Query psy4226
Match_columns 183
No_of_seqs 224 out of 1644
Neff 8.4
Searched_HMMs 46136
Date Fri Aug 16 20:04:00 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4226.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4226hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628|consensus 100.0 1.2E-28 2.5E-33 201.7 11.8 158 1-181 130-288 (348)
2 PF13639 zf-RING_2: Ring finge 99.7 1E-18 2.2E-23 103.6 1.4 44 124-167 1-44 (44)
3 PHA02929 N1R/p28-like protein; 99.6 2E-15 4.4E-20 119.0 3.7 75 98-172 149-228 (238)
4 COG5243 HRD1 HRD ubiquitin lig 99.5 5.9E-15 1.3E-19 120.7 5.6 60 120-179 284-354 (491)
5 PF12678 zf-rbx1: RING-H2 zinc 99.5 4.8E-15 1E-19 97.0 3.4 45 123-167 19-73 (73)
6 COG5540 RING-finger-containing 99.5 1.7E-14 3.6E-19 115.2 2.9 50 123-172 323-373 (374)
7 KOG0317|consensus 99.4 5.8E-14 1.2E-18 111.7 2.6 51 121-174 237-287 (293)
8 PF13920 zf-C3HC4_3: Zinc fing 99.3 5E-13 1.1E-17 81.1 2.1 47 123-172 2-49 (50)
9 PLN03208 E3 ubiquitin-protein 99.3 9.2E-13 2E-17 100.2 3.2 50 123-175 18-83 (193)
10 PF13923 zf-C3HC4_2: Zinc fing 99.3 1.3E-12 2.8E-17 75.2 2.1 39 126-166 1-39 (39)
11 cd00162 RING RING-finger (Real 99.3 2.5E-12 5.4E-17 75.3 2.4 44 125-170 1-45 (45)
12 KOG0320|consensus 99.3 2.3E-12 5E-17 96.0 2.6 59 120-179 128-186 (187)
13 KOG0823|consensus 99.2 3.6E-12 7.9E-17 98.7 2.9 51 122-175 46-99 (230)
14 KOG0802|consensus 99.2 1.1E-11 2.3E-16 109.4 5.5 54 122-175 290-345 (543)
15 PF14634 zf-RING_5: zinc-RING 99.2 1.2E-11 2.6E-16 73.0 2.5 44 125-168 1-44 (44)
16 PF15227 zf-C3HC4_4: zinc fing 99.2 1E-11 2.2E-16 72.5 1.9 38 126-166 1-42 (42)
17 PF12861 zf-Apc11: Anaphase-pr 99.1 2.5E-11 5.4E-16 80.5 2.8 50 123-172 21-83 (85)
18 PF00097 zf-C3HC4: Zinc finger 99.1 3.2E-11 6.9E-16 70.0 1.6 39 126-166 1-41 (41)
19 smart00504 Ubox Modified RING 99.1 6.1E-11 1.3E-15 75.1 2.6 46 125-173 3-48 (63)
20 PHA02926 zinc finger-like prot 99.1 4E-11 8.7E-16 92.5 2.1 50 122-171 169-230 (242)
21 smart00184 RING Ring finger. E 99.0 1E-10 2.3E-15 66.0 2.3 38 126-166 1-39 (39)
22 KOG1734|consensus 99.0 3.1E-10 6.7E-15 89.7 4.2 54 121-174 222-284 (328)
23 TIGR00599 rad18 DNA repair pro 98.9 3.3E-10 7.1E-15 95.6 2.4 49 122-173 25-73 (397)
24 COG5194 APC11 Component of SCF 98.9 6.3E-10 1.4E-14 72.1 2.5 50 126-175 34-85 (88)
25 PF13445 zf-RING_UBOX: RING-ty 98.8 2E-09 4.3E-14 62.9 1.8 38 126-164 1-43 (43)
26 COG5574 PEX10 RING-finger-cont 98.8 2.1E-09 4.5E-14 84.9 1.4 49 123-174 215-265 (271)
27 KOG2164|consensus 98.8 2.7E-09 5.9E-14 91.1 1.7 57 123-182 186-247 (513)
28 KOG0828|consensus 98.8 2.2E-09 4.9E-14 91.0 1.0 50 123-172 571-635 (636)
29 KOG4265|consensus 98.7 8.7E-09 1.9E-13 84.6 3.5 55 121-178 288-343 (349)
30 KOG0287|consensus 98.7 3.6E-09 7.8E-14 86.2 0.9 48 124-174 24-71 (442)
31 smart00744 RINGv The RING-vari 98.7 7.5E-09 1.6E-13 62.3 2.0 42 125-167 1-49 (49)
32 KOG1493|consensus 98.6 4.7E-09 1E-13 67.5 -0.0 49 123-171 20-81 (84)
33 PF04564 U-box: U-box domain; 98.6 1.6E-08 3.5E-13 66.0 2.5 49 123-174 4-53 (73)
34 TIGR00570 cdk7 CDK-activating 98.6 2E-08 4.4E-13 81.8 3.2 52 123-174 3-57 (309)
35 COG5432 RAD18 RING-finger-cont 98.6 1.8E-08 4E-13 80.6 1.8 48 123-173 25-72 (391)
36 KOG0804|consensus 98.5 4.3E-08 9.4E-13 82.5 2.3 48 122-171 174-222 (493)
37 KOG4172|consensus 98.5 2E-08 4.4E-13 60.5 -0.4 46 123-171 7-54 (62)
38 KOG0827|consensus 98.5 4.4E-08 9.5E-13 81.2 1.3 50 124-173 5-58 (465)
39 PF11793 FANCL_C: FANCL C-term 98.4 7.3E-08 1.6E-12 62.4 0.7 48 124-171 3-66 (70)
40 KOG2177|consensus 98.4 8.2E-08 1.8E-12 77.3 1.0 44 122-168 12-55 (386)
41 KOG2930|consensus 98.4 1.7E-07 3.7E-12 63.8 1.5 49 123-171 46-108 (114)
42 PF14835 zf-RING_6: zf-RING of 98.3 2.2E-07 4.8E-12 58.2 0.6 46 125-174 9-54 (65)
43 KOG0824|consensus 98.3 2.6E-07 5.7E-12 74.4 1.1 53 123-178 7-60 (324)
44 COG5219 Uncharacterized conser 98.2 2.9E-07 6.3E-12 83.6 -0.2 49 123-171 1469-1523(1525)
45 KOG1785|consensus 98.1 5.4E-07 1.2E-11 75.2 0.6 50 123-175 369-420 (563)
46 KOG0311|consensus 98.1 3.7E-07 7.9E-12 75.0 -1.6 52 123-177 43-96 (381)
47 KOG1645|consensus 98.0 2.7E-06 5.8E-11 71.2 1.9 51 122-172 3-57 (463)
48 KOG0978|consensus 98.0 1.1E-06 2.4E-11 78.5 -0.5 51 124-177 644-695 (698)
49 KOG0825|consensus 98.0 1.4E-06 3E-11 78.0 -0.5 54 124-177 124-177 (1134)
50 KOG4159|consensus 97.9 4.2E-06 9.2E-11 70.9 2.2 49 121-172 82-130 (398)
51 KOG1039|consensus 97.8 8.9E-06 1.9E-10 67.7 1.6 48 123-170 161-220 (344)
52 KOG1941|consensus 97.7 9.4E-06 2E-10 67.7 0.7 46 123-168 365-413 (518)
53 KOG4445|consensus 97.7 9.8E-06 2.1E-10 65.4 0.5 51 123-173 115-188 (368)
54 KOG4692|consensus 97.7 2.5E-05 5.4E-10 64.5 2.6 68 101-171 399-467 (489)
55 KOG0826|consensus 97.6 5.3E-05 1.1E-09 61.9 3.7 52 115-169 292-344 (357)
56 KOG2879|consensus 97.6 0.00021 4.7E-09 57.1 6.9 50 120-171 236-287 (298)
57 KOG1571|consensus 97.6 6.9E-05 1.5E-09 62.0 4.0 45 122-172 304-348 (355)
58 COG5152 Uncharacterized conser 97.6 1.4E-05 3E-10 61.0 -0.3 45 125-172 198-242 (259)
59 KOG0297|consensus 97.6 3.3E-05 7.2E-10 65.8 1.9 54 121-177 19-73 (391)
60 KOG1428|consensus 97.5 4.6E-05 1E-09 72.4 2.1 50 122-171 3485-3544(3738)
61 PF11789 zf-Nse: Zinc-finger o 97.5 5.4E-05 1.2E-09 46.9 1.6 41 123-165 11-53 (57)
62 KOG3970|consensus 97.4 9.5E-05 2.1E-09 57.6 2.4 55 123-178 50-112 (299)
63 PF05883 Baculo_RING: Baculovi 97.4 6E-05 1.3E-09 54.3 0.7 34 124-157 27-66 (134)
64 COG5222 Uncharacterized conser 97.3 0.00023 4.9E-09 57.7 3.6 64 102-171 256-322 (427)
65 KOG1813|consensus 97.3 7.7E-05 1.7E-09 60.2 0.6 47 123-172 241-287 (313)
66 PF12906 RINGv: RING-variant d 97.3 0.00021 4.5E-09 42.5 2.3 40 126-166 1-47 (47)
67 KOG4275|consensus 97.3 5E-05 1.1E-09 61.2 -0.5 45 123-174 300-345 (350)
68 PF10367 Vps39_2: Vacuolar sor 97.2 0.0011 2.5E-08 45.8 6.1 31 123-154 78-108 (109)
69 PHA02825 LAP/PHD finger-like p 97.2 0.00035 7.5E-09 51.7 3.0 55 120-178 5-66 (162)
70 KOG0801|consensus 97.2 0.00016 3.5E-09 53.6 1.2 32 120-151 174-205 (205)
71 KOG2660|consensus 97.1 8.3E-05 1.8E-09 60.9 -0.8 50 123-174 15-64 (331)
72 PHA02862 5L protein; Provision 97.0 0.00035 7.6E-09 50.8 1.8 48 123-174 2-56 (156)
73 KOG0827|consensus 96.9 3.7E-05 8E-10 64.1 -4.4 51 123-173 196-247 (465)
74 KOG4739|consensus 96.9 0.00032 7E-09 55.2 0.8 45 125-172 5-49 (233)
75 KOG1002|consensus 96.8 0.0004 8.7E-09 60.3 0.7 50 122-174 535-589 (791)
76 KOG1814|consensus 96.6 0.00088 1.9E-08 56.5 1.2 50 123-172 184-241 (445)
77 PF14570 zf-RING_4: RING/Ubox 96.5 0.0017 3.6E-08 38.6 1.9 44 126-169 1-46 (48)
78 PF14447 Prok-RING_4: Prokaryo 96.5 0.0015 3.2E-08 39.8 1.5 45 125-174 9-53 (55)
79 COG5236 Uncharacterized conser 96.5 0.0011 2.4E-08 54.8 1.3 50 118-170 56-107 (493)
80 PF04641 Rtf2: Rtf2 RING-finge 96.4 0.0031 6.8E-08 50.9 3.5 58 121-179 111-169 (260)
81 KOG4185|consensus 96.3 0.0017 3.7E-08 53.2 1.5 47 124-170 4-54 (296)
82 PHA03096 p28-like protein; Pro 96.3 0.0014 3E-08 53.5 0.8 47 124-170 179-236 (284)
83 KOG1001|consensus 96.3 0.0013 2.8E-08 59.7 0.5 51 124-178 455-507 (674)
84 KOG3039|consensus 96.0 0.005 1.1E-07 48.8 2.6 52 123-174 221-273 (303)
85 KOG3002|consensus 96.0 0.0031 6.7E-08 51.9 1.4 43 123-172 48-92 (299)
86 KOG1940|consensus 96.0 0.0029 6.2E-08 51.3 1.0 44 125-168 160-204 (276)
87 KOG1952|consensus 95.9 0.0033 7.2E-08 57.4 1.1 46 122-167 190-243 (950)
88 KOG1100|consensus 95.8 0.0044 9.6E-08 48.4 1.6 40 126-172 161-201 (207)
89 PF10272 Tmpp129: Putative tra 95.7 0.021 4.6E-07 48.0 5.3 70 95-171 247-351 (358)
90 KOG2114|consensus 95.7 0.018 3.9E-07 52.8 4.8 41 124-169 841-881 (933)
91 PF07800 DUF1644: Protein of u 95.2 0.015 3.2E-07 43.1 2.5 32 123-157 2-46 (162)
92 COG5175 MOT2 Transcriptional r 95.1 0.0099 2.1E-07 49.2 1.4 51 123-173 14-66 (480)
93 PF08746 zf-RING-like: RING-li 95.1 0.0071 1.5E-07 35.1 0.4 41 126-166 1-43 (43)
94 KOG2034|consensus 95.1 0.0088 1.9E-07 55.0 1.0 35 122-157 816-850 (911)
95 KOG2932|consensus 94.8 0.0089 1.9E-07 48.9 0.3 47 123-173 90-136 (389)
96 KOG3268|consensus 94.3 0.022 4.8E-07 43.1 1.3 33 140-172 186-229 (234)
97 KOG0298|consensus 94.2 0.012 2.5E-07 56.2 -0.5 43 124-169 1154-1197(1394)
98 PF14446 Prok-RING_1: Prokaryo 94.0 0.054 1.2E-06 32.9 2.5 39 123-165 5-44 (54)
99 COG5220 TFB3 Cdk activating ki 93.7 0.02 4.3E-07 45.3 0.1 48 123-170 10-63 (314)
100 KOG3800|consensus 93.5 0.049 1.1E-06 44.2 2.2 55 125-180 2-59 (300)
101 KOG3899|consensus 93.4 0.031 6.7E-07 45.4 0.8 29 144-172 325-366 (381)
102 KOG0309|consensus 93.1 0.039 8.5E-07 50.2 1.1 26 140-165 1044-1069(1081)
103 KOG1609|consensus 93.0 0.044 9.6E-07 45.0 1.2 52 122-173 77-136 (323)
104 KOG3161|consensus 93.0 0.02 4.3E-07 51.1 -0.9 43 124-169 12-55 (861)
105 KOG4362|consensus 92.8 0.025 5.3E-07 51.1 -0.6 48 124-174 22-72 (684)
106 KOG3053|consensus 92.6 0.041 8.9E-07 43.9 0.4 52 122-173 19-84 (293)
107 KOG1812|consensus 92.0 0.044 9.6E-07 46.8 -0.0 37 123-159 146-183 (384)
108 PF03854 zf-P11: P-11 zinc fin 91.8 0.063 1.4E-06 31.6 0.5 33 141-173 15-48 (50)
109 KOG4367|consensus 91.0 0.12 2.6E-06 44.4 1.5 34 123-159 4-37 (699)
110 COG5183 SSM4 Protein involved 90.9 0.24 5.2E-06 45.7 3.4 54 120-174 9-69 (1175)
111 KOG2817|consensus 90.9 0.16 3.5E-06 43.0 2.2 49 122-170 333-384 (394)
112 KOG0802|consensus 90.5 0.15 3.2E-06 45.5 1.8 50 121-177 477-526 (543)
113 PF05290 Baculo_IE-1: Baculovi 89.2 0.15 3.3E-06 36.8 0.6 51 123-173 80-134 (140)
114 KOG1829|consensus 88.9 0.29 6.3E-06 43.8 2.3 42 122-166 510-556 (580)
115 PF13901 DUF4206: Domain of un 86.6 0.46 9.9E-06 36.9 2.0 41 122-167 151-196 (202)
116 KOG0269|consensus 86.2 1.8 4E-05 39.7 5.7 40 125-165 781-820 (839)
117 KOG0825|consensus 85.2 0.44 9.6E-06 43.9 1.4 51 122-172 95-155 (1134)
118 smart00132 LIM Zinc-binding do 84.9 0.88 1.9E-05 24.6 2.1 36 126-170 2-37 (39)
119 KOG2066|consensus 84.6 0.41 8.9E-06 44.0 0.9 42 124-166 785-830 (846)
120 PF02891 zf-MIZ: MIZ/SP-RING z 83.9 0.37 8E-06 28.8 0.2 42 125-169 4-50 (50)
121 KOG3039|consensus 81.2 1 2.2E-05 36.0 1.8 35 122-159 42-76 (303)
122 KOG2807|consensus 79.5 1.9 4.1E-05 35.8 2.9 46 123-168 330-375 (378)
123 KOG1815|consensus 78.8 0.93 2E-05 39.5 1.0 35 123-159 70-104 (444)
124 TIGR00622 ssl1 transcription f 78.5 3.7 8E-05 28.9 3.7 44 124-167 56-110 (112)
125 KOG3842|consensus 77.8 2.3 5E-05 35.3 2.9 56 123-178 341-421 (429)
126 KOG1812|consensus 77.3 1.2 2.5E-05 38.2 1.1 46 123-168 306-353 (384)
127 PF00412 LIM: LIM domain; Int 76.7 2.1 4.5E-05 25.7 1.9 40 126-174 1-40 (58)
128 PF04710 Pellino: Pellino; In 76.5 0.82 1.8E-05 38.9 0.0 29 138-169 303-337 (416)
129 KOG2068|consensus 76.1 1.7 3.7E-05 36.1 1.7 49 124-172 250-299 (327)
130 PF07191 zinc-ribbons_6: zinc- 75.5 0.32 7E-06 31.2 -2.0 40 125-172 3-42 (70)
131 smart00249 PHD PHD zinc finger 74.1 2 4.3E-05 24.1 1.3 30 126-155 2-31 (47)
132 PF07975 C1_4: TFIIH C1-like d 72.2 2.7 5.8E-05 25.3 1.5 41 126-167 2-50 (51)
133 PF01363 FYVE: FYVE zinc finge 71.5 2.6 5.6E-05 26.5 1.4 35 123-157 9-44 (69)
134 KOG3005|consensus 70.6 2.3 4.9E-05 34.4 1.2 47 124-170 183-242 (276)
135 PF04423 Rad50_zn_hook: Rad50 70.4 1.5 3.3E-05 26.4 0.1 12 162-173 22-33 (54)
136 PF00628 PHD: PHD-finger; Int 69.9 2.9 6.2E-05 24.5 1.3 43 126-168 2-50 (51)
137 COG5109 Uncharacterized conser 69.3 2.9 6.4E-05 34.6 1.6 44 123-167 336-383 (396)
138 KOG4718|consensus 68.6 2.2 4.7E-05 33.4 0.7 41 124-166 182-222 (235)
139 KOG0824|consensus 68.2 3.3 7.1E-05 34.1 1.7 55 116-172 98-152 (324)
140 PF06844 DUF1244: Protein of u 67.8 2.1 4.6E-05 27.0 0.4 12 148-159 12-23 (68)
141 PF13717 zinc_ribbon_4: zinc-r 67.4 2.9 6.4E-05 23.0 0.9 25 125-149 4-36 (36)
142 PF14169 YdjO: Cold-inducible 67.1 3.1 6.8E-05 25.8 1.0 17 160-176 39-55 (59)
143 PF06305 DUF1049: Protein of u 64.9 30 0.00066 21.3 5.9 22 57-79 19-40 (68)
144 cd00350 rubredoxin_like Rubred 64.7 4.4 9.5E-05 21.8 1.2 9 160-168 17-25 (33)
145 KOG3579|consensus 64.1 4.2 9E-05 33.3 1.5 34 124-160 269-306 (352)
146 PF09723 Zn-ribbon_8: Zinc rib 63.4 2.7 5.9E-05 23.9 0.3 30 141-171 8-38 (42)
147 PF14569 zf-UDP: Zinc-binding 62.2 8.3 0.00018 25.2 2.4 56 123-178 9-69 (80)
148 PF06906 DUF1272: Protein of u 62.0 10 0.00023 23.2 2.6 44 126-172 8-53 (57)
149 PF05715 zf-piccolo: Piccolo Z 61.7 5.1 0.00011 24.8 1.3 14 161-174 3-16 (61)
150 smart00064 FYVE Protein presen 60.5 2.6 5.7E-05 26.3 -0.2 36 123-158 10-46 (68)
151 PF04216 FdhE: Protein involve 59.7 2.5 5.3E-05 34.6 -0.5 47 123-172 172-223 (290)
152 PLN02189 cellulose synthase 59.0 13 0.00029 35.8 4.0 57 122-178 33-94 (1040)
153 PF03119 DNA_ligase_ZBD: NAD-d 58.7 4.8 0.0001 20.9 0.7 16 162-177 1-16 (28)
154 PF04710 Pellino: Pellino; In 58.5 3.2 7E-05 35.4 0.0 59 123-181 328-411 (416)
155 KOG3113|consensus 57.8 7.3 0.00016 31.4 1.8 57 123-181 111-168 (293)
156 cd00065 FYVE FYVE domain; Zinc 57.7 6.5 0.00014 23.5 1.3 35 124-158 3-38 (57)
157 PF10235 Cript: Microtubule-as 56.2 9.8 0.00021 25.7 2.0 44 123-178 44-87 (90)
158 KOG2113|consensus 55.5 7.5 0.00016 32.3 1.6 43 123-170 343-386 (394)
159 PF02318 FYVE_2: FYVE-type zin 55.1 14 0.0003 26.0 2.8 45 123-168 54-102 (118)
160 KOG4185|consensus 52.6 2.2 4.8E-05 34.8 -1.9 47 123-169 207-265 (296)
161 smart00647 IBR In Between Ring 51.2 4 8.7E-05 24.8 -0.4 18 139-156 40-58 (64)
162 PF13240 zinc_ribbon_2: zinc-r 51.1 3.8 8.2E-05 20.3 -0.5 7 162-168 15-21 (23)
163 PLN02915 cellulose synthase A 50.9 29 0.00063 33.6 4.9 56 122-177 14-74 (1044)
164 PLN02638 cellulose synthase A 50.1 23 0.0005 34.3 4.1 56 122-177 16-76 (1079)
165 KOG2041|consensus 49.4 63 0.0014 30.3 6.5 23 144-170 1162-1184(1189)
166 PF09237 GAGA: GAGA factor; I 48.3 3.6 7.8E-05 24.7 -0.9 12 162-173 26-37 (54)
167 KOG4628|consensus 48.2 39 0.00086 28.6 4.8 34 2-35 105-139 (348)
168 KOG2979|consensus 47.6 8.8 0.00019 30.9 0.8 44 124-169 177-222 (262)
169 PF13719 zinc_ribbon_5: zinc-r 47.5 9.4 0.0002 21.1 0.7 13 125-137 4-16 (37)
170 PLN02436 cellulose synthase A 47.5 26 0.00057 34.0 4.0 56 123-178 36-96 (1094)
171 KOG4218|consensus 47.4 8.3 0.00018 32.5 0.7 47 122-169 14-76 (475)
172 cd02133 PA_C5a_like PA_C5a_lik 47.1 26 0.00056 25.3 3.2 26 1-26 95-120 (143)
173 KOG1729|consensus 46.2 5 0.00011 33.0 -0.7 37 125-161 216-252 (288)
174 KOG3726|consensus 45.4 8.6 0.00019 35.1 0.6 42 123-167 654-696 (717)
175 PF05605 zf-Di19: Drought indu 45.4 5.6 0.00012 23.8 -0.4 13 123-135 2-14 (54)
176 KOG1815|consensus 45.1 9 0.00019 33.4 0.6 36 125-160 228-268 (444)
177 PRK05978 hypothetical protein; 44.7 12 0.00027 27.6 1.2 26 145-175 42-67 (148)
178 PF10146 zf-C4H2: Zinc finger- 44.6 12 0.00025 29.8 1.1 21 149-169 197-217 (230)
179 PF06677 Auto_anti-p27: Sjogre 43.1 15 0.00033 20.9 1.2 20 153-172 10-29 (41)
180 smart00734 ZnF_Rad18 Rad18-lik 42.9 8.8 0.00019 19.5 0.1 9 162-170 3-11 (26)
181 COG4647 AcxC Acetone carboxyla 42.5 15 0.00032 26.5 1.3 26 123-151 57-82 (165)
182 COG4847 Uncharacterized protei 42.5 18 0.00038 24.7 1.6 32 125-157 8-39 (103)
183 PF14311 DUF4379: Domain of un 41.9 15 0.00033 21.9 1.2 22 144-166 34-55 (55)
184 COG3813 Uncharacterized protei 41.7 14 0.0003 23.9 0.9 44 126-171 8-52 (84)
185 KOG2071|consensus 41.5 15 0.00032 33.1 1.4 33 123-156 513-556 (579)
186 PLN02400 cellulose synthase 41.3 31 0.00068 33.5 3.5 57 122-178 35-96 (1085)
187 PF10571 UPF0547: Uncharacteri 40.5 8.8 0.00019 19.6 -0.1 7 126-132 3-9 (26)
188 PF01485 IBR: IBR domain; Int 40.0 6.2 0.00014 23.9 -0.9 32 125-156 20-58 (64)
189 PF07649 C1_3: C1-like domain; 39.8 15 0.00032 19.1 0.7 29 125-153 2-30 (30)
190 PRK03564 formate dehydrogenase 39.7 22 0.00047 29.6 2.1 44 123-168 187-234 (309)
191 PRK11827 hypothetical protein; 39.3 9.2 0.0002 23.8 -0.1 18 155-172 3-20 (60)
192 PF10497 zf-4CXXC_R1: Zinc-fin 38.7 26 0.00056 24.3 2.0 24 145-168 37-69 (105)
193 KOG4451|consensus 38.6 15 0.00031 29.2 0.8 22 149-170 252-273 (286)
194 PF06750 DiS_P_DiS: Bacterial 37.8 16 0.00034 24.6 0.8 38 124-173 34-71 (92)
195 KOG2169|consensus 37.2 19 0.00041 33.0 1.4 45 124-175 307-360 (636)
196 PF10083 DUF2321: Uncharacteri 37.0 14 0.00031 27.4 0.6 46 127-175 8-54 (158)
197 COG3492 Uncharacterized protei 37.0 12 0.00027 25.2 0.2 12 148-159 43-54 (104)
198 PF12088 DUF3565: Protein of u 36.6 26 0.00055 21.8 1.5 17 135-151 8-24 (61)
199 PRK09458 pspB phage shock prot 36.4 95 0.0021 20.2 4.2 7 75-81 21-27 (75)
200 KOG2442|consensus 36.2 1E+02 0.0022 27.4 5.6 27 1-27 148-174 (541)
201 PF03884 DUF329: Domain of unk 35.4 17 0.00036 22.4 0.6 12 162-173 4-15 (57)
202 smart00834 CxxC_CXXC_SSSS Puta 35.1 17 0.00036 20.0 0.5 13 160-172 26-38 (41)
203 KOG2113|consensus 35.0 19 0.00041 30.0 1.0 52 124-178 137-190 (394)
204 PF09889 DUF2116: Uncharacteri 34.3 20 0.00043 22.2 0.8 15 160-174 3-17 (59)
205 cd00729 rubredoxin_SM Rubredox 33.1 27 0.00058 18.9 1.1 9 161-169 19-27 (34)
206 PF13832 zf-HC5HC2H_2: PHD-zin 31.1 21 0.00046 24.4 0.6 28 123-155 55-87 (110)
207 PHA02610 uvsY.-2 hypothetical 30.8 16 0.00035 21.9 -0.0 15 162-176 3-17 (53)
208 PRK00418 DNA gyrase inhibitor; 30.7 29 0.00063 21.7 1.1 11 161-171 7-17 (62)
209 PRK11088 rrmA 23S rRNA methylt 30.6 33 0.00072 27.5 1.8 24 125-148 4-27 (272)
210 KOG1356|consensus 30.5 35 0.00076 32.2 2.0 55 122-177 228-288 (889)
211 COG4306 Uncharacterized protei 30.0 24 0.00051 25.4 0.7 25 147-174 29-53 (160)
212 COG1675 TFA1 Transcription ini 29.6 13 0.00028 28.3 -0.7 37 122-176 112-148 (176)
213 PRK01343 zinc-binding protein; 28.9 26 0.00057 21.5 0.7 12 160-171 9-20 (57)
214 COG3357 Predicted transcriptio 28.5 27 0.00059 23.6 0.7 28 143-174 63-90 (97)
215 PTZ00370 STEVOR; Provisional 27.7 96 0.0021 25.6 3.9 26 58-84 259-284 (296)
216 PRK00420 hypothetical protein; 27.2 42 0.0009 23.6 1.5 13 160-172 40-52 (112)
217 KOG3799|consensus 27.1 30 0.00064 25.2 0.8 41 121-168 63-115 (169)
218 PF13771 zf-HC5HC2H: PHD-like 27.0 26 0.00057 22.9 0.5 32 124-155 37-68 (90)
219 COG5627 MMS21 DNA repair prote 26.9 23 0.0005 28.3 0.2 41 123-165 189-231 (275)
220 PF15353 HECA: Headcase protei 26.9 28 0.00061 24.2 0.6 14 144-157 40-53 (107)
221 PF10886 DUF2685: Protein of u 26.8 21 0.00046 21.6 0.0 15 162-176 3-17 (54)
222 PLN02195 cellulose synthase A 26.7 74 0.0016 30.7 3.5 54 122-175 5-63 (977)
223 TIGR00373 conserved hypothetic 26.6 20 0.00043 26.7 -0.2 35 122-174 108-142 (158)
224 TIGR01478 STEVOR variant surfa 26.3 86 0.0019 25.8 3.3 26 58-84 263-288 (295)
225 COG4068 Uncharacterized protei 26.3 32 0.0007 21.2 0.7 16 160-175 8-23 (64)
226 TIGR02605 CxxC_CxxC_SSSS putat 26.3 29 0.00063 20.3 0.5 30 142-172 9-39 (52)
227 PF05502 Dynactin_p62: Dynacti 25.7 32 0.00069 30.5 0.9 16 122-137 25-40 (483)
228 PF13248 zf-ribbon_3: zinc-rib 24.2 44 0.00095 16.7 0.9 7 162-168 18-24 (26)
229 PRK06266 transcription initiat 23.8 30 0.00065 26.3 0.3 35 122-174 116-150 (178)
230 KOG1512|consensus 23.8 38 0.00082 27.9 0.9 32 123-154 314-345 (381)
231 COG4279 Uncharacterized conser 23.7 3.2E+02 0.0069 22.2 6.0 21 15-35 34-54 (266)
232 PRK07758 hypothetical protein; 22.9 52 0.0011 22.4 1.3 31 145-181 13-43 (95)
233 PF07282 OrfB_Zn_ribbon: Putat 22.9 70 0.0015 19.7 1.9 33 123-155 28-63 (69)
234 KOG4577|consensus 22.9 20 0.00042 29.6 -0.9 45 123-176 92-136 (383)
235 PF13453 zf-TFIIB: Transcripti 22.9 35 0.00076 19.0 0.4 11 162-172 1-11 (41)
236 KOG4323|consensus 22.6 61 0.0013 28.5 2.0 48 123-171 168-226 (464)
237 TIGR00847 ccoS cytochrome oxid 22.4 1.6E+02 0.0035 17.6 3.2 22 58-79 3-24 (51)
238 COG4357 Zinc finger domain con 22.4 47 0.001 22.7 1.0 29 144-173 65-93 (105)
239 PF05191 ADK_lid: Adenylate ki 22.3 47 0.001 18.2 0.8 29 143-173 6-34 (36)
240 PF00130 C1_1: Phorbol esters/ 22.2 93 0.002 18.0 2.2 33 123-155 11-45 (53)
241 PF09943 DUF2175: Uncharacteri 22.2 63 0.0014 22.3 1.6 32 125-157 4-35 (101)
242 PF11023 DUF2614: Protein of u 22.0 33 0.00071 24.1 0.2 22 157-178 82-103 (114)
243 COG3364 Zn-ribbon containing p 22.0 63 0.0014 22.4 1.6 27 140-170 4-30 (112)
244 COG0353 RecR Recombinational D 21.8 2.6E+02 0.0055 21.8 5.0 40 95-138 42-81 (198)
245 PF14369 zf-RING_3: zinc-finge 21.8 40 0.00086 18.4 0.5 11 162-172 23-33 (35)
246 PF00558 Vpu: Vpu protein; In 21.5 89 0.0019 20.6 2.2 10 75-84 23-32 (81)
247 TIGR00686 phnA alkylphosphonat 21.5 46 0.00099 23.2 0.8 23 125-147 4-28 (109)
248 KOG1245|consensus 21.0 30 0.00066 34.7 -0.2 49 122-170 1107-1159(1404)
249 PF13913 zf-C2HC_2: zinc-finge 20.7 36 0.00077 16.9 0.1 10 162-171 4-13 (25)
250 PF14319 Zn_Tnp_IS91: Transpos 20.1 84 0.0018 21.8 2.0 32 123-159 42-77 (111)
251 KOG0722|consensus 20.1 3.1E+02 0.0068 22.4 5.3 29 51-79 210-238 (329)
No 1
>KOG4628|consensus
Probab=99.96 E-value=1.2e-28 Score=201.71 Aligned_cols=158 Identities=32% Similarity=0.529 Sum_probs=114.0
Q ss_pred CceEEeeccchHHHHHHHhCCceEEEEEEecCCCCCCcccccCCCcceeeeeccchhhhHhHHHHHHHHHHHHHHHHHHh
Q psy4226 1 MSAVFTYKWKGEELARLLDNGTRIIAKITIASHCNRPYTNINRSQSPSLVTATDLIPISIGDLPRAVSLTLFQTELIFYQ 80 (183)
Q Consensus 1 ~~av~~~~~~g~~l~~~~~~~~~v~~~i~~~~~~~~~~~~~~~~s~~~~~~~~~~~~isf~~l~~~is~~l~~~~~~f~~ 80 (183)
|++|||++..||.|++++..+.-..+.+..+-.. ..|+++.++++.+ ++++..+ .+++++++
T Consensus 130 i~~~~vs~~~ge~l~~~~~~~~~~~~~~~~~~~~----------------~~ws~~~~~~i~~-l~v~~il-~~~f~i~~ 191 (348)
T KOG4628|consen 130 IHIVFVSVFSGELLSSYAGRTEFECLLIPLGFDT----------------SPWSILAISLISL-LTVVAIL-VTCFFIYR 191 (348)
T ss_pred eEEEEEeeehHHHHHHhhcccceeeeeccccccC----------------CcchhhhhhhhhH-HHHHHHH-HHHHHHHH
Confidence 6799999999999999987775555554332221 2223334444444 3333333 22444443
Q ss_pred hccchhHHHHHHHhhhHHHHHHHhhcCCCccccCCCcccCCCccccccccccccCCCceEEecCCCccccccHHHHhcCC
Q psy4226 81 QYSSDNIFEIMELRRLCSAAKKALSKIPTKHIKGEDKEISGDGECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEH 160 (183)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~ 160 (183)
-.+. ..++.. ++..+..++.++++|...++.++.+... +.|+||+|+|+.||++++|||+|.||..||++||.++
T Consensus 192 ~~~~--~~~r~~-~~~~r~~k~~l~~~p~~~f~~~~~~~~~--~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~ 266 (348)
T KOG4628|consen 192 IRRL--IRARNR-LRRNRLIKRLLKKLPVRTFTKGDDEDAT--DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQT 266 (348)
T ss_pred HHHH--HHHHhH-hhhhhhHHHHHhhCCcEEeccccccCCC--ceEEEeecccccCCeeeEecCCCchhhccchhhHhhc
Confidence 2222 122222 5667889999999999999988776543 7899999999999999999999999999999999998
Q ss_pred Cc-ccccccccccccCCCCCCC
Q psy4226 161 RT-CPMCKMDILKHYGFVSYLT 181 (183)
Q Consensus 161 ~~-CP~CR~~i~~~~~~~~~~~ 181 (183)
++ ||+||+++.+..+.+...+
T Consensus 267 r~~CPvCK~di~~~~~~~~~~e 288 (348)
T KOG4628|consen 267 RTFCPVCKRDIRTDSGSEPVSE 288 (348)
T ss_pred CccCCCCCCcCCCCCCCCCccC
Confidence 66 9999999999988776554
No 2
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.72 E-value=1e-18 Score=103.57 Aligned_cols=44 Identities=39% Similarity=1.105 Sum_probs=40.6
Q ss_pred cccccccccccCCCceEEecCCCccccccHHHHhcCCCcccccc
Q psy4226 124 ECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCK 167 (183)
Q Consensus 124 ~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR 167 (183)
++|+||++++..++.+..++|||.||.+|+.+|++.+.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 46999999999999999999999999999999999999999998
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.56 E-value=2e-15 Score=119.02 Aligned_cols=75 Identities=31% Similarity=0.563 Sum_probs=55.1
Q ss_pred HHHHHHhhcCCCccccCCCcccCCCccccccccccccCCCc-----eEEecCCCccccccHHHHhcCCCccccccccccc
Q psy4226 98 SAAKKALSKIPTKHIKGEDKEISGDGECCAICIEFYKPSDI-----VRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILK 172 (183)
Q Consensus 98 ~~~~~~i~~l~~~~~~~~~~~~~~~~~~C~ICle~~~~~~~-----v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~ 172 (183)
+..++.++.+|......++......+.+|+||++.+.+++. ...++|||.||.+||.+|+..+.+||+||.++..
