++...+.. . ...|.|+ ||..||.+|-. . +++||.|++.
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~-------------------~Cl~Cir~wr~~~q~~~~~sksCP~CRv~ 219 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHS-------------------FCLNCIRKWRQATQFESKTSKSCPFCRVP 219 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchh-------------------hhhcHhHhhhhhhccccccccCCCcccCc
Confidence 44789999999988865 1 1469999 99999999973 2 6899999998
Q ss_pred ccCCCCc
Q psy8987 94 LNRQDPF 100 (173)
Q Consensus 94 l~~~~p~ 100 (173)
.....|.
T Consensus 220 s~~v~pS 226 (344)
T KOG1039|consen 220 SSFVNPS 226 (344)
T ss_pred ccccccc
Confidence 8765543
No 37
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.39 E-value=0.0015 Score=57.79 Aligned_cols=49 Identities=24% Similarity=0.671 Sum_probs=40.1
Q ss_pred CceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHH-hhcCC-CCCCcccccccCC
Q psy8987 29 PHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVK-YIKTS-RYCPICDVQLNRQ 97 (173)
Q Consensus 29 ~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k-~i~~s-~~CP~C~~~l~~~ 97 (173)
.+..|+||.+....|.. +.|||- ||-+||.. |-+.+ ..||.||.....+
T Consensus 214 ~d~kC~lC~e~~~~ps~-t~CgHl-------------------FC~~Cl~~~~t~~k~~~CplCRak~~pk 264 (271)
T COG5574 214 ADYKCFLCLEEPEVPSC-TPCGHL-------------------FCLSCLLISWTKKKYEFCPLCRAKVYPK 264 (271)
T ss_pred cccceeeeecccCCccc-ccccch-------------------hhHHHHHHHHHhhccccCchhhhhccch
Confidence 36789999999999975 699999 99999999 65554 4599999866533
No 38
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.39 E-value=0.0015 Score=56.85 Aligned_cols=46 Identities=24% Similarity=0.653 Sum_probs=40.5
Q ss_pred ceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCccccccc
Q psy8987 30 HLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLN 95 (173)
Q Consensus 30 ~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~ 95 (173)
.+.|.||.+-+..|+. ++|||+ ||..|..+-.+....|-+|+....
T Consensus 196 PF~C~iCKkdy~spvv-t~CGH~-------------------FC~~Cai~~y~kg~~C~~Cgk~t~ 241 (259)
T COG5152 196 PFLCGICKKDYESPVV-TECGHS-------------------FCSLCAIRKYQKGDECGVCGKATY 241 (259)
T ss_pred ceeehhchhhccchhh-hhcchh-------------------HHHHHHHHHhccCCcceecchhhc
Confidence 3699999999999985 699999 999999887777888999987654
No 39
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.37 E-value=0.0018 Score=59.35 Aligned_cols=44 Identities=30% Similarity=0.619 Sum_probs=39.1
Q ss_pred ceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCC-CCCCcccc
Q psy8987 30 HLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTS-RYCPICDV 92 (173)
Q Consensus 30 ~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s-~~CP~C~~ 92 (173)
.|.|++|.+++.+|+...+|+|. ||..||...+-.+ ..||.|..
T Consensus 274 ~LkCplc~~Llrnp~kT~cC~~~-------------------fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 274 SLKCPLCHCLLRNPMKTPCCGHT-------------------FCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred cccCcchhhhhhCcccCccccch-------------------HHHHHHhhhhhhccccCCCccc
Confidence 39999999999999987899999 9999999877664 78999963
No 40
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=96.36 E-value=0.0021 Score=60.07 Aligned_cols=49 Identities=20% Similarity=0.602 Sum_probs=42.2
Q ss_pred cCCceeecccchhhhhhc------------cccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCcccccc
Q psy8987 27 VNPHLLCVLCRGYFVEAT------------SIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQL 94 (173)
Q Consensus 27 vn~~l~C~iC~~~f~~p~------------si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l 94 (173)
-|.+-.|.||++-+.+|- --..|||- +--+|+..|.+.+..||+|+.++
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHi-------------------lHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHI-------------------LHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCcccccccce-------------------eeHHHHHHHHHhccCCCcccCcc
Confidence 478899999998866554 33589999 89999999999999999999884
No 41
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.25 E-value=0.0023 Score=58.36 Aligned_cols=48 Identities=23% Similarity=0.690 Sum_probs=40.8
Q ss_pred Cceeecccchhhh--hhccccccCCccccccccchhhhhccccccchHHhHHHhhc-CCCCCCccccccc
Q psy8987 29 PHLLCVLCRGYFV--EATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIK-TSRYCPICDVQLN 95 (173)
Q Consensus 29 ~~l~C~iC~~~f~--~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~-~s~~CP~C~~~l~ 95 (173)
.-..|.||++-|. |-...+.|.|. |-.+|+.+|+. .+..||.|+..+.
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC~H~-------------------FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPCDHR-------------------FHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred CCceEEEEhhhhcccceEEEeccCce-------------------echhHHHHHHhhhcccCCccCCCCC
Confidence 3478999999886 45677899999 99999999998 5889999998764
No 42
>KOG2879|consensus
Probab=95.87 E-value=0.0057 Score=54.80 Aligned_cols=50 Identities=24% Similarity=0.414 Sum_probs=42.7
Q ss_pred cCCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcC--CCCCCccccccc
Q psy8987 27 VNPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKT--SRYCPICDVQLN 95 (173)
Q Consensus 27 vn~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~--s~~CP~C~~~l~ 95 (173)
......|++|.+.-..|..+-.|+|. +|-.||.+-... +..||.|+....
T Consensus 236 ~t~~~~C~~Cg~~PtiP~~~~~C~Hi-------------------yCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 236 GTSDTECPVCGEPPTIPHVIGKCGHI-------------------YCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred ccCCceeeccCCCCCCCeeeccccce-------------------eehhhhhhhhcchhhcccCccCCCCc
Confidence 35578999999999999999889999 999999987554 689999987654
No 43
>KOG4172|consensus
Probab=95.21 E-value=0.0066 Score=43.51 Aligned_cols=46 Identities=28% Similarity=0.738 Sum_probs=39.1
Q ss_pred eeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhc-CCCCCCccccccc
Q psy8987 31 LLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIK-TSRYCPICDVQLN 95 (173)
Q Consensus 31 l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~-~s~~CP~C~~~l~ 95 (173)
..|.||.+--+|.+ +-.|||-| .|-.|-.+-++ ....||+|+.++.
T Consensus 8 dECTICye~pvdsV-lYtCGHMC------------------mCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 8 DECTICYEHPVDSV-LYTCGHMC------------------MCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred cceeeeccCcchHH-HHHcchHH------------------hHHHHHHHHHHccCCcCcchhhHHH
Confidence 67999999888876 56899995 79999998888 5789999998764
No 44
>KOG4265|consensus
Probab=94.90 E-value=0.01 Score=54.11 Aligned_cols=49 Identities=24% Similarity=0.697 Sum_probs=39.9
Q ss_pred CCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCccccccc
Q psy8987 28 NPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLN 95 (173)
Q Consensus 28 n~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~ 95 (173)
..-..|+||+.--+|-+ ++.|-|-| .|.+|-...--..+.||+||..+.
T Consensus 288 ~~gkeCVIClse~rdt~-vLPCRHLC------------------LCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTV-VLPCRHLC------------------LCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred cCCCeeEEEecCCcceE-Eecchhhe------------------hhHhHHHHHHHhhcCCCccccchH
Confidence 34578999999989865 67999996 899998766555678999998775
No 45
>KOG0826|consensus
Probab=94.86 E-value=0.016 Score=52.98 Aligned_cols=72 Identities=17% Similarity=0.220 Sum_probs=50.0
Q ss_pred cccccccccccCCccchhhhhccCCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCC
Q psy8987 5 SITYNAIEMRPTSRSDKLLVRDVNPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTS 84 (173)
Q Consensus 5 s~~~na~~m~~~sr~~~~~v~~vn~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s 84 (173)
+-+++.+.+-|.+.-.+.........-.|++|+.--.+|+...--|-. ||-+||.+|..+.
T Consensus 275 ~~l~~p~PpPPh~~~~se~e~l~~~~~~CpvClk~r~Nptvl~vSGyV-------------------fCY~Ci~~Yv~~~ 335 (357)
T KOG0826|consen 275 STLDPPIPPPPHKQYNSESELLPPDREVCPVCLKKRQNPTVLEVSGYV-------------------FCYPCIFSYVVNY 335 (357)
T ss_pred cCCCCCCCcCChhhcccccccCCCccccChhHHhccCCCceEEecceE-------------------EeHHHHHHHHHhc
Confidence 456677776663322222222234567899999999999865444555 9999999999999
Q ss_pred CCCCccccccc
Q psy8987 85 RYCPICDVQLN 95 (173)
Q Consensus 85 ~~CP~C~~~l~ 95 (173)
..||+=..+.+
T Consensus 336 ~~CPVT~~p~~ 346 (357)
T KOG0826|consen 336 GHCPVTGYPAS 346 (357)
T ss_pred CCCCccCCcch
Confidence 99998765544
No 46
>KOG1002|consensus
Probab=94.68 E-value=0.035 Score=54.24 Aligned_cols=49 Identities=27% Similarity=0.731 Sum_probs=42.2
Q ss_pred cCCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcC-----CCCCCccccccc
Q psy8987 27 VNPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKT-----SRYCPICDVQLN 95 (173)
Q Consensus 27 vn~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~-----s~~CP~C~~~l~ 95 (173)
=.....|.+|.+.-.|++. +.|.|. ||+-||..|+.. .-.||.|...|.
T Consensus 533 nk~~~~C~lc~d~aed~i~-s~ChH~-------------------FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls 586 (791)
T KOG1002|consen 533 NKGEVECGLCHDPAEDYIE-SSCHHK-------------------FCRLCIKEYVESFMENNNVTCPVCHIGLS 586 (791)
T ss_pred ccCceeecccCChhhhhHh-hhhhHH-------------------HHHHHHHHHHHhhhcccCCCCcccccccc
Confidence 3557899999999999985 599999 999999999764 478999998776
No 47
>KOG3039|consensus
Probab=94.60 E-value=0.031 Score=50.00 Aligned_cols=55 Identities=24% Similarity=0.422 Sum_probs=47.4
Q ss_pred ccCCceeecccchhhhhhcc---ccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCcccccccCCCC
Q psy8987 26 DVNPHLLCVLCRGYFVEATS---IVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLNRQDP 99 (173)
Q Consensus 26 ~vn~~l~C~iC~~~f~~p~s---i~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~~~~p 99 (173)
.-.....||+|+..+.+++. +-.|||. ||+.|..+.+.....||+|+.++...+.
T Consensus 217 a~s~ryiCpvtrd~LtNt~~ca~Lr~sg~V-------------------v~~ecvEklir~D~v~pv~d~plkdrdi 274 (303)
T KOG3039|consen 217 AASKRYICPVTRDTLTNTTPCAVLRPSGHV-------------------VTKECVEKLIRKDMVDPVTDKPLKDRDI 274 (303)
T ss_pred hhccceecccchhhhcCccceEEeccCCcE-------------------eeHHHHHHhccccccccCCCCcCcccce
Confidence 33467899999999999774 3489999 9999999999999999999999986654
No 48
>KOG0804|consensus
Probab=94.57 E-value=0.017 Score=54.65 Aligned_cols=52 Identities=23% Similarity=0.488 Sum_probs=40.1
Q ss_pred hhhccCCceeecccchhhhhhc---cccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCccccccc
Q psy8987 23 LVRDVNPHLLCVLCRGYFVEAT---SIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLN 95 (173)
Q Consensus 23 ~v~~vn~~l~C~iC~~~f~~p~---si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~ 95 (173)
..-.+.+--+||+|.+-+-+-| ..+-|-|| |=-+|+.+|+.. .||+||.-..
T Consensus 168 ~~~~~tELPTCpVCLERMD~s~~gi~t~~c~Hs-------------------fh~~cl~~w~~~--scpvcR~~q~ 222 (493)
T KOG0804|consen 168 PPTGLTELPTCPVCLERMDSSTTGILTILCNHS-------------------FHCSCLMKWWDS--SCPVCRYCQS 222 (493)
T ss_pred CCCCcccCCCcchhHhhcCccccceeeeecccc-------------------cchHHHhhcccC--cChhhhhhcC
Confidence 3345566779999999887665 44589999 999999999865 5999986443
No 49
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=94.01 E-value=0.032 Score=39.24 Aligned_cols=51 Identities=27% Similarity=0.632 Sum_probs=36.3
Q ss_pred cCCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCcccccccCCCC
Q psy8987 27 VNPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLNRQDP 99 (173)
Q Consensus 27 vn~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~~~~p 99 (173)
+.++..|..|...=...+. ..|+|. +|..|-- .+.-.-||.|..++...+|
T Consensus 4 ~~~~~~~~~~~~~~~~~~~-~pCgH~-------------------I~~~~f~--~~rYngCPfC~~~~~~~~~ 54 (55)
T PF14447_consen 4 QQPEQPCVFCGFVGTKGTV-LPCGHL-------------------ICDNCFP--GERYNGCPFCGTPFEFDDP 54 (55)
T ss_pred cccceeEEEcccccccccc-ccccce-------------------eeccccC--hhhccCCCCCCCcccCCCC
Confidence 4577889999877555543 599999 9998831 1123569999998876655
No 50
>KOG4367|consensus
Probab=93.34 E-value=0.029 Score=53.85 Aligned_cols=35 Identities=26% Similarity=0.831 Sum_probs=30.5
Q ss_pred cCCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhh
Q psy8987 27 VNPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYI 81 (173)
Q Consensus 27 vn~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i 81 (173)
+.++|.|++|..+|.||+ |+.|+|+ .|+.|...-.
T Consensus 1 meeelkc~vc~~f~~epi-il~c~h~-------------------lc~~ca~~~~ 35 (699)
T KOG4367|consen 1 MEEELKCPVCGSFYREPI-ILPCSHN-------------------LCQACARNIL 35 (699)
T ss_pred CcccccCceehhhccCce-EeecccH-------------------HHHHHHHhhc
Confidence 357899999999999998 6799999 9999987544
No 51
>KOG0298|consensus
Probab=92.25 E-value=0.055 Score=56.52 Aligned_cols=60 Identities=25% Similarity=0.542 Sum_probs=51.2
Q ss_pred cchhhhhccCCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCcccccccCC
Q psy8987 19 SDKLLVRDVNPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLNRQ 97 (173)
Q Consensus 19 ~~~~~v~~vn~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~~~ 97 (173)
++..-+.++-.|..|.+|++.+.+--.|..|||. +|.+|++.|...+..||+|++.....
