Query psy10334
Match_columns 314
No_of_seqs 341 out of 2295
Neff 8.1
Searched_HMMs 46136
Date Fri Aug 16 15:20:26 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10334.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/10334hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF15227 zf-C3HC4_4: zinc fing 99.5 1.3E-14 2.9E-19 93.8 2.8 39 35-74 1-42 (42)
2 KOG0287|consensus 99.5 1.2E-14 2.6E-19 130.4 1.9 82 18-101 9-90 (442)
3 PF14835 zf-RING_6: zf-RING of 99.4 3.2E-14 6.8E-19 98.1 0.9 64 27-93 2-65 (65)
4 smart00504 Ubox Modified RING 99.4 1.5E-13 3.2E-18 97.2 4.1 61 32-94 1-61 (63)
5 TIGR00599 rad18 DNA repair pro 99.4 1.1E-13 2.3E-18 130.4 3.9 82 18-101 12-93 (397)
6 PLN03208 E3 ubiquitin-protein 99.3 4.9E-13 1.1E-17 113.2 3.2 57 29-86 15-86 (193)
7 PF04564 U-box: U-box domain; 99.3 1.1E-12 2.5E-17 95.5 3.7 67 30-97 2-68 (73)
8 KOG2177|consensus 99.3 5.4E-13 1.2E-17 122.1 1.8 124 24-159 5-133 (386)
9 PF13923 zf-C3HC4_2: Zinc fing 99.3 2.4E-12 5.1E-17 82.1 2.3 39 35-74 1-39 (39)
10 KOG0317|consensus 99.2 3E-12 6.5E-17 113.5 3.1 52 31-84 238-289 (293)
11 KOG0823|consensus 99.2 2.4E-12 5.2E-17 111.0 2.3 56 30-86 45-102 (230)
12 COG5432 RAD18 RING-finger-cont 99.1 1.7E-11 3.6E-16 108.3 2.3 78 20-99 13-90 (391)
13 PF13920 zf-C3HC4_3: Zinc fing 99.1 4.1E-11 8.8E-16 80.7 2.6 47 31-79 1-48 (50)
14 PF00097 zf-C3HC4: Zinc finger 99.1 5.4E-11 1.2E-15 76.6 2.6 40 35-74 1-41 (41)
15 PHA02929 N1R/p28-like protein; 99.1 7.5E-11 1.6E-15 104.1 3.6 49 30-79 172-227 (238)
16 PF13639 zf-RING_2: Ring finge 99.1 5E-11 1.1E-15 78.0 1.7 40 34-75 2-44 (44)
17 cd00162 RING RING-finger (Real 99.0 1.5E-10 3.3E-15 75.3 2.9 44 34-77 1-44 (45)
18 PHA02926 zinc finger-like prot 99.0 1.6E-10 3.4E-15 99.1 3.1 59 29-89 167-238 (242)
19 KOG0320|consensus 99.0 2.1E-10 4.5E-15 95.0 2.3 52 31-84 130-183 (187)
20 PF13445 zf-RING_UBOX: RING-ty 98.8 1.2E-09 2.5E-14 70.7 1.7 36 35-72 1-43 (43)
21 smart00184 RING Ring finger. E 98.8 3.1E-09 6.7E-14 66.6 2.7 39 35-74 1-39 (39)
22 PF12678 zf-rbx1: RING-H2 zinc 98.7 8.7E-09 1.9E-13 74.9 2.5 41 34-75 21-73 (73)
23 PF14634 zf-RING_5: zinc-RING 98.7 1.1E-08 2.4E-13 66.8 2.5 41 34-76 1-44 (44)
24 COG5574 PEX10 RING-finger-cont 98.6 1.2E-08 2.7E-13 89.6 2.6 52 31-83 214-266 (271)
25 KOG0311|consensus 98.6 4.2E-09 9E-14 95.9 -0.7 68 27-94 38-106 (381)
26 KOG2164|consensus 98.6 2.5E-08 5.5E-13 95.1 2.4 54 32-86 186-243 (513)
27 TIGR00570 cdk7 CDK-activating 98.6 4.9E-08 1.1E-12 88.9 3.9 54 32-85 3-60 (309)
28 KOG2660|consensus 98.4 6.3E-08 1.4E-12 87.8 1.2 67 27-94 10-80 (331)
29 PF12861 zf-Apc11: Anaphase-pr 98.4 1.9E-07 4.1E-12 68.8 2.9 50 31-80 20-83 (85)
30 KOG0978|consensus 98.4 1E-07 2.2E-12 95.1 1.7 58 27-85 638-695 (698)
31 KOG4628|consensus 98.2 9E-07 2E-11 81.9 2.6 47 33-80 230-279 (348)
32 PF11789 zf-Nse: Zinc-finger o 98.2 7.9E-07 1.7E-11 61.2 1.6 44 30-73 9-53 (57)
33 COG5540 RING-finger-containing 98.1 1E-06 2.2E-11 78.9 1.2 49 32-80 323-373 (374)
34 KOG0297|consensus 98.1 1.5E-06 3.1E-11 83.2 1.9 57 28-85 17-73 (391)
35 COG5243 HRD1 HRD ubiquitin lig 98.0 3.2E-06 6.9E-11 77.7 3.1 47 30-78 285-344 (491)
36 KOG0802|consensus 98.0 2.9E-06 6.3E-11 84.7 2.6 48 30-79 289-341 (543)
37 KOG4159|consensus 98.0 2.7E-06 5.8E-11 80.7 1.9 49 30-80 82-130 (398)
38 KOG0824|consensus 97.9 7E-06 1.5E-10 73.7 2.4 50 32-82 7-56 (324)
39 COG5222 Uncharacterized conser 97.8 1.1E-05 2.5E-10 72.1 3.1 44 33-76 275-318 (427)
40 KOG2879|consensus 97.8 1.7E-05 3.6E-10 70.4 2.9 50 30-79 237-287 (298)
41 KOG4172|consensus 97.7 9.5E-06 2.1E-10 54.0 0.6 46 33-79 8-54 (62)
42 KOG1039|consensus 97.6 3.1E-05 6.7E-10 72.2 2.1 50 30-79 159-221 (344)
43 PF00075 RNase_H: RNase H; In 97.5 3.2E-05 6.9E-10 62.1 0.9 31 133-163 100-131 (132)
44 COG5152 Uncharacterized conser 97.5 4.8E-05 1E-09 64.3 1.6 46 32-79 196-241 (259)
45 KOG1813|consensus 97.4 7.5E-05 1.6E-09 67.0 1.9 45 33-79 242-286 (313)
46 KOG1002|consensus 97.4 7.3E-05 1.6E-09 71.8 1.8 51 30-81 534-588 (791)
47 PF11793 FANCL_C: FANCL C-term 97.4 5.5E-05 1.2E-09 54.4 0.7 49 32-80 2-67 (70)
48 KOG0804|consensus 97.3 8.9E-05 1.9E-09 70.0 0.8 49 28-79 171-222 (493)
49 PRK08719 ribonuclease H; Revie 97.2 0.00053 1.2E-08 56.7 4.6 30 135-164 117-146 (147)
50 PRK00203 rnhA ribonuclease H; 97.2 0.00019 4E-09 59.6 1.7 33 135-167 112-144 (150)
51 KOG1645|consensus 97.1 0.00025 5.3E-09 66.3 2.5 55 32-86 4-63 (463)
52 PRK06548 ribonuclease H; Provi 97.1 0.00032 6.9E-09 58.8 2.9 32 136-167 113-144 (161)
53 KOG4367|consensus 97.1 0.00016 3.4E-09 68.0 0.8 37 29-66 1-37 (699)
54 KOG1493|consensus 97.1 0.00011 2.3E-09 52.5 -0.3 35 45-79 45-81 (84)
55 COG5219 Uncharacterized conser 97.0 0.00026 5.7E-09 72.2 1.7 51 29-79 1466-1523(1525)
56 COG0328 RnhA Ribonuclease HI [ 96.9 0.00073 1.6E-08 56.0 3.3 30 137-166 117-146 (154)
57 COG5194 APC11 Component of SCF 96.9 0.00054 1.2E-08 49.4 2.0 30 49-79 52-81 (88)
58 KOG1734|consensus 96.8 0.00032 6.8E-09 62.2 0.3 56 30-86 222-288 (328)
59 KOG0827|consensus 96.8 0.00094 2E-08 62.1 2.8 52 32-83 4-60 (465)
60 KOG0828|consensus 96.7 0.00068 1.5E-08 64.8 1.8 50 30-79 569-634 (636)
61 KOG1785|consensus 96.7 0.00066 1.4E-08 63.3 1.6 49 33-82 370-419 (563)
62 smart00744 RINGv The RING-vari 96.7 0.0013 2.9E-08 43.7 2.4 41 34-75 1-49 (49)
63 PF14570 zf-RING_4: RING/Ubox 96.6 0.0019 4.2E-08 42.4 2.7 43 35-78 1-47 (48)
64 KOG0825|consensus 96.5 0.00064 1.4E-08 68.2 0.1 48 32-80 123-172 (1134)
65 KOG3002|consensus 96.4 0.0023 5E-08 58.8 2.9 60 29-97 45-106 (299)
66 KOG4692|consensus 96.3 0.0041 9E-08 57.3 4.0 48 31-80 421-468 (489)
67 KOG3039|consensus 96.3 0.0026 5.6E-08 55.8 2.4 54 31-85 220-276 (303)
68 PF13966 zf-RVT: zinc-binding 96.3 0.0042 9.1E-08 46.3 3.3 46 227-274 35-83 (86)
69 KOG1001|consensus 96.3 0.002 4.2E-08 65.7 1.8 50 33-84 455-505 (674)
70 KOG1814|consensus 96.0 0.0078 1.7E-07 56.6 4.1 88 9-97 160-259 (445)
71 KOG4265|consensus 95.7 0.0062 1.3E-07 56.4 2.3 48 30-79 288-336 (349)
72 PHA03096 p28-like protein; Pro 95.7 0.0055 1.2E-07 56.0 1.9 44 33-76 179-231 (284)
73 KOG2930|consensus 95.7 0.0063 1.4E-07 46.2 1.7 45 32-77 46-106 (114)
74 KOG4275|consensus 95.4 0.0038 8.3E-08 56.1 -0.3 42 31-78 299-341 (350)
75 KOG1571|consensus 95.2 0.0072 1.6E-07 56.1 1.0 44 31-79 304-347 (355)
76 cd06222 RnaseH RNase H (RNase 95.2 0.034 7.5E-07 42.8 4.8 30 133-162 100-129 (130)
77 KOG3800|consensus 95.1 0.016 3.6E-07 52.2 2.8 51 34-84 2-56 (300)
78 KOG3039|consensus 95.0 0.016 3.5E-07 51.0 2.5 39 28-67 39-77 (303)
79 KOG4185|consensus 94.9 0.021 4.5E-07 52.6 3.2 62 33-95 4-76 (296)
80 PF05290 Baculo_IE-1: Baculovi 94.6 0.027 6E-07 44.9 2.6 52 31-82 79-135 (140)
81 KOG4739|consensus 94.6 0.011 2.3E-07 52.2 0.3 51 33-86 4-55 (233)
82 PF14447 Prok-RING_4: Prokaryo 94.6 0.018 3.8E-07 38.9 1.3 48 31-82 6-53 (55)
83 PF04641 Rtf2: Rtf2 RING-finge 94.5 0.025 5.4E-07 51.3 2.6 54 30-85 111-167 (260)
84 KOG0826|consensus 94.5 0.016 3.6E-07 53.0 1.2 52 31-83 299-350 (357)
85 PF08746 zf-RING-like: RING-li 94.4 0.035 7.6E-07 35.8 2.4 40 35-74 1-43 (43)
86 KOG4362|consensus 93.8 0.021 4.6E-07 57.5 0.7 68 26-94 15-84 (684)
87 COG5175 MOT2 Transcriptional r 93.8 0.039 8.5E-07 50.7 2.2 53 30-83 12-68 (480)
88 KOG1941|consensus 92.9 0.041 8.9E-07 51.5 0.9 44 32-76 365-413 (518)
89 KOG0298|consensus 92.4 0.04 8.6E-07 58.8 0.1 47 29-76 1150-1196(1394)
90 KOG3268|consensus 92.2 0.11 2.3E-06 43.6 2.4 56 26-81 159-230 (234)
91 KOG1812|consensus 92.1 0.11 2.4E-06 49.7 2.8 52 32-83 146-207 (384)
92 KOG4445|consensus 91.8 0.061 1.3E-06 48.7 0.7 51 30-80 113-187 (368)
93 PF05883 Baculo_RING: Baculovi 91.5 0.1 2.3E-06 41.9 1.6 33 32-65 26-67 (134)
94 PF10571 UPF0547: Uncharacteri 91.3 0.12 2.5E-06 29.5 1.2 22 34-55 2-24 (26)
95 PF02891 zf-MIZ: MIZ/SP-RING z 90.9 0.17 3.6E-06 33.7 1.9 45 32-77 2-50 (50)
96 KOG3970|consensus 90.9 0.28 6.1E-06 42.8 3.7 53 26-79 44-105 (299)
97 KOG2114|consensus 90.8 0.11 2.4E-06 53.3 1.4 40 33-76 841-880 (933)
98 KOG3161|consensus 90.6 0.098 2.1E-06 52.0 0.8 39 30-72 9-51 (861)
99 PF10367 Vps39_2: Vacuolar sor 90.5 0.08 1.7E-06 40.8 0.0 33 30-62 76-109 (109)
100 KOG3752|consensus 90.4 0.32 7E-06 45.7 3.9 31 135-165 335-365 (371)
101 PF14569 zf-UDP: Zinc-binding 89.4 0.37 8E-06 34.9 2.7 48 32-79 9-62 (80)
102 KOG3579|consensus 89.3 0.13 2.9E-06 46.2 0.5 42 31-73 267-316 (352)
103 PF07975 C1_4: TFIIH C1-like d 88.0 0.52 1.1E-05 31.5 2.6 40 35-75 2-50 (51)
104 PHA02862 5L protein; Provision 87.7 0.48 1E-05 38.5 2.7 48 33-82 3-56 (156)
105 COG5220 TFB3 Cdk activating ki 87.4 0.13 2.9E-06 45.2 -0.8 48 31-78 9-63 (314)
106 PHA02825 LAP/PHD finger-like p 87.1 0.68 1.5E-05 38.4 3.3 51 30-81 6-61 (162)
107 COG5236 Uncharacterized conser 86.4 0.49 1.1E-05 43.9 2.3 46 30-77 59-106 (493)
108 PF14446 Prok-RING_1: Prokaryo 85.3 0.68 1.5E-05 31.2 2.0 30 32-61 5-37 (54)
109 PF10272 Tmpp129: Putative tra 85.0 0.54 1.2E-05 44.4 1.9 31 53-83 313-355 (358)
110 PF07191 zinc-ribbons_6: zinc- 84.2 0.11 2.4E-06 37.0 -2.3 41 32-79 1-41 (70)
111 KOG1940|consensus 81.6 1.2 2.7E-05 40.4 2.8 43 32-76 158-204 (276)
112 KOG2817|consensus 81.4 1 2.3E-05 42.6 2.3 47 31-78 333-384 (394)
113 KOG1952|consensus 81.2 1.2 2.6E-05 46.0 2.8 47 30-76 189-244 (950)
114 KOG1815|consensus 81.1 0.94 2E-05 44.3 2.0 52 30-82 68-129 (444)
115 PLN02189 cellulose synthase 80.4 0.87 1.9E-05 48.4 1.5 47 33-79 35-87 (1040)
116 KOG3899|consensus 80.1 0.94 2E-05 41.1 1.5 33 51-83 325-369 (381)
117 KOG0825|consensus 79.7 1.1 2.4E-05 45.9 1.9 48 31-78 95-153 (1134)
118 PF12906 RINGv: RING-variant d 79.3 1.1 2.3E-05 29.4 1.2 39 35-74 1-47 (47)
119 PLN02436 cellulose synthase A 78.1 1.3 2.9E-05 47.1 2.1 47 33-79 37-89 (1094)
120 KOG4718|consensus 77.3 1.2 2.6E-05 38.6 1.2 44 32-76 181-224 (235)
121 COG3813 Uncharacterized protei 76.8 2 4.4E-05 30.6 2.0 32 52-86 28-59 (84)
122 KOG2932|consensus 76.5 1 2.2E-05 41.2 0.6 42 33-78 91-133 (389)
123 PF07800 DUF1644: Protein of u 74.9 1.1 2.3E-05 37.1 0.3 21 31-52 1-21 (162)
124 PLN02638 cellulose synthase A 74.8 1.9 4.2E-05 46.1 2.2 47 33-79 18-70 (1079)
125 KOG1812|consensus 73.1 1.4 3E-05 42.3 0.6 41 31-73 305-350 (384)
126 smart00647 IBR In Between Ring 71.8 1.1 2.5E-05 30.7 -0.2 32 32-63 18-58 (64)
127 PF09538 FYDLN_acid: Protein o 71.8 2.4 5.1E-05 33.1 1.5 28 54-81 10-39 (108)
128 PLN02195 cellulose synthase A 71.1 2.5 5.4E-05 44.8 2.0 47 33-79 7-59 (977)
129 PF10497 zf-4CXXC_R1: Zinc-fin 71.0 4.2 9.2E-05 31.5 2.8 45 33-77 8-70 (105)
130 KOG1428|consensus 70.2 3.5 7.6E-05 45.4 2.8 51 30-81 3484-3546(3738)
131 PF06844 DUF1244: Protein of u 70.0 2.6 5.6E-05 29.5 1.2 13 54-66 11-23 (68)
132 PLN02915 cellulose synthase A 69.5 2.9 6.2E-05 44.7 2.0 48 32-79 15-68 (1044)
133 PF03854 zf-P11: P-11 zinc fin 68.1 3.6 7.8E-05 26.9 1.5 41 35-79 5-46 (50)
134 PLN02400 cellulose synthase 67.4 2.7 5.9E-05 45.0 1.4 47 33-79 37-89 (1085)
135 smart00154 ZnF_AN1 AN1-like Zi 67.2 3 6.6E-05 26.1 1.1 24 35-58 1-25 (39)
136 PF06906 DUF1272: Protein of u 67.2 4.3 9.3E-05 27.5 1.8 46 33-82 6-55 (57)
137 TIGR00622 ssl1 transcription f 66.6 4 8.7E-05 31.9 1.8 43 32-75 55-110 (112)
138 smart00064 FYVE Protein presen 66.4 4.2 9.1E-05 28.4 1.8 34 32-65 10-46 (68)
139 PF01428 zf-AN1: AN1-like Zinc 64.7 3 6.6E-05 26.6 0.7 25 35-59 1-27 (43)
140 PF13719 zinc_ribbon_5: zinc-r 64.5 3.9 8.4E-05 25.2 1.1 14 33-46 3-16 (37)
141 cd00065 FYVE FYVE domain; Zinc 63.4 5.3 0.00011 26.7 1.8 33 33-65 3-38 (57)
142 PF01485 IBR: IBR domain; Int 63.1 1.2 2.6E-05 30.5 -1.6 33 31-63 17-58 (64)
143 PF01363 FYVE: FYVE zinc finge 61.5 2.7 5.8E-05 29.5 0.0 35 30-64 7-44 (69)
144 TIGR02098 MJ0042_CXXC MJ0042 f 59.9 5.1 0.00011 24.6 1.1 13 33-45 3-15 (38)
145 KOG2034|consensus 58.1 4.7 0.0001 42.1 1.1 37 30-66 815-852 (911)
146 PF00098 zf-CCHC: Zinc knuckle 57.6 8.2 0.00018 19.8 1.4 17 250-272 2-18 (18)
147 TIGR02300 FYDLN_acid conserved 57.3 7 0.00015 31.2 1.7 12 70-81 28-39 (129)
148 PF05605 zf-Di19: Drought indu 54.7 5.6 0.00012 26.6 0.7 38 31-76 1-39 (54)
149 PF13717 zinc_ribbon_4: zinc-r 54.7 7.3 0.00016 23.9 1.1 13 33-45 3-15 (36)
150 PF13456 RVT_3: Reverse transc 53.4 17 0.00036 25.9 3.2 59 99-163 26-85 (87)
151 KOG3053|consensus 52.7 8.6 0.00019 34.5 1.7 51 29-79 17-82 (293)
152 PRK04023 DNA polymerase II lar 52.1 8.8 0.00019 40.9 1.9 45 32-80 626-675 (1121)
153 KOG3113|consensus 52.1 11 0.00024 33.7 2.2 51 31-84 110-163 (293)
154 cd00021 BBOX B-Box-type zinc f 51.7 0.65 1.4E-05 28.5 -4.1 24 120-143 3-27 (39)
155 cd00729 rubredoxin_SM Rubredox 51.1 9.9 0.00021 23.0 1.3 12 33-44 3-14 (34)
156 PF02318 FYVE_2: FYVE-type zin 49.7 5.7 0.00012 31.3 0.1 46 31-76 53-102 (118)
157 PF13395 HNH_4: HNH endonuclea 49.5 8.9 0.00019 25.7 1.0 17 251-267 1-24 (54)
158 COG4647 AcxC Acetone carboxyla 48.9 6.6 0.00014 31.3 0.4 21 36-57 61-81 (165)
159 PRK13907 rnhA ribonuclease H; 48.3 17 0.00037 28.6 2.7 24 137-164 103-126 (128)
160 KOG0824|consensus 48.3 6.2 0.00013 36.2 0.1 49 30-79 103-151 (324)
161 KOG0827|consensus 47.0 4.4 9.5E-05 38.4 -1.1 49 33-83 197-249 (465)
162 COG3492 Uncharacterized protei 46.9 10 0.00022 28.4 1.0 13 54-66 42-54 (104)
163 PHA00626 hypothetical protein 46.5 12 0.00026 25.4 1.2 12 69-80 24-35 (59)
164 KOG2462|consensus 43.7 8.6 0.00019 34.8 0.3 54 30-84 159-232 (279)
165 COG5109 Uncharacterized conser 43.3 15 0.00032 34.0 1.7 46 30-76 334-384 (396)
166 COG5242 TFB4 RNA polymerase II 42.0 12 0.00025 33.0 0.9 14 33-46 261-274 (296)
167 PF04216 FdhE: Protein involve 41.6 3.8 8.3E-05 37.6 -2.4 44 32-76 172-219 (290)
168 KOG0289|consensus 41.1 23 0.0005 34.3 2.7 51 34-85 2-52 (506)
169 PF14353 CpXC: CpXC protein 40.7 14 0.0003 29.4 1.0 46 33-79 2-49 (128)
170 PF13917 zf-CCHC_3: Zinc knuck 40.6 16 0.00036 23.3 1.2 19 248-272 4-22 (42)
171 smart00249 PHD PHD zinc finger 39.6 11 0.00024 23.4 0.2 30 34-63 1-32 (47)
172 PF04423 Rad50_zn_hook: Rad50 38.4 13 0.00028 24.8 0.5 14 69-82 21-34 (54)
173 PF03966 Trm112p: Trm112p-like 37.7 16 0.00035 25.7 0.9 14 29-42 4-17 (68)
174 KOG2979|consensus 37.6 19 0.00042 32.3 1.5 42 32-73 176-218 (262)
175 PF14169 YdjO: Cold-inducible 37.3 25 0.00053 24.2 1.7 24 242-266 33-56 (59)
176 KOG0309|consensus 36.6 24 0.00053 36.5 2.2 41 32-73 1028-1069(1081)
177 KOG0314|consensus 36.2 9 0.0002 37.3 -0.8 46 28-75 215-262 (448)
178 KOG2807|consensus 36.2 11 0.00024 34.9 -0.2 9 70-78 347-355 (378)
179 COG4640 Predicted membrane pro 35.9 18 0.0004 34.5 1.2 23 34-56 3-26 (465)
180 COG1592 Rubrerythrin [Energy p 35.6 22 0.00048 29.9 1.5 13 32-44 134-146 (166)
181 PF03604 DNA_RNApol_7kD: DNA d 35.3 26 0.00057 20.9 1.4 20 35-54 3-26 (32)
182 COG0068 HypF Hydrogenase matur 35.1 20 0.00044 36.9 1.4 50 29-78 98-183 (750)
183 COG5627 MMS21 DNA repair prote 34.8 27 0.00059 30.9 2.0 57 32-88 189-248 (275)
184 KOG1100|consensus 34.2 21 0.00045 31.2 1.2 39 35-79 161-200 (207)
185 smart00336 BBOX B-Box-type zin 34.0 2.3 5.1E-05 26.4 -3.6 25 119-143 5-30 (42)
186 KOG4185|consensus 33.8 7.8 0.00017 35.5 -1.6 45 33-77 208-265 (296)
187 PRK11088 rrmA 23S rRNA methylt 33.4 21 0.00045 32.3 1.1 22 33-55 3-27 (272)
188 PF13240 zinc_ribbon_2: zinc-r 33.0 23 0.00049 19.4 0.8 8 35-42 2-9 (23)
189 KOG1815|consensus 32.5 16 0.00034 35.8 0.2 31 42-75 176-206 (444)
190 PTZ00303 phosphatidylinositol 31.8 22 0.00049 36.9 1.1 32 33-64 461-500 (1374)
191 KOG0269|consensus 31.4 39 0.00085 35.0 2.7 49 33-82 780-831 (839)
192 PF13248 zf-ribbon_3: zinc-rib 31.2 28 0.00062 19.4 1.0 6 35-40 5-10 (26)
193 PRK07708 hypothetical protein; 31.2 85 0.0019 27.6 4.6 26 138-167 185-210 (219)
194 PRK14714 DNA polymerase II lar 31.0 33 0.00071 37.7 2.2 48 32-80 667-721 (1337)
195 PF00096 zf-C2H2: Zinc finger, 30.7 21 0.00045 18.8 0.4 10 35-44 3-12 (23)
196 PF10235 Cript: Microtubule-as 30.6 32 0.00069 25.9 1.5 37 32-79 44-80 (90)
197 KOG2113|consensus 30.4 30 0.00066 32.0 1.6 43 30-76 341-384 (394)
198 cd00350 rubredoxin_like Rubred 30.0 35 0.00075 20.3 1.3 10 34-43 3-12 (33)
199 KOG2807|consensus 29.9 38 0.00081 31.6 2.1 61 14-75 310-374 (378)
200 PF03119 DNA_ligase_ZBD: NAD-d 29.8 14 0.00031 21.3 -0.4 22 250-272 1-22 (28)
201 smart00659 RPOLCX RNA polymera 29.6 32 0.0007 22.1 1.2 10 69-78 20-29 (44)
202 KOG4642|consensus 29.5 50 0.0011 29.7 2.8 69 29-98 208-276 (284)
203 TIGR00686 phnA alkylphosphonat 28.9 35 0.00077 26.4 1.5 28 248-277 2-29 (109)
204 PF13901 DUF4206: Domain of un 28.9 32 0.00069 29.8 1.5 39 31-75 151-196 (202)
205 PRK10220 hypothetical protein; 28.8 39 0.00085 26.2 1.7 25 248-274 3-27 (111)
206 KOG2169|consensus 28.8 50 0.0011 34.0 3.0 64 31-96 305-373 (636)
207 KOG2068|consensus 28.6 39 0.00084 31.5 2.0 45 33-79 250-298 (327)
208 PF08274 PhnA_Zn_Ribbon: PhnA 28.3 19 0.0004 21.2 -0.1 21 249-271 3-23 (30)
209 KOG3362|consensus 28.2 20 0.00043 29.3 0.1 29 33-63 119-148 (156)
210 COG4098 comFA Superfamily II D 28.1 24 0.00053 33.3 0.6 31 30-61 37-68 (441)
211 TIGR01562 FdhE formate dehydro 27.0 15 0.00032 34.2 -1.0 44 32-76 184-232 (305)
212 COG5183 SSM4 Protein involved 26.5 53 0.0012 34.4 2.7 52 30-82 10-69 (1175)
213 PF02148 zf-UBP: Zn-finger in 26.3 35 0.00076 23.5 1.0 32 35-66 1-36 (63)
214 PF13696 zf-CCHC_2: Zinc knuck 25.7 32 0.00069 20.6 0.6 17 250-272 10-26 (32)
215 PRK14890 putative Zn-ribbon RN 25.2 43 0.00093 23.0 1.3 39 34-75 9-55 (59)
216 PF11023 DUF2614: Protein of u 24.8 52 0.0011 25.7 1.8 13 69-81 86-98 (114)
217 TIGR03847 conserved hypothetic 24.3 48 0.001 28.0 1.6 23 246-273 154-176 (177)
218 PF13834 DUF4193: Domain of un 24.2 29 0.00062 26.5 0.3 30 30-59 68-98 (99)
219 smart00834 CxxC_CXXC_SSSS Puta 24.2 49 0.0011 20.2 1.3 13 32-44 5-17 (41)
220 PF10083 DUF2321: Uncharacteri 24.2 42 0.0009 27.9 1.2 26 52-81 27-52 (158)
221 PF08882 Acetone_carb_G: Aceto 23.9 32 0.00069 26.8 0.5 13 45-58 24-36 (112)
222 smart00132 LIM Zinc-binding do 23.4 42 0.00091 19.7 0.9 36 34-78 1-37 (39)
223 PRK00398 rpoP DNA-directed RNA 23.2 47 0.001 21.2 1.1 7 251-257 6-12 (46)
224 KOG1356|consensus 23.1 30 0.00065 36.2 0.3 33 32-64 229-262 (889)
225 PF13894 zf-C2H2_4: C2H2-type 22.9 33 0.00071 17.7 0.3 8 71-78 3-10 (24)
226 KOG3799|consensus 22.2 35 0.00076 27.5 0.4 25 29-59 62-87 (169)
227 PF15616 TerY-C: TerY-C metal 21.7 44 0.00095 27.0 0.9 43 29-79 74-116 (131)
228 PF00325 Crp: Bacterial regula 20.6 1.5E+02 0.0032 17.7 2.8 28 284-311 5-32 (32)
229 COG4357 Zinc finger domain con 20.3 72 0.0016 24.2 1.7 12 69-80 81-92 (105)
230 PF05741 zf-nanos: Nanos RNA b 20.2 53 0.0012 22.3 0.9 20 250-272 35-54 (55)
No 1
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.49 E-value=1.3e-14 Score=93.77 Aligned_cols=39 Identities=28% Similarity=0.840 Sum_probs=31.2
Q ss_pred eccccccccCccccCCCCCcchHHHHHHHHhccC---Cccccc
Q psy10334 35 CFICIEKLRDTHLCPHCSKLCCLACIRQFLTEER---SQCPHC 74 (314)
Q Consensus 35 C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~---~~CP~C 74 (314)
||||+++|+|||++ .|||+||++||.+||+... ..||+|
T Consensus 1 CpiC~~~~~~Pv~l-~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSL-PCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE--SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCcccc-CCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999999998 5999999999999998742 369988
No 2
>KOG0287|consensus
Probab=99.47 E-value=1.2e-14 Score=130.40 Aligned_cols=82 Identities=32% Similarity=0.666 Sum_probs=72.4
Q ss_pred hcccchhHHHhccccceeccccccccCccccCCCCCcchHHHHHHHHhccCCcccccccccccchhhhhhhhHhhhhhhc
Q psy10334 18 FISTTSHVSRALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLVNCRWMEEVTQHLD 97 (314)
Q Consensus 18 ~~~~~~~~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~ 97 (314)
|+.+.-..+..+++.++|.||.++|+.|+.+| |||+||.-||..++.. .+.||.|+.++....++.|+.+.++++.+.
