Query psy7337
Match_columns 233
No_of_seqs 155 out of 495
Neff 5.7
Searched_HMMs 46136
Date Sat Aug 17 00:11:23 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7337.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7337hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2034|consensus 100.0 1.6E-38 3.5E-43 314.8 10.6 163 2-164 732-903 (911)
2 PF10367 Vps39_2: Vacuolar sor 99.8 2.2E-20 4.7E-25 143.6 9.6 107 11-117 1-108 (109)
3 KOG2114|consensus 99.7 8.8E-17 1.9E-21 160.0 9.7 113 5-119 757-871 (933)
4 KOG2066|consensus 99.3 1E-11 2.2E-16 123.6 7.6 118 3-120 673-822 (846)
5 PHA02929 N1R/p28-like protein; 98.6 5.6E-08 1.2E-12 86.4 5.3 57 85-161 172-234 (238)
6 PF13639 zf-RING_2: Ring finge 98.6 1.4E-08 3E-13 67.0 1.1 33 88-120 1-34 (44)
7 PF12678 zf-rbx1: RING-H2 zinc 98.4 1.7E-07 3.7E-12 68.8 2.5 33 88-120 20-63 (73)
8 cd00162 RING RING-finger (Real 98.1 2.4E-06 5.1E-11 54.4 2.6 31 89-120 1-31 (45)
9 PF13923 zf-C3HC4_2: Zinc fing 98.0 2.9E-06 6.3E-11 54.6 1.7 30 90-120 1-30 (39)
10 PF12861 zf-Apc11: Anaphase-pr 97.9 5.4E-06 1.2E-10 62.9 1.9 46 89-151 34-79 (85)
11 KOG4628|consensus 97.9 1.8E-05 3.9E-10 73.9 5.7 48 89-155 231-279 (348)
12 PF00097 zf-C3HC4: Zinc finger 97.8 9.3E-06 2E-10 52.3 1.8 30 90-120 1-30 (41)
13 smart00184 RING Ring finger. E 97.8 1.8E-05 3.8E-10 48.6 2.5 29 90-120 1-29 (39)
14 PF14634 zf-RING_5: zinc-RING 97.6 3.6E-05 7.8E-10 50.9 2.5 32 89-120 1-33 (44)
15 COG5540 RING-finger-containing 97.5 2.9E-05 6.3E-10 71.2 1.4 47 87-152 323-370 (374)
16 KOG1734|consensus 97.5 3.6E-05 7.9E-10 69.6 1.8 57 86-162 223-291 (328)
17 smart00504 Ubox Modified RING 97.5 6.4E-05 1.4E-09 52.3 2.7 42 89-152 3-44 (63)
18 COG5243 HRD1 HRD ubiquitin lig 97.4 0.00033 7.1E-09 66.0 6.7 49 86-154 286-345 (491)
19 PF13920 zf-C3HC4_3: Zinc fing 97.4 6.6E-05 1.4E-09 50.7 1.3 43 88-152 3-46 (50)
20 KOG0317|consensus 97.2 0.00014 2.9E-09 66.3 1.2 51 79-151 231-281 (293)
21 PLN03208 E3 ubiquitin-protein 97.0 0.00043 9.4E-09 59.9 2.9 73 85-166 16-91 (193)
22 KOG0978|consensus 97.0 0.00077 1.7E-08 68.0 5.0 43 88-151 644-686 (698)
23 PF14835 zf-RING_6: zf-RING of 97.0 0.00031 6.7E-09 50.7 1.5 44 87-153 7-50 (65)
24 PHA02926 zinc finger-like prot 96.9 0.00027 5.8E-09 62.5 0.8 64 85-162 168-238 (242)
25 KOG0802|consensus 96.9 0.0003 6.5E-09 69.2 1.2 45 87-151 291-338 (543)
26 TIGR00570 cdk7 CDK-activating 96.9 0.00058 1.3E-08 63.0 2.5 64 87-169 3-69 (309)
27 KOG0320|consensus 96.8 0.0004 8.6E-09 59.4 0.4 44 88-151 132-175 (187)
28 TIGR00599 rad18 DNA repair pro 96.7 0.00075 1.6E-08 64.3 1.6 47 84-152 23-69 (397)
29 KOG1493|consensus 96.6 0.00026 5.7E-09 52.8 -1.5 33 88-120 32-64 (84)
30 PF11793 FANCL_C: FANCL C-term 96.6 0.00025 5.4E-09 51.7 -1.7 57 88-153 3-65 (70)
31 KOG1941|consensus 96.6 0.00085 1.8E-08 63.6 1.2 57 88-163 366-425 (518)
32 PF15227 zf-C3HC4_4: zinc fing 96.6 0.0013 2.9E-08 43.2 1.7 29 90-120 1-29 (42)
33 KOG2930|consensus 96.5 0.0011 2.4E-08 52.1 1.3 33 88-120 47-94 (114)
34 smart00744 RINGv The RING-vari 96.5 0.0021 4.6E-08 43.7 2.4 31 90-120 2-37 (49)
35 KOG2063|consensus 96.4 0.0085 1.9E-07 62.1 7.2 113 7-119 753-866 (877)
36 KOG0828|consensus 96.2 0.0012 2.7E-08 64.1 0.2 50 84-152 568-632 (636)
37 COG5194 APC11 Component of SCF 96.1 0.0036 7.8E-08 47.2 2.3 44 88-151 21-78 (88)
38 KOG0804|consensus 96.1 0.0031 6.6E-08 60.7 2.1 33 88-120 176-210 (493)
39 KOG0827|consensus 96.0 0.0017 3.8E-08 61.4 0.1 33 87-120 4-39 (465)
40 KOG4445|consensus 95.8 0.0044 9.5E-08 57.1 1.5 35 86-120 114-149 (368)
41 KOG0823|consensus 95.6 0.0057 1.2E-07 54.2 1.4 60 88-166 48-107 (230)
42 KOG2164|consensus 95.1 0.01 2.2E-07 58.0 1.7 50 87-153 186-235 (513)
43 PF13445 zf-RING_UBOX: RING-ty 95.0 0.015 3.3E-07 38.6 1.8 30 90-120 1-32 (43)
44 KOG2879|consensus 94.7 0.018 4E-07 52.4 2.1 50 85-153 237-286 (298)
45 KOG4739|consensus 94.7 0.014 3.1E-07 51.9 1.3 42 89-152 5-46 (233)
46 KOG2177|consensus 94.5 0.018 3.9E-07 48.9 1.4 43 87-151 13-55 (386)
47 PF04564 U-box: U-box domain; 94.1 0.026 5.7E-07 41.0 1.4 45 87-152 4-48 (73)
48 COG5219 Uncharacterized conser 94.0 0.015 3.3E-07 60.5 0.1 51 83-151 1465-1520(1525)
49 KOG3268|consensus 94.0 0.017 3.7E-07 49.8 0.3 40 105-153 188-227 (234)
50 COG5574 PEX10 RING-finger-cont 93.6 0.027 5.7E-07 51.0 0.9 34 85-120 213-247 (271)
51 KOG3970|consensus 93.6 0.034 7.3E-07 49.6 1.4 46 71-120 38-83 (299)
52 PF11789 zf-Nse: Zinc-finger o 93.4 0.037 8.1E-07 38.8 1.2 33 87-120 11-43 (57)