T Consensus 1142 s~~~y~~~~~~~~~c~ic~dil~~~~~I~~cgh~-------------------~c~~c~~~~l~~~s~~~~~ksi~~df 1201 (1394)
T KOG0298|consen 1142 SDVRYLMNLSGHFVCEICLDILRNQGGIAGCGHE-------------------PCCRCDELWLYASSRCPICKSIKGDF 1201 (1394)
T ss_pred chHHHHHHhhcccchHHHHHHHHhcCCeeeechh-------------------HhhhHHHHHHHHhccCcchhhhhhhh
Confidence 4555677788899999999999977778899999 99999999999999999998755433
No 52
>KOG0824|consensus
Probab=92.22 E-value=0.068 Score=48.57 Aligned_cols=48 Identities=19% Similarity=0.555 Sum_probs=39.9
Q ss_pred ceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhh-cCCCCCCcccccccCC
Q psy8987 30 HLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYI-KTSRYCPICDVQLNRQ 97 (173)
Q Consensus 30 ~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i-~~s~~CP~C~~~l~~~ 97 (173)
.-.|+||..-..-|++ +.|.|. ||.-||..-. ...+.||.|+-++...
T Consensus 7 ~~eC~IC~nt~n~Pv~-l~C~Hk-------------------FCyiCiKGsy~ndk~~CavCR~pids~ 55 (324)
T KOG0824|consen 7 KKECLICYNTGNCPVN-LYCFHK-------------------FCYICIKGSYKNDKKTCAVCRFPIDST 55 (324)
T ss_pred CCcceeeeccCCcCcc-ccccch-------------------hhhhhhcchhhcCCCCCceecCCCCcc
Confidence 4579999999999965 699999 9999998654 4567799999888644
No 53
>KOG1001|consensus
Probab=91.96 E-value=0.063 Score=52.26 Aligned_cols=54 Identities=28% Similarity=0.639 Sum_probs=43.3
Q ss_pred hccCCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCC--CCCCcccccccCCCC
Q psy8987 25 RDVNPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTS--RYCPICDVQLNRQDP 99 (173)
Q Consensus 25 ~~vn~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s--~~CP~C~~~l~~~~p 99 (173)
.+|+....|.+|.. .++..++.|+|. ||.+|+.+.|..+ ..||.|+..+.....
T Consensus 449 ~~l~~~~~c~ic~~--~~~~~it~c~h~-------------------~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l 504 (674)
T KOG1001|consen 449 VDLSVSHWCHICCD--LDSFFITRCGHD-------------------FCVECLKKSIQQSENAPCPLCRNVLKEKKL 504 (674)
T ss_pred HHHhhccccccccc--cccceeecccch-------------------HHHHHHHhccccccCCCCcHHHHHHHHHHH
Confidence 34443489999999 666678999999 9999999999874 579999998875543
No 54
>KOG4445|consensus
Probab=91.69 E-value=0.14 Score=47.05 Aligned_cols=95 Identities=25% Similarity=0.482 Sum_probs=59.9
Q ss_pred hhccCCceeecccchhhhh--hccccccCCccccccccchhhhhccccccchHHhHHHhhcC------------------
Q psy8987 24 VRDVNPHLLCVLCRGYFVE--ATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKT------------------ 83 (173)
Q Consensus 24 v~~vn~~l~C~iC~~~f~~--p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~------------------ 83 (173)
...-.++--|+||.--|.+ +.+.++|.|. +--.|+.+|+..
T Consensus 109 T~nn~p~gqCvICLygfa~~~~ft~T~C~Hy-------------------~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh 169 (368)
T KOG4445|consen 109 TENNHPNGQCVICLYGFASSPAFTVTACDHY-------------------MHFACLARYLTECLTGLRQEIQDAQKERQH 169 (368)
T ss_pred ccCCCCCCceEEEEEeecCCCceeeehhHHH-------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344678899999976754 4788899999 666778777641
Q ss_pred -----CCCCCcccccccCCCCccccc----ccchhcccCCCCchHHHHHHHHHHHHHHHHHhhhhchhhH
Q psy8987 84 -----SRYCPICDVQLNRQDPFLSLK----YSYIAFASDDYDNDTRIYEQVLQIVLRIYLRKNVLRGTIH 144 (173)
Q Consensus 84 -----s~~CP~C~~~l~~~~p~~slk----~~~~a~~s~~y~~d~~~qe~VykLvp~ly~re~~~rg~~~ 144 (173)
...||+||..+... ..+|+ +.+...+.+. +...++.+-.++ ++|.+... ||-|+
T Consensus 170 ~~~~~eavcpVcre~i~~e--~~slk~a~~Pt~~l~~~~~--~~eslrq~~~r~--~ly~~qk~-rg~ii 232 (368)
T KOG4445|consen 170 MKEQVEAVCPVCRERIKIE--ENSLKIAEFPTYPMELYQP--SAESLRQQEERK--RLYQRQQE-RGGII 232 (368)
T ss_pred hhhhHhhhhhHhhhhcccc--ccceeccCCCccccccCcc--cHHHHHHHHHHH--HHHHHHhh-cCceE
Confidence 24699999888632 22333 2222222222 456677666666 78877654 44443
No 55
>KOG3800|consensus
Probab=90.67 E-value=0.21 Score=45.11 Aligned_cols=47 Identities=30% Similarity=0.738 Sum_probs=32.9
Q ss_pred eecccchh-hhhhc---cccccCCccccccccchhhhhccccccchHHhHHHhhcC-CCCCCcccccccCC
Q psy8987 32 LCVLCRGY-FVEAT---SIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKT-SRYCPICDVQLNRQ 97 (173)
Q Consensus 32 ~C~iC~~~-f~~p~---si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~-s~~CP~C~~~l~~~ 97 (173)
.||.|..- +.+|- .+-+|+|. -|.+|.-.-... +..||.|.+.+.+.
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~-------------------lCEsCvd~iF~~g~~~CpeC~~iLRk~ 53 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHR-------------------LCESCVDRIFSLGPAQCPECMVILRKN 53 (300)
T ss_pred CCcccccceecCccceeeeccccch-------------------HHHHHHHHHHhcCCCCCCcccchhhhc
Confidence 37777632 22332 23499999 999999876554 68899999877644
No 56
>KOG4692|consensus
Probab=90.59 E-value=0.15 Score=47.81 Aligned_cols=48 Identities=23% Similarity=0.591 Sum_probs=41.4
Q ss_pred CCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCccccccc
Q psy8987 28 NPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLN 95 (173)
Q Consensus 28 n~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~ 95 (173)
.++-+|+||-.--.+|+ ...|+|. -|+.||.+++-+.+.|=-|+..+.
T Consensus 420 sEd~lCpICyA~pi~Av-f~PC~H~-------------------SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 420 SEDNLCPICYAGPINAV-FAPCSHR-------------------SCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred cccccCcceecccchhh-ccCCCCc-------------------hHHHHHHHHHhcCCeeeEecceee
Confidence 45678999987777776 4699999 999999999999999999987664
No 57
>PF04641 Rtf2: Rtf2 RING-finger
Probab=90.47 E-value=0.45 Score=40.56 Aligned_cols=51 Identities=16% Similarity=0.407 Sum_probs=41.3
Q ss_pred CCceeecccchhhhh---hccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCcccccccCCC
Q psy8987 28 NPHLLCVLCRGYFVE---ATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLNRQD 98 (173)
Q Consensus 28 n~~l~C~iC~~~f~~---p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~~~~ 98 (173)
.....|||....|.. -+-+..|||. |+..++...- .+..||+|+.++...|
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V-------------------~s~~alke~k-~~~~Cp~c~~~f~~~D 164 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCV-------------------FSEKALKELK-KSKKCPVCGKPFTEED 164 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCE-------------------eeHHHHHhhc-ccccccccCCccccCC
Confidence 567899999988853 4556799999 9999998883 4567999999988654
No 58
>KOG0825|consensus
Probab=90.38 E-value=0.12 Score=52.40 Aligned_cols=58 Identities=16% Similarity=0.293 Sum_probs=45.1
Q ss_pred Cceeecccchhhhhhc--cccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCcccccccCCCCcccccc
Q psy8987 29 PHLLCVLCRGYFVEAT--SIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLNRQDPFLSLKY 105 (173)
Q Consensus 29 ~~l~C~iC~~~f~~p~--si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~~~~p~~slk~ 105 (173)
.+-.|++|..-+.+-. +-..|+|- ||+.||..|-+....||+|+..+.+.++.++..-
T Consensus 122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~-------------------FC~~Ci~sWsR~aqTCPiDR~EF~~v~V~eS~~~ 181 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLEESEKHTAHY-------------------FCEECVGSWSRCAQTCPVDRGEFGEVKVLESTGI 181 (1134)
T ss_pred hhhhhhHHHHHHHHHhhccccccccc-------------------cHHHHhhhhhhhcccCchhhhhhheeeeeccccc
Confidence 3556888887776643 22479999 9999999999999999999998887776665443
No 59
>KOG1571|consensus
Probab=89.88 E-value=0.15 Score=46.84 Aligned_cols=46 Identities=28% Similarity=0.651 Sum_probs=34.1
Q ss_pred ccCCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCcccccc
Q psy8987 26 DVNPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQL 94 (173)
Q Consensus 26 ~vn~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l 94 (173)
+.....+|++|..-.++++- ++|||. -| |+.-+..-.. ||+|+..+
T Consensus 301 ~~~~p~lcVVcl~e~~~~~f-vpcGh~-------------------cc--ct~cs~~l~~-CPvCR~rI 346 (355)
T KOG1571|consen 301 ELPQPDLCVVCLDEPKSAVF-VPCGHV-------------------CC--CTLCSKHLPQ-CPVCRQRI 346 (355)
T ss_pred ccCCCCceEEecCCccceee-ecCCcE-------------------EE--chHHHhhCCC-CchhHHHH
Confidence 44556899999999999774 699999 55 6655543333 99998654
No 60
>KOG0827|consensus
Probab=88.98 E-value=0.22 Score=46.94 Aligned_cols=51 Identities=25% Similarity=0.567 Sum_probs=36.9
Q ss_pred eeecccchhhhh---hccccccCCccccccccchhhhhccccccchHHhHHHhhcC--C-CCCCcccccccCCCCc
Q psy8987 31 LLCVLCRGYFVE---ATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKT--S-RYCPICDVQLNRQDPF 100 (173)
Q Consensus 31 l~C~iC~~~f~~---p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~--s-~~CP~C~~~l~~~~p~ 100 (173)
..|.||-+.+-. --+|-.|||. |--.|+..|..+ + +.||+|+.++....-+
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhi-------------------fh~~cl~qwfe~~Ps~R~cpic~ik~~~r~~~ 61 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHI-------------------FHTTCLTQWFEGDPSNRGCPICQIKLQERHVA 61 (465)
T ss_pred ceeeEeccCCccccccccccchhhH-------------------HHHHHHHHHHccCCccCCCCceeecccceeee
Confidence 579999665421 1134359999 999999999987 3 7899999777654433
No 61
>KOG1734|consensus
Probab=88.57 E-value=0.16 Score=46.03 Aligned_cols=55 Identities=20% Similarity=0.460 Sum_probs=40.2
Q ss_pred CCceeecccchhhhhh---------ccccccCCccccccccchhhhhccccccchHHhHHHhhc--CCCCCCcccccccC
Q psy8987 28 NPHLLCVLCRGYFVEA---------TSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIK--TSRYCPICDVQLNR 96 (173)
Q Consensus 28 n~~l~C~iC~~~f~~p---------~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~--~s~~CP~C~~~l~~ 96 (173)
+++-.|.+|.+-+-.. +-.+.|.|+ |-..||..|-- .+..||-|+..+.-
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHv-------------------FHEfCIrGWcivGKkqtCPYCKekVdl 282 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHV-------------------FHEFCIRGWCIVGKKQTCPYCKEKVDL 282 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeeecccc-------------------hHHHhhhhheeecCCCCCchHHHHhhH
Confidence 4457899998766433 334689999 88999999843 36789999988775
Q ss_pred CCCcc
Q psy8987 97 QDPFL 101 (173)
Q Consensus 97 ~~p~~ 101 (173)
+..+.
T Consensus 283 ~rmfs 287 (328)
T KOG1734|consen 283 KRMFS 287 (328)
T ss_pred hhhcc
Confidence 54433
No 62
>KOG1785|consensus
Probab=88.31 E-value=0.08 Score=50.34 Aligned_cols=49 Identities=27% Similarity=0.758 Sum_probs=39.7
Q ss_pred eeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcC--CCCCCcccccccCCCC
Q psy8987 31 LLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKT--SRYCPICDVQLNRQDP 99 (173)
Q Consensus 31 l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~--s~~CP~C~~~l~~~~p 99 (173)
-+|-||-+-=+| +-|-.|||- .|.+|+..|... +..||-|+..+....+
T Consensus 370 eLCKICaendKd-vkIEPCGHL-------------------lCt~CLa~WQ~sd~gq~CPFCRcEIKGte~ 420 (563)
T KOG1785|consen 370 ELCKICAENDKD-VKIEPCGHL-------------------LCTSCLAAWQDSDEGQTCPFCRCEIKGTEP 420 (563)
T ss_pred HHHHHhhccCCC-cccccccch-------------------HHHHHHHhhcccCCCCCCCceeeEeccccc
Confidence 478999987666 467799999 999999999854 5889999988765443
No 63
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=88.27 E-value=0.076 Score=37.48 Aligned_cols=47 Identities=23% Similarity=0.583 Sum_probs=21.7
Q ss_pred ceeecccchhhhh--hcccccc-----CCccccccccchhhhhccccccchHHhHHHhhcC---C--------CCCCccc
Q psy8987 30 HLLCVLCRGYFVE--ATSIVEC-----LHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKT---S--------RYCPICD 91 (173)
Q Consensus 30 ~l~C~iC~~~f~~--p~si~~C-----~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~---s--------~~CP~C~ 91 (173)
++.|.||..++.+ .+..+-| +.. |=..|+.+|+.+ + ..||.|+
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~-------------------fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~ 62 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKK-------------------FHLLCLSEWFLSLEKSRQSFIPIFGECPYCS 62 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT-----------------------B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCH-------------------HHHHHHHHHHHHcccCCeeecccccCCcCCC
Confidence 4689999998762 2223344 444 667999999764 2 2599999
Q ss_pred cccc
Q psy8987 92 VQLN 95 (173)
Q Consensus 92 ~~l~ 95 (173)
.++.