T Consensus 9 w~~tsipslk~lD~lLRC~IC~eyf~ip~itp-CsHtfCSlCIR~~L~~-~p~CP~C~~~~~Es~Lr~n~il~Eiv~S~~ 86 (442)
T KOG0287|consen 9 WPPTSIPSLKTLDDLLRCGICFEYFNIPMITP-CSHTFCSLCIRKFLSY-KPQCPTCCVTVTESDLRNNRILDEIVKSLN 86 (442)
T ss_pred CCCccCchhhhhHHHHHHhHHHHHhcCceecc-ccchHHHHHHHHHhcc-CCCCCceecccchhhhhhhhHHHHHHHHHH
Confidence 55555566677888999999999999999875 9999999999999998 588999999999999999999999999987
Q ss_pred cccc
Q psy10334 98 NLQM 101 (314)
Q Consensus 98 ~l~~ 101 (314)
.++.
T Consensus 87 ~~R~ 90 (442)
T KOG0287|consen 87 FARN 90 (442)
T ss_pred HHHH
Confidence 6544
No 3
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=99.42 E-value=3.2e-14 Score=98.13 Aligned_cols=64 Identities=27% Similarity=0.691 Sum_probs=37.7
Q ss_pred HhccccceeccccccccCccccCCCCCcchHHHHHHHHhccCCcccccccccccchhhhhhhhHhhh
Q psy10334 27 RALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLVNCRWMEEVT 93 (314)
Q Consensus 27 ~~~~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~ 93 (314)
+.+++.+.|++|.+++++||.+..|+|+||+.||.+.+.. .||+|+.|....+++.|+.|.+|+
T Consensus 2 ~~le~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~---~CPvC~~Paw~qD~~~NrqLd~~i 65 (65)
T PF14835_consen 2 ERLEELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGS---ECPVCHTPAWIQDIQINRQLDSMI 65 (65)
T ss_dssp HHHHHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTTT---B-SSS--B-S-SS----HHHHHHH
T ss_pred hHHHHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcCC---CCCCcCChHHHHHHHhhhhhhccC
Confidence 4567789999999999999987789999999999887754 599999999999999999998764
No 4
>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=99.42 E-value=1.5e-13 Score=97.15 Aligned_cols=61 Identities=20% Similarity=0.271 Sum_probs=54.3
Q ss_pred cceeccccccccCccccCCCCCcchHHHHHHHHhccCCcccccccccccchhhhhhhhHhhhh
Q psy10334 32 VFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLVNCRWMEEVTQ 94 (314)
Q Consensus 32 ~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~ 94 (314)
++.||||+++++|||.+ .|||.||+.||.+|+.. ...||.|+.++..+++.+|..+.+.++
T Consensus 1 ~~~Cpi~~~~~~~Pv~~-~~G~v~~~~~i~~~~~~-~~~cP~~~~~~~~~~l~~~~~l~~~i~ 61 (63)
T smart00504 1 EFLCPISLEVMKDPVIL-PSGQTYERRAIEKWLLS-HGTDPVTGQPLTHEDLIPNLALKSAIQ 61 (63)
T ss_pred CcCCcCCCCcCCCCEEC-CCCCEEeHHHHHHHHHH-CCCCCCCcCCCChhhceeCHHHHHHHH
Confidence 47899999999999997 59999999999999987 578999999999899999988777654
No 5
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.41 E-value=1.1e-13 Score=130.40 Aligned_cols=82 Identities=28% Similarity=0.566 Sum_probs=70.7
Q ss_pred hcccchhHHHhccccceeccccccccCccccCCCCCcchHHHHHHHHhccCCcccccccccccchhhhhhhhHhhhhhhc
Q psy10334 18 FISTTSHVSRALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLVNCRWMEEVTQHLD 97 (314)
Q Consensus 18 ~~~~~~~~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~ 97 (314)
|..+....++.++..+.|+||+++|.+|+++ .|||.||..||..|+.. ...||.|+..+....+..|..+.++++.++
T Consensus 12 w~~t~~~~l~~Le~~l~C~IC~d~~~~Pvit-pCgH~FCs~CI~~~l~~-~~~CP~Cr~~~~~~~Lr~N~~L~~iVe~~~ 89 (397)
T TIGR00599 12 WLTTPIPSLYPLDTSLRCHICKDFFDVPVLT-SCSHTFCSLCIRRCLSN-QPKCPLCRAEDQESKLRSNWLVSEIVESFK 89 (397)
T ss_pred hccCCcccccccccccCCCcCchhhhCccCC-CCCCchhHHHHHHHHhC-CCCCCCCCCccccccCccchHHHHHHHHHH
Confidence 4455556667889999999999999999986 69999999999999987 457999999998888999999999999997
Q ss_pred cccc
Q psy10334 98 NLQM 101 (314)
Q Consensus 98 ~l~~ 101 (314)
.++.
T Consensus 90 ~~R~ 93 (397)
T TIGR00599 90 NLRP 93 (397)
T ss_pred HhhH
Confidence 6443
No 6
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.34 E-value=4.9e-13 Score=113.25 Aligned_cols=57 Identities=30% Similarity=0.754 Sum_probs=47.9
Q ss_pred ccccceeccccccccCccccCCCCCcchHHHHHHHHhc---------------cCCcccccccccccchhhhh
Q psy10334 29 LAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTE---------------ERSQCPHCRASLHMTDLVNC 86 (314)
Q Consensus 29 ~~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~---------------~~~~CP~Cr~~~~~~~~~~~ 86 (314)
..+++.|+||++.++||+++ .|||.||+.||.+|+.. ....||+||.++....+.+.
T Consensus 15 ~~~~~~CpICld~~~dPVvT-~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPi 86 (193)
T PLN03208 15 SGGDFDCNICLDQVRDPVVT-LCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPI 86 (193)
T ss_pred CCCccCCccCCCcCCCcEEc-CCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEe
Confidence 45679999999999999986 69999999999999852 12479999999988777654
No 7
>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=99.32 E-value=1.1e-12 Score=95.47 Aligned_cols=67 Identities=22% Similarity=0.342 Sum_probs=54.6
Q ss_pred cccceeccccccccCccccCCCCCcchHHHHHHHHhccCCcccccccccccchhhhhhhhHhhhhhhc
Q psy10334 30 AEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLVNCRWMEEVTQHLD 97 (314)
Q Consensus 30 ~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~ 97 (314)
.++|.|||+++++.|||.++ +||.|++.||++|+......||.|+.++...++.+|..|.+.++.+.
T Consensus 2 P~~f~CpIt~~lM~dPVi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~~Lk~~I~~~~ 68 (73)
T PF04564_consen 2 PDEFLCPITGELMRDPVILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNRALKSAIEEWC 68 (73)
T ss_dssp SGGGB-TTTSSB-SSEEEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-HHHHHHHHHHH
T ss_pred CcccCCcCcCcHhhCceeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECHHHHHHHHHHH
Confidence 46799999999999999985 99999999999999985578999999999999999999888887774
No 8
>KOG2177|consensus
Probab=99.31 E-value=5.4e-13 Score=122.12 Aligned_cols=124 Identities=20% Similarity=0.329 Sum_probs=95.0
Q ss_pred hHHHhccccceeccccccccCccccCCCCCcchHHHHHHHHhccCCcccccccccccchhhhhhhhHhhhhhhccccccc
Q psy10334 24 HVSRALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLVNCRWMEEVTQHLDNLQMNS 103 (314)
Q Consensus 24 ~~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~l~~ds 103 (314)
.....+.+++.|+||+++|.+|+++ +|||+||..||..+|. ....||.||. ... .+.+|..+.++++.+.......
T Consensus 5 ~~~~~~~~~~~C~iC~~~~~~p~~l-~C~H~~c~~C~~~~~~-~~~~Cp~cr~-~~~-~~~~n~~l~~~~~~~~~~~~~~ 80 (386)
T KOG2177|consen 5 ALLEVLQEELTCPICLEYFREPVLL-PCGHNFCRACLTRSWE-GPLSCPVCRP-PSR-NLRPNVLLANLVERLRQLRLSR 80 (386)
T ss_pred hhhhhccccccChhhHHHhhcCccc-cccchHhHHHHHHhcC-CCcCCcccCC-chh-ccCccHHHHHHHHHHHhcCCcc
Confidence 3445677899999999999999776 5999999999999998 3467999996 322 6678888888888887542211
Q ss_pred cccccccccCCCChhhhHHHHHHHHHHHhhcCCcceEEEe-----cCCCCCCcChhHhHHH
Q psy10334 104 KSSLQTYQRLFPNSTLCLNVKNLLSELKLKYGLSIKLVWI-----PGHMNISGNCAVDLAA 159 (314)
Q Consensus 104 ~sal~~l~~~~~~~~~c~~~~~~l~~~~~~d~~~i~~~w~-----p~H~~i~~ne~Ad~~a 159 (314)
... .....|..|.+.+..||..++..+|..|. .+|...+..+++..+.
T Consensus 81 ~~~--------~~~~~c~~~~~~~~~~c~~~~~~~c~~c~~~~~h~~h~~~~~~~~~~~~~ 133 (386)
T KOG2177|consen 81 PLG--------SKEELCEKHGEELKLFCEEDEKLLCVLCRESGEHRGHPVLPLEEAAQEYR 133 (386)
T ss_pred ccc--------ccchhhhhcCCcceEEecccccccCCCCCCcccccCCccccHHHHHHHHH
Confidence 110 11126778888788899888888888884 4888889888888877
No 9
>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=99.26 E-value=2.4e-12 Score=82.06 Aligned_cols=39 Identities=36% Similarity=1.021 Sum_probs=33.1
Q ss_pred eccccccccCccccCCCCCcchHHHHHHHHhccCCccccc
Q psy10334 35 CFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHC 74 (314)
Q Consensus 35 C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~C 74 (314)
|+||++.+.+|+++..|||.||+.||.+|++. ...||.|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~-~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEK-NPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHC-TSB-TTT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHHC-cCCCcCC
Confidence 89999999999644579999999999999998 6789988
No 10
>KOG0317|consensus
Probab=99.25 E-value=3e-12 Score=113.49 Aligned_cols=52 Identities=23% Similarity=0.781 Sum_probs=46.0
Q ss_pred ccceeccccccccCccccCCCCCcchHHHHHHHHhccCCcccccccccccchhh
Q psy10334 31 EVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLV 84 (314)
Q Consensus 31 ~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~ 84 (314)
....|.+|++..+||..+ +|||.||++||..|.++ +..||.||.++.+..+.
T Consensus 238 a~~kC~LCLe~~~~pSaT-pCGHiFCWsCI~~w~~e-k~eCPlCR~~~~pskvi 289 (293)
T KOG0317|consen 238 ATRKCSLCLENRSNPSAT-PCGHIFCWSCILEWCSE-KAECPLCREKFQPSKVI 289 (293)
T ss_pred CCCceEEEecCCCCCCcC-cCcchHHHHHHHHHHcc-ccCCCcccccCCCccee
Confidence 458999999999999876 59999999999999998 56799999999887653
No 11
>KOG0823|consensus
Probab=99.24 E-value=2.4e-12 Score=110.96 Aligned_cols=56 Identities=29% Similarity=0.772 Sum_probs=47.9
Q ss_pred cccceeccccccccCccccCCCCCcchHHHHHHHHhcc--CCcccccccccccchhhhh
Q psy10334 30 AEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEE--RSQCPHCRASLHMTDLVNC 86 (314)
Q Consensus 30 ~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~--~~~CP~Cr~~~~~~~~~~~ 86 (314)
...+.|.||++..+|||+. .|||.||+.||.+|+... ...||+|+..++...+++-
T Consensus 45 ~~~FdCNICLd~akdPVvT-lCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPl 102 (230)
T KOG0823|consen 45 GGFFDCNICLDLAKDPVVT-LCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPL 102 (230)
T ss_pred CCceeeeeeccccCCCEEe-ecccceehHHHHHHHhhcCCCeeCCccccccccceEEee
Confidence 3469999999999999985 699999999999999864 2459999999988777663
No 12
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=99.14 E-value=1.7e-11 Score=108.29 Aligned_cols=78 Identities=23% Similarity=0.423 Sum_probs=65.0
Q ss_pred ccchhHHHhccccceeccccccccCccccCCCCCcchHHHHHHHHhccCCcccccccccccchhhhhhhhHhhhhhhccc
Q psy10334 20 STTSHVSRALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLVNCRWMEEVTQHLDNL 99 (314)
Q Consensus 20 ~~~~~~~~~~~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~l 99 (314)
.+.-..+..++..+.|-||.++|+.|+.. .|||.||+-||.+++.+ .+.||+||.++....++.+..+.++.+.+..+
T Consensus 13 ~T~IPSL~~LDs~lrC~IC~~~i~ip~~T-tCgHtFCslCIR~hL~~-qp~CP~Cr~~~~esrlr~~s~~~ei~es~~~~ 90 (391)
T COG5432 13 QTKIPSLKGLDSMLRCRICDCRISIPCET-TCGHTFCSLCIRRHLGT-QPFCPVCREDPCESRLRGSSGSREINESHARN 90 (391)
T ss_pred cccCcchhcchhHHHhhhhhheeecceec-ccccchhHHHHHHHhcC-CCCCccccccHHhhhcccchhHHHHHHhhhhc
Confidence 33334455677789999999999999986 59999999999999998 47899999999988888888788888777643
No 13
>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=99.10 E-value=4.1e-11 Score=80.66 Aligned_cols=47 Identities=36% Similarity=0.827 Sum_probs=39.9
Q ss_pred ccceeccccccccCccccCCCCCc-chHHHHHHHHhccCCcccccccccc
Q psy10334 31 EVFRCFICIEKLRDTHLCPHCSKL-CCLACIRQFLTEERSQCPHCRASLH 79 (314)
Q Consensus 31 ~~~~C~IC~~~~~~p~~~~~CgH~-FC~~Ci~~~~~~~~~~CP~Cr~~~~ 79 (314)
|+..|.||++...+++.. +|||. ||..|+.+|+.. ...||.||+++.
T Consensus 1 ~~~~C~iC~~~~~~~~~~-pCgH~~~C~~C~~~~~~~-~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 1 EDEECPICFENPRDVVLL-PCGHLCFCEECAERLLKR-KKKCPICRQPIE 48 (50)
T ss_dssp -HSB-TTTSSSBSSEEEE-TTCEEEEEHHHHHHHHHT-TSBBTTTTBB-S
T ss_pred CcCCCccCCccCCceEEe-CCCChHHHHHHhHHhccc-CCCCCcCChhhc
Confidence 467899999999999987 59999 999999999986 578999999875
No 14
>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=99.09 E-value=5.4e-11 Score=76.58 Aligned_cols=40 Identities=33% Similarity=0.898 Sum_probs=34.7
Q ss_pred eccccccccCccccCCCCCcchHHHHHHHHhc-cCCccccc
Q psy10334 35 CFICIEKLRDTHLCPHCSKLCCLACIRQFLTE-ERSQCPHC 74 (314)
Q Consensus 35 C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~-~~~~CP~C 74 (314)
|+||++.+.+|+.+..|||.||..||.+|++. ....||.|
T Consensus 1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999999999933479999999999999994 34679988
No 15
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.07 E-value=7.5e-11 Score=104.12 Aligned_cols=49 Identities=31% Similarity=0.837 Sum_probs=40.4
Q ss_pred cccceeccccccccCcc-------ccCCCCCcchHHHHHHHHhccCCcccccccccc
Q psy10334 30 AEVFRCFICIEKLRDTH-------LCPHCSKLCCLACIRQFLTEERSQCPHCRASLH 79 (314)
Q Consensus 30 ~~~~~C~IC~~~~~~p~-------~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~ 79 (314)
.++..|+||++.+.++. .++.|||.||..||.+|+.. ..+||+||.++.
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~-~~tCPlCR~~~~ 227 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE-KNTCPVCRTPFI 227 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc-CCCCCCCCCEee
Confidence 34689999999887641 23579999999999999986 578999998775
No 16
>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=99.07 E-value=5e-11 Score=77.99 Aligned_cols=40 Identities=30% Similarity=0.843 Sum_probs=33.4
Q ss_pred eecccccccc---CccccCCCCCcchHHHHHHHHhccCCcccccc
Q psy10334 34 RCFICIEKLR---DTHLCPHCSKLCCLACIRQFLTEERSQCPHCR 75 (314)
Q Consensus 34 ~C~IC~~~~~---~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr 75 (314)
.|+||++.|. .++.+ .|||.||.+||.+|+.. +.+||.||
T Consensus 2 ~C~IC~~~~~~~~~~~~l-~C~H~fh~~Ci~~~~~~-~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKL-PCGHVFHRSCIKEWLKR-NNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEE-TTSEEEEHHHHHHHHHH-SSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEc-cCCCeeCHHHHHHHHHh-CCcCCccC
Confidence 5999999995 34456 59999999999999998 57899997
No 17
>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=99.03 E-value=1.5e-10 Score=75.27 Aligned_cols=44 Identities=32% Similarity=0.918 Sum_probs=38.4
Q ss_pred eeccccccccCccccCCCCCcchHHHHHHHHhccCCcccccccc
Q psy10334 34 RCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRAS 77 (314)
Q Consensus 34 ~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~ 77 (314)
.|+||++.+.+++.++.|||.||..|+..|+......||.|+..
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTP 44 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCc
Confidence 49999999988887767999999999999998744679999875
No 18
>PHA02926 zinc finger-like protein; Provisional
Probab=99.01 E-value=1.6e-10 Score=99.11 Aligned_cols=59 Identities=22% Similarity=0.649 Sum_probs=43.7
Q ss_pred ccccceeccccccccCc--------cccCCCCCcchHHHHHHHHhcc-----CCcccccccccccchhhhhhhh
Q psy10334 29 LAEVFRCFICIEKLRDT--------HLCPHCSKLCCLACIRQFLTEE-----RSQCPHCRASLHMTDLVNCRWM 89 (314)
Q Consensus 29 ~~~~~~C~IC~~~~~~p--------~~~~~CgH~FC~~Ci~~~~~~~-----~~~CP~Cr~~~~~~~~~~~~~~ 89 (314)
..++..|+||+|...++ -.++.|+|.||..||.+|-... ...||+||..+. .+.+++++
T Consensus 167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~--~I~pSrf~ 238 (242)
T PHA02926 167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR--NITMSKFY 238 (242)
T ss_pred ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee--eeccccce
Confidence 45679999999987542 1346899999999999999752 235999998775 34455544
No 19
>KOG0320|consensus
Probab=98.98 E-value=2.1e-10 Score=94.99 Aligned_cols=52 Identities=23% Similarity=0.772 Sum_probs=43.7
Q ss_pred ccceeccccccccC--ccccCCCCCcchHHHHHHHHhccCCcccccccccccchhh
Q psy10334 31 EVFRCFICIEKLRD--THLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLV 84 (314)
Q Consensus 31 ~~~~C~IC~~~~~~--p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~ 84 (314)
..+.|||||+-+.. ||. ++|||.||+.||...++.. ..||.|++.+..+.+.
T Consensus 130 ~~~~CPiCl~~~sek~~vs-TkCGHvFC~~Cik~alk~~-~~CP~C~kkIt~k~~~ 183 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEKVPVS-TKCGHVFCSQCIKDALKNT-NKCPTCRKKITHKQFH 183 (187)
T ss_pred cccCCCceecchhhccccc-cccchhHHHHHHHHHHHhC-CCCCCcccccchhhhe
Confidence 34899999999986 555 4899999999999999874 6899999988777653
No 20
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.84 E-value=1.2e-09 Score=70.66 Aligned_cols=36 Identities=31% Similarity=0.897 Sum_probs=22.7
Q ss_pred eccccccccC----ccccCCCCCcchHHHHHHHHhcc---CCccc
Q psy10334 35 CFICIEKLRD----THLCPHCSKLCCLACIRQFLTEE---RSQCP 72 (314)
Q Consensus 35 C~IC~~~~~~----p~~~~~CgH~FC~~Ci~~~~~~~---~~~CP 72 (314)
||||.+ |.+ |++++ |||.||++||.++++.. ...||
T Consensus 1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 888 99986 99999999999999853 23577
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=98.80 E-value=3.1e-09 Score=66.58 Aligned_cols=39 Identities=38% Similarity=1.014 Sum_probs=34.2
Q ss_pred eccccccccCccccCCCCCcchHHHHHHHHhccCCccccc
Q psy10334 35 CFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHC 74 (314)
Q Consensus 35 C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~C 74 (314)
|+||++...+++.+ .|||.||..|+..|+......||.|
T Consensus 1 C~iC~~~~~~~~~~-~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVL-PCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEe-cCCChHHHHHHHHHHHhCcCCCCCC
Confidence 89999999899887 5999999999999998434679987
No 22
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=98.69 E-value=8.7e-09 Score=74.90 Aligned_cols=41 Identities=37% Similarity=0.877 Sum_probs=33.2
Q ss_pred eeccccccccCcc------------ccCCCCCcchHHHHHHHHhccCCcccccc
Q psy10334 34 RCFICIEKLRDTH------------LCPHCSKLCCLACIRQFLTEERSQCPHCR 75 (314)
Q Consensus 34 ~C~IC~~~~~~p~------------~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr 75 (314)
.|.||++.|.+|. ....|||.|+..||.+|++. ...||+||
T Consensus 21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~-~~~CP~CR 73 (73)
T PF12678_consen 21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQ-NNTCPLCR 73 (73)
T ss_dssp BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTT-SSB-TTSS
T ss_pred cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhc-CCcCCCCC
Confidence 4999999995542 33469999999999999987 46899997
No 23
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.68 E-value=1.1e-08 Score=66.83 Aligned_cols=41 Identities=32% Similarity=0.899 Sum_probs=32.9
Q ss_pred eeccccccc--c-CccccCCCCCcchHHHHHHHHhccCCccccccc
Q psy10334 34 RCFICIEKL--R-DTHLCPHCSKLCCLACIRQFLTEERSQCPHCRA 76 (314)
Q Consensus 34 ~C~IC~~~~--~-~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~ 76 (314)
.|+||.+.+ . .|+++ .|||.||..|+...... ...||.||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~-~CgH~~C~~C~~~~~~~-~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLT-SCGHIFCEKCLKKLKGK-SVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEc-ccCCHHHHHHHHhhcCC-CCCCcCCCC
Confidence 499999999 2 35555 79999999999999832 467999974
No 24
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.65 E-value=1.2e-08 Score=89.61 Aligned_cols=52 Identities=27% Similarity=0.743 Sum_probs=42.8
Q ss_pred ccceeccccccccCccccCCCCCcchHHHHHH-HHhccCCcccccccccccchh
Q psy10334 31 EVFRCFICIEKLRDTHLCPHCSKLCCLACIRQ-FLTEERSQCPHCRASLHMTDL 83 (314)
Q Consensus 31 ~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~-~~~~~~~~CP~Cr~~~~~~~~ 83 (314)
.+..|+||++...+|+.. .|||.||..||.. |-..+...||.||+.+.++.+
T Consensus 214 ~d~kC~lC~e~~~~ps~t-~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v 266 (271)
T COG5574 214 ADYKCFLCLEEPEVPSCT-PCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred cccceeeeecccCCcccc-cccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence 478899999999999986 5999999999999 655532349999998776554
No 25
>KOG0311|consensus
Probab=98.64 E-value=4.2e-09 Score=95.90 Aligned_cols=68 Identities=24% Similarity=0.474 Sum_probs=54.9
Q ss_pred HhccccceeccccccccCccccCCCCCcchHHHHHHHHhccCCcccccccccc-cchhhhhhhhHhhhh
Q psy10334 27 RALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLH-MTDLVNCRWMEEVTQ 94 (314)
Q Consensus 27 ~~~~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~-~~~~~~~~~~~~~~~ 94 (314)
+.+..++.|+||+++++..++.+.|+|.||.+||-..+...+..||.||+.+. ...|+....+..|..
T Consensus 38 ~~~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr~Dp~fdaLis 106 (381)
T KOG0311|consen 38 AMFDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLRIDPNFDALIS 106 (381)
T ss_pred HHhhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCCCCccHHHHHH
Confidence 45567899999999999999888999999999999999876778999998764 455665544544443
No 26
>KOG2164|consensus
Probab=98.56 E-value=2.5e-08 Score=95.07 Aligned_cols=54 Identities=28% Similarity=0.684 Sum_probs=46.2
Q ss_pred cceeccccccccCccccCCCCCcchHHHHHHHHhcc----CCcccccccccccchhhhh
Q psy10334 32 VFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEE----RSQCPHCRASLHMTDLVNC 86 (314)
Q Consensus 32 ~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~----~~~CP~Cr~~~~~~~~~~~ 86 (314)
+..||||++...-|+.+ .|||.||..||-++|... -..||+|+..+..+++.+.
T Consensus 186 ~~~CPICL~~~~~p~~t-~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv 243 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRT-NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPV 243 (513)
T ss_pred CCcCCcccCCCCccccc-ccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeee
Confidence 78999999999999986 699999999999999863 1369999998888776654
No 27
>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=98.56 E-value=4.9e-08 Score=88.88 Aligned_cols=54 Identities=19% Similarity=0.535 Sum_probs=41.1
Q ss_pred cceecccccc-ccCcc---ccCCCCCcchHHHHHHHHhccCCcccccccccccchhhh
Q psy10334 32 VFRCFICIEK-LRDTH---LCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLVN 85 (314)
Q Consensus 32 ~~~C~IC~~~-~~~p~---~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~ 85 (314)
+-.||||+.- +..|. ++..|||.||.+||...|..+...||.|+.++....+.+
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr~ 60 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFRV 60 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhhccc
Confidence 4679999972 33454 334699999999999988765567999999888776543
No 28
>KOG2660|consensus
Probab=98.43 E-value=6.3e-08 Score=87.76 Aligned_cols=67 Identities=25% Similarity=0.561 Sum_probs=54.0
Q ss_pred HhccccceeccccccccCccccCCCCCcchHHHHHHHHhccCCcccccccccccch----hhhhhhhHhhhh
Q psy10334 27 RALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTD----LVNCRWMEEVTQ 94 (314)
Q Consensus 27 ~~~~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~----~~~~~~~~~~~~ 94 (314)
..+....+|.+|..+|.|+.+++.|=|+||++||.+++.. ...||+|...+.... +...+.|..++-
T Consensus 10 ~~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~-~~~CP~C~i~ih~t~pl~ni~~DrtlqdiVy 80 (331)
T KOG2660|consen 10 TELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEE-SKYCPTCDIVIHKTHPLLNIRSDRTLQDIVY 80 (331)
T ss_pred hhcccceehhhccceeecchhHHHHHHHHHHHHHHHHHHH-hccCCccceeccCccccccCCcchHHHHHHH
Confidence 4566789999999999999999999999999999999998 678999998776543 444455555443
No 29
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.40 E-value=1.9e-07 Score=68.82 Aligned_cols=50 Identities=28% Similarity=0.606 Sum_probs=37.1
Q ss_pred ccceecccccccc-----------C-ccccCCCCCcchHHHHHHHHhcc--CCccccccccccc
Q psy10334 31 EVFRCFICIEKLR-----------D-THLCPHCSKLCCLACIRQFLTEE--RSQCPHCRASLHM 80 (314)
Q Consensus 31 ~~~~C~IC~~~~~-----------~-p~~~~~CgH~FC~~Ci~~~~~~~--~~~CP~Cr~~~~~ 80 (314)
++-.|+||...|. | |+..-.|+|.|...||.+|++++ +..||+||.+...