53 PHA02862 5L protein; Provision 93.4 0.017 3.7E-07 48.1 -0.6 55 87-162 2-62 (156)
54 PF04641 Rtf2: Rtf2 RING-finge 93.3 0.066 1.4E-06 48.0 2.9 46 88-154 114-161 (260)
55 KOG2079|consensus 93.2 0.29 6.3E-06 51.8 7.6 86 33-119 1079-1167(1206)
56 PF14446 Prok-RING_1: Prokaryo 92.3 0.11 2.4E-06 36.3 2.2 33 87-119 5-39 (54)
57 PF14447 Prok-RING_4: Prokaryo 91.1 0.13 2.9E-06 36.1 1.6 43 85-151 5-47 (55)
58 COG5152 Uncharacterized conser 91.0 0.07 1.5E-06 46.8 0.2 43 89-153 198-240 (259)
59 KOG0269|consensus 91.0 0.41 8.9E-06 49.0 5.6 33 88-120 780-812 (839)
60 KOG1039|consensus 90.6 0.12 2.6E-06 48.6 1.2 56 85-153 159-220 (344)
61 COG5432 RAD18 RING-finger-cont 90.4 0.14 2.9E-06 47.4 1.5 33 86-120 24-56 (391)
62 KOG1645|consensus 90.2 0.17 3.7E-06 48.5 2.0 56 87-160 4-62 (463)
63 KOG2932|consensus 89.2 0.19 4.1E-06 46.8 1.4 43 89-154 92-134 (389)
64 KOG1785|consensus 88.5 0.21 4.7E-06 47.9 1.3 65 88-172 370-437 (563)
65 KOG4159|consensus 88.2 0.34 7.4E-06 46.4 2.4 47 85-153 82-128 (398)
66 KOG0287|consensus 87.5 0.3 6.4E-06 46.1 1.5 32 87-120 23-54 (442)
67 smart00132 LIM Zinc-binding do 87.2 0.35 7.5E-06 29.6 1.3 28 89-116 1-28 (39)
68 KOG1428|consensus 85.8 0.24 5.1E-06 54.3 -0.1 63 85-162 3484-3552(3738)
69 KOG4275|consensus 85.4 0.48 1E-05 43.8 1.7 46 87-158 300-346 (350)
70 PF09943 DUF2175: Uncharacteri 85.3 0.46 9.9E-06 37.3 1.3 32 89-120 4-35 (101)
71 KOG4692|consensus 84.4 1.2 2.5E-05 42.4 3.8 82 64-172 399-480 (489)
72 KOG1814|consensus 84.3 0.43 9.3E-06 45.9 1.0 33 88-120 185-218 (445)
73 PF05883 Baculo_RING: Baculovi 84.1 0.49 1.1E-05 38.9 1.1 32 88-119 27-65 (134)
74 PF00412 LIM: LIM domain; Int 84.0 0.5 1.1E-05 31.9 1.0 27 90-116 1-27 (58)
75 PF13901 DUF4206: Domain of un 83.7 3.4 7.3E-05 35.8 6.2 31 88-118 153-189 (202)
76 KOG0825|consensus 83.3 0.34 7.3E-06 50.0 -0.2 47 88-155 124-172 (1134)
77 KOG1813|consensus 83.2 0.47 1E-05 43.8 0.7 44 88-153 242-285 (313)
78 KOG0309|consensus 82.4 0.45 9.8E-06 49.0 0.3 32 89-120 1030-1061(1081)
79 KOG4265|consensus 81.2 1 2.3E-05 42.4 2.2 51 87-159 290-341 (349)
80 KOG2660|consensus 80.8 0.42 9.2E-06 44.6 -0.5 46 85-151 13-58 (331)
81 PHA02825 LAP/PHD finger-like p 79.9 0.6 1.3E-05 39.5 0.2 55 87-162 8-68 (162)
82 COG1579 Zn-ribbon protein, pos 79.7 5.6 0.00012 35.7 6.3 12 144-155 222-233 (239)
83 KOG1002|consensus 79.6 1.1 2.4E-05 44.6 1.9 31 88-120 537-567 (791)
84 PF02318 FYVE_2: FYVE-type zin 79.1 6.4 0.00014 31.1 5.9 33 86-118 53-88 (118)
85 PF04363 DUF496: Protein of un 79.1 7.2 0.00016 30.0 5.7 64 13-76 27-92 (95)
86 COG4847 Uncharacterized protei 78.3 1.1 2.5E-05 34.8 1.2 33 88-120 7-39 (103)
87 PF09723 Zn-ribbon_8: Zinc rib 77.8 0.82 1.8E-05 29.9 0.3 9 143-151 26-34 (42)
88 smart00249 PHD PHD zinc finger 77.5 1.5 3.2E-05 27.5 1.4 31 89-119 1-32 (47)
89 PF07649 C1_3: C1-like domain; 75.5 1.9 4.2E-05 25.9 1.5 28 89-116 2-30 (30)
90 PRK05423 hypothetical protein; 75.3 9.2 0.0002 29.9 5.5 60 18-77 41-100 (104)
91 KOG3113|consensus 72.5 2.4 5.1E-05 38.6 1.9 44 88-153 112-157 (293)
92 KOG0297|consensus 72.3 1.9 4.2E-05 41.0 1.4 36 84-120 18-53 (391)
93 PF14353 CpXC: CpXC protein 71.4 0.92 2E-05 36.1 -0.9 32 121-162 24-55 (128)
94 KOG0311|consensus 71.3 0.63 1.4E-05 44.0 -2.1 48 87-154 43-90 (381)
95 KOG0824|consensus 71.3 1.6 3.5E-05 40.5 0.6 51 88-159 8-58 (324)
96 PF04423 Rad50_zn_hook: Rad50 70.7 4.7 0.0001 27.4 2.7 24 68-97 7-30 (54)
97 PF00130 C1_1: Phorbol esters/ 70.5 3.5 7.6E-05 27.5 2.0 34 86-119 10-46 (53)
98 KOG3039|consensus 70.4 3.2 6.9E-05 37.7 2.2 34 102-155 238-271 (303)
99 KOG3799|consensus 69.5 28 0.0006 29.1 7.3 35 82-116 60-96 (169)
100 PF00628 PHD: PHD-finger; Int 69.3 3.4 7.3E-05 27.3 1.7 32 89-120 1-33 (51)
101 KOG1940|consensus 67.5 3.1 6.8E-05 38.1 1.6 32 89-120 160-193 (276)
102 PF06676 DUF1178: Protein of u 67.4 2.7 5.8E-05 35.2 1.1 26 144-169 33-59 (148)
103 KOG1829|consensus 66.5 3.7 8.1E-05 41.2 2.1 14 106-119 536-549 (580)
104 PF10571 UPF0547: Uncharacteri 65.6 2.4 5.1E-05 25.2 0.3 23 89-111 2-24 (26)
105 PF12906 RINGv: RING-variant d 65.2 5.4 0.00012 26.7 2.0 31 90-120 1-36 (47)
106 COG5222 Uncharacterized conser 64.7 6.9 0.00015 36.6 3.3 32 88-120 275-306 (427)
107 TIGR02894 DNA_bind_RsfA transc 64.1 16 0.00034 31.0 5.1 13 18-30 78-90 (161)
108 PF03979 Sigma70_r1_1: Sigma-7 62.8 10 0.00022 28.1 3.3 51 5-55 7-57 (82)
109 KOG1571|consensus 62.7 10 0.00022 35.9 4.1 22 88-111 306-327 (355)
110 PHA03096 p28-like protein; Pro 61.2 12 0.00026 34.4 4.2 33 88-120 179-217 (284)