T Consensus 63 ~~i~ 66 (70)
T PF11793_consen 63 SPIS 66 (70)
T ss_dssp SEEE
T ss_pred Ceee
Confidence 8765
No 64
>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=88.06 E-value=0.3 Score=32.47 Aligned_cols=20 Identities=35% Similarity=0.961 Sum_probs=17.0
Q ss_pred chHHhHHHhhcCC--CCCCccc
Q psy8987 72 VCKSCIVKYIKTS--RYCPICD 91 (173)
Q Consensus 72 fCksCI~k~i~~s--~~CP~C~ 91 (173)
+=.+|+.+|+..+ ..||+|+
T Consensus 28 vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 28 VHQECLERWINESGNKTCEICK 49 (49)
T ss_pred HHHHHHHHHHHHcCCCcCCCCC
Confidence 7789999999764 5899995
No 65
>KOG1645|consensus
Probab=87.89 E-value=0.3 Score=46.19 Aligned_cols=73 Identities=22% Similarity=0.462 Sum_probs=47.3
Q ss_pred ceeecccchhhhhhc----cccccCCccccccccchhhhhccccccchHHhHHHhhcC--CCCCCcccccccCCCCcccc
Q psy8987 30 HLLCVLCRGYFVEAT----SIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKT--SRYCPICDVQLNRQDPFLSL 103 (173)
Q Consensus 30 ~l~C~iC~~~f~~p~----si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~--s~~CP~C~~~l~~~~p~~sl 103 (173)
-.+||||.+-..-|. .+..|+|- |=.+||.+|+.. ...||.|+-.-.+.+.++-.
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghl-------------------Fgs~cie~wl~k~~~~~cp~c~~katkr~i~~e~ 64 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHL-------------------FGSQCIEKWLGKKTKMQCPLCSGKATKRQIRPEY 64 (463)
T ss_pred cccCceeeeeeeecCceEEeeeccccc-------------------ccHHHHHHHHhhhhhhhCcccCChhHHHHHHHHH
Confidence 358999998877664 45689999 999999999853 36799998655444332222
Q ss_pred cccchhcccCCCCchHHHHHH
Q psy8987 104 KYSYIAFASDDYDNDTRIYEQ 124 (173)
Q Consensus 104 k~~~~a~~s~~y~~d~~~qe~ 124 (173)
++. ....+-++..+++++
T Consensus 65 alR---~qa~dt~~~~rle~q 82 (463)
T KOG1645|consen 65 ALR---VQAMDTENEQRLEEQ 82 (463)
T ss_pred HHH---HHHHhhhHHHHHHHH
Confidence 222 223444444555554
No 66
>KOG4739|consensus
Probab=86.84 E-value=0.97 Score=39.47 Aligned_cols=53 Identities=21% Similarity=0.504 Sum_probs=33.4
Q ss_pred eeecccchhh-hhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCcccccccCCCCccccc
Q psy8987 31 LLCVLCRGYF-VEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLNRQDPFLSLK 104 (173)
Q Consensus 31 l~C~iC~~~f-~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~~~~p~~slk 104 (173)
..|.-|...= .+|--++.|.|. ||..|...-. ...||+|+..+.-.....|+.
T Consensus 4 VhCn~C~~~~~~~~f~LTaC~Hv-------------------fC~~C~k~~~--~~~C~lCkk~ir~i~l~~slp 57 (233)
T KOG4739|consen 4 VHCNKCFRFPSQDPFFLTACRHV-------------------FCEPCLKASS--PDVCPLCKKSIRIIQLNRSLP 57 (233)
T ss_pred EEeccccccCCCCceeeeechhh-------------------hhhhhcccCC--ccccccccceeeeeecccccc
Confidence 3455554211 456678899999 9999953321 238999998765443444433
No 67
>KOG1493|consensus
Probab=86.47 E-value=0.18 Score=38.21 Aligned_cols=23 Identities=30% Similarity=0.829 Sum_probs=19.0
Q ss_pred chHHhHHHhhcCC---CCCCcccccc
Q psy8987 72 VCKSCIVKYIKTS---RYCPICDVQL 94 (173)
Q Consensus 72 fCksCI~k~i~~s---~~CP~C~~~l 94 (173)
|=.-||.+|+.++ ..||.||...
T Consensus 55 fh~hCI~~wl~~~tsq~~CPmcRq~~ 80 (84)
T KOG1493|consen 55 FHAHCILKWLNTPTSQGQCPMCRQTW 80 (84)
T ss_pred HHHHHHHHHhcCccccccCCcchhee
Confidence 8889999999874 6799998643
No 68
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=86.34 E-value=0.25 Score=44.37 Aligned_cols=50 Identities=24% Similarity=0.654 Sum_probs=35.9
Q ss_pred CCceeecccchh-hhhhcc----ccccCCccccccccchhhhhccccccchHHhHHHhhcC-CCCCC--cccccccC
Q psy8987 28 NPHLLCVLCRGY-FVEATS----IVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKT-SRYCP--ICDVQLNR 96 (173)
Q Consensus 28 n~~l~C~iC~~~-f~~p~s----i~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~-s~~CP--~C~~~l~~ 96 (173)
+.+-.||+|..- +.+|-. -.+|.|. .|.||.-+-+.+ ...|| .|++-|.+
T Consensus 8 ~~d~~CPvCksDrYLnPdik~linPECyHr-------------------mCESCvdRIFs~GpAqCP~~gC~kILRK 65 (314)
T COG5220 8 MEDRRCPVCKSDRYLNPDIKILINPECYHR-------------------MCESCVDRIFSRGPAQCPYKGCGKILRK 65 (314)
T ss_pred hhcccCCccccccccCCCeEEEECHHHHHH-------------------HHHHHHHHHhcCCCCCCCCccHHHHHHH
Confidence 345689999842 333421 1279999 999999998776 57899 99987753
No 69
>KOG0828|consensus
Probab=85.60 E-value=0.38 Score=46.75 Aligned_cols=64 Identities=22% Similarity=0.537 Sum_probs=44.4
Q ss_pred cCCceeecccchhhhhhccccccCCcccccc--ccchhhhhccccccchHHhHHHhhcC-CCCCCccccccc
Q psy8987 27 VNPHLLCVLCRGYFVEATSIVECLHSCDFVS--YFSHFCKLLFGFVSVCKSCIVKYIKT-SRYCPICDVQLN 95 (173)
Q Consensus 27 vn~~l~C~iC~~~f~~p~si~~C~Hs~~~~~--~~~~~~~~~~~~~~fCksCI~k~i~~-s~~CP~C~~~l~ 95 (173)
++...-|+||+.-.---.+..+|.|.-++++ |.--=|.- -|-..|+.+|..+ +-.||.|+..+.
T Consensus 568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~H-----ifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHH-----IFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred hhccccceEeccccceeeccCcchhhhhhhhccccccchHH-----HHHHHHHHHHHhhhcccCCccCCCCC
Confidence 4445679999975433334457777767666 55444432 2778999999996 559999998764
No 70
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=85.50 E-value=0.46 Score=49.45 Aligned_cols=50 Identities=20% Similarity=0.635 Sum_probs=37.4
Q ss_pred ccCCceeecccchhhh--h---hc-cccccCCccccccccchhhhhccccccchHHhHHHhhcCC--CCCCcccccc
Q psy8987 26 DVNPHLLCVLCRGYFV--E---AT-SIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTS--RYCPICDVQL 94 (173)
Q Consensus 26 ~vn~~l~C~iC~~~f~--~---p~-si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s--~~CP~C~~~l 94 (173)
.+..+-.|+||-.++. | |- +-..|.|- |-.+|+.||.+++ ..||.||..+
T Consensus 1465 ~fsG~eECaICYsvL~~vdr~lPskrC~TCknK-------------------FH~~CLyKWf~Ss~~s~CPlCRsei 1522 (1525)
T COG5219 1465 KFSGHEECAICYSVLDMVDRSLPSKRCATCKNK-------------------FHTRCLYKWFASSARSNCPLCRSEI 1522 (1525)
T ss_pred hcCCcchhhHHHHHHHHHhccCCccccchhhhh-------------------hhHHHHHHHHHhcCCCCCCcccccc
Confidence 3567788999988765 2 21 12257788 9999999999985 6799999654
No 71
>PHA03096 p28-like protein; Provisional
Probab=83.57 E-value=0.7 Score=40.91 Aligned_cols=43 Identities=19% Similarity=0.254 Sum_probs=31.4
Q ss_pred eeecccchhhhhhc-------cccccCCccccccccchhhhhccccccchHHhHHHhhcCC---CCCCcccc
Q psy8987 31 LLCVLCRGYFVEAT-------SIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTS---RYCPICDV 92 (173)
Q Consensus 31 l~C~iC~~~f~~p~-------si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s---~~CP~C~~ 92 (173)
-.|.||.+...+-. .+.+|-|. ||..||..|..++ ..||.|+.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~-------------------fc~~ci~~wr~~~~~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHE-------------------FNIFCIKIWMTESLYKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcH-------------------HHHHHHHHHHHhhhhcccCccccc
Confidence 67999998765421 34589999 9999999998763 44555543
No 72
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=83.29 E-value=0.53 Score=32.75 Aligned_cols=24 Identities=33% Similarity=0.872 Sum_probs=20.4
Q ss_pred chHHhHHHhhcCCCCCCccccccc
Q psy8987 72 VCKSCIVKYIKTSRYCPICDVQLN 95 (173)
Q Consensus 72 fCksCI~k~i~~s~~CP~C~~~l~ 95 (173)
.|-.|+..-+..+..||+|+.++.
T Consensus 23 LCl~CLt~ml~~s~~C~iC~~~LP 46 (50)
T PF03854_consen 23 LCLNCLTLMLSRSDRCPICGKPLP 46 (50)
T ss_dssp EEHHHHHHT-SSSSEETTTTEE--
T ss_pred HHHHHHHHHhccccCCCcccCcCc
Confidence 999999999999999999999875
No 73
>KOG2930|consensus
Probab=81.44 E-value=0.82 Score=36.33 Aligned_cols=22 Identities=27% Similarity=0.682 Sum_probs=19.7
Q ss_pred chHHhHHHhhcCCCCCCccccc
Q psy8987 72 VCKSCIVKYIKTSRYCPICDVQ 93 (173)
Q Consensus 72 fCksCI~k~i~~s~~CP~C~~~ 93 (173)
|=--||.+|+++...||.|...
T Consensus 85 FH~hCisrWlktr~vCPLdn~e 106 (114)
T KOG2930|consen 85 FHFHCISRWLKTRNVCPLDNKE 106 (114)
T ss_pred HHHHHHHHHHhhcCcCCCcCcc
Confidence 8888999999999999999653
No 74
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=81.05 E-value=0.91 Score=34.69 Aligned_cols=26 Identities=19% Similarity=0.459 Sum_probs=22.2
Q ss_pred chHHhHHHhhcCCCCCCcccccccCC
Q psy8987 72 VCKSCIVKYIKTSRYCPICDVQLNRQ 97 (173)
Q Consensus 72 fCksCI~k~i~~s~~CP~C~~~l~~~ 97 (173)
|=--||.+|+++...||.++....-+
T Consensus 58 FH~HCI~rWL~Tk~~CPld~q~w~~~ 83 (88)
T COG5194 58 FHDHCIYRWLDTKGVCPLDRQTWVLA 83 (88)
T ss_pred HHHHHHHHHHhhCCCCCCCCceeEEe
Confidence 88899999999999999998765433
No 75
>KOG4275|consensus
Probab=81.02 E-value=0.25 Score=45.17 Aligned_cols=43 Identities=28% Similarity=0.642 Sum_probs=33.2
Q ss_pred ceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCccccccc
Q psy8987 30 HLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLN 95 (173)
Q Consensus 30 ~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~ 95 (173)
.-+|.||.+.-+|-+- ++|||. --|-.|-.+ -..||+||..+-
T Consensus 300 ~~LC~ICmDaP~DCvf-LeCGHm------------------VtCt~CGkr----m~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVF-LECGHM------------------VTCTKCGKR----MNECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCcceEE-eecCcE------------------Eeehhhccc----cccCchHHHHHH
Confidence 6789999999999874 699999 147777432 348999997654
No 76
>KOG4185|consensus
Probab=80.95 E-value=0.99 Score=38.15 Aligned_cols=45 Identities=24% Similarity=0.744 Sum_probs=35.6
Q ss_pred eeecccchhhhhh-----ccccccCCccccccccchhhhhccccccchHHhHHHhhcCC-CCCCcccccc
Q psy8987 31 LLCVLCRGYFVEA-----TSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTS-RYCPICDVQL 94 (173)
Q Consensus 31 l~C~iC~~~f~~p-----~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s-~~CP~C~~~l 94 (173)
+.|.+|..-|..- ..++.|||+ +|..|+.+.+..+ -.||-|+.+.
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~-------------------~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHT-------------------ICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccccCce-------------------ehHhHHHHHhcCceeeccCCCCcc
Confidence 5688888777542 135679999 9999999998875 6799999885
No 77
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=78.10 E-value=1.7 Score=35.69 Aligned_cols=48 Identities=23% Similarity=0.544 Sum_probs=38.4
Q ss_pred Cceeecccchhhhhhcc---ccccCCccccccccchhhhhccccccchHHhHHHhhcCC---CCCCccccccc
Q psy8987 29 PHLLCVLCRGYFVEATS---IVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTS---RYCPICDVQLN 95 (173)
Q Consensus 29 ~~l~C~iC~~~f~~p~s---i~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s---~~CP~C~~~l~ 95 (173)
+--.|-||++...|+.- -..||-+ .|..|-+.-|+.. ..||.|+..+.