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 3555666666554 3 54445799999999999999974 3579999987653
No 30
>KOG0978|consensus
Probab=98.39 E-value=1e-07 Score=95.06 Aligned_cols=58 Identities=21% Similarity=0.701 Sum_probs=50.4
Q ss_pred HhccccceeccccccccCccccCCCCCcchHHHHHHHHhccCCcccccccccccchhhh
Q psy10334 27 RALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLVN 85 (314)
Q Consensus 27 ~~~~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~ 85 (314)
..+.+.++||+|..-.+|.|+. .|||.||..||..-+......||.|-++|...++.+
T Consensus 638 k~yK~~LkCs~Cn~R~Kd~vI~-kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~ 695 (698)
T KOG0978|consen 638 KEYKELLKCSVCNTRWKDAVIT-KCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVHR 695 (698)
T ss_pred HHHHhceeCCCccCchhhHHHH-hcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccccc
Confidence 3456789999999999999975 799999999999999876678999999999887754
No 31
>KOG4628|consensus
Probab=98.17 E-value=9e-07 Score=81.95 Aligned_cols=47 Identities=30% Similarity=0.724 Sum_probs=38.4
Q ss_pred ceeccccccccC--cc-ccCCCCCcchHHHHHHHHhccCCccccccccccc
Q psy10334 33 FRCFICIEKLRD--TH-LCPHCSKLCCLACIRQFLTEERSQCPHCRASLHM 80 (314)
Q Consensus 33 ~~C~IC~~~~~~--p~-~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~ 80 (314)
..|.||+|-|.. -+ .+ +|+|.|...||..|+.+.+..||+|+..+..
T Consensus 230 ~~CaIClEdY~~GdklRiL-PC~H~FH~~CIDpWL~~~r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRIL-PCSHKFHVNCIDPWLTQTRTFCPVCKRDIRT 279 (348)
T ss_pred ceEEEeecccccCCeeeEe-cCCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence 499999999975 33 45 4999999999999999854569999986543
No 32
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=98.17 E-value=7.9e-07 Score=61.20 Aligned_cols=44 Identities=18% Similarity=0.440 Sum_probs=31.3
Q ss_pred cccceeccccccccCccccCCCCCcchHHHHHHHHhcc-CCcccc
Q psy10334 30 AEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEE-RSQCPH 73 (314)
Q Consensus 30 ~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~-~~~CP~ 73 (314)
.-.+.|||.+..|+|||....|||.|.++.|.+++... ...||+
T Consensus 9 ~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred EeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 34689999999999999866899999999999999542 356998
No 33
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.09 E-value=1e-06 Score=78.86 Aligned_cols=49 Identities=22% Similarity=0.597 Sum_probs=39.3
Q ss_pred cceecccccccc--CccccCCCCCcchHHHHHHHHhccCCccccccccccc
Q psy10334 32 VFRCFICIEKLR--DTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHM 80 (314)
Q Consensus 32 ~~~C~IC~~~~~--~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~ 80 (314)
-..|.||++.|. |-++..+|.|.|...|+.+|+..-+..||+||.++.+
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 378999999884 4444335999999999999998545689999998754
No 34
>KOG0297|consensus
Probab=98.07 E-value=1.5e-06 Score=83.22 Aligned_cols=57 Identities=30% Similarity=0.678 Sum_probs=48.9
Q ss_pred hccccceeccccccccCccccCCCCCcchHHHHHHHHhccCCcccccccccccchhhh
Q psy10334 28 ALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLVN 85 (314)
Q Consensus 28 ~~~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~ 85 (314)
.+++++.|++|..++.||+..+.|||.||..|+..|... +..||.|+.........+
T Consensus 17 ~~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~-~~~cp~~~~~~~~~~~~~ 73 (391)
T KOG0297|consen 17 PLDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSN-HQKCPVCRQELTQAEELP 73 (391)
T ss_pred CCcccccCccccccccCCCCCCCCCCcccccccchhhcc-CcCCcccccccchhhccC
Confidence 368889999999999999984379999999999999998 678999998876655444
No 35
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.03 E-value=3.2e-06 Score=77.71 Aligned_cols=47 Identities=26% Similarity=0.772 Sum_probs=39.1
Q ss_pred cccceecccccc-ccCc------------cccCCCCCcchHHHHHHHHhccCCccccccccc
Q psy10334 30 AEVFRCFICIEK-LRDT------------HLCPHCSKLCCLACIRQFLTEERSQCPHCRASL 78 (314)
Q Consensus 30 ~~~~~C~IC~~~-~~~p------------~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~ 78 (314)
..+-.|.||+|. +.-| ..+| |||.|...|+.-|++. ..+||.||.|+
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ER-qQTCPICr~p~ 344 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLER-QQTCPICRRPV 344 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHh-ccCCCcccCcc
Confidence 457889999988 4433 5675 9999999999999997 46899999884
No 36
>KOG0802|consensus
Probab=98.00 E-value=2.9e-06 Score=84.69 Aligned_cols=48 Identities=27% Similarity=0.695 Sum_probs=41.3
Q ss_pred cccceeccccccccC-----ccccCCCCCcchHHHHHHHHhccCCcccccccccc
Q psy10334 30 AEVFRCFICIEKLRD-----THLCPHCSKLCCLACIRQFLTEERSQCPHCRASLH 79 (314)
Q Consensus 30 ~~~~~C~IC~~~~~~-----p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~ 79 (314)
..+..|+||.|.+.. |..+ .|||.||..|+..|++. ..+||.||..+.
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL-~C~Hifh~~CL~~W~er-~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRL-PCGHIFHDSCLRSWFER-QQTCPTCRTVLY 341 (543)
T ss_pred hcCCeeeeechhhcccccccccee-ecccchHHHHHHHHHHH-hCcCCcchhhhh
Confidence 457899999999998 6777 49999999999999998 578999998443
No 37
>KOG4159|consensus
Probab=97.98 E-value=2.7e-06 Score=80.72 Aligned_cols=49 Identities=29% Similarity=0.740 Sum_probs=43.3
Q ss_pred cccceeccccccccCccccCCCCCcchHHHHHHHHhccCCccccccccccc
Q psy10334 30 AEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHM 80 (314)
Q Consensus 30 ~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~ 80 (314)
..++.|.||+..|..||++ +|||.||..||.+.+.. ...||.||.++..
T Consensus 82 ~sef~c~vc~~~l~~pv~t-pcghs~c~~Cl~r~ld~-~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPPVVT-PCGHSFCLECLDRSLDQ-ETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCCccc-cccccccHHHHHHHhcc-CCCCccccccccc
Confidence 5679999999999999997 69999999999997775 5789999988763
No 38
>KOG0824|consensus
Probab=97.87 E-value=7e-06 Score=73.67 Aligned_cols=50 Identities=22% Similarity=0.477 Sum_probs=41.6
Q ss_pred cceeccccccccCccccCCCCCcchHHHHHHHHhccCCcccccccccccch
Q psy10334 32 VFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTD 82 (314)
Q Consensus 32 ~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~ 82 (314)
.-.|+||+.--.-||.+ .|+|.||+-||+-....+...||+||.++...-
T Consensus 7 ~~eC~IC~nt~n~Pv~l-~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i 56 (324)
T KOG0824|consen 7 KKECLICYNTGNCPVNL-YCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTI 56 (324)
T ss_pred CCcceeeeccCCcCccc-cccchhhhhhhcchhhcCCCCCceecCCCCcch
Confidence 35799999999999987 699999999999755554567999999987543
No 39
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.84 E-value=1.1e-05 Score=72.08 Aligned_cols=44 Identities=30% Similarity=0.742 Sum_probs=39.9
Q ss_pred ceeccccccccCccccCCCCCcchHHHHHHHHhccCCccccccc
Q psy10334 33 FRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRA 76 (314)
Q Consensus 33 ~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~ 76 (314)
+.|+.|..++++|+-.+.|||.||..||...+.+....||.|..
T Consensus 275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 99999999999999878999999999999988765678999964
No 40
>KOG2879|consensus
Probab=97.76 E-value=1.7e-05 Score=70.41 Aligned_cols=50 Identities=22% Similarity=0.503 Sum_probs=41.7
Q ss_pred cccceeccccccccCccccCCCCCcchHHHHHHHHhcc-CCcccccccccc
Q psy10334 30 AEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEE-RSQCPHCRASLH 79 (314)
Q Consensus 30 ~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~-~~~CP~Cr~~~~ 79 (314)
....+|++|.+.-..|.++-+|||+||+-||..-...+ ...||.|.+++.
T Consensus 237 t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred cCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 45689999999999999876699999999999866543 358999987664
No 41
>KOG4172|consensus
Probab=97.72 E-value=9.5e-06 Score=54.00 Aligned_cols=46 Identities=33% Similarity=0.706 Sum_probs=39.0
Q ss_pred ceeccccccccCccccCCCCCc-chHHHHHHHHhccCCcccccccccc
Q psy10334 33 FRCFICIEKLRDTHLCPHCSKL-CCLACIRQFLTEERSQCPHCRASLH 79 (314)
Q Consensus 33 ~~C~IC~~~~~~p~~~~~CgH~-FC~~Ci~~~~~~~~~~CP~Cr~~~~ 79 (314)
..|.||+|.-.|.|.-. |||. .|+.|-.+-|+.....||.||+++.
T Consensus 8 dECTICye~pvdsVlYt-CGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 8 DECTICYEHPVDSVLYT-CGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred cceeeeccCcchHHHHH-cchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 67999999999998764 9996 6999999888754678999998764
No 42
>KOG1039|consensus
Probab=97.58 E-value=3.1e-05 Score=72.16 Aligned_cols=50 Identities=30% Similarity=0.810 Sum_probs=40.2
Q ss_pred cccceeccccccccCcc-------ccCCCCCcchHHHHHHHHhcc------CCcccccccccc
Q psy10334 30 AEVFRCFICIEKLRDTH-------LCPHCSKLCCLACIRQFLTEE------RSQCPHCRASLH 79 (314)
Q Consensus 30 ~~~~~C~IC~~~~~~p~-------~~~~CgH~FC~~Ci~~~~~~~------~~~CP~Cr~~~~ 79 (314)
..+..|.||++...++. .+|.|.|.||..||..|-... ...||.||.+..
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 34789999999999877 246799999999999997432 257999997654
No 43
>PF00075 RNase_H: RNase H; InterPro: IPR002156 The RNase H domain is responsible for hydrolysis of the RNA portion of RNA x DNA hybrids, and this activity requires the presence of divalent cations (Mg2+ or Mn2+) that bind its active site. This domain is a part of a large family of homologous RNase H enzymes of which the RNase HI protein from Escherichia coli is the best characterised []. Secondary structure predictions for the enzymes from E. coli, yeast, human liver and diverse retroviruses (such as Rous sarcoma virus and the Foamy viruses) supported, in every case, the five beta-strands (1 to 5) and four or five alpha-helices (A, B/C, D, E) that have been identified by crystallography in the RNase H domain of Human immunodeficiency virus 1 (HIV-1) reverse transcriptase and in E. coli RNase H []. Reverse transcriptase (RT) is a modular enzyme carrying polymerase and ribonuclease H (RNase H) activities in separable domains. Reverse transcriptase (RT) converts the single-stranded RNA genome of a retrovirus into a double-stranded DNA copy for integration into the host genome. This process requires ribonuclease H as well as RNA- and DNA-directed DNA polymerase activities. Retroviral RNase H is synthesised as part of the POL polyprotein that contains; an aspartyl protease, a reverse transcriptase, RNase H and integrase. POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. Bacterial RNase H 3.1.26.4 from EC catalyses endonucleolytic cleavage to 5'-phosphomonoester acting on RNA-DNA hybrids. The 3D structure of the RNase H domain from diverse bacteria and retroviruses has been solved [, , ]. All have four beta strands and four to five alpha helices. The E. coli RNase H1 protein binds a single Mg2+ ion cofactor in the active site of the enzyme. The divalent cation is bound by the carboxyl groups of four acidic residues, Asp-10, Glu-48, Asp-70, and Asp-134 []. The first three acidic residues are highly conserved in all bacterial and retroviral RNase H sequences. ; GO: 0003676 nucleic acid binding, 0004523 ribonuclease H activity; PDB: 3LP3_B 2KW4_A 3P1G_A 1RIL_A 2RPI_A 4EQJ_G 4EP2_B 3OTY_P 3U3G_D 2ZQB_D ....
Probab=97.50 E-value=3.2e-05 Score=62.14 Aligned_cols=31 Identities=35% Similarity=0.764 Sum_probs=27.9
Q ss_pred hcCCcceEEEecCCCCC-CcChhHhHHHhhhc
Q psy10334 133 KYGLSIKLVWIPGHMNI-SGNCAVDLAAKQAQ 163 (314)
Q Consensus 133 ~d~~~i~~~w~p~H~~i-~~ne~Ad~~a~~a~ 163 (314)
..+..|.|.|||||.++ .+||.||++||+|+
T Consensus 100 ~~~~~v~~~~V~~H~~~~~~N~~aD~lAk~a~ 131 (132)
T PF00075_consen 100 SRGIKVRFRWVPGHSGVPQGNERADRLAKEAA 131 (132)
T ss_dssp HHSSEEEEEESSSSSSSHHHHHHHHHHHHHHH
T ss_pred ccceEEeeeeccCcCCCchhHHHHHHHHHHhc
Confidence 34778999999999999 59999999999986
No 44
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.47 E-value=4.8e-05 Score=64.31 Aligned_cols=46 Identities=20% Similarity=0.489 Sum_probs=38.4
Q ss_pred cceeccccccccCccccCCCCCcchHHHHHHHHhccCCcccccccccc
Q psy10334 32 VFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLH 79 (314)
Q Consensus 32 ~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~ 79 (314)
-|.|.||.+-|+.||+. .|||.||..|.-+-+.. ...|-+|.+...
T Consensus 196 PF~C~iCKkdy~spvvt-~CGH~FC~~Cai~~y~k-g~~C~~Cgk~t~ 241 (259)
T COG5152 196 PFLCGICKKDYESPVVT-ECGHSFCSLCAIRKYQK-GDECGVCGKATY 241 (259)
T ss_pred ceeehhchhhccchhhh-hcchhHHHHHHHHHhcc-CCcceecchhhc
Confidence 38999999999999986 79999999998776654 368999986543
No 45
>KOG1813|consensus
Probab=97.39 E-value=7.5e-05 Score=67.01 Aligned_cols=45 Identities=24% Similarity=0.676 Sum_probs=38.7
Q ss_pred ceeccccccccCccccCCCCCcchHHHHHHHHhccCCcccccccccc
Q psy10334 33 FRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLH 79 (314)
Q Consensus 33 ~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~ 79 (314)
+.|.||.++|.+||.. .|||.||..|-..-+.. ...|++|..+..
T Consensus 242 f~c~icr~~f~~pVvt-~c~h~fc~~ca~~~~qk-~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 242 FKCFICRKYFYRPVVT-KCGHYFCEVCALKPYQK-GEKCYVCSQQTH 286 (313)
T ss_pred ccccccccccccchhh-cCCceeehhhhcccccc-CCcceecccccc
Confidence 6799999999999986 79999999998877765 367999987654
No 46
>KOG1002|consensus
Probab=97.38 E-value=7.3e-05 Score=71.77 Aligned_cols=51 Identities=22% Similarity=0.615 Sum_probs=42.7
Q ss_pred cccceeccccccccCccccCCCCCcchHHHHHHHHhc----cCCcccccccccccc
Q psy10334 30 AEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTE----ERSQCPHCRASLHMT 81 (314)
Q Consensus 30 ~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~----~~~~CP~Cr~~~~~~ 81 (314)
.++..|.+|.+...|++.. .|.|.||+.||.++... .+.+||.|..+++..
T Consensus 534 k~~~~C~lc~d~aed~i~s-~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD 588 (791)
T KOG1002|consen 534 KGEVECGLCHDPAEDYIES-SCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID 588 (791)
T ss_pred cCceeecccCChhhhhHhh-hhhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence 4678999999999999985 79999999999988764 135799998776643
No 47
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.38 E-value=5.5e-05 Score=54.41 Aligned_cols=49 Identities=29% Similarity=0.752 Sum_probs=24.4
Q ss_pred cceecccccccc-C---cc-cc--CCCCCcchHHHHHHHHhcc---C-------Cccccccccccc
Q psy10334 32 VFRCFICIEKLR-D---TH-LC--PHCSKLCCLACIRQFLTEE---R-------SQCPHCRASLHM 80 (314)
Q Consensus 32 ~~~C~IC~~~~~-~---p~-~~--~~CgH~FC~~Ci~~~~~~~---~-------~~CP~Cr~~~~~ 80 (314)
+..|+||+.++. + |+ ++ +.|++.|...|+.+|+... + ..||.|++++.-
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~ 67 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW 67 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence 467999998865 2 33 23 3799999999999999851 1 259999988763
No 48
>KOG0804|consensus
Probab=97.25 E-value=8.9e-05 Score=69.99 Aligned_cols=49 Identities=27% Similarity=0.669 Sum_probs=39.3
Q ss_pred hccccceeccccccccCcc---ccCCCCCcchHHHHHHHHhccCCcccccccccc
Q psy10334 28 ALAEVFRCFICIEKLRDTH---LCPHCSKLCCLACIRQFLTEERSQCPHCRASLH 79 (314)
Q Consensus 28 ~~~~~~~C~IC~~~~~~p~---~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~ 79 (314)
.+.|.-+||||+|-+-+-+ ....|-|+|.-.|+..||. .+||+||....
T Consensus 171 ~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~---~scpvcR~~q~ 222 (493)
T KOG0804|consen 171 GLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD---SSCPVCRYCQS 222 (493)
T ss_pred CcccCCCcchhHhhcCccccceeeeecccccchHHHhhccc---CcChhhhhhcC
Confidence 3456789999999987766 2246999999999999985 47999996444
No 49
>PRK08719 ribonuclease H; Reviewed
Probab=97.17 E-value=0.00053 Score=56.69 Aligned_cols=30 Identities=27% Similarity=0.342 Sum_probs=27.4
Q ss_pred CCcceEEEecCCCCCCcChhHhHHHhhhcC
Q psy10334 135 GLSIKLVWIPGHMNISGNCAVDLAAKQAQT 164 (314)
Q Consensus 135 ~~~i~~~w~p~H~~i~~ne~Ad~~a~~a~~ 164 (314)
...|.|.|||||.++++||.||.+|+.|+.
T Consensus 117 ~~~i~~~~VkgH~g~~~Ne~aD~lA~~a~~ 146 (147)
T PRK08719 117 RKYVEVEKVTAHSGIEGNEAADMLAQAAAE 146 (147)
T ss_pred CCcEEEEEecCCCCChhHHHHHHHHHHHhh
Confidence 356999999999999999999999999874
No 50
>PRK00203 rnhA ribonuclease H; Reviewed
Probab=97.16 E-value=0.00019 Score=59.58 Aligned_cols=33 Identities=24% Similarity=0.352 Sum_probs=29.4
Q ss_pred CCcceEEEecCCCCCCcChhHhHHHhhhcCCCC
Q psy10334 135 GLSIKLVWIPGHMNISGNCAVDLAAKQAQTSPD 167 (314)
Q Consensus 135 ~~~i~~~w~p~H~~i~~ne~Ad~~a~~a~~~~~ 167 (314)
...|.|.|||||++.++|+.||.+|++|+..+.
T Consensus 112 ~~~v~~~wV~~H~~~~~N~~AD~lA~~a~~~~~ 144 (150)
T PRK00203 112 RHQIKWHWVKGHAGHPENERCDELARAGAEEAT 144 (150)
T ss_pred cCceEEEEecCCCCCHHHHHHHHHHHHHHHHhh
Confidence 357999999999999999999999999987543
No 51
>KOG1645|consensus
Probab=97.15 E-value=0.00025 Score=66.33 Aligned_cols=55 Identities=22% Similarity=0.536 Sum_probs=43.0
Q ss_pred cceeccccccccCcc----ccCCCCCcchHHHHHHHHhcc-CCcccccccccccchhhhh
Q psy10334 32 VFRCFICIEKLRDTH----LCPHCSKLCCLACIRQFLTEE-RSQCPHCRASLHMTDLVNC 86 (314)
Q Consensus 32 ~~~C~IC~~~~~~p~----~~~~CgH~FC~~Ci~~~~~~~-~~~CP~Cr~~~~~~~~~~~ 86 (314)
..+||||++-+.-|+ ..+.|||.|=.+||++|+... ...||.|......+.+++-
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~i~~e 63 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQIRPE 63 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHHHHHH
Confidence 468999999888776 235899999999999999632 3579999877666666544
No 52
>PRK06548 ribonuclease H; Provisional
Probab=97.14 E-value=0.00032 Score=58.83 Aligned_cols=32 Identities=28% Similarity=0.381 Sum_probs=28.5
Q ss_pred CcceEEEecCCCCCCcChhHhHHHhhhcCCCC
Q psy10334 136 LSIKLVWIPGHMNISGNCAVDLAAKQAQTSPD 167 (314)
Q Consensus 136 ~~i~~~w~p~H~~i~~ne~Ad~~a~~a~~~~~ 167 (314)
..|.|.||+||.+.++||.||.+|++|+....
T Consensus 113 ~~v~~~wVkgHsg~~gNe~aD~LA~~aa~~~~ 144 (161)
T PRK06548 113 RNIRMSWVNAHTGHPLNEAADSLARQAANNFS 144 (161)
T ss_pred CceEEEEEecCCCCHHHHHHHHHHHHHHHHhc
Confidence 36999999999999999999999999986543
No 53
>KOG4367|consensus
Probab=97.10 E-value=0.00016 Score=68.01 Aligned_cols=37 Identities=32% Similarity=0.748 Sum_probs=32.8
Q ss_pred ccccceeccccccccCccccCCCCCcchHHHHHHHHhc
Q psy10334 29 LAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTE 66 (314)
Q Consensus 29 ~~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~ 66 (314)
++|++.|+||..+|++|+.+| |||+.|+.|-..-+.+
T Consensus 1 meeelkc~vc~~f~~epiil~-c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 1 MEEELKCPVCGSFYREPIILP-CSHNLCQACARNILVQ 37 (699)
T ss_pred CcccccCceehhhccCceEee-cccHHHHHHHHhhccc
Confidence 368899999999999999985 9999999999876654
No 54
>KOG1493|consensus
Probab=97.09 E-value=0.00011 Score=52.55 Aligned_cols=35 Identities=26% Similarity=0.597 Sum_probs=28.0
Q ss_pred ccccCCCCCcchHHHHHHHHhcc--CCcccccccccc
Q psy10334 45 THLCPHCSKLCCLACIRQFLTEE--RSQCPHCRASLH 79 (314)
Q Consensus 45 p~~~~~CgH~FC~~Ci~~~~~~~--~~~CP~Cr~~~~ 79 (314)
|.+.-.|.|.|...||.+|+... ...||+||..+.
T Consensus 45 PLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 45 PLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred ccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 55545699999999999999864 246999998764
No 55
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.04 E-value=0.00026 Score=72.22 Aligned_cols=51 Identities=27% Similarity=0.710 Sum_probs=40.6
Q ss_pred ccccceecccccccc--C---cc-ccCCCCCcchHHHHHHHHhcc-CCcccccccccc
Q psy10334 29 LAEVFRCFICIEKLR--D---TH-LCPHCSKLCCLACIRQFLTEE-RSQCPHCRASLH 79 (314)
Q Consensus 29 ~~~~~~C~IC~~~~~--~---p~-~~~~CgH~FC~~Ci~~~~~~~-~~~CP~Cr~~~~ 79 (314)
+...-.|+||..++. | |. .|+-|.|.|..+|+.+|+... ++.||.||..++
T Consensus 1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 345577999999886 2 33 567799999999999999874 467999997654
No 56
>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair]
Probab=96.94 E-value=0.00073 Score=55.99 Aligned_cols=30 Identities=23% Similarity=0.378 Sum_probs=28.0
Q ss_pred cceEEEecCCCCCCcChhHhHHHhhhcCCC
Q psy10334 137 SIKLVWIPGHMNISGNCAVDLAAKQAQTSP 166 (314)
Q Consensus 137 ~i~~~w~p~H~~i~~ne~Ad~~a~~a~~~~ 166 (314)
.|.+.||+||.+.++||.||.+|+.|+...
T Consensus 117 ~v~~~WVkgH~g~~~NeraD~LA~~~~~~~ 146 (154)
T COG0328 117 LVFWEWVKGHAGHPENERADQLAREAARAA 146 (154)
T ss_pred eEEEEEeeCCCCChHHHHHHHHHHHHHHhh
Confidence 799999999999999999999999998754
No 57
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=96.91 E-value=0.00054 Score=49.43 Aligned_cols=30 Identities=23% Similarity=0.478 Sum_probs=26.2
Q ss_pred CCCCCcchHHHHHHHHhccCCcccccccccc
Q psy10334 49 PHCSKLCCLACIRQFLTEERSQCPHCRASLH 79 (314)
Q Consensus 49 ~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~ 79 (314)
-.|.|.|...||.+|+.+ +..||++|+++.
T Consensus 52 G~CnHaFH~HCI~rWL~T-k~~CPld~q~w~ 81 (88)
T COG5194 52 GVCNHAFHDHCIYRWLDT-KGVCPLDRQTWV 81 (88)
T ss_pred EecchHHHHHHHHHHHhh-CCCCCCCCceeE
Confidence 359999999999999998 568999998765
No 58
>KOG1734|consensus
Probab=96.83 E-value=0.00032 Score=62.20 Aligned_cols=56 Identities=16% Similarity=0.451 Sum_probs=43.5
Q ss_pred cccceeccccccccCcc----------ccCCCCCcchHHHHHHHHhcc-CCcccccccccccchhhhh
Q psy10334 30 AEVFRCFICIEKLRDTH----------LCPHCSKLCCLACIRQFLTEE-RSQCPHCRASLHMTDLVNC 86 (314)
Q Consensus 30 ~~~~~C~IC~~~~~~p~----------~~~~CgH~FC~~Ci~~~~~~~-~~~CP~Cr~~~~~~~~~~~ 86 (314)
.++--|.||..-+-+.+ .+ .|+|.|.-.||+.|.--+ +++||-|++.+..+.+..|
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~L-sCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rmfsn 288 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKL-SCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMFSN 288 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheee-ecccchHHHhhhhheeecCCCCCchHHHHhhHhhhccC
Confidence 45677999987665544 56 599999999999998653 5789999988876665555
No 59
>KOG0827|consensus
Probab=96.76 E-value=0.00094 Score=62.13 Aligned_cols=52 Identities=23% Similarity=0.648 Sum_probs=36.0
Q ss_pred cceeccccccccCcc---ccCCCCCcchHHHHHHHHhccC--Ccccccccccccchh
Q psy10334 32 VFRCFICIEKLRDTH---LCPHCSKLCCLACIRQFLTEER--SQCPHCRASLHMTDL 83 (314)
Q Consensus 32 ~~~C~IC~~~~~~p~---~~~~CgH~FC~~Ci~~~~~~~~--~~CP~Cr~~~~~~~~ 83 (314)
...|.||.+.+-.-. .+.-|||.|.-.|+.+|+.... ..||.|+-.+....+
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r~~ 60 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQERHV 60 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccceee
Confidence 357999965542211 2334999999999999999753 369999955544443
No 60
>KOG0828|consensus
Probab=96.74 E-value=0.00068 Score=64.81 Aligned_cols=50 Identities=22% Similarity=0.576 Sum_probs=37.3
Q ss_pred cccceeccccccccC-----c-----------cccCCCCCcchHHHHHHHHhccCCcccccccccc
Q psy10334 30 AEVFRCFICIEKLRD-----T-----------HLCPHCSKLCCLACIRQFLTEERSQCPHCRASLH 79 (314)
Q Consensus 30 ~~~~~C~IC~~~~~~-----p-----------~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~ 79 (314)
+....|+||+....- | .++++|.|.|...|+.+|.+.-+..||+||.++.
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 445779999864310 1 1334699999999999999864568999998875
No 61
>KOG1785|consensus
Probab=96.72 E-value=0.00066 Score=63.29 Aligned_cols=49 Identities=29% Similarity=0.740 Sum_probs=40.1
Q ss_pred ceeccccccccCccccCCCCCcchHHHHHHHHhcc-CCcccccccccccch
Q psy10334 33 FRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEE-RSQCPHCRASLHMTD 82 (314)
Q Consensus 33 ~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~-~~~CP~Cr~~~~~~~ 82 (314)
-.|-||-|.=+|-..- .|||..|..|+..|...+ ...||.||..+...+
T Consensus 370 eLCKICaendKdvkIE-PCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte 419 (563)
T KOG1785|consen 370 ELCKICAENDKDVKIE-PCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTE 419 (563)
T ss_pred HHHHHhhccCCCcccc-cccchHHHHHHHhhcccCCCCCCCceeeEecccc
Confidence 3599999988887664 599999999999998654 467999998876543
No 62
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=96.68 E-value=0.0013 Score=43.70 Aligned_cols=41 Identities=24% Similarity=0.685 Sum_probs=30.8
Q ss_pred eeccccc--cccCccccCCCC-----CcchHHHHHHHHhcc-CCcccccc
Q psy10334 34 RCFICIE--KLRDTHLCPHCS-----KLCCLACIRQFLTEE-RSQCPHCR 75 (314)
Q Consensus 34 ~C~IC~~--~~~~p~~~~~Cg-----H~FC~~Ci~~~~~~~-~~~CP~Cr 75 (314)
.|-||++ .-.+|... +|. |.|...|+.+|+... +..||+|+
T Consensus 1 ~CrIC~~~~~~~~~l~~-PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVS-PCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEe-ccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 3889997 33456555 474 889999999999864 35799994
No 63
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.61 E-value=0.0019 Score=42.43 Aligned_cols=43 Identities=35% Similarity=0.862 Sum_probs=22.7
Q ss_pred ecccccccc--Ccc--ccCCCCCcchHHHHHHHHhccCCccccccccc
Q psy10334 35 CFICIEKLR--DTH--LCPHCSKLCCLACIRQFLTEERSQCPHCRASL 78 (314)
Q Consensus 35 C~IC~~~~~--~p~--~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~ 78 (314)
||+|.+.+. |-. -+ +||+..|+.|..+-..+....||-||++.