111 KOG1100|consensus 60.2 5.2 0.00011 35.0 1.6 42 90-157 161-203 (207)
112 TIGR02605 CxxC_CxxC_SSSS putat 59.3 4 8.7E-05 27.3 0.6 17 144-160 27-44 (52)
113 PF11571 Med27: Mediator compl 58.9 5.6 0.00012 30.1 1.4 29 88-116 55-90 (90)
114 COG5175 MOT2 Transcriptional r 58.6 4.6 0.0001 38.3 1.0 47 86-151 13-61 (480)
115 PF07282 OrfB_Zn_ribbon: Putat 58.5 5.3 0.00012 28.1 1.1 31 87-117 28-62 (69)
116 PRK13130 H/ACA RNA-protein com 56.3 6.3 0.00014 27.7 1.2 29 143-171 17-45 (56)
117 COG2926 Uncharacterized protei 54.3 56 0.0012 25.6 6.2 38 18-55 41-78 (109)
118 KOG0827|consensus 54.1 7.4 0.00016 37.5 1.6 33 88-120 197-231 (465)
119 PRK12495 hypothetical protein; 53.7 37 0.0008 30.3 5.8 38 74-112 30-69 (226)
120 smart00834 CxxC_CXXC_SSSS Puta 53.6 6.2 0.00013 24.8 0.7 10 144-153 27-36 (41)
121 PRK02224 chromosome segregatio 53.5 26 0.00057 36.2 5.6 15 87-101 451-465 (880)
122 PF07754 DUF1610: Domain of un 53.5 6.3 0.00014 23.1 0.7 18 90-107 1-19 (24)
123 cd04776 HTH_GnyR Helix-Turn-He 53.3 83 0.0018 24.7 7.3 66 6-76 41-112 (118)
124 PF14255 Cys_rich_CPXG: Cystei 51.3 4.2 9.2E-05 28.1 -0.3 25 145-170 2-26 (52)
125 KOG0826|consensus 50.7 12 0.00026 35.3 2.4 44 88-152 301-344 (357)
126 cd00632 Prefoldin_beta Prefold 50.0 98 0.0021 23.6 7.1 45 34-78 60-104 (105)
127 PF02186 TFIIE_beta: TFIIE bet 49.9 19 0.00041 25.8 2.9 25 6-30 6-31 (65)
128 KOG4172|consensus 49.5 4.9 0.00011 28.4 -0.3 50 87-157 7-57 (62)
129 COG0675 Transposase and inacti 49.2 7.8 0.00017 34.2 0.9 29 88-117 310-338 (364)
130 COG0068 HypF Hydrogenase matur 48.7 15 0.00031 38.0 2.8 78 114-219 156-242 (750)
131 COG0419 SbcC ATPase involved i 48.4 38 0.00082 35.6 5.9 13 86-98 456-468 (908)
132 cd04787 HTH_HMRTR_unk Helix-Tu 48.0 1.4E+02 0.003 23.8 7.9 59 11-77 50-112 (133)
133 COG5236 Uncharacterized conser 48.0 9.9 0.00021 36.3 1.4 45 87-151 61-105 (493)
134 PF03107 C1_2: C1 domain; Int 47.5 10 0.00022 22.9 0.9 28 89-116 2-30 (30)
135 PF04710 Pellino: Pellino; In 47.3 6.3 0.00014 37.9 0.0 33 88-120 329-378 (416)
136 KOG2041|consensus 47.2 11 0.00023 39.4 1.6 30 100-153 1154-1184(1189)
137 cd04769 HTH_MerR2 Helix-Turn-H 47.2 92 0.002 24.1 6.7 20 11-31 49-68 (116)
138 cd01107 HTH_BmrR Helix-Turn-He 47.0 93 0.002 23.8 6.6 22 11-33 51-72 (108)
139 PF03791 KNOX2: KNOX2 domain ; 46.0 99 0.0021 21.4 7.0 45 30-77 6-50 (52)
140 PF08746 zf-RING-like: RING-li 45.6 17 0.00037 23.8 1.9 14 107-120 19-32 (43)
141 PRK14127 cell division protein 45.2 87 0.0019 24.8 6.2 59 20-78 6-71 (109)
142 cd04779 HTH_MerR-like_sg4 Heli 45.1 1.4E+02 0.0031 24.1 7.7 58 12-70 50-107 (134)
143 PRK07220 DNA topoisomerase I; 44.2 78 0.0017 32.8 7.3 11 88-98 590-600 (740)
144 PHA02562 46 endonuclease subun 44.2 30 0.00064 33.6 4.1 30 71-100 268-297 (562)
145 KOG3005|consensus 43.7 13 0.00028 34.0 1.5 53 87-151 182-240 (276)
146 PF13771 zf-HC5HC2H: PHD-like 43.4 10 0.00022 27.9 0.6 32 88-119 37-69 (90)
147 PF14354 Lar_restr_allev: Rest 43.1 9.4 0.0002 26.2 0.4 15 144-158 4-18 (61)
148 smart00109 C1 Protein kinase C 43.0 13 0.00029 23.5 1.1 33 86-118 10-44 (49)
149 cd00029 C1 Protein kinase C co 42.7 18 0.00038 23.2 1.7 34 86-119 10-46 (50)
150 PRK01156 chromosome segregatio 42.6 51 0.0011 34.3 5.8 55 43-97 408-462 (895)
151 PF14169 YdjO: Cold-inducible 42.4 9.7 0.00021 27.1 0.3 14 144-157 40-53 (59)
152 cd00890 Prefoldin Prefoldin is 42.2 1.3E+02 0.0029 23.0 6.9 44 34-77 84-127 (129)
153 PF10146 zf-C4H2: Zinc finger- 41.1 98 0.0021 27.6 6.6 37 42-78 30-66 (230)
154 COG1645 Uncharacterized Zn-fin 40.9 12 0.00025 30.8 0.6 24 88-111 29-54 (131)
155 PF11598 COMP: Cartilage oligo 40.6 1.1E+02 0.0024 20.5 5.8 36 39-74 3-38 (45)
156 PF13832 zf-HC5HC2H_2: PHD-zin 40.2 19 0.00041 27.5 1.7 32 87-119 55-88 (110)
157 PLN02436 cellulose synthase A 40.2 51 0.0011 35.7 5.3 58 87-163 36-98 (1094)
158 TIGR02338 gimC_beta prefoldin, 40.2 1.6E+02 0.0034 22.8 6.9 44 34-77 64-107 (110)
159 COG2260 Predicted Zn-ribbon RN 39.7 14 0.00031 26.2 0.9 24 144-167 18-41 (59)
160 KOG3800|consensus 39.1 18 0.00039 33.5 1.6 44 89-151 2-48 (300)
161 PF08776 VASP_tetra: VASP tetr 38.7 1.1E+02 0.0025 20.1 5.1 34 34-76 4-37 (40)
162 PRK03918 chromosome segregatio 38.5 1E+02 0.0022 31.8 7.2 39 53-97 407-445 (880)
163 PRK10246 exonuclease subunit S 38.5 72 0.0016 34.2 6.2 17 83-101 499-515 (1047)
164 TIGR00373 conserved hypothetic 38.2 2.1E+02 0.0046 23.7 7.8 9 89-97 111-119 (158)
165 cd04781 HTH_MerR-like_sg6 Heli 38.2 1.7E+02 0.0037 22.7 7.0 21 11-32 49-69 (120)