T Consensus 149 ~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~ 228 (238)
T PHA02929 149 KNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFIS 228 (238)
T ss_pred chhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeE
Confidence 44667777777765443322222346789999999876431 2445699999999999999999999999998764
No 4
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.55 E-value=5.9e-15 Score=120.67 Aligned_cols=60 Identities=28% Similarity=0.717 Sum_probs=48.5
Q ss_pred CCCccccccccccccCCC----------ceEEecCCCccccccHHHHhcCCCcccccccc-cccccCCCCC
Q psy4226 120 SGDGECCAICIEFYKPSD----------IVRILPCKHEYHKNCIDPWLLEHRTCPMCKMD-ILKHYGFVSY 179 (183)
Q Consensus 120 ~~~~~~C~ICle~~~~~~----------~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~-i~~~~~~~~~ 179 (183)
..++..|+||+|++-.++ +-..|||||++|-+|++.|++++++||+||.+ +..+.+..+.
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ifd~~~~~~~ 354 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIFDQSSPTPA 354 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccccccCCCCcC
Confidence 445668999999944333 34789999999999999999999999999999 6666664443
No 5
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.53 E-value=4.8e-15 Score=97.00 Aligned_cols=45 Identities=38% Similarity=0.902 Sum_probs=36.4
Q ss_pred ccccccccccccCC----------CceEEecCCCccccccHHHHhcCCCcccccc
Q psy4226 123 GECCAICIEFYKPS----------DIVRILPCKHEYHKNCIDPWLLEHRTCPMCK 167 (183)
Q Consensus 123 ~~~C~ICle~~~~~----------~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR 167 (183)
.+.|+||++++.+. -.+...+|||.||..||.+|++.+.+||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 44599999999422 2455667999999999999999999999998
No 6
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.47 E-value=1.7e-14 Score=115.24 Aligned_cols=50 Identities=42% Similarity=1.060 Sum_probs=46.3
Q ss_pred ccccccccccccCCCceEEecCCCccccccHHHHhc-CCCccccccccccc
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLL-EHRTCPMCKMDILK 172 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~-~~~~CP~CR~~i~~ 172 (183)
+-+|+||+++|..+|.+++|||.|.||..|++.|+. .+..||+||..+++
T Consensus 323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 457999999999999999999999999999999998 57789999999875
No 7
>KOG0317|consensus
Probab=99.42 E-value=5.8e-14 Score=111.68 Aligned_cols=51 Identities=25% Similarity=0.653 Sum_probs=45.7
Q ss_pred CCccccccccccccCCCceEEecCCCccccccHHHHhcCCCccccccccccccc
Q psy4226 121 GDGECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILKHY 174 (183)
Q Consensus 121 ~~~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~~ 174 (183)
.....|.+|||....+ .-+||||+||+.||.+|...+..||+||..+.+++
T Consensus 237 ~a~~kC~LCLe~~~~p---SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~psk 287 (293)
T KOG0317|consen 237 EATRKCSLCLENRSNP---SATPCGHIFCWSCILEWCSEKAECPLCREKFQPSK 287 (293)
T ss_pred CCCCceEEEecCCCCC---CcCcCcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence 3456799999997777 89999999999999999999999999999988765
No 8
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.33 E-value=5e-13 Score=81.10 Aligned_cols=47 Identities=34% Similarity=0.827 Sum_probs=39.5
Q ss_pred ccccccccccccCCCceEEecCCCc-cccccHHHHhcCCCccccccccccc
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHE-YHKNCIDPWLLEHRTCPMCKMDILK 172 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~-Fh~~Ci~~Wl~~~~~CP~CR~~i~~ 172 (183)
+..|.||++...+ ...+||||. ||.+|+..|+..+.+||+||+++.+
T Consensus 2 ~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIES 49 (50)
T ss_dssp HSB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred cCCCccCCccCCc---eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence 4569999998554 588999999 9999999999999999999998854
No 9
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.32 E-value=9.2e-13 Score=100.23 Aligned_cols=50 Identities=26% Similarity=0.630 Sum_probs=41.9
Q ss_pred ccccccccccccCCCceEEecCCCccccccHHHHhcC----------------CCcccccccccccccC
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLE----------------HRTCPMCKMDILKHYG 175 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~----------------~~~CP~CR~~i~~~~~ 175 (183)
..+|+||++.++++ .+++|||.||+.||.+|+.. ..+||+||.++....-
T Consensus 18 ~~~CpICld~~~dP---VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~L 83 (193)
T PLN03208 18 DFDCNICLDQVRDP---VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATL 83 (193)
T ss_pred ccCCccCCCcCCCc---EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcE
Confidence 45799999998877 78899999999999999852 3479999999976443
No 10
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=99.29 E-value=1.3e-12 Score=75.18 Aligned_cols=39 Identities=36% Similarity=1.027 Sum_probs=33.5
Q ss_pred cccccccccCCCceEEecCCCccccccHHHHhcCCCccccc
Q psy4226 126 CAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMC 166 (183)
Q Consensus 126 C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~C 166 (183)
|+||++.+.+ .+..++|||.||.+|+.+|++.+.+||+|
T Consensus 1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 8999998776 45688999999999999999998899998
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=99.26 E-value=2.5e-12 Score=75.35 Aligned_cols=44 Identities=43% Similarity=1.139 Sum_probs=36.7
Q ss_pred ccccccccccCCCceEEecCCCccccccHHHHhcC-CCccccccccc
Q psy4226 125 CCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLE-HRTCPMCKMDI 170 (183)
Q Consensus 125 ~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~-~~~CP~CR~~i 170 (183)
.|+||++.+. +....++|||.||..|++.|+.. +..||+||..+
T Consensus 1 ~C~iC~~~~~--~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhh--CceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 4999999983 34455669999999999999987 77899999764
No 12
>KOG0320|consensus
Probab=99.26 E-value=2.3e-12 Score=95.96 Aligned_cols=59 Identities=22% Similarity=0.434 Sum_probs=47.8
Q ss_pred CCCccccccccccccCCCceEEecCCCccccccHHHHhcCCCcccccccccccccCCCCC
Q psy4226 120 SGDGECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILKHYGFVSY 179 (183)
Q Consensus 120 ~~~~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~~~~~~~ 179 (183)
...-..|+|||+.+.+... .-+.|||+||+.||..-++....||+||+.|.+.+=+.-|
T Consensus 128 ~~~~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~~rI~ 186 (187)
T KOG0320|consen 128 KEGTYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQFHRIY 186 (187)
T ss_pred cccccCCCceecchhhccc-cccccchhHHHHHHHHHHHhCCCCCCcccccchhhheecc
Confidence 3445689999999886422 3477999999999999999999999999998877655544
No 13
>KOG0823|consensus
Probab=99.24 E-value=3.6e-12 Score=98.71 Aligned_cols=51 Identities=25% Similarity=0.626 Sum_probs=43.0
Q ss_pred CccccccccccccCCCceEEecCCCccccccHHHHhcCC---CcccccccccccccC
Q psy4226 122 DGECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEH---RTCPMCKMDILKHYG 175 (183)
Q Consensus 122 ~~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~---~~CP~CR~~i~~~~~ 175 (183)
...+|.||||.-+++ +++.|||+||+.||-+|+..+ ..||+||..+....=
T Consensus 46 ~~FdCNICLd~akdP---VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~v 99 (230)
T KOG0823|consen 46 GFFDCNICLDLAKDP---VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTV 99 (230)
T ss_pred CceeeeeeccccCCC---EEeecccceehHHHHHHHhhcCCCeeCCccccccccceE
Confidence 345799999997777 889999999999999999874 358999999876543
No 14
>KOG0802|consensus
Probab=99.23 E-value=1.1e-11 Score=109.40 Aligned_cols=54 Identities=30% Similarity=0.771 Sum_probs=46.6
Q ss_pred CccccccccccccCCCc--eEEecCCCccccccHHHHhcCCCcccccccccccccC
Q psy4226 122 DGECCAICIEFYKPSDI--VRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILKHYG 175 (183)
Q Consensus 122 ~~~~C~ICle~~~~~~~--v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~~~ 175 (183)
.++.|+||+|.+..+++ ..++||||+||..|+..|++..++||+||..+.....
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~~~~~ 345 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLYDYVL 345 (543)
T ss_pred cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhhcccc
Confidence 46789999999998654 6899999999999999999999999999995554443
No 15
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.18 E-value=1.2e-11 Score=73.02 Aligned_cols=44 Identities=27% Similarity=0.730 Sum_probs=38.4
Q ss_pred ccccccccccCCCceEEecCCCccccccHHHHhcCCCccccccc
Q psy4226 125 CCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKM 168 (183)
Q Consensus 125 ~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~ 168 (183)
.|.||++.|.+.+..++++|||+||..|+..+......||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 39999999966667899999999999999998756678999985
No 16
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.18 E-value=1e-11 Score=72.52 Aligned_cols=38 Identities=34% Similarity=1.022 Sum_probs=30.7
Q ss_pred cccccccccCCCceEEecCCCccccccHHHHhcCC----Cccccc
Q psy4226 126 CAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEH----RTCPMC 166 (183)
Q Consensus 126 C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~----~~CP~C 166 (183)
|+||++.|.++ ..|+|||.||..||..|++.. ..||.|
T Consensus 1 CpiC~~~~~~P---v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP---VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE---EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc---cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999998 899999999999999999774 359987
No 17
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.14 E-value=2.5e-11 Score=80.52 Aligned_cols=50 Identities=32% Similarity=0.769 Sum_probs=38.7
Q ss_pred cccccccccccc--------CCC--ceEEecCCCccccccHHHHhcC---CCccccccccccc
Q psy4226 123 GECCAICIEFYK--------PSD--IVRILPCKHEYHKNCIDPWLLE---HRTCPMCKMDILK 172 (183)
Q Consensus 123 ~~~C~ICle~~~--------~~~--~v~~lpC~H~Fh~~Ci~~Wl~~---~~~CP~CR~~i~~ 172 (183)
++.|.||...|+ ++| .+..-.|+|.||..||.+|+.+ +.+|||||++...
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 566999988887 233 3344459999999999999986 4579999998643
No 18
>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=99.10 E-value=3.2e-11 Score=69.96 Aligned_cols=39 Identities=38% Similarity=1.160 Sum_probs=33.9
Q ss_pred cccccccccCCCceEEecCCCccccccHHHHhc--CCCccccc
Q psy4226 126 CAICIEFYKPSDIVRILPCKHEYHKNCIDPWLL--EHRTCPMC 166 (183)
Q Consensus 126 C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~--~~~~CP~C 166 (183)
|+||++.+..+ .+.++|||.||.+|+.+|++ ....||+|
T Consensus 1 C~iC~~~~~~~--~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDP--VILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSE--EEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCC--CEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999998766 25889999999999999998 45679998
No 19
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=99.08 E-value=6.1e-11 Score=75.07 Aligned_cols=46 Identities=33% Similarity=0.654 Sum_probs=41.6
Q ss_pred ccccccccccCCCceEEecCCCccccccHHHHhcCCCcccccccccccc
Q psy4226 125 CCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILKH 173 (183)
Q Consensus 125 ~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~ 173 (183)
.|+||.+.++++ .+++|||+|++.||.+|+..+.+||+|+..+...
T Consensus 3 ~Cpi~~~~~~~P---v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~ 48 (63)
T smart00504 3 LCPISLEVMKDP---VILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHE 48 (63)
T ss_pred CCcCCCCcCCCC---EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChh
Confidence 599999999987 7889999999999999999988999999887543
No 20
>PHA02926 zinc finger-like protein; Provisional
Probab=99.08 E-value=4e-11 Score=92.49 Aligned_cols=50 Identities=26% Similarity=0.672 Sum_probs=37.6
Q ss_pred CccccccccccccCC----C-c-eEEecCCCccccccHHHHhcCC------Ccccccccccc
Q psy4226 122 DGECCAICIEFYKPS----D-I-VRILPCKHEYHKNCIDPWLLEH------RTCPMCKMDIL 171 (183)
Q Consensus 122 ~~~~C~ICle~~~~~----~-~-v~~lpC~H~Fh~~Ci~~Wl~~~------~~CP~CR~~i~ 171 (183)
.+.+|+||+|...++ + . ....+|+|.||..||..|...+ ++||+||..+.
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 456799999986432 1 1 2344699999999999999753 45999998765
No 21
>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=99.05 E-value=1e-10 Score=66.04 Aligned_cols=38 Identities=42% Similarity=1.122 Sum_probs=32.8
Q ss_pred cccccccccCCCceEEecCCCccccccHHHHhc-CCCccccc
Q psy4226 126 CAICIEFYKPSDIVRILPCKHEYHKNCIDPWLL-EHRTCPMC 166 (183)
Q Consensus 126 C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~-~~~~CP~C 166 (183)
|+||++.. +....++|||.||..|++.|+. .+..||+|
T Consensus 1 C~iC~~~~---~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL---KDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCC---CCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 78999983 4458899999999999999998 56679987
No 22
>KOG1734|consensus
Probab=99.01 E-value=3.1e-10 Score=89.68 Aligned_cols=54 Identities=30% Similarity=0.636 Sum_probs=44.7
Q ss_pred CCccccccccccccCCC-------ceEEecCCCccccccHHHHhc--CCCccccccccccccc
Q psy4226 121 GDGECCAICIEFYKPSD-------IVRILPCKHEYHKNCIDPWLL--EHRTCPMCKMDILKHY 174 (183)
Q Consensus 121 ~~~~~C~ICle~~~~~~-------~v~~lpC~H~Fh~~Ci~~Wl~--~~~~CP~CR~~i~~~~ 174 (183)
.++..|+||-..+.... +...|.|+|+||+.||+.|.. .+++||.|+..+..+.
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~r 284 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKR 284 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhh
Confidence 34667999998877654 788999999999999999974 4778999998876554
No 23
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.94 E-value=3.3e-10 Score=95.58 Aligned_cols=49 Identities=24% Similarity=0.693 Sum_probs=43.5
Q ss_pred CccccccccccccCCCceEEecCCCccccccHHHHhcCCCcccccccccccc
Q psy4226 122 DGECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILKH 173 (183)
Q Consensus 122 ~~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~ 173 (183)
....|+||++.|..+ .+++|||.||..|+..|+.....||+||..+...
T Consensus 25 ~~l~C~IC~d~~~~P---vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 25 TSLRCHICKDFFDVP---VLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQES 73 (397)
T ss_pred cccCCCcCchhhhCc---cCCCCCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence 355799999999877 6889999999999999999888899999998754
No 24
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.92 E-value=6.3e-10 Score=72.13 Aligned_cols=50 Identities=28% Similarity=0.623 Sum_probs=37.9
Q ss_pred cccccccccCCCceEE--ecCCCccccccHHHHhcCCCcccccccccccccC
Q psy4226 126 CAICIEFYKPSDIVRI--LPCKHEYHKNCIDPWLLEHRTCPMCKMDILKHYG 175 (183)
Q Consensus 126 C~ICle~~~~~~~v~~--lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~~~ 175 (183)
|+=|...+.++++..+ --|+|.||..||..||.++..||++|++..-+++
T Consensus 34 C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~~~ 85 (88)
T COG5194 34 CPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLADG 85 (88)
T ss_pred CcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEecc
Confidence 4444444445554333 3499999999999999999999999999877665
No 25
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.81 E-value=2e-09 Score=62.92 Aligned_cols=38 Identities=32% Similarity=0.842 Sum_probs=22.6
Q ss_pred cccccccccCCC-ceEEecCCCccccccHHHHhcCC----Cccc
Q psy4226 126 CAICIEFYKPSD-IVRILPCKHEYHKNCIDPWLLEH----RTCP 164 (183)
Q Consensus 126 C~ICle~~~~~~-~v~~lpC~H~Fh~~Ci~~Wl~~~----~~CP 164 (183)
|+||.| |.+.+ .-++|+|||.|+++|+++++..+ .+||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 76643 44889999999999999999853 2576
No 26
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.77 E-value=2.1e-09 Score=84.91 Aligned_cols=49 Identities=22% Similarity=0.638 Sum_probs=41.8
Q ss_pred ccccccccccccCCCceEEecCCCccccccHHH-HhcCCCc-cccccccccccc
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHEYHKNCIDP-WLLEHRT-CPMCKMDILKHY 174 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~-Wl~~~~~-CP~CR~~i~~~~ 174 (183)
+..|+||++....+ ..+||||+||..||.. |-..+.. ||+||+.+..++
T Consensus 215 d~kC~lC~e~~~~p---s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~ 265 (271)
T COG5574 215 DYKCFLCLEEPEVP---SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK 265 (271)
T ss_pred ccceeeeecccCCc---ccccccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence 45799999996665 8999999999999998 8877765 999999887654
No 27
>KOG2164|consensus
Probab=98.76 E-value=2.7e-09 Score=91.09 Aligned_cols=57 Identities=21% Similarity=0.444 Sum_probs=45.0
Q ss_pred ccccccccccccCCCceEEecCCCccccccHHHHhcCC-----CcccccccccccccCCCCCCCC
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEH-----RTCPMCKMDILKHYGFVSYLTN 182 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~-----~~CP~CR~~i~~~~~~~~~~~~ 182 (183)
+..|+|||++...+ ..+.|||+||..||-+.+... ..||+||..|...+=.+..+++
T Consensus 186 ~~~CPICL~~~~~p---~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~e~ 247 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP---VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFIED 247 (513)
T ss_pred CCcCCcccCCCCcc---cccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeeecc
Confidence 66799999986555 666699999999998877553 4699999999887666655554
No 28
>KOG0828|consensus
Probab=98.75 E-value=2.2e-09 Score=91.05 Aligned_cols=50 Identities=24% Similarity=0.711 Sum_probs=39.7
Q ss_pred ccccccccccccCC--------------CceEEecCCCccccccHHHHhcC-CCccccccccccc
Q psy4226 123 GECCAICIEFYKPS--------------DIVRILPCKHEYHKNCIDPWLLE-HRTCPMCKMDILK 172 (183)
Q Consensus 123 ~~~C~ICle~~~~~--------------~~v~~lpC~H~Fh~~Ci~~Wl~~-~~~CP~CR~~i~~ 172 (183)
...|+||+.+.+-- .+...+||.|+||..|+.+|++. +-.||+||++++.
T Consensus 571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred cccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 34699999886621 12446799999999999999995 5589999999875
No 29
>KOG4265|consensus
Probab=98.72 E-value=8.7e-09 Score=84.64 Aligned_cols=55 Identities=25% Similarity=0.617 Sum_probs=44.7
Q ss_pred CCccccccccccccCCCceEEecCCCc-cccccHHHHhcCCCcccccccccccccCCCC
Q psy4226 121 GDGECCAICIEFYKPSDIVRILPCKHE-YHKNCIDPWLLEHRTCPMCKMDILKHYGFVS 178 (183)
Q Consensus 121 ~~~~~C~ICle~~~~~~~v~~lpC~H~-Fh~~Ci~~Wl~~~~~CP~CR~~i~~~~~~~~ 178 (183)
+++.+|+||+.+ .....+|||.|. .|.+|.+.---+++.||+||+++.+-..+-.
T Consensus 288 ~~gkeCVIClse---~rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ll~i~~ 343 (349)
T KOG4265|consen 288 ESGKECVICLSE---SRDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEELLEIYV 343 (349)
T ss_pred cCCCeeEEEecC---CcceEEecchhhehhHhHHHHHHHhhcCCCccccchHhhheecc
Confidence 447789999998 444599999995 9999999866667889999999987665443
No 30
>KOG0287|consensus
Probab=98.71 E-value=3.6e-09 Score=86.17 Aligned_cols=48 Identities=29% Similarity=0.755 Sum_probs=44.3
Q ss_pred cccccccccccCCCceEEecCCCccccccHHHHhcCCCccccccccccccc
Q psy4226 124 ECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILKHY 174 (183)
Q Consensus 124 ~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~~ 174 (183)
-.|-||.|.|..+ .++||+|.||.-||+..|..+..||.|+.++.+.+
T Consensus 24 LRC~IC~eyf~ip---~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~ 71 (442)
T KOG0287|consen 24 LRCGICFEYFNIP---MITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESD 71 (442)
T ss_pred HHHhHHHHHhcCc---eeccccchHHHHHHHHHhccCCCCCceecccchhh
Confidence 4699999999998 89999999999999999999999999999887654
No 31
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.70 E-value=7.5e-09 Score=62.33 Aligned_cols=42 Identities=31% Similarity=0.833 Sum_probs=33.3
Q ss_pred ccccccccccCCCceEEecCC-----CccccccHHHHhcCCC--cccccc
Q psy4226 125 CCAICIEFYKPSDIVRILPCK-----HEYHKNCIDPWLLEHR--TCPMCK 167 (183)
Q Consensus 125 ~C~ICle~~~~~~~v~~lpC~-----H~Fh~~Ci~~Wl~~~~--~CP~CR 167 (183)
.|.||++ ..+++...+.||. |.+|.+|+.+|+..+. +||+|+
T Consensus 1 ~CrIC~~-~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC-CCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 3899999 3444555689984 8999999999996654 799995
No 32
>KOG1493|consensus
Probab=98.65 E-value=4.7e-09 Score=67.54 Aligned_cols=49 Identities=35% Similarity=0.815 Sum_probs=36.1
Q ss_pred cccccccccccc--------CCCceE-Ee-cCCCccccccHHHHhcCC---Ccccccccccc
Q psy4226 123 GECCAICIEFYK--------PSDIVR-IL-PCKHEYHKNCIDPWLLEH---RTCPMCKMDIL 171 (183)
Q Consensus 123 ~~~C~ICle~~~--------~~~~v~-~l-pC~H~Fh~~Ci~~Wl~~~---~~CP~CR~~i~ 171 (183)
++.|-||.-+|+ ++|..- ++ -|.|.||..||.+|+... ..|||||++..