T Consensus 1 cp~C~e~~d~~d~~~~PC-~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPC-ECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SS-TTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccC-cCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 789998872 211 35 59999999999999875456899999875
No 64
>KOG0825|consensus
Probab=96.53 E-value=0.00064 Score=68.21 Aligned_cols=48 Identities=19% Similarity=0.396 Sum_probs=37.5
Q ss_pred cceeccccccccCcccc--CCCCCcchHHHHHHHHhccCCccccccccccc
Q psy10334 32 VFRCFICIEKLRDTHLC--PHCSKLCCLACIRQFLTEERSQCPHCRASLHM 80 (314)
Q Consensus 32 ~~~C~IC~~~~~~p~~~--~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~ 80 (314)
.-.||+|+.-+.|-... ..|+|.||..||..|-.. ..+||.||..|..
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~-aqTCPiDR~EF~~ 172 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRC-AQTCPVDRGEFGE 172 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhh-cccCchhhhhhhe
Confidence 45689998877775421 259999999999999876 4689999987764
No 65
>KOG3002|consensus
Probab=96.39 E-value=0.0023 Score=58.84 Aligned_cols=60 Identities=27% Similarity=0.746 Sum_probs=46.8
Q ss_pred ccccceeccccccccCccccCCC--CCcchHHHHHHHHhccCCcccccccccccchhhhhhhhHhhhhhhc
Q psy10334 29 LAEVFRCFICIEKLRDTHLCPHC--SKLCCLACIRQFLTEERSQCPHCRASLHMTDLVNCRWMEEVTQHLD 97 (314)
Q Consensus 29 ~~~~~~C~IC~~~~~~p~~~~~C--gH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~ 97 (314)
..+-+.||||.+.+.-|+. +| ||.-|..|-.+- ...||.||.++. ++ .++.++.+++.+.
T Consensus 45 ~~~lleCPvC~~~l~~Pi~--QC~nGHlaCssC~~~~----~~~CP~Cr~~~g--~~-R~~amEkV~e~~~ 106 (299)
T KOG3002|consen 45 DLDLLDCPVCFNPLSPPIF--QCDNGHLACSSCRTKV----SNKCPTCRLPIG--NI-RCRAMEKVAEAVL 106 (299)
T ss_pred chhhccCchhhccCcccce--ecCCCcEehhhhhhhh----cccCCccccccc--cH-HHHHHHHHHHhce
Confidence 4466899999999999985 46 899999996532 357999999887 33 5777888877663
No 66
>KOG4692|consensus
Probab=96.32 E-value=0.0041 Score=57.26 Aligned_cols=48 Identities=27% Similarity=0.560 Sum_probs=39.9
Q ss_pred ccceeccccccccCccccCCCCCcchHHHHHHHHhccCCccccccccccc
Q psy10334 31 EVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHM 80 (314)
Q Consensus 31 ~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~ 80 (314)
|+-.||||.----..|.. +|||.-|+.||.+.+-+ ...|=.|++.+..
T Consensus 421 Ed~lCpICyA~pi~Avf~-PC~H~SC~~CI~qHlmN-~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 421 EDNLCPICYAGPINAVFA-PCSHRSCYGCITQHLMN-CKRCFFCKTTVID 468 (489)
T ss_pred ccccCcceecccchhhcc-CCCCchHHHHHHHHHhc-CCeeeEecceeee
Confidence 667899999877778776 59999999999999987 4679999876653
No 67
>KOG3039|consensus
Probab=96.29 E-value=0.0026 Score=55.84 Aligned_cols=54 Identities=13% Similarity=0.325 Sum_probs=46.3
Q ss_pred ccceeccccccccCcc---ccCCCCCcchHHHHHHHHhccCCcccccccccccchhhh
Q psy10334 31 EVFRCFICIEKLRDTH---LCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLVN 85 (314)
Q Consensus 31 ~~~~C~IC~~~~~~p~---~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~ 85 (314)
..+.||||.+.+.+.+ .+..|||.||+.|.++.... ...||+|-.++...+++.
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~-D~v~pv~d~plkdrdiI~ 276 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRK-DMVDPVTDKPLKDRDIIG 276 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccc-cccccCCCCcCcccceEe
Confidence 6689999999999876 34579999999999999987 467999999998888754
No 68
>PF13966 zf-RVT: zinc-binding in reverse transcriptase
Probab=96.29 E-value=0.0042 Score=46.34 Aligned_cols=46 Identities=24% Similarity=0.405 Sum_probs=34.3
Q ss_pred eeeeeccccch-h--hhhccCCCCCCCCCCCCCCccccccceecccCcCcH
Q psy10334 227 LTRLRIGHSLL-T--HKFLLDRQEPPMCNDCQVQITIKQFKHILCDCPLYQ 274 (314)
Q Consensus 227 l~qlrtGH~~~-~--~l~r~~~~~~~~C~~Cg~~~~~et~~H~l~~Cp~~~ 274 (314)
+..-|.-|..+ + -+.+.+...++.|+.||.. .||++|+|++||...
T Consensus 35 ~f~W~~~~~rL~t~~~l~~r~~~~~~~C~~C~~~--~Et~~Hlf~~C~~a~ 83 (86)
T PF13966_consen 35 FFLWRALHNRLPTKDNLQRRGIQVDPICPLCGNE--EETIEHLFFHCPFAR 83 (86)
T ss_pred EEeeeeccccchhhhhhhccCCccCCccccCCCc--cccccceeccCcCcc
Confidence 34445566666 2 3567777788999999985 489999999999754
No 69
>KOG1001|consensus
Probab=96.26 E-value=0.002 Score=65.71 Aligned_cols=50 Identities=26% Similarity=0.769 Sum_probs=40.2
Q ss_pred ceeccccccccCccccCCCCCcchHHHHHHHHhccC-Ccccccccccccchhh
Q psy10334 33 FRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEER-SQCPHCRASLHMTDLV 84 (314)
Q Consensus 33 ~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~-~~CP~Cr~~~~~~~~~ 84 (314)
..|+||.+ ..+++.. .|||.||..|+...+.... ..||.||..+....+.
T Consensus 455 ~~c~ic~~-~~~~~it-~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~ 505 (674)
T KOG1001|consen 455 HWCHICCD-LDSFFIT-RCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLL 505 (674)
T ss_pred cccccccc-cccceee-cccchHHHHHHHhccccccCCCCcHHHHHHHHHHHh
Confidence 79999999 6677765 6999999999999988642 4699999876655543
No 70
>KOG1814|consensus
Probab=95.98 E-value=0.0078 Score=56.64 Aligned_cols=88 Identities=19% Similarity=0.424 Sum_probs=52.4
Q ss_pred hhHHHHHhhhcccchhHHHhc-cccceeccccccccCcc---ccCCCCCcchHHHHHHHHhcc-------CCcccccccc
Q psy10334 9 TIEVLFLRLFISTTSHVSRAL-AEVFRCFICIEKLRDTH---LCPHCSKLCCLACIRQFLTEE-------RSQCPHCRAS 77 (314)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~~~-~~~~~C~IC~~~~~~p~---~~~~CgH~FC~~Ci~~~~~~~-------~~~CP~Cr~~ 77 (314)
+|+.+...+.+-...+..+.+ ...+.|.||++-..-.+ .+ +|+|.||++|...++... .-.||.+.-+
T Consensus 160 ~~~sl~~~Il~~deea~~~~F~~slf~C~ICf~e~~G~~c~~~l-pC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~ 238 (445)
T KOG1814|consen 160 SIDSLKKEILQFDEEATLEKFVNSLFDCCICFEEQMGQHCFKFL-PCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCG 238 (445)
T ss_pred ChHHHHHHHHhhhHHHHHHHHHhhcccceeeehhhcCcceeeec-ccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCc
Confidence 455555544444444444433 35689999998776433 34 599999999999998742 1359886533
Q ss_pred cc-cchhhhhhhhHhhhhhhc
Q psy10334 78 LH-MTDLVNCRWMEEVTQHLD 97 (314)
Q Consensus 78 ~~-~~~~~~~~~~~~~~~~~~ 97 (314)
-. +...++...-.++.+.++
T Consensus 239 ~~a~~g~vKelvg~EL~arYe 259 (445)
T KOG1814|consen 239 SVAPPGQVKELVGDELFARYE 259 (445)
T ss_pred ccCCchHHHHHHHHHHHHHHH
Confidence 22 222333333345555544
No 71
>KOG4265|consensus
Probab=95.71 E-value=0.0062 Score=56.45 Aligned_cols=48 Identities=31% Similarity=0.808 Sum_probs=39.2
Q ss_pred cccceeccccccccCccccCCCCCc-chHHHHHHHHhccCCcccccccccc
Q psy10334 30 AEVFRCFICIEKLRDTHLCPHCSKL-CCLACIRQFLTEERSQCPHCRASLH 79 (314)
Q Consensus 30 ~~~~~C~IC~~~~~~p~~~~~CgH~-FC~~Ci~~~~~~~~~~CP~Cr~~~~ 79 (314)
+....|-||+.-.+|-+++| |-|. -|..|-+..--+ ...||+||.++.
T Consensus 288 ~~gkeCVIClse~rdt~vLP-CRHLCLCs~Ca~~Lr~q-~n~CPICRqpi~ 336 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTVVLP-CRHLCLCSGCAKSLRYQ-TNNCPICRQPIE 336 (349)
T ss_pred cCCCeeEEEecCCcceEEec-chhhehhHhHHHHHHHh-hcCCCccccchH
Confidence 44688999999999999996 9996 699998865433 357999999875
No 72
>PHA03096 p28-like protein; Provisional
Probab=95.69 E-value=0.0055 Score=55.99 Aligned_cols=44 Identities=23% Similarity=0.474 Sum_probs=32.9
Q ss_pred ceeccccccccCc-c------ccCCCCCcchHHHHHHHHhcc--CCccccccc
Q psy10334 33 FRCFICIEKLRDT-H------LCPHCSKLCCLACIRQFLTEE--RSQCPHCRA 76 (314)
Q Consensus 33 ~~C~IC~~~~~~p-~------~~~~CgH~FC~~Ci~~~~~~~--~~~CP~Cr~ 76 (314)
..|.||++...+- . +++.|.|.||..||..|-... ...||.||.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence 6799999977642 2 467899999999999998763 234666654
No 73
>KOG2930|consensus
Probab=95.65 E-value=0.0063 Score=46.19 Aligned_cols=45 Identities=27% Similarity=0.548 Sum_probs=32.9
Q ss_pred cceeccccccccCcc----------------ccCCCCCcchHHHHHHHHhccCCcccccccc
Q psy10334 32 VFRCFICIEKLRDTH----------------LCPHCSKLCCLACIRQFLTEERSQCPHCRAS 77 (314)
Q Consensus 32 ~~~C~IC~~~~~~p~----------------~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~ 77 (314)
.-.|.||..-+-|+- .=-.|.|.|...||.+|+++ +..||.|.++
T Consensus 46 vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlkt-r~vCPLdn~e 106 (114)
T KOG2930|consen 46 VDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKT-RNVCPLDNKE 106 (114)
T ss_pred echhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhh-cCcCCCcCcc
Confidence 357888875443321 11259999999999999998 5789999754
No 74
>KOG4275|consensus
Probab=95.36 E-value=0.0038 Score=56.09 Aligned_cols=42 Identities=29% Similarity=0.778 Sum_probs=33.1
Q ss_pred ccceeccccccccCccccCCCCCc-chHHHHHHHHhccCCccccccccc
Q psy10334 31 EVFRCFICIEKLRDTHLCPHCSKL-CCLACIRQFLTEERSQCPHCRASL 78 (314)
Q Consensus 31 ~~~~C~IC~~~~~~p~~~~~CgH~-FC~~Ci~~~~~~~~~~CP~Cr~~~ 78 (314)
....|.||++.-.|-+.+ +|||. -|..|=.+ -..||+||+.+
T Consensus 299 ~~~LC~ICmDaP~DCvfL-eCGHmVtCt~CGkr-----m~eCPICRqyi 341 (350)
T KOG4275|consen 299 TRRLCAICMDAPRDCVFL-ECGHMVTCTKCGKR-----MNECPICRQYI 341 (350)
T ss_pred HHHHHHHHhcCCcceEEe-ecCcEEeehhhccc-----cccCchHHHHH
Confidence 367799999999999998 69997 48888222 14799999754
No 75
>KOG1571|consensus
Probab=95.23 E-value=0.0072 Score=56.06 Aligned_cols=44 Identities=27% Similarity=0.839 Sum_probs=34.7
Q ss_pred ccceeccccccccCccccCCCCCcchHHHHHHHHhccCCcccccccccc
Q psy10334 31 EVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLH 79 (314)
Q Consensus 31 ~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~ 79 (314)
....|.||++...+.+.+| |||.-| |+.-... .+.||+||..+.
T Consensus 304 ~p~lcVVcl~e~~~~~fvp-cGh~cc--ct~cs~~--l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKSAVFVP-CGHVCC--CTLCSKH--LPQCPVCRQRIR 347 (355)
T ss_pred CCCceEEecCCccceeeec-CCcEEE--chHHHhh--CCCCchhHHHHH
Confidence 3467999999999999884 999988 8765543 356999997654
No 76
>cd06222 RnaseH RNase H (RNase HI) is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a not sequence-specific manner. One of the important functions of RNase H is to remove Okazaki fragments during DNA replication. RNase H knockout mice lack mitochondrial DNA replication and die as embryos. The retroviral reverse transcriptase contains an RNase H domain that plays an important role in converting a single stranded retroviral genomic RNA into a dsDNA for integration into host chromosomes. RNase H inhibitors have been explored as an anti-HIV drug target because RNase H inactivation inhibits reverse transcription.
Probab=95.22 E-value=0.034 Score=42.84 Aligned_cols=30 Identities=40% Similarity=0.666 Sum_probs=27.2
Q ss_pred hcCCcceEEEecCCCCCCcChhHhHHHhhh
Q psy10334 133 KYGLSIKLVWIPGHMNISGNCAVDLAAKQA 162 (314)
Q Consensus 133 ~d~~~i~~~w~p~H~~i~~ne~Ad~~a~~a 162 (314)
++...+.+.|+|+|.+...|+.||.+|+.|
T Consensus 100 ~~~~~~~i~~v~~h~~~~~n~~ad~la~~~ 129 (130)
T cd06222 100 KRFHKVRFEWVPGHSGIEGNERADALAKEA 129 (130)
T ss_pred hCCCeEEEEEcCCCCCCcchHHHHHHHHhh
Confidence 356689999999999999999999999987
No 77
>KOG3800|consensus
Probab=95.10 E-value=0.016 Score=52.16 Aligned_cols=51 Identities=20% Similarity=0.610 Sum_probs=39.1
Q ss_pred eecccc-ccccCcc---ccCCCCCcchHHHHHHHHhccCCcccccccccccchhh
Q psy10334 34 RCFICI-EKLRDTH---LCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLV 84 (314)
Q Consensus 34 ~C~IC~-~~~~~p~---~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~ 84 (314)
.||+|. +.+.+|- ++..|||.-|.+|..+-+..+...||.|-..+....++
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nfr 56 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNFR 56 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcccc
Confidence 499997 4556665 23579999999999999887566899998776655543
No 78
>KOG3039|consensus
Probab=95.02 E-value=0.016 Score=50.96 Aligned_cols=39 Identities=15% Similarity=0.278 Sum_probs=33.3
Q ss_pred hccccceeccccccccCccccCCCCCcchHHHHHHHHhcc
Q psy10334 28 ALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEE 67 (314)
Q Consensus 28 ~~~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~ 67 (314)
.+.+.-.|++|+..++|||.++ =||.||+.||.+++-.+
T Consensus 39 siK~FdcCsLtLqPc~dPvit~-~GylfdrEaILe~ilaq 77 (303)
T KOG3039|consen 39 SIKPFDCCSLTLQPCRDPVITP-DGYLFDREAILEYILAQ 77 (303)
T ss_pred ccCCcceeeeecccccCCccCC-CCeeeeHHHHHHHHHHH
Confidence 3556678999999999999875 69999999999987653
No 79
>KOG4185|consensus
Probab=94.94 E-value=0.021 Score=52.63 Aligned_cols=62 Identities=24% Similarity=0.549 Sum_probs=43.4
Q ss_pred ceeccccccccC------ccccCCCCCcchHHHHHHHHhccCCccccccccc--c---cchhhhhhhhHhhhhh
Q psy10334 33 FRCFICIEKLRD------THLCPHCSKLCCLACIRQFLTEERSQCPHCRASL--H---MTDLVNCRWMEEVTQH 95 (314)
Q Consensus 33 ~~C~IC~~~~~~------p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~--~---~~~~~~~~~~~~~~~~ 95 (314)
+.|-||.+.|.. |..+ .|||+||..|+...+......||.||.+. . ...+.+|..+..+...
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l-~c~h~~c~~c~~~l~~~~~i~cpfcR~~~~~~~~~~~~l~kNf~ll~~~~~ 76 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVL-KCGHTICQNCASKLLGNSRILCPFCRETTEIPDGDVKSLQKNFALLQAIEH 76 (296)
T ss_pred CceeecCccccccCcccCCccc-ccCceehHhHHHHHhcCceeeccCCCCcccCCchhHhhhhhhHHHHHHHHH
Confidence 579999887753 5566 69999999999999886445699999884 2 2334445444444433
No 80
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=94.62 E-value=0.027 Score=44.94 Aligned_cols=52 Identities=23% Similarity=0.581 Sum_probs=40.1
Q ss_pred ccceeccccccccCcccc---CCCCCcchHHHHHHHHhcc--CCcccccccccccch
Q psy10334 31 EVFRCFICIEKLRDTHLC---PHCSKLCCLACIRQFLTEE--RSQCPHCRASLHMTD 82 (314)
Q Consensus 31 ~~~~C~IC~~~~~~p~~~---~~CgH~FC~~Ci~~~~~~~--~~~CP~Cr~~~~~~~ 82 (314)
...+|.||.|...|..-+ ..||.+-|..|--.-|+.- .+.||+|+++|..+.
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 347899999987775532 2499999999999988753 367999999886543
No 81
>KOG4739|consensus
Probab=94.61 E-value=0.011 Score=52.16 Aligned_cols=51 Identities=22% Similarity=0.620 Sum_probs=36.2
Q ss_pred ceeccccccc-cCccccCCCCCcchHHHHHHHHhccCCcccccccccccchhhhh
Q psy10334 33 FRCFICIEKL-RDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLVNC 86 (314)
Q Consensus 33 ~~C~IC~~~~-~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~ 86 (314)
..|..|...- .+|.-++.|+|.||..|...-.. ..||.|+.++....+..+
T Consensus 4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~~---~~C~lCkk~ir~i~l~~s 55 (233)
T KOG4739|consen 4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKASSP---DVCPLCKKSIRIIQLNRS 55 (233)
T ss_pred EEeccccccCCCCceeeeechhhhhhhhcccCCc---cccccccceeeeeecccc
Confidence 4677776433 45666678999999999665432 279999998776655544
No 82
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=94.57 E-value=0.018 Score=38.87 Aligned_cols=48 Identities=21% Similarity=0.479 Sum_probs=35.1
Q ss_pred ccceeccccccccCccccCCCCCcchHHHHHHHHhccCCcccccccccccch
Q psy10334 31 EVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTD 82 (314)
Q Consensus 31 ~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~ 82 (314)
.+..|-.|...-...+.+ .|||.-|..|..-+ +-+.||.|..++...+
T Consensus 6 ~~~~~~~~~~~~~~~~~~-pCgH~I~~~~f~~~---rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 6 PEQPCVFCGFVGTKGTVL-PCGHLICDNCFPGE---RYNGCPFCGTPFEFDD 53 (55)
T ss_pred cceeEEEccccccccccc-cccceeeccccChh---hccCCCCCCCcccCCC
Confidence 446677888876666666 49999999995544 2246999999886543
No 83
>PF04641 Rtf2: Rtf2 RING-finger
Probab=94.53 E-value=0.025 Score=51.29 Aligned_cols=54 Identities=13% Similarity=0.364 Sum_probs=42.6
Q ss_pred cccceeccccccccC---ccccCCCCCcchHHHHHHHHhccCCcccccccccccchhhh
Q psy10334 30 AEVFRCFICIEKLRD---THLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLVN 85 (314)
Q Consensus 30 ~~~~~C~IC~~~~~~---p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~ 85 (314)
...+.|||....|.. -|.+-.|||.|+..+|.+.- . ...||+|-.+|...++++
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~-~~~Cp~c~~~f~~~DiI~ 167 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-K-SKKCPVCGKPFTEEDIIP 167 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-c-cccccccCCccccCCEEE
Confidence 456999999999954 23344699999999999983 1 356999999999877654
No 84
>KOG0826|consensus
Probab=94.48 E-value=0.016 Score=52.98 Aligned_cols=52 Identities=17% Similarity=0.469 Sum_probs=41.3
Q ss_pred ccceeccccccccCccccCCCCCcchHHHHHHHHhccCCcccccccccccchh
Q psy10334 31 EVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDL 83 (314)
Q Consensus 31 ~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~ 83 (314)
+.-.||||+.-..+|..+.--|..||+.||-.+..+ ...||+=..|....++
T Consensus 299 ~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~-~~~CPVT~~p~~v~~l 350 (357)
T KOG0826|consen 299 DREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVN-YGHCPVTGYPASVDHL 350 (357)
T ss_pred ccccChhHHhccCCCceEEecceEEeHHHHHHHHHh-cCCCCccCCcchHHHH
Confidence 457899999999999876556999999999999986 5689996655544443
No 85
>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=94.44 E-value=0.035 Score=35.76 Aligned_cols=40 Identities=23% Similarity=0.747 Sum_probs=25.4
Q ss_pred eccccccccCccccC--CCCCcchHHHHHHHHhccC-Cccccc
Q psy10334 35 CFICIEKLRDTHLCP--HCSKLCCLACIRQFLTEER-SQCPHC 74 (314)
Q Consensus 35 C~IC~~~~~~p~~~~--~CgH~FC~~Ci~~~~~~~~-~~CP~C 74 (314)
|.+|.+++..-+.++ +|+-.+...|+..+|.... ..||.|
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 789999999888775 5999999999999999753 369987
No 86
>KOG4362|consensus
Probab=93.83 E-value=0.021 Score=57.51 Aligned_cols=68 Identities=18% Similarity=0.585 Sum_probs=48.6
Q ss_pred HHhccccceeccccccccCccccCCCCCcchHHHHHHHHhcc--CCcccccccccccchhhhhhhhHhhhh
Q psy10334 26 SRALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEE--RSQCPHCRASLHMTDLVNCRWMEEVTQ 94 (314)
Q Consensus 26 ~~~~~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~--~~~CP~Cr~~~~~~~~~~~~~~~~~~~ 94 (314)
...+...+.|+||...+.+|+.+ .|-|.||..|+..-+... ...||+|+................+++
T Consensus 15 i~~~~k~lEc~ic~~~~~~p~~~-kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~~Es~r~sq~vq 84 (684)
T KOG4362|consen 15 INAMQKILECPICLEHVKEPSLL-KCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSLRESPRFSQLSK 84 (684)
T ss_pred HHHHhhhccCCceeEEeeccchh-hhhHHHHhhhhhceeeccCccccchhhhhhhhhhhccccchHHHHHH
Confidence 34456678999999999999876 799999999999755432 356999997666544443333344444
No 87
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=93.79 E-value=0.039 Score=50.73 Aligned_cols=53 Identities=26% Similarity=0.639 Sum_probs=35.9
Q ss_pred cccceecccccccc--Ccc--ccCCCCCcchHHHHHHHHhccCCcccccccccccchh
Q psy10334 30 AEVFRCFICIEKLR--DTH--LCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDL 83 (314)
Q Consensus 30 ~~~~~C~IC~~~~~--~p~--~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~ 83 (314)
+|+-.||+|+|.+. |-. -+ .||...|+-|...--..-+..||-||.....+++
T Consensus 12 deed~cplcie~mditdknf~pc-~cgy~ic~fc~~~irq~lngrcpacrr~y~denv 68 (480)
T COG5175 12 DEEDYCPLCIEPMDITDKNFFPC-PCGYQICQFCYNNIRQNLNGRCPACRRKYDDENV 68 (480)
T ss_pred cccccCcccccccccccCCcccC-CcccHHHHHHHHHHHhhccCCChHhhhhccccce
Confidence 34455999999764 222 46 4999988888665544335689999976655543
No 88
>KOG1941|consensus
Probab=92.85 E-value=0.041 Score=51.55 Aligned_cols=44 Identities=30% Similarity=0.759 Sum_probs=34.7
Q ss_pred cceeccccccccC-cc---ccCCCCCcchHHHHHHHHhcc-CCccccccc
Q psy10334 32 VFRCFICIEKLRD-TH---LCPHCSKLCCLACIRQFLTEE-RSQCPHCRA 76 (314)
Q Consensus 32 ~~~C~IC~~~~~~-p~---~~~~CgH~FC~~Ci~~~~~~~-~~~CP~Cr~ 76 (314)
++-|..|.+.+-- |. .+| |.|.|...|+.+.+.+. ..+||.||+
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred hhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 5889999987642 22 354 99999999999999763 357999994
No 89
>KOG0298|consensus
Probab=92.35 E-value=0.04 Score=58.79 Aligned_cols=47 Identities=32% Similarity=0.713 Sum_probs=38.9
Q ss_pred ccccceeccccccccCccccCCCCCcchHHHHHHHHhccCCccccccc
Q psy10334 29 LAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRA 76 (314)
Q Consensus 29 ~~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~ 76 (314)
+-+...|+||+++++.--.+..|||.||..|+..|+.. ...||.|..
T Consensus 1150 ~~~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~-~s~~~~~ks 1196 (1394)
T KOG0298|consen 1150 LSGHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYA-SSRCPICKS 1196 (1394)
T ss_pred hhcccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHH-hccCcchhh
Confidence 34567999999999954444479999999999999987 578999973
No 90
>KOG3268|consensus
Probab=92.17 E-value=0.11 Score=43.63 Aligned_cols=56 Identities=23% Similarity=0.520 Sum_probs=37.9
Q ss_pred HHhccccceeccccccccCcc----cc--CCCCCcchHHHHHHHHhc-----cC-----Ccccccccccccc
Q psy10334 26 SRALAEVFRCFICIEKLRDTH----LC--PHCSKLCCLACIRQFLTE-----ER-----SQCPHCRASLHMT 81 (314)
Q Consensus 26 ~~~~~~~~~C~IC~~~~~~p~----~~--~~CgH~FC~~Ci~~~~~~-----~~-----~~CP~Cr~~~~~~ 81 (314)
++..++...|.||.-+--|-. ++ ..||..|.+-|+.+|+.. +. ..||-|..|+..+
T Consensus 159 Lekdd~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 159 LEKDDELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred cCcchhhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 334455567888876544322 11 369999999999999984 11 2599998877543
No 91
>KOG1812|consensus
Probab=92.06 E-value=0.11 Score=49.70 Aligned_cols=52 Identities=23% Similarity=0.599 Sum_probs=34.6
Q ss_pred cceeccccccccCc-c--ccCCCCCcchHHHHHHHHhcc-----CCcccc--cccccccchh
Q psy10334 32 VFRCFICIEKLRDT-H--LCPHCSKLCCLACIRQFLTEE-----RSQCPH--CRASLHMTDL 83 (314)
Q Consensus 32 ~~~C~IC~~~~~~p-~--~~~~CgH~FC~~Ci~~~~~~~-----~~~CP~--Cr~~~~~~~~ 83 (314)
..+|.||..-..++ . ....|||.||..|+.++++.. ...||. |...+.....
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~~~c 207 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTLESC 207 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCHHHH
Confidence 46899999333332 1 113699999999999998842 246877 6655554443
No 92
>KOG4445|consensus
Probab=91.85 E-value=0.061 Score=48.72 Aligned_cols=51 Identities=25% Similarity=0.684 Sum_probs=38.6
Q ss_pred cccceeccccccccC-c-cccCCCCCcchHHHHHHHHhc----------------c------CCccccccccccc
Q psy10334 30 AEVFRCFICIEKLRD-T-HLCPHCSKLCCLACIRQFLTE----------------E------RSQCPHCRASLHM 80 (314)
Q Consensus 30 ~~~~~C~IC~~~~~~-p-~~~~~CgH~FC~~Ci~~~~~~----------------~------~~~CP~Cr~~~~~ 80 (314)
.-.-.|.||+.-|.+ | .+.+.|-|-|...|+.+++.. + ..-||+||..+..