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~-------------------iCn~Cya~LWK~~~~ypvCPvCkTSFK 132 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYS-------------------ICNACYANLWKFCNLYPVCPVCKTSFK 132 (140)
T ss_pred CceeccCcccccchhhcCCcccccchH-------------------HHHHHHHHHHHHcccCCCCCccccccc
Confidence 66789999988766432 2379999 9999999999974 78999987664
No 78
>KOG3039|consensus
Probab=78.10 E-value=1.3 Score=39.86 Aligned_cols=43 Identities=19% Similarity=0.165 Sum_probs=36.1
Q ss_pred hhhhccCCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCC
Q psy8987 22 LLVRDVNPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTS 84 (173)
Q Consensus 22 ~~v~~vn~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s 84 (173)
+.-..+.+--.|.+|..-+.+|+ ++.=||- ||+.||..||-..
T Consensus 35 LgrDsiK~FdcCsLtLqPc~dPv-it~~Gyl-------------------fdrEaILe~ilaq 77 (303)
T KOG3039|consen 35 LGRDSIKPFDCCSLTLQPCRDPV-ITPDGYL-------------------FDREAILEYILAQ 77 (303)
T ss_pred hcccccCCcceeeeecccccCCc-cCCCCee-------------------eeHHHHHHHHHHH
Confidence 44456788889999999999998 5677888 9999999998764
No 79
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=76.84 E-value=2.2 Score=29.09 Aligned_cols=42 Identities=26% Similarity=0.660 Sum_probs=21.2
Q ss_pred ecccchhhhhhc----cccccCCccccccccchhhhhccccccchHHhHHHhhc-CCCCCCcccccc
Q psy8987 33 CVLCRGYFVEAT----SIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIK-TSRYCPICDVQL 94 (173)
Q Consensus 33 C~iC~~~f~~p~----si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~-~s~~CP~C~~~l 94 (173)
|++|.+-+ +.+ ..=+|++. .|+.|-.+-.+ ....||-|+.+.
T Consensus 1 cp~C~e~~-d~~d~~~~PC~Cgf~-------------------IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEEL-DETDKDFYPCECGFQ-------------------ICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B---CCCTT--SSTTS-----------------------HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCccccc-ccCCCccccCcCCCc-------------------HHHHHHHHHHhccCCCCCCCCCCC
Confidence 67787776 322 12378888 99999988886 478999998753
No 80
>KOG3002|consensus
Probab=75.25 E-value=1.6 Score=38.94 Aligned_cols=45 Identities=29% Similarity=0.592 Sum_probs=36.6
Q ss_pred cCCceeecccchhhhhhcccccc--CCccccccccchhhhhccccccchHHhHHHhhcCCCCCCccccccc
Q psy8987 27 VNPHLLCVLCRGYFVEATSIVEC--LHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLN 95 (173)
Q Consensus 27 vn~~l~C~iC~~~f~~p~si~~C--~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~ 95 (173)
.-+-|.||+|.+++.-|+- .| ||- .|.+|-. +-+..||.|+..++
T Consensus 45 ~~~lleCPvC~~~l~~Pi~--QC~nGHl-------------------aCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 45 DLDLLDCPVCFNPLSPPIF--QCDNGHL-------------------ACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred chhhccCchhhccCcccce--ecCCCcE-------------------ehhhhhh---hhcccCCccccccc
Confidence 4556889999999999974 67 688 9999975 34678999998876
No 81
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=75.18 E-value=0.92 Score=30.31 Aligned_cols=22 Identities=23% Similarity=0.214 Sum_probs=17.0
Q ss_pred eeecccchhhhhhccccccCCc
Q psy8987 31 LLCVLCRGYFVEATSIVECLHS 52 (173)
Q Consensus 31 l~C~iC~~~f~~p~si~~C~Hs 52 (173)
|.||+...-+..|+....|.|.
T Consensus 3 L~CPls~~~i~~P~Rg~~C~H~ 24 (50)
T PF02891_consen 3 LRCPLSFQRIRIPVRGKNCKHL 24 (50)
T ss_dssp SB-TTTSSB-SSEEEETT--SS
T ss_pred eeCCCCCCEEEeCccCCcCccc
Confidence 7899999999999999999999
No 82
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=74.47 E-value=0.65 Score=26.94 Aligned_cols=22 Identities=23% Similarity=0.798 Sum_probs=12.7
Q ss_pred chHHhHHHhhcCCCCCCccccc
Q psy8987 72 VCKSCIVKYIKTSRYCPICDVQ 93 (173)
Q Consensus 72 fCksCI~k~i~~s~~CP~C~~~ 93 (173)
||..|-.+.-...+.||.|+.+
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~~ 22 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGTP 22 (23)
T ss_pred CCcccCCCCCCcCcchhhhCCc
Confidence 3555555555556667777654
No 83
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=72.94 E-value=0.78 Score=26.89 Aligned_cols=23 Identities=26% Similarity=0.833 Sum_probs=14.2
Q ss_pred chHHhHHHhhcCCCCCCcccccc
Q psy8987 72 VCKSCIVKYIKTSRYCPICDVQL 94 (173)
Q Consensus 72 fCksCI~k~i~~s~~CP~C~~~l 94 (173)
+|..|-..--...++||.|+.+|
T Consensus 4 ~Cp~Cg~~~~~~~~fC~~CG~~L 26 (26)
T PF13248_consen 4 FCPNCGAEIDPDAKFCPNCGAKL 26 (26)
T ss_pred CCcccCCcCCcccccChhhCCCC
Confidence 56666554444567788887654
No 84
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=71.28 E-value=3.2 Score=39.27 Aligned_cols=47 Identities=23% Similarity=0.723 Sum_probs=37.2
Q ss_pred CCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHh--hcCCCCCCcccccc
Q psy8987 28 NPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKY--IKTSRYCPICDVQL 94 (173)
Q Consensus 28 n~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~--i~~s~~CP~C~~~l 94 (173)
.+...|.||-+-..-. ..++|+|. -|.-|-++- +-..+.||+|+..-
T Consensus 59 Een~~C~ICA~~~TYs-~~~PC~H~-------------------~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 59 EENMNCQICAGSTTYS-ARYPCGHQ-------------------ICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred cccceeEEecCCceEE-EeccCCch-------------------HHHHHHHHHHHHHhccCCCcccccc
Confidence 5568999999866543 45799999 999999864 55689999998644
No 85
>PHA02862 5L protein; Provisional
Probab=70.23 E-value=2.9 Score=34.86 Aligned_cols=49 Identities=22% Similarity=0.476 Sum_probs=34.0
Q ss_pred eeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCC--CCCCccccccc
Q psy8987 31 LLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTS--RYCPICDVQLN 95 (173)
Q Consensus 31 l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s--~~CP~C~~~l~ 95 (173)
-.|-||++-=.+.. -.|.-+ -+...+-++|+.+|++.+ .+||.|+.+.+
T Consensus 3 diCWIC~~~~~e~~--~PC~C~--------------GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 3 DICWICNDVCDERN--NFCGCN--------------EEYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred CEEEEecCcCCCCc--cccccc--------------CcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 36899998644443 345433 222336789999999875 78999998775
No 86
>KOG3161|consensus
Probab=69.64 E-value=2.4 Score=42.66 Aligned_cols=39 Identities=36% Similarity=0.848 Sum_probs=30.0
Q ss_pred CCceeecccchhhh----hhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCC
Q psy8987 28 NPHLLCVLCRGYFV----EATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCP 88 (173)
Q Consensus 28 n~~l~C~iC~~~f~----~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP 88 (173)
..-|+|.||...|. +|++. .|||+ .|+.|..+-.. ..||
T Consensus 9 ~~~l~c~ic~n~f~~~~~~Pvsl-~cght-------------------ic~~c~~~lyn--~scp 51 (861)
T KOG3161|consen 9 VLLLLCDICLNLFVVQRLEPVSL-QCGHT-------------------ICGHCVQLLYN--ASCP 51 (861)
T ss_pred HHHhhchHHHHHHHHHhcCcccc-cccch-------------------HHHHHHHhHhh--ccCC
Confidence 44589999976665 48875 99999 99999987654 4455
No 87
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=69.03 E-value=4.2 Score=34.03 Aligned_cols=52 Identities=25% Similarity=0.454 Sum_probs=35.2
Q ss_pred CCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCC--CCCCccccccc
Q psy8987 28 NPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTS--RYCPICDVQLN 95 (173)
Q Consensus 28 n~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s--~~CP~C~~~l~ 95 (173)
+..-.|-||++--. +. .-.|.-+ -+...+=++|+.+|+..+ ..||+|+.+.+
T Consensus 6 ~~~~~CRIC~~~~~-~~-~~PC~Ck--------------Gs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 6 LMDKCCWICKDEYD-VV-TNYCNCK--------------NENKIVHKECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred CCCCeeEecCCCCC-Cc-cCCcccC--------------CCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence 56678999987632 22 2244433 122236789999999985 68999998775
No 88
>KOG2114|consensus
Probab=68.78 E-value=3.4 Score=42.28 Aligned_cols=40 Identities=25% Similarity=0.483 Sum_probs=36.1
Q ss_pred eeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCcccc
Q psy8987 31 LLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDV 92 (173)
Q Consensus 31 l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~ 92 (173)
-.|..|.+.+--|+.-..|||+ |-..|.. .....||.|..
T Consensus 841 skCs~C~~~LdlP~VhF~CgHs-------------------yHqhC~e---~~~~~CP~C~~ 880 (933)
T KOG2114|consen 841 SKCSACEGTLDLPFVHFLCGHS-------------------YHQHCLE---DKEDKCPKCLP 880 (933)
T ss_pred eeecccCCccccceeeeecccH-------------------HHHHhhc---cCcccCCccch
Confidence 6899999999999999999999 9999987 55688999976
No 89
>KOG1814|consensus
Probab=65.67 E-value=6.9 Score=37.26 Aligned_cols=47 Identities=28% Similarity=0.589 Sum_probs=36.0
Q ss_pred cCCceeecccchhhhh--hccccccCCccccccccchhhhhccccccchHHhHHHhhcC--------CCCCCcccc
Q psy8987 27 VNPHLLCVLCRGYFVE--ATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKT--------SRYCPICDV 92 (173)
Q Consensus 27 vn~~l~C~iC~~~f~~--p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~--------s~~CP~C~~ 92 (173)
++....|.||.+...- -+-.++|.|. ||++|...|... .-.||.++-
T Consensus 181 ~~slf~C~ICf~e~~G~~c~~~lpC~Hv-------------------~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 181 VNSLFDCCICFEEQMGQHCFKFLPCSHV-------------------FCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred HhhcccceeeehhhcCcceeeecccchH-------------------HHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 5667899999987664 2345699999 999999999653 256887764
No 90
>KOG1815|consensus
Probab=65.36 E-value=3.5 Score=37.74 Aligned_cols=38 Identities=21% Similarity=0.516 Sum_probs=31.7
Q ss_pred CCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCC
Q psy8987 28 NPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTS 84 (173)
Q Consensus 28 n~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s 84 (173)
.....|.+|.+-....+....|+|. ||..|...|++++
T Consensus 68 ~~~~~c~ic~~~~~~~~~~~~c~H~-------------------~c~~cw~~yl~~k 105 (444)
T KOG1815|consen 68 KGDVQCGICVESYDGEIIGLGCGHP-------------------FCPPCWTGYLGTK 105 (444)
T ss_pred CccccCCcccCCCcchhhhcCCCcH-------------------HHHHHHHHHhhhe
Confidence 4458899999988754556799999 9999999999874
No 91
>KOG4362|consensus
Probab=65.30 E-value=1.5 Score=43.42 Aligned_cols=53 Identities=21% Similarity=0.558 Sum_probs=42.0
Q ss_pred hhccCCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhc---CCCCCCcccccccC
Q psy8987 24 VRDVNPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIK---TSRYCPICDVQLNR 96 (173)
Q Consensus 24 v~~vn~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~---~s~~CP~C~~~l~~ 96 (173)
+..+...+.|+||..-.++|++ +.|.|. ||+.|+.+-+. +...||+|+..+.+
T Consensus 15 i~~~~k~lEc~ic~~~~~~p~~-~kc~~~-------------------~l~~~~n~~f~~~~~~~~~~lc~~~~eK 70 (684)
T KOG4362|consen 15 INAMQKILECPICLEHVKEPSL-LKCDHI-------------------FLKFCLNKLFESKKGPKQCALCKSDIEK 70 (684)
T ss_pred HHHHhhhccCCceeEEeeccch-hhhhHH-------------------HHhhhhhceeeccCccccchhhhhhhhh
Confidence 4456778999999999999965 699999 99999876433 35789999976654
No 92
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=64.70 E-value=0.83 Score=33.44 Aligned_cols=41 Identities=29% Similarity=0.643 Sum_probs=22.3
Q ss_pred ceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCccccccc
Q psy8987 30 HLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLN 95 (173)
Q Consensus 30 ~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~ 95 (173)
++.||.|...+ ++.. +|. .|..|-..|.+ ...||.|+.+|.
T Consensus 1 e~~CP~C~~~L-~~~~----~~~-------------------~C~~C~~~~~~-~a~CPdC~~~Le 41 (70)
T PF07191_consen 1 ENTCPKCQQEL-EWQG----GHY-------------------HCEACQKDYKK-EAFCPDCGQPLE 41 (70)
T ss_dssp --B-SSS-SBE-EEET----TEE-------------------EETTT--EEEE-EEE-TTT-SB-E
T ss_pred CCcCCCCCCcc-EEeC----CEE-------------------ECcccccccee-cccCCCcccHHH
Confidence 46899999863 3433 666 89999876543 457999988775
No 93
>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=63.33 E-value=5.2 Score=26.02 Aligned_cols=19 Identities=32% Similarity=0.912 Sum_probs=13.4
Q ss_pred chHHhHHHhhcCCC--CCCcc
Q psy8987 72 VCKSCIVKYIKTSR--YCPIC 90 (173)
Q Consensus 72 fCksCI~k~i~~s~--~CP~C 90 (173)
+=..|+.+|+.+.. .||.|
T Consensus 23 ~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 23 LHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp E-HHHHHHHTTT-SS-B-TTT
T ss_pred HHHHHHHHHHhcCCCCCCcCC
Confidence 56689999999854 69987
No 94
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=62.31 E-value=6.2 Score=41.14 Aligned_cols=56 Identities=21% Similarity=0.534 Sum_probs=36.7
Q ss_pred hhhccCCceeecccchhhh-----hh-ccccccCCccccccccchhhhhccccccchHHhHHHhhc-CCCCCCccccccc
Q psy8987 23 LVRDVNPHLLCVLCRGYFV-----EA-TSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIK-TSRYCPICDVQLN 95 (173)
Q Consensus 23 ~v~~vn~~l~C~iC~~~f~-----~p-~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~-~s~~CP~C~~~l~ 95 (173)
.++.++.+ .|.||.+-.- || |.--+|+-- +|+.|-.-=.+ .+..||+|+....