166 PRK00398 rpoP DNA-directed RNA 37.5 12 0.00026 24.5 0.2 20 143-162 21-40 (46)
167 PLN02915 cellulose synthase A 37.3 53 0.0011 35.5 4.9 57 87-162 15-76 (1044)
168 cd04783 HTH_MerR1 Helix-Turn-H 37.2 2E+02 0.0044 22.5 7.4 21 11-32 50-70 (126)
169 PRK06266 transcription initiat 36.8 2.3E+02 0.0049 24.1 8.0 34 8-43 25-58 (178)
170 COG2888 Predicted Zn-ribbon RN 36.7 18 0.00039 25.9 1.0 29 88-116 10-42 (61)
171 COG5220 TFB3 Cdk activating ki 36.7 12 0.00027 33.9 0.2 33 88-120 11-47 (314)
172 CHL00174 accD acetyl-CoA carbo 36.6 9 0.00019 35.5 -0.7 26 88-113 39-69 (296)
173 PF12269 zf-CpG_bind_C: CpG bi 36.4 1.6E+02 0.0035 26.5 7.2 21 100-120 83-103 (236)
174 PLN02189 cellulose synthase 36.0 73 0.0016 34.5 5.6 58 87-163 34-96 (1040)
175 TIGR02047 CadR-PbrR Cd(II)/Pb( 35.9 2.1E+02 0.0047 22.5 7.3 18 12-30 51-68 (127)
176 PRK10227 DNA-binding transcrip 35.8 2.3E+02 0.005 22.8 7.6 42 12-54 51-96 (135)
177 PF04977 DivIC: Septum formati 35.7 88 0.0019 21.9 4.6 31 47-77 20-50 (80)
178 TIGR00515 accD acetyl-CoA carb 35.5 9.8 0.00021 34.9 -0.7 28 88-115 27-59 (285)
179 PRK07218 replication factor A; 35.3 14 0.00031 35.8 0.4 72 144-224 310-389 (423)
180 PF13815 Dzip-like_N: Iguana/D 35.0 2.1E+02 0.0045 22.4 7.0 43 37-79 73-115 (118)
181 PF03962 Mnd1: Mnd1 family; I 34.6 2.1E+02 0.0046 24.4 7.5 37 11-47 2-41 (188)
182 PF07368 DUF1487: Protein of u 34.5 36 0.00079 30.1 2.7 98 3-114 12-111 (215)
183 PF05529 Bap31: B-cell recepto 33.8 1.1E+02 0.0024 25.8 5.6 37 45-81 155-191 (192)
184 PRK10778 dksA RNA polymerase-b 33.6 87 0.0019 26.1 4.8 19 88-106 112-130 (151)
185 COG1675 TFA1 Transcription ini 33.6 83 0.0018 27.0 4.7 10 144-153 133-142 (176)
186 PF13240 zinc_ribbon_2: zinc-r 33.1 19 0.00041 20.6 0.5 21 90-110 2-22 (23)
187 TIGR02043 ZntR Zn(II)-responsi 32.9 2.5E+02 0.0054 22.3 7.3 18 12-30 52-69 (131)
188 KOG4185|consensus 32.8 21 0.00046 32.0 1.1 33 88-120 4-40 (296)
189 PHA01750 hypothetical protein 32.3 1.8E+02 0.0039 21.3 5.5 39 37-78 31-69 (75)
190 KOG4299|consensus 31.9 34 0.00074 34.7 2.4 34 87-120 253-287 (613)
191 KOG2264|consensus 31.9 1.1E+02 0.0024 31.4 5.8 39 39-77 102-140 (907)
192 PRK11088 rrmA 23S rRNA methylt 31.6 26 0.00056 31.1 1.4 26 88-113 3-29 (272)
193 PF02996 Prefoldin: Prefoldin 31.6 2E+02 0.0044 21.8 6.4 45 34-78 74-118 (120)
194 PF09538 FYDLN_acid: Protein o 31.5 21 0.00046 28.2 0.7 27 88-114 10-39 (108)
195 KOG4236|consensus 31.3 16 0.00034 37.2 -0.1 32 88-119 157-191 (888)
196 cd01109 HTH_YyaN Helix-Turn-He 30.9 2.4E+02 0.0053 21.5 7.0 18 12-30 51-68 (113)
197 COG0777 AccD Acetyl-CoA carbox 30.9 15 0.00033 33.8 -0.2 30 88-117 29-63 (294)
198 KOG0298|consensus 30.5 16 0.00035 40.0 -0.1 32 88-120 1154-1185(1394)
199 cd04782 HTH_BltR Helix-Turn-He 30.5 1.6E+02 0.0034 22.1 5.4 19 12-31 51-69 (97)
200 cd04770 HTH_HMRTR Helix-Turn-H 30.1 2.6E+02 0.0056 21.6 6.9 20 11-31 50-69 (123)
201 PRK14714 DNA polymerase II lar 29.9 25 0.00054 38.6 1.1 106 88-217 668-778 (1337)
202 PHA02942 putative transposase; 29.9 25 0.00054 33.4 1.1 31 87-117 325-358 (383)
203 PRK05771 V-type ATP synthase s 29.7 3.6E+02 0.0078 27.2 9.3 21 6-26 17-37 (646)
204 cd04784 HTH_CadR-PbrR Helix-Tu 29.7 2.7E+02 0.0059 21.7 7.0 19 11-30 50-68 (127)
205 KOG1701|consensus 29.3 21 0.00045 34.8 0.4 45 89-157 304-348 (468)
206 PF05766 NinG: Bacteriophage L 29.0 21 0.00046 31.0 0.4 41 69-113 68-109 (189)
207 KOG1001|consensus 28.9 29 0.00063 35.7 1.4 30 88-120 455-484 (674)
208 PF03119 DNA_ligase_ZBD: NAD-d 28.8 16 0.00034 21.9 -0.3 13 145-157 1-13 (28)
209 PRK00420 hypothetical protein; 28.8 43 0.00094 26.7 2.1 25 87-111 23-50 (112)
210 PF05377 FlaC_arch: Flagella a 28.7 2E+02 0.0043 20.2 5.1 39 43-81 6-44 (55)
211 cd04768 HTH_BmrR-like Helix-Tu 28.6 1.7E+02 0.0036 21.9 5.3 20 12-32 51-70 (96)
212 PRK15002 redox-sensitivie tran 28.3 2.4E+02 0.0052 23.4 6.6 18 12-30 61-78 (154)
213 PF04728 LPP: Lipoprotein leuc 28.3 2.2E+02 0.0047 20.1 6.0 36 43-78 9-44 (56)
214 COG3024 Uncharacterized protei 28.3 26 0.00056 25.4 0.7 15 141-155 5-19 (65)
215 PRK03947 prefoldin subunit alp 28.2 2.8E+02 0.0061 22.0 6.8 46 34-79 91-136 (140)
216 PHA01750 hypothetical protein 27.9 2.5E+02 0.0054 20.6 6.0 39 36-74 34-72 (75)
217 cd01282 HTH_MerR-like_sg3 Heli 27.8 2.4E+02 0.0052 21.7 6.2 18 12-30 50-67 (112)
218 PF07295 DUF1451: Protein of u 27.8 3.5E+02 0.0076 22.4 8.4 24 90-113 101-124 (146)
219 KOG0230|consensus 27.8 23 0.00049 39.5 0.4 17 104-120 878-894 (1598)
220 TIGR03655 anti_R_Lar restricti 27.3 27 0.00058 23.6 0.6 10 144-153 2-11 (53)