T Consensus 20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 446888888877 233222 22 389999999999999764 45999999864
No 33
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.65 E-value=1.6e-08 Score=66.02 Aligned_cols=49 Identities=27% Similarity=0.488 Sum_probs=39.7
Q ss_pred ccccccccccccCCCceEEecCCCccccccHHHHhcC-CCccccccccccccc
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLE-HRTCPMCKMDILKHY 174 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~-~~~CP~CR~~i~~~~ 174 (183)
...|+|+.+-|.++ +++|+||.|.+.||..|+.. +.+||+|+..+...+
T Consensus 4 ~f~CpIt~~lM~dP---Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~ 53 (73)
T PF04564_consen 4 EFLCPITGELMRDP---VILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESD 53 (73)
T ss_dssp GGB-TTTSSB-SSE---EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGG
T ss_pred ccCCcCcCcHhhCc---eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCccc
Confidence 55799999999998 89999999999999999999 889999999887653
No 34
>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=98.63 E-value=2e-08 Score=81.80 Aligned_cols=52 Identities=21% Similarity=0.624 Sum_probs=38.8
Q ss_pred cccccccccc-ccCCCc-eEEecCCCccccccHHHHhcC-CCccccccccccccc
Q psy4226 123 GECCAICIEF-YKPSDI-VRILPCKHEYHKNCIDPWLLE-HRTCPMCKMDILKHY 174 (183)
Q Consensus 123 ~~~C~ICle~-~~~~~~-v~~lpC~H~Fh~~Ci~~Wl~~-~~~CP~CR~~i~~~~ 174 (183)
+..|++|..+ |..++. ..+.+|||.||..|++..+.. ...||.|+..+.+..
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence 4569999995 444542 333379999999999996544 557999998887763
No 35
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.59 E-value=1.8e-08 Score=80.61 Aligned_cols=48 Identities=25% Similarity=0.430 Sum_probs=43.3
Q ss_pred ccccccccccccCCCceEEecCCCccccccHHHHhcCCCcccccccccccc
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILKH 173 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~ 173 (183)
...|-||-+.+..+ ..++|||.||.-||...|..+..||+||.+..+.
T Consensus 25 ~lrC~IC~~~i~ip---~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~es 72 (391)
T COG5432 25 MLRCRICDCRISIP---CETTCGHTFCSLCIRRHLGTQPFCPVCREDPCES 72 (391)
T ss_pred HHHhhhhhheeecc---eecccccchhHHHHHHHhcCCCCCccccccHHhh
Confidence 45799999999988 8899999999999999999999999999886553
No 36
>KOG0804|consensus
Probab=98.52 E-value=4.3e-08 Score=82.54 Aligned_cols=48 Identities=25% Similarity=0.714 Sum_probs=39.0
Q ss_pred CccccccccccccCCC-ceEEecCCCccccccHHHHhcCCCcccccccccc
Q psy4226 122 DGECCAICIEFYKPSD-IVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDIL 171 (183)
Q Consensus 122 ~~~~C~ICle~~~~~~-~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~ 171 (183)
+-.+|+||||.+++.- .++...|.|.||..|+..|.. .+||+||....
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~--~scpvcR~~q~ 222 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD--SSCPVCRYCQS 222 (493)
T ss_pred cCCCcchhHhhcCccccceeeeecccccchHHHhhccc--CcChhhhhhcC
Confidence 3468999999998753 345566999999999999964 48999998765
No 37
>KOG4172|consensus
Probab=98.48 E-value=2e-08 Score=60.48 Aligned_cols=46 Identities=28% Similarity=0.522 Sum_probs=34.9
Q ss_pred ccccccccccccCCCceEEecCCCc-cccccHHH-HhcCCCcccccccccc
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHE-YHKNCIDP-WLLEHRTCPMCKMDIL 171 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~-Fh~~Ci~~-Wl~~~~~CP~CR~~i~ 171 (183)
+++|.||+|.-.+. ..-.|||. .|.+|-.+ |-..+..||+||+++.
T Consensus 7 ~dECTICye~pvds---VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPVDS---VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCcchH---HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 47799999984433 45569995 99999554 4446889999999874
No 38
>KOG0827|consensus
Probab=98.48 E-value=4.4e-08 Score=81.17 Aligned_cols=50 Identities=26% Similarity=0.776 Sum_probs=37.6
Q ss_pred cccccccccccCCCceEEec-CCCccccccHHHHhcC---CCcccccccccccc
Q psy4226 124 ECCAICIEFYKPSDIVRILP-CKHEYHKNCIDPWLLE---HRTCPMCKMDILKH 173 (183)
Q Consensus 124 ~~C~ICle~~~~~~~v~~lp-C~H~Fh~~Ci~~Wl~~---~~~CP~CR~~i~~~ 173 (183)
..|.||.+-+...+++.-+. |||+||..|+.+|+.. +++||.||-.+.+.
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r 58 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQER 58 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccce
Confidence 46999955444444555555 9999999999999987 35799999555443
No 39
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.40 E-value=7.3e-08 Score=62.40 Aligned_cols=48 Identities=25% Similarity=0.709 Sum_probs=23.4
Q ss_pred cccccccccccCCCceEEe-----cCCCccccccHHHHhcC---C--------Ccccccccccc
Q psy4226 124 ECCAICIEFYKPSDIVRIL-----PCKHEYHKNCIDPWLLE---H--------RTCPMCKMDIL 171 (183)
Q Consensus 124 ~~C~ICle~~~~~~~v~~l-----pC~H~Fh~~Ci~~Wl~~---~--------~~CP~CR~~i~ 171 (183)
.+|.||++....++.+-.+ .|++.||..|+.+||.. . .+||.|+.+|.
T Consensus 3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 4599999986633222111 48999999999999964 1 25999999875
No 40
>KOG2177|consensus
Probab=98.40 E-value=8.2e-08 Score=77.34 Aligned_cols=44 Identities=27% Similarity=0.890 Sum_probs=38.8
Q ss_pred CccccccccccccCCCceEEecCCCccccccHHHHhcCCCccccccc
Q psy4226 122 DGECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKM 168 (183)
Q Consensus 122 ~~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~ 168 (183)
+...|+||++.|..+ .++||||.||..|+..++.....||.||.
T Consensus 12 ~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 12 EELTCPICLEYFREP---VLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred ccccChhhHHHhhcC---ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 355799999999998 89999999999999999885557999993
No 41
>KOG2930|consensus
Probab=98.35 E-value=1.7e-07 Score=63.84 Aligned_cols=49 Identities=29% Similarity=0.697 Sum_probs=35.8
Q ss_pred cccccccccccc------------CCCceEE--ecCCCccccccHHHHhcCCCcccccccccc
Q psy4226 123 GECCAICIEFYK------------PSDIVRI--LPCKHEYHKNCIDPWLLEHRTCPMCKMDIL 171 (183)
Q Consensus 123 ~~~C~ICle~~~------------~~~~v~~--lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~ 171 (183)
.+.|+||..-+- ..+++.+ --|+|.||..||.+||+++..||+|.++-.
T Consensus 46 vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~ 108 (114)
T KOG2930|consen 46 VDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWV 108 (114)
T ss_pred echhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCccee
Confidence 567888864321 1223322 249999999999999999999999977643
No 42
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.27 E-value=2.2e-07 Score=58.23 Aligned_cols=46 Identities=26% Similarity=0.658 Sum_probs=23.5
Q ss_pred ccccccccccCCCceEEecCCCccccccHHHHhcCCCccccccccccccc
Q psy4226 125 CCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILKHY 174 (183)
Q Consensus 125 ~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~~ 174 (183)
.|++|.+-++++ +....|.|+||..|+.+-+.. .||+|+.+...++
T Consensus 9 rCs~C~~~l~~p--v~l~~CeH~fCs~Ci~~~~~~--~CPvC~~Paw~qD 54 (65)
T PF14835_consen 9 RCSICFDILKEP--VCLGGCEHIFCSSCIRDCIGS--ECPVCHTPAWIQD 54 (65)
T ss_dssp S-SSS-S--SS---B---SSS--B-TTTGGGGTTT--B-SSS--B-S-SS
T ss_pred CCcHHHHHhcCC--ceeccCccHHHHHHhHHhcCC--CCCCcCChHHHHH
Confidence 499999998866 344569999999999885543 4999998876554
No 43
>KOG0824|consensus
Probab=98.27 E-value=2.6e-07 Score=74.35 Aligned_cols=53 Identities=25% Similarity=0.468 Sum_probs=42.3
Q ss_pred ccccccccccccCCCceEEecCCCccccccHHHHhcC-CCcccccccccccccCCCC
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLE-HRTCPMCKMDILKHYGFVS 178 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~-~~~CP~CR~~i~~~~~~~~ 178 (183)
..+|+||+....-+ ..|+|+|.||..||..-... ..+||+||.+|.+.--+.+
T Consensus 7 ~~eC~IC~nt~n~P---v~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~~~p 60 (324)
T KOG0824|consen 7 KKECLICYNTGNCP---VNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTIDFEP 60 (324)
T ss_pred CCcceeeeccCCcC---ccccccchhhhhhhcchhhcCCCCCceecCCCCcchhcch
Confidence 44699999996666 88999999999999876555 4569999999987654433
No 44
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.19 E-value=2.9e-07 Score=83.63 Aligned_cols=49 Identities=33% Similarity=0.848 Sum_probs=36.2
Q ss_pred ccccccccccccCCC----ceEEecCCCccccccHHHHhcC--CCcccccccccc
Q psy4226 123 GECCAICIEFYKPSD----IVRILPCKHEYHKNCIDPWLLE--HRTCPMCKMDIL 171 (183)
Q Consensus 123 ~~~C~ICle~~~~~~----~v~~lpC~H~Fh~~Ci~~Wl~~--~~~CP~CR~~i~ 171 (183)
.++||||+.-+..-| .-+.-+|+|-||..|+-+|+.. +++||+||..++
T Consensus 1469 ~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1469 HEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred cchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 567999997655111 0123348899999999999987 457999998775
No 45
>KOG1785|consensus
Probab=98.15 E-value=5.4e-07 Score=75.15 Aligned_cols=50 Identities=34% Similarity=0.715 Sum_probs=41.6
Q ss_pred ccccccccccccCCCceEEecCCCccccccHHHHhcC--CCcccccccccccccC
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLE--HRTCPMCKMDILKHYG 175 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~--~~~CP~CR~~i~~~~~ 175 (183)
-+.|-||-|+ +..+++-||||..|..|+..|-.. .++||.||..|-....
T Consensus 369 FeLCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~ 420 (563)
T KOG1785|consen 369 FELCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEP 420 (563)
T ss_pred HHHHHHhhcc---CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccccc
Confidence 4579999997 567789999999999999999754 5689999999865443
No 46
>KOG0311|consensus
Probab=98.08 E-value=3.7e-07 Score=75.00 Aligned_cols=52 Identities=23% Similarity=0.590 Sum_probs=43.4
Q ss_pred ccccccccccccCCCceEEec-CCCccccccHHHHhcC-CCcccccccccccccCCC
Q psy4226 123 GECCAICIEFYKPSDIVRILP-CKHEYHKNCIDPWLLE-HRTCPMCKMDILKHYGFV 177 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lp-C~H~Fh~~Ci~~Wl~~-~~~CP~CR~~i~~~~~~~ 177 (183)
...|+|||+-++.. +.++ |.|.||.+||..-+.. +++||.||+.+.....+.
T Consensus 43 ~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr 96 (381)
T KOG0311|consen 43 QVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLR 96 (381)
T ss_pred hhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCC
Confidence 45799999998876 6666 9999999999887766 568999999998877654
No 47
>KOG1645|consensus
Probab=98.00 E-value=2.7e-06 Score=71.17 Aligned_cols=51 Identities=31% Similarity=0.789 Sum_probs=38.8
Q ss_pred CccccccccccccCC-CceE-EecCCCccccccHHHHhcC--CCccccccccccc
Q psy4226 122 DGECCAICIEFYKPS-DIVR-ILPCKHEYHKNCIDPWLLE--HRTCPMCKMDILK 172 (183)
Q Consensus 122 ~~~~C~ICle~~~~~-~~v~-~lpC~H~Fh~~Ci~~Wl~~--~~~CP~CR~~i~~ 172 (183)
.+.+|+|||+.+..+ +... .+.|||.|-.+||+.|+.+ ...||.|..+-.+
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katk 57 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATK 57 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHH
Confidence 466899999999865 4333 4459999999999999963 2359999765544
No 48
>KOG0978|consensus
Probab=97.99 E-value=1.1e-06 Score=78.45 Aligned_cols=51 Identities=22% Similarity=0.517 Sum_probs=40.5
Q ss_pred cccccccccccCCCceEEecCCCccccccHHHHhcC-CCcccccccccccccCCC
Q psy4226 124 ECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLE-HRTCPMCKMDILKHYGFV 177 (183)
Q Consensus 124 ~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~-~~~CP~CR~~i~~~~~~~ 177 (183)
-.|++|-+..++. .++.|||.||..|+.+-+.. .+.||.|.+.+...+=++
T Consensus 644 LkCs~Cn~R~Kd~---vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~ 695 (698)
T KOG0978|consen 644 LKCSVCNTRWKDA---VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVHR 695 (698)
T ss_pred eeCCCccCchhhH---HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccccc
Confidence 3799999876654 66679999999999998876 567999988877665433
No 49
>KOG0825|consensus
Probab=97.96 E-value=1.4e-06 Score=77.97 Aligned_cols=54 Identities=15% Similarity=0.302 Sum_probs=45.3
Q ss_pred cccccccccccCCCceEEecCCCccccccHHHHhcCCCcccccccccccccCCC
Q psy4226 124 ECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILKHYGFV 177 (183)
Q Consensus 124 ~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~~~~~ 177 (183)
..|++|+..+.++.....-+|+|.||..|+..|-....+||+||..+.+-.-..
T Consensus 124 ~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~V~e 177 (1134)
T KOG0825|consen 124 NQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEVKVLE 177 (1134)
T ss_pred hhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhheeeeec
Confidence 468888888887766677789999999999999999999999999887654433
No 50
>KOG4159|consensus
Probab=97.95 E-value=4.2e-06 Score=70.94 Aligned_cols=49 Identities=24% Similarity=0.717 Sum_probs=43.2
Q ss_pred CCccccccccccccCCCceEEecCCCccccccHHHHhcCCCccccccccccc
Q psy4226 121 GDGECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILK 172 (183)
Q Consensus 121 ~~~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~ 172 (183)
....+|.||...+..+ +.+||||.||..||++-+....-||.||..+.+
T Consensus 82 ~sef~c~vc~~~l~~p---v~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPP---VVTPCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCC---ccccccccccHHHHHHHhccCCCCccccccccc
Confidence 3456799999998888 888999999999999988777789999999876
No 51
>KOG1039|consensus
Probab=97.79 E-value=8.9e-06 Score=67.72 Aligned_cols=48 Identities=33% Similarity=0.899 Sum_probs=36.3
Q ss_pred ccccccccccccCCC----ceEEec-CCCccccccHHHHh--cC-----CCccccccccc
Q psy4226 123 GECCAICIEFYKPSD----IVRILP-CKHEYHKNCIDPWL--LE-----HRTCPMCKMDI 170 (183)
Q Consensus 123 ~~~C~ICle~~~~~~----~v~~lp-C~H~Fh~~Ci~~Wl--~~-----~~~CP~CR~~i 170 (183)
+..|.||+|...... ...+|| |.|.||..||+.|- .+ .+.||.||...
T Consensus 161 ~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 161 EKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred cccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 557999999866542 123345 99999999999998 33 46799999764
No 52
>KOG1941|consensus
Probab=97.72 E-value=9.4e-06 Score=67.71 Aligned_cols=46 Identities=30% Similarity=0.762 Sum_probs=38.7
Q ss_pred ccccccccccccCC-CceEEecCCCccccccHHHHhcCC--Cccccccc
Q psy4226 123 GECCAICIEFYKPS-DIVRILPCKHEYHKNCIDPWLLEH--RTCPMCKM 168 (183)
Q Consensus 123 ~~~C~ICle~~~~~-~~v~~lpC~H~Fh~~Ci~~Wl~~~--~~CP~CR~ 168 (183)
+-.|-.|-|.+... +.+.-|||.|+||..|+.+.|+++ ++||-||+
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 44699999988764 578889999999999999999774 57999993
No 53
>KOG4445|consensus
Probab=97.70 E-value=9.8e-06 Score=65.41 Aligned_cols=51 Identities=27% Similarity=0.658 Sum_probs=42.0
Q ss_pred ccccccccccccCCCceEEecCCCccccccHHHHhcC-----------------------CCcccccccccccc
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLE-----------------------HRTCPMCKMDILKH 173 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~-----------------------~~~CP~CR~~i~~~ 173 (183)
...|+|||-.|.+++...+++|-|.||..|+...|.. +..||+||..|--.
T Consensus 115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e 188 (368)
T KOG4445|consen 115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE 188 (368)
T ss_pred CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence 3459999999999999999999999999999887621 23599999887543
No 54
>KOG4692|consensus
Probab=97.68 E-value=2.5e-05 Score=64.48 Aligned_cols=68 Identities=24% Similarity=0.572 Sum_probs=52.0
Q ss_pred HHHhhcCCCccccCCCcccC-CCccccccccccccCCCceEEecCCCccccccHHHHhcCCCcccccccccc
Q psy4226 101 KKALSKIPTKHIKGEDKEIS-GDGECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDIL 171 (183)
Q Consensus 101 ~~~i~~l~~~~~~~~~~~~~-~~~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~ 171 (183)
.+++.+++.++....+.... .+++.|+||... +......||+|--|+.||.+.+.+.+.|=.|+.++.
T Consensus 399 ~r~~~~l~~~~~~~~~~~lp~sEd~lCpICyA~---pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 399 NRASSQLPERKEESFNKDLPDSEDNLCPICYAG---PINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred HHHHhhcchhhHHhhcCCCCCcccccCcceecc---cchhhccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence 44555666655444333333 457789999887 445588999999999999999999999999999887
No 55
>KOG0826|consensus
Probab=97.63 E-value=5.3e-05 Score=61.94 Aligned_cols=52 Identities=19% Similarity=0.478 Sum_probs=40.2
Q ss_pred CCcccCCCccccccccccccCCCceEEec-CCCccccccHHHHhcCCCcccccccc
Q psy4226 115 EDKEISGDGECCAICIEFYKPSDIVRILP-CKHEYHKNCIDPWLLEHRTCPMCKMD 169 (183)
Q Consensus 115 ~~~~~~~~~~~C~ICle~~~~~~~v~~lp-C~H~Fh~~Ci~~Wl~~~~~CP~CR~~ 169 (183)
+.+....+...|++|+..-.++ .++. -|-+||..|+-..+.+.+.||+=..+
T Consensus 292 e~e~l~~~~~~CpvClk~r~Np---tvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p 344 (357)
T KOG0826|consen 292 ESELLPPDREVCPVCLKKRQNP---TVLEVSGYVFCYPCIFSYVVNYGHCPVTGYP 344 (357)
T ss_pred ccccCCCccccChhHHhccCCC---ceEEecceEEeHHHHHHHHHhcCCCCccCCc
Confidence 3334455677899999987765 4444 69999999999999999999985443
No 56
>KOG2879|consensus
Probab=97.61 E-value=0.00021 Score=57.13 Aligned_cols=50 Identities=28% Similarity=0.428 Sum_probs=38.2
Q ss_pred CCCccccccccccccCCCceEEecCCCccccccHHHHhcCC--Ccccccccccc
Q psy4226 120 SGDGECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEH--RTCPMCKMDIL 171 (183)
Q Consensus 120 ~~~~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~--~~CP~CR~~i~ 171 (183)
..++.+|++|-++=.. +-...+|||+||..|+..=+... -+||.|-.+..
T Consensus 236 ~t~~~~C~~Cg~~Pti--P~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 236 GTSDTECPVCGEPPTI--PHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred ccCCceeeccCCCCCC--CeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 3456789999998443 34566799999999998765543 58999988776
No 57
>KOG1571|consensus
Probab=97.60 E-value=6.9e-05 Score=62.04 Aligned_cols=45 Identities=24% Similarity=0.597 Sum_probs=32.5
Q ss_pred CccccccccccccCCCceEEecCCCccccccHHHHhcCCCccccccccccc
Q psy4226 122 DGECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILK 172 (183)
Q Consensus 122 ~~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~ 172 (183)
..+.|+||+++.++ ..-+||||+-| |..- -+...+||+||+.|..
T Consensus 304 ~p~lcVVcl~e~~~---~~fvpcGh~cc--ct~c-s~~l~~CPvCR~rI~~ 348 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKS---AVFVPCGHVCC--CTLC-SKHLPQCPVCRQRIRL 348 (355)
T ss_pred CCCceEEecCCccc---eeeecCCcEEE--chHH-HhhCCCCchhHHHHHH
Confidence 34579999999555 48999999754 5432 3445569999988753
No 58
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.58 E-value=1.4e-05 Score=61.05 Aligned_cols=45 Identities=20% Similarity=0.490 Sum_probs=39.6
Q ss_pred ccccccccccCCCceEEecCCCccccccHHHHhcCCCccccccccccc
Q psy4226 125 CCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILK 172 (183)
Q Consensus 125 ~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~ 172 (183)
.|.||-++|+.+ +++.|||.||..|.-.-++...+|-+|-+..-.
T Consensus 198 ~C~iCKkdy~sp---vvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G 242 (259)
T COG5152 198 LCGICKKDYESP---VVTECGHSFCSLCAIRKYQKGDECGVCGKATYG 242 (259)
T ss_pred eehhchhhccch---hhhhcchhHHHHHHHHHhccCCcceecchhhcc
Confidence 799999999998 889999999999988878888899999765433
No 59
>KOG0297|consensus
Probab=97.57 E-value=3.3e-05 Score=65.83 Aligned_cols=54 Identities=20% Similarity=0.613 Sum_probs=45.9
Q ss_pred CCccccccccccccCCCceEE-ecCCCccccccHHHHhcCCCcccccccccccccCCC
Q psy4226 121 GDGECCAICIEFYKPSDIVRI-LPCKHEYHKNCIDPWLLEHRTCPMCKMDILKHYGFV 177 (183)
Q Consensus 121 ~~~~~C~ICle~~~~~~~v~~-lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~~~~~ 177 (183)
.++..|++|...+.++ .. +.|||.||..|+..|+..+..||.|+..+.......
T Consensus 19 ~~~l~C~~C~~vl~~p---~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~~ 73 (391)
T KOG0297|consen 19 DENLLCPICMSVLRDP---VQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEELP 73 (391)
T ss_pred cccccCccccccccCC---CCCCCCCCcccccccchhhccCcCCcccccccchhhccC
Confidence 3456799999998877 44 589999999999999999999999999888776654
No 60
>KOG1428|consensus
Probab=97.51 E-value=4.6e-05 Score=72.36 Aligned_cols=50 Identities=28% Similarity=0.580 Sum_probs=41.2
Q ss_pred CccccccccccccCCCceEEecCCCccccccHHHHhcCC----------Ccccccccccc
Q psy4226 122 DGECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEH----------RTCPMCKMDIL 171 (183)
Q Consensus 122 ~~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~----------~~CP~CR~~i~ 171 (183)
.+|.|.||+.+--...+.+.|.|+|+||..|.+.-|+++ -+||+|+.+|.
T Consensus 3485 ~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3485 ADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred cCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 357899999887777788999999999999998766552 15999988763
No 61
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.48 E-value=5.4e-05 Score=46.90 Aligned_cols=41 Identities=22% Similarity=0.596 Sum_probs=27.8
Q ss_pred ccccccccccccCCCceEEecCCCccccccHHHHhcC--CCcccc
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLE--HRTCPM 165 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~--~~~CP~ 165 (183)
...|+|.+..|+++ ++-..|||+|-++.|.+|+.. ...||+
T Consensus 11 ~~~CPiT~~~~~~P--V~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 11 SLKCPITLQPFEDP--VKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp -SB-TTTSSB-SSE--EEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred ccCCCCcCChhhCC--cCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 45799999998865 555679999999999999944 346998
No 62
>KOG3970|consensus
Probab=97.41 E-value=9.5e-05 Score=57.56 Aligned_cols=55 Identities=25% Similarity=0.574 Sum_probs=44.6
Q ss_pred ccccccccccccCCCceEEecCCCccccccHHHHhcC--------CCcccccccccccccCCCC
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLE--------HRTCPMCKMDILKHYGFVS 178 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~--------~~~CP~CR~~i~~~~~~~~ 178 (183)
...|..|-..+.++|.+ .|-|-|+||++|+++|--. .-.||-|..+|++.-.+++
T Consensus 50 ~pNC~LC~t~La~gdt~-RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~Nlvs 112 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDTT-RLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPINLVS 112 (299)
T ss_pred CCCCceeCCccccCcce-eehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCccccc
Confidence 34599999999888875 5679999999999999754 2369999999998776654
No 63
>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=97.36 E-value=6e-05 Score=54.31 Aligned_cols=34 Identities=21% Similarity=0.434 Sum_probs=29.4
Q ss_pred cccccccccccCCCceEEecCC------CccccccHHHHh
Q psy4226 124 ECCAICIEFYKPSDIVRILPCK------HEYHKNCIDPWL 157 (183)
Q Consensus 124 ~~C~ICle~~~~~~~v~~lpC~------H~Fh~~Ci~~Wl 157 (183)
-+|+||++....++-++.++|| |.||.+|+.+|-
T Consensus 27 ~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 27 VECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred eeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence 3599999999986677888886 789999999994
No 64
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.31 E-value=0.00023 Score=57.70 Aligned_cols=64 Identities=31% Similarity=0.680 Sum_probs=43.0
Q ss_pred HHhhcCCCccccCCCcccCCCccccccccccccCCCceEEec-CCCccccccHHHHhcC-CCccccc-ccccc
Q psy4226 102 KALSKIPTKHIKGEDKEISGDGECCAICIEFYKPSDIVRILP-CKHEYHKNCIDPWLLE-HRTCPMC-KMDIL 171 (183)
Q Consensus 102 ~~i~~l~~~~~~~~~~~~~~~~~~C~ICle~~~~~~~v~~lp-C~H~Fh~~Ci~~Wl~~-~~~CP~C-R~~i~ 171 (183)
+++...+...++...... ...|+.|..-+.++ ..+| |+|.||.+||..-|.. ...||.| |++++
T Consensus 256 ~a~~~~~Dqv~k~~~~~i---~LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvl 322 (427)
T COG5222 256 KAVAEIPDQVYKMQPPNI---SLKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVL 322 (427)
T ss_pred HhhhhCchhhhccCCCCc---cccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCcccccch
Confidence 334444444443333222 24699999988877 7777 8999999999976654 5679999 54554
No 65
>KOG1813|consensus
Probab=97.28 E-value=7.7e-05 Score=60.21 Aligned_cols=47 Identities=17% Similarity=0.400 Sum_probs=41.0
Q ss_pred ccccccccccccCCCceEEecCCCccccccHHHHhcCCCccccccccccc
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILK 172 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~ 172 (183)
..-|-||-.+|..+ +++.|+|.||..|...-++....|++|.+....