T Consensus 11 ~~~~~~~q-iCqICGD~vg~~~~Ge~FVAC~eC~FP-------------------VCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 11 PMKHGGGQ-VCQICGDNVGKTVDGEPFVACDVCAFP-------------------VCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CccccCCc-eeeecccccCcCCCCCEEEEeccCCCc-------------------cccchhhhhhhcCCccCCccCCchh
Confidence 36677776 8999987521 11 112367666 99999843233 3789999998776
Q ss_pred CCC
Q psy8987 96 RQD 98 (173)
Q Consensus 96 ~~~ 98 (173)
+..
T Consensus 71 r~k 73 (1079)
T PLN02638 71 RHK 73 (1079)
T ss_pred hhc
Confidence 544
No 95
>PLN02400 cellulose synthase
Probab=62.21 E-value=5.7 Score=41.41 Aligned_cols=56 Identities=23% Similarity=0.627 Sum_probs=36.3
Q ss_pred hhhccCCceeecccchhhh-----hhc-cccccCCccccccccchhhhhccccccchHHhHHHhhcC-CCCCCccccccc
Q psy8987 23 LVRDVNPHLLCVLCRGYFV-----EAT-SIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKT-SRYCPICDVQLN 95 (173)
Q Consensus 23 ~v~~vn~~l~C~iC~~~f~-----~p~-si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~-s~~CP~C~~~l~ 95 (173)
.+++++.+ .|.||.+-.- ||- .--+|+-- +|+.|-.-=.+. +..||+|+....
T Consensus 30 p~~~~~gq-iCqICGD~VG~t~dGe~FVAC~eCaFP-------------------VCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 30 PLKNLNGQ-ICQICGDDVGVTETGDVFVACNECAFP-------------------VCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CccccCCc-eeeecccccCcCCCCCEEEEEccCCCc-------------------cccchhheecccCCccCcccCCccc
Confidence 46777776 8999987421 111 11256555 999998432333 789999998776
Q ss_pred CCC
Q psy8987 96 RQD 98 (173)
Q Consensus 96 ~~~ 98 (173)
+..
T Consensus 90 R~K 92 (1085)
T PLN02400 90 RHK 92 (1085)
T ss_pred ccc
Confidence 543
No 96
>KOG1940|consensus
Probab=60.96 E-value=6.1 Score=35.28 Aligned_cols=47 Identities=23% Similarity=0.652 Sum_probs=36.1
Q ss_pred Cceeecccchhhhh---hccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCccccccc
Q psy8987 29 PHLLCVLCRGYFVE---ATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLN 95 (173)
Q Consensus 29 ~~l~C~iC~~~f~~---p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~ 95 (173)
.+..||+|.+++.+ ++....|+|. -=..|...++.+...||+|.. ++
T Consensus 157 ~~~ncPic~e~l~~s~~~~~~~~CgH~-------------------~h~~cf~e~~~~~y~CP~C~~-~~ 206 (276)
T KOG1940|consen 157 SEFNCPICKEYLFLSFEDAGVLKCGHY-------------------MHSRCFEEMICEGYTCPICSK-PG 206 (276)
T ss_pred ccCCCchhHHHhccccccCCccCcccc-------------------hHHHHHHHHhccCCCCCcccc-hH
Confidence 34559999988653 3445699999 446888999988888999987 54
No 97
>PLN02436 cellulose synthase A
Probab=59.14 E-value=7.9 Score=40.47 Aligned_cols=56 Identities=23% Similarity=0.580 Sum_probs=36.5
Q ss_pred hhhccCCceeecccchhhh-----hhc-cccccCCccccccccchhhhhccccccchHHhHHHhhcC-CCCCCccccccc
Q psy8987 23 LVRDVNPHLLCVLCRGYFV-----EAT-SIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKT-SRYCPICDVQLN 95 (173)
Q Consensus 23 ~v~~vn~~l~C~iC~~~f~-----~p~-si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~-s~~CP~C~~~l~ 95 (173)
.++.++.+ .|.||.+-.- ||- .--+|+-- +|+.|-.-=.++ +..||.|+....
T Consensus 30 ~~~~~~~~-iCqICGD~Vg~t~dGe~FVACn~C~fp-------------------vCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 30 SVQELSGQ-TCQICGDEIELTVDGEPFVACNECAFP-------------------VCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CccccCCc-cccccccccCcCCCCCEEEeeccCCCc-------------------cccchhhhhhhcCCccCcccCCchh
Confidence 46666665 8999987531 111 11256666 999998433333 689999998776
Q ss_pred CCC
Q psy8987 96 RQD 98 (173)
Q Consensus 96 ~~~ 98 (173)
+..
T Consensus 90 r~k 92 (1094)
T PLN02436 90 RIK 92 (1094)
T ss_pred hcc
Confidence 544
No 98
>KOG2932|consensus
Probab=57.80 E-value=4.9 Score=37.38 Aligned_cols=52 Identities=23% Similarity=0.621 Sum_probs=35.9
Q ss_pred hhccCC-ceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCcccccccC
Q psy8987 24 VRDVNP-HLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLNR 96 (173)
Q Consensus 24 v~~vn~-~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~~ 96 (173)
-+++++ --.|.-|.--+..=-..+.|.|. ||-.|-... ..+.||.|+..+.+
T Consensus 83 ek~l~p~VHfCd~Cd~PI~IYGRmIPCkHv-------------------FCl~CAr~~--~dK~Cp~C~d~Vqr 135 (389)
T KOG2932|consen 83 EKQLGPRVHFCDRCDFPIAIYGRMIPCKHV-------------------FCLECARSD--SDKICPLCDDRVQR 135 (389)
T ss_pred ccccCcceEeecccCCcceeeecccccchh-------------------hhhhhhhcC--ccccCcCcccHHHH
Confidence 345677 45678887544333355699999 999996433 25789999876654
No 99
>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=57.66 E-value=5.1 Score=32.51 Aligned_cols=39 Identities=13% Similarity=0.254 Sum_probs=29.8
Q ss_pred ceeecccchhhhh--hccccccCCccccccccchhhhhccccccchHHhHHHhh
Q psy8987 30 HLLCVLCRGYFVE--ATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYI 81 (173)
Q Consensus 30 ~l~C~iC~~~f~~--p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i 81 (173)
...|.||.+-..+ -+..+.|+-.-++ -+.||.+|+.+|-
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnL-------------Ekmfc~~C~~rw~ 66 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNL-------------EKMFCADCDKRWR 66 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehH-------------HHHHHHHHHHHHH
Confidence 7889999998887 6666778776332 2339999999993
No 100
>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=53.41 E-value=3.8 Score=28.90 Aligned_cols=27 Identities=15% Similarity=0.329 Sum_probs=21.2
Q ss_pred ccCCceeecccchhhhh-hccccccCCc
Q psy8987 26 DVNPHLLCVLCRGYFVE-ATSIVECLHS 52 (173)
Q Consensus 26 ~vn~~l~C~iC~~~f~~-p~si~~C~Hs 52 (173)
.+.+.-.|++|..-+.+ +....+|||.
T Consensus 74 ~i~~~~~C~vC~k~l~~~~f~~~p~~~v 101 (109)
T PF10367_consen 74 VITESTKCSVCGKPLGNSVFVVFPCGHV 101 (109)
T ss_pred EECCCCCccCcCCcCCCceEEEeCCCeE
Confidence 45778889999988875 5566688988
No 101
>KOG1812|consensus
Probab=48.40 E-value=8.9 Score=35.03 Aligned_cols=36 Identities=33% Similarity=0.623 Sum_probs=26.9
Q ss_pred Cceeecccchhhhhh---ccccccCCccccccccchhhhhccccccchHHhHHHhhcC
Q psy8987 29 PHLLCVLCRGYFVEA---TSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKT 83 (173)
Q Consensus 29 ~~l~C~iC~~~f~~p---~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~ 83 (173)
+...|.||.+-..++ -+...|+|. ||+.|..+|+..
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~-------------------fC~~C~k~~iev 183 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHR-------------------FCKDCVKQHIEV 183 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccch-------------------hhhHHhHHHhhh
Confidence 467899999333333 123579999 999999999885
No 102
>PLN02189 cellulose synthase
Probab=48.39 E-value=13 Score=38.66 Aligned_cols=55 Identities=22% Similarity=0.602 Sum_probs=36.2
Q ss_pred hhccCCceeecccchhhh-----hhc-cccccCCccccccccchhhhhccccccchHHhHHHhhcC-CCCCCcccccccC
Q psy8987 24 VRDVNPHLLCVLCRGYFV-----EAT-SIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKT-SRYCPICDVQLNR 96 (173)
Q Consensus 24 v~~vn~~l~C~iC~~~f~-----~p~-si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~-s~~CP~C~~~l~~ 96 (173)
++.++.+ .|.||.+-.- +|- .--+|+-- +|+.|-.-=.++ +..||.|+....+
T Consensus 29 ~~~~~~~-~C~iCgd~vg~~~~g~~fvaC~~C~fp-------------------vCr~Cyeyer~eg~q~CpqCkt~Y~r 88 (1040)
T PLN02189 29 LRNLDGQ-VCEICGDEIGLTVDGDLFVACNECGFP-------------------VCRPCYEYERREGTQNCPQCKTRYKR 88 (1040)
T ss_pred cccccCc-cccccccccCcCCCCCEEEeeccCCCc-------------------cccchhhhhhhcCCccCcccCCchhh
Confidence 5666665 8999997532 121 11256666 999998433333 6899999987775
Q ss_pred CC
Q psy8987 97 QD 98 (173)
Q Consensus 97 ~~ 98 (173)
..
T Consensus 89 ~k 90 (1040)
T PLN02189 89 LK 90 (1040)
T ss_pred cc
Confidence 44
No 103
>KOG1941|consensus
Probab=46.94 E-value=7.9 Score=37.14 Aligned_cols=45 Identities=24% Similarity=0.565 Sum_probs=36.1
Q ss_pred Cceeecccchhhhh---hccccccCCccccccccchhhhhccccccchHHhHHHhhcC--CCCCCcccc
Q psy8987 29 PHLLCVLCRGYFVE---ATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKT--SRYCPICDV 92 (173)
Q Consensus 29 ~~l~C~iC~~~f~~---p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~--s~~CP~C~~ 92 (173)
-.|.|..|.+.+-. -...++|.|. |-..|...++.. .++||.|++
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALpCsHI-------------------fH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALPCSHI-------------------FHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccchhHH-------------------HHHHHHHHHHHhCCCCCCccHHH
Confidence 46899999987642 3345699999 999999999875 589999984
No 104
>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=45.83 E-value=5.4 Score=23.87 Aligned_cols=22 Identities=23% Similarity=0.872 Sum_probs=11.4
Q ss_pred hHHhHHHhhcCCCCCCcccccc
Q psy8987 73 CKSCIVKYIKTSRYCPICDVQL 94 (173)
Q Consensus 73 CksCI~k~i~~s~~CP~C~~~l 94 (173)
|..|-.......+.||.|+..+
T Consensus 3 CP~C~~~V~~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 3 CPECGAEVPESAKFCPHCGYDF 24 (26)
T ss_pred CCCCcCCchhhcCcCCCCCCCC
Confidence 3344444444456677776544
No 105
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=43.82 E-value=15 Score=24.13 Aligned_cols=21 Identities=24% Similarity=0.591 Sum_probs=13.9
Q ss_pred chHHhHHHhhcC--CCCCCcccc
Q psy8987 72 VCKSCIVKYIKT--SRYCPICDV 92 (173)
Q Consensus 72 fCksCI~k~i~~--s~~CP~C~~ 92 (173)
.+.-|....... .-.||+|..
T Consensus 17 L~~H~~~~H~~~~~~v~CPiC~~ 39 (54)
T PF05605_consen 17 LVEHCEDEHRSESKNVVCPICSS 39 (54)
T ss_pred HHHHHHhHCcCCCCCccCCCchh
Confidence 455566666554 457999975
No 106
>KOG1100|consensus
Probab=43.50 E-value=7.9 Score=32.72 Aligned_cols=40 Identities=30% Similarity=0.732 Sum_probs=29.8
Q ss_pred ecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCccccccc
Q psy8987 33 CVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLN 95 (173)
Q Consensus 33 C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~ 95 (173)
|..|+.-=.. +.+.+|-|-| .|..|-.. .+.||+|+....
T Consensus 161 Cr~C~~~~~~-VlllPCrHl~------------------lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGEREAT-VLLLPCRHLC------------------LCGICDES----LRICPICRSPKT 200 (207)
T ss_pred ceecCcCCce-EEeecccceE------------------eccccccc----CccCCCCcChhh
Confidence 9999875444 5667999873 89999654 355999987665
No 107
>PRK11595 DNA utilization protein GntX; Provisional
Probab=43.33 E-value=16 Score=30.24 Aligned_cols=23 Identities=22% Similarity=0.667 Sum_probs=13.5
Q ss_pred chHHhHHHhhcCCCCCCcccccc
Q psy8987 72 VCKSCIVKYIKTSRYCPICDVQL 94 (173)
Q Consensus 72 fCksCI~k~i~~s~~CP~C~~~l 94 (173)
.|..|..++-.....||.|+..+
T Consensus 22 lC~~C~~~l~~~~~~C~~Cg~~~ 44 (227)
T PRK11595 22 ICSVCSRALRTLKTCCPQCGLPA 44 (227)
T ss_pred ccHHHHhhCCcccCcCccCCCcC
Confidence 57777665432234677777654
No 108
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=42.13 E-value=12 Score=26.98 Aligned_cols=20 Identities=30% Similarity=0.860 Sum_probs=16.0
Q ss_pred chHHhHHHhhcCCCCCCccccc
Q psy8987 72 VCKSCIVKYIKTSRYCPICDVQ 93 (173)
Q Consensus 72 fCksCI~k~i~~s~~CP~C~~~ 93 (173)
.|+.| +++.+...||+|+..