221 KOG1812|consensus 27.2 52 0.0011 31.4 2.7 34 87-120 146-181 (384)
222 cd04786 HTH_MerR-like_sg7 Heli 27.1 3.3E+02 0.0071 21.8 7.9 19 12-31 51-69 (131)
223 smart00661 RPOL9 RNA polymeras 26.7 39 0.00084 22.1 1.3 25 89-113 2-32 (52)
224 PF06677 Auto_anti-p27: Sjogre 26.5 24 0.00052 23.2 0.2 16 140-155 14-29 (41)
225 cd00864 PI3Ka Phosphoinositide 26.1 1.2E+02 0.0026 25.0 4.4 49 4-52 53-101 (152)
226 cd04785 HTH_CadR-PbrR-like Hel 26.1 3.2E+02 0.007 21.4 7.4 19 11-30 50-68 (126)
227 cd00895 PI3Kc_C2_beta Phosphoi 25.8 1.1E+02 0.0023 29.2 4.5 15 100-114 213-227 (354)
228 PRK05654 acetyl-CoA carboxylas 25.8 18 0.00039 33.3 -0.6 26 88-113 28-58 (292)
229 smart00734 ZnF_Rad18 Rad18-lik 25.8 30 0.00065 20.3 0.5 10 144-153 2-11 (26)
230 cd00065 FYVE FYVE domain; Zinc 25.7 38 0.00083 22.5 1.1 33 88-120 3-37 (57)
231 PRK14890 putative Zn-ribbon RN 25.7 32 0.0007 24.5 0.8 29 88-116 8-40 (59)
232 PRK05771 V-type ATP synthase s 25.6 1.9E+02 0.0041 29.2 6.5 73 5-77 53-126 (646)
233 PRK09514 zntR zinc-responsive 25.3 3.6E+02 0.0078 21.7 7.3 18 12-30 52-69 (140)
234 cd00870 PI3Ka_III Phosphoinosi 25.1 1.2E+02 0.0027 25.5 4.3 48 5-52 61-108 (166)
235 PRK14011 prefoldin subunit alp 24.9 2.9E+02 0.0062 22.8 6.4 38 41-78 7-44 (144)
236 PRK13752 putative transcriptio 24.8 3.8E+02 0.0083 21.8 7.5 18 12-30 58-75 (144)
237 COG1382 GimC Prefoldin, chaper 24.8 3.7E+02 0.0081 21.7 7.0 45 36-80 69-113 (119)
238 KOG1952|consensus 24.7 49 0.0011 35.0 2.1 33 88-120 192-226 (950)
239 COG1730 GIM5 Predicted prefold 24.4 2.9E+02 0.0062 23.0 6.3 38 41-78 10-47 (145)
240 PF07227 DUF1423: Protein of u 24.4 42 0.00091 32.8 1.5 14 107-120 152-165 (446)
241 PF04645 DUF603: Protein of un 24.2 2.1E+02 0.0046 24.7 5.5 34 35-68 96-129 (181)
242 PRK08881 rpsN 30S ribosomal pr 24.2 79 0.0017 24.6 2.8 70 45-116 16-89 (101)
243 KOG4367|consensus 24.0 34 0.00074 33.7 0.8 32 87-120 4-35 (699)
244 KOG1244|consensus 23.9 33 0.00072 31.7 0.7 39 80-120 275-315 (336)
245 COG5319 Uncharacterized protei 23.9 39 0.00084 27.8 1.0 31 144-174 33-64 (142)
246 COG5183 SSM4 Protein involved 23.9 27 0.00059 36.8 0.2 34 88-121 13-51 (1175)
247 PF01396 zf-C4_Topoisom: Topoi 23.7 32 0.00069 22.0 0.4 12 144-155 2-13 (39)
248 PF10235 Cript: Microtubule-as 23.4 40 0.00087 25.9 0.9 37 87-154 44-80 (90)
249 PF14311 DUF4379: Domain of un 23.4 46 0.001 22.5 1.2 7 143-149 49-55 (55)
250 PF04135 Nop10p: Nucleolar RNA 23.2 38 0.00082 23.6 0.7 28 144-171 18-45 (53)
251 PF09535 Gmx_para_CXXCG: Prote 23.1 33 0.00072 30.8 0.5 40 106-167 156-195 (237)
252 cd04777 HTH_MerR-like_sg1 Heli 22.7 3E+02 0.0066 20.7 5.8 18 12-30 49-66 (107)
253 PF13966 zf-RVT: zinc-binding 22.7 60 0.0013 23.7 1.7 33 77-111 51-83 (86)
254 PF07106 TBPIP: Tat binding pr 22.6 4.4E+02 0.0094 21.6 8.4 32 48-79 76-107 (169)
255 COG1730 GIM5 Predicted prefold 22.3 3.8E+02 0.0082 22.3 6.6 45 35-79 92-136 (145)
256 KOG4718|consensus 22.2 44 0.00096 29.8 1.1 45 88-153 182-226 (235)
257 cd04788 HTH_NolA-AlbR Helix-Tu 22.2 2.7E+02 0.0058 20.8 5.3 20 12-32 51-70 (96)
258 PF14570 zf-RING_4: RING/Ubox 22.0 42 0.00092 22.8 0.7 30 90-119 1-32 (48)
259 TIGR01950 SoxR redox-sensitive 21.9 4.4E+02 0.0095 21.4 7.1 19 11-30 50-68 (142)
260 PF00645 zf-PARP: Poly(ADP-rib 21.9 74 0.0016 23.0 2.1 34 87-120 7-50 (82)
261 PRK00888 ftsB cell division pr 21.8 2.9E+02 0.0063 21.4 5.6 35 46-80 29-63 (105)
262 PF07889 DUF1664: Protein of u 21.8 4.4E+02 0.0095 21.4 6.8 45 35-79 52-96 (126)
263 TIGR02051 MerR Hg(II)-responsi 21.4 4E+02 0.0087 20.8 7.4 19 12-31 50-68 (124)
264 cd01108 HTH_CueR Helix-Turn-He 21.3 4.1E+02 0.0088 20.8 7.3 18 12-30 51-68 (127)
265 PF07503 zf-HYPF: HypF finger; 21.3 47 0.001 21.0 0.8 28 113-152 3-30 (35)
266 smart00064 FYVE Protein presen 21.2 63 0.0014 22.4 1.6 34 87-120 10-45 (68)
267 COG3883 Uncharacterized protei 21.2 2.7E+02 0.0058 25.6 5.9 30 48-77 63-92 (265)
268 PRK00464 nrdR transcriptional 21.0 39 0.00084 28.3 0.5 20 145-164 2-21 (154)
269 KOG3842|consensus 21.0 61 0.0013 30.7 1.8 12 99-110 314-325 (429)
270 PF09278 MerR-DNA-bind: MerR, 20.9 2.8E+02 0.006 18.7 6.0 37 19-55 14-54 (65)
271 KOG0193|consensus 20.8 37 0.0008 34.7 0.4 32 88-119 190-221 (678)
272 TIGR02890 spore_yteA sporulati 20.8 4.9E+02 0.011 21.7 7.1 18 89-106 88-105 (159)
273 TIGR02300 FYDLN_acid conserved 20.7 43 0.00094 27.4 0.7 27 88-114 10-39 (129)
274 cd07977 TFIIE_beta_winged_heli 20.7 81 0.0018 23.1 2.1 26 6-31 10-37 (75)