T Consensus 113 ~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~ 187 (368)
T KOG4445|consen 113 HPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI 187 (368)
T ss_pred CCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence 345789999998876 4 444679999999999998763 0 1249999987754
No 93
>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=91.48 E-value=0.1 Score=41.94 Aligned_cols=33 Identities=18% Similarity=0.610 Sum_probs=25.7
Q ss_pred cceeccccccccC--ccc-cCCCC------CcchHHHHHHHHh
Q psy10334 32 VFRCFICIEKLRD--THL-CPHCS------KLCCLACIRQFLT 65 (314)
Q Consensus 32 ~~~C~IC~~~~~~--p~~-~~~Cg------H~FC~~Ci~~~~~ 65 (314)
...|.||++.+.+ -|+ ++ || |.||.+|+.+|-.
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHh
Confidence 5789999998887 442 33 55 7899999999943
No 94
>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=91.35 E-value=0.12 Score=29.53 Aligned_cols=22 Identities=27% Similarity=0.756 Sum_probs=15.7
Q ss_pred eeccccccccC-ccccCCCCCcc
Q psy10334 34 RCFICIEKLRD-THLCPHCSKLC 55 (314)
Q Consensus 34 ~C~IC~~~~~~-p~~~~~CgH~F 55 (314)
.||-|...+.. ...+|.|||.|
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCCC
Confidence 58888876643 44677888887
No 95
>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=90.93 E-value=0.17 Score=33.71 Aligned_cols=45 Identities=24% Similarity=0.671 Sum_probs=24.7
Q ss_pred cceeccccccccCccccCCCCCcchHHHHHHHHhc----cCCcccccccc
Q psy10334 32 VFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTE----ERSQCPHCRAS 77 (314)
Q Consensus 32 ~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~----~~~~CP~Cr~~ 77 (314)
.+.|||....+..|+....|.|.-|.+ ++.|+.. ..-.||.|.++
T Consensus 2 sL~CPls~~~i~~P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 2 SLRCPLSFQRIRIPVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp ESB-TTTSSB-SSEEEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeeCCCCCCEEEeCccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 478999999999999777899998854 3445543 12469999763
No 96
>KOG3970|consensus
Probab=90.92 E-value=0.28 Score=42.75 Aligned_cols=53 Identities=23% Similarity=0.411 Sum_probs=40.9
Q ss_pred HHhccccceecccccccc--CccccCCCCCcchHHHHHHHHhcc-------CCcccccccccc
Q psy10334 26 SRALAEVFRCFICIEKLR--DTHLCPHCSKLCCLACIRQFLTEE-------RSQCPHCRASLH 79 (314)
Q Consensus 26 ~~~~~~~~~C~IC~~~~~--~p~~~~~CgH~FC~~Ci~~~~~~~-------~~~CP~Cr~~~~ 79 (314)
+++.+..-.|..|.-.+. |-+.+ .|=|.|.+.|+.+|-..- ...||.|..++.
T Consensus 44 L~DsDY~pNC~LC~t~La~gdt~RL-vCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF 105 (299)
T KOG3970|consen 44 LQDSDYNPNCRLCNTPLASGDTTRL-VCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF 105 (299)
T ss_pred HhhcCCCCCCceeCCccccCcceee-hhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence 344566788999988775 56677 599999999999997641 257999987664
No 97
>KOG2114|consensus
Probab=90.85 E-value=0.11 Score=53.29 Aligned_cols=40 Identities=20% Similarity=0.558 Sum_probs=33.9
Q ss_pred ceeccccccccCccccCCCCCcchHHHHHHHHhccCCccccccc
Q psy10334 33 FRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRA 76 (314)
Q Consensus 33 ~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~ 76 (314)
..|+.|...+.-|++-=.|||.|.+.|.+ .+...||.|+.
T Consensus 841 skCs~C~~~LdlP~VhF~CgHsyHqhC~e----~~~~~CP~C~~ 880 (933)
T KOG2114|consen 841 SKCSACEGTLDLPFVHFLCGHSYHQHCLE----DKEDKCPKCLP 880 (933)
T ss_pred eeecccCCccccceeeeecccHHHHHhhc----cCcccCCccch
Confidence 58999999999999754699999999998 22457999975
No 98
>KOG3161|consensus
Probab=90.62 E-value=0.098 Score=52.04 Aligned_cols=39 Identities=21% Similarity=0.643 Sum_probs=31.4
Q ss_pred cccceecccccccc----CccccCCCCCcchHHHHHHHHhccCCccc
Q psy10334 30 AEVFRCFICIEKLR----DTHLCPHCSKLCCLACIRQFLTEERSQCP 72 (314)
Q Consensus 30 ~~~~~C~IC~~~~~----~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP 72 (314)
.+.+.|+||+..|- .||.+ .|||.-|+.|.+.-.. .+||
T Consensus 9 ~~~l~c~ic~n~f~~~~~~Pvsl-~cghtic~~c~~~lyn---~scp 51 (861)
T KOG3161|consen 9 VLLLLCDICLNLFVVQRLEPVSL-QCGHTICGHCVQLLYN---ASCP 51 (861)
T ss_pred HHHhhchHHHHHHHHHhcCcccc-cccchHHHHHHHhHhh---ccCC
Confidence 45688999977663 59987 7999999999998764 3688
No 99
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=90.48 E-value=0.08 Score=40.77 Aligned_cols=33 Identities=21% Similarity=0.591 Sum_probs=25.7
Q ss_pred cccceeccccccccCcc-ccCCCCCcchHHHHHH
Q psy10334 30 AEVFRCFICIEKLRDTH-LCPHCSKLCCLACIRQ 62 (314)
Q Consensus 30 ~~~~~C~IC~~~~~~p~-~~~~CgH~FC~~Ci~~ 62 (314)
.+.-.|++|...+.+.+ ..-+|||.|++.|+.+
T Consensus 76 ~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~r 109 (109)
T PF10367_consen 76 TESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIKR 109 (109)
T ss_pred CCCCCccCcCCcCCCceEEEeCCCeEEecccccC
Confidence 56678999999998755 2234999999999753
No 100
>KOG3752|consensus
Probab=90.40 E-value=0.32 Score=45.67 Aligned_cols=31 Identities=26% Similarity=0.382 Sum_probs=27.7
Q ss_pred CCcceEEEecCCCCCCcChhHhHHHhhhcCC
Q psy10334 135 GLSIKLVWIPGHMNISGNCAVDLAAKQAQTS 165 (314)
Q Consensus 135 ~~~i~~~w~p~H~~i~~ne~Ad~~a~~a~~~ 165 (314)
...+.+.||+||.++.+||.||.+|++++..
T Consensus 335 ~~~vq~~~V~Gh~gi~gne~Ad~lARkgs~~ 365 (371)
T KOG3752|consen 335 NKKVQQEYVGGHSGILGNEMADALARKGSTL 365 (371)
T ss_pred cCceEEEEecCcCCcchHHHHHHHHhhhhhh
Confidence 4679999999999999999999999998543
No 101
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=89.44 E-value=0.37 Score=34.87 Aligned_cols=48 Identities=23% Similarity=0.546 Sum_probs=21.8
Q ss_pred cceeccccccccC-----cc-ccCCCCCcchHHHHHHHHhccCCcccccccccc
Q psy10334 32 VFRCFICIEKLRD-----TH-LCPHCSKLCCLACIRQFLTEERSQCPHCRASLH 79 (314)
Q Consensus 32 ~~~C~IC~~~~~~-----p~-~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~ 79 (314)
.-.|.||.+-+-- +. .+..|+-..|+.|.+-=.+++...||.|+++..
T Consensus 9 ~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 9 GQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp S-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred CcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 3569999876532 22 356799999999998766665678999997664
No 102
>KOG3579|consensus
Probab=89.26 E-value=0.13 Score=46.23 Aligned_cols=42 Identities=33% Similarity=0.845 Sum_probs=33.8
Q ss_pred ccceeccccccccCccccCCC----CCcchHHHHHHHHhccC----Ccccc
Q psy10334 31 EVFRCFICIEKLRDTHLCPHC----SKLCCLACIRQFLTEER----SQCPH 73 (314)
Q Consensus 31 ~~~~C~IC~~~~~~p~~~~~C----gH~FC~~Ci~~~~~~~~----~~CP~ 73 (314)
.-+.|.+|.|-++|.... +| +|.||.-|-++.++.+. ..||-
T Consensus 267 apLcCTLC~ERLEDTHFV-QCPSVp~HKFCFPCSResIK~Qg~sgevYCPS 316 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTHFV-QCPSVPSHKFCFPCSRESIKQQGASGEVYCPS 316 (352)
T ss_pred CceeehhhhhhhccCcee-ecCCCcccceecccCHHHHHhhcCCCceeCCC
Confidence 459999999999998754 45 79999999999998752 34775
No 103
>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=88.03 E-value=0.52 Score=31.47 Aligned_cols=40 Identities=35% Similarity=0.957 Sum_probs=20.9
Q ss_pred eccccccccCc---------cccCCCCCcchHHHHHHHHhccCCcccccc
Q psy10334 35 CFICIEKLRDT---------HLCPHCSKLCCLACIRQFLTEERSQCPHCR 75 (314)
Q Consensus 35 C~IC~~~~~~p---------~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr 75 (314)
|.-|+..|.++ ..++.|++.||.+|= -+.-+.-..||-|.
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 56677777765 467899999999992 22222124699883
No 104
>PHA02862 5L protein; Provisional
Probab=87.69 E-value=0.48 Score=38.53 Aligned_cols=48 Identities=17% Similarity=0.621 Sum_probs=35.1
Q ss_pred ceeccccccccCccccCCCC-----CcchHHHHHHHHhcc-CCcccccccccccch
Q psy10334 33 FRCFICIEKLRDTHLCPHCS-----KLCCLACIRQFLTEE-RSQCPHCRASLHMTD 82 (314)
Q Consensus 33 ~~C~IC~~~~~~p~~~~~Cg-----H~FC~~Ci~~~~~~~-~~~CP~Cr~~~~~~~ 82 (314)
-.|=||.+.-.+.+. +|. .--.++|+.+|+... +..||.|+.++..+.
T Consensus 3 diCWIC~~~~~e~~~--PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~ 56 (156)
T PHA02862 3 DICWICNDVCDERNN--FCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKK 56 (156)
T ss_pred CEEEEecCcCCCCcc--cccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEE
Confidence 469999987655542 353 467899999999863 357999998886544
No 105
>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=87.36 E-value=0.13 Score=45.15 Aligned_cols=48 Identities=27% Similarity=0.743 Sum_probs=36.3
Q ss_pred ccceecccc-ccccCccc----cCCCCCcchHHHHHHHHhccCCccc--cccccc
Q psy10334 31 EVFRCFICI-EKLRDTHL----CPHCSKLCCLACIRQFLTEERSQCP--HCRASL 78 (314)
Q Consensus 31 ~~~~C~IC~-~~~~~p~~----~~~CgH~FC~~Ci~~~~~~~~~~CP--~Cr~~~ 78 (314)
++-.||||. +.+-+|-+ -|.|=|.-|-+|+.+-++.+...|| -|-+-+
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kIL 63 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKIL 63 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHH
Confidence 356899997 44455542 2679999999999999998666899 686543
No 106
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=87.07 E-value=0.68 Score=38.36 Aligned_cols=51 Identities=14% Similarity=0.469 Sum_probs=35.5
Q ss_pred cccceeccccccccCccccC-CCCC---cchHHHHHHHHhcc-CCcccccccccccc
Q psy10334 30 AEVFRCFICIEKLRDTHLCP-HCSK---LCCLACIRQFLTEE-RSQCPHCRASLHMT 81 (314)
Q Consensus 30 ~~~~~C~IC~~~~~~p~~~~-~CgH---~FC~~Ci~~~~~~~-~~~CP~Cr~~~~~~ 81 (314)
..+..|-||.+--.+ ..-| .|.. .-.++|+++|+... ...|+.|+.++...
T Consensus 6 ~~~~~CRIC~~~~~~-~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 6 LMDKCCWICKDEYDV-VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred CCCCeeEecCCCCCC-ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 456789999987542 2222 2433 44999999999874 35799999887643
No 107
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=86.35 E-value=0.49 Score=43.89 Aligned_cols=46 Identities=30% Similarity=0.699 Sum_probs=36.2
Q ss_pred cccceeccccccccCccccCCCCCcchHHHHHHH--HhccCCcccccccc
Q psy10334 30 AEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQF--LTEERSQCPHCRAS 77 (314)
Q Consensus 30 ~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~--~~~~~~~CP~Cr~~ 77 (314)
++.-.|.||-+-+.--..+| |||.-|..|-.+- +-. ...||.||..
T Consensus 59 Een~~C~ICA~~~TYs~~~P-C~H~~CH~Ca~RlRALY~-~K~C~~CrTE 106 (493)
T COG5236 59 EENMNCQICAGSTTYSARYP-CGHQICHACAVRLRALYM-QKGCPLCRTE 106 (493)
T ss_pred cccceeEEecCCceEEEecc-CCchHHHHHHHHHHHHHh-ccCCCccccc
Confidence 46688999999888776665 9999999998753 333 3579999964
No 108
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=85.28 E-value=0.68 Score=31.24 Aligned_cols=30 Identities=27% Similarity=0.669 Sum_probs=24.9
Q ss_pred cceeccccccc--cC-ccccCCCCCcchHHHHH
Q psy10334 32 VFRCFICIEKL--RD-THLCPHCSKLCCLACIR 61 (314)
Q Consensus 32 ~~~C~IC~~~~--~~-p~~~~~CgH~FC~~Ci~ 61 (314)
...|++|.+.| .| -|++|.||-.|.+.|..
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~ 37 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWE 37 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHh
Confidence 46799999999 44 55789999999999944
No 109
>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=85.00 E-value=0.54 Score=44.42 Aligned_cols=31 Identities=29% Similarity=0.929 Sum_probs=22.9
Q ss_pred CcchHHHHHHHHhcc------------CCcccccccccccchh
Q psy10334 53 KLCCLACIRQFLTEE------------RSQCPHCRASLHMTDL 83 (314)
Q Consensus 53 H~FC~~Ci~~~~~~~------------~~~CP~Cr~~~~~~~~ 83 (314)
=..|.+|+-+|+..+ +..||.||+.|...++
T Consensus 313 PmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilDV 355 (358)
T PF10272_consen 313 PMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILDV 355 (358)
T ss_pred chHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeeee
Confidence 344779999998742 2369999999886553
No 110
>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=84.23 E-value=0.11 Score=36.99 Aligned_cols=41 Identities=27% Similarity=0.630 Sum_probs=23.2
Q ss_pred cceeccccccccCccccCCCCCcchHHHHHHHHhccCCcccccccccc
Q psy10334 32 VFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLH 79 (314)
Q Consensus 32 ~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~ 79 (314)
++.||.|...+. +. . |+.+|..|-..+... ..||.|..++.
T Consensus 1 e~~CP~C~~~L~-~~---~-~~~~C~~C~~~~~~~--a~CPdC~~~Le 41 (70)
T PF07191_consen 1 ENTCPKCQQELE-WQ---G-GHYHCEACQKDYKKE--AFCPDCGQPLE 41 (70)
T ss_dssp --B-SSS-SBEE-EE---T-TEEEETTT--EEEEE--EE-TTT-SB-E
T ss_pred CCcCCCCCCccE-Ee---C-CEEECccccccceec--ccCCCcccHHH
Confidence 367999998643 32 2 899999997766443 57999988764
No 111
>KOG1940|consensus
Probab=81.63 E-value=1.2 Score=40.44 Aligned_cols=43 Identities=30% Similarity=0.685 Sum_probs=35.3
Q ss_pred cceecccccccc----CccccCCCCCcchHHHHHHHHhccCCccccccc
Q psy10334 32 VFRCFICIEKLR----DTHLCPHCSKLCCLACIRQFLTEERSQCPHCRA 76 (314)
Q Consensus 32 ~~~C~IC~~~~~----~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~ 76 (314)
...||||.+++. +|..+ .|||.-...|.+....+. ..||.|.+
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~-~CgH~~h~~cf~e~~~~~-y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVL-KCGHYMHSRCFEEMICEG-YTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCcc-CcccchHHHHHHHHhccC-CCCCcccc
Confidence 466999998764 45566 599999999999988875 88999976
No 112
>KOG2817|consensus
Probab=81.37 E-value=1 Score=42.55 Aligned_cols=47 Identities=19% Similarity=0.443 Sum_probs=37.6
Q ss_pred ccceeccccccccC---ccccCCCCCcchHHHHHHHHhccC--Cccccccccc
Q psy10334 31 EVFRCFICIEKLRD---THLCPHCSKLCCLACIRQFLTEER--SQCPHCRASL 78 (314)
Q Consensus 31 ~~~~C~IC~~~~~~---p~~~~~CgH~FC~~Ci~~~~~~~~--~~CP~Cr~~~ 78 (314)
..|.|||=.+--.| |+.+ .|||.-|++=|.+--.++. ..||-|-...
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L-~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~ 384 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMML-ICGHVISKDALNRLSKNGSQSFKCPYCPVEQ 384 (394)
T ss_pred ceeecccchhhccCCCCCeee-eccceecHHHHHHHhhCCCeeeeCCCCCccc
Confidence 45899998877765 7788 5999999999999887754 5799995433
No 113
>KOG1952|consensus
Probab=81.15 E-value=1.2 Score=46.05 Aligned_cols=47 Identities=26% Similarity=0.819 Sum_probs=36.7
Q ss_pred cccceecccccccc--Ccc-ccCCCCCcchHHHHHHHHhcc------CCccccccc
Q psy10334 30 AEVFRCFICIEKLR--DTH-LCPHCSKLCCLACIRQFLTEE------RSQCPHCRA 76 (314)
Q Consensus 30 ~~~~~C~IC~~~~~--~p~-~~~~CgH~FC~~Ci~~~~~~~------~~~CP~Cr~ 76 (314)
.+...|.||.+.+. +|+ .+..|=|.|...||.+|-... .-.||.|+.
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 46789999999875 576 344577999999999998742 236999984
No 114
>KOG1815|consensus
Probab=81.11 E-value=0.94 Score=44.31 Aligned_cols=52 Identities=23% Similarity=0.514 Sum_probs=37.6
Q ss_pred cccceeccccccccC-ccccCCCCCcchHHHHHHHHhcc-----C--Ccccc--cccccccch
Q psy10334 30 AEVFRCFICIEKLRD-THLCPHCSKLCCLACIRQFLTEE-----R--SQCPH--CRASLHMTD 82 (314)
Q Consensus 30 ~~~~~C~IC~~~~~~-p~~~~~CgH~FC~~Ci~~~~~~~-----~--~~CP~--Cr~~~~~~~ 82 (314)
.....|.||.+-+.+ .+.+ .|||.||..|+..++... . -.||. |++.+....
T Consensus 68 ~~~~~c~ic~~~~~~~~~~~-~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~~ 129 (444)
T KOG1815|consen 68 KGDVQCGICVESYDGEIIGL-GCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGEDT 129 (444)
T ss_pred CccccCCcccCCCcchhhhc-CCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCce
Confidence 345899999998886 4444 799999999999999863 1 13555 766555433
No 115
>PLN02189 cellulose synthase
Probab=80.40 E-value=0.87 Score=48.40 Aligned_cols=47 Identities=23% Similarity=0.570 Sum_probs=35.9
Q ss_pred ceeccccccccC-----c-cccCCCCCcchHHHHHHHHhccCCcccccccccc
Q psy10334 33 FRCFICIEKLRD-----T-HLCPHCSKLCCLACIRQFLTEERSQCPHCRASLH 79 (314)
Q Consensus 33 ~~C~IC~~~~~~-----p-~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~ 79 (314)
-.|.||.+.+-. | |.|..||---|+.|-+-=-++++..||+|++...
T Consensus 35 ~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 35 QVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 479999987542 2 3577799999999997555555678999998765
No 116
>KOG3899|consensus
Probab=80.08 E-value=0.94 Score=41.09 Aligned_cols=33 Identities=33% Similarity=0.907 Sum_probs=25.1
Q ss_pred CCCcchHHHHHHHHhc------------cCCcccccccccccchh
Q psy10334 51 CSKLCCLACIRQFLTE------------ERSQCPHCRASLHMTDL 83 (314)
Q Consensus 51 CgH~FC~~Ci~~~~~~------------~~~~CP~Cr~~~~~~~~ 83 (314)
|.-..|.+|+-+|+.. ++.+||+||+.+...+.
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv 369 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDV 369 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeee
Confidence 5567789999999864 13479999999886654
No 117
>KOG0825|consensus
Probab=79.73 E-value=1.1 Score=45.93 Aligned_cols=48 Identities=13% Similarity=0.303 Sum_probs=34.9
Q ss_pred ccceeccccccccCcc----cc--CCCCCcchHHHHHHHHhcc-----CCccccccccc
Q psy10334 31 EVFRCFICIEKLRDTH----LC--PHCSKLCCLACIRQFLTEE-----RSQCPHCRASL 78 (314)
Q Consensus 31 ~~~~C~IC~~~~~~p~----~~--~~CgH~FC~~Ci~~~~~~~-----~~~CP~Cr~~~ 78 (314)
+..+|.||.-.+.+|+ .+ ..|+|.||..||..|..+. ...|+.|..-+
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 4578999988888754 12 2499999999999998752 23477776433
No 118
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=79.27 E-value=1.1 Score=29.36 Aligned_cols=39 Identities=26% Similarity=0.766 Sum_probs=24.3
Q ss_pred eccccccccC--ccccCCCC-----CcchHHHHHHHHhcc-CCccccc
Q psy10334 35 CFICIEKLRD--THLCPHCS-----KLCCLACIRQFLTEE-RSQCPHC 74 (314)
Q Consensus 35 C~IC~~~~~~--p~~~~~Cg-----H~FC~~Ci~~~~~~~-~~~CP~C 74 (314)
|-||++.-.+ |... +|+ .....+|+.+|+... ...|++|
T Consensus 1 CrIC~~~~~~~~~li~-pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLIS-PCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE--SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCceec-ccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 6788876553 3443 364 256889999999863 3569887
No 119
>PLN02436 cellulose synthase A
Probab=78.12 E-value=1.3 Score=47.13 Aligned_cols=47 Identities=23% Similarity=0.614 Sum_probs=35.6
Q ss_pred ceeccccccccC-----c-cccCCCCCcchHHHHHHHHhccCCcccccccccc
Q psy10334 33 FRCFICIEKLRD-----T-HLCPHCSKLCCLACIRQFLTEERSQCPHCRASLH 79 (314)
Q Consensus 33 ~~C~IC~~~~~~-----p-~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~ 79 (314)
-.|.||.+.+-. | |.|..||---|+.|.+-=-++++..||+|++...
T Consensus 37 ~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 37 QTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 479999986532 2 3577899999999996555555678999998765
No 120
>KOG4718|consensus
Probab=77.33 E-value=1.2 Score=38.63 Aligned_cols=44 Identities=27% Similarity=0.674 Sum_probs=38.1
Q ss_pred cceeccccccccCccccCCCCCcchHHHHHHHHhccCCccccccc
Q psy10334 32 VFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRA 76 (314)
Q Consensus 32 ~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~ 76 (314)
--.|.+|..++-.-+.+-.||=.+...|+..++.. .+.||.|..
T Consensus 181 lk~Cn~Ch~LvIqg~rCg~c~i~~h~~c~qty~q~-~~~cphc~d 224 (235)
T KOG4718|consen 181 LKNCNLCHCLVIQGIRCGSCNIQYHRGCIQTYLQR-RDICPHCGD 224 (235)
T ss_pred HHHHhHhHHHhheeeccCcccchhhhHHHHHHhcc-cCcCCchhc
Confidence 36799999999888877779999999999999987 578999953
No 121
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=76.79 E-value=2 Score=30.59 Aligned_cols=32 Identities=22% Similarity=0.496 Sum_probs=25.9
Q ss_pred CCcchHHHHHHHHhccCCcccccccccccchhhhh
Q psy10334 52 SKLCCLACIRQFLTEERSQCPHCRASLHMTDLVNC 86 (314)
Q Consensus 52 gH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~ 86 (314)
.+.||.+|.+.-+.. .||.|...+...++++.
T Consensus 28 EcTFCadCae~~l~g---~CPnCGGelv~RP~RPa 59 (84)
T COG3813 28 ECTFCADCAENRLHG---LCPNCGGELVARPIRPA 59 (84)
T ss_pred eeehhHhHHHHhhcC---cCCCCCchhhcCcCChH
Confidence 489999999977753 69999988877777664
No 122
>KOG2932|consensus
Probab=76.55 E-value=1 Score=41.22 Aligned_cols=42 Identities=26% Similarity=0.611 Sum_probs=27.4
Q ss_pred ceeccccccccC-ccccCCCCCcchHHHHHHHHhccCCccccccccc
Q psy10334 33 FRCFICIEKLRD-THLCPHCSKLCCLACIRQFLTEERSQCPHCRASL 78 (314)
Q Consensus 33 ~~C~IC~~~~~~-p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~ 78 (314)
--|--|...+.. -.+++ |.|.||.+|-..-- ...||.|-..+
T Consensus 91 HfCd~Cd~PI~IYGRmIP-CkHvFCl~CAr~~~---dK~Cp~C~d~V 133 (389)
T KOG2932|consen 91 HFCDRCDFPIAIYGRMIP-CKHVFCLECARSDS---DKICPLCDDRV 133 (389)
T ss_pred EeecccCCcceeeecccc-cchhhhhhhhhcCc---cccCcCcccHH
Confidence 457777654432 33564 99999999965321 34799996544
No 123
>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=74.93 E-value=1.1 Score=37.15 Aligned_cols=21 Identities=38% Similarity=0.697 Sum_probs=18.2
Q ss_pred ccceeccccccccCccccCCCC
Q psy10334 31 EVFRCFICIEKLRDTHLCPHCS 52 (314)
Q Consensus 31 ~~~~C~IC~~~~~~p~~~~~Cg 52 (314)
|+.+||||+|.-.+.|++ -|.
T Consensus 1 ed~~CpICme~PHNAVLL-lCS 21 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAVLL-LCS 21 (162)
T ss_pred CCccCceeccCCCceEEE-Eec
Confidence 468999999999999988 474
No 124
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=74.82 E-value=1.9 Score=46.06 Aligned_cols=47 Identities=21% Similarity=0.598 Sum_probs=35.2
Q ss_pred ceeccccccccC-----c-cccCCCCCcchHHHHHHHHhccCCcccccccccc
Q psy10334 33 FRCFICIEKLRD-----T-HLCPHCSKLCCLACIRQFLTEERSQCPHCRASLH 79 (314)
Q Consensus 33 ~~C~IC~~~~~~-----p-~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~ 79 (314)
-.|.||.+.+-- | |.|..||---|+.|-+-=-++++..||+|++...
T Consensus 18 qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 18 QVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred ceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 369999986432 2 3577899999999996545555678999998765
No 125
>KOG1812|consensus
Probab=73.07 E-value=1.4 Score=42.31 Aligned_cols=41 Identities=20% Similarity=0.491 Sum_probs=30.1
Q ss_pred ccceeccccccc-----cCccccCCCCCcchHHHHHHHHhccCCcccc
Q psy10334 31 EVFRCFICIEKL-----RDTHLCPHCSKLCCLACIRQFLTEERSQCPH 73 (314)
Q Consensus 31 ~~~~C~IC~~~~-----~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~ 73 (314)
.-..||+|.-.+ ...+++. |||-||+.|-..|...+ ..|..
T Consensus 305 ~wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~-~~~~~ 350 (384)
T KOG1812|consen 305 RWRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHN-GECYE 350 (384)
T ss_pred hcCcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCC-ccccC
Confidence 346799997554 3466886 99999999999997763 34544
No 126
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=71.80 E-value=1.1 Score=30.66 Aligned_cols=32 Identities=22% Similarity=0.555 Sum_probs=22.3
Q ss_pred cceec--cccccccC-------ccccCCCCCcchHHHHHHH
Q psy10334 32 VFRCF--ICIEKLRD-------THLCPHCSKLCCLACIRQF 63 (314)
Q Consensus 32 ~~~C~--IC~~~~~~-------p~~~~~CgH~FC~~Ci~~~ 63 (314)
...|| =|..++.. .+.++.||+.||..|-..|
T Consensus 18 ~~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 18 LKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred ccCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCcC
Confidence 34588 77544432 3456679999999998877
No 127
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=71.77 E-value=2.4 Score=33.08 Aligned_cols=28 Identities=21% Similarity=0.553 Sum_probs=15.2
Q ss_pred cchHHHHHHHHhcc-C-Ccccccccccccc
Q psy10334 54 LCCLACIRQFLTEE-R-SQCPHCRASLHMT 81 (314)
Q Consensus 54 ~FC~~Ci~~~~~~~-~-~~CP~Cr~~~~~~ 81 (314)
..|..|=.+|+.-+ . -.||.|...+...