T Consensus 7 AC~~C--~~i~~~~~Cp~Cgs~ 26 (64)
T PRK06393 7 ACKKC--KRLTPEKTCPVHGDE 26 (64)
T ss_pred hHhhC--CcccCCCcCCCCCCC
Confidence 57888 677778899999874
No 109
>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=41.83 E-value=21 Score=25.48 Aligned_cols=24 Identities=29% Similarity=0.782 Sum_probs=19.5
Q ss_pred cchHHhHHHhhcCCCCCCcccccccC
Q psy8987 71 SVCKSCIVKYIKTSRYCPICDVQLNR 96 (173)
Q Consensus 71 ~fCksCI~k~i~~s~~CP~C~~~l~~ 96 (173)
|||..|....+ ...||-|+-.|.+
T Consensus 30 TFC~~C~e~~l--~~~CPNCgGelv~ 53 (57)
T PF06906_consen 30 TFCADCAETML--NGVCPNCGGELVR 53 (57)
T ss_pred cccHHHHHHHh--cCcCcCCCCcccc
Confidence 59999988776 5679999987764
No 110
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=41.54 E-value=16 Score=33.68 Aligned_cols=24 Identities=25% Similarity=0.742 Sum_probs=19.2
Q ss_pred chHHhHHHhhcC-------------CCCCCccccccc
Q psy8987 72 VCKSCIVKYIKT-------------SRYCPICDVQLN 95 (173)
Q Consensus 72 fCksCI~k~i~~-------------s~~CP~C~~~l~ 95 (173)
-|-+|+.||+.. +-.||.||+.+.
T Consensus 315 WC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 315 WCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred HHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence 588999999764 357999998765
No 111
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=40.91 E-value=16 Score=26.05 Aligned_cols=21 Identities=38% Similarity=1.094 Sum_probs=15.9
Q ss_pred chHHhHHHhhcCCCCCCcccccc
Q psy8987 72 VCKSCIVKYIKTSRYCPICDVQL 94 (173)
Q Consensus 72 fCksCI~k~i~~s~~CP~C~~~l 94 (173)
-|+.| +++.+...||.|+...
T Consensus 5 AC~~C--~~i~~~~~CP~Cgs~~ 25 (61)
T PRK08351 5 ACRHC--HYITTEDRCPVCGSRD 25 (61)
T ss_pred hhhhC--CcccCCCcCCCCcCCc
Confidence 57777 5666777899998744
No 112
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=36.99 E-value=9.5 Score=24.13 Aligned_cols=15 Identities=40% Similarity=1.066 Sum_probs=6.5
Q ss_pred CCCCcccccccCCCC
Q psy8987 85 RYCPICDVQLNRQDP 99 (173)
Q Consensus 85 ~~CP~C~~~l~~~~p 99 (173)
++||.|+.++....|
T Consensus 1 kfC~~CG~~l~~~ip 15 (34)
T PF14803_consen 1 KFCPQCGGPLERRIP 15 (34)
T ss_dssp -B-TTT--B-EEE--
T ss_pred CccccccChhhhhcC
Confidence 579999998876544
No 113
>PF12773 DZR: Double zinc ribbon
Probab=36.44 E-value=9.7 Score=24.30 Aligned_cols=24 Identities=21% Similarity=0.632 Sum_probs=14.2
Q ss_pred chHHhHHHhh---cCCCCCCccccccc
Q psy8987 72 VCKSCIVKYI---KTSRYCPICDVQLN 95 (173)
Q Consensus 72 fCksCI~k~i---~~s~~CP~C~~~l~ 95 (173)
||..|-.+-. .....||.|+..+.
T Consensus 14 fC~~CG~~l~~~~~~~~~C~~Cg~~~~ 40 (50)
T PF12773_consen 14 FCPHCGTPLPPPDQSKKICPNCGAENP 40 (50)
T ss_pred CChhhcCChhhccCCCCCCcCCcCCCc
Confidence 6666655544 22456777776544
No 114
>PF13228 DUF4037: Domain of unknown function (DUF4037)
Probab=35.73 E-value=85 Score=23.49 Aligned_cols=48 Identities=15% Similarity=-0.015 Sum_probs=34.2
Q ss_pred ccCCCCchHHHHHHHHHHHHHHHHHhhhhc------h-hhHHHhHHhhhhhhhhhh
Q psy8987 111 ASDDYDNDTRIYEQVLQIVLRIYLRKNVLR------G-TIHQLTRCFVRNVWWFYI 159 (173)
Q Consensus 111 ~s~~y~~d~~~qe~VykLvp~ly~re~~~r------g-~~~ql~~~~~~~~~~~~~ 159 (173)
..|..+.-+.+|+.+ +--|+..++..+.+ + ...|+.||+.|+-+..-.
T Consensus 18 f~D~~G~~~~~R~~l-~~YP~dl~~~~ia~~~~~~~qa~~~n~~ra~~R~D~~~~~ 72 (100)
T PF13228_consen 18 FYDPLGEFTALRERL-AYYPEDLRLNKIARNLMLLAQAGQYNLGRALKRGDILAAN 72 (100)
T ss_pred eECCCchHHHHHHHH-HHChHHHHHHHHHHHHHHhhhhhHHHHHHHHHCCCHHHHH
Confidence 445556667888888 88887777765433 2 467899999999876543
No 115
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=34.46 E-value=28 Score=37.29 Aligned_cols=51 Identities=27% Similarity=0.444 Sum_probs=32.0
Q ss_pred ceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcC---CCCCCccccccc
Q psy8987 30 HLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKT---SRYCPICDVQLN 95 (173)
Q Consensus 30 ~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~---s~~CP~C~~~l~ 95 (173)
...||-|...-... .-..||.. ...+.+|.+|-.+.-.. ...||.|+.++.
T Consensus 667 ~rkCPkCG~~t~~~-fCP~CGs~--------------te~vy~CPsCGaev~~des~a~~CP~CGtplv 720 (1337)
T PRK14714 667 RRRCPSCGTETYEN-RCPDCGTH--------------TEPVYVCPDCGAEVPPDESGRVECPRCDVELT 720 (1337)
T ss_pred EEECCCCCCccccc-cCcccCCc--------------CCCceeCccCCCccCCCccccccCCCCCCccc
Confidence 47899998754333 22357655 12345788887654332 457999988775
No 116
>PF06844 DUF1244: Protein of unknown function (DUF1244); InterPro: IPR009654 This family consists of several short bacterial proteins of around 100 residues in length. The function of this family is unknown.; PDB: 2O35_A 3FYB_B.
Probab=33.32 E-value=22 Score=26.19 Aligned_cols=56 Identities=16% Similarity=0.364 Sum_probs=27.3
Q ss_pred cccchHHhHHHhhcCCCCCCcccccccCCCCcccccccchhcccCCCCchHHHHHHHHHHHHHHHHHhhhhchhhHHHhH
Q psy8987 69 FVSVCKSCIVKYIKTSRYCPICDVQLNRQDPFLSLKYSYIAFASDDYDNDTRIYEQVLQIVLRIYLRKNVLRGTIHQLTR 148 (173)
Q Consensus 69 ~~~fCksCI~k~i~~s~~CP~C~~~l~~~~p~~slk~~~~a~~s~~y~~d~~~qe~VykLvp~ly~re~~~rg~~~ql~~ 148 (173)
.-.||+.|+.+|..... ... .+.. ..+..|+.||-|=-..-+.+-..--|-.|+.+
T Consensus 9 LAgFCRNCLskWy~~aA---------~~~----g~~~-----------~~d~ARE~vYGMPy~eWK~~~Q~~At~eQ~aa 64 (68)
T PF06844_consen 9 LAGFCRNCLSKWYREAA---------EER----GIEM-----------DKDEAREIVYGMPYDEWKAKHQTEATPEQLAA 64 (68)
T ss_dssp HHS--HHHHHHHHHHHH---------HHC----T---------------HHHHHHHHHSS-HHHHCHCH-----HHHHHH
T ss_pred HHHHHHHHHHHHHHHHH---------Hhc----CCcC-----------CHHHHHHHHhCCCHHHHHHHHCCCCCHHHHHH
Confidence 34599999999976421 000 0111 12567888888765555555566667777654
No 117
>PRK12496 hypothetical protein; Provisional
Probab=33.07 E-value=12 Score=30.28 Aligned_cols=28 Identities=36% Similarity=0.788 Sum_probs=20.1
Q ss_pred cchHHhHHHhhcC--CCCCCcccccccCCC
Q psy8987 71 SVCKSCIVKYIKT--SRYCPICDVQLNRQD 98 (173)
Q Consensus 71 ~fCksCI~k~i~~--s~~CP~C~~~l~~~~ 98 (173)
..|..|-..|-.. ...||+|+.++.+..
T Consensus 128 ~~C~gC~~~~~~~~~~~~C~~CG~~~~r~~ 157 (164)
T PRK12496 128 KVCKGCKKKYPEDYPDDVCEICGSPVKRKM 157 (164)
T ss_pred EECCCCCccccCCCCCCcCCCCCChhhhcc
Confidence 3588888666543 356999999987654
No 118
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=32.58 E-value=11 Score=26.35 Aligned_cols=29 Identities=24% Similarity=0.661 Sum_probs=20.4
Q ss_pred cccchHHhHHHhhcCCCCCCcccccccCCCC
Q psy8987 69 FVSVCKSCIVKYIKTSRYCPICDVQLNRQDP 99 (173)
Q Consensus 69 ~~~fCksCI~k~i~~s~~CP~C~~~l~~~~p 99 (173)
....|..|-+-.+ +..||.|+.++...+|
T Consensus 4 ~mr~C~~CgvYTL--k~~CP~CG~~t~~~~P 32 (56)
T PRK13130 4 KIRKCPKCGVYTL--KEICPVCGGKTKNPHP 32 (56)
T ss_pred cceECCCCCCEEc--cccCcCCCCCCCCCCC
Confidence 3456777765555 6789999988765554
No 119
>KOG0824|consensus
Probab=31.20 E-value=14 Score=34.03 Aligned_cols=51 Identities=25% Similarity=0.578 Sum_probs=43.0
Q ss_pred ccCCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCccccccc
Q psy8987 26 DVNPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLN 95 (173)
Q Consensus 26 ~vn~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~ 95 (173)
-.++|-.|-+|.|++.-|+.+-.|.|. ||.-|--.+....+.||.|+-..+
T Consensus 101 ~~~~~~~~~~~~g~l~vpt~~qg~w~q-------------------f~~~~p~~~~~~~~~~~d~~~~~~ 151 (324)
T KOG0824|consen 101 FQQDHDICYICYGKLTVPTRIQGCWHQ-------------------FCYVCPKSNFAMGNDCPDCRGKIS 151 (324)
T ss_pred ccCCccceeeeeeeEEecccccCceee-------------------eeecCCchhhhhhhccchhhcCcC
Confidence 357899999999999999998779999 888888888888888888865444
No 120
>PRK04023 DNA polymerase II large subunit; Validated
Probab=30.62 E-value=44 Score=35.28 Aligned_cols=25 Identities=20% Similarity=0.364 Sum_probs=16.2
Q ss_pred cccchHHhHHHhhcCCCCCCccccccc
Q psy8987 69 FVSVCKSCIVKYIKTSRYCPICDVQLN 95 (173)
Q Consensus 69 ~~~fCksCI~k~i~~s~~CP~C~~~l~ 95 (173)
...||..| ........||.|+..+.
T Consensus 650 ~i~fCP~C--G~~~~~y~CPKCG~El~ 674 (1121)
T PRK04023 650 PVYRCPRC--GIEVEEDECEKCGREPT 674 (1121)
T ss_pred cceeCccc--cCcCCCCcCCCCCCCCC
Confidence 34588888 33333456999987765
No 121
>KOG2113|consensus
Probab=29.75 E-value=35 Score=32.02 Aligned_cols=49 Identities=10% Similarity=-0.099 Sum_probs=38.2
Q ss_pred hccCCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCcccccc
Q psy8987 25 RDVNPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQL 94 (173)
Q Consensus 25 ~~vn~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l 94 (173)
..+-.++.|..|..-+...+ .+.|+|+ -||.+|-. ...+..||.|++..
T Consensus 338 ~~~~s~~~~~~~~~~~~st~-~~~~~~n------------------~~~~~~a~--~s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 338 NGLMSSLKGTSAGFGLLSTI-WSGGNMN------------------LSPGSLAS--ASASPTSSTCDHND 386 (394)
T ss_pred ccchhhcccccccCceeeeE-eecCCcc------------------cChhhhhh--cccCCccccccccc
Confidence 45667899999997666543 5699999 48999976 67789999998744
No 122
>KOG4718|consensus
Probab=29.66 E-value=32 Score=30.48 Aligned_cols=43 Identities=23% Similarity=0.592 Sum_probs=31.6
Q ss_pred eeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCcccc
Q psy8987 31 LLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDV 92 (173)
Q Consensus 31 l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~ 92 (173)
-.|.+|+.....-++--.|+=. +=.+|+.+|.+....||.|+-
T Consensus 182 k~Cn~Ch~LvIqg~rCg~c~i~-------------------~h~~c~qty~q~~~~cphc~d 224 (235)
T KOG4718|consen 182 KNCNLCHCLVIQGIRCGSCNIQ-------------------YHRGCIQTYLQRRDICPHCGD 224 (235)
T ss_pred HHHhHhHHHhheeeccCcccch-------------------hhhHHHHHHhcccCcCCchhc
Confidence 4799999987765433334333 457899999999889999953
No 123
>PLN02195 cellulose synthase A
Probab=29.65 E-value=33 Score=35.71 Aligned_cols=24 Identities=29% Similarity=0.692 Sum_probs=18.1
Q ss_pred chHHhHHHhhc-CCCCCCccccccc
Q psy8987 72 VCKSCIVKYIK-TSRYCPICDVQLN 95 (173)
Q Consensus 72 fCksCI~k~i~-~s~~CP~C~~~l~ 95 (173)
+|+.|-.-=.+ .+..||.|+....
T Consensus 35 vCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 35 LCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred cccchhhhhhhcCCccCCccCCccc
Confidence 99999843233 3789999998776
No 124
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=29.25 E-value=35 Score=32.49 Aligned_cols=48 Identities=19% Similarity=0.413 Sum_probs=29.7
Q ss_pred Cceeecccchhhhhh---ccccccCCccccccccchhhhhccccccchHHhHHHhhcC-CCCCCccccccc
Q psy8987 29 PHLLCVLCRGYFVEA---TSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKT-SRYCPICDVQLN 95 (173)
Q Consensus 29 ~~l~C~iC~~~f~~p---~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~-s~~CP~C~~~l~ 95 (173)
++..||+|.+-+-.. .---.||-. +|+-|--.--+. ...||-|+....