275 PF15616 TerY-C: TerY-C metal 20.5 50 0.0011 27.1 1.0 36 88-151 78-113 (131)
276 KOG1829|consensus 20.3 37 0.0008 34.3 0.2 35 86-120 339-377 (580)
277 cd00872 PI3Ka_I Phosphoinositi 20.3 1.8E+02 0.0038 24.7 4.4 48 4-51 53-100 (171)
278 PRK07726 DNA topoisomerase III 20.2 1.8E+02 0.0038 29.7 5.0 22 88-109 611-635 (658)
279 PF07200 Mod_r: Modifier of ru 20.2 4E+02 0.0086 21.3 6.3 58 22-79 19-76 (150)
280 PF14569 zf-UDP: Zinc-binding 20.0 78 0.0017 23.9 1.8 48 87-153 9-61 (80)
No 1
>KOG2034|consensus
Probab=100.00 E-value=1.6e-38 Score=314.80 Aligned_cols=163 Identities=39% Similarity=0.784 Sum_probs=147.6
Q ss_pred CCchhHHHHHHHHhhcCCCChhhhhhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCc
Q psy7337 2 SERNDIKTALEFLDESDLISIEDILPFFSDFTCMDQFKHAICASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQACANRY 81 (233)
Q Consensus 2 ~~~~dI~~al~~l~es~~L~ieDLLp~fpd~v~I~~fKd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l~~r~ 81 (233)
++.+||+++|++|+++++|+|+|||||||+|++|++||++||++|++||.+|++++.+|.++++.+.+++++++.+++||
T Consensus 732 ~~~~~ikk~i~~Lk~~~lLkiedlLpffpdf~~id~~keaic~~L~~~n~rieel~~em~eat~~a~~I~~~~~~l~~ry 811 (911)
T KOG2034|consen 732 KQENDIKKAIRFLKENELLTIEDLLPFFPDFTKIDNLKEAICDFLEDYNKRIEELQEEMIEATELADEIRTEISKLRQRY 811 (911)
T ss_pred HhhccHHHHHHHhccCcccchhhhhccccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhcce
Confidence 45589999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccCCCchhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhcccc-----cc----chhhHhhhhhCCCCCCChh
Q psy7337 82 HMIQNCDTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSE-----ET----GSEAVNNYLSRECPYCGSH 152 (233)
Q Consensus 82 ~iI~~~~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~-----~t----~~~eld~ila~eCPlCG~~ 152 (233)
.++.+++.|.+|+++|+..|||+|||||+||++||.+.+-+..-..+... .+ .+++|++|++++||+||+.
T Consensus 812 ~v~ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~~~~~~~~~~~~a~~l~~k~~~l~~~l~~iiaaeC~lCg~l 891 (911)
T KOG2034|consen 812 RVLEPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVLSLLSEELSQKTAIELQAKRKKLKNELEDIIAAECPLCGEL 891 (911)
T ss_pred EEecCccchHHhcchhhcCcceeeeccchHHHHHHHHHHHccccHhhhhhhhhhhhhHHHHHHHHHHHHHHhhCccchHH
Confidence 99999999999999999999999999999999999987621110111110 11 4899999999999999999
Q ss_pred hhhhhhccCCCC
Q psy7337 153 MIEKESKKEGGD 164 (233)
Q Consensus 153 ~i~~Id~pf~~~ 164 (233)
+|+.||.||++|
T Consensus 892 ~I~~Id~Pf~~d 903 (911)
T KOG2034|consen 892 AINKIDQPFSDD 903 (911)
T ss_pred HHHhccCCCCCc
Confidence 999999999998
No 2
>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=99.83 E-value=2.2e-20 Score=143.59 Aligned_cols=107 Identities=24% Similarity=0.485 Sum_probs=99.7
Q ss_pred HHHHhhc-CCCChhhhhhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccccCCCc
Q psy7337 11 LEFLDES-DLISIEDILPFFSDFTCMDQFKHAICASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQACANRYHMIQNCDT 89 (233)
Q Consensus 11 l~~l~es-~~L~ieDLLp~fpd~v~I~~fKd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l~~r~~iI~~~~~ 89 (233)
|++|.++ +.|.+.+||++||+++.|++|+++|+.+|+.|..++...+-..........+++.++...+.++++|+++..
T Consensus 1 l~lL~~~~~~ld~~~vL~~LP~~~~l~~l~~fl~~~l~~~~~~~~~~~i~~~l~~~~~~~~~~~l~~~~~~~v~i~~~~~ 80 (109)
T PF10367_consen 1 LELLNEHGSRLDPIDVLKLLPDDWPLSDLSDFLCKSLRKYSNRKRESQIEKNLLKSENLQLKYELVKLRSRSVVITESTK 80 (109)
T ss_pred ChhHHhccccCCHHHHHHhCcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHhhcCceEEECCCCC
Confidence 4678886 899999999999999999999999999999999999988888877777788888999999999999999999
Q ss_pred hhhhhhccCCCCeEEecCCCccchhhhh
Q psy7337 90 CLLCEVQLVSNTFYIFPCGHTFHSHCIV 117 (233)
Q Consensus 90 C~~C~~~L~~~~f~vFpCgH~FH~~CL~ 117 (233)
|++|+++|.+.+|++|||||.||..|+.
T Consensus 81 C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 81 CSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred ccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 9999999999999999999999999974
No 3
>KOG2114|consensus
Probab=99.68 E-value=8.8e-17 Score=160.05 Aligned_cols=113 Identities=21% Similarity=0.413 Sum_probs=106.6
Q ss_pred hhHHHHHHHHhhcCCCChhhhhhcCC--CccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcc
Q psy7337 5 NDIKTALEFLDESDLISIEDILPFFS--DFTCMDQFKHAICASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQACANRYH 82 (233)
Q Consensus 5 ~dI~~al~~l~es~~L~ieDLLp~fp--d~v~I~~fKd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l~~r~~ 82 (233)
+.+.++++.+..+..|.+.+||..+. ...++..+||+|.+.|+.|+..|++.+..|+.+.+++++++++|+.++++..