T Consensus 241 Pf~c~icr~~f~~p---Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g 287 (313)
T KOG1813|consen 241 PFKCFICRKYFYRP---VVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHG 287 (313)
T ss_pred Cccccccccccccc---hhhcCCceeehhhhccccccCCcceeccccccc
Confidence 34599999999998 899999999999988878888899999877643
No 66
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.28 E-value=0.00021 Score=42.47 Aligned_cols=40 Identities=35% Similarity=1.002 Sum_probs=27.6
Q ss_pred cccccccccCCCceEEecCC-----CccccccHHHHhcC--CCccccc
Q psy4226 126 CAICIEFYKPSDIVRILPCK-----HEYHKNCIDPWLLE--HRTCPMC 166 (183)
Q Consensus 126 C~ICle~~~~~~~v~~lpC~-----H~Fh~~Ci~~Wl~~--~~~CP~C 166 (183)
|-||+++-.+.+ .-+.||+ -..|.+|+.+|+.. +.+|++|
T Consensus 1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 679999877654 4567873 36899999999985 4579987
No 67
>KOG4275|consensus
Probab=97.27 E-value=5e-05 Score=61.19 Aligned_cols=45 Identities=27% Similarity=0.625 Sum_probs=36.4
Q ss_pred ccccccccccccCCCceEEecCCCc-cccccHHHHhcCCCccccccccccccc
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHE-YHKNCIDPWLLEHRTCPMCKMDILKHY 174 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~-Fh~~Ci~~Wl~~~~~CP~CR~~i~~~~ 174 (183)
...|+||++. +..+..|+|||. -|.+|-... +.||+||+.+.+..
T Consensus 300 ~~LC~ICmDa---P~DCvfLeCGHmVtCt~CGkrm----~eCPICRqyi~rvv 345 (350)
T KOG4275|consen 300 RRLCAICMDA---PRDCVFLECGHMVTCTKCGKRM----NECPICRQYIVRVV 345 (350)
T ss_pred HHHHHHHhcC---CcceEEeecCcEEeehhhcccc----ccCchHHHHHHHHH
Confidence 5689999998 677799999994 899997552 37999999887654
No 68
>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=97.23 E-value=0.0011 Score=45.75 Aligned_cols=31 Identities=26% Similarity=0.690 Sum_probs=27.1
Q ss_pred ccccccccccccCCCceEEecCCCccccccHH
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHEYHKNCID 154 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~ 154 (183)
+..|++|-..+.. ....+.||||+||..|++
T Consensus 78 ~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 78 STKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence 4569999999987 678889999999999975
No 69
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=97.17 E-value=0.00035 Score=51.73 Aligned_cols=55 Identities=25% Similarity=0.608 Sum_probs=39.0
Q ss_pred CCCccccccccccccCCCceEEecC--CC---ccccccHHHHhcCCC--cccccccccccccCCCC
Q psy4226 120 SGDGECCAICIEFYKPSDIVRILPC--KH---EYHKNCIDPWLLEHR--TCPMCKMDILKHYGFVS 178 (183)
Q Consensus 120 ~~~~~~C~ICle~~~~~~~v~~lpC--~H---~Fh~~Ci~~Wl~~~~--~CP~CR~~i~~~~~~~~ 178 (183)
+..+..|-||.++..+ -.-|| .. .-|.+|++.|+..++ +||+|+.+..-.....+
T Consensus 5 s~~~~~CRIC~~~~~~----~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~~~~kp 66 (162)
T PHA02825 5 SLMDKCCWICKDEYDV----VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIKKNYKK 66 (162)
T ss_pred CCCCCeeEecCCCCCC----ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEEEecCC
Confidence 3446789999998432 23576 33 469999999998754 69999888765554443
No 70
>KOG0801|consensus
Probab=97.16 E-value=0.00016 Score=53.56 Aligned_cols=32 Identities=38% Similarity=0.727 Sum_probs=27.7
Q ss_pred CCCccccccccccccCCCceEEecCCCccccc
Q psy4226 120 SGDGECCAICIEFYKPSDIVRILPCKHEYHKN 151 (183)
Q Consensus 120 ~~~~~~C~ICle~~~~~~~v~~lpC~H~Fh~~ 151 (183)
..+..+|+||||++..+|.+..|||=-++|+.
T Consensus 174 ~ddkGECvICLEdL~~GdtIARLPCLCIYHK~ 205 (205)
T KOG0801|consen 174 KDDKGECVICLEDLEAGDTIARLPCLCIYHKQ 205 (205)
T ss_pred cccCCcEEEEhhhccCCCceeccceEEEeecC
Confidence 34455799999999999999999999999863
No 71
>KOG2660|consensus
Probab=97.11 E-value=8.3e-05 Score=60.87 Aligned_cols=50 Identities=30% Similarity=0.656 Sum_probs=42.0
Q ss_pred ccccccccccccCCCceEEecCCCccccccHHHHhcCCCccccccccccccc
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILKHY 174 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~~ 174 (183)
..+|.+|-..+.+.. .+.-|=|.||+.||-..+....+||+|...+.+..
T Consensus 15 ~itC~LC~GYliDAT--TI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~ 64 (331)
T KOG2660|consen 15 HITCRLCGGYLIDAT--TITECLHTFCKSCIVKYLEESKYCPTCDIVIHKTH 64 (331)
T ss_pred ceehhhccceeecch--hHHHHHHHHHHHHHHHHHHHhccCCccceeccCcc
Confidence 457999999888762 34449999999999999999999999999887753
No 72
>PHA02862 5L protein; Provisional
Probab=97.02 E-value=0.00035 Score=50.80 Aligned_cols=48 Identities=21% Similarity=0.520 Sum_probs=35.6
Q ss_pred ccccccccccccCCCceEEecCC-----CccccccHHHHhcCC--Cccccccccccccc
Q psy4226 123 GECCAICIEFYKPSDIVRILPCK-----HEYHKNCIDPWLLEH--RTCPMCKMDILKHY 174 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~-----H~Fh~~Ci~~Wl~~~--~~CP~CR~~i~~~~ 174 (183)
++.|-||+++-++. .-||+ ..-|.+|+.+|+... ..||+|+.+..-..
T Consensus 2 ~diCWIC~~~~~e~----~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~ 56 (156)
T PHA02862 2 SDICWICNDVCDER----NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKK 56 (156)
T ss_pred CCEEEEecCcCCCC----cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEE
Confidence 46799999984332 47874 358999999999764 46999998765443
No 73
>KOG0827|consensus
Probab=96.93 E-value=3.7e-05 Score=64.14 Aligned_cols=51 Identities=29% Similarity=0.641 Sum_probs=46.4
Q ss_pred ccccccccccccCC-CceEEecCCCccccccHHHHhcCCCcccccccccccc
Q psy4226 123 GECCAICIEFYKPS-DIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILKH 173 (183)
Q Consensus 123 ~~~C~ICle~~~~~-~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~ 173 (183)
...|+||.+.++.. +++..+-|||..|.+|+.+|+.....||.||+.+++.
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~ 247 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKN 247 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence 45799999999987 7888889999999999999999999999999998764
No 74
>KOG4739|consensus
Probab=96.90 E-value=0.00032 Score=55.22 Aligned_cols=45 Identities=27% Similarity=0.697 Sum_probs=34.2
Q ss_pred ccccccccccCCCceEEecCCCccccccHHHHhcCCCccccccccccc
Q psy4226 125 CCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILK 172 (183)
Q Consensus 125 ~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~ 172 (183)
.|-.|..-=. ++....+.|+|+||..|...- ....||+||+.+--
T Consensus 5 hCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~--~~~~C~lCkk~ir~ 49 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLTACRHVFCEPCLKAS--SPDVCPLCKKSIRI 49 (233)
T ss_pred EeccccccCC-CCceeeeechhhhhhhhcccC--Cccccccccceeee
Confidence 4777766444 788999999999999997542 23389999988643
No 75
>KOG1002|consensus
Probab=96.80 E-value=0.0004 Score=60.28 Aligned_cols=50 Identities=20% Similarity=0.565 Sum_probs=38.7
Q ss_pred CccccccccccccCCCceEEecCCCccccccHHHHhcC-----CCccccccccccccc
Q psy4226 122 DGECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLE-----HRTCPMCKMDILKHY 174 (183)
Q Consensus 122 ~~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~-----~~~CP~CR~~i~~~~ 174 (183)
+...|-+|.++-++. ....|.|.||+-|+.+++.. +-+||.|...+.-.+
T Consensus 535 ~~~~C~lc~d~aed~---i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDl 589 (791)
T KOG1002|consen 535 GEVECGLCHDPAEDY---IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDL 589 (791)
T ss_pred CceeecccCChhhhh---HhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccc
Confidence 456799999985544 88889999999999887744 457999977665443
No 76
>KOG1814|consensus
Probab=96.58 E-value=0.00088 Score=56.48 Aligned_cols=50 Identities=26% Similarity=0.523 Sum_probs=39.0
Q ss_pred ccccccccccccCCCceEEecCCCccccccHHHHhcC--------CCccccccccccc
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLE--------HRTCPMCKMDILK 172 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~--------~~~CP~CR~~i~~ 172 (183)
-..|.||++...-.+....|||+|+||+.|....+.. .-.||-+...=..
T Consensus 184 lf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a 241 (445)
T KOG1814|consen 184 LFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVA 241 (445)
T ss_pred cccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccC
Confidence 4569999999876688899999999999999998744 1258877654333
No 77
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.53 E-value=0.0017 Score=38.59 Aligned_cols=44 Identities=25% Similarity=0.499 Sum_probs=22.3
Q ss_pred cccccccccCCC-ceEEecCCCccccccHHHHhc-CCCcccccccc
Q psy4226 126 CAICIEFYKPSD-IVRILPCKHEYHKNCIDPWLL-EHRTCPMCKMD 169 (183)
Q Consensus 126 C~ICle~~~~~~-~v~~lpC~H~Fh~~Ci~~Wl~-~~~~CP~CR~~ 169 (183)
|++|.+++...+ ...-=+||+-.|..|...-+. .+..||-||.+
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~ 46 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREP 46 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCC
Confidence 789999985544 333334799999999888775 47789999976
No 78
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=96.50 E-value=0.0015 Score=39.81 Aligned_cols=45 Identities=24% Similarity=0.473 Sum_probs=32.9
Q ss_pred ccccccccccCCCceEEecCCCccccccHHHHhcCCCccccccccccccc
Q psy4226 125 CCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILKHY 174 (183)
Q Consensus 125 ~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~~ 174 (183)
.|..|... +.+-.++||||+.+..|.+.+ +-+.||.|-+.+...+
T Consensus 9 ~~~~~~~~---~~~~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 9 PCVFCGFV---GTKGTVLPCGHLICDNCFPGE--RYNGCPFCGTPFEFDD 53 (55)
T ss_pred eEEEcccc---ccccccccccceeeccccChh--hccCCCCCCCcccCCC
Confidence 46666665 344489999999999997653 4456999988876543
No 79
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.49 E-value=0.0011 Score=54.82 Aligned_cols=50 Identities=24% Similarity=0.584 Sum_probs=37.7
Q ss_pred ccCCCccccccccccccCCCceEEecCCCccccccHHH--HhcCCCccccccccc
Q psy4226 118 EISGDGECCAICIEFYKPSDIVRILPCKHEYHKNCIDP--WLLEHRTCPMCKMDI 170 (183)
Q Consensus 118 ~~~~~~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~--Wl~~~~~CP~CR~~i 170 (183)
+..++...|.||-+...-. .++||+|-.|.-|.-. -|-.+..||+||..-
T Consensus 56 dtDEen~~C~ICA~~~TYs---~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 56 DTDEENMNCQICAGSTTYS---ARYPCGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred ccccccceeEEecCCceEE---EeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 3344567899999986654 8999999999999643 244567899999753
No 80
>PF04641 Rtf2: Rtf2 RING-finger
Probab=96.42 E-value=0.0031 Score=50.90 Aligned_cols=58 Identities=12% Similarity=0.307 Sum_probs=43.4
Q ss_pred CCccccccccccccCCC-ceEEecCCCccccccHHHHhcCCCcccccccccccccCCCCC
Q psy4226 121 GDGECCAICIEFYKPSD-IVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILKHYGFVSY 179 (183)
Q Consensus 121 ~~~~~C~ICle~~~~~~-~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~~~~~~~ 179 (183)
.....|||....|...- -+...||||+|...++.+- .....||+|-.++.+.+=++-+
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~DiI~Ln 169 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEEDIIPLN 169 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccCCEEEec
Confidence 34568999999996544 3455589999999999994 4355799999998876654433
No 81
>KOG4185|consensus
Probab=96.33 E-value=0.0017 Score=53.16 Aligned_cols=47 Identities=38% Similarity=0.793 Sum_probs=37.3
Q ss_pred cccccccccccCCC---ceEEecCCCccccccHHHHhcCCC-ccccccccc
Q psy4226 124 ECCAICIEFYKPSD---IVRILPCKHEYHKNCIDPWLLEHR-TCPMCKMDI 170 (183)
Q Consensus 124 ~~C~ICle~~~~~~---~v~~lpC~H~Fh~~Ci~~Wl~~~~-~CP~CR~~i 170 (183)
..|-||-++|...+ .-+.|.|||.+|..|+.+-+.... .||.||...
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 45999999999764 346778999999999977554433 599999985
No 82
>PHA03096 p28-like protein; Provisional
Probab=96.31 E-value=0.0014 Score=53.55 Aligned_cols=47 Identities=32% Similarity=0.574 Sum_probs=32.7
Q ss_pred cccccccccccCC----CceEEec-CCCccccccHHHHhcCC---C---ccccccccc
Q psy4226 124 ECCAICIEFYKPS----DIVRILP-CKHEYHKNCIDPWLLEH---R---TCPMCKMDI 170 (183)
Q Consensus 124 ~~C~ICle~~~~~----~~v~~lp-C~H~Fh~~Ci~~Wl~~~---~---~CP~CR~~i 170 (183)
..|.||+|..... ..--.|+ |.|.||..|+..|-..+ . .||.||..+
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~~~~~ 236 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRLNTVI 236 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccchhhHH
Confidence 4599999986643 1233566 99999999999998653 2 355555444
No 83
>KOG1001|consensus
Probab=96.26 E-value=0.0013 Score=59.67 Aligned_cols=51 Identities=22% Similarity=0.595 Sum_probs=41.0
Q ss_pred cccccccccccCCCceEEecCCCccccccHHHHhcCC--CcccccccccccccCCCC
Q psy4226 124 ECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEH--RTCPMCKMDILKHYGFVS 178 (183)
Q Consensus 124 ~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~--~~CP~CR~~i~~~~~~~~ 178 (183)
..|.+|++ .+...+++|||.||.+|+..-+... ..||+||..+...+-+..
T Consensus 455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s~ 507 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLSA 507 (674)
T ss_pred cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhhc
Confidence 56999999 4666899999999999998877552 359999998877665543
No 84
>KOG3039|consensus
Probab=96.01 E-value=0.005 Score=48.78 Aligned_cols=52 Identities=12% Similarity=0.236 Sum_probs=43.7
Q ss_pred ccccccccccccCCCceEEec-CCCccccccHHHHhcCCCccccccccccccc
Q psy4226 123 GECCAICIEFYKPSDIVRILP-CKHEYHKNCIDPWLLEHRTCPMCKMDILKHY 174 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lp-C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~~ 174 (183)
...|++|.+.+.+.-.+..|. |||+|+.+|.+..+.....||+|-.++-+.+
T Consensus 221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd 273 (303)
T KOG3039|consen 221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD 273 (303)
T ss_pred ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence 357999999999887777774 9999999999998888889999977765543
No 85
>KOG3002|consensus
Probab=96.00 E-value=0.0031 Score=51.86 Aligned_cols=43 Identities=26% Similarity=0.629 Sum_probs=35.2
Q ss_pred ccccccccccccCCCceEEecC--CCccccccHHHHhcCCCccccccccccc
Q psy4226 123 GECCAICIEFYKPSDIVRILPC--KHEYHKNCIDPWLLEHRTCPMCKMDILK 172 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC--~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~ 172 (183)
-.+|+||.+.+..+ +..| ||+-|..|-.+ ....||.||.++.+
T Consensus 48 lleCPvC~~~l~~P----i~QC~nGHlaCssC~~~---~~~~CP~Cr~~~g~ 92 (299)
T KOG3002|consen 48 LLDCPVCFNPLSPP----IFQCDNGHLACSSCRTK---VSNKCPTCRLPIGN 92 (299)
T ss_pred hccCchhhccCccc----ceecCCCcEehhhhhhh---hcccCCcccccccc
Confidence 45799999999987 6667 89999999753 45679999998874
No 86
>KOG1940|consensus
Probab=95.96 E-value=0.0029 Score=51.28 Aligned_cols=44 Identities=34% Similarity=0.724 Sum_probs=37.9
Q ss_pred ccccccccccCCC-ceEEecCCCccccccHHHHhcCCCccccccc
Q psy4226 125 CCAICIEFYKPSD-IVRILPCKHEYHKNCIDPWLLEHRTCPMCKM 168 (183)
Q Consensus 125 ~C~ICle~~~~~~-~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~ 168 (183)
.|+||.+.+.... .+..++|||..|..|.+.....+-+||+|..
T Consensus 160 ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 160 NCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred CCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 3999999877654 5678899999999999998888889999987
No 87
>KOG1952|consensus
Probab=95.87 E-value=0.0033 Score=57.41 Aligned_cols=46 Identities=35% Similarity=0.722 Sum_probs=34.8
Q ss_pred CccccccccccccCCCceEE-ecCCCccccccHHHHhcCC-------Ccccccc
Q psy4226 122 DGECCAICIEFYKPSDIVRI-LPCKHEYHKNCIDPWLLEH-------RTCPMCK 167 (183)
Q Consensus 122 ~~~~C~ICle~~~~~~~v~~-lpC~H~Fh~~Ci~~Wl~~~-------~~CP~CR 167 (183)
+..+|.||.+.++....+-- ..|-|+||..||..|.... =.||-|+
T Consensus 190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cq 243 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQ 243 (950)
T ss_pred CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCccc
Confidence 44589999999887653322 2378999999999998652 1499998
No 88
>KOG1100|consensus
Probab=95.82 E-value=0.0044 Score=48.37 Aligned_cols=40 Identities=33% Similarity=0.721 Sum_probs=31.6
Q ss_pred cccccccccCCCceEEecCCC-ccccccHHHHhcCCCccccccccccc
Q psy4226 126 CAICIEFYKPSDIVRILPCKH-EYHKNCIDPWLLEHRTCPMCKMDILK 172 (183)
Q Consensus 126 C~ICle~~~~~~~v~~lpC~H-~Fh~~Ci~~Wl~~~~~CP~CR~~i~~ 172 (183)
|-.|-+. +-.+..+||.| ++|..|-.. .++||+|+.....
T Consensus 161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~s 201 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLPCRHLCLCGICDES----LRICPICRSPKTS 201 (207)
T ss_pred ceecCcC---CceEEeecccceEeccccccc----CccCCCCcChhhc
Confidence 8888887 66788999998 599999654 4569999877543
No 89
>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=95.73 E-value=0.021 Score=48.02 Aligned_cols=70 Identities=21% Similarity=0.562 Sum_probs=41.9
Q ss_pred hhHHHHHHHhhcCCCccccCCCcccCCCccccccccccccCCCceEEe-----------------cC-----CCcccccc
Q psy4226 95 RLCSAAKKALSKIPTKHIKGEDKEISGDGECCAICIEFYKPSDIVRIL-----------------PC-----KHEYHKNC 152 (183)
Q Consensus 95 ~~~~~~~~~i~~l~~~~~~~~~~~~~~~~~~C~ICle~~~~~~~v~~l-----------------pC-----~H~Fh~~C 152 (183)
+....-++.+++-|....... .++.+.|--|+..-. .++.. +| .-++|.+|
T Consensus 247 rF~e~F~~~V~~Np~y~~~~~----~~e~e~CigC~~~~~---~vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~C 319 (358)
T PF10272_consen 247 RFVEAFKEQVEQNPRYSYPES----GQELEPCIGCMQAQP---NVKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLEC 319 (358)
T ss_pred HHHHHHHHHHHhCCccccCCC----ccccCCccccccCCC---CcEEEeccCCcccCCcccccCCCCccccccchHHHHH
Confidence 344555666666666555422 223666888886421 11111 23 34678999
Q ss_pred HHHHhcC-------------CCcccccccccc
Q psy4226 153 IDPWLLE-------------HRTCPMCKMDIL 171 (183)
Q Consensus 153 i~~Wl~~-------------~~~CP~CR~~i~ 171 (183)
+-+|+-. +-+||+||+.+-
T Consensus 320 m~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 320 MGKWFASRQDQQHPETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred HHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence 9999844 236999999753
No 90
>KOG2114|consensus
Probab=95.65 E-value=0.018 Score=52.85 Aligned_cols=41 Identities=24% Similarity=0.684 Sum_probs=32.6
Q ss_pred cccccccccccCCCceEEecCCCccccccHHHHhcCCCcccccccc
Q psy4226 124 ECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMD 169 (183)
Q Consensus 124 ~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~ 169 (183)
..|..|--.++-| .+...|||.||..|+. .....||-|+.+
T Consensus 841 skCs~C~~~LdlP--~VhF~CgHsyHqhC~e---~~~~~CP~C~~e 881 (933)
T KOG2114|consen 841 SKCSACEGTLDLP--FVHFLCGHSYHQHCLE---DKEDKCPKCLPE 881 (933)
T ss_pred eeecccCCccccc--eeeeecccHHHHHhhc---cCcccCCccchh
Confidence 4599998887766 3556799999999987 455679999873
No 91
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=95.25 E-value=0.015 Score=43.14 Aligned_cols=32 Identities=31% Similarity=0.715 Sum_probs=22.4
Q ss_pred ccccccccccccCCCceEEecCC------------C-ccccccHHHHh
Q psy4226 123 GECCAICIEFYKPSDIVRILPCK------------H-EYHKNCIDPWL 157 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~------------H-~Fh~~Ci~~Wl 157 (183)
+..|+||+|- +-+.+.|-|. . .-|..|+++.-
T Consensus 2 d~~CpICme~---PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfk 46 (162)
T PF07800_consen 2 DVTCPICMEH---PHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFK 46 (162)
T ss_pred CccCceeccC---CCceEEEEeccccCCccccccCCccchhHHHHHHH
Confidence 4569999998 4444777662 2 25889999864
No 92
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=95.13 E-value=0.0099 Score=49.22 Aligned_cols=51 Identities=22% Similarity=0.490 Sum_probs=36.0
Q ss_pred ccccccccccccCCCc-eEEecCCCccccccHHHHhcC-CCcccccccccccc
Q psy4226 123 GECCAICIEFYKPSDI-VRILPCKHEYHKNCIDPWLLE-HRTCPMCKMDILKH 173 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~-v~~lpC~H~Fh~~Ci~~Wl~~-~~~CP~CR~~i~~~ 173 (183)
+|.|+.|+|+++..|+ ..--|||--.|.-|...--+. +..||-||+...+.
T Consensus 14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~de 66 (480)
T COG5175 14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDE 66 (480)
T ss_pred cccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcccc
Confidence 5569999999998764 344568987777775442222 56799999876543
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=95.09 E-value=0.0071 Score=35.14 Aligned_cols=41 Identities=22% Similarity=0.663 Sum_probs=22.3
Q ss_pred cccccccccCCCceEEecCCCccccccHHHHhcCCC--ccccc
Q psy4226 126 CAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHR--TCPMC 166 (183)
Q Consensus 126 C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~--~CP~C 166 (183)
|.+|-+-...|.......|+=.+|..|++.++...+ .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 556666655553332334888899999999998866 79987
No 94
>KOG2034|consensus
Probab=95.06 E-value=0.0088 Score=55.01 Aligned_cols=35 Identities=20% Similarity=0.552 Sum_probs=29.4
Q ss_pred CccccccccccccCCCceEEecCCCccccccHHHHh
Q psy4226 122 DGECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWL 157 (183)
Q Consensus 122 ~~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl 157 (183)
.++.|.+|--.+-. .+-.+-||||.||++|+.+-.
T Consensus 816 p~d~C~~C~~~ll~-~pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 816 PQDSCDHCGRPLLI-KPFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred CccchHHhcchhhc-CcceeeeccchHHHHHHHHHH
Confidence 36779999988775 477899999999999998765
No 95
>KOG2932|consensus
Probab=94.81 E-value=0.0089 Score=48.87 Aligned_cols=47 Identities=23% Similarity=0.557 Sum_probs=32.1
Q ss_pred ccccccccccccCCCceEEecCCCccccccHHHHhcCCCcccccccccccc
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILKH 173 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~ 173 (183)
...|.-|=-.+.. --|..||+|+||.+|... ..-+.||.|--.|.+-
T Consensus 90 VHfCd~Cd~PI~I--YGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~VqrI 136 (389)
T KOG2932|consen 90 VHFCDRCDFPIAI--YGRMIPCKHVFCLECARS--DSDKICPLCDDRVQRI 136 (389)
T ss_pred eEeecccCCccee--eecccccchhhhhhhhhc--CccccCcCcccHHHHH
Confidence 3457666443322 237899999999999654 4456899997766653
No 96
>KOG3268|consensus
Probab=94.27 E-value=0.022 Score=43.07 Aligned_cols=33 Identities=27% Similarity=0.764 Sum_probs=25.8
Q ss_pred EEecCCCccccccHHHHhcC----C-------Cccccccccccc
Q psy4226 140 RILPCKHEYHKNCIDPWLLE----H-------RTCPMCKMDILK 172 (183)
Q Consensus 140 ~~lpC~H~Fh~~Ci~~Wl~~----~-------~~CP~CR~~i~~ 172 (183)
--..||.-||.-|+..||.. + ..||.|..++.-
T Consensus 186 dN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 186 DNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred cccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence 34569999999999999955 1 259999888754
No 97
>KOG0298|consensus
Probab=94.15 E-value=0.012 Score=56.24 Aligned_cols=43 Identities=33% Similarity=0.795 Sum_probs=37.8
Q ss_pred ccccccccccc-CCCceEEecCCCccccccHHHHhcCCCcccccccc
Q psy4226 124 ECCAICIEFYK-PSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMD 169 (183)
Q Consensus 124 ~~C~ICle~~~-~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~ 169 (183)
..|.||++-+. .+ .+..|||.+|..|...|+..+..||+|+..
T Consensus 1154 ~~c~ic~dil~~~~---~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1154 FVCEICLDILRNQG---GIAGCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred cchHHHHHHHHhcC---CeeeechhHhhhHHHHHHHHhccCcchhhh
Confidence 37999999988 34 577799999999999999999999999843
No 98
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=94.04 E-value=0.054 Score=32.93 Aligned_cols=39 Identities=28% Similarity=0.711 Sum_probs=31.3
Q ss_pred ccccccccccccCCCceEEec-CCCccccccHHHHhcCCCcccc
Q psy4226 123 GECCAICIEFYKPSDIVRILP-CKHEYHKNCIDPWLLEHRTCPM 165 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lp-C~H~Fh~~Ci~~Wl~~~~~CP~ 165 (183)
+..|++|-+.|.++|.+.+=| ||-.+|++|.+. ...|-.
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~ 44 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCIN 44 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEe
Confidence 456999999999888877777 999999999543 455655
No 99
>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=93.66 E-value=0.02 Score=45.28 Aligned_cols=48 Identities=27% Similarity=0.627 Sum_probs=35.0
Q ss_pred cccccccccc-ccCCC-ceEEec-CCCccccccHHHHhcCCC-ccc--cccccc
Q psy4226 123 GECCAICIEF-YKPSD-IVRILP-CKHEYHKNCIDPWLLEHR-TCP--MCKMDI 170 (183)
Q Consensus 123 ~~~C~ICle~-~~~~~-~v~~lp-C~H~Fh~~Ci~~Wl~~~~-~CP--~CR~~i 170 (183)
+..|++|..+ |-++| ++.+-| |-|..|.+|++.-+...+ .|| -|..-+
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kIL 63 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKIL 63 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHH
Confidence 4479999976 44444 344457 999999999999887754 699 784433
No 100
>KOG3800|consensus
Probab=93.55 E-value=0.049 Score=44.20 Aligned_cols=55 Identities=25% Similarity=0.493 Sum_probs=37.4
Q ss_pred cccccccc-ccCCC-ceEEecCCCccccccHHHHhcCCC-cccccccccccccCCCCCC
Q psy4226 125 CCAICIEF-YKPSD-IVRILPCKHEYHKNCIDPWLLEHR-TCPMCKMDILKHYGFVSYL 180 (183)
Q Consensus 125 ~C~ICle~-~~~~~-~v~~lpC~H~Fh~~Ci~~Wl~~~~-~CP~CR~~i~~~~~~~~~~ 180 (183)
.|++|-.+ |.+++ ...+-+|+|..|.+|.+.-+.... .||-|-..+.+ .++...+
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk-~nfr~q~ 59 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRK-NNFRVQT 59 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhh-cccchhh
Confidence 48999864 44444 333447999999999999776644 69999665554 3443333
No 101
>KOG3899|consensus
Probab=93.38 E-value=0.031 Score=45.43 Aligned_cols=29 Identities=17% Similarity=0.722 Sum_probs=22.5
Q ss_pred CCCccccccHHHHhcC-------------CCccccccccccc
Q psy4226 144 CKHEYHKNCIDPWLLE-------------HRTCPMCKMDILK 172 (183)
Q Consensus 144 C~H~Fh~~Ci~~Wl~~-------------~~~CP~CR~~i~~ 172 (183)
|.-.+|.+|+.+|+.. +.+||+||+++--
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci 366 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI 366 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence 4567999999999833 4579999998653
No 102
>KOG0309|consensus
Probab=93.14 E-value=0.039 Score=50.19 Aligned_cols=26 Identities=27% Similarity=0.632 Sum_probs=23.1
Q ss_pred EEecCCCccccccHHHHhcCCCcccc
Q psy4226 140 RILPCKHEYHKNCIDPWLLEHRTCPM 165 (183)
Q Consensus 140 ~~lpC~H~Fh~~Ci~~Wl~~~~~CP~ 165 (183)
....|+|..|.+|..+|+.....||-
T Consensus 1044 ~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1044 FCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred hhccccccccHHHHHHHHhcCCcCCC
Confidence 44679999999999999999999985
No 103
>KOG1609|consensus
Probab=92.98 E-value=0.044 Score=44.95 Aligned_cols=52 Identities=31% Similarity=0.685 Sum_probs=37.5
Q ss_pred CccccccccccccCCCc-eEEecCC-----CccccccHHHHhcC--CCcccccccccccc
Q psy4226 122 DGECCAICIEFYKPSDI-VRILPCK-----HEYHKNCIDPWLLE--HRTCPMCKMDILKH 173 (183)
Q Consensus 122 ~~~~C~ICle~~~~~~~-v~~lpC~-----H~Fh~~Ci~~Wl~~--~~~CP~CR~~i~~~ 173 (183)
++..|-||.++...... ....||. +..|..|++.|+.. +..|..|.......