T Consensus 10 R~Cp~CG~kFYDLnk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYDLNKDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhccCCCCCccCCCCCCccCcc
Confidence 34445545554421 2 2488887766655
No 128
>PLN02195 cellulose synthase A
Probab=71.08 E-value=2.5 Score=44.78 Aligned_cols=47 Identities=28% Similarity=0.605 Sum_probs=35.1
Q ss_pred ceecccccccc-----Cc-cccCCCCCcchHHHHHHHHhccCCcccccccccc
Q psy10334 33 FRCFICIEKLR-----DT-HLCPHCSKLCCLACIRQFLTEERSQCPHCRASLH 79 (314)
Q Consensus 33 ~~C~IC~~~~~-----~p-~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~ 79 (314)
-.|.||.+.+- +| |.|..||---|+.|-+-=-++++..||+|++...
T Consensus 7 ~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 7 PICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred ccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 36999998543 22 3577899999999986444454567999998876
No 129
>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=71.00 E-value=4.2 Score=31.49 Aligned_cols=45 Identities=31% Similarity=0.725 Sum_probs=29.9
Q ss_pred ceeccccccccCccc-c------CCC---CCcchHHHHHHHHhcc--------CCcccccccc
Q psy10334 33 FRCFICIEKLRDTHL-C------PHC---SKLCCLACIRQFLTEE--------RSQCPHCRAS 77 (314)
Q Consensus 33 ~~C~IC~~~~~~p~~-~------~~C---gH~FC~~Ci~~~~~~~--------~~~CP~Cr~~ 77 (314)
.+|..|..--.|..+ + +.| .-.||..|+...+.+. .-.||.||.-
T Consensus 8 ~~CHqCrqKt~~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crgi 70 (105)
T PF10497_consen 8 KTCHQCRQKTLDFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGI 70 (105)
T ss_pred CCchhhcCCCCCCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCCe
Confidence 456677664444432 2 345 7789999999887752 2359999863
No 130
>KOG1428|consensus
Probab=70.21 E-value=3.5 Score=45.40 Aligned_cols=51 Identities=27% Similarity=0.632 Sum_probs=35.8
Q ss_pred cccceeccccc-ccc-Ccc-ccCCCCCcchHHHHHHHHhcc----C-----Ccccccccccccc
Q psy10334 30 AEVFRCFICIE-KLR-DTH-LCPHCSKLCCLACIRQFLTEE----R-----SQCPHCRASLHMT 81 (314)
Q Consensus 30 ~~~~~C~IC~~-~~~-~p~-~~~~CgH~FC~~Ci~~~~~~~----~-----~~CP~Cr~~~~~~ 81 (314)
+.+-.|-||.- .+. .|. .+ .|||.|...|..+-++.. . -+||.|..++...
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL-~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~ 3546 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQL-DCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHI 3546 (3738)
T ss_pred ccCceEEEEehhhhCCCcceec-CCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhH
Confidence 44577999973 333 244 45 799999999998766642 1 2699998877643
No 131
>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=70.04 E-value=2.6 Score=29.53 Aligned_cols=13 Identities=23% Similarity=0.677 Sum_probs=9.8
Q ss_pred cchHHHHHHHHhc
Q psy10334 54 LCCLACIRQFLTE 66 (314)
Q Consensus 54 ~FC~~Ci~~~~~~ 66 (314)
.||+.|+.+|+..
T Consensus 11 gFCRNCLskWy~~ 23 (68)
T PF06844_consen 11 GFCRNCLSKWYRE 23 (68)
T ss_dssp S--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 5999999999985
No 132
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=69.53 E-value=2.9 Score=44.67 Aligned_cols=48 Identities=21% Similarity=0.535 Sum_probs=35.8
Q ss_pred cceeccccccccC-----c-cccCCCCCcchHHHHHHHHhccCCcccccccccc
Q psy10334 32 VFRCFICIEKLRD-----T-HLCPHCSKLCCLACIRQFLTEERSQCPHCRASLH 79 (314)
Q Consensus 32 ~~~C~IC~~~~~~-----p-~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~ 79 (314)
.-.|.||.+.+-. | |.|..||---|+.|.+-=.++++..||+|++...
T Consensus 15 ~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 15 AKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred cchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 3569999986532 2 3567899999999996555555678999998765
No 133
>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=68.06 E-value=3.6 Score=26.91 Aligned_cols=41 Identities=32% Similarity=0.774 Sum_probs=23.4
Q ss_pred eccccccccCccccCCCC-CcchHHHHHHHHhccCCcccccccccc
Q psy10334 35 CFICIEKLRDTHLCPHCS-KLCCLACIRQFLTEERSQCPHCRASLH 79 (314)
Q Consensus 35 C~IC~~~~~~p~~~~~Cg-H~FC~~Ci~~~~~~~~~~CP~Cr~~~~ 79 (314)
|--|--..+. .+ .|+ |-.|..|+..-+.. ...||.|..++.
T Consensus 5 CKsCWf~~k~--Li-~C~dHYLCl~CLt~ml~~-s~~C~iC~~~LP 46 (50)
T PF03854_consen 5 CKSCWFANKG--LI-KCSDHYLCLNCLTLMLSR-SDRCPICGKPLP 46 (50)
T ss_dssp --SS-S--SS--EE-E-SS-EEEHHHHHHT-SS-SSEETTTTEE--
T ss_pred ChhhhhcCCC--ee-eecchhHHHHHHHHHhcc-ccCCCcccCcCc
Confidence 5555443333 33 364 99999999999886 468999998775
No 134
>PLN02400 cellulose synthase
Probab=67.42 E-value=2.7 Score=45.02 Aligned_cols=47 Identities=21% Similarity=0.560 Sum_probs=34.5
Q ss_pred ceeccccccccC-----c-cccCCCCCcchHHHHHHHHhccCCcccccccccc
Q psy10334 33 FRCFICIEKLRD-----T-HLCPHCSKLCCLACIRQFLTEERSQCPHCRASLH 79 (314)
Q Consensus 33 ~~C~IC~~~~~~-----p-~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~ 79 (314)
-.|.||.+-+-- | |.|..||---|+.|-+-=-++++..||+|++...
T Consensus 37 qiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 37 QICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred ceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 379999986432 2 3567899999999986444444568999998765
No 135
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=67.25 E-value=3 Score=26.09 Aligned_cols=24 Identities=33% Similarity=0.819 Sum_probs=17.0
Q ss_pred eccccccccC-ccccCCCCCcchHH
Q psy10334 35 CFICIEKLRD-THLCPHCSKLCCLA 58 (314)
Q Consensus 35 C~IC~~~~~~-p~~~~~CgH~FC~~ 58 (314)
|.+|.....- |..+..|+..||..
T Consensus 1 C~~C~~~~~l~~f~C~~C~~~FC~~ 25 (39)
T smart00154 1 CHFCRKKVGLTGFKCRHCGNLFCGE 25 (39)
T ss_pred CcccCCcccccCeECCccCCccccc
Confidence 5667655444 88886699999864
No 136
>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=67.23 E-value=4.3 Score=27.52 Aligned_cols=46 Identities=28% Similarity=0.609 Sum_probs=29.5
Q ss_pred ceecccccccc-Cc-cccCCCC--CcchHHHHHHHHhccCCcccccccccccch
Q psy10334 33 FRCFICIEKLR-DT-HLCPHCS--KLCCLACIRQFLTEERSQCPHCRASLHMTD 82 (314)
Q Consensus 33 ~~C~IC~~~~~-~p-~~~~~Cg--H~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~ 82 (314)
-.|-.|-.-+- |. ... -|+ ..||..|.+.-+. ..||.|...+..++
T Consensus 6 pnCE~C~~dLp~~s~~A~-ICSfECTFC~~C~e~~l~---~~CPNCgGelv~RP 55 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAY-ICSFECTFCADCAETMLN---GVCPNCGGELVRRP 55 (57)
T ss_pred CCccccCCCCCCCCCcce-EEeEeCcccHHHHHHHhc---CcCcCCCCccccCC
Confidence 34666765443 21 111 244 6999999998874 47999987776544
No 137
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=66.60 E-value=4 Score=31.94 Aligned_cols=43 Identities=23% Similarity=0.596 Sum_probs=30.9
Q ss_pred cceeccccccccCcc-------------ccCCCCCcchHHHHHHHHhccCCcccccc
Q psy10334 32 VFRCFICIEKLRDTH-------------LCPHCSKLCCLACIRQFLTEERSQCPHCR 75 (314)
Q Consensus 32 ~~~C~IC~~~~~~p~-------------~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr 75 (314)
...|.-|+..|.++. .++.|++.||.+|=.-+-+. -..||-|.
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~-Lh~CPGC~ 110 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHES-LHCCPGCI 110 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhh-ccCCcCCC
Confidence 346999999887652 37889999999994333332 24699985
No 138
>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 PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 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 AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=64.71 E-value=3 Score=26.58 Aligned_cols=25 Identities=36% Similarity=0.708 Sum_probs=14.3
Q ss_pred ecc--ccccccCccccCCCCCcchHHH
Q psy10334 35 CFI--CIEKLRDTHLCPHCSKLCCLAC 59 (314)
Q Consensus 35 C~I--C~~~~~~p~~~~~CgH~FC~~C 59 (314)
|++ |.....-|+.++.||..||..-
T Consensus 1 C~~~~C~~~~~~~~~C~~C~~~FC~~H 27 (43)
T PF01428_consen 1 CSFPGCKKKDFLPFKCKHCGKSFCLKH 27 (43)
T ss_dssp -SSTTT--BCTSHEE-TTTS-EE-TTT
T ss_pred CccCcCcCccCCCeECCCCCcccCccc
Confidence 455 7776667888877999999754
No 140
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=64.46 E-value=3.9 Score=25.22 Aligned_cols=14 Identities=21% Similarity=0.529 Sum_probs=9.9
Q ss_pred ceeccccccccCcc
Q psy10334 33 FRCFICIEKLRDTH 46 (314)
Q Consensus 33 ~~C~IC~~~~~~p~ 46 (314)
.+||-|.-.|+-|-
T Consensus 3 i~CP~C~~~f~v~~ 16 (37)
T PF13719_consen 3 ITCPNCQTRFRVPD 16 (37)
T ss_pred EECCCCCceEEcCH
Confidence 46888887777554
No 141
>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=63.38 E-value=5.3 Score=26.73 Aligned_cols=33 Identities=21% Similarity=0.629 Sum_probs=23.1
Q ss_pred ceeccccccccC---ccccCCCCCcchHHHHHHHHh
Q psy10334 33 FRCFICIEKLRD---THLCPHCSKLCCLACIRQFLT 65 (314)
Q Consensus 33 ~~C~IC~~~~~~---p~~~~~CgH~FC~~Ci~~~~~ 65 (314)
-.|++|...|.- ...+..||+.||..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 458888765543 334567999999999876544
No 142
>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=63.06 E-value=1.2 Score=30.53 Aligned_cols=33 Identities=21% Similarity=0.619 Sum_probs=19.9
Q ss_pred ccceecc--ccccccC-----c--cccCCCCCcchHHHHHHH
Q psy10334 31 EVFRCFI--CIEKLRD-----T--HLCPHCSKLCCLACIRQF 63 (314)
Q Consensus 31 ~~~~C~I--C~~~~~~-----p--~~~~~CgH~FC~~Ci~~~ 63 (314)
+...||- |..++.- . +.++.||+.||..|-..|
T Consensus 17 ~~~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 17 NIRWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp -CC--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred CccCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 3357987 8876642 2 567679999999997766
No 143
>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=61.47 E-value=2.7 Score=29.55 Aligned_cols=35 Identities=31% Similarity=0.790 Sum_probs=18.0
Q ss_pred cccceeccccccccC---ccccCCCCCcchHHHHHHHH
Q psy10334 30 AEVFRCFICIEKLRD---THLCPHCSKLCCLACIRQFL 64 (314)
Q Consensus 30 ~~~~~C~IC~~~~~~---p~~~~~CgH~FC~~Ci~~~~ 64 (314)
.+.-.|.+|...|.- -.-+..||+.||..|.....
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 345789999988842 22456799999999976443
No 144
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=59.88 E-value=5.1 Score=24.58 Aligned_cols=13 Identities=23% Similarity=0.529 Sum_probs=8.2
Q ss_pred ceeccccccccCc
Q psy10334 33 FRCFICIEKLRDT 45 (314)
Q Consensus 33 ~~C~IC~~~~~~p 45 (314)
+.||-|...|+-+
T Consensus 3 ~~CP~C~~~~~v~ 15 (38)
T TIGR02098 3 IQCPNCKTSFRVV 15 (38)
T ss_pred EECCCCCCEEEeC
Confidence 4677777766544
No 145
>KOG2034|consensus
Probab=58.15 E-value=4.7 Score=42.08 Aligned_cols=37 Identities=14% Similarity=0.206 Sum_probs=28.8
Q ss_pred cccceecccccccc-CccccCCCCCcchHHHHHHHHhc
Q psy10334 30 AEVFRCFICIEKLR-DTHLCPHCSKLCCLACIRQFLTE 66 (314)
Q Consensus 30 ~~~~~C~IC~~~~~-~p~~~~~CgH~FC~~Ci~~~~~~ 66 (314)
+-.-.|.+|...+- .|-.+-.|||.|.++||.+....
T Consensus 815 ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~~ 852 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVLS 852 (911)
T ss_pred cCccchHHhcchhhcCcceeeeccchHHHHHHHHHHHc
Confidence 44578999987654 57655569999999999987653
No 146
>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 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 CysCysHisCys (CCHC) type zinc finger domains, and have the sequence: C-X2-C-X4-H-X4-C where X can be any amino acid, and number indicates the number of residues. These 18 residues CCHC zinc finger domains are mainly found in the nucleocapsid protein of retroviruses. It is required for viral genome packaging and for early infection process [, , ]. It is also found in eukaryotic proteins involved in RNA binding or single-stranded DNA binding []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 2L44_A 1A1T_A 1WWG_A 1U6P_A 1WWD_A 1WWE_A 1A6B_B 1F6U_A 1MFS_A 1NCP_C ....
Probab=57.56 E-value=8.2 Score=19.78 Aligned_cols=17 Identities=41% Similarity=0.878 Sum_probs=14.0
Q ss_pred CCCCCCCCccccccceecccCcC
Q psy10334 250 MCNDCQVQITIKQFKHILCDCPL 272 (314)
Q Consensus 250 ~C~~Cg~~~~~et~~H~l~~Cp~ 272 (314)
.|-.||.. .|+.-+||.
T Consensus 2 ~C~~C~~~------GH~~~~Cp~ 18 (18)
T PF00098_consen 2 KCFNCGEP------GHIARDCPK 18 (18)
T ss_dssp BCTTTSCS------SSCGCTSSS
T ss_pred cCcCCCCc------CcccccCcc
Confidence 57789984 899999984
No 147
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=57.32 E-value=7 Score=31.23 Aligned_cols=12 Identities=8% Similarity=0.033 Sum_probs=7.7
Q ss_pred cccccccccccc
Q psy10334 70 QCPHCRASLHMT 81 (314)
Q Consensus 70 ~CP~Cr~~~~~~ 81 (314)
.||.|...+...
T Consensus 28 vcP~cg~~~~~~ 39 (129)
T TIGR02300 28 VSPYTGEQFPPE 39 (129)
T ss_pred cCCCcCCccCcc
Confidence 577777665544
No 148
>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=54.75 E-value=5.6 Score=26.59 Aligned_cols=38 Identities=21% Similarity=0.542 Sum_probs=23.9
Q ss_pred ccceeccccccccCccccCCCCCcchHHHHHHHHhcc-CCccccccc
Q psy10334 31 EVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEE-RSQCPHCRA 76 (314)
Q Consensus 31 ~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~-~~~CP~Cr~ 76 (314)
+.+.||.|.+.|... .++..|....-.+. ...||+|..
T Consensus 1 ~~f~CP~C~~~~~~~--------~L~~H~~~~H~~~~~~v~CPiC~~ 39 (54)
T PF05605_consen 1 DSFTCPYCGKGFSES--------SLVEHCEDEHRSESKNVVCPICSS 39 (54)
T ss_pred CCcCCCCCCCccCHH--------HHHHHHHhHCcCCCCCccCCCchh
Confidence 468899999954432 23445666555442 346999975
No 149
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=54.66 E-value=7.3 Score=23.86 Aligned_cols=13 Identities=23% Similarity=0.388 Sum_probs=8.2
Q ss_pred ceeccccccccCc
Q psy10334 33 FRCFICIEKLRDT 45 (314)
Q Consensus 33 ~~C~IC~~~~~~p 45 (314)
+.||-|.-.|.-|
T Consensus 3 i~Cp~C~~~y~i~ 15 (36)
T PF13717_consen 3 ITCPNCQAKYEID 15 (36)
T ss_pred EECCCCCCEEeCC
Confidence 4677777666543
No 150
>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B.
Probab=53.39 E-value=17 Score=25.93 Aligned_cols=59 Identities=19% Similarity=0.088 Sum_probs=31.2
Q ss_pred ccccccccccccccCCC-ChhhhHHHHHHHHHHHhhcCCcceEEEecCCCCCCcChhHhHHHhhhc
Q psy10334 99 LQMNSKSSLQTYQRLFP-NSTLCLNVKNLLSELKLKYGLSIKLVWIPGHMNISGNCAVDLAAKQAQ 163 (314)
Q Consensus 99 l~~ds~sal~~l~~~~~-~~~~c~~~~~~l~~~~~~d~~~i~~~w~p~H~~i~~ne~Ad~~a~~a~ 163 (314)
+.+|+......+..... .+... .+...+..+.+ .-..+.+.|+| -..|..||.+||.|.
T Consensus 26 v~sDs~~vv~~i~~~~~~~~~~~-~~~~~i~~~~~-~~~~~~~~~i~----r~~N~~A~~LA~~a~ 85 (87)
T PF13456_consen 26 VESDSQLVVDAINGRSSSRSELR-PLIQDIRSLLD-RFWNVSVSHIP----REQNKVADALAKFAL 85 (87)
T ss_dssp EEES-HHHHHHHTTSS---SCCH-HHHHHHHHHHC-CCSCEEEEE------GGGSHHHHHHHHHHH
T ss_pred EEecCcccccccccccccccccc-ccchhhhhhhc-cccceEEEEEC----hHHhHHHHHHHHHHh
Confidence 35566555555544422 22333 33333444432 23457777776 677999999999885
No 151
>KOG3053|consensus
Probab=52.75 E-value=8.6 Score=34.47 Aligned_cols=51 Identities=24% Similarity=0.628 Sum_probs=35.5
Q ss_pred ccccceeccccccccCccc---cCCC---C--CcchHHHHHHHHhccC-------Ccccccccccc
Q psy10334 29 LAEVFRCFICIEKLRDTHL---CPHC---S--KLCCLACIRQFLTEER-------SQCPHCRASLH 79 (314)
Q Consensus 29 ~~~~~~C~IC~~~~~~p~~---~~~C---g--H~FC~~Ci~~~~~~~~-------~~CP~Cr~~~~ 79 (314)
-+.+-.|=||+.-=+|.-. ..+| | |=...+|+.+|++++. ..||+|++...
T Consensus 17 ~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 17 QELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred cccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 4567889999976665331 1123 2 6689999999998731 25999998764
No 152
>PRK04023 DNA polymerase II large subunit; Validated
Probab=52.11 E-value=8.8 Score=40.92 Aligned_cols=45 Identities=22% Similarity=0.541 Sum_probs=31.8
Q ss_pred cceeccccccccCccccCCCCC-----cchHHHHHHHHhccCCccccccccccc
Q psy10334 32 VFRCFICIEKLRDTHLCPHCSK-----LCCLACIRQFLTEERSQCPHCRASLHM 80 (314)
Q Consensus 32 ~~~C~IC~~~~~~p~~~~~CgH-----~FC~~Ci~~~~~~~~~~CP~Cr~~~~~ 80 (314)
...|+-|...... ..||.||. .||..| .+... ...||.|......
T Consensus 626 ~RfCpsCG~~t~~-frCP~CG~~Te~i~fCP~C--G~~~~-~y~CPKCG~El~~ 675 (1121)
T PRK04023 626 RRKCPSCGKETFY-RRCPFCGTHTEPVYRCPRC--GIEVE-EDECEKCGREPTP 675 (1121)
T ss_pred CccCCCCCCcCCc-ccCCCCCCCCCcceeCccc--cCcCC-CCcCCCCCCCCCc
Confidence 4689999988633 35888994 599999 22222 3569999976654
No 153
>KOG3113|consensus
Probab=52.11 E-value=11 Score=33.74 Aligned_cols=51 Identities=16% Similarity=0.313 Sum_probs=38.4
Q ss_pred ccceeccccccccCcc---ccCCCCCcchHHHHHHHHhccCCcccccccccccchhh
Q psy10334 31 EVFRCFICIEKLRDTH---LCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLV 84 (314)
Q Consensus 31 ~~~~C~IC~~~~~~p~---~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~ 84 (314)
..+.|||=.-.+.+-. .+-.|||.|=..-+.+.- ...|++|...+...+.+
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik---as~C~~C~a~y~~~dvI 163 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK---ASVCHVCGAAYQEDDVI 163 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHhh---hccccccCCcccccCeE
Confidence 4589999987776643 234699999888777663 35799999999877744
No 154
>cd00021 BBOX B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.
Probab=51.71 E-value=0.65 Score=28.52 Aligned_cols=24 Identities=13% Similarity=-0.125 Sum_probs=19.2
Q ss_pred hHHHHH-HHHHHHhhcCCcceEEEe
Q psy10334 120 CLNVKN-LLSELKLKYGLSIKLVWI 143 (314)
Q Consensus 120 c~~~~~-~l~~~~~~d~~~i~~~w~ 143 (314)
|..|.+ ++..||.+++..||..|.
T Consensus 3 C~~H~~~~~~~fC~~~~~~iC~~C~ 27 (39)
T cd00021 3 CDEHGEEPLSLFCETDRALLCVDCD 27 (39)
T ss_pred CCccCCcceEEEeCccChhhhhhcC
Confidence 455655 788899999999999885
No 155
>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=51.13 E-value=9.9 Score=22.97 Aligned_cols=12 Identities=17% Similarity=0.368 Sum_probs=7.7
Q ss_pred ceeccccccccC
Q psy10334 33 FRCFICIEKLRD 44 (314)
Q Consensus 33 ~~C~IC~~~~~~ 44 (314)
..|.+|..++..
T Consensus 3 ~~C~~CG~i~~g 14 (34)
T cd00729 3 WVCPVCGYIHEG 14 (34)
T ss_pred EECCCCCCEeEC
Confidence 457777766553
No 156
>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=49.66 E-value=5.7 Score=31.31 Aligned_cols=46 Identities=20% Similarity=0.407 Sum_probs=28.4
Q ss_pred ccceecccccccc----CccccCCCCCcchHHHHHHHHhccCCccccccc
Q psy10334 31 EVFRCFICIEKLR----DTHLCPHCSKLCCLACIRQFLTEERSQCPHCRA 76 (314)
Q Consensus 31 ~~~~C~IC~~~~~----~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~ 76 (314)
.+-.|.+|...|. -...+..|+|.+|..|-..--....-.|.+|.+
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVYSKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEETSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCcCCCCCCEEChhhHH
Confidence 4578999987542 245678899999999954410111124888865
No 157
>PF13395 HNH_4: HNH endonuclease
Probab=49.51 E-value=8.9 Score=25.66 Aligned_cols=17 Identities=35% Similarity=0.845 Sum_probs=13.0
Q ss_pred CCCCCCCcccc-------ccceec
Q psy10334 251 CNDCQVQITIK-------QFKHIL 267 (314)
Q Consensus 251 C~~Cg~~~~~e-------t~~H~l 267 (314)
|++||..++.+ +++||+
T Consensus 1 C~Y~g~~i~~~~l~~~~~~iDHii 24 (54)
T PF13395_consen 1 CPYCGKPISIENLFKNKYEIDHII 24 (54)
T ss_pred CCCCCCCCChhhcccCCceeEEEe
Confidence 78899887755 458887
No 158
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=48.89 E-value=6.6 Score=31.34 Aligned_cols=21 Identities=24% Similarity=0.513 Sum_probs=13.4
Q ss_pred ccccccccCccccCCCCCcchH
Q psy10334 36 FICIEKLRDTHLCPHCSKLCCL 57 (314)
Q Consensus 36 ~IC~~~~~~p~~~~~CgH~FC~ 57 (314)
-||.+.-..-..+ .|||+||-
T Consensus 61 fi~qs~~~rv~rc-ecghsf~d 81 (165)
T COG4647 61 FICQSAQKRVIRC-ECGHSFGD 81 (165)
T ss_pred EEEecccccEEEE-eccccccC
Confidence 3565555543456 69999985
No 159
>PRK13907 rnhA ribonuclease H; Provisional
Probab=48.29 E-value=17 Score=28.61 Aligned_cols=24 Identities=33% Similarity=0.443 Sum_probs=19.9
Q ss_pred cceEEEecCCCCCCcChhHhHHHhhhcC
Q psy10334 137 SIKLVWIPGHMNISGNCAVDLAAKQAQT 164 (314)
Q Consensus 137 ~i~~~w~p~H~~i~~ne~Ad~~a~~a~~ 164 (314)
.+.+.|+|. +.|+.||.+|+.|..
T Consensus 103 ~~~~~~v~r----~~N~~Ad~LA~~a~~ 126 (128)
T PRK13907 103 LFFIKWIPS----SQNKVADELARKAIL 126 (128)
T ss_pred ceEEEEcCc----hhchhHHHHHHHHHh
Confidence 566789997 489999999999864
No 160
>KOG0824|consensus
Probab=48.28 E-value=6.2 Score=36.17 Aligned_cols=49 Identities=24% Similarity=0.614 Sum_probs=40.7
Q ss_pred cccceeccccccccCccccCCCCCcchHHHHHHHHhccCCcccccccccc
Q psy10334 30 AEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLH 79 (314)
Q Consensus 30 ~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~ 79 (314)
.+.-.|-||...+.-|.....|+|.||+.|-..|... ...||.|+....
T Consensus 103 ~~~~~~~~~~g~l~vpt~~qg~w~qf~~~~p~~~~~~-~~~~~d~~~~~~ 151 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTRIQGCWHQFCYVCPKSNFAM-GNDCPDCRGKIS 151 (324)
T ss_pred CCccceeeeeeeEEecccccCceeeeeecCCchhhhh-hhccchhhcCcC
Confidence 4567899999999999877669999999999999876 357999986544
No 161
>KOG0827|consensus
Probab=47.03 E-value=4.4 Score=38.39 Aligned_cols=49 Identities=20% Similarity=0.446 Sum_probs=38.5
Q ss_pred ceeccccccccCc----cccCCCCCcchHHHHHHHHhccCCcccccccccccchh
Q psy10334 33 FRCFICIEKLRDT----HLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDL 83 (314)
Q Consensus 33 ~~C~IC~~~~~~p----~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~ 83 (314)
-.|.||.+-++.- ..+ -|||.+-..||++|+.. ...||.|+..+....+
T Consensus 197 ~sl~I~~~slK~~y~k~~~~-~~g~~~~~~kL~k~L~~-~~kl~~~~rel~~~~~ 249 (465)
T KOG0827|consen 197 GSLSICFESLKQNYDKISAI-VCGHIYHHGKLSKWLAT-KRKLPSCRRELPKNGF 249 (465)
T ss_pred hhhHhhHHHHHHHHHHHHHH-hhcccchhhHHHHHHHH-HHHhHHHHhhhhhhhH
Confidence 5699998777654 245 59999999999999988 5689999987764433
No 162
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=46.87 E-value=10 Score=28.36 Aligned_cols=13 Identities=23% Similarity=0.657 Sum_probs=12.0
Q ss_pred cchHHHHHHHHhc
Q psy10334 54 LCCLACIRQFLTE 66 (314)
Q Consensus 54 ~FC~~Ci~~~~~~ 66 (314)
.||+.|+..|+..
T Consensus 42 gFCRNCLs~Wy~e 54 (104)
T COG3492 42 GFCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHHH
Confidence 6999999999986
No 163
>PHA00626 hypothetical protein
Probab=46.46 E-value=12 Score=25.40 Aligned_cols=12 Identities=17% Similarity=0.251 Sum_probs=6.9
Q ss_pred Cccccccccccc
Q psy10334 69 SQCPHCRASLHM 80 (314)
Q Consensus 69 ~~CP~Cr~~~~~ 80 (314)
..||.|.-.++.
T Consensus 24 YkCkdCGY~ft~ 35 (59)
T PHA00626 24 YVCCDCGYNDSK 35 (59)
T ss_pred eEcCCCCCeech
Confidence 457777655543
No 164
>KOG2462|consensus
Probab=43.71 E-value=8.6 Score=34.83 Aligned_cols=54 Identities=20% Similarity=0.437 Sum_probs=30.5
Q ss_pred cccceeccccccccC-cc--------ccCCCCCcchHHHHH-HHHhcc---------CCccccccccccc-chhh
Q psy10334 30 AEVFRCFICIEKLRD-TH--------LCPHCSKLCCLACIR-QFLTEE---------RSQCPHCRASLHM-TDLV 84 (314)
Q Consensus 30 ~~~~~C~IC~~~~~~-p~--------~~~~CgH~FC~~Ci~-~~~~~~---------~~~CP~Cr~~~~~-~~~~ 84 (314)
...+.|++|...|.- |. .+ .|...+|-.=.. .|+-++ ...||.|.+.|-. .+|+
T Consensus 159 ~ka~~C~~C~K~YvSmpALkMHirTH~l-~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLR 232 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYVSMPALKMHIRTHTL-PCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLR 232 (279)
T ss_pred cccccCCCCCceeeehHHHhhHhhccCC-CcccccccccccchHHhhcccccccCCCCccCCcccchhcchHHHH
Confidence 345778888765542 32 22 244445544444 366542 2469999988853 3443
No 165
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=43.34 E-value=15 Score=33.99 Aligned_cols=46 Identities=17% Similarity=0.408 Sum_probs=35.3
Q ss_pred cccceeccccccccC---ccccCCCCCcchHHHHHHHHhcc--CCccccccc
Q psy10334 30 AEVFRCFICIEKLRD---THLCPHCSKLCCLACIRQFLTEE--RSQCPHCRA 76 (314)
Q Consensus 30 ~~~~~C~IC~~~~~~---p~~~~~CgH~FC~~Ci~~~~~~~--~~~CP~Cr~ 76 (314)
...|.||+=.+.-.+ |+++ .|||.-=..-+.+--.++ ...||-|-.