T Consensus 13 eed~cplcie~mditdknf~pc~cgy~-------------------ic~fc~~~irq~lngrcpacrr~y~ 64 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCPCGYQ-------------------ICQFCYNNIRQNLNGRCPACRRKYD 64 (480)
T ss_pred ccccCcccccccccccCCcccCCcccH-------------------HHHHHHHHHHhhccCCChHhhhhcc
Confidence 445599998743210 001257777 888886543333 578999997554
No 125
>TIGR03166 alt_F1F0_F1_eps alternate F1F0 ATPase, F1 subunit epsilon. A small number of taxonomically diverse prokaryotic species have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 epsilon subunit of this apparent second ATP synthase.
Probab=28.95 E-value=1.1e+02 Score=23.68 Aligned_cols=36 Identities=22% Similarity=0.255 Sum_probs=31.6
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhchhhHHHhHHhhhh
Q psy8987 118 DTRIYEQVLQIVLRIYLRKNVLRGTIHQLTRCFVRN 153 (173)
Q Consensus 118 d~~~qe~VykLvp~ly~re~~~rg~~~ql~~~~~~~ 153 (173)
-+.+++.+.+-+.+...+++..|-.+++|++.+.|+
T Consensus 86 Id~l~~~i~~~~~~~~~~~~~~r~~~~~l~~~~~r~ 121 (122)
T TIGR03166 86 LEELEEAVRQEFLTLDEQERSARSAMARLESDFIRR 121 (122)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 367777888888889999999999999999999987
No 126
>PF14319 Zn_Tnp_IS91: Transposase zinc-binding domain
Probab=28.60 E-value=25 Score=26.81 Aligned_cols=11 Identities=36% Similarity=1.014 Sum_probs=8.4
Q ss_pred CCCCCcccccc
Q psy8987 84 SRYCPICDVQL 94 (173)
Q Consensus 84 s~~CP~C~~~l 94 (173)
++.||.|+..-
T Consensus 60 ~R~CP~C~~~~ 70 (111)
T PF14319_consen 60 NRHCPSCQAKA 70 (111)
T ss_pred CcCCCCCCChH
Confidence 67899997643
No 127
>KOG3579|consensus
Probab=27.70 E-value=25 Score=32.54 Aligned_cols=48 Identities=29% Similarity=0.607 Sum_probs=34.6
Q ss_pred CCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCC-----CCCCccc
Q psy8987 28 NPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTS-----RYCPICD 91 (173)
Q Consensus 28 n~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s-----~~CP~C~ 91 (173)
+.-|.|.||.+-+-|-. -|.|--. .-|-||--|-...||.. -|||.=+
T Consensus 266 ~apLcCTLC~ERLEDTH-FVQCPSV---------------p~HKFCFPCSResIK~Qg~sgevYCPSGd 318 (352)
T KOG3579|consen 266 SAPLCCTLCHERLEDTH-FVQCPSV---------------PSHKFCFPCSRESIKQQGASGEVYCPSGD 318 (352)
T ss_pred CCceeehhhhhhhccCc-eeecCCC---------------cccceecccCHHHHHhhcCCCceeCCCCC
Confidence 34499999999988754 5678522 22339999999999973 5888543
No 128
>COG1439 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]
Probab=26.21 E-value=18 Score=30.60 Aligned_cols=38 Identities=24% Similarity=0.485 Sum_probs=27.2
Q ss_pred cchh-hhhccccccchHHhHHHhhcCCCCCCcccccccC
Q psy8987 59 FSHF-CKLLFGFVSVCKSCIVKYIKTSRYCPICDVQLNR 96 (173)
Q Consensus 59 ~~~~-~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~l~~ 96 (173)
..++ -+=-+..+-.|..|-..|-.....||+|+.++-+
T Consensus 127 ~~~~~I~~v~~w~~rC~GC~~~f~~~~~~Cp~CG~~~~~ 165 (177)
T COG1439 127 SYKGKIKKVRKWRLRCHGCKRIFPEPKDFCPICGSPLKR 165 (177)
T ss_pred eccCccceEeeeeEEEecCceecCCCCCcCCCCCCceEE
Confidence 3444 4445566678888887777667889999988653
No 129
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=25.55 E-value=47 Score=25.15 Aligned_cols=26 Identities=31% Similarity=0.788 Sum_probs=13.2
Q ss_pred chHHhHHHhhcC-CCCCCcccccccCC
Q psy8987 72 VCKSCIVKYIKT-SRYCPICDVQLNRQ 97 (173)
Q Consensus 72 fCksCI~k~i~~-s~~CP~C~~~l~~~ 97 (173)
+|+.|..-=.+. +..||.|+....+.
T Consensus 38 vCr~CyEYErkeg~q~CpqCkt~ykr~ 64 (80)
T PF14569_consen 38 VCRPCYEYERKEGNQVCPQCKTRYKRH 64 (80)
T ss_dssp --HHHHHHHHHTS-SB-TTT--B----
T ss_pred cchhHHHHHhhcCcccccccCCCcccc
Confidence 899998766665 68999999766543
No 130
>PF07503 zf-HYPF: HypF finger; InterPro: IPR011125 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. Proteins of the HypF family are involved in the maturation and regulation of hydrogenase []. In the N terminus they appear to have two zinc finger domains that are similar to those found in the DnaJ chaperone []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3TTD_A 3TSQ_A 3TTC_A 3TSP_A 3TTF_A 3TSU_A.
Probab=25.25 E-value=59 Score=20.64 Aligned_cols=24 Identities=25% Similarity=0.783 Sum_probs=13.9
Q ss_pred chHHhHHHhhcCC--------CCCCccccccc
Q psy8987 72 VCKSCIVKYIKTS--------RYCPICDVQLN 95 (173)
Q Consensus 72 fCksCI~k~i~~s--------~~CP~C~~~l~ 95 (173)
.|..|+..|.... ..|+.|+-++.
T Consensus 1 lC~~C~~Ey~~p~~RR~~~~~isC~~CGPr~~ 32 (35)
T PF07503_consen 1 LCDDCLKEYFDPSNRRFHYQFISCTNCGPRYS 32 (35)
T ss_dssp --HHHHHHHCSTTSTTTT-TT--BTTCC-SCC
T ss_pred CCHHHHHHHcCCCCCcccCcCccCCCCCCCEE
Confidence 3888888886532 46999986553
No 131
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=25.24 E-value=43 Score=26.43 Aligned_cols=43 Identities=26% Similarity=0.572 Sum_probs=32.3
Q ss_pred ceeecccchhhhhhcc-------------ccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCccc
Q psy8987 30 HLLCVLCRGYFVEATS-------------IVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICD 91 (173)
Q Consensus 30 ~l~C~iC~~~f~~p~s-------------i~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~ 91 (173)
...|..|..-|.++.. =..|.+. ||.+|-+-.-.+-..||.|.
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~-------------------FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNV-------------------FCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCc-------------------cccccchhhhhhccCCcCCC
Confidence 3569999999876521 2357777 99999877767778899995
No 132
>TIGR01405 polC_Gram_pos DNA polymerase III, alpha chain, Gram-positive type. The N-terminal region of about 200 amino acids is rich in low-complexity sequence, poorly alignable, and not included n this model.
Probab=25.15 E-value=53 Score=34.69 Aligned_cols=63 Identities=21% Similarity=0.404 Sum_probs=37.0
Q ss_pred CCCCCcccccccCCC---Cccc-ccccchhcccCCCCchHHHHHHHHHHHHHHHHHhhhhc-hhhHHH
Q psy8987 84 SRYCPICDVQLNRQD---PFLS-LKYSYIAFASDDYDNDTRIYEQVLQIVLRIYLRKNVLR-GTIHQL 146 (173)
Q Consensus 84 s~~CP~C~~~l~~~~---p~~s-lk~~~~a~~s~~y~~d~~~qe~VykLvp~ly~re~~~r-g~~~ql 146 (173)
.+.||.|+..+.+.. ||.- |-+++...-.-|.|-...-|+.|.+-+.+.|-++.|-| ||+.-+
T Consensus 708 ~k~cp~c~~~~~~dg~~L~FErFLn~er~~~PDIDldF~~~~r~~v~~Yv~~~yG~~~V~~i~T~~t~ 775 (1213)
T TIGR01405 708 DKDCPKCGAPLKKDGQDIPFETFLGFKGDKVPDIDLNFSGEYQAKAHNYVKELFGEDHTFRAGTIGTV 775 (1213)
T ss_pred cccCccccccccccCCCceeeeccCCCCCCCCCCcccCccccHHHHHHHHHHHhCcccEEEeehHHHH
Confidence 478999999886432 2221 22333333333444456778888888888887665543 444443
No 133
>cd08319 Death_RAIDD Death domain of RIP-associated ICH-1 homologous protein with a death domain. Death domain (DD) of RAIDD (RIP-associated ICH-1 homologous protein with a death domain), also known as CRADD (Caspase and RIP adaptor). RAIDD is an adaptor protein that together with the p53-inducible protein PIDD and caspase-2, forms the PIDDosome complex, which is required for caspase-2 activation and plays a role in mediating stress-induced apoptosis. RAIDD contains an N-terminal Caspase Activation and Recruitment Domain (CARD), which interacts with the caspase-2 CARD, and a C-terminal DD, which interacts with the DD of PIDD. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD, DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other pr
Probab=24.61 E-value=88 Score=22.96 Aligned_cols=31 Identities=13% Similarity=0.289 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHhhhhchhhHHHhHHhh
Q psy8987 120 RIYEQVLQIVLRIYLRKNVLRGTIHQLTRCFV 151 (173)
Q Consensus 120 ~~qe~VykLvp~ly~re~~~rg~~~ql~~~~~ 151 (173)
.+++|+++|+..+-.++. .+.|..+|..++-
T Consensus 40 ~l~eQv~~mL~~W~~r~G-~~ATv~~L~~aL~ 70 (83)
T cd08319 40 NVQSQIVEALVKWRQRFG-KKATVQSLIQSLK 70 (83)
T ss_pred CHHHHHHHHHHHHHHhcC-CCCcHHHHHHHHH
Confidence 378999999998888876 7889999988764
No 134
>PRK06228 F0F1 ATP synthase subunit epsilon; Validated
Probab=24.59 E-value=1.4e+02 Score=23.45 Aligned_cols=41 Identities=22% Similarity=0.238 Sum_probs=34.3
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhchhhHHHhHHhhhhhhhhh
Q psy8987 118 DTRIYEQVLQIVLRIYLRKNVLRGTIHQLTRCFVRNVWWFY 158 (173)
Q Consensus 118 d~~~qe~VykLvp~ly~re~~~rg~~~ql~~~~~~~~~~~~ 158 (173)
-+.+++.+-+.+...-.++...|...+-|++-+.|+.|-+.
T Consensus 89 id~~~~~l~~~~~~~~~~~~~~r~~~~~le~~~~~~~~~~~ 129 (131)
T PRK06228 89 LGELREAVEQEFLTLDERERSVRSALAKLESGFIRRFMELK 129 (131)
T ss_pred HHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHhc
Confidence 35677777777888888888999999999999999999653
No 135
>KOG2817|consensus
Probab=23.83 E-value=60 Score=30.71 Aligned_cols=46 Identities=20% Similarity=0.465 Sum_probs=36.0
Q ss_pred cCCceeecccchhhhh---hccccccCCccccccccchhhhhccccccchHHhHHHhhcCC---CCCCcccc
Q psy8987 27 VNPHLLCVLCRGYFVE---ATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTS---RYCPICDV 92 (173)
Q Consensus 27 vn~~l~C~iC~~~f~~---p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s---~~CP~C~~ 92 (173)
..+-..|||=++--.+ |+. ..|||. -|+.=+-+-.+.. ..||-|-.
T Consensus 331 fHSvF~CPVlKeqtsdeNPPm~-L~CGHV-------------------ISkdAlnrLS~ng~~sfKCPYCP~ 382 (394)
T KOG2817|consen 331 FHSVFICPVLKEQTSDENPPMM-LICGHV-------------------ISKDALNRLSKNGSQSFKCPYCPV 382 (394)
T ss_pred ccceeecccchhhccCCCCCee-eeccce-------------------ecHHHHHHHhhCCCeeeeCCCCCc
Confidence 4566799998877664 554 599999 9999999988774 57998854
No 136
>KOG3899|consensus
Probab=23.78 E-value=45 Score=31.11 Aligned_cols=30 Identities=23% Similarity=0.502 Sum_probs=22.0
Q ss_pred cccccchHHhHHHhhc-------------CCCCCCcccccccC
Q psy8987 67 FGFVSVCKSCIVKYIK-------------TSRYCPICDVQLNR 96 (173)
Q Consensus 67 ~~~~~fCksCI~k~i~-------------~s~~CP~C~~~l~~ 96 (173)
+-+---|++|+.+|.. .+..||.|++.+.-
T Consensus 324 ~crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci 366 (381)
T KOG3899|consen 324 ICRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI 366 (381)
T ss_pred ccccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence 3444579999998754 35689999987763
No 137
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=23.66 E-value=46 Score=34.97 Aligned_cols=50 Identities=22% Similarity=0.505 Sum_probs=32.2
Q ss_pred Cceeecccchhhh-----hhc-cccccCCccccccccchhhhhccccccchHHhHHHhhcC-CCCCCcccccccCC
Q psy8987 29 PHLLCVLCRGYFV-----EAT-SIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKT-SRYCPICDVQLNRQ 97 (173)
Q Consensus 29 ~~l~C~iC~~~f~-----~p~-si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~-s~~CP~C~~~l~~~ 97 (173)
+.-.|.||.+-.- ||- .--+|+-- +|+.|-.-=.++ +..||.|+....+.
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fp-------------------vCr~cyeye~~~g~~~cp~c~t~y~~~ 70 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFP-------------------VCKPCYEYERSEGNQCCPQCNTRYKRH 70 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCc-------------------cccchhhhhhhcCCccCCccCCchhhh
Confidence 4467999987421 111 11366666 999998433333 68999999877643
No 138
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=23.07 E-value=29 Score=22.88 Aligned_cols=11 Identities=36% Similarity=1.132 Sum_probs=5.8
Q ss_pred CCCcccccccC
Q psy8987 86 YCPICDVQLNR 96 (173)
Q Consensus 86 ~CP~C~~~l~~ 96 (173)
.||+|+..+..