T Consensus 77 ~~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 77 SGPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred CCCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence 34679999997654321 3567763 45899999999984 55799997765543
No 104
>KOG3161|consensus
Probab=92.98 E-value=0.02 Score=51.13 Aligned_cols=43 Identities=28% Similarity=0.627 Sum_probs=32.2
Q ss_pred cccccccccccCCC-ceEEecCCCccccccHHHHhcCCCcccccccc
Q psy4226 124 ECCAICIEFYKPSD-IVRILPCKHEYHKNCIDPWLLEHRTCPMCKMD 169 (183)
Q Consensus 124 ~~C~ICle~~~~~~-~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~ 169 (183)
..|.||+..|.... .-+-|-|||..|..|++. ..+.+|| |+++
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~--lyn~scp-~~~D 55 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQL--LYNASCP-TKRD 55 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHh--HhhccCC-CCcc
Confidence 46999988877553 224556999999999976 3567899 7665
No 105
>KOG4362|consensus
Probab=92.79 E-value=0.025 Score=51.11 Aligned_cols=48 Identities=33% Similarity=0.750 Sum_probs=39.2
Q ss_pred cccccccccccCCCceEEecCCCccccccHHHHhcCCC---ccccccccccccc
Q psy4226 124 ECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHR---TCPMCKMDILKHY 174 (183)
Q Consensus 124 ~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~---~CP~CR~~i~~~~ 174 (183)
.+|+||++.+..+ ..+.|-|.|+..|+..-+...+ .||+|+..+.+..
T Consensus 22 lEc~ic~~~~~~p---~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s 72 (684)
T KOG4362|consen 22 LECPICLEHVKEP---SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRS 72 (684)
T ss_pred ccCCceeEEeecc---chhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhh
Confidence 3599999999988 7888999999999886555543 5999998887654
No 106
>KOG3053|consensus
Probab=92.57 E-value=0.041 Score=43.91 Aligned_cols=52 Identities=25% Similarity=0.758 Sum_probs=36.3
Q ss_pred CccccccccccccCCCce-EEecC-----CCccccccHHHHhcCCC--------cccccccccccc
Q psy4226 122 DGECCAICIEFYKPSDIV-RILPC-----KHEYHKNCIDPWLLEHR--------TCPMCKMDILKH 173 (183)
Q Consensus 122 ~~~~C~ICle~~~~~~~v-~~lpC-----~H~Fh~~Ci~~Wl~~~~--------~CP~CR~~i~~~ 173 (183)
.+..|=||+..=+++... -+-|| .|--|.+|+..|++++. +||-|+..-...
T Consensus 19 ~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv 84 (293)
T KOG3053|consen 19 LERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIV 84 (293)
T ss_pred cceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheee
Confidence 355799999874443221 34577 36799999999997642 599999875543
No 107
>KOG1812|consensus
Probab=91.99 E-value=0.044 Score=46.75 Aligned_cols=37 Identities=30% Similarity=0.698 Sum_probs=28.5
Q ss_pred cccccccc-ccccCCCceEEecCCCccccccHHHHhcC
Q psy4226 123 GECCAICI-EFYKPSDIVRILPCKHEYHKNCIDPWLLE 159 (183)
Q Consensus 123 ~~~C~ICl-e~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~ 159 (183)
..+|.||. ++....+...+..|+|.||.+|..+.+..
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEV 183 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhh
Confidence 56799999 44444355566779999999999988764
No 108
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=91.78 E-value=0.063 Score=31.62 Aligned_cols=33 Identities=24% Similarity=0.651 Sum_probs=23.1
Q ss_pred EecC-CCccccccHHHHhcCCCcccccccccccc
Q psy4226 141 ILPC-KHEYHKNCIDPWLLEHRTCPMCKMDILKH 173 (183)
Q Consensus 141 ~lpC-~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~ 173 (183)
...| .|..|..|+...+.....||+|..++++.
T Consensus 15 Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 15 LIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp EEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred eeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence 4567 59999999999888889999999998864
No 109
>KOG4367|consensus
Probab=90.95 E-value=0.12 Score=44.41 Aligned_cols=34 Identities=32% Similarity=0.783 Sum_probs=29.3
Q ss_pred ccccccccccccCCCceEEecCCCccccccHHHHhcC
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLE 159 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~ 159 (183)
...|+||..-|+++ ++|||+|..|..|...-+.+
T Consensus 4 elkc~vc~~f~~ep---iil~c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 4 ELKCPVCGSFYREP---IILPCSHNLCQACARNILVQ 37 (699)
T ss_pred cccCceehhhccCc---eEeecccHHHHHHHHhhccc
Confidence 34599999999998 99999999999998876644
No 110
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=90.93 E-value=0.24 Score=45.68 Aligned_cols=54 Identities=24% Similarity=0.554 Sum_probs=38.9
Q ss_pred CCCccccccccccccCCCceEEecCCC-----ccccccHHHHhcCCC--ccccccccccccc
Q psy4226 120 SGDGECCAICIEFYKPSDIVRILPCKH-----EYHKNCIDPWLLEHR--TCPMCKMDILKHY 174 (183)
Q Consensus 120 ~~~~~~C~ICle~~~~~~~v~~lpC~H-----~Fh~~Ci~~Wl~~~~--~CP~CR~~i~~~~ 174 (183)
.++...|-||..+=.+++++ --||+. ..|++|+-+|+.... .|-+|+.++.-.+
T Consensus 9 N~d~~~CRICr~e~~~d~pL-fhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~ 69 (1175)
T COG5183 9 NEDKRSCRICRTEDIRDDPL-FHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD 69 (1175)
T ss_pred CccchhceeecCCCCCCCcC-cccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence 44567899999876655544 346642 389999999998754 5999988765443
No 111
>KOG2817|consensus
Probab=90.87 E-value=0.16 Score=42.98 Aligned_cols=49 Identities=18% Similarity=0.358 Sum_probs=38.9
Q ss_pred CccccccccccccCCCceEEecCCCccccccHHHHhcCCC---ccccccccc
Q psy4226 122 DGECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHR---TCPMCKMDI 170 (183)
Q Consensus 122 ~~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~---~CP~CR~~i 170 (183)
+...|||=-+.-.+..+-..|.|||+..++-+++--++.. .||.|=.+-
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~ 384 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQ 384 (394)
T ss_pred ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCccc
Confidence 3568999888877777889999999999999999655533 599995443
No 112
>KOG0802|consensus
Probab=90.51 E-value=0.15 Score=45.50 Aligned_cols=50 Identities=30% Similarity=0.749 Sum_probs=41.4
Q ss_pred CCccccccccccccCCCceEEecCCCccccccHHHHhcCCCcccccccccccccCCC
Q psy4226 121 GDGECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILKHYGFV 177 (183)
Q Consensus 121 ~~~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~~~~~ 177 (183)
+..+.|.+|+++. ..+..+|. |..|+..|+..+..||+|+..+..++...
T Consensus 477 ~~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~~~ 526 (543)
T KOG0802|consen 477 EPNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDDFLS 526 (543)
T ss_pred cccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhhcccccC
Confidence 3456799999998 34788898 89999999999999999998887766543
No 113
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=89.17 E-value=0.15 Score=36.77 Aligned_cols=51 Identities=20% Similarity=0.344 Sum_probs=35.0
Q ss_pred ccccccccccccCCCceEEec-CCCccccccHHHHhcC---CCcccccccccccc
Q psy4226 123 GECCAICIEFYKPSDIVRILP-CKHEYHKNCIDPWLLE---HRTCPMCKMDILKH 173 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lp-C~H~Fh~~Ci~~Wl~~---~~~CP~CR~~i~~~ 173 (183)
-.+|.||.|.-.+..-+..=. ||-..|..|--.-++. .+.||+|+..+-..
T Consensus 80 lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 80 LYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred ceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 557999999866542211112 8999999996655544 56899999876543
No 114
>KOG1829|consensus
Probab=88.93 E-value=0.29 Score=43.77 Aligned_cols=42 Identities=26% Similarity=0.747 Sum_probs=27.0
Q ss_pred Ccccccccccc-----ccCCCceEEecCCCccccccHHHHhcCCCccccc
Q psy4226 122 DGECCAICIEF-----YKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMC 166 (183)
Q Consensus 122 ~~~~C~ICle~-----~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~C 166 (183)
.+..|.+|..+ |+.....+-..|+++||..|... .+..||.|
T Consensus 510 ~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r---~s~~CPrC 556 (580)
T KOG1829|consen 510 KGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR---KSPCCPRC 556 (580)
T ss_pred CeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc---cCCCCCch
Confidence 35678888432 32222344456999999999654 33349999
No 115
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=86.63 E-value=0.46 Score=36.93 Aligned_cols=41 Identities=34% Similarity=0.847 Sum_probs=27.8
Q ss_pred Ccccccccccc-----ccCCCceEEecCCCccccccHHHHhcCCCcccccc
Q psy4226 122 DGECCAICIEF-----YKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCK 167 (183)
Q Consensus 122 ~~~~C~ICle~-----~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR 167 (183)
.+..|-+|-++ |+.....+--.|+-+||..|.. . ..||.|.
T Consensus 151 kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~----~-~~CpkC~ 196 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFR----K-KSCPKCA 196 (202)
T ss_pred CCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcC----C-CCCCCcH
Confidence 36678888753 3333333444599999999964 2 6799994
No 116
>KOG0269|consensus
Probab=86.19 E-value=1.8 Score=39.75 Aligned_cols=40 Identities=20% Similarity=0.490 Sum_probs=29.1
Q ss_pred ccccccccccCCCceEEecCCCccccccHHHHhcCCCcccc
Q psy4226 125 CCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPM 165 (183)
Q Consensus 125 ~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~ 165 (183)
.|++|-..... ..+-.--|||.-|.+|+.+|+..+.-||.
T Consensus 781 ~CtVC~~vi~G-~~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 781 KCTVCDLVIRG-VDVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred Cceeecceeee-eEeecccccccccHHHHHHHHhcCCCCcc
Confidence 58888665442 22222239999999999999999887876
No 117
>KOG0825|consensus
Probab=85.16 E-value=0.44 Score=43.87 Aligned_cols=51 Identities=16% Similarity=0.282 Sum_probs=35.9
Q ss_pred CccccccccccccCCC-ceEEec---CCCccccccHHHHhcC------CCccccccccccc
Q psy4226 122 DGECCAICIEFYKPSD-IVRILP---CKHEYHKNCIDPWLLE------HRTCPMCKMDILK 172 (183)
Q Consensus 122 ~~~~C~ICle~~~~~~-~v~~lp---C~H~Fh~~Ci~~Wl~~------~~~CP~CR~~i~~ 172 (183)
+.++|.+|.-++.+++ -.-..| |+|.||..||..|..+ +-.|+.|..-|..
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~s 155 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGS 155 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhh
Confidence 3457777777776632 223444 9999999999999866 2358999776543
No 118
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=84.94 E-value=0.88 Score=24.65 Aligned_cols=36 Identities=19% Similarity=0.553 Sum_probs=24.9
Q ss_pred cccccccccCCCceEEecCCCccccccHHHHhcCCCccccccccc
Q psy4226 126 CAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDI 170 (183)
Q Consensus 126 C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i 170 (183)
|+.|-+.+...+. ....=+..||.+|. .|..|+..+
T Consensus 2 C~~C~~~i~~~~~-~~~~~~~~~H~~Cf--------~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGEL-VLRALGKVWHPECF--------KCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcE-EEEeCCccccccCC--------CCcccCCcC
Confidence 7788887776522 23334788999985 688887765
No 119
>KOG2066|consensus
Probab=84.62 E-value=0.41 Score=43.98 Aligned_cols=42 Identities=38% Similarity=0.706 Sum_probs=31.5
Q ss_pred cccccccccccCC----CceEEecCCCccccccHHHHhcCCCccccc
Q psy4226 124 ECCAICIEFYKPS----DIVRILPCKHEYHKNCIDPWLLEHRTCPMC 166 (183)
Q Consensus 124 ~~C~ICle~~~~~----~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~C 166 (183)
+.|.-|++..... +.+.++.|||.||+.|+..-..++. |-.|
T Consensus 785 ~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 785 ERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred hhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChh
Confidence 3699999875532 5678899999999999987665554 5555
No 120
>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=83.85 E-value=0.37 Score=28.79 Aligned_cols=42 Identities=24% Similarity=0.546 Sum_probs=20.7
Q ss_pred ccccccccccCCCceEEecCCCccccccHHHHhcCCC-----cccccccc
Q psy4226 125 CCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHR-----TCPMCKMD 169 (183)
Q Consensus 125 ~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~-----~CP~CR~~ 169 (183)
.|++....+.. ++|-..|.|.-|.+ ++.|++... .||+|.++
T Consensus 4 ~CPls~~~i~~--P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 4 RCPLSFQRIRI--PVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp B-TTTSSB-SS--EEEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eCCCCCCEEEe--CccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 48888887765 45677799974433 456665432 59999763
No 121
>KOG3039|consensus
Probab=81.22 E-value=1 Score=36.03 Aligned_cols=35 Identities=17% Similarity=0.428 Sum_probs=30.5
Q ss_pred CccccccccccccCCCceEEecCCCccccccHHHHhcC
Q psy4226 122 DGECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLE 159 (183)
Q Consensus 122 ~~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~ 159 (183)
+-+.|+.||.++.++ .+.|=||+|+++||-+.+..
T Consensus 42 ~FdcCsLtLqPc~dP---vit~~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 42 PFDCCSLTLQPCRDP---VITPDGYLFDREAILEYILA 76 (303)
T ss_pred CcceeeeecccccCC---ccCCCCeeeeHHHHHHHHHH
Confidence 367799999999988 89999999999999887643
No 122
>KOG2807|consensus
Probab=79.51 E-value=1.9 Score=35.85 Aligned_cols=46 Identities=22% Similarity=0.366 Sum_probs=32.4
Q ss_pred ccccccccccccCCCceEEecCCCccccccHHHHhcCCCccccccc
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKM 168 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~ 168 (183)
...|-.|.++.......+--.|+|.||.+|-.=--+.-..||-|..
T Consensus 330 ~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 330 SRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred CcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcCC
Confidence 3459999888777766666679999999994321122345999963
No 123
>KOG1815|consensus
Probab=78.81 E-value=0.93 Score=39.45 Aligned_cols=35 Identities=29% Similarity=0.569 Sum_probs=29.3
Q ss_pred ccccccccccccCCCceEEecCCCccccccHHHHhcC
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLE 159 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~ 159 (183)
..+|-||.+.+.. ....+.|||.||..|....+..
T Consensus 70 ~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 70 DVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred cccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhh
Confidence 4579999999775 5577889999999999888755
No 124
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=78.48 E-value=3.7 Score=28.86 Aligned_cols=44 Identities=18% Similarity=0.295 Sum_probs=30.9
Q ss_pred cccccccccccCCC-----------ceEEecCCCccccccHHHHhcCCCcccccc
Q psy4226 124 ECCAICIEFYKPSD-----------IVRILPCKHEYHKNCIDPWLLEHRTCPMCK 167 (183)
Q Consensus 124 ~~C~ICle~~~~~~-----------~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR 167 (183)
..|--|+..|..+. ..+-..|++.||.+|=.=+-+.-..||-|.
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 45999999886531 122345999999999655555556799995
No 125
>KOG3842|consensus
Probab=77.77 E-value=2.3 Score=35.30 Aligned_cols=56 Identities=20% Similarity=0.547 Sum_probs=38.5
Q ss_pred cccccccccccc---------------CC-CceEEecCCCccccccHHHHhcC---------CCcccccccccccccCCC
Q psy4226 123 GECCAICIEFYK---------------PS-DIVRILPCKHEYHKNCIDPWLLE---------HRTCPMCKMDILKHYGFV 177 (183)
Q Consensus 123 ~~~C~ICle~~~---------------~~-~~v~~lpC~H~Fh~~Ci~~Wl~~---------~~~CP~CR~~i~~~~~~~ 177 (183)
..+|++|+..=. .+ -.-.-.||||+--+.=..-|-.. +..||.|-..+..+.|+.
T Consensus 341 ~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge~~~i 420 (429)
T KOG3842|consen 341 ERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGEQGYI 420 (429)
T ss_pred cCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhccCCceE
Confidence 557999997511 01 01233589999888888888744 346999999888877754
Q ss_pred C
Q psy4226 178 S 178 (183)
Q Consensus 178 ~ 178 (183)
-
T Consensus 421 k 421 (429)
T KOG3842|consen 421 K 421 (429)
T ss_pred E
Confidence 3
No 126
>KOG1812|consensus
Probab=77.26 E-value=1.2 Score=38.17 Aligned_cols=46 Identities=20% Similarity=0.422 Sum_probs=32.4
Q ss_pred ccccccccccccCCCceEEe--cCCCccccccHHHHhcCCCccccccc
Q psy4226 123 GECCAICIEFYKPSDIVRIL--PCKHEYHKNCIDPWLLEHRTCPMCKM 168 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~l--pC~H~Fh~~Ci~~Wl~~~~~CP~CR~ 168 (183)
...|+.|.-.++-.+-.... .|||-||..|..+|...+..|.-|-+
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~~r 353 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYECCR 353 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCccc
Confidence 34688887766544423333 38999999999999888887766533
No 127
>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=76.69 E-value=2.1 Score=25.65 Aligned_cols=40 Identities=20% Similarity=0.431 Sum_probs=28.3
Q ss_pred cccccccccCCCceEEecCCCccccccHHHHhcCCCccccccccccccc
Q psy4226 126 CAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILKHY 174 (183)
Q Consensus 126 C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~~ 174 (183)
|+-|-+.+..++ ..+..-|..||.+|. +|-.|+.++....
T Consensus 1 C~~C~~~I~~~~-~~~~~~~~~~H~~Cf--------~C~~C~~~l~~~~ 40 (58)
T PF00412_consen 1 CARCGKPIYGTE-IVIKAMGKFWHPECF--------KCSKCGKPLNDGD 40 (58)
T ss_dssp BTTTSSBESSSS-EEEEETTEEEETTTS--------BETTTTCBTTTSS
T ss_pred CCCCCCCccCcE-EEEEeCCcEEEcccc--------ccCCCCCccCCCe
Confidence 667777777543 233357888999885 7999988876654
No 128
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=76.47 E-value=0.82 Score=38.92 Aligned_cols=29 Identities=31% Similarity=0.616 Sum_probs=0.0
Q ss_pred ceEEecCCCccccccHHHHhcC------CCcccccccc
Q psy4226 138 IVRILPCKHEYHKNCIDPWLLE------HRTCPMCKMD 169 (183)
Q Consensus 138 ~v~~lpC~H~Fh~~Ci~~Wl~~------~~~CP~CR~~ 169 (183)
+-.-|.|||++-. ..|-.. .++||+||..
T Consensus 303 P~VYl~CGHVhG~---h~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 303 PWVYLNCGHVHGY---HNWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp --------------------------------------
T ss_pred ceeeccccceeee---cccccccccccccccCCCcccc
Confidence 3455789997542 256432 4579999864
No 129
>KOG2068|consensus
Probab=76.09 E-value=1.7 Score=36.13 Aligned_cols=49 Identities=22% Similarity=0.408 Sum_probs=36.6
Q ss_pred cccccccccccCCC-ceEEecCCCccccccHHHHhcCCCccccccccccc
Q psy4226 124 ECCAICIEFYKPSD-IVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILK 172 (183)
Q Consensus 124 ~~C~ICle~~~~~~-~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~ 172 (183)
..|+||.++....+ ...--||||..|..|+..-...+.+||.||.+...
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYER 299 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCcccc
Confidence 57999999875443 33334578888888888877788899999966543
No 130
>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=75.47 E-value=0.32 Score=31.18 Aligned_cols=40 Identities=18% Similarity=0.350 Sum_probs=22.5
Q ss_pred ccccccccccCCCceEEecCCCccccccHHHHhcCCCccccccccccc
Q psy4226 125 CCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILK 172 (183)
Q Consensus 125 ~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~ 172 (183)
.|+.|..++.... +|..|..|-.. +.....||-|..++..
T Consensus 3 ~CP~C~~~L~~~~-------~~~~C~~C~~~-~~~~a~CPdC~~~Le~ 42 (70)
T PF07191_consen 3 TCPKCQQELEWQG-------GHYHCEACQKD-YKKEAFCPDCGQPLEV 42 (70)
T ss_dssp B-SSS-SBEEEET-------TEEEETTT--E-EEEEEE-TTT-SB-EE
T ss_pred cCCCCCCccEEeC-------CEEECcccccc-ceecccCCCcccHHHH
Confidence 4888988765432 67778888665 4556679999777643
No 131
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the 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=72.18 E-value=2.7 Score=25.29 Aligned_cols=41 Identities=24% Similarity=0.610 Sum_probs=19.2
Q ss_pred cccccccccCCC------ceEEec-CCCccccccHHHHhcC-CCcccccc
Q psy4226 126 CAICIEFYKPSD------IVRILP-CKHEYHKNCIDPWLLE-HRTCPMCK 167 (183)
Q Consensus 126 C~ICle~~~~~~------~v~~lp-C~H~Fh~~Ci~~Wl~~-~~~CP~CR 167 (183)
|--|+..+..+. ....=| |++.||.+|= -.+.. -..||-|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD-~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCD-VFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHH-HTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcC-hhhhccccCCcCCC
Confidence 555666666542 223334 8999999993 22222 34699884
No 133
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=71.45 E-value=2.6 Score=26.47 Aligned_cols=35 Identities=14% Similarity=0.270 Sum_probs=17.7
Q ss_pred ccccccccccccCCCceEE-ecCCCccccccHHHHh
Q psy4226 123 GECCAICIEFYKPSDIVRI-LPCKHEYHKNCIDPWL 157 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~-lpC~H~Fh~~Ci~~Wl 157 (183)
...|.+|...|..-..-.. -.||++||.+|.....
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 5679999999975422112 2389999999987654
No 134
>KOG3005|consensus
Probab=70.56 E-value=2.3 Score=34.44 Aligned_cols=47 Identities=28% Similarity=0.542 Sum_probs=34.1
Q ss_pred cccccccccccCCCceEEe----cCCCccccccHHHHhcC---------CCccccccccc
Q psy4226 124 ECCAICIEFYKPSDIVRIL----PCKHEYHKNCIDPWLLE---------HRTCPMCKMDI 170 (183)
Q Consensus 124 ~~C~ICle~~~~~~~v~~l----pC~H~Fh~~Ci~~Wl~~---------~~~CP~CR~~i 170 (183)
..|-+|.+++.+.+..+.+ .|+-.+|..|+..-+.. ...||.|++-+
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 5899999999665554443 27778999999884433 24699998743
No 135
>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=70.35 E-value=1.5 Score=26.40 Aligned_cols=12 Identities=25% Similarity=0.827 Sum_probs=6.4
Q ss_pred cccccccccccc
Q psy4226 162 TCPMCKMDILKH 173 (183)
Q Consensus 162 ~CP~CR~~i~~~ 173 (183)
.||+|.+++.+.
T Consensus 22 ~CPlC~r~l~~e 33 (54)
T PF04423_consen 22 CCPLCGRPLDEE 33 (54)
T ss_dssp E-TTT--EE-HH
T ss_pred cCCCCCCCCCHH
Confidence 799999988764
No 136
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=69.92 E-value=2.9 Score=24.49 Aligned_cols=43 Identities=26% Similarity=0.683 Sum_probs=28.5
Q ss_pred cccccccccCCCceEEecCCCccccccHHHHhcC------CCccccccc
Q psy4226 126 CAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLE------HRTCPMCKM 168 (183)
Q Consensus 126 C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~------~~~CP~CR~ 168 (183)
|.||...-..++.+.=-.|+..||..|+..=... .-.||.|+.
T Consensus 2 C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 2 CPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp BTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred CcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 8889885444444444458889999998754331 235888864
No 137
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=69.30 E-value=2.9 Score=34.64 Aligned_cols=44 Identities=23% Similarity=0.469 Sum_probs=33.5
Q ss_pred ccccccccccccCCCceEEecCCCccccccHHHHhcCCC----cccccc
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHR----TCPMCK 167 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~----~CP~CR 167 (183)
-..|++=-+.-.+..+-..+.|||+.-.+-++. |.++. .||.|-
T Consensus 336 ~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~-LS~nG~~~FKCPYCP 383 (396)
T COG5109 336 LFICPVLKELCTDENPPVMLECGHVISKEALSV-LSQNGVLSFKCPYCP 383 (396)
T ss_pred eeeccccHhhhcccCCCeeeeccceeeHHHHHH-HhhcCcEEeeCCCCC
Confidence 457998777666666778999999999999888 44433 599993
No 138
>KOG4718|consensus
Probab=68.58 E-value=2.2 Score=33.36 Aligned_cols=41 Identities=29% Similarity=0.833 Sum_probs=33.1
Q ss_pred cccccccccccCCCceEEecCCCccccccHHHHhcCCCccccc
Q psy4226 124 ECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMC 166 (183)
Q Consensus 124 ~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~C 166 (183)
..|.+|.+-.-.+ ++--.||--+|..|+...+.+...||-|
T Consensus 182 k~Cn~Ch~LvIqg--~rCg~c~i~~h~~c~qty~q~~~~cphc 222 (235)
T KOG4718|consen 182 KNCNLCHCLVIQG--IRCGSCNIQYHRGCIQTYLQRRDICPHC 222 (235)
T ss_pred HHHhHhHHHhhee--eccCcccchhhhHHHHHHhcccCcCCch
Confidence 4799998876554 2344577779999999999998899999
No 139
>KOG0824|consensus
Probab=68.23 E-value=3.3 Score=34.12 Aligned_cols=55 Identities=25% Similarity=0.489 Sum_probs=42.0
Q ss_pred CcccCCCccccccccccccCCCceEEecCCCccccccHHHHhcCCCccccccccccc
Q psy4226 116 DKEISGDGECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILK 172 (183)
Q Consensus 116 ~~~~~~~~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~ 172 (183)
+.....+.+.|-+|...+.-+. +.--|.|-|+..|...|....+-||.||...-+
T Consensus 98 dA~~~~~~~~~~~~~g~l~vpt--~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~p 152 (324)
T KOG0824|consen 98 DAGFQQDHDICYICYGKLTVPT--RIQGCWHQFCYVCPKSNFAMGNDCPDCRGKISP 152 (324)
T ss_pred hccccCCccceeeeeeeEEecc--cccCceeeeeecCCchhhhhhhccchhhcCcCc
Confidence 3333445678999998887663 233399999999999999999999999876544
No 140
>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=67.79 E-value=2.1 Score=27.02 Aligned_cols=12 Identities=33% Similarity=1.113 Sum_probs=8.7
Q ss_pred cccccHHHHhcC
Q psy4226 148 YHKNCIDPWLLE 159 (183)
Q Consensus 148 Fh~~Ci~~Wl~~ 159 (183)
||+.|+.+|+..