T Consensus 334 Hs~FiCPVlKe~~t~ENpP~ml-~CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 334 HSLFICPVLKELCTDENPPVML-ECGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred cceeeccccHhhhcccCCCeee-eccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 345899998887764 8888 699999998888876654 356999943
No 166
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=41.99 E-value=12 Score=33.01 Aligned_cols=14 Identities=21% Similarity=0.648 Sum_probs=10.5
Q ss_pred ceeccccccccCcc
Q psy10334 33 FRCFICIEKLRDTH 46 (314)
Q Consensus 33 ~~C~IC~~~~~~p~ 46 (314)
+-|+||+.+|..|+
T Consensus 261 fvCsVCLsvfc~p~ 274 (296)
T COG5242 261 FVCSVCLSVFCRPV 274 (296)
T ss_pred eehhhhheeecCCc
Confidence 67888888886665
No 167
>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=41.59 E-value=3.8 Score=37.64 Aligned_cols=44 Identities=23% Similarity=0.316 Sum_probs=21.9
Q ss_pred cceeccccccccCccccCC----CCCcchHHHHHHHHhccCCccccccc
Q psy10334 32 VFRCFICIEKLRDTHLCPH----CSKLCCLACIRQFLTEERSQCPHCRA 76 (314)
Q Consensus 32 ~~~C~IC~~~~~~p~~~~~----CgH~FC~~Ci~~~~~~~~~~CP~Cr~ 76 (314)
.-.||||...-.--++... =-+.+|.-|=.+|--. ...||.|-.
T Consensus 172 ~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~-R~~Cp~Cg~ 219 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFV-RIKCPYCGN 219 (290)
T ss_dssp -SS-TTT---EEEEEEE------EEEEEETTT--EEE---TTS-TTT--
T ss_pred CCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeec-CCCCcCCCC
Confidence 4689999976544443221 1378999999999655 468999964
No 168
>KOG0289|consensus
Probab=41.10 E-value=23 Score=34.26 Aligned_cols=51 Identities=22% Similarity=0.331 Sum_probs=44.8
Q ss_pred eeccccccccCccccCCCCCcchHHHHHHHHhccCCcccccccccccchhhh
Q psy10334 34 RCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLVN 85 (314)
Q Consensus 34 ~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~ 85 (314)
-|.|=.|+-++||+.|.=||.|=++=|+++..+ ...||+=..++..+++++
T Consensus 2 ~CaISgEvP~~PVvS~~Sg~vfEkrLIEqyI~e-~G~DPIt~~pLs~eelV~ 52 (506)
T KOG0289|consen 2 VCAISGEVPEEPVVSPVSGHVFEKRLIEQYIAE-TGKDPITNEPLSIEELVE 52 (506)
T ss_pred eecccCCCCCCccccccccchHHHHHHHHHHHH-cCCCCCCCCcCCHHHeee
Confidence 599999999999988888999999999999987 568999888887776654
No 169
>PF14353 CpXC: CpXC protein
Probab=40.72 E-value=14 Score=29.42 Aligned_cols=46 Identities=13% Similarity=0.203 Sum_probs=21.7
Q ss_pred ceeccccccccCccccCCCCCcchHHHHHHHHhcc--CCcccccccccc
Q psy10334 33 FRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEE--RSQCPHCRASLH 79 (314)
Q Consensus 33 ~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~--~~~CP~Cr~~~~ 79 (314)
++||-|...|.-.+-.. -.=..=..=.++-+... ...||.|...+.
T Consensus 2 itCP~C~~~~~~~v~~~-I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~ 49 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTS-INADEDPELKEKILDGSLFSFTCPSCGHKFR 49 (128)
T ss_pred cCCCCCCCeeEEEEEeE-EcCcCCHHHHHHHHcCCcCEEECCCCCCcee
Confidence 56888877665444210 00000111122223221 246999998765
No 170
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=40.63 E-value=16 Score=23.27 Aligned_cols=19 Identities=26% Similarity=0.683 Sum_probs=16.5
Q ss_pred CCCCCCCCCCccccccceecccCcC
Q psy10334 248 PPMCNDCQVQITIKQFKHILCDCPL 272 (314)
Q Consensus 248 ~~~C~~Cg~~~~~et~~H~l~~Cp~ 272 (314)
...|..||.. .|+.++||.
T Consensus 4 ~~~CqkC~~~------GH~tyeC~~ 22 (42)
T PF13917_consen 4 RVRCQKCGQK------GHWTYECPN 22 (42)
T ss_pred CCcCcccCCC------CcchhhCCC
Confidence 4579999984 899999997
No 171
>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 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=38.38 E-value=13 Score=24.80 Aligned_cols=14 Identities=29% Similarity=0.672 Sum_probs=7.5
Q ss_pred Ccccccccccccch
Q psy10334 69 SQCPHCRASLHMTD 82 (314)
Q Consensus 69 ~~CP~Cr~~~~~~~ 82 (314)
..||+|..++....
T Consensus 21 ~~CPlC~r~l~~e~ 34 (54)
T PF04423_consen 21 GCCPLCGRPLDEEH 34 (54)
T ss_dssp EE-TTT--EE-HHH
T ss_pred CcCCCCCCCCCHHH
Confidence 37999999887654
No 173
>PF03966 Trm112p: Trm112p-like protein; InterPro: IPR005651 This family of short proteins have no known function. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The function of this family is uncertain. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The entry contains 2 families: Trm112, which is required for tRNA methylation in Saccharomyces cerevisiae (Baker's yeast) and is found in complexes with 2 tRNA methylases (TRM9 and TRM11) also with putative methyltransferase YDR140W []. The zinc-finger protein Ynr046w is plurifunctional and a component of the eRF1 methyltransferase in yeast []. The crystal structure of Ynr046w has been determined to 1.7 A resolution. It comprises a zinc-binding domain built from both the N- and C-terminal sequences and an inserted domain, absent from bacterial and archaeal orthologs of the protein, composed of three alpha-helices []. UPF0434, which are proteins that are functionally uncharacterised. ; PDB: 3Q87_A 2KPI_A 2K5R_A 2HF1_A 2JS4_A 2J6A_A 2JR6_A 2PK7_A 2JNY_A.
Probab=37.72 E-value=16 Score=25.67 Aligned_cols=14 Identities=29% Similarity=0.738 Sum_probs=8.8
Q ss_pred ccccceeccccccc
Q psy10334 29 LAEVFRCFICIEKL 42 (314)
Q Consensus 29 ~~~~~~C~IC~~~~ 42 (314)
+-+.+.||+|...+
T Consensus 4 llniL~Cp~ck~pL 17 (68)
T PF03966_consen 4 LLNILACPVCKGPL 17 (68)
T ss_dssp GCGTBB-TTTSSBE
T ss_pred HHhhhcCCCCCCcc
Confidence 34567888888844
No 174
>KOG2979|consensus
Probab=37.58 E-value=19 Score=32.30 Aligned_cols=42 Identities=21% Similarity=0.325 Sum_probs=36.3
Q ss_pred cceeccccccccCccccCCCCCcchHHHHHHHHhcc-CCcccc
Q psy10334 32 VFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEE-RSQCPH 73 (314)
Q Consensus 32 ~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~-~~~CP~ 73 (314)
+++|||=...+.+|+.-..|||.|=++=|...+... .-.||+
T Consensus 176 s~rdPis~~~I~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv 218 (262)
T KOG2979|consen 176 SNRDPISKKPIVNPVISKKCGHVYDRDSIMQILCDEITIRCPV 218 (262)
T ss_pred cccCchhhhhhhchhhhcCcCcchhhhhHHHHhccCceeeccc
Confidence 488999999999999878999999999999998763 235888
No 175
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=37.31 E-value=25 Score=24.25 Aligned_cols=24 Identities=17% Similarity=0.492 Sum_probs=16.6
Q ss_pred ccCCCCCCCCCCCCCCcccccccee
Q psy10334 242 LLDRQEPPMCNDCQVQITIKQFKHI 266 (314)
Q Consensus 242 r~~~~~~~~C~~Cg~~~~~et~~H~ 266 (314)
-|...+.|.||.|+.+. ++..+++
T Consensus 33 nFs~~~~p~CPlC~s~M-~~~~r~L 56 (59)
T PF14169_consen 33 NFSFEEEPVCPLCKSPM-VSGTRML 56 (59)
T ss_pred ccccCCCccCCCcCCcc-ccceeec
Confidence 34556789999999986 3455543
No 176
>KOG0309|consensus
Probab=36.62 E-value=24 Score=36.47 Aligned_cols=41 Identities=24% Similarity=0.780 Sum_probs=30.9
Q ss_pred cceeccccccccC-ccccCCCCCcchHHHHHHHHhccCCcccc
Q psy10334 32 VFRCFICIEKLRD-THLCPHCSKLCCLACIRQFLTEERSQCPH 73 (314)
Q Consensus 32 ~~~C~IC~~~~~~-p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~ 73 (314)
.+.|.||.--++- -..|-.|||.-..+|...||..+ ..||.
T Consensus 1028 ~~~C~~C~l~V~gss~~Cg~C~Hv~H~sc~~eWf~~g-d~Cps 1069 (1081)
T KOG0309|consen 1028 TFQCAICHLAVRGSSNFCGTCGHVGHTSCMMEWFRTG-DVCPS 1069 (1081)
T ss_pred eeeeeeEeeEeeccchhhccccccccHHHHHHHHhcC-CcCCC
Confidence 3678888655543 33455699999999999999985 46886
No 177
>KOG0314|consensus
Probab=36.24 E-value=9 Score=37.27 Aligned_cols=46 Identities=33% Similarity=0.585 Sum_probs=36.7
Q ss_pred hccccceeccc-cccccCcccc-CCCCCcchHHHHHHHHhccCCcccccc
Q psy10334 28 ALAEVFRCFIC-IEKLRDTHLC-PHCSKLCCLACIRQFLTEERSQCPHCR 75 (314)
Q Consensus 28 ~~~~~~~C~IC-~~~~~~p~~~-~~CgH~FC~~Ci~~~~~~~~~~CP~Cr 75 (314)
.+.+.+.|++| .+.|.+..++ ..|.-.||-.||.+.+-.. .|+.|.
T Consensus 215 ~~~e~~~c~~~~~~~~~~~~l~~~~~~~~~~~~~i~~~l~~~--~~~~c~ 262 (448)
T KOG0314|consen 215 ELPEGLQCPLCGKEVMLDAALLSKCCLKSFCDKCIRDALISK--SMCVCG 262 (448)
T ss_pred cCCccccCceecchhhHHHHHhhhhhcccCCccccccccccc--cCCcch
Confidence 35678999999 8999998865 6789999999999988763 455554
No 178
>KOG2807|consensus
Probab=36.23 E-value=11 Score=34.94 Aligned_cols=9 Identities=22% Similarity=1.006 Sum_probs=4.2
Q ss_pred ccccccccc
Q psy10334 70 QCPHCRASL 78 (314)
Q Consensus 70 ~CP~Cr~~~ 78 (314)
.|+.|+..|
T Consensus 347 ~C~~Ck~~F 355 (378)
T KOG2807|consen 347 RCESCKNVF 355 (378)
T ss_pred Echhcccee
Confidence 355554443
No 179
>COG4640 Predicted membrane protein [Function unknown]
Probab=35.93 E-value=18 Score=34.46 Aligned_cols=23 Identities=26% Similarity=0.530 Sum_probs=12.0
Q ss_pred eecccc-ccccCccccCCCCCcch
Q psy10334 34 RCFICI-EKLRDTHLCPHCSKLCC 56 (314)
Q Consensus 34 ~C~IC~-~~~~~p~~~~~CgH~FC 56 (314)
-|+-|. .-.+|.+.|++|||.|=
T Consensus 3 fC~kcG~qk~Ed~~qC~qCG~~~t 26 (465)
T COG4640 3 FCPKCGSQKAEDDVQCTQCGHKFT 26 (465)
T ss_pred cccccccccccccccccccCCcCC
Confidence 355555 44555555555555543
No 180
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=35.63 E-value=22 Score=29.90 Aligned_cols=13 Identities=23% Similarity=0.483 Sum_probs=9.9
Q ss_pred cceeccccccccC
Q psy10334 32 VFRCFICIEKLRD 44 (314)
Q Consensus 32 ~~~C~IC~~~~~~ 44 (314)
...|++|.....+
T Consensus 134 ~~vC~vCGy~~~g 146 (166)
T COG1592 134 VWVCPVCGYTHEG 146 (166)
T ss_pred EEEcCCCCCcccC
Confidence 4788888877766
No 181
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=35.32 E-value=26 Score=20.91 Aligned_cols=20 Identities=30% Similarity=0.713 Sum_probs=10.4
Q ss_pred eccccccc----cCccccCCCCCc
Q psy10334 35 CFICIEKL----RDTHLCPHCSKL 54 (314)
Q Consensus 35 C~IC~~~~----~~p~~~~~CgH~ 54 (314)
|.-|...+ .||+.++.|||.
T Consensus 3 C~~Cg~~~~~~~~~~irC~~CG~R 26 (32)
T PF03604_consen 3 CGECGAEVELKPGDPIRCPECGHR 26 (32)
T ss_dssp ESSSSSSE-BSTSSTSSBSSSS-S
T ss_pred CCcCCCeeEcCCCCcEECCcCCCe
Confidence 55555443 355566667764
No 182
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=35.14 E-value=20 Score=36.87 Aligned_cols=50 Identities=24% Similarity=0.634 Sum_probs=37.6
Q ss_pred ccccceeccccccccCcc---------ccCCCCCcc--------------------hHHHHHHHHhcc-------CCccc
Q psy10334 29 LAEVFRCFICIEKLRDTH---------LCPHCSKLC--------------------CLACIRQFLTEE-------RSQCP 72 (314)
Q Consensus 29 ~~~~~~C~IC~~~~~~p~---------~~~~CgH~F--------------------C~~Ci~~~~~~~-------~~~CP 72 (314)
..+...|+-|++.+.||. .|+.||-.| |..|-.++-.-. ...||
T Consensus 98 ~pD~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfHAQp~aCp 177 (750)
T COG0068 98 PPDAATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFHAQPIACP 177 (750)
T ss_pred CCchhhhHHHHHHhcCCCCcceeccccccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCccccccccccccCc
Confidence 356688999999988886 567899887 999999886521 23599
Q ss_pred cccccc
Q psy10334 73 HCRASL 78 (314)
Q Consensus 73 ~Cr~~~ 78 (314)
.|.=.+
T Consensus 178 ~CGP~~ 183 (750)
T COG0068 178 KCGPHL 183 (750)
T ss_pred ccCCCe
Confidence 996433
No 183
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=34.82 E-value=27 Score=30.93 Aligned_cols=57 Identities=21% Similarity=0.260 Sum_probs=43.4
Q ss_pred cceeccccccccCccccCCCCCcchHHHHHHHHhcc-CCcccc--cccccccchhhhhhh
Q psy10334 32 VFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEE-RSQCPH--CRASLHMTDLVNCRW 88 (314)
Q Consensus 32 ~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~-~~~CP~--Cr~~~~~~~~~~~~~ 88 (314)
+.+|||=+.....|+..+.|.|.|=++=|...+... ...||. |.+.....+++....
T Consensus 189 ~nrCpitl~p~~~pils~kcnh~~e~D~I~~~lq~~~trvcp~~~Csq~~~~~~~v~d~I 248 (275)
T COG5627 189 SNRCPITLNPDFYPILSSKCNHKPEMDLINKKLQVECTRVCPRLICSQKEVVDPYVCDHI 248 (275)
T ss_pred cccCCcccCcchhHHHHhhhcccccHHHHHHHhcCCceeecchhhcchheeccchhhhHH
Confidence 488999999999999877999999999999998742 234887 765555555554433
No 184
>KOG1100|consensus
Probab=34.23 E-value=21 Score=31.21 Aligned_cols=39 Identities=28% Similarity=0.550 Sum_probs=26.5
Q ss_pred eccccccccCccccCCCC-CcchHHHHHHHHhccCCcccccccccc
Q psy10334 35 CFICIEKLRDTHLCPHCS-KLCCLACIRQFLTEERSQCPHCRASLH 79 (314)
Q Consensus 35 C~IC~~~~~~p~~~~~Cg-H~FC~~Ci~~~~~~~~~~CP~Cr~~~~ 79 (314)
|-.|.+-=.--+++ +|. |.+|..|=.. ...||.|+.+..
T Consensus 161 Cr~C~~~~~~Vlll-PCrHl~lC~~C~~~-----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGEREATVLLL-PCRHLCLCGICDES-----LRICPICRSPKT 200 (207)
T ss_pred ceecCcCCceEEee-cccceEeccccccc-----CccCCCCcChhh
Confidence 88887765554455 497 5799999322 246999987554
No 185
>smart00336 BBOX B-Box-type zinc finger.
Probab=34.03 E-value=2.3 Score=26.39 Aligned_cols=25 Identities=8% Similarity=-0.126 Sum_probs=19.9
Q ss_pred hhHHHH-HHHHHHHhhcCCcceEEEe
Q psy10334 119 LCLNVK-NLLSELKLKYGLSIKLVWI 143 (314)
Q Consensus 119 ~c~~~~-~~l~~~~~~d~~~i~~~w~ 143 (314)
.|..|. +.+..||.+++..||..|.
T Consensus 5 ~C~~h~~~~~~~~C~~c~~~iC~~C~ 30 (42)
T smart00336 5 KCDSHGDEPAEFFCEECGALLCRTCD 30 (42)
T ss_pred cCCCCCCCceEEECCCCCcccccccC
Confidence 455666 7788899888899999886
No 186
>KOG4185|consensus
Probab=33.79 E-value=7.8 Score=35.53 Aligned_cols=45 Identities=24% Similarity=0.482 Sum_probs=34.6
Q ss_pred ceecccccccc-C-----ccccCC-------CCCcchHHHHHHHHhccCCcccccccc
Q psy10334 33 FRCFICIEKLR-D-----THLCPH-------CSKLCCLACIRQFLTEERSQCPHCRAS 77 (314)
Q Consensus 33 ~~C~IC~~~~~-~-----p~~~~~-------CgH~FC~~Ci~~~~~~~~~~CP~Cr~~ 77 (314)
..|.||...+. + |..+.. |||..|..|+..-+......||.|+..
T Consensus 208 ~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 208 KLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 56999988776 2 445423 999999999999877644679999864
No 187
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=33.40 E-value=21 Score=32.27 Aligned_cols=22 Identities=18% Similarity=0.676 Sum_probs=15.3
Q ss_pred ceecccccccc--C-ccccCCCCCcc
Q psy10334 33 FRCFICIEKLR--D-THLCPHCSKLC 55 (314)
Q Consensus 33 ~~C~IC~~~~~--~-p~~~~~CgH~F 55 (314)
+.||+|...+. + ...| ..||.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C-~~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWIC-PQNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEc-CCCCCC
Confidence 78999999885 2 2345 357777
No 188
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=32.98 E-value=23 Score=19.37 Aligned_cols=8 Identities=25% Similarity=0.663 Sum_probs=3.6
Q ss_pred eccccccc
Q psy10334 35 CFICIEKL 42 (314)
Q Consensus 35 C~IC~~~~ 42 (314)
||-|...+
T Consensus 2 Cp~CG~~~ 9 (23)
T PF13240_consen 2 CPNCGAEI 9 (23)
T ss_pred CcccCCCC
Confidence 44444433
No 189
>KOG1815|consensus
Probab=32.53 E-value=16 Score=35.83 Aligned_cols=31 Identities=23% Similarity=0.521 Sum_probs=23.0
Q ss_pred ccCccccCCCCCcchHHHHHHHHhccCCcccccc
Q psy10334 42 LRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCR 75 (314)
Q Consensus 42 ~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr 75 (314)
...+|.+ .|||.||..|...|-.. ..|+...
T Consensus 176 ~~~~v~C-~~g~~FC~~C~~~~H~p--~~C~~~~ 206 (444)
T KOG1815|consen 176 ESVEVDC-GCGHEFCFACGEESHSP--VSCPGAK 206 (444)
T ss_pred CccceeC-CCCchhHhhccccccCC--CcccchH
Confidence 4457777 59999999998888544 2577664
No 190
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=31.79 E-value=22 Score=36.94 Aligned_cols=32 Identities=25% Similarity=0.551 Sum_probs=24.8
Q ss_pred ceeccccccccC--------ccccCCCCCcchHHHHHHHH
Q psy10334 33 FRCFICIEKLRD--------THLCPHCSKLCCLACIRQFL 64 (314)
Q Consensus 33 ~~C~IC~~~~~~--------p~~~~~CgH~FC~~Ci~~~~ 64 (314)
..|..|...|.- ..=|..||..||..|-....
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnRs 500 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKRA 500 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCccccCccccCCcc
Confidence 569999998842 22367899999999987653
No 191
>KOG0269|consensus
Probab=31.38 E-value=39 Score=35.01 Aligned_cols=49 Identities=18% Similarity=0.470 Sum_probs=35.4
Q ss_pred ceeccccccccC-ccccCCCCCcchHHHHHHHHhccCCcccc--cccccccch
Q psy10334 33 FRCFICIEKLRD-THLCPHCSKLCCLACIRQFLTEERSQCPH--CRASLHMTD 82 (314)
Q Consensus 33 ~~C~IC~~~~~~-p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~--Cr~~~~~~~ 82 (314)
..|.+|..+++. -+.++.|||.=.-+|+..|+.. ...||. |........
T Consensus 780 ~~CtVC~~vi~G~~~~c~~C~H~gH~sh~~sw~~~-~s~ca~~~C~~~c~~~~ 831 (839)
T KOG0269|consen 780 AKCTVCDLVIRGVDVWCQVCGHGGHDSHLKSWFFK-ASPCAKSICPHLCHYSS 831 (839)
T ss_pred cCceeecceeeeeEeecccccccccHHHHHHHHhc-CCCCccccCCccccccc
Confidence 468899877764 3346789999999999999986 455766 655444333
No 192
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=31.25 E-value=28 Score=19.44 Aligned_cols=6 Identities=33% Similarity=0.661 Sum_probs=2.6
Q ss_pred eccccc
Q psy10334 35 CFICIE 40 (314)
Q Consensus 35 C~IC~~ 40 (314)
||-|..
T Consensus 5 Cp~Cg~ 10 (26)
T PF13248_consen 5 CPNCGA 10 (26)
T ss_pred CcccCC
Confidence 444443
No 193
>PRK07708 hypothetical protein; Validated
Probab=31.24 E-value=85 Score=27.60 Aligned_cols=26 Identities=23% Similarity=-0.043 Sum_probs=19.5
Q ss_pred ceEEEecCCCCCCcChhHhHHHhhhcCCCC
Q psy10334 138 IKLVWIPGHMNISGNCAVDLAAKQAQTSPD 167 (314)
Q Consensus 138 i~~~w~p~H~~i~~ne~Ad~~a~~a~~~~~ 167 (314)
+.+.||| ..-|+.||.+|++|.....
T Consensus 185 ~~~~~Vp----R~~N~~AD~LAk~Al~~~~ 210 (219)
T PRK07708 185 PVYEPIS----RKQNKEADQLATQALEGTV 210 (219)
T ss_pred EEEEECC----chhhhHHHHHHHHHHhcCC
Confidence 4556765 3559999999999987543
No 194
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=31.01 E-value=33 Score=37.73 Aligned_cols=48 Identities=29% Similarity=0.700 Sum_probs=31.9
Q ss_pred cceeccccccccCccccCCCCCc-----chHHHHHHHHhcc--CCccccccccccc
Q psy10334 32 VFRCFICIEKLRDTHLCPHCSKL-----CCLACIRQFLTEE--RSQCPHCRASLHM 80 (314)
Q Consensus 32 ~~~C~IC~~~~~~p~~~~~CgH~-----FC~~Ci~~~~~~~--~~~CP~Cr~~~~~ 80 (314)
.+.||-|...... ..|+.||.. +|..|=.+--... ...||.|..++..
T Consensus 667 ~rkCPkCG~~t~~-~fCP~CGs~te~vy~CPsCGaev~~des~a~~CP~CGtplv~ 721 (1337)
T PRK14714 667 RRRCPSCGTETYE-NRCPDCGTHTEPVYVCPDCGAEVPPDESGRVECPRCDVELTP 721 (1337)
T ss_pred EEECCCCCCcccc-ccCcccCCcCCCceeCccCCCccCCCccccccCCCCCCcccc
Confidence 3899999986544 378889965 4998854321110 1269999877653
No 195
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 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 C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=30.73 E-value=21 Score=18.80 Aligned_cols=10 Identities=30% Similarity=0.743 Sum_probs=4.6
Q ss_pred eccccccccC
Q psy10334 35 CFICIEKLRD 44 (314)
Q Consensus 35 C~IC~~~~~~ 44 (314)
|++|...|.+
T Consensus 3 C~~C~~~f~~ 12 (23)
T PF00096_consen 3 CPICGKSFSS 12 (23)
T ss_dssp ETTTTEEESS
T ss_pred CCCCCCccCC
Confidence 4444444443
No 196
>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=30.62 E-value=32 Score=25.87 Aligned_cols=37 Identities=22% Similarity=0.611 Sum_probs=26.2
Q ss_pred cceeccccccccCccccCCCCCcchHHHHHHHHhccCCcccccccccc
Q psy10334 32 VFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLH 79 (314)
Q Consensus 32 ~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~ 79 (314)
.-.|-||..-+..+ ||.||..|-. +...|.+|...+.
T Consensus 44 ~~~C~~CK~~v~q~------g~~YCq~CAY-----kkGiCamCGKki~ 80 (90)
T PF10235_consen 44 SSKCKICKTKVHQP------GAKYCQTCAY-----KKGICAMCGKKIL 80 (90)
T ss_pred CccccccccccccC------CCccChhhhc-----ccCcccccCCeec
Confidence 46799998744432 8999999922 1357999987663
No 197
>KOG2113|consensus
Probab=30.36 E-value=30 Score=31.99 Aligned_cols=43 Identities=7% Similarity=-0.109 Sum_probs=32.3
Q ss_pred cccceeccccccccCccccCCCCCc-chHHHHHHHHhccCCccccccc
Q psy10334 30 AEVFRCFICIEKLRDTHLCPHCSKL-CCLACIRQFLTEERSQCPHCRA 76 (314)
Q Consensus 30 ~~~~~C~IC~~~~~~p~~~~~CgH~-FC~~Ci~~~~~~~~~~CP~Cr~ 76 (314)
-..+.|..|.+.+-..... .|||+ ||.+|-. +.. ...||+|-.
T Consensus 341 ~s~~~~~~~~~~~~st~~~-~~~~n~~~~~~a~--~s~-~~~~~~c~~ 384 (394)
T KOG2113|consen 341 MSSLKGTSAGFGLLSTIWS-GGNMNLSPGSLAS--ASA-SPTSSTCDH 384 (394)
T ss_pred hhhcccccccCceeeeEee-cCCcccChhhhhh--ccc-CCccccccc
Confidence 3458899999888777665 59975 8999977 332 468999954
No 198
>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=30.00 E-value=35 Score=20.27 Aligned_cols=10 Identities=20% Similarity=0.358 Sum_probs=6.3
Q ss_pred eecccccccc
Q psy10334 34 RCFICIEKLR 43 (314)
Q Consensus 34 ~C~IC~~~~~ 43 (314)
.|.+|..++.
T Consensus 3 ~C~~CGy~y~ 12 (33)
T cd00350 3 VCPVCGYIYD 12 (33)
T ss_pred ECCCCCCEEC
Confidence 5777776554
No 199
>KOG2807|consensus
Probab=29.85 E-value=38 Score=31.59 Aligned_cols=61 Identities=26% Similarity=0.559 Sum_probs=35.8
Q ss_pred HHhhhcccchhHHHhcc--ccceeccccccccC-c-cccCCCCCcchHHHHHHHHhccCCcccccc
Q psy10334 14 FLRLFISTTSHVSRALA--EVFRCFICIEKLRD-T-HLCPHCSKLCCLACIRQFLTEERSQCPHCR 75 (314)
Q Consensus 14 ~~~~~~~~~~~~~~~~~--~~~~C~IC~~~~~~-p-~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr 75 (314)
|-.||+-.+-...+..+ .+-.|-.|.+.... + ..+..|.+.||.+|=. +.-+.-..||-|.