T Consensus 22 ~CPlC~r~l~~ 32 (54)
T PF04423_consen 22 CCPLCGRPLDE 32 (54)
T ss_dssp E-TTT--EE-H
T ss_pred cCCCCCCCCCH
Confidence 89999987763
No 139
>KOG3993|consensus
Probab=21.92 E-value=11 Score=36.32 Aligned_cols=57 Identities=26% Similarity=0.526 Sum_probs=36.4
Q ss_pred ccCCccchhhhhccCCceeecccchhhhhhccccccCCccccccccchhhhhccccccchHHhHHHhhcCCCCCCccccc
Q psy8987 14 RPTSRSDKLLVRDVNPHLLCVLCRGYFVEATSIVECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTSRYCPICDVQ 93 (173)
Q Consensus 14 ~~~sr~~~~~v~~vn~~l~C~iC~~~f~~p~si~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s~~CP~C~~~ 93 (173)
.+.+|.....+..+-.+..|.+|+..+-||-.+ =-|. | +|||.- ...||.|+++
T Consensus 251 teesr~~l~~i~n~iGdyiCqLCK~kYeD~F~L--AQHr--------------------C-~RIV~v---EYrCPEC~KV 304 (500)
T KOG3993|consen 251 TEESRAKLAGIPNVIGDYICQLCKEKYEDAFAL--AQHR--------------------C-PRIVHV---EYRCPECDKV 304 (500)
T ss_pred cchhhhhhccCcccHHHHHHHHHHHhhhhHHHH--hhcc--------------------C-CeeEEe---eecCCccccc
Confidence 333343334455566678899999888888754 3455 3 244432 3469999999
Q ss_pred ccC
Q psy8987 94 LNR 96 (173)
Q Consensus 94 l~~ 96 (173)
++-
T Consensus 305 FsC 307 (500)
T KOG3993|consen 305 FSC 307 (500)
T ss_pred ccC
Confidence 873
No 140
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=21.84 E-value=47 Score=23.82 Aligned_cols=21 Identities=29% Similarity=0.653 Sum_probs=13.5
Q ss_pred CCCCCccccccc-----CCCCccccc
Q psy8987 84 SRYCPICDVQLN-----RQDPFLSLK 104 (173)
Q Consensus 84 s~~CP~C~~~l~-----~~~p~~slk 104 (173)
...||+|++++. .-.||=|-+
T Consensus 6 ~v~CP~C~k~~~w~~~~~~rPFCS~R 31 (62)
T PRK00418 6 TVNCPTCGKPVEWGEISPFRPFCSKR 31 (62)
T ss_pred cccCCCCCCcccccCCCCcCCcccHH
Confidence 357999999862 333555544
No 141
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=21.73 E-value=46 Score=25.74 Aligned_cols=30 Identities=27% Similarity=0.657 Sum_probs=22.3
Q ss_pred ccccchHHhHHHhhcCC---CCCCcccccccCC
Q psy8987 68 GFVSVCKSCIVKYIKTS---RYCPICDVQLNRQ 97 (173)
Q Consensus 68 ~~~~fCksCI~k~i~~s---~~CP~C~~~l~~~ 97 (173)
|--+.|.+|-.||..-+ -.||.|+......
T Consensus 7 GtKR~Cp~CG~kFYDLnk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 7 GTKRTCPSCGAKFYDLNKDPIVCPKCGTEFPPE 39 (108)
T ss_pred CCcccCCCCcchhccCCCCCccCCCCCCccCcc
Confidence 44568999999986653 4699999876543
No 142
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=21.49 E-value=13 Score=39.17 Aligned_cols=76 Identities=22% Similarity=0.388 Sum_probs=43.5
Q ss_pred chHHhHHHhhcCCCCCCcccccccCCCCccccc-ccchhcccC----CCCchHHHHHHHHHHHHHHH-HHhhhhchhhHH
Q psy8987 72 VCKSCIVKYIKTSRYCPICDVQLNRQDPFLSLK-YSYIAFASD----DYDNDTRIYEQVLQIVLRIY-LRKNVLRGTIHQ 145 (173)
Q Consensus 72 fCksCI~k~i~~s~~CP~C~~~l~~~~p~~slk-~~~~a~~s~----~y~~d~~~qe~VykLvp~ly-~re~~~rg~~~q 145 (173)
-|..|-.++...+..||.|+...- .+-..+++ +..+|...| .-|+|++=..+-+.+...+. -.-++.|.++|.
T Consensus 696 rC~dcg~q~~~~~~~cP~Cgs~~v-~d~~~~ve~lRelA~EvDeVlIgTDPDtEGEKIawDv~~~l~Py~~nikR~eFHE 774 (1187)
T COG1110 696 RCRDCGEQFVDSEDKCPRCGSRNV-EDKTETVEALRELALEVDEILIGTDPDTEGEKIAWDVFNYLRPYNPNVKRIEFHE 774 (1187)
T ss_pred HHhhcCceeccccccCCCCCCccc-cccHHHHHHHHHHHhhcCEEEEcCCCCCccchhHHHHHHhhCcCCCceeEEEeee
Confidence 589998888888889999987332 22222222 222222111 23455555555555443221 245788888888
Q ss_pred HhH
Q psy8987 146 LTR 148 (173)
Q Consensus 146 l~~ 148 (173)
.||
T Consensus 775 VTr 777 (1187)
T COG1110 775 VTR 777 (1187)
T ss_pred ecH
Confidence 876
No 143
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=21.36 E-value=28 Score=30.86 Aligned_cols=27 Identities=19% Similarity=0.513 Sum_probs=20.2
Q ss_pred cccccchHHhHHHhhcCCCCCCccccc
Q psy8987 67 FGFVSVCKSCIVKYIKTSRYCPICDVQ 93 (173)
Q Consensus 67 ~~~~~fCksCI~k~i~~s~~CP~C~~~ 93 (173)
.....+|..|...+=+-...||+|+..
T Consensus 252 v~~GyvCs~Clsi~C~~p~~C~~Cgt~ 278 (279)
T TIGR00627 252 VSIGFVCSVCLSVLCQYTPICKTCKTA 278 (279)
T ss_pred ccceEECCCccCCcCCCCCCCCCCCCC
Confidence 333458888888887777889999764
No 144
>cd08313 Death_TNFR1 Death domain of Tumor Necrosis Factor Receptor 1. Death Domain (DD) found in tumor necrosis factor receptor-1 (TNFR-1). TNFR-1 has many names including TNFRSF1A, CD120a, p55, p60, and TNFR60. It activates two major intracellular signaling pathways that lead to the activation of the transcription factor NF-kB and the induction of cell death. Upon binding of its ligand TNF, TNFR-1 trimerizes which leads to the recruitment of an adaptor protein named TNFR-associated death domain protein (TRADD) through a DD/DD interaction. Mutations in the TNFRSF1A gene causes TNFR-associated periodic syndrome (TRAPS), a rare disorder characterized recurrent fever, myalgia, abdominal pain, conjunctivitis and skin eruptions. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation a
Probab=21.25 E-value=1.1e+02 Score=22.45 Aligned_cols=31 Identities=16% Similarity=0.091 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHHhhhhchhhHHHhHHh
Q psy8987 120 RIYEQVLQIVLRIYLRKNVLRGTIHQLTRCF 150 (173)
Q Consensus 120 ~~qe~VykLvp~ly~re~~~rg~~~ql~~~~ 150 (173)
.++|++|+|+..|+.++....++.+-|-.++
T Consensus 37 ~~~Eq~yqmL~~W~~~~g~~~At~~~L~~aL 67 (80)
T cd08313 37 RCRDAQYQMLKVWKERGPRPYATLQHLLSVL 67 (80)
T ss_pred ChHHHHHHHHHHHHHhcCCCcchHHHHHHHH
Confidence 6889999999999998877677777776654
No 145
>KOG0314|consensus
Probab=21.05 E-value=39 Score=32.28 Aligned_cols=52 Identities=27% Similarity=0.579 Sum_probs=38.2
Q ss_pred hhhhccCCceeeccc-chhhhhhccc-cccCCccccccccchhhhhccccccchHHhHHHhhcCC--CCCCcccc
Q psy8987 22 LLVRDVNPHLLCVLC-RGYFVEATSI-VECLHSCDFVSYFSHFCKLLFGFVSVCKSCIVKYIKTS--RYCPICDV 92 (173)
Q Consensus 22 ~~v~~vn~~l~C~iC-~~~f~~p~si-~~C~Hs~~~~~~~~~~~~~~~~~~~fCksCI~k~i~~s--~~CP~C~~ 92 (173)
..+-.+++.+.|++| .+.|.++..+ -+|+-+ +|..||.+.+-.. ..|+.|.+
T Consensus 211 ~~v~~~~e~~~c~~~~~~~~~~~~l~~~~~~~~-------------------~~~~~i~~~l~~~~~~~c~~~~~ 266 (448)
T KOG0314|consen 211 RTVGELPEGLQCPLCGKEVMLDAALLSKCCLKS-------------------FCDKCIRDALISKSMCVCGASNV 266 (448)
T ss_pred HHhccCCccccCceecchhhHHHHHhhhhhccc-------------------CCccccccccccccCCcchhhcc
Confidence 445567899999999 9999998766 456677 9999998876643 33444443
No 146
>cd08784 Death_DRs Death Domain of Death Receptors. Death domain (DD) found in death receptor proteins. Death receptors are members of the tumor necrosis factor (TNF) receptor superfamily, characterized by having a cytoplasmic DD. Known members of the family are Fas (CD95/APO-1), TNF-receptor 1 (TNFR1/TNFRSF1A/p55/CD120a), TNF-related apoptosis-inducing ligand receptor 1 (TRAIL-R1 /DR4), and receptor 2 (TRAIL-R2/DR5/APO-2/KILLER), as well as Death Receptor 3 (DR3/APO-3/TRAMP/WSL-1/LARD). They are involved in apoptosis signaling pathways. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=21.00 E-value=90 Score=22.18 Aligned_cols=30 Identities=10% Similarity=0.197 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHhhhhchhhHHHhHHhh
Q psy8987 121 IYEQVLQIVLRIYLRKNVLRGTIHQLTRCFV 151 (173)
Q Consensus 121 ~qe~VykLvp~ly~re~~~rg~~~ql~~~~~ 151 (173)
.++++++|+..+..++.. .+|++-|-.++.
T Consensus 38 ~~eq~~~mL~~W~~k~G~-~At~~~L~~aL~ 67 (79)
T cd08784 38 HRDRVYELLRIWRNKEGR-KATLNTLIKALK 67 (79)
T ss_pred hHHHHHHHHHHHHhccCc-CcHHHHHHHHHH
Confidence 789999999999988877 889888887764
No 147
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=20.75 E-value=75 Score=34.29 Aligned_cols=63 Identities=21% Similarity=0.381 Sum_probs=36.3
Q ss_pred CCCCCcccccccCCC---Cccc-ccccchhcccCCCCchHHHHHHHHHHHHHHHHHhhhhc-hhhHHH
Q psy8987 84 SRYCPICDVQLNRQD---PFLS-LKYSYIAFASDDYDNDTRIYEQVLQIVLRIYLRKNVLR-GTIHQL 146 (173)
Q Consensus 84 s~~CP~C~~~l~~~~---p~~s-lk~~~~a~~s~~y~~d~~~qe~VykLvp~ly~re~~~r-g~~~ql 146 (173)
.+.||.|+..+.+.. ||.- |-+++...-.-|.|-...-|+.+.+-+.+.|-++.+.| ||+.-+
T Consensus 933 dk~Cp~Cg~~~~kdg~~l~FErFL~~~r~~~PDIDldF~~~~r~~v~~Yv~~~yG~~~v~~~~T~~T~ 1000 (1437)
T PRK00448 933 DKDCPKCGTKLKKDGHDIPFETFLGFKGDKVPDIDLNFSGEYQPVAHNYTKVLFGEDHVFRAGTIGTV 1000 (1437)
T ss_pred cccCccccccccccCCCceeeeccCCCCCCCCCCcccCccccHHHHHHHHHHHhCcccEEEEeehhhh
Confidence 478999999986432 2221 22333222223344445678888888888886665533 454433
No 148
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=20.60 E-value=1e+02 Score=21.22 Aligned_cols=20 Identities=35% Similarity=0.742 Sum_probs=12.6
Q ss_pred chHHhHHHhhcCCCCCCccc
Q psy8987 72 VCKSCIVKYIKTSRYCPICD 91 (173)
Q Consensus 72 fCksCI~k~i~~s~~CP~C~ 91 (173)
||..|=+=--.+-..||-|.
T Consensus 31 FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 31 FCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp B-HHHHHTTTTTS-SSSTT-
T ss_pred cccCcChhhhccccCCcCCC
Confidence 89999765455567899884
No 149
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=20.36 E-value=34 Score=33.67 Aligned_cols=26 Identities=19% Similarity=0.491 Sum_probs=19.5
Q ss_pred cchHHhHHHhhcCCCCCCcccccccC
Q psy8987 71 SVCKSCIVKYIKTSRYCPICDVQLNR 96 (173)
Q Consensus 71 ~fCksCI~k~i~~s~~CP~C~~~l~~ 96 (173)
..|..|-..--...+.||.|+..++.
T Consensus 28 ~~Cp~CG~~~~~~~~fC~~CG~~~~~ 53 (645)
T PRK14559 28 KPCPQCGTEVPVDEAHCPNCGAETGT 53 (645)
T ss_pred CcCCCCCCCCCcccccccccCCcccc
Confidence 36777876666667899999988764
No 150
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=20.27 E-value=24 Score=28.27 Aligned_cols=25 Identities=24% Similarity=0.680 Sum_probs=15.8
Q ss_pred chHHhHHHhh-----cCCCCCCcccccccC
Q psy8987 72 VCKSCIVKYI-----KTSRYCPICDVQLNR 96 (173)
Q Consensus 72 fCksCI~k~i-----~~s~~CP~C~~~l~~ 96 (173)
+|..|-.+|- .....||.|+.+|..
T Consensus 111 ~Cp~c~~r~tf~eA~~~~F~Cp~Cg~~L~~ 140 (158)
T TIGR00373 111 ICPNMCVRFTFNEAMELNFTCPRCGAMLDY 140 (158)
T ss_pred ECCCCCcEeeHHHHHHcCCcCCCCCCEeee
Confidence 4555554442 235789999988763
Done!