T Consensus 757 ~~v~~vl~~I~~~~~ippl~VL~~Lakn~~ltls~IkD~ii~~l~~~~~~I~qd~~~Ie~yk~~i~e~r~~l~~lr~sa~ 836 (933)
T KOG2114|consen 757 EIVYKVLEAIEMQERIPPLHVLQILAKNGTLTLSVIKDYIIKWLNKYSTIIEQDEDAIEVYKKDIEEKRQELETLRTSAQ 836 (933)
T ss_pred HHHHHHHHHHHhcccCCHHHHHHHHhcCCceEEehhHHHHHHHHHhhhHHHHhhHHHHHHHHHHHHHHHHHHHHhhcccc
Confidence 47899999999999999999999996 5678899999999999999999999999999999999999999999999999
Q ss_pred cccCCCchhhhhhccCCCCeEEecCCCccchhhhhhc
Q psy7337 83 MIQNCDTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQD 119 (233)
Q Consensus 83 iI~~~~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~ 119 (233)
+++. ++|+.|+-+| ..|+++|.|||+||++|+...
T Consensus 837 i~q~-skCs~C~~~L-dlP~VhF~CgHsyHqhC~e~~ 871 (933)
T KOG2114|consen 837 IFQV-SKCSACEGTL-DLPFVHFLCGHSYHQHCLEDK 871 (933)
T ss_pred eeee-eeecccCCcc-ccceeeeecccHHHHHhhccC
Confidence 9887 8999999999 999999999999999999843
No 4
>KOG2066|consensus
Probab=99.25 E-value=1e-11 Score=123.64 Aligned_cols=118 Identities=21% Similarity=0.410 Sum_probs=105.0
Q ss_pred CchhHHHHHHHHhhc-CCCChhhhhhc--------------------------CCCccchhhHHHHHHHHHHHHHHHHHH
Q psy7337 3 ERNDIKTALEFLDES-DLISIEDILPF--------------------------FSDFTCMDQFKHAICASLEQYNQHIVD 55 (233)
Q Consensus 3 ~~~dI~~al~~l~es-~~L~ieDLLp~--------------------------fpd~v~I~~fKd~I~~sL~ey~~~Ie~ 55 (233)
+-.||.+||+|++++ +.-.|+||+-+ +|+...|+++|+.|.+.|.+|+.+++.
T Consensus 673 el~die~AIefvKeq~D~eLWe~LI~~~ldkPe~~~~ll~i~~~~dpl~ii~kip~g~~IPnLrdsl~Kil~dy~~q~el 752 (846)
T KOG2066|consen 673 ELRDIEKAIEFVKEQDDSELWEDLINYSLDKPEFIKALLNIGEHEDPLLIIRKIPDGLEIPNLRDSLVKILQDYNLQLEL 752 (846)
T ss_pred HhhCHHHHHHHHHhcCCHHHHHHHHHHhhcCcHHHHHHHHhhhcccHHHHHhcCCCCCCCccHHHHHHHHHHhhhhhHHH
Confidence 457899999999998 77778887743 467788999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCcccccCCCchhhhhhccCC-----CCeEEecCCCccchhhhhhcC
Q psy7337 56 LKEDMSEATRSAEQVRNDIQACANRYHMIQNCDTCLLCEVQLVS-----NTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 56 lk~eie~~~~~~~~l~~el~~l~~r~~iI~~~~~C~~C~~~L~~-----~~f~vFpCgH~FH~~CL~~~~ 120 (233)
.+...+....++..+..++.+.+.+.+.|+-.++|..|.++... .-++||.|||.||..|+..++
T Consensus 753 ~~~c~~i~~nd~~~l~~k~~~~~~~Gv~v~~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~ 822 (846)
T KOG2066|consen 753 RQGCYDILKNDSKSLLNKFLKTARRGVLVSVEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMES 822 (846)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCeeEeehhhhhhhcccccccCcccceeeEEEccchhhhcccccHH
Confidence 99999999999999999999999999999999999999999863 347899999999999998764
No 5
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.60 E-value=5.6e-08 Score=86.42 Aligned_cols=57 Identities=23% Similarity=0.488 Sum_probs=40.7
Q ss_pred cCCCchhhhhhccCCCC-----eEEe-cCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhhhhhhh
Q psy7337 85 QNCDTCLLCEVQLVSNT-----FYIF-PCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHMIEKES 158 (233)
Q Consensus 85 ~~~~~C~~C~~~L~~~~-----f~vF-pCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~i~~Id 158 (233)
..+..|++|...+...+ +.+. +|||.||..|+..|+. ....||+|+......+-
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~--------------------~~~tCPlCR~~~~~v~~ 231 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKK--------------------EKNTCPVCRTPFISVIK 231 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHh--------------------cCCCCCCCCCEeeEEee
Confidence 34578999999986543 3344 6999999999999961 13689999986554444
Q ss_pred ccC
Q psy7337 159 KKE 161 (233)
Q Consensus 159 ~pf 161 (233)
..|
T Consensus 232 ~r~ 234 (238)
T PHA02929 232 SRF 234 (238)
T ss_pred eee
Confidence 344
No 6
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=98.59 E-value=1.4e-08 Score=67.04 Aligned_cols=33 Identities=36% Similarity=0.849 Sum_probs=29.3
Q ss_pred CchhhhhhccC-CCCeEEecCCCccchhhhhhcC
Q psy7337 88 DTCLLCEVQLV-SNTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 88 ~~C~~C~~~L~-~~~f~vFpCgH~FH~~CL~~~~ 120 (233)
+.|++|...+. +..++.++|||.||.+|+.+|+
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~ 34 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWL 34 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHH
T ss_pred CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHH
Confidence 36999999995 5789999999999999999996
No 7
>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=98.39 E-value=1.7e-07 Score=68.82 Aligned_cols=33 Identities=45% Similarity=0.857 Sum_probs=27.0
Q ss_pred CchhhhhhccC-----------CCCeEEecCCCccchhhhhhcC
Q psy7337 88 DTCLLCEVQLV-----------SNTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 88 ~~C~~C~~~L~-----------~~~f~vFpCgH~FH~~CL~~~~ 120 (233)
+.|++|..+|. ..++..-+|||.||..||.+|+
T Consensus 20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl 63 (73)
T PF12678_consen 20 DNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWL 63 (73)
T ss_dssp SBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHH
T ss_pred CcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHH
Confidence 46999999993 2356667899999999999997
No 8
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.09 E-value=2.4e-06 Score=54.44 Aligned_cols=31 Identities=32% Similarity=0.827 Sum_probs=26.9
Q ss_pred chhhhhhccCCCCeEEecCCCccchhhhhhcC
Q psy7337 89 TCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 89 ~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~ 120 (233)
.|++|...+ ..++.+.+|||.||..|+..|+
T Consensus 1 ~C~iC~~~~-~~~~~~~~C~H~~c~~C~~~~~ 31 (45)
T cd00162 1 ECPICLEEF-REPVVLLPCGHVFCRSCIDKWL 31 (45)
T ss_pred CCCcCchhh-hCceEecCCCChhcHHHHHHHH
Confidence 489999987 6777777799999999999885
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=98.00 E-value=2.9e-06 Score=54.63 Aligned_cols=30 Identities=37% Similarity=0.902 Sum_probs=26.0
Q ss_pred hhhhhhccCCCCeEEecCCCccchhhhhhcC
Q psy7337 90 CLLCEVQLVSNTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 90 C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~ 120 (233)
|++|...+ ..|+++.+|||.|+..|+.+++
T Consensus 1 C~iC~~~~-~~~~~~~~CGH~fC~~C~~~~~ 30 (39)
T PF13923_consen 1 CPICLDEL-RDPVVVTPCGHSFCKECIEKYL 30 (39)
T ss_dssp ETTTTSB--SSEEEECTTSEEEEHHHHHHHH
T ss_pred CCCCCCcc-cCcCEECCCCCchhHHHHHHHH
Confidence 78998877 6689999999999999999885
No 10
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=97.90 E-value=5.4e-06 Score=62.91 Aligned_cols=46 Identities=28% Similarity=0.626 Sum_probs=33.5
Q ss_pred chhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCCh
Q psy7337 89 TCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGS 151 (233)
Q Consensus 89 ~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~ 151 (233)
.|+.|..|-.+-|++.-.|+|.||.+|+.+|++.+ . ....||+|..