T Consensus 12 FCRNCLskWy~~ 23 (68)
T PF06844_consen 12 FCRNCLSKWYRE 23 (68)
T ss_dssp --HHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 999999999854
No 141
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=67.41 E-value=2.9 Score=23.04 Aligned_cols=25 Identities=32% Similarity=0.634 Sum_probs=14.3
Q ss_pred ccccccccccCCCc--------eEEecCCCccc
Q psy4226 125 CCAICIEFYKPSDI--------VRILPCKHEYH 149 (183)
Q Consensus 125 ~C~ICle~~~~~~~--------v~~lpC~H~Fh 149 (183)
+|+=|...|..+|. ++-..|||.|+
T Consensus 4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVFF 36 (36)
T ss_pred ECCCCCCEEeCCHHHCCCCCcEEECCCCCCEeC
Confidence 47777777765442 33334677664
No 142
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=67.07 E-value=3.1 Score=25.76 Aligned_cols=17 Identities=24% Similarity=0.700 Sum_probs=12.3
Q ss_pred CCcccccccccccccCC
Q psy4226 160 HRTCPMCKMDILKHYGF 176 (183)
Q Consensus 160 ~~~CP~CR~~i~~~~~~ 176 (183)
.++||+|..+..+..-.
T Consensus 39 ~p~CPlC~s~M~~~~r~ 55 (59)
T PF14169_consen 39 EPVCPLCKSPMVSGTRM 55 (59)
T ss_pred CccCCCcCCccccceee
Confidence 46799999887765443
No 143
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=64.92 E-value=30 Score=21.31 Aligned_cols=22 Identities=23% Similarity=0.125 Sum_probs=9.5
Q ss_pred hhhHhHHHHHHHHHHHHHHHHHH
Q psy4226 57 PISIGDLPRAVSLTLFQTELIFY 79 (183)
Q Consensus 57 ~isf~~l~~~is~~l~~~~~~f~ 79 (183)
++..+++ .++.+++...+++..
T Consensus 19 pl~l~il-~~f~~G~llg~l~~~ 40 (68)
T PF06305_consen 19 PLGLLIL-IAFLLGALLGWLLSL 40 (68)
T ss_pred hHHHHHH-HHHHHHHHHHHHHHH
Confidence 4444444 344444444444443
No 144
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=64.71 E-value=4.4 Score=21.78 Aligned_cols=9 Identities=33% Similarity=1.025 Sum_probs=6.6
Q ss_pred CCccccccc
Q psy4226 160 HRTCPMCKM 168 (183)
Q Consensus 160 ~~~CP~CR~ 168 (183)
...||+|..
T Consensus 17 ~~~CP~Cg~ 25 (33)
T cd00350 17 PWVCPVCGA 25 (33)
T ss_pred CCcCcCCCC
Confidence 337999965
No 145
>KOG3579|consensus
Probab=64.12 E-value=4.2 Score=33.29 Aligned_cols=34 Identities=21% Similarity=0.648 Sum_probs=27.5
Q ss_pred cccccccccccCCCceEEecC----CCccccccHHHHhcCC
Q psy4226 124 ECCAICIEFYKPSDIVRILPC----KHEYHKNCIDPWLLEH 160 (183)
Q Consensus 124 ~~C~ICle~~~~~~~v~~lpC----~H~Fh~~Ci~~Wl~~~ 160 (183)
..|.+|.|.+++. --..| .|-||.-|-++-++.+
T Consensus 269 LcCTLC~ERLEDT---HFVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 269 LCCTLCHERLEDT---HFVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred eeehhhhhhhccC---ceeecCCCcccceecccCHHHHHhh
Confidence 4799999998876 34446 7999999999988764
No 146
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=63.37 E-value=2.7 Score=23.95 Aligned_cols=30 Identities=20% Similarity=0.334 Sum_probs=17.9
Q ss_pred EecCCCccccccHHHHhcCCCccccccc-ccc
Q psy4226 141 ILPCKHEYHKNCIDPWLLEHRTCPMCKM-DIL 171 (183)
Q Consensus 141 ~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~-~i~ 171 (183)
-..|||.|-..--..= .....||.|.. ++.
T Consensus 8 C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~~~~~ 38 (42)
T PF09723_consen 8 CEECGHEFEVLQSISE-DDPVPCPECGSTEVR 38 (42)
T ss_pred eCCCCCEEEEEEEcCC-CCCCcCCCCCCCceE
Confidence 3458888776542111 23457999988 443
No 147
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=62.18 E-value=8.3 Score=25.25 Aligned_cols=56 Identities=25% Similarity=0.484 Sum_probs=20.7
Q ss_pred ccccccccccccCCC--ceEE--ecCCCccccccHHHHhcC-CCcccccccccccccCCCC
Q psy4226 123 GECCAICIEFYKPSD--IVRI--LPCKHEYHKNCIDPWLLE-HRTCPMCKMDILKHYGFVS 178 (183)
Q Consensus 123 ~~~C~ICle~~~~~~--~v~~--lpC~H~Fh~~Ci~~Wl~~-~~~CP~CR~~i~~~~~~~~ 178 (183)
+..|-||-++....+ .+.+ -.|+--.|+.|.+-=.+. ++.||-|+...-..+|.+.
T Consensus 9 ~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr~kgsp~ 69 (80)
T PF14569_consen 9 GQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKRHKGSPR 69 (80)
T ss_dssp S-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B----TT---
T ss_pred CcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcccccCCCC
Confidence 567999998876432 2222 236777899998744433 6679999988887777554
No 148
>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=62.01 E-value=10 Score=23.16 Aligned_cols=44 Identities=20% Similarity=0.625 Sum_probs=29.7
Q ss_pred cccccccccCCCceEEecCCC--ccccccHHHHhcCCCccccccccccc
Q psy4226 126 CAICIEFYKPSDIVRILPCKH--EYHKNCIDPWLLEHRTCPMCKMDILK 172 (183)
Q Consensus 126 C~ICle~~~~~~~v~~lpC~H--~Fh~~Ci~~Wl~~~~~CP~CR~~i~~ 172 (183)
|--|-.++..+..- -.-|.+ .||.+|.+.-| +..||.|-..+.+
T Consensus 8 CE~C~~dLp~~s~~-A~ICSfECTFC~~C~e~~l--~~~CPNCgGelv~ 53 (57)
T PF06906_consen 8 CECCDKDLPPDSPE-AYICSFECTFCADCAETML--NGVCPNCGGELVR 53 (57)
T ss_pred ccccCCCCCCCCCc-ceEEeEeCcccHHHHHHHh--cCcCcCCCCcccc
Confidence 66676776654311 122554 69999999866 5689999877654
No 149
>PF05715 zf-piccolo: Piccolo Zn-finger; InterPro: IPR008899 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This (predicted) zinc finger is found in the bassoon and piccolo proteins, both of which are components of the presynaptic cytoskeletal matrix (PCM) assembled at the active zone of neurotransmitter release, where Piccolo plays a role in the trafficking of synaptic vesicles (SVs) [, , ]. The Piccolo zinc fingers were found to interact with the dual prenylated rab3A and VAMP2/Synaptobrevin II receptor PRA1. There are eight conserved cysteines in Piccolo-type zinc fingers, suggesting that they coordinates two zinc ligands. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding, 0045202 synapse
Probab=61.71 E-value=5.1 Score=24.78 Aligned_cols=14 Identities=29% Similarity=0.698 Sum_probs=7.7
Q ss_pred Cccccccccccccc
Q psy4226 161 RTCPMCKMDILKHY 174 (183)
Q Consensus 161 ~~CP~CR~~i~~~~ 174 (183)
..||+|+..+.-..
T Consensus 3 ~~CPlCkt~~n~gs 16 (61)
T PF05715_consen 3 SLCPLCKTTLNVGS 16 (61)
T ss_pred ccCCcccchhhcCC
Confidence 45666666654333
No 150
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=59.71 E-value=2.5 Score=34.62 Aligned_cols=47 Identities=17% Similarity=0.258 Sum_probs=21.0
Q ss_pred ccccccccccccCCCceEEec-----CCCccccccHHHHhcCCCccccccccccc
Q psy4226 123 GECCAICIEFYKPSDIVRILP-----CKHEYHKNCIDPWLLEHRTCPMCKMDILK 172 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lp-----C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~ 172 (183)
...|+||-..-.-+ .+.. =.|.+|.-|-.+|--....||.|-.+=..
T Consensus 172 ~g~CPvCGs~P~~s---~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~~~~ 223 (290)
T PF04216_consen 172 RGYCPVCGSPPVLS---VLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNTDHE 223 (290)
T ss_dssp -SS-TTT---EEEE---EEE------EEEEEETTT--EEE--TTS-TTT---SS-
T ss_pred CCcCCCCCCcCceE---EEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCCCCc
Confidence 45799998762221 1111 13568888999998888889999655333
No 152
>PLN02189 cellulose synthase
Probab=58.99 E-value=13 Score=35.76 Aligned_cols=57 Identities=23% Similarity=0.433 Sum_probs=38.1
Q ss_pred CccccccccccccC---CCceEEec-CCCccccccHHHHh-cCCCcccccccccccccCCCC
Q psy4226 122 DGECCAICIEFYKP---SDIVRILP-CKHEYHKNCIDPWL-LEHRTCPMCKMDILKHYGFVS 178 (183)
Q Consensus 122 ~~~~C~ICle~~~~---~~~v~~lp-C~H~Fh~~Ci~~Wl-~~~~~CP~CR~~i~~~~~~~~ 178 (183)
.+..|.||-|+... ++.-+.-. |+---|+.|.+-=- +.++.||-|+...-..+|.+.
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~r~kgs~~ 94 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYKRLKGSPR 94 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhccCCCC
Confidence 35579999999763 33322222 67779999985322 235679999988876665443
No 153
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=58.68 E-value=4.8 Score=20.91 Aligned_cols=16 Identities=38% Similarity=0.912 Sum_probs=8.8
Q ss_pred cccccccccccccCCC
Q psy4226 162 TCPMCKMDILKHYGFV 177 (183)
Q Consensus 162 ~CP~CR~~i~~~~~~~ 177 (183)
+||.|...+.+..+-+
T Consensus 1 ~CP~C~s~l~~~~~ev 16 (28)
T PF03119_consen 1 TCPVCGSKLVREEGEV 16 (28)
T ss_dssp B-TTT--BEEE-CCTT
T ss_pred CcCCCCCEeEcCCCCE
Confidence 4999999888766644
No 154
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=58.52 E-value=3.2 Score=35.43 Aligned_cols=59 Identities=22% Similarity=0.523 Sum_probs=0.0
Q ss_pred cccccccccccc--------------CC--CceEEecCCCccccccHHHHhcC---------CCcccccccccccccCCC
Q psy4226 123 GECCAICIEFYK--------------PS--DIVRILPCKHEYHKNCIDPWLLE---------HRTCPMCKMDILKHYGFV 177 (183)
Q Consensus 123 ~~~C~ICle~~~--------------~~--~~v~~lpC~H~Fh~~Ci~~Wl~~---------~~~CP~CR~~i~~~~~~~ 177 (183)
..+|++|+..-. +. -...--||||+-=+....-|-.. +..||.|-..+....|++
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g~~g~v 407 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDGEQGYV 407 (416)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCcccCCCCce
Confidence 568999996411 10 12334589999999999999744 246999999998888877
Q ss_pred CCCC
Q psy4226 178 SYLT 181 (183)
Q Consensus 178 ~~~~ 181 (183)
..+.
T Consensus 408 rLiF 411 (416)
T PF04710_consen 408 RLIF 411 (416)
T ss_dssp ----
T ss_pred EEEE
Confidence 6554
No 155
>KOG3113|consensus
Probab=57.82 E-value=7.3 Score=31.38 Aligned_cols=57 Identities=11% Similarity=0.121 Sum_probs=41.1
Q ss_pred ccccccccccccCCC-ceEEecCCCccccccHHHHhcCCCcccccccccccccCCCCCCC
Q psy4226 123 GECCAICIEFYKPSD-IVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILKHYGFVSYLT 181 (183)
Q Consensus 123 ~~~C~ICle~~~~~~-~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~~~~~~~~~ 181 (183)
...|+|=--+|...- -+...+|||+|-..-+.+. ...+|++|.+.....+-++-+-+
T Consensus 111 ~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~dvIvlNg~ 168 (293)
T KOG3113|consen 111 RFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDDVIVLNGT 168 (293)
T ss_pred eeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccCeEeeCCC
Confidence 357988776666442 3455679999998887772 25679999999888776665543
No 156
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=57.69 E-value=6.5 Score=23.47 Aligned_cols=35 Identities=11% Similarity=0.271 Sum_probs=24.1
Q ss_pred cccccccccccCCC-ceEEecCCCccccccHHHHhc
Q psy4226 124 ECCAICIEFYKPSD-IVRILPCKHEYHKNCIDPWLL 158 (183)
Q Consensus 124 ~~C~ICle~~~~~~-~v~~lpC~H~Fh~~Ci~~Wl~ 158 (183)
..|.+|-..|..-. ...--.||++|+.+|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 45899988877643 122234899999999876544
No 157
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=56.18 E-value=9.8 Score=25.68 Aligned_cols=44 Identities=23% Similarity=0.554 Sum_probs=31.7
Q ss_pred ccccccccccccCCCceEEecCCCccccccHHHHhcCCCcccccccccccccCCCC
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILKHYGFVS 178 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~~~~~~ 178 (183)
...|-||-...... ||.||..|. -.+..|.||-..+....++..
T Consensus 44 ~~~C~~CK~~v~q~--------g~~YCq~CA----YkkGiCamCGKki~dtk~ykq 87 (90)
T PF10235_consen 44 SSKCKICKTKVHQP--------GAKYCQTCA----YKKGICAMCGKKILDTKNYKQ 87 (90)
T ss_pred CccccccccccccC--------CCccChhhh----cccCcccccCCeecccccccc
Confidence 34699997765442 678999994 346789999998877665543
No 158
>KOG2113|consensus
Probab=55.49 E-value=7.5 Score=32.30 Aligned_cols=43 Identities=5% Similarity=-0.251 Sum_probs=32.6
Q ss_pred ccccccccccccCCCceEEecCCC-ccccccHHHHhcCCCccccccccc
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKH-EYHKNCIDPWLLEHRTCPMCKMDI 170 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H-~Fh~~Ci~~Wl~~~~~CP~CR~~i 170 (183)
...|..|-+..... ...+|+| .|+-+|.. +....+||+|....
T Consensus 343 ~~~~~~~~~~~~st---~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 343 SLKGTSAGFGLLST---IWSGGNMNLSPGSLAS--ASASPTSSTCDHND 386 (394)
T ss_pred hcccccccCceeee---EeecCCcccChhhhhh--cccCCccccccccc
Confidence 34688887765554 6678999 69999987 56678999997654
No 159
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=55.11 E-value=14 Score=25.99 Aligned_cols=45 Identities=22% Similarity=0.346 Sum_probs=28.2
Q ss_pred ccccccccccccCC--CceEEecCCCccccccHHHHhcCCC--ccccccc
Q psy4226 123 GECCAICIEFYKPS--DIVRILPCKHEYHKNCIDPWLLEHR--TCPMCKM 168 (183)
Q Consensus 123 ~~~C~ICle~~~~~--~~v~~lpC~H~Fh~~Ci~~Wl~~~~--~CP~CR~ 168 (183)
...|++|..+|..- ....-..|+|.+|..|-.. ..... .|-+|..
T Consensus 54 ~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 54 ERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhHH
Confidence 55799999987532 2445556999999999643 11222 4999954
No 160
>KOG4185|consensus
Probab=52.65 E-value=2.2 Score=34.81 Aligned_cols=47 Identities=34% Similarity=0.722 Sum_probs=36.5
Q ss_pred ccccccccccccCCC---ceEEec--------CCCccccccHHHHhcCC-Ccccccccc
Q psy4226 123 GECCAICIEFYKPSD---IVRILP--------CKHEYHKNCIDPWLLEH-RTCPMCKMD 169 (183)
Q Consensus 123 ~~~C~ICle~~~~~~---~v~~lp--------C~H~Fh~~Ci~~Wl~~~-~~CP~CR~~ 169 (183)
...|.||...|...+ .-+++. |||..|..|++.-+... ..||.||..
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 467999999998432 345666 99999999999876554 479999875
No 161
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=51.24 E-value=4 Score=24.80 Aligned_cols=18 Identities=22% Similarity=0.610 Sum_probs=14.4
Q ss_pred eEEe-cCCCccccccHHHH
Q psy4226 139 VRIL-PCKHEYHKNCIDPW 156 (183)
Q Consensus 139 v~~l-pC~H~Fh~~Ci~~W 156 (183)
...- .|||.||..|..+|
T Consensus 40 ~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 40 RVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred eeECCCCCCeECCCCCCcC
Confidence 3444 48999999999888
No 162
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=51.13 E-value=3.8 Score=20.25 Aligned_cols=7 Identities=43% Similarity=1.165 Sum_probs=3.2
Q ss_pred ccccccc
Q psy4226 162 TCPMCKM 168 (183)
Q Consensus 162 ~CP~CR~ 168 (183)
.||.|-.
T Consensus 15 fC~~CG~ 21 (23)
T PF13240_consen 15 FCPNCGT 21 (23)
T ss_pred chhhhCC
Confidence 3555543
No 163
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=50.85 E-value=29 Score=33.56 Aligned_cols=56 Identities=20% Similarity=0.384 Sum_probs=37.0
Q ss_pred CccccccccccccCC---Cce-EEecCCCccccccHHHHh-cCCCcccccccccccccCCC
Q psy4226 122 DGECCAICIEFYKPS---DIV-RILPCKHEYHKNCIDPWL-LEHRTCPMCKMDILKHYGFV 177 (183)
Q Consensus 122 ~~~~C~ICle~~~~~---~~v-~~lpC~H~Fh~~Ci~~Wl-~~~~~CP~CR~~i~~~~~~~ 177 (183)
++..|-||-|+.... |.- ..--|+--.|+.|.+-=. +.++.||-|+...-..+|.+
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~~~~~~~ 74 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYKRHKGCP 74 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhhhcCCC
Confidence 466799999987643 322 222366669999985322 23567999998887665544
No 164
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=50.12 E-value=23 Score=34.34 Aligned_cols=56 Identities=23% Similarity=0.474 Sum_probs=36.5
Q ss_pred CccccccccccccCC---Cc-eEEecCCCccccccHHH-HhcCCCcccccccccccccCCC
Q psy4226 122 DGECCAICIEFYKPS---DI-VRILPCKHEYHKNCIDP-WLLEHRTCPMCKMDILKHYGFV 177 (183)
Q Consensus 122 ~~~~C~ICle~~~~~---~~-v~~lpC~H~Fh~~Ci~~-Wl~~~~~CP~CR~~i~~~~~~~ 177 (183)
++..|-||-|+.... |. +..--|+-=-|+.|.+- .=+.++.||-|+...-..+|.+
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYkr~kgsp 76 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYKRHKGSP 76 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhhhcCCC
Confidence 355799999987643 32 22223666699999853 2233667999988877665543
No 165
>KOG2041|consensus
Probab=49.44 E-value=63 Score=30.33 Aligned_cols=23 Identities=35% Similarity=0.756 Sum_probs=16.0
Q ss_pred CCCccccccHHHHhcCCCccccccccc
Q psy4226 144 CKHEYHKNCIDPWLLEHRTCPMCKMDI 170 (183)
Q Consensus 144 C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i 170 (183)
|+|.-|..=| ...+.||+|...+
T Consensus 1162 CkH~a~~~EI----s~y~~CPLCHs~~ 1184 (1189)
T KOG2041|consen 1162 CKHRAHQHEI----SKYNCCPLCHSME 1184 (1189)
T ss_pred cccccccccc----cccccCccccChh
Confidence 7887776544 3357899997654
No 166
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=48.31 E-value=3.6 Score=24.74 Aligned_cols=12 Identities=42% Similarity=0.944 Sum_probs=5.4
Q ss_pred cccccccccccc
Q psy4226 162 TCPMCKMDILKH 173 (183)
Q Consensus 162 ~CP~CR~~i~~~ 173 (183)
+||+|.+.+...
T Consensus 26 tCP~C~a~~~~s 37 (54)
T PF09237_consen 26 TCPICGAVIRQS 37 (54)
T ss_dssp E-TTT--EESSH
T ss_pred CCCcchhhccch
Confidence 577776665544
No 167
>KOG4628|consensus
Probab=48.24 E-value=39 Score=28.57 Aligned_cols=34 Identities=24% Similarity=0.333 Sum_probs=24.1
Q ss_pred ceEEeeccchHH-HHHHHhCCceEEEEEEecCCCC
Q psy4226 2 SAVFTYKWKGEE-LARLLDNGTRIIAKITIASHCN 35 (183)
Q Consensus 2 ~av~~~~~~g~~-l~~~~~~~~~v~~~i~~~~~~~ 35 (183)
.||+|+|.-|.+ +..++.+...|.+.+.+.++..
T Consensus 105 kaaIVynn~~~~~lv~~~~~~~~v~i~~~~vs~~~ 139 (348)
T KOG4628|consen 105 KAAIVYNNVGSEDLVAMASNPSKVDIHIVFVSVFS 139 (348)
T ss_pred ceEEEecCCCCchheeeccCCccceeEEEEEeeeh
Confidence 589999966655 7777777667777666666654
No 168
>KOG2979|consensus
Probab=47.58 E-value=8.8 Score=30.93 Aligned_cols=44 Identities=20% Similarity=0.292 Sum_probs=32.5
Q ss_pred cccccccccccCCCceEEecCCCccccccHHHHhcCCC--cccccccc
Q psy4226 124 ECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHR--TCPMCKMD 169 (183)
Q Consensus 124 ~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~--~CP~CR~~ 169 (183)
..|+|=..++..+ ++-..|||+|-++=|.+.+.... .||+=-..
T Consensus 177 ~rdPis~~~I~nP--viSkkC~HvydrDsI~~~l~~~~~i~CPv~gC~ 222 (262)
T KOG2979|consen 177 NRDPISKKPIVNP--VISKKCGHVYDRDSIMQILCDEITIRCPVLGCE 222 (262)
T ss_pred ccCchhhhhhhch--hhhcCcCcchhhhhHHHHhccCceeecccccCC
Confidence 4688888887766 34455999999999999886643 48875443
No 169
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=47.55 E-value=9.4 Score=21.06 Aligned_cols=13 Identities=23% Similarity=0.664 Sum_probs=9.0
Q ss_pred ccccccccccCCC
Q psy4226 125 CCAICIEFYKPSD 137 (183)
Q Consensus 125 ~C~ICle~~~~~~ 137 (183)
.|+-|...|+.++
T Consensus 4 ~CP~C~~~f~v~~ 16 (37)
T PF13719_consen 4 TCPNCQTRFRVPD 16 (37)
T ss_pred ECCCCCceEEcCH
Confidence 4777877777554
No 170
>PLN02436 cellulose synthase A
Probab=47.52 E-value=26 Score=33.96 Aligned_cols=56 Identities=20% Similarity=0.405 Sum_probs=36.9
Q ss_pred cccccccccccc---CCCceEEe-cCCCccccccHHHHhc-CCCcccccccccccccCCCC
Q psy4226 123 GECCAICIEFYK---PSDIVRIL-PCKHEYHKNCIDPWLL-EHRTCPMCKMDILKHYGFVS 178 (183)
Q Consensus 123 ~~~C~ICle~~~---~~~~v~~l-pC~H~Fh~~Ci~~Wl~-~~~~CP~CR~~i~~~~~~~~ 178 (183)
+..|-||-|+.. ++|.-+-- -|+--.|+.|.+-=-+ .++.||-|+...-..+|.+.
T Consensus 36 ~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~r~kgs~~ 96 (1094)
T PLN02436 36 GQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYKRIKGSPR 96 (1094)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhccCCCC
Confidence 557999999965 34432222 2666699999853222 25679999988876665443
No 171
>KOG4218|consensus
Probab=47.35 E-value=8.3 Score=32.51 Aligned_cols=47 Identities=23% Similarity=0.541 Sum_probs=27.4
Q ss_pred CccccccccccccCCCceEEecC---CCc--------cccccHHHHh-----cCCCcccccccc
Q psy4226 122 DGECCAICIEFYKPSDIVRILPC---KHE--------YHKNCIDPWL-----LEHRTCPMCKMD 169 (183)
Q Consensus 122 ~~~~C~ICle~~~~~~~v~~lpC---~H~--------Fh~~Ci~~Wl-----~~~~~CP~CR~~ 169 (183)
.++.|++|-+... |-..-.|.| +-. -|..|...-- ..++.||.||..
T Consensus 14 l~ElCPVCGDkVS-GYHYGLLTCESCKGFFKRTVQNnK~YtC~e~qnC~iDkTqRKRCP~CRFQ 76 (475)
T KOG4218|consen 14 LGELCPVCGDKVS-GYHYGLLTCESCKGFFKRTVQNNKQYTCSEEQNCHIDKTQRKRCPSCRFQ 76 (475)
T ss_pred cccccccccCccc-cceeeeeehhhhhhHHHHHhhcCcceecccccccccchHhhccCCchhHH
Confidence 3678999987644 344456665 222 3455654311 113469999964
No 172
>cd02133 PA_C5a_like PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from Bacillus subtilis, ii) a large molecular mass collagenolytic protease from Geobacillus collagenovorans MO-1, and iii) PrtS, a cell envelope protease from Streptococcus thermophilus CNRZ 385. Proteins in this group belong to the peptidase S8 family. C5a peptidase is a cell surface serine protease which specifically inactivates C5a [a chemotactic peptide, which attracts polymorphonuclear leukocytes (PMNs)], by cleaving it to release a 7-residue carboxy-terminal fragment which contains the PMN binding site. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promotin
Probab=47.05 E-value=26 Score=25.28 Aligned_cols=26 Identities=27% Similarity=0.424 Sum_probs=21.1
Q ss_pred CceEEeeccchHHHHHHHhCCceEEE
Q psy4226 1 MSAVFTYKWKGEELARLLDNGTRIIA 26 (183)
Q Consensus 1 ~~av~~~~~~g~~l~~~~~~~~~v~~ 26 (183)
|++++|+...|+.|++++++...+.+
T Consensus 95 iP~v~Is~~dG~~L~~~l~~~~~i~~ 120 (143)
T cd02133 95 IPVVFISKEDGEALKAALESSKKLTF 120 (143)
T ss_pred EeEEEecHHHHHHHHHHHhCCCeEEE
Confidence 57999999999999999987444443
No 173
>KOG1729|consensus
Probab=46.23 E-value=5 Score=33.01 Aligned_cols=37 Identities=22% Similarity=0.416 Sum_probs=29.8
Q ss_pred ccccccccccCCCceEEecCCCccccccHHHHhcCCC
Q psy4226 125 CCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHR 161 (183)
Q Consensus 125 ~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~ 161 (183)
.|.+|+++|..+.....+.|--.||..|+-.|+....
T Consensus 216 vC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 252 (288)
T KOG1729|consen 216 VCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTGA 252 (288)
T ss_pred ecHHHHHHHhcccccchhhcccccccccccccccccc
Confidence 7999999998655556666666999999999997743
No 174
>KOG3726|consensus
Probab=45.44 E-value=8.6 Score=35.15 Aligned_cols=42 Identities=21% Similarity=0.373 Sum_probs=30.8
Q ss_pred cccccccccccc-CCCceEEecCCCccccccHHHHhcCCCcccccc
Q psy4226 123 GECCAICIEFYK-PSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCK 167 (183)
Q Consensus 123 ~~~C~ICle~~~-~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR 167 (183)
...|-+|...=. +.+..+.+.|+-.||..| |+.-.+.||+|-
T Consensus 654 ~r~C~vcq~pedse~~v~rt~~C~~~~C~~c---~~~~~~~~~vC~ 696 (717)
T KOG3726|consen 654 IRTCKVCQLPEDSETDVCRTTFCYTPYCVAC---SLDYASISEVCG 696 (717)
T ss_pred HHHHHHhcCCcCccccccCccccCCcchHhh---hhhhhccCcccC
Confidence 346889987644 345667788999998887 455677799993
No 175
>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=45.39 E-value=5.6 Score=23.82 Aligned_cols=13 Identities=15% Similarity=0.381 Sum_probs=9.0
Q ss_pred ccccccccccccC
Q psy4226 123 GECCAICIEFYKP 135 (183)
Q Consensus 123 ~~~C~ICle~~~~ 135 (183)
...|+.|-+++..