T Consensus 310 yhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv-~iHesLh~CpgCe 374 (378)
T KOG2807|consen 310 YHHLFPLKPFVEIPETEYNGSRFCFACQGELLSSGRYRCESCKNVFCLDCDV-FIHESLHNCPGCE 374 (378)
T ss_pred HHhhcCCcchhhccccccCCCcceeeeccccCCCCcEEchhccceeeccchH-HHHhhhhcCCCcC
Confidence 34556554433333222 33459999655543 3 3678899999999933 2222124699995
No 200
>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=29.80 E-value=14 Score=21.26 Aligned_cols=22 Identities=18% Similarity=0.570 Sum_probs=8.9
Q ss_pred CCCCCCCCccccccceecccCcC
Q psy10334 250 MCNDCQVQITIKQFKHILCDCPL 272 (314)
Q Consensus 250 ~C~~Cg~~~~~et~~H~l~~Cp~ 272 (314)
.||.||..+ +...+=+.+.|+.
T Consensus 1 ~CP~C~s~l-~~~~~ev~~~C~N 22 (28)
T PF03119_consen 1 TCPVCGSKL-VREEGEVDIRCPN 22 (28)
T ss_dssp B-TTT--BE-EE-CCTTCEEE--
T ss_pred CcCCCCCEe-EcCCCCEeEECCC
Confidence 489999874 2334444455654
No 201
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=29.60 E-value=32 Score=22.08 Aligned_cols=10 Identities=20% Similarity=0.747 Sum_probs=5.4
Q ss_pred Cccccccccc
Q psy10334 69 SQCPHCRASL 78 (314)
Q Consensus 69 ~~CP~Cr~~~ 78 (314)
-.||.|...+
T Consensus 20 irC~~CG~rI 29 (44)
T smart00659 20 VRCRECGYRI 29 (44)
T ss_pred eECCCCCceE
Confidence 3577665433
No 202
>KOG4642|consensus
Probab=29.46 E-value=50 Score=29.71 Aligned_cols=69 Identities=19% Similarity=0.148 Sum_probs=58.1
Q ss_pred ccccceeccccccccCccccCCCCCcchHHHHHHHHhccCCcccccccccccchhhhhhhhHhhhhhhcc
Q psy10334 29 LAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLVNCRWMEEVTQHLDN 98 (314)
Q Consensus 29 ~~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~ 98 (314)
..+.+.|.|=++++++||..| =|=.|=+.=|.+.+..-...=|+=|.++...++.+|..+.+++..+..
T Consensus 208 vpd~lcgkIt~el~~~pvi~p-sgIty~ra~I~Ehl~rvghfdpvtr~~Lte~q~ipN~alkevIa~fl~ 276 (284)
T KOG4642|consen 208 VPDYLCGKITLELMREPVITP-SGITYDRADIEEHLQRVGHFDPVTRWPLTEYQLIPNLALKEVIAAFLK 276 (284)
T ss_pred ccchhhhhhhHHhhcCCccCc-cccchhHHHHHHHHHHhccCCchhcccCCHHhhccchHHHHHHHHHHH
Confidence 346689999999999999875 799999999999987633457888899999999999999998877753
No 203
>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=28.95 E-value=35 Score=26.45 Aligned_cols=28 Identities=21% Similarity=0.383 Sum_probs=20.0
Q ss_pred CCCCCCCCCCccccccceecccCcCcHHHH
Q psy10334 248 PPMCNDCQVQITIKQFKHILCDCPLYQSFR 277 (314)
Q Consensus 248 ~~~C~~Cg~~~~~et~~H~l~~Cp~~~~~R 277 (314)
.|.||.|+.+.+.|+-..+ -||--..+.
T Consensus 2 lp~CP~C~seytY~dg~~~--iCpeC~~EW 29 (109)
T TIGR00686 2 LPPCPKCNSEYTYHDGTQL--ICPSCLYEW 29 (109)
T ss_pred CCcCCcCCCcceEecCCee--ECccccccc
Confidence 4789999988788777754 488654433
No 204
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=28.85 E-value=32 Score=29.84 Aligned_cols=39 Identities=33% Similarity=0.855 Sum_probs=27.4
Q ss_pred ccceeccccc-----cccC--ccccCCCCCcchHHHHHHHHhccCCcccccc
Q psy10334 31 EVFRCFICIE-----KLRD--THLCPHCSKLCCLACIRQFLTEERSQCPHCR 75 (314)
Q Consensus 31 ~~~~C~IC~~-----~~~~--p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr 75 (314)
.-+.|.||.+ .|.. -+.++.|+-.|.+.|..+ ..||.|.
T Consensus 151 kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~------~~CpkC~ 196 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK------KSCPKCA 196 (202)
T ss_pred CCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC------CCCCCcH
Confidence 3478888874 2222 335788999999999662 3599994
No 205
>PRK10220 hypothetical protein; Provisional
Probab=28.76 E-value=39 Score=26.23 Aligned_cols=25 Identities=24% Similarity=0.491 Sum_probs=18.6
Q ss_pred CCCCCCCCCCccccccceecccCcCcH
Q psy10334 248 PPMCNDCQVQITIKQFKHILCDCPLYQ 274 (314)
Q Consensus 248 ~~~C~~Cg~~~~~et~~H~l~~Cp~~~ 274 (314)
.|.||.|+.+.+.++-.++ -||--.
T Consensus 3 lP~CP~C~seytY~d~~~~--vCpeC~ 27 (111)
T PRK10220 3 LPHCPKCNSEYTYEDNGMY--ICPECA 27 (111)
T ss_pred CCcCCCCCCcceEcCCCeE--ECCccc
Confidence 4789999988788777764 488544
No 206
>KOG2169|consensus
Probab=28.76 E-value=50 Score=34.00 Aligned_cols=64 Identities=14% Similarity=0.356 Sum_probs=44.4
Q ss_pred ccceeccccccccCccccCCCCCcchHHHHHHHHhc---cC--CcccccccccccchhhhhhhhHhhhhhh
Q psy10334 31 EVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTE---ER--SQCPHCRASLHMTDLVNCRWMEEVTQHL 96 (314)
Q Consensus 31 ~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~---~~--~~CP~Cr~~~~~~~~~~~~~~~~~~~~~ 96 (314)
-.+.|+|+.--+.-|...-.|+|.=|.+=. |+.+ +. ..||+|.+....+.+.....+.++....
T Consensus 305 vSL~CPl~~~Rm~~P~r~~~CkHlQcFD~~--~~lq~n~~~pTW~CPVC~~~~~~e~l~iD~~~~~iL~~~ 373 (636)
T KOG2169|consen 305 VSLNCPLSKMRMSLPARGHTCKHLQCFDAL--SYLQMNEQKPTWRCPVCQKAAPFEGLIIDGYFLNILQSC 373 (636)
T ss_pred eEecCCcccceeecCCcccccccceecchh--hhHHhccCCCeeeCccCCccccccchhhhHHHHHHHhhc
Confidence 458999999988888765468888776643 3322 12 3599999988888877666555554433
No 207
>KOG2068|consensus
Probab=28.58 E-value=39 Score=31.53 Aligned_cols=45 Identities=36% Similarity=0.832 Sum_probs=32.7
Q ss_pred ceeccccccc--cC-cc-ccCCCCCcchHHHHHHHHhccCCcccccccccc
Q psy10334 33 FRCFICIEKL--RD-TH-LCPHCSKLCCLACIRQFLTEERSQCPHCRASLH 79 (314)
Q Consensus 33 ~~C~IC~~~~--~~-p~-~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~ 79 (314)
-.||||.+.. .| +. -+| ||+.-|..|...-... ...||.||++..
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~-~~~~~~l~~~~t~~~~-~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCP-CGFRLCLFCHKTISDG-DGRCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCccccccccccccc-ccccchhhhhhccccc-CCCCCccCCccc
Confidence 6799999866 22 22 244 8999888888877665 468999996554
No 208
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=28.32 E-value=19 Score=21.24 Aligned_cols=21 Identities=33% Similarity=0.577 Sum_probs=6.9
Q ss_pred CCCCCCCCCccccccceecccCc
Q psy10334 249 PMCNDCQVQITIKQFKHILCDCP 271 (314)
Q Consensus 249 ~~C~~Cg~~~~~et~~H~l~~Cp 271 (314)
|.|+.||.+.+. .+..++-||
T Consensus 3 p~Cp~C~se~~y--~D~~~~vCp 23 (30)
T PF08274_consen 3 PKCPLCGSEYTY--EDGELLVCP 23 (30)
T ss_dssp ---TTT-----E--E-SSSEEET
T ss_pred CCCCCCCCccee--ccCCEEeCC
Confidence 678889887544 333444566
No 209
>KOG3362|consensus
Probab=28.23 E-value=20 Score=29.25 Aligned_cols=29 Identities=21% Similarity=0.630 Sum_probs=19.5
Q ss_pred ceeccccccccCccccCCCCCcchH-HHHHHH
Q psy10334 33 FRCFICIEKLRDTHLCPHCSKLCCL-ACIRQF 63 (314)
Q Consensus 33 ~~C~IC~~~~~~p~~~~~CgH~FC~-~Ci~~~ 63 (314)
-.|.||. +-.+..+..||-.||. .|....
T Consensus 119 ~fCaVCG--~~S~ysC~~CG~kyCsv~C~~~H 148 (156)
T KOG3362|consen 119 KFCAVCG--YDSKYSCVNCGTKYCSVRCLKTH 148 (156)
T ss_pred hhhhhcC--CCchhHHHhcCCceeechhhhhc
Confidence 5699999 3445566679988885 454433
No 210
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=28.06 E-value=24 Score=33.35 Aligned_cols=31 Identities=26% Similarity=0.601 Sum_probs=22.8
Q ss_pred cccceeccccc-cccCccccCCCCCcchHHHHH
Q psy10334 30 AEVFRCFICIE-KLRDTHLCPHCSKLCCLACIR 61 (314)
Q Consensus 30 ~~~~~C~IC~~-~~~~p~~~~~CgH~FC~~Ci~ 61 (314)
.....|.=|.. -...-..+| ||..||+.||.
T Consensus 37 ~gk~~C~RC~~~~~~~~~~lp-~~~~YCr~Cl~ 68 (441)
T COG4098 37 NGKYRCNRCGNTHIELFAKLP-CGCLYCRNCLM 68 (441)
T ss_pred cCcEEehhcCCcchhhhcccc-cceEeehhhhh
Confidence 34578999984 333344565 99999999986
No 211
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=26.97 E-value=15 Score=34.17 Aligned_cols=44 Identities=20% Similarity=0.438 Sum_probs=29.9
Q ss_pred cceeccccccccCccccC---CCC--CcchHHHHHHHHhccCCccccccc
Q psy10334 32 VFRCFICIEKLRDTHLCP---HCS--KLCCLACIRQFLTEERSQCPHCRA 76 (314)
Q Consensus 32 ~~~C~IC~~~~~~p~~~~---~Cg--H~FC~~Ci~~~~~~~~~~CP~Cr~ 76 (314)
.-.||||...-.--++.. .=| +.+|.-|=.+|--. ...||.|..
T Consensus 184 ~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~-R~~C~~Cg~ 232 (305)
T TIGR01562 184 RTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYV-RVKCSHCEE 232 (305)
T ss_pred CCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCccccc-CccCCCCCC
Confidence 458999997543222211 123 78899999999655 468999975
No 212
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=26.48 E-value=53 Score=34.43 Aligned_cols=52 Identities=19% Similarity=0.510 Sum_probs=34.6
Q ss_pred cccceeccccc-cc-cCccccCCCC-----CcchHHHHHHHHhcc-CCcccccccccccch
Q psy10334 30 AEVFRCFICIE-KL-RDTHLCPHCS-----KLCCLACIRQFLTEE-RSQCPHCRASLHMTD 82 (314)
Q Consensus 30 ~~~~~C~IC~~-~~-~~p~~~~~Cg-----H~FC~~Ci~~~~~~~-~~~CP~Cr~~~~~~~ 82 (314)
++...|-||.. -. .||.-- +|. .--.++|+.+|+... ...|-.|..++.-++
T Consensus 10 ~d~~~CRICr~e~~~d~pLfh-PCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~ 69 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLFH-PCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD 69 (1175)
T ss_pred ccchhceeecCCCCCCCcCcc-cccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence 45688999973 22 346532 353 236889999999863 356999997765333
No 213
>PF02148 zf-UBP: Zn-finger in ubiquitin-hydrolases and other protein; InterPro: IPR001607 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents UBP-type zinc finger domains, which display some similarity with the Zn-binding domain of the insulinase family. The UBP-type zinc finger domain is found only in a small subfamily of ubiquitin C-terminal hydrolases (deubiquitinases or UBP) [, ], All members of this subfamily are isopeptidase-T, which are known to cleave isopeptide bonds between ubiquitin moieties. Some of the proteins containing an UBP zinc finger include: Homo sapiens (Human) deubiquitinating enzyme 13 (UBPD) Human deubiquitinating enzyme 5 (UBP5) Dictyostelium discoideum (Slime mold) deubiquitinating enzyme A (UBPA) Saccharomyces cerevisiae (Baker's yeast) deubiquitinating enzyme 8 (UBP8) Yeast deubiquitinating enzyme 14 (UBP14) More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3GV4_A 3PHD_B 3C5K_A 2UZG_A 3IHP_B 2G43_B 2G45_D 2I50_A 3MHH_A 3MHS_A ....
Probab=26.32 E-value=35 Score=23.45 Aligned_cols=32 Identities=22% Similarity=0.478 Sum_probs=20.7
Q ss_pred eccccccccCccccCCCCCcchHH----HHHHHHhc
Q psy10334 35 CFICIEKLRDTHLCPHCSKLCCLA----CIRQFLTE 66 (314)
Q Consensus 35 C~IC~~~~~~p~~~~~CgH~FC~~----Ci~~~~~~ 66 (314)
|..|...-.+..++..||+.+|.+ .+...+++
T Consensus 1 C~~C~~~~~~lw~CL~Cg~~~C~~~~~~Ha~~H~~~ 36 (63)
T PF02148_consen 1 CSVCGSTNSNLWLCLTCGYVGCGRYSNGHALKHYKE 36 (63)
T ss_dssp -SSSHTCSSSEEEETTTS-EEETTTSTSHHHHHHHH
T ss_pred CCCCCCcCCceEEeCCCCcccccCCcCcHHHHhhcc
Confidence 667775534555656799999996 77766654
No 214
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=25.68 E-value=32 Score=20.59 Aligned_cols=17 Identities=35% Similarity=0.989 Sum_probs=14.7
Q ss_pred CCCCCCCCccccccceecccCcC
Q psy10334 250 MCNDCQVQITIKQFKHILCDCPL 272 (314)
Q Consensus 250 ~C~~Cg~~~~~et~~H~l~~Cp~ 272 (314)
.|..|+.. .|++-+||.
T Consensus 10 ~C~~C~~~------GH~i~dCP~ 26 (32)
T PF13696_consen 10 VCHRCGQK------GHWIQDCPT 26 (32)
T ss_pred EeecCCCC------CccHhHCCC
Confidence 68889884 899999997
No 215
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=25.23 E-value=43 Score=23.03 Aligned_cols=39 Identities=31% Similarity=0.893 Sum_probs=19.7
Q ss_pred eecccccccc--C-cc--ccCCCCCc---chHHHHHHHHhccCCcccccc
Q psy10334 34 RCFICIEKLR--D-TH--LCPHCSKL---CCLACIRQFLTEERSQCPHCR 75 (314)
Q Consensus 34 ~C~IC~~~~~--~-p~--~~~~CgH~---FC~~Ci~~~~~~~~~~CP~Cr 75 (314)
.|.-|.-.+. + .+ .+|.||.. =|..|-+.- . ...||.|.
T Consensus 9 ~CtSCg~~i~~~~~~~~F~CPnCG~~~I~RC~~CRk~~--~-~Y~CP~CG 55 (59)
T PRK14890 9 KCTSCGIEIAPREKAVKFLCPNCGEVIIYRCEKCRKQS--N-PYTCPKCG 55 (59)
T ss_pred cccCCCCcccCCCccCEeeCCCCCCeeEeechhHHhcC--C-ceECCCCC
Confidence 4556654443 1 11 24666654 366663222 1 35699884
No 216
>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=24.83 E-value=52 Score=25.73 Aligned_cols=13 Identities=31% Similarity=0.935 Sum_probs=10.2
Q ss_pred Ccccccccccccc
Q psy10334 69 SQCPHCRASLHMT 81 (314)
Q Consensus 69 ~~CP~Cr~~~~~~ 81 (314)
..|+.|++|+...
T Consensus 86 D~CM~C~~pLTLd 98 (114)
T PF11023_consen 86 DACMHCKEPLTLD 98 (114)
T ss_pred hccCcCCCcCccC
Confidence 4799999988743
No 217
>TIGR03847 conserved hypothetical protein. The conserved hypothetical protein described here occurs as part of the trio of uncharacterized proteins common in the Actinobacteria.
Probab=24.28 E-value=48 Score=28.03 Aligned_cols=23 Identities=35% Similarity=0.610 Sum_probs=17.1
Q ss_pred CCCCCCCCCCCCccccccceecccCcCc
Q psy10334 246 QEPPMCNDCQVQITIKQFKHILCDCPLY 273 (314)
Q Consensus 246 ~~~~~C~~Cg~~~~~et~~H~l~~Cp~~ 273 (314)
...|.||.||.++ +.-.|+ ||+-
T Consensus 154 AGRP~CPlCg~Pl--dP~GH~---Cpr~ 176 (177)
T TIGR03847 154 AGRPPCPLCGRPI--DPDGHI---CPRQ 176 (177)
T ss_pred CCCCCCCCCCCCC--CCCCcc---CCCC
Confidence 3589999999996 344775 8863
No 218
>PF13834 DUF4193: Domain of unknown function (DUF4193)
Probab=24.24 E-value=29 Score=26.50 Aligned_cols=30 Identities=23% Similarity=0.516 Sum_probs=21.6
Q ss_pred cccceeccccccccCcccc-CCCCCcchHHH
Q psy10334 30 AEVFRCFICIEKLRDTHLC-PHCSKLCCLAC 59 (314)
Q Consensus 30 ~~~~~C~IC~~~~~~p~~~-~~CgH~FC~~C 59 (314)
.++|+|+-|+-+-..-... ..=|+.+|..|
T Consensus 68 ~DEFTCssCFLV~HRSqLa~~~~g~~iC~DC 98 (99)
T PF13834_consen 68 ADEFTCSSCFLVHHRSQLAREKDGQPICRDC 98 (99)
T ss_pred CCceeeeeeeeEechhhhccccCCCEecccc
Confidence 5789999999877654322 12389999988
No 219
>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=24.20 E-value=49 Score=20.20 Aligned_cols=13 Identities=23% Similarity=0.480 Sum_probs=8.1
Q ss_pred cceeccccccccC
Q psy10334 32 VFRCFICIEKLRD 44 (314)
Q Consensus 32 ~~~C~IC~~~~~~ 44 (314)
++.|+-|...|..
T Consensus 5 ~y~C~~Cg~~fe~ 17 (41)
T smart00834 5 EYRCEDCGHTFEV 17 (41)
T ss_pred EEEcCCCCCEEEE
Confidence 4567777766653
No 220
>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=24.19 E-value=42 Score=27.85 Aligned_cols=26 Identities=23% Similarity=0.651 Sum_probs=19.7
Q ss_pred CCcchHHHHHHHHhccCCcccccccccccc
Q psy10334 52 SKLCCLACIRQFLTEERSQCPHCRASLHMT 81 (314)
Q Consensus 52 gH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~ 81 (314)
-+.||..|=.+-.. .||.|..++...
T Consensus 27 ~~~fC~kCG~~tI~----~Cp~C~~~IrG~ 52 (158)
T PF10083_consen 27 REKFCSKCGAKTIT----SCPNCSTPIRGD 52 (158)
T ss_pred HHHHHHHhhHHHHH----HCcCCCCCCCCc
Confidence 37899999776653 599998877644
No 221
>PF08882 Acetone_carb_G: Acetone carboxylase gamma subunit; InterPro: IPR014979 Acetone carboxylase is the key enzyme of bacterial acetone metabolism, catalysing the condensation of acetone and CO2 to form acetoacetate [] according to the following reaction: CH3COCH3 + CO2 + ATP = CH3COCH2COO- + AMP + 2P(i) + H+ It has the subunit composition: (alpha(2)beta(2)gamma(2) multimers of 85kDa, 78kDa, and 20kDa subunits). It is expressed to high levels (17 to 25% of soluble protein) in cells grown with acetone as the carbon source but are not present at detectable levels in cells grown with other carbon sources []. Acetone carboxylase may enable Helicobacter pylori to survive off acetone in the stomach of humans and other mammals where it is the etiological agent of peptic ulcer disease []. This entry represents the family of gamma subunit-related acetone carboxylase proteins.
Probab=23.94 E-value=32 Score=26.82 Aligned_cols=13 Identities=31% Similarity=0.682 Sum_probs=9.6
Q ss_pred ccccCCCCCcchHH
Q psy10334 45 THLCPHCSKLCCLA 58 (314)
Q Consensus 45 p~~~~~CgH~FC~~ 58 (314)
-+.+ .|||-||-.
T Consensus 24 ~vkc-~CGh~f~d~ 36 (112)
T PF08882_consen 24 VVKC-DCGHEFCDA 36 (112)
T ss_pred eeec-cCCCeecCh
Confidence 4456 699999963
No 222
>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=23.41 E-value=42 Score=19.73 Aligned_cols=36 Identities=22% Similarity=0.507 Sum_probs=20.5
Q ss_pred eeccccccccCc-cccCCCCCcchHHHHHHHHhccCCccccccccc
Q psy10334 34 RCFICIEKLRDT-HLCPHCSKLCCLACIRQFLTEERSQCPHCRASL 78 (314)
Q Consensus 34 ~C~IC~~~~~~p-~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~ 78 (314)
.|..|.+.+.+. ..+..=|..|...| ..|..|..++
T Consensus 1 ~C~~C~~~i~~~~~~~~~~~~~~H~~C---------f~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGELVLRALGKVWHPEC---------FKCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCcEEEEeCCccccccC---------CCCcccCCcC
Confidence 377788777663 22211256666655 4577776554
No 223
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=23.19 E-value=47 Score=21.22 Aligned_cols=7 Identities=29% Similarity=1.004 Sum_probs=3.4
Q ss_pred CCCCCCC
Q psy10334 251 CNDCQVQ 257 (314)
Q Consensus 251 C~~Cg~~ 257 (314)
|+.||..
T Consensus 6 C~~CG~~ 12 (46)
T PRK00398 6 CARCGRE 12 (46)
T ss_pred CCCCCCE
Confidence 4455544
No 224
>KOG1356|consensus
Probab=23.14 E-value=30 Score=36.24 Aligned_cols=33 Identities=30% Similarity=0.659 Sum_probs=27.6
Q ss_pred cceeccccccccC-ccccCCCCCcchHHHHHHHH
Q psy10334 32 VFRCFICIEKLRD-THLCPHCSKLCCLACIRQFL 64 (314)
Q Consensus 32 ~~~C~IC~~~~~~-p~~~~~CgH~FC~~Ci~~~~ 64 (314)
.-.|..|.--+.+ -..|+.||+.||-.|+..|.
T Consensus 229 ~~mC~~C~~tlfn~hw~C~~C~~~~Cl~C~r~~~ 262 (889)
T KOG1356|consen 229 REMCDRCETTLFNIHWRCPRCGFGVCLDCYRKWY 262 (889)
T ss_pred chhhhhhcccccceeEEccccCCeeeecchhhcc
Confidence 4679999876665 55788999999999999995
No 225
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=22.94 E-value=33 Score=17.69 Aligned_cols=8 Identities=50% Similarity=1.298 Sum_probs=2.7
Q ss_pred cccccccc
Q psy10334 71 CPHCRASL 78 (314)
Q Consensus 71 CP~Cr~~~ 78 (314)
||.|...+
T Consensus 3 C~~C~~~~ 10 (24)
T PF13894_consen 3 CPICGKSF 10 (24)
T ss_dssp -SSTS-EE
T ss_pred CcCCCCcC
Confidence 44444443
No 226
>KOG3799|consensus
Probab=22.18 E-value=35 Score=27.54 Aligned_cols=25 Identities=28% Similarity=0.712 Sum_probs=15.8
Q ss_pred ccccceecccccc-ccCccccCCCCCcchHHH
Q psy10334 29 LAEVFRCFICIEK-LRDTHLCPHCSKLCCLAC 59 (314)
Q Consensus 29 ~~~~~~C~IC~~~-~~~p~~~~~CgH~FC~~C 59 (314)
..++.+|.||+.. |-| .|||+ |..|
T Consensus 62 v~ddatC~IC~KTKFAD-----G~GH~-C~YC 87 (169)
T KOG3799|consen 62 VGDDATCGICHKTKFAD-----GCGHN-CSYC 87 (169)
T ss_pred cCcCcchhhhhhccccc-----ccCcc-cchh
Confidence 3678999999863 333 46664 3444
No 227
>PF15616 TerY-C: TerY-C metal binding domain
Probab=21.68 E-value=44 Score=26.97 Aligned_cols=43 Identities=28% Similarity=0.594 Sum_probs=30.2
Q ss_pred ccccceeccccccccCccccCCCCCcchHHHHHHHHhccCCcccccccccc
Q psy10334 29 LAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLH 79 (314)
Q Consensus 29 ~~~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~ 79 (314)
+...-.||-|...+--. ++ .||+.||..= .+...||-|.....
T Consensus 74 L~g~PgCP~CGn~~~fa-~C-~CGkl~Ci~g------~~~~~CPwCg~~g~ 116 (131)
T PF15616_consen 74 LIGAPGCPHCGNQYAFA-VC-GCGKLFCIDG------EGEVTCPWCGNEGS 116 (131)
T ss_pred hcCCCCCCCCcChhcEE-Ee-cCCCEEEeCC------CCCEECCCCCCeee
Confidence 34457899999876655 46 6999999641 12357999987554
No 228
>PF00325 Crp: Bacterial regulatory proteins, crp family; InterPro: IPR001808 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. This family groups together a range of proteins, including anr, crp, clp, cysR, fixK, flp, fnr, fnrN, hlyX and ntcA [, ]. Within this family, the HTH motif is situated towards the C terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2OZ6_A 1CGP_B 2GZW_C 1O3T_B 3ROU_A 2CGP_A 3RDI_A 1I5Z_A 3IYD_H 3FWE_B ....
Probab=20.57 E-value=1.5e+02 Score=17.67 Aligned_cols=28 Identities=11% Similarity=0.250 Sum_probs=22.3
Q ss_pred hhhHHhhcCCChHHHHHHHHHHHHhccc
Q psy10334 284 ELTLSSLLRDDSTQIYKVMRFLRQTKLF 311 (314)
Q Consensus 284 ~~~~~~lL~~~~~~~~~~~~F~~~T~~~ 311 (314)
..++..+||...+.+..+++-+.+.|++
T Consensus 5 r~diA~~lG~t~ETVSR~l~~l~~~glI 32 (32)
T PF00325_consen 5 RQDIADYLGLTRETVSRILKKLERQGLI 32 (32)
T ss_dssp HHHHHHHHTS-HHHHHHHHHHHHHTTSE
T ss_pred HHHHHHHhCCcHHHHHHHHHHHHHcCCC
Confidence 3478888987788999999999988874
No 229
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=20.29 E-value=72 Score=24.24 Aligned_cols=12 Identities=25% Similarity=0.910 Sum_probs=9.5
Q ss_pred Cccccccccccc
Q psy10334 69 SQCPHCRASLHM 80 (314)
Q Consensus 69 ~~CP~Cr~~~~~ 80 (314)
..||.|+.+|++
T Consensus 81 ~~Cp~C~spFNp 92 (105)
T COG4357 81 GSCPYCQSPFNP 92 (105)
T ss_pred CCCCCcCCCCCc
Confidence 469999988865
No 230
>PF05741 zf-nanos: Nanos RNA binding domain; InterPro: IPR024161 Nanos is a highly conserved RNA-binding protein in higher eukaryotes and functions as a key regulatory protein in translational control using a 3' untranslated region during the development and maintenance of germ cells. Nanos comprises a non-conserved amino-terminus and highly conserved carboxy- terminal regions. The C-terminal region has two conserved Cys-Cys-His-Cys (CCHC)-type zinc-finger motifs that are indispensable for nanos function [, , ]. The structure of the nanos-type zinc finger is composed of two independent zinc-finger (ZF) lobes, the N-terminal ZF1 and the C-terminal ZF2, which are connected by a linker helix []. These lobes create a large cleft. Zinc ions in ZF1 and ZF2 are bound to the CCHC motif by tetrahedral coordination.; PDB: 3ALR_B.
Probab=20.18 E-value=53 Score=22.27 Aligned_cols=20 Identities=25% Similarity=0.582 Sum_probs=8.8
Q ss_pred CCCCCCCCccccccceecccCcC
Q psy10334 250 MCNDCQVQITIKQFKHILCDCPL 272 (314)
Q Consensus 250 ~C~~Cg~~~~~et~~H~l~~Cp~ 272 (314)
.|+.||+. -+..|....||.
T Consensus 35 ~Cp~CgAt---Gd~AHT~~yCP~ 54 (55)
T PF05741_consen 35 VCPICGAT---GDNAHTIKYCPK 54 (55)
T ss_dssp --TTT------GGG---GGG-TT
T ss_pred cCCCCcCc---CccccccccCcC
Confidence 79999995 356899999996
Done!