T Consensus 2 ~f~CP~C~~~~~~ 14 (54)
T PF05605_consen 2 SFTCPYCGKGFSE 14 (54)
T ss_pred CcCCCCCCCccCH
Confidence 3469999886554
No 176
>KOG1815|consensus
Probab=45.05 E-value=9 Score=33.38 Aligned_cols=36 Identities=19% Similarity=0.330 Sum_probs=26.9
Q ss_pred ccccccccccCCCc-----eEEecCCCccccccHHHHhcCC
Q psy4226 125 CCAICIEFYKPSDI-----VRILPCKHEYHKNCIDPWLLEH 160 (183)
Q Consensus 125 ~C~ICle~~~~~~~-----v~~lpC~H~Fh~~Ci~~Wl~~~ 160 (183)
.|+.|....+...- ....+|+|.||..|+..|-...
T Consensus 228 ~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h~ 268 (444)
T KOG1815|consen 228 ECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDHG 268 (444)
T ss_pred cCCCcccchhccCCccccccccCCcCCeeceeeeccccccc
Confidence 49999988776541 2223599999999999987763
No 177
>PRK05978 hypothetical protein; Provisional
Probab=44.67 E-value=12 Score=27.63 Aligned_cols=26 Identities=19% Similarity=0.441 Sum_probs=20.0
Q ss_pred CCccccccHHHHhcCCCcccccccccccccC
Q psy4226 145 KHEYHKNCIDPWLLEHRTCPMCKMDILKHYG 175 (183)
Q Consensus 145 ~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~~~ 175 (183)
||.|+ .+++.+.+||.|-.++..+.+
T Consensus 42 G~LF~-----g~Lkv~~~C~~CG~~~~~~~a 67 (148)
T PRK05978 42 GKLFR-----AFLKPVDHCAACGEDFTHHRA 67 (148)
T ss_pred Ccccc-----cccccCCCccccCCccccCCc
Confidence 46675 778889999999888776643
No 178
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=44.61 E-value=12 Score=29.81 Aligned_cols=21 Identities=24% Similarity=0.638 Sum_probs=14.6
Q ss_pred ccccHHHHhcCCCcccccccc
Q psy4226 149 HKNCIDPWLLEHRTCPMCKMD 169 (183)
Q Consensus 149 h~~Ci~~Wl~~~~~CP~CR~~ 169 (183)
|..|-..--.+-..||+|++.
T Consensus 197 C~sC~qqIHRNAPiCPlCK~K 217 (230)
T PF10146_consen 197 CQSCHQQIHRNAPICPLCKAK 217 (230)
T ss_pred hHhHHHHHhcCCCCCcccccc
Confidence 566766644455689999765
No 179
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=43.12 E-value=15 Score=20.88 Aligned_cols=20 Identities=20% Similarity=0.816 Sum_probs=14.8
Q ss_pred HHHHhcCCCccccccccccc
Q psy4226 153 IDPWLLEHRTCPMCKMDILK 172 (183)
Q Consensus 153 i~~Wl~~~~~CP~CR~~i~~ 172 (183)
++.|-.-..+||.|..++.+
T Consensus 10 L~G~~ML~~~Cp~C~~PL~~ 29 (41)
T PF06677_consen 10 LQGWTMLDEHCPDCGTPLMR 29 (41)
T ss_pred HHhHhHhcCccCCCCCeeEE
Confidence 34566667789999888877
No 180
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=42.85 E-value=8.8 Score=19.49 Aligned_cols=9 Identities=33% Similarity=1.220 Sum_probs=6.4
Q ss_pred ccccccccc
Q psy4226 162 TCPMCKMDI 170 (183)
Q Consensus 162 ~CP~CR~~i 170 (183)
.||+|.+.+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 488886666
No 181
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=42.53 E-value=15 Score=26.54 Aligned_cols=26 Identities=23% Similarity=0.386 Sum_probs=17.5
Q ss_pred ccccccccccccCCCceEEecCCCccccc
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHEYHKN 151 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~Fh~~ 151 (183)
++.=-||.+. .+.+..-.|||.|+..
T Consensus 57 g~hlfi~qs~---~~rv~rcecghsf~d~ 82 (165)
T COG4647 57 GDHLFICQSA---QKRVIRCECGHSFGDY 82 (165)
T ss_pred CCcEEEEecc---cccEEEEeccccccCh
Confidence 3334577775 4456677799999853
No 182
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=42.52 E-value=18 Score=24.66 Aligned_cols=32 Identities=16% Similarity=0.234 Sum_probs=26.7
Q ss_pred ccccccccccCCCceEEecCCCccccccHHHHh
Q psy4226 125 CCAICIEFYKPSDIVRILPCKHEYHKNCIDPWL 157 (183)
Q Consensus 125 ~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl 157 (183)
.|.||-+...+|+.-.-++ .-.-|.+|+..=.
T Consensus 8 kC~VCg~~iieGqkFTF~~-kGsVH~eCl~~s~ 39 (103)
T COG4847 8 KCYVCGGTIIEGQKFTFTK-KGSVHYECLAESK 39 (103)
T ss_pred eEeeeCCEeeeccEEEEee-CCcchHHHHHHHH
Confidence 4999999999999888888 6668999987643
No 183
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=41.94 E-value=15 Score=21.93 Aligned_cols=22 Identities=27% Similarity=0.797 Sum_probs=11.1
Q ss_pred CCCccccccHHHHhcCCCccccc
Q psy4226 144 CKHEYHKNCIDPWLLEHRTCPMC 166 (183)
Q Consensus 144 C~H~Fh~~Ci~~Wl~~~~~CP~C 166 (183)
|||.|-..= ..-......||.|
T Consensus 34 Cgh~w~~~v-~~R~~~~~~CP~C 55 (55)
T PF14311_consen 34 CGHEWKASV-NDRTRRGKGCPYC 55 (55)
T ss_pred CCCeeEccH-hhhccCCCCCCCC
Confidence 555444332 2222445669987
No 184
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=41.74 E-value=14 Score=23.89 Aligned_cols=44 Identities=25% Similarity=0.606 Sum_probs=25.8
Q ss_pred cccccccccCCC-ceEEecCCCccccccHHHHhcCCCcccccccccc
Q psy4226 126 CAICIEFYKPSD-IVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDIL 171 (183)
Q Consensus 126 C~ICle~~~~~~-~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~ 171 (183)
|--|-.++..+. ..++-.=.|.||.+|.+.-| +..||.|-..+.
T Consensus 8 CECCDrDLpp~s~dA~ICtfEcTFCadCae~~l--~g~CPnCGGelv 52 (84)
T COG3813 8 CECCDRDLPPDSTDARICTFECTFCADCAENRL--HGLCPNCGGELV 52 (84)
T ss_pred CcccCCCCCCCCCceeEEEEeeehhHhHHHHhh--cCcCCCCCchhh
Confidence 444545544332 12222225789999988654 568999965543
No 185
>KOG2071|consensus
Probab=41.50 E-value=15 Score=33.09 Aligned_cols=33 Identities=27% Similarity=0.578 Sum_probs=23.2
Q ss_pred ccccccccccccC-----------CCceEEecCCCccccccHHHH
Q psy4226 123 GECCAICIEFYKP-----------SDIVRILPCKHEYHKNCIDPW 156 (183)
Q Consensus 123 ~~~C~ICle~~~~-----------~~~v~~lpC~H~Fh~~Ci~~W 156 (183)
...|+||.|.|+. .|.+. +.=|-+||..|+.+-
T Consensus 513 ~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~-le~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 513 QASCPICQEKFEVVFDQEEDLWMYKDAVY-LEFGRIFHSKCLSEK 556 (579)
T ss_pred ccCCcccccccceeecchhhheeecceee-eccCceeeccccchH
Confidence 4579999999872 12233 336889999998764
No 186
>PLN02400 cellulose synthase
Probab=41.31 E-value=31 Score=33.50 Aligned_cols=57 Identities=25% Similarity=0.488 Sum_probs=37.1
Q ss_pred CccccccccccccCC---Cc-eEEecCCCccccccHHH-HhcCCCcccccccccccccCCCC
Q psy4226 122 DGECCAICIEFYKPS---DI-VRILPCKHEYHKNCIDP-WLLEHRTCPMCKMDILKHYGFVS 178 (183)
Q Consensus 122 ~~~~C~ICle~~~~~---~~-v~~lpC~H~Fh~~Ci~~-Wl~~~~~CP~CR~~i~~~~~~~~ 178 (183)
.+..|-||-|+.... |. +..--|+---|+.|.+- .=+.++.||-||...-..+|.+.
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYkR~Kgspr 96 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYRRHKGSPR 96 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccccccCCCC
Confidence 356799999987643 32 22223666699999752 11235679999988876666443
No 187
>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=40.52 E-value=8.8 Score=19.56 Aligned_cols=7 Identities=29% Similarity=0.581 Sum_probs=3.2
Q ss_pred ccccccc
Q psy4226 126 CAICIEF 132 (183)
Q Consensus 126 C~ICle~ 132 (183)
|+-|...
T Consensus 3 CP~C~~~ 9 (26)
T PF10571_consen 3 CPECGAE 9 (26)
T ss_pred CCCCcCC
Confidence 4444444
No 188
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=39.96 E-value=6.2 Score=23.88 Aligned_cols=32 Identities=28% Similarity=0.674 Sum_probs=16.8
Q ss_pred cccc--ccccccCCCc--e--EEec-CCCccccccHHHH
Q psy4226 125 CCAI--CIEFYKPSDI--V--RILP-CKHEYHKNCIDPW 156 (183)
Q Consensus 125 ~C~I--Cle~~~~~~~--v--~~lp-C~H~Fh~~Ci~~W 156 (183)
-|+- |-..+...+. . ..=+ |++.||..|-.+|
T Consensus 20 ~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 20 WCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp --TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred CCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 4655 6555543321 1 2234 8999999998887
No 189
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=39.76 E-value=15 Score=19.06 Aligned_cols=29 Identities=21% Similarity=0.464 Sum_probs=9.3
Q ss_pred ccccccccccCCCceEEecCCCccccccH
Q psy4226 125 CCAICIEFYKPSDIVRILPCKHEYHKNCI 153 (183)
Q Consensus 125 ~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci 153 (183)
.|.+|-++...+-...-..|.-.+|.+|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhcC
Confidence 37777777555333344457777887774
No 190
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=39.67 E-value=22 Score=29.59 Aligned_cols=44 Identities=18% Similarity=0.414 Sum_probs=28.3
Q ss_pred ccccccccccccCCCceEEe--cC--CCccccccHHHHhcCCCccccccc
Q psy4226 123 GECCAICIEFYKPSDIVRIL--PC--KHEYHKNCIDPWLLEHRTCPMCKM 168 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~l--pC--~H~Fh~~Ci~~Wl~~~~~CP~CR~ 168 (183)
...|+||-..=... +..+ .= .|..|.-|-.+|--.+..||.|-.
T Consensus 187 ~~~CPvCGs~P~~s--~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 187 RQFCPVCGSMPVSS--VVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCcchhh--eeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 45799998762111 0011 11 245777888899888888999965
No 191
>PRK11827 hypothetical protein; Provisional
Probab=39.34 E-value=9.2 Score=23.76 Aligned_cols=18 Identities=33% Similarity=0.647 Sum_probs=10.0
Q ss_pred HHhcCCCccccccccccc
Q psy4226 155 PWLLEHRTCPMCKMDILK 172 (183)
Q Consensus 155 ~Wl~~~~~CP~CR~~i~~ 172 (183)
+||..--.||+|+.++.-
T Consensus 3 ~~LLeILaCP~ckg~L~~ 20 (60)
T PRK11827 3 HRLLEIIACPVCNGKLWY 20 (60)
T ss_pred hHHHhheECCCCCCcCeE
Confidence 444444557777666543
No 192
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=38.68 E-value=26 Score=24.26 Aligned_cols=24 Identities=21% Similarity=0.617 Sum_probs=17.8
Q ss_pred CCccccccHHHHhcCC---------Cccccccc
Q psy4226 145 KHEYHKNCIDPWLLEH---------RTCPMCKM 168 (183)
Q Consensus 145 ~H~Fh~~Ci~~Wl~~~---------~~CP~CR~ 168 (183)
.=.||..|+..++... -.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 4469999998887542 25999975
No 193
>KOG4451|consensus
Probab=38.56 E-value=15 Score=29.23 Aligned_cols=22 Identities=23% Similarity=0.528 Sum_probs=15.0
Q ss_pred ccccHHHHhcCCCccccccccc
Q psy4226 149 HKNCIDPWLLEHRTCPMCKMDI 170 (183)
Q Consensus 149 h~~Ci~~Wl~~~~~CP~CR~~i 170 (183)
|..|..+--.+-+.||+|+..-
T Consensus 252 ClsChqqIHRNAPiCPlCKaKs 273 (286)
T KOG4451|consen 252 CLSCHQQIHRNAPICPLCKAKS 273 (286)
T ss_pred HHHHHHHHhcCCCCCcchhhcc
Confidence 4566666545567899997653
No 194
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=37.81 E-value=16 Score=24.63 Aligned_cols=38 Identities=24% Similarity=0.385 Sum_probs=30.1
Q ss_pred cccccccccccCCCceEEecCCCccccccHHHHhcCCCcccccccccccc
Q psy4226 124 ECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILKH 173 (183)
Q Consensus 124 ~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~ 173 (183)
..|.-|...+..-|.+= +-.|+..+..|..|++++...
T Consensus 34 S~C~~C~~~L~~~~lIP------------i~S~l~lrGrCr~C~~~I~~~ 71 (92)
T PF06750_consen 34 SHCPHCGHPLSWWDLIP------------ILSYLLLRGRCRYCGAPIPPR 71 (92)
T ss_pred CcCcCCCCcCcccccch------------HHHHHHhCCCCcccCCCCChH
Confidence 45999988887765444 458999999999999998754
No 195
>KOG2169|consensus
Probab=37.20 E-value=19 Score=33.03 Aligned_cols=45 Identities=22% Similarity=0.358 Sum_probs=27.6
Q ss_pred cccccccccccCCCceEEecCCCcccc--ccHH-HHhcC----CC--cccccccccccccC
Q psy4226 124 ECCAICIEFYKPSDIVRILPCKHEYHK--NCID-PWLLE----HR--TCPMCKMDILKHYG 175 (183)
Q Consensus 124 ~~C~ICle~~~~~~~v~~lpC~H~Fh~--~Ci~-~Wl~~----~~--~CP~CR~~i~~~~~ 175 (183)
-.|+|+.-. ..+||.+..|+ .|.+ .|+.. .. .||+|.+...-+..
T Consensus 307 L~CPl~~~R-------m~~P~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~~e~l 360 (636)
T KOG2169|consen 307 LNCPLSKMR-------MSLPARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAPFEGL 360 (636)
T ss_pred ecCCcccce-------eecCCcccccccceecchhhhHHhccCCCeeeCccCCccccccch
Confidence 468887665 55666655444 7766 34432 22 49999877655443
No 196
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=37.05 E-value=14 Score=27.43 Aligned_cols=46 Identities=22% Similarity=0.440 Sum_probs=28.6
Q ss_pred ccccccccCCCceEEec-CCCccccccHHHHhcCCCcccccccccccccC
Q psy4226 127 AICIEFYKPSDIVRILP-CKHEYHKNCIDPWLLEHRTCPMCKMDILKHYG 175 (183)
Q Consensus 127 ~ICle~~~~~~~v~~lp-C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~~~ 175 (183)
.||+..=...+..-.-| =.+-||.+|-.+-+. .||-|..+|....-
T Consensus 8 qiC~NGH~~t~~~~~~p~~~~~fC~kCG~~tI~---~Cp~C~~~IrG~y~ 54 (158)
T PF10083_consen 8 QICLNGHVITDSYDKNPELREKFCSKCGAKTIT---SCPNCSTPIRGDYH 54 (158)
T ss_pred HHccCccccccccccCchHHHHHHHHhhHHHHH---HCcCCCCCCCCcee
Confidence 36665433333322222 245699999877554 49999999887643
No 197
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=37.01 E-value=12 Score=25.17 Aligned_cols=12 Identities=33% Similarity=1.104 Sum_probs=10.5
Q ss_pred cccccHHHHhcC
Q psy4226 148 YHKNCIDPWLLE 159 (183)
Q Consensus 148 Fh~~Ci~~Wl~~ 159 (183)
||+.|+..|+..
T Consensus 43 FCRNCLs~Wy~e 54 (104)
T COG3492 43 FCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHH
Confidence 999999999854
No 198
>PF12088 DUF3565: Protein of unknown function (DUF3565); InterPro: IPR021948 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 30 to 78 amino acids in length. This protein has two conserved sequence motifs: WVA and CGH.
Probab=36.58 E-value=26 Score=21.76 Aligned_cols=17 Identities=29% Similarity=0.436 Sum_probs=13.0
Q ss_pred CCCceEEecCCCccccc
Q psy4226 135 PSDIVRILPCKHEYHKN 151 (183)
Q Consensus 135 ~~~~v~~lpC~H~Fh~~ 151 (183)
+++-+..|.|||.=|-.
T Consensus 8 e~hWVA~L~CGH~QHvR 24 (61)
T PF12088_consen 8 EGHWVAELSCGHTQHVR 24 (61)
T ss_pred cCCEEEEeccccccccc
Confidence 36778999999976643
No 199
>PRK09458 pspB phage shock protein B; Provisional
Probab=36.39 E-value=95 Score=20.19 Aligned_cols=7 Identities=14% Similarity=-0.116 Sum_probs=3.7
Q ss_pred HHHHHhh
Q psy4226 75 ELIFYQQ 81 (183)
Q Consensus 75 ~~~f~~~ 81 (183)
|+++.++
T Consensus 21 WL~LHY~ 27 (75)
T PRK09458 21 WLWLHYR 27 (75)
T ss_pred HHHHhhc
Confidence 5555543
No 200
>KOG2442|consensus
Probab=36.19 E-value=1e+02 Score=27.42 Aligned_cols=27 Identities=7% Similarity=0.127 Sum_probs=23.3
Q ss_pred CceEEeeccchHHHHHHHhCCceEEEE
Q psy4226 1 MSAVFTYKWKGEELARLLDNGTRIIAK 27 (183)
Q Consensus 1 ~~av~~~~~~g~~l~~~~~~~~~v~~~ 27 (183)
|+.+|++...|++|.+...++-.|.+.
T Consensus 148 IPv~mi~~~~~~~l~~~~~~~~~V~~~ 174 (541)
T KOG2442|consen 148 IPVAMISYSDGRDLNKSTRSNDNVELA 174 (541)
T ss_pred ceEEEEEhhhHHHHHhhhccCCeEEEE
Confidence 789999999999999988888666655
No 201
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=35.40 E-value=17 Score=22.37 Aligned_cols=12 Identities=25% Similarity=0.739 Sum_probs=5.7
Q ss_pred cccccccccccc
Q psy4226 162 TCPMCKMDILKH 173 (183)
Q Consensus 162 ~CP~CR~~i~~~ 173 (183)
.||.|++.+.-.
T Consensus 4 ~CP~C~k~~~~~ 15 (57)
T PF03884_consen 4 KCPICGKPVEWS 15 (57)
T ss_dssp E-TTT--EEE-S
T ss_pred cCCCCCCeeccc
Confidence 588888777663
No 202
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=35.05 E-value=17 Score=20.00 Aligned_cols=13 Identities=38% Similarity=0.828 Sum_probs=9.1
Q ss_pred CCccccccccccc
Q psy4226 160 HRTCPMCKMDILK 172 (183)
Q Consensus 160 ~~~CP~CR~~i~~ 172 (183)
...||.|..++.+
T Consensus 26 ~~~CP~Cg~~~~r 38 (41)
T smart00834 26 LATCPECGGDVRR 38 (41)
T ss_pred CCCCCCCCCccee
Confidence 4469999886543
No 203
>KOG2113|consensus
Probab=34.98 E-value=19 Score=30.01 Aligned_cols=52 Identities=8% Similarity=0.031 Sum_probs=34.7
Q ss_pred cccccccccccCCCceEEecCCC-ccccccHHHH-hcCCCcccccccccccccCCCC
Q psy4226 124 ECCAICIEFYKPSDIVRILPCKH-EYHKNCIDPW-LLEHRTCPMCKMDILKHYGFVS 178 (183)
Q Consensus 124 ~~C~ICle~~~~~~~v~~lpC~H-~Fh~~Ci~~W-l~~~~~CP~CR~~i~~~~~~~~ 178 (183)
-.|.+|++. .-.....+|+| +|+-.|...= ++..+.||+|..-+...-++.+
T Consensus 137 i~~iqq~tn---t~I~T~v~~~~~Vf~Vtg~~~nC~kra~s~eie~ta~~ra~~i~d 190 (394)
T KOG2113|consen 137 IKRIQQFTN---TYIATPVRCGEPVFCVTGAPKNCVKRARSCEIEQTAVTRAGQIHD 190 (394)
T ss_pred cchheeccc---ceEeeeccCCCceEEEecCCcchhhhccccchhhhhhhhhhcccc
Confidence 358888775 32335567999 7999996654 4556679999766655544443
No 204
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=34.34 E-value=20 Score=22.19 Aligned_cols=15 Identities=33% Similarity=0.804 Sum_probs=8.9
Q ss_pred CCccccccccccccc
Q psy4226 160 HRTCPMCKMDILKHY 174 (183)
Q Consensus 160 ~~~CP~CR~~i~~~~ 174 (183)
++.||.|-.+++.+.
T Consensus 3 HkHC~~CG~~Ip~~~ 17 (59)
T PF09889_consen 3 HKHCPVCGKPIPPDE 17 (59)
T ss_pred CCcCCcCCCcCCcch
Confidence 455677766666543
No 205
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=33.10 E-value=27 Score=18.87 Aligned_cols=9 Identities=33% Similarity=1.150 Sum_probs=6.6
Q ss_pred Ccccccccc
Q psy4226 161 RTCPMCKMD 169 (183)
Q Consensus 161 ~~CP~CR~~ 169 (183)
..||+|..+
T Consensus 19 ~~CP~Cg~~ 27 (34)
T cd00729 19 EKCPICGAP 27 (34)
T ss_pred CcCcCCCCc
Confidence 479999664
No 206
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=31.09 E-value=21 Score=24.39 Aligned_cols=28 Identities=21% Similarity=0.557 Sum_probs=19.7
Q ss_pred ccccccccccccCCCceEEec-----CCCccccccHHH
Q psy4226 123 GECCAICIEFYKPSDIVRILP-----CKHEYHKNCIDP 155 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lp-----C~H~Fh~~Ci~~ 155 (183)
...|.||... .| ..+. |...||..|...
T Consensus 55 ~~~C~iC~~~--~G---~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 55 KLKCSICGKS--GG---ACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred CCcCcCCCCC--Cc---eeEEcCCCCCCcCCCHHHHHH
Confidence 4469999987 34 3333 566899999765
No 207
>PHA02610 uvsY.-2 hypothetical protein; Provisional
Probab=30.78 E-value=16 Score=21.89 Aligned_cols=15 Identities=33% Similarity=0.536 Sum_probs=11.6
Q ss_pred cccccccccccccCC
Q psy4226 162 TCPMCKMDILKHYGF 176 (183)
Q Consensus 162 ~CP~CR~~i~~~~~~ 176 (183)
.|++|++++.++.++
T Consensus 3 iCvvCK~Pi~~al~v 17 (53)
T PHA02610 3 ICVVCKQPIEKALVV 17 (53)
T ss_pred eeeeeCCchhhceEE
Confidence 599999998776654
No 208
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=30.67 E-value=29 Score=21.71 Aligned_cols=11 Identities=27% Similarity=0.776 Sum_probs=7.8
Q ss_pred Ccccccccccc
Q psy4226 161 RTCPMCKMDIL 171 (183)
Q Consensus 161 ~~CP~CR~~i~ 171 (183)
..||.|++.+.
T Consensus 7 v~CP~C~k~~~ 17 (62)
T PRK00418 7 VNCPTCGKPVE 17 (62)
T ss_pred ccCCCCCCccc
Confidence 35888887764
No 209
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=30.58 E-value=33 Score=27.47 Aligned_cols=24 Identities=21% Similarity=0.501 Sum_probs=16.6
Q ss_pred ccccccccccCCCceEEecCCCcc
Q psy4226 125 CCAICIEFYKPSDIVRILPCKHEY 148 (183)
Q Consensus 125 ~C~ICle~~~~~~~v~~lpC~H~F 148 (183)
.|++|.+++...+.--.-+.||.|
T Consensus 4 ~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 4 QCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred cCCCCCcchhcCCCEEEcCCCCCC
Confidence 599999999765533233348988
No 210
>KOG1356|consensus
Probab=30.46 E-value=35 Score=32.15 Aligned_cols=55 Identities=16% Similarity=0.222 Sum_probs=37.2
Q ss_pred CccccccccccccCCCceEEecCCCccccccHHHHhcC------CCcccccccccccccCCC
Q psy4226 122 DGECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLE------HRTCPMCKMDILKHYGFV 177 (183)
Q Consensus 122 ~~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~------~~~CP~CR~~i~~~~~~~ 177 (183)
....|..|.....+ -.-+-..|||.+|-+|++.|... -..|+.|+..-.+.+.+.
T Consensus 228 ~~~mC~~C~~tlfn-~hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~~C~~~q~h~ 288 (889)
T KOG1356|consen 228 IREMCDRCETTLFN-IHWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWLKCNKGQCHA 288 (889)
T ss_pred cchhhhhhcccccc-eeEEccccCCeeeecchhhccccchHhHhhhhhhHHHHhcCCccccc
Confidence 35679999876442 12234459999999999999522 125888887766665543
No 211
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.95 E-value=24 Score=25.41 Aligned_cols=25 Identities=24% Similarity=0.728 Sum_probs=17.7
Q ss_pred ccccccHHHHhcCCCccccccccccccc
Q psy4226 147 EYHKNCIDPWLLEHRTCPMCKMDILKHY 174 (183)
Q Consensus 147 ~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~~ 174 (183)
.||..|-..-+. .||.|..+|...+
T Consensus 29 afcskcgeati~---qcp~csasirgd~ 53 (160)
T COG4306 29 AFCSKCGEATIT---QCPICSASIRGDY 53 (160)
T ss_pred HHHhhhchHHHh---cCCccCCcccccc
Confidence 388888766443 3999988876544
No 212
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=29.55 E-value=13 Score=28.30 Aligned_cols=37 Identities=22% Similarity=0.261 Sum_probs=24.5
Q ss_pred CccccccccccccCCCceEEecCCCccccccHHHHhcCCCcccccccccccccCC
Q psy4226 122 DGECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILKHYGF 176 (183)
Q Consensus 122 ~~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~~~~ 176 (183)
....|+.|...|..+ .-+....+||.|..++...+..
T Consensus 112 ~~y~C~~~~~r~sfd------------------eA~~~~F~Cp~Cg~~L~~~d~s 148 (176)
T COG1675 112 NYYVCPNCHVKYSFD------------------EAMELGFTCPKCGEDLEEYDSS 148 (176)
T ss_pred CceeCCCCCCcccHH------------------HHHHhCCCCCCCCchhhhccch
Confidence 466788777665532 3344557899999888776543
No 213
>PRK01343 zinc-binding protein; Provisional
Probab=28.89 E-value=26 Score=21.52 Aligned_cols=12 Identities=33% Similarity=0.744 Sum_probs=9.2
Q ss_pred CCcccccccccc
Q psy4226 160 HRTCPMCKMDIL 171 (183)
Q Consensus 160 ~~~CP~CR~~i~ 171 (183)
...||+|++.+.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 346999998765
No 214
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=28.51 E-value=27 Score=23.60 Aligned_cols=28 Identities=21% Similarity=0.625 Sum_probs=17.5
Q ss_pred cCCCccccccHHHHhcCCCccccccccccccc
Q psy4226 143 PCKHEYHKNCIDPWLLEHRTCPMCKMDILKHY 174 (183)
Q Consensus 143 pC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~~ 174 (183)
.||-.|-.+= ++..+.||.|++.-.+..
T Consensus 63 kCGfef~~~~----ik~pSRCP~CKSE~Ie~p 90 (97)
T COG3357 63 KCGFEFRDDK----IKKPSRCPKCKSEWIEEP 90 (97)
T ss_pred ccCccccccc----cCCcccCCcchhhcccCC
Confidence 3666666522 333567999988766543
No 215
>PTZ00370 STEVOR; Provisional
Probab=27.71 E-value=96 Score=25.58 Aligned_cols=26 Identities=15% Similarity=0.192 Sum_probs=15.6
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhccc
Q psy4226 58 ISIGDLPRAVSLTLFQTELIFYQQYSS 84 (183)
Q Consensus 58 isf~~l~~~is~~l~~~~~~f~~~~~~ 84 (183)
|+-++| +++++++...|+++|+|+..
T Consensus 259 iaalvl-lil~vvliilYiwlyrrRK~ 284 (296)
T PTZ00370 259 IAALVL-LILAVVLIILYIWLYRRRKN 284 (296)
T ss_pred HHHHHH-HHHHHHHHHHHHHHHHhhcc
Confidence 455555 55666665556667766554
No 216
>PRK00420 hypothetical protein; Validated
Probab=27.16 E-value=42 Score=23.62 Aligned_cols=13 Identities=15% Similarity=0.330 Sum_probs=8.1
Q ss_pred CCccccccccccc
Q psy4226 160 HRTCPMCKMDILK 172 (183)
Q Consensus 160 ~~~CP~CR~~i~~ 172 (183)
+..||.|...+.-
T Consensus 40 ~~~Cp~Cg~~~~v 52 (112)
T PRK00420 40 EVVCPVHGKVYIV 52 (112)
T ss_pred ceECCCCCCeeee
Confidence 3358888765543
No 217
>KOG3799|consensus
Probab=27.06 E-value=30 Score=25.21 Aligned_cols=41 Identities=27% Similarity=0.785 Sum_probs=23.4
Q ss_pred CCcccccccccc-ccCCCceEEecCCCc-------cccccHHHHhcC-CC---ccccccc
Q psy4226 121 GDGECCAICIEF-YKPSDIVRILPCKHE-------YHKNCIDPWLLE-HR---TCPMCKM 168 (183)
Q Consensus 121 ~~~~~C~ICle~-~~~~~~v~~lpC~H~-------Fh~~Ci~~Wl~~-~~---~CP~CR~ 168 (183)
.++..|-||+.. |-++ |||. ||..|-..--.. +. .|-+||.
T Consensus 63 ~ddatC~IC~KTKFADG-------~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k 115 (169)
T KOG3799|consen 63 GDDATCGICHKTKFADG-------CGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRK 115 (169)
T ss_pred CcCcchhhhhhcccccc-------cCcccchhhhhHHHhcCCeeeeccCceEEeccCCcH
Confidence 456789999974 3333 7774 555564432222 22 3777754
No 218
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=27.03 E-value=26 Score=22.86 Aligned_cols=32 Identities=19% Similarity=0.311 Sum_probs=20.2
Q ss_pred cccccccccccCCCceEEecCCCccccccHHH
Q psy4226 124 ECCAICIEFYKPSDIVRILPCKHEYHKNCIDP 155 (183)
Q Consensus 124 ~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~ 155 (183)
..|.+|-......-....-.|.-.||..|...
T Consensus 37 ~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 37 LKCSICKKKGGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred CCCcCCCCCCCeEEEEeCCCCCcEEChHHHcc
Confidence 35999987633222233334777899999754
No 219
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=26.92 E-value=23 Score=28.27 Aligned_cols=41 Identities=22% Similarity=0.346 Sum_probs=30.5
Q ss_pred ccccccccccccCCCceEEecCCCccccccHHHHhcC--CCcccc
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLE--HRTCPM 165 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~--~~~CP~ 165 (183)
+..|+|-+.++..+ +.-..|+|.|-.+=|...+.. .+.||.
T Consensus 189 ~nrCpitl~p~~~p--ils~kcnh~~e~D~I~~~lq~~~trvcp~ 231 (275)
T COG5627 189 SNRCPITLNPDFYP--ILSSKCNHKPEMDLINKKLQVECTRVCPR 231 (275)
T ss_pred cccCCcccCcchhH--HHHhhhcccccHHHHHHHhcCCceeecch
Confidence 34799999987765 223349999999999998874 445774
No 220
>PF15353 HECA: Headcase protein family homologue
Probab=26.90 E-value=28 Score=24.17 Aligned_cols=14 Identities=21% Similarity=0.762 Sum_probs=12.2
Q ss_pred CCCccccccHHHHh
Q psy4226 144 CKHEYHKNCIDPWL 157 (183)
Q Consensus 144 C~H~Fh~~Ci~~Wl 157 (183)
.|+..|.+|.+.|=
T Consensus 40 ~~~~MH~~CF~~wE 53 (107)
T PF15353_consen 40 FGQYMHRECFEKWE 53 (107)
T ss_pred CCCchHHHHHHHHH
Confidence 47899999999994
No 221
>PF10886 DUF2685: Protein of unknown function (DUF2685); InterPro: IPR024362 This is a family of uncharacterised bacteriophage proteins. Their function in unknown.
Probab=26.82 E-value=21 Score=21.61 Aligned_cols=15 Identities=27% Similarity=0.450 Sum_probs=11.2
Q ss_pred cccccccccccccCC
Q psy4226 162 TCPMCKMDILKHYGF 176 (183)
Q Consensus 162 ~CP~CR~~i~~~~~~ 176 (183)
.|.+|++++.++.+.
T Consensus 3 ~CvVCKqpi~~a~~v 17 (54)
T PF10886_consen 3 ICVVCKQPIDDALVV 17 (54)
T ss_pred eeeeeCCccCcceEE
Confidence 488888888886543
No 222
>PLN02195 cellulose synthase A
Probab=26.74 E-value=74 Score=30.72 Aligned_cols=54 Identities=20% Similarity=0.302 Sum_probs=35.0
Q ss_pred CccccccccccccCC---Cc-eEEecCCCccccccHHHHhcC-CCcccccccccccccC
Q psy4226 122 DGECCAICIEFYKPS---DI-VRILPCKHEYHKNCIDPWLLE-HRTCPMCKMDILKHYG 175 (183)
Q Consensus 122 ~~~~C~ICle~~~~~---~~-v~~lpC~H~Fh~~Ci~~Wl~~-~~~CP~CR~~i~~~~~ 175 (183)
.+..|.||-++.... +. +..--|+---|+.|.+-=-++ ++.||-|+...-+.+.
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk~~~~ 63 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYDAENV 63 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccccccc
Confidence 356799999976643 32 222337777999998532222 5679999887764333
No 223
>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=26.55 E-value=20 Score=26.65 Aligned_cols=35 Identities=14% Similarity=0.039 Sum_probs=23.0
Q ss_pred CccccccccccccCCCceEEecCCCccccccHHHHhcCCCccccccccccccc
Q psy4226 122 DGECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILKHY 174 (183)
Q Consensus 122 ~~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~~ 174 (183)
....|+-|--.|...| -+....+||.|...+...+
T Consensus 108 ~~Y~Cp~c~~r~tf~e------------------A~~~~F~Cp~Cg~~L~~~d 142 (158)
T TIGR00373 108 MFFICPNMCVRFTFNE------------------AMELNFTCPRCGAMLDYLD 142 (158)
T ss_pred CeEECCCCCcEeeHHH------------------HHHcCCcCCCCCCEeeecc
Confidence 3567888876665432 2334678999988876544
No 224
>TIGR01478 STEVOR variant surface antigen, stevor family. This model represents the stevor branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of stevor sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 8 bits.
Probab=26.28 E-value=86 Score=25.83 Aligned_cols=26 Identities=15% Similarity=0.184 Sum_probs=15.3
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhccc
Q psy4226 58 ISIGDLPRAVSLTLFQTELIFYQQYSS 84 (183)
Q Consensus 58 isf~~l~~~is~~l~~~~~~f~~~~~~ 84 (183)
|+-++| +++++++...++++|+|+..
T Consensus 263 iaalvl-lil~vvliiLYiWlyrrRK~ 288 (295)
T TIGR01478 263 IAALVL-IILTVVLIILYIWLYRRRKK 288 (295)
T ss_pred HHHHHH-HHHHHHHHHHHHHHHHhhcc
Confidence 555555 55666665556666665544
No 225
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=26.27 E-value=32 Score=21.25 Aligned_cols=16 Identities=31% Similarity=0.588 Sum_probs=11.9
Q ss_pred CCcccccccccccccC
Q psy4226 160 HRTCPMCKMDILKHYG 175 (183)
Q Consensus 160 ~~~CP~CR~~i~~~~~ 175 (183)
++-||+|-+.|++...
T Consensus 8 H~HC~VCg~aIp~de~ 23 (64)
T COG4068 8 HRHCVVCGKAIPPDEQ 23 (64)
T ss_pred CccccccCCcCCCccc
Confidence 5568888888877654
No 226
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=26.25 E-value=29 Score=20.27 Aligned_cols=30 Identities=20% Similarity=0.321 Sum_probs=15.7
Q ss_pred ecCCCccccccHHHHhcCCCccccccc-cccc
Q psy4226 142 LPCKHEYHKNCIDPWLLEHRTCPMCKM-DILK 172 (183)
Q Consensus 142 lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~-~i~~ 172 (183)
..|||.|-..--.. -.....||.|.. ++.+
T Consensus 9 ~~Cg~~fe~~~~~~-~~~~~~CP~Cg~~~~~r 39 (52)
T TIGR02605 9 TACGHRFEVLQKMS-DDPLATCPECGGEKLRR 39 (52)
T ss_pred CCCCCEeEEEEecC-CCCCCCCCCCCCCceeE
Confidence 45788766432100 012346999987 4433
No 227
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=25.74 E-value=32 Score=30.45 Aligned_cols=16 Identities=25% Similarity=0.438 Sum_probs=11.8
Q ss_pred CccccccccccccCCC
Q psy4226 122 DGECCAICIEFYKPSD 137 (183)
Q Consensus 122 ~~~~C~ICle~~~~~~ 137 (183)
+..-|+-||+++...+
T Consensus 25 ~~~yCp~CL~~~p~~e 40 (483)
T PF05502_consen 25 DSYYCPNCLFEVPSSE 40 (483)
T ss_pred ceeECccccccCChhh
Confidence 3556999999887654
No 228
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=24.22 E-value=44 Score=16.69 Aligned_cols=7 Identities=43% Similarity=1.160 Sum_probs=3.4
Q ss_pred ccccccc
Q psy4226 162 TCPMCKM 168 (183)
Q Consensus 162 ~CP~CR~ 168 (183)
.||.|-.
T Consensus 18 fC~~CG~ 24 (26)
T PF13248_consen 18 FCPNCGA 24 (26)
T ss_pred cChhhCC
Confidence 3555533
No 229
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=23.82 E-value=30 Score=26.31 Aligned_cols=35 Identities=14% Similarity=0.123 Sum_probs=23.5
Q ss_pred CccccccccccccCCCceEEecCCCccccccHHHHhcCCCccccccccccccc
Q psy4226 122 DGECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILKHY 174 (183)
Q Consensus 122 ~~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~~ 174 (183)
....|+-|--.|...| -+.....||.|...+...+
T Consensus 116 ~~Y~Cp~C~~rytf~e------------------A~~~~F~Cp~Cg~~L~~~d 150 (178)
T PRK06266 116 MFFFCPNCHIRFTFDE------------------AMEYGFRCPQCGEMLEEYD 150 (178)
T ss_pred CEEECCCCCcEEeHHH------------------HhhcCCcCCCCCCCCeecc
Confidence 3567888876665432 2345678999988877644
No 230
>KOG1512|consensus
Probab=23.77 E-value=38 Score=27.94 Aligned_cols=32 Identities=25% Similarity=0.437 Sum_probs=22.9
Q ss_pred ccccccccccccCCCceEEecCCCccccccHH
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHEYHKNCID 154 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~ 154 (183)
...|.||..+-.+.+.+.-=-|-.-||.-|+.
T Consensus 314 C~lC~IC~~P~~E~E~~FCD~CDRG~HT~CVG 345 (381)
T KOG1512|consen 314 CELCRICLGPVIESEHLFCDVCDRGPHTLCVG 345 (381)
T ss_pred cHhhhccCCcccchheeccccccCCCCccccc
Confidence 45788999887776655444577778888864
No 231
>COG4279 Uncharacterized conserved protein [Function unknown]
Probab=23.73 E-value=3.2e+02 Score=22.20 Aligned_cols=21 Identities=14% Similarity=0.045 Sum_probs=16.4
Q ss_pred HHHHhCCceEEEEEEecCCCC
Q psy4226 15 ARLLDNGTRIIAKITIASHCN 35 (183)
Q Consensus 15 ~~~~~~~~~v~~~i~~~~~~~ 35 (183)
.+|++||....|.|..|....
T Consensus 34 r~YaR~GnV~si~i~~g~V~A 54 (266)
T COG4279 34 RSYARNGNVTSIQILEGKVTA 54 (266)
T ss_pred HHHHhcCceEEEEeecceEEE
Confidence 478999988888888877544
No 232
>PRK07758 hypothetical protein; Provisional
Probab=22.95 E-value=52 Score=22.42 Aligned_cols=31 Identities=39% Similarity=0.749 Sum_probs=20.8
Q ss_pred CCccccccHHHHhcCCCcccccccccccccCCCCCCC
Q psy4226 145 KHEYHKNCIDPWLLEHRTCPMCKMDILKHYGFVSYLT 181 (183)
Q Consensus 145 ~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~~~~~~~~~ 181 (183)
||.|-++- .-++||.|.+..-+..++++.+.
T Consensus 13 ~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~LS 43 (95)
T PRK07758 13 GHEYYKSS------DCPTCPTCEKERKPKEGFLSLLS 43 (95)
T ss_pred ccceeccC------CCCCCcccccccCCCCCCCcccc
Confidence 77664321 22579999888888877776653
No 233
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=22.94 E-value=70 Score=19.74 Aligned_cols=33 Identities=24% Similarity=0.387 Sum_probs=21.1
Q ss_pred ccccccccccccC--CCceEEec-CCCccccccHHH
Q psy4226 123 GECCAICIEFYKP--SDIVRILP-CKHEYHKNCIDP 155 (183)
Q Consensus 123 ~~~C~ICle~~~~--~~~v~~lp-C~H~Fh~~Ci~~ 155 (183)
...|+.|-...+. .+....-| ||+.+|.|-.-.
T Consensus 28 Sq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~naA 63 (69)
T PF07282_consen 28 SQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVNAA 63 (69)
T ss_pred ccCccCcccccccccccceEEcCCCCCEECcHHHHH
Confidence 4569999887766 33333444 888888775433
No 234
>KOG4577|consensus
Probab=22.92 E-value=20 Score=29.56 Aligned_cols=45 Identities=29% Similarity=0.626 Sum_probs=31.9
Q ss_pred ccccccccccccCCCceEEecCCCccccccHHHHhcCCCcccccccccccccCC
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHRTCPMCKMDILKHYGF 176 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~~~~ 176 (183)
+..|+-|.+.+.+...+ .-.=.|++|-.|. .|-+|++.+...+.+
T Consensus 92 GTKCsaC~~GIpPtqVV-RkAqd~VYHl~CF--------~C~iC~R~L~TGdEF 136 (383)
T KOG4577|consen 92 GTKCSACQEGIPPTQVV-RKAQDFVYHLHCF--------ACFICKRQLATGDEF 136 (383)
T ss_pred CCcchhhcCCCChHHHH-HHhhcceeehhhh--------hhHhhhcccccCCee
Confidence 45699998887654333 2335788999995 588898888776654
No 235
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=22.88 E-value=35 Score=19.04 Aligned_cols=11 Identities=27% Similarity=0.890 Sum_probs=7.4
Q ss_pred ccccccccccc
Q psy4226 162 TCPMCKMDILK 172 (183)
Q Consensus 162 ~CP~CR~~i~~ 172 (183)
.||.|+..+.+
T Consensus 1 ~CP~C~~~l~~ 11 (41)
T PF13453_consen 1 KCPRCGTELEP 11 (41)
T ss_pred CcCCCCcccce
Confidence 38888776543
No 236
>KOG4323|consensus
Probab=22.62 E-value=61 Score=28.54 Aligned_cols=48 Identities=23% Similarity=0.544 Sum_probs=30.8
Q ss_pred ccccccccccccCCCceEEec---CCCccccccHHHHhcC--------CCcccccccccc
Q psy4226 123 GECCAICIEFYKPSDIVRILP---CKHEYHKNCIDPWLLE--------HRTCPMCKMDIL 171 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lp---C~H~Fh~~Ci~~Wl~~--------~~~CP~CR~~i~ 171 (183)
+..|++|.......-+ +++. |+-.||..|.++-.+. .-.|=+|+...-
T Consensus 168 n~qc~vC~~g~~~~~N-rmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~~ 226 (464)
T KOG4323|consen 168 NLQCSVCYCGGPGAGN-RMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGPK 226 (464)
T ss_pred cceeeeeecCCcCccc-eeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccchh
Confidence 4469999976443323 7776 4667999998764422 124888865433
No 237
>TIGR00847 ccoS cytochrome oxidase maturation protein, cbb3-type. CcoS from Rhodobacter capsulatus has been shown essential for incorporation of redox-active prosthetic groups (heme, Cu) into cytochrome cbb(3) oxidase. FixS of Bradyrhizobium japonicum appears to have the same function. Members of this family are found so far in organisms with a cbb3-type cytochrome oxidase, including Neisseria meningitidis, Helicobacter pylori, Campylobacter jejuni, Caulobacter crescentus, Bradyrhizobium japonicum, and Rhodobacter capsulatus.
Probab=22.37 E-value=1.6e+02 Score=17.57 Aligned_cols=22 Identities=14% Similarity=0.031 Sum_probs=11.6
Q ss_pred hhHhHHHHHHHHHHHHHHHHHH
Q psy4226 58 ISIGDLPRAVSLTLFQTELIFY 79 (183)
Q Consensus 58 isf~~l~~~is~~l~~~~~~f~ 79 (183)
+-++.+|+.+.+++...+.+++
T Consensus 3 il~~LIpiSl~l~~~~l~~f~W 24 (51)
T TIGR00847 3 ILTILIPISLLLGGVGLVAFLW 24 (51)
T ss_pred hHHHHHHHHHHHHHHHHHHHHH
Confidence 3455565666666555444443
No 238
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=22.36 E-value=47 Score=22.70 Aligned_cols=29 Identities=14% Similarity=0.210 Sum_probs=15.4
Q ss_pred CCCccccccHHHHhcCCCcccccccccccc
Q psy4226 144 CKHEYHKNCIDPWLLEHRTCPMCKMDILKH 173 (183)
Q Consensus 144 C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~ 173 (183)
||+.-|.-=..+. .....||.|++++.+.
T Consensus 65 CGvC~~~LT~~EY-~~~~~Cp~C~spFNp~ 93 (105)
T COG4357 65 CGVCRKLLTRAEY-GMCGSCPYCQSPFNPG 93 (105)
T ss_pred hhhhhhhhhHHHH-hhcCCCCCcCCCCCcc
Confidence 4443333333342 2234599998887654
No 239
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=22.30 E-value=47 Score=18.23 Aligned_cols=29 Identities=21% Similarity=0.505 Sum_probs=17.3
Q ss_pred cCCCccccccHHHHhcCCCcccccccccccc
Q psy4226 143 PCKHEYHKNCIDPWLLEHRTCPMCKMDILKH 173 (183)
Q Consensus 143 pC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~~~ 173 (183)
.||++||..=--+ +....|..|..++...
T Consensus 6 ~Cg~~Yh~~~~pP--~~~~~Cd~cg~~L~qR 34 (36)
T PF05191_consen 6 KCGRIYHIEFNPP--KVEGVCDNCGGELVQR 34 (36)
T ss_dssp TTTEEEETTTB----SSTTBCTTTTEBEBEE
T ss_pred CCCCccccccCCC--CCCCccCCCCCeeEeC
Confidence 4888888432211 2345699988776543
No 240
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=22.21 E-value=93 Score=17.96 Aligned_cols=33 Identities=24% Similarity=0.456 Sum_probs=22.3
Q ss_pred ccccccccccc--cCCCceEEecCCCccccccHHH
Q psy4226 123 GECCAICIEFY--KPSDIVRILPCKHEYHKNCIDP 155 (183)
Q Consensus 123 ~~~C~ICle~~--~~~~~v~~lpC~H~Fh~~Ci~~ 155 (183)
...|.+|-+.+ ....-.+-..|+-..|++|.+.
T Consensus 11 ~~~C~~C~~~i~g~~~~g~~C~~C~~~~H~~C~~~ 45 (53)
T PF00130_consen 11 PTYCDVCGKFIWGLGKQGYRCSWCGLVCHKKCLSK 45 (53)
T ss_dssp TEB-TTSSSBECSSSSCEEEETTTT-EEETTGGCT
T ss_pred CCCCcccCcccCCCCCCeEEECCCCChHhhhhhhh
Confidence 45699999988 3334455556899999999754
No 241
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=22.16 E-value=63 Score=22.28 Aligned_cols=32 Identities=16% Similarity=0.217 Sum_probs=24.1
Q ss_pred ccccccccccCCCceEEecCCCccccccHHHHh
Q psy4226 125 CCAICIEFYKPSDIVRILPCKHEYHKNCIDPWL 157 (183)
Q Consensus 125 ~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl 157 (183)
.|.||-+++..|+.-.-++= -.-|.+|+..=.
T Consensus 4 kC~iCg~~I~~gqlFTF~~k-G~VH~~C~~~~~ 35 (101)
T PF09943_consen 4 KCYICGKPIYEGQLFTFTKK-GPVHYECFREKA 35 (101)
T ss_pred EEEecCCeeeecceEEEecC-CcEeHHHHHHHH
Confidence 49999999998866554444 668999987643
No 242
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=22.04 E-value=33 Score=24.12 Aligned_cols=22 Identities=18% Similarity=0.239 Sum_probs=16.0
Q ss_pred hcCCCcccccccccccccCCCC
Q psy4226 157 LLEHRTCPMCKMDILKHYGFVS 178 (183)
Q Consensus 157 l~~~~~CP~CR~~i~~~~~~~~ 178 (183)
+.+...|+.|+.++....+...
T Consensus 82 LGr~D~CM~C~~pLTLd~~leg 103 (114)
T PF11023_consen 82 LGRVDACMHCKEPLTLDPSLEG 103 (114)
T ss_pred hchhhccCcCCCcCccCchhhc
Confidence 4555679999999887766544
No 243
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=21.98 E-value=63 Score=22.37 Aligned_cols=27 Identities=15% Similarity=0.447 Sum_probs=16.7
Q ss_pred EEecCCCccccccHHHHhcCCCccccccccc
Q psy4226 140 RILPCKHEYHKNCIDPWLLEHRTCPMCKMDI 170 (183)
Q Consensus 140 ~~lpC~H~Fh~~Ci~~Wl~~~~~CP~CR~~i 170 (183)
+-+.|||+|-.. +.-+ -+-||-|-...
T Consensus 4 ~CtrCG~vf~~g--~~~i--l~GCp~CG~nk 30 (112)
T COG3364 4 QCTRCGEVFDDG--SEEI--LSGCPKCGCNK 30 (112)
T ss_pred eecccccccccc--cHHH--HccCccccchh
Confidence 456799998875 2212 23499995543
No 244
>COG0353 RecR Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]
Probab=21.82 E-value=2.6e+02 Score=21.78 Aligned_cols=40 Identities=23% Similarity=0.341 Sum_probs=22.2
Q ss_pred hhHHHHHHHhhcCCCccccCCCcccCCCccccccccccccCCCc
Q psy4226 95 RLCSAAKKALSKIPTKHIKGEDKEISGDGECCAICIEFYKPSDI 138 (183)
Q Consensus 95 ~~~~~~~~~i~~l~~~~~~~~~~~~~~~~~~C~ICle~~~~~~~ 138 (183)
++..+..++.+++..-..-.. -.+.+.|.||.++..+...
T Consensus 42 ~la~al~~a~~~i~~C~~C~~----~te~d~C~ICsd~~Rd~~~ 81 (198)
T COG0353 42 RLAKALLEAKENIKHCSVCGN----LTESDPCDICSDESRDKSQ 81 (198)
T ss_pred HHHHHHHHHHhcCccccccCC----cCCCCcCcCcCCcccCCce
Confidence 333444455555444333222 2235679999999887643
No 245
>PF14369 zf-RING_3: zinc-finger
Probab=21.78 E-value=40 Score=18.37 Aligned_cols=11 Identities=27% Similarity=0.930 Sum_probs=6.9
Q ss_pred ccccccccccc
Q psy4226 162 TCPMCKMDILK 172 (183)
Q Consensus 162 ~CP~CR~~i~~ 172 (183)
+||.|...+.+
T Consensus 23 ~CP~C~~gFvE 33 (35)
T PF14369_consen 23 ACPRCHGGFVE 33 (35)
T ss_pred CCcCCCCcEeE
Confidence 37777666554
No 246
>PF00558 Vpu: Vpu protein; InterPro: IPR008187 The Human immunodeficiency virus 1 (HIV-1) Vpu protein acts in the degradation of CD4 in the endoplasmic reticulum and in the enhancement of virion release from the plasma membrane of infected cells [].; GO: 0019076 release of virus from host; PDB: 2JPX_A 1PI8_A 2GOH_A 2GOF_A 1PI7_A 1PJE_A 1VPU_A 2K7Y_A.
Probab=21.54 E-value=89 Score=20.63 Aligned_cols=10 Identities=30% Similarity=0.461 Sum_probs=2.3
Q ss_pred HHHHHhhccc
Q psy4226 75 ELIFYQQYSS 84 (183)
Q Consensus 75 ~~~f~~~~~~ 84 (183)
|.+.|..|+.
T Consensus 23 W~iv~ieYrk 32 (81)
T PF00558_consen 23 WTIVYIEYRK 32 (81)
T ss_dssp HHHH------
T ss_pred HHHHHHHHHH
Confidence 5555555544
No 247
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=21.49 E-value=46 Score=23.24 Aligned_cols=23 Identities=35% Similarity=0.544 Sum_probs=12.8
Q ss_pred ccccccccccCCC-ceEEec-CCCc
Q psy4226 125 CCAICIEFYKPSD-IVRILP-CKHE 147 (183)
Q Consensus 125 ~C~ICle~~~~~~-~v~~lp-C~H~ 147 (183)
.|+-|..+|.-.| ...+-| |+|.
T Consensus 4 ~CP~C~seytY~dg~~~iCpeC~~E 28 (109)
T TIGR00686 4 PCPKCNSEYTYHDGTQLICPSCLYE 28 (109)
T ss_pred cCCcCCCcceEecCCeeECcccccc
Confidence 4888888766433 222333 6663
No 248
>KOG1245|consensus
Probab=21.01 E-value=30 Score=34.73 Aligned_cols=49 Identities=20% Similarity=0.506 Sum_probs=35.3
Q ss_pred CccccccccccccCCCceEEecCCCccccccHHHHhcCCC----ccccccccc
Q psy4226 122 DGECCAICIEFYKPSDIVRILPCKHEYHKNCIDPWLLEHR----TCPMCKMDI 170 (183)
Q Consensus 122 ~~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci~~Wl~~~~----~CP~CR~~i 170 (183)
....|-+|.......+.+.-.-|---||..|+++-+...+ .||-||..-
T Consensus 1107 ~~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1107 VNALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred chhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 3556999999877653333333566799999999776643 599998765
No 249
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=20.70 E-value=36 Score=16.93 Aligned_cols=10 Identities=30% Similarity=0.962 Sum_probs=6.2
Q ss_pred cccccccccc
Q psy4226 162 TCPMCKMDIL 171 (183)
Q Consensus 162 ~CP~CR~~i~ 171 (183)
.||.|.+.+.
T Consensus 4 ~C~~CgR~F~ 13 (25)
T PF13913_consen 4 PCPICGRKFN 13 (25)
T ss_pred cCCCCCCEEC
Confidence 4777766553
No 250
>PF14319 Zn_Tnp_IS91: Transposase zinc-binding domain
Probab=20.12 E-value=84 Score=21.85 Aligned_cols=32 Identities=19% Similarity=0.434 Sum_probs=19.5
Q ss_pred ccccccccccccCCCceEEecCCCccccccH----HHHhcC
Q psy4226 123 GECCAICIEFYKPSDIVRILPCKHEYHKNCI----DPWLLE 159 (183)
Q Consensus 123 ~~~C~ICle~~~~~~~v~~lpC~H~Fh~~Ci----~~Wl~~ 159 (183)
...|.=|-.. .+.-..|+|-+|..|- ++|+..
T Consensus 42 ~~~C~~Cg~~-----~~~~~SCk~R~CP~C~~~~~~~W~~~ 77 (111)
T PF14319_consen 42 RYRCEDCGHE-----KIVYNSCKNRHCPSCQAKATEQWIEK 77 (111)
T ss_pred eeecCCCCce-----EEecCcccCcCCCCCCChHHHHHHHH
Confidence 4557666443 2233458888888884 367654
No 251
>KOG0722|consensus
Probab=20.08 E-value=3.1e+02 Score=22.44 Aligned_cols=29 Identities=14% Similarity=0.190 Sum_probs=22.0
Q ss_pred eeccchhhhHhHHHHHHHHHHHHHHHHHH
Q psy4226 51 TATDLIPISIGDLPRAVSLTLFQTELIFY 79 (183)
Q Consensus 51 ~~~~~~~isf~~l~~~is~~l~~~~~~f~ 79 (183)
+.|+.+++.+|++|+.|.-.+.+..+++.
T Consensus 210 siwd~L~v~~Ii~PyTI~~~ivW~a~W~W 238 (329)
T KOG0722|consen 210 SIWDTLAVHTIIFPYTIFRYIVWTALWYW 238 (329)
T ss_pred cHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence 55788899999999988877766544444
Done!