T Consensus 34 ~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~-~----------------~~~~CPmCR~ 79 (85)
T PF12861_consen 34 CCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQ-S----------------SKGQCPMCRQ 79 (85)
T ss_pred CCCCccCCCCCCceeeccCccHHHHHHHHHHHccc-c----------------CCCCCCCcCC
Confidence 45555555545688888899999999999998321 0 0268999985
No 11
>KOG4628|consensus
Probab=97.90 E-value=1.8e-05 Score=73.90 Aligned_cols=48 Identities=31% Similarity=0.712 Sum_probs=38.4
Q ss_pred chhhhhhccC-CCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhhhh
Q psy7337 89 TCLLCEVQLV-SNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHMIE 155 (233)
Q Consensus 89 ~C~~C~~~L~-~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~i~ 155 (233)
.|++|-.... +....+.||+|.||..|+..|+.. . ...||+|..-+-.
T Consensus 231 ~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~------------------~-r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 231 TCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQ------------------T-RTFCPVCKRDIRT 279 (348)
T ss_pred eEEEeecccccCCeeeEecCCCchhhccchhhHhh------------------c-CccCCCCCCcCCC
Confidence 8999999865 567889999999999999999732 1 2579999874433
No 12
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=97.83 E-value=9.3e-06 Score=52.34 Aligned_cols=30 Identities=30% Similarity=0.877 Sum_probs=26.7
Q ss_pred hhhhhhccCCCCeEEecCCCccchhhhhhcC
Q psy7337 90 CLLCEVQLVSNTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 90 C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~ 120 (233)
|++|...+ ..+.++.+|||.|+..|+.+++
T Consensus 1 C~iC~~~~-~~~~~~~~C~H~fC~~C~~~~~ 30 (41)
T PF00097_consen 1 CPICLEPF-EDPVILLPCGHSFCRDCLRKWL 30 (41)
T ss_dssp ETTTSSBC-SSEEEETTTSEEEEHHHHHHHH
T ss_pred CCcCCccc-cCCCEEecCCCcchHHHHHHHH
Confidence 78899986 7777899999999999999985
No 13
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=97.78 E-value=1.8e-05 Score=48.55 Aligned_cols=29 Identities=38% Similarity=0.835 Sum_probs=24.6
Q ss_pred hhhhhhccCCCCeEEecCCCccchhhhhhcC
Q psy7337 90 CLLCEVQLVSNTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 90 C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~ 120 (233)
|++|... .....+.+|||.||..|+..|+
T Consensus 1 C~iC~~~--~~~~~~~~C~H~~c~~C~~~~~ 29 (39)
T smart00184 1 CPICLEE--LKDPVVLPCGHTFCRSCIRKWL 29 (39)
T ss_pred CCcCccC--CCCcEEecCCChHHHHHHHHHH
Confidence 6778777 5678888999999999999885
No 14
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=97.65 E-value=3.6e-05 Score=50.89 Aligned_cols=32 Identities=22% Similarity=0.521 Sum_probs=27.6
Q ss_pred chhhhhhcc-CCCCeEEecCCCccchhhhhhcC
Q psy7337 89 TCLLCEVQL-VSNTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 89 ~C~~C~~~L-~~~~f~vFpCgH~FH~~CL~~~~ 120 (233)
.|.+|..+. ...++++.+|||.|...|+....
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~ 33 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLK 33 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhc
Confidence 488999998 35689999999999999998774
No 15
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.55 E-value=2.9e-05 Score=71.20 Aligned_cols=47 Identities=28% Similarity=0.762 Sum_probs=38.4
Q ss_pred CCchhhhhhccC-CCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChh
Q psy7337 87 CDTCLLCEVQLV-SNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSH 152 (233)
Q Consensus 87 ~~~C~~C~~~L~-~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~ 152 (233)
+-.|++|-.... ...+.|.||.|.||..|+.+|+. + ....||.|...
T Consensus 323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~------------------~-y~~~CPvCrt~ 370 (374)
T COG5540 323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLL------------------G-YSNKCPVCRTA 370 (374)
T ss_pred CceEEEEhhhhcccceEEEeccCceechhHHHHHHh------------------h-hcccCCccCCC
Confidence 456999998875 45689999999999999999972 1 25799999863
No 16
>KOG1734|consensus
Probab=97.54 E-value=3.6e-05 Score=69.56 Aligned_cols=57 Identities=26% Similarity=0.570 Sum_probs=43.0
Q ss_pred CCCchhhhhhccCC--------CCeEEecCCCccchhhhhhcC--ChHHHhhccccccchhhHhhhhhCCCCCCChh--h
Q psy7337 86 NCDTCLLCEVQLVS--------NTFYIFPCGHTFHSHCIVQDL--DPEQKAKLDSEETGSEAVNNYLSRECPYCGSH--M 153 (233)
Q Consensus 86 ~~~~C~~C~~~L~~--------~~f~vFpCgH~FH~~CL~~~~--~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~--~ 153 (233)
.++.|++|++.+.. ...|-..|+|+||..|+..|. +. ...||+|.+. .
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGK--------------------kqtCPYCKekVdl 282 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGK--------------------KQTCPYCKEKVDL 282 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecC--------------------CCCCchHHHHhhH
Confidence 35789999999853 257899999999999999997 22 2689999883 2
Q ss_pred hhhhhccCC
Q psy7337 154 IEKESKKEG 162 (233)
Q Consensus 154 i~~Id~pf~ 162 (233)
-+..+.|+-
T Consensus 283 ~rmfsnpWe 291 (328)
T KOG1734|consen 283 KRMFSNPWE 291 (328)
T ss_pred hhhccCccc
Confidence 344455554
No 17
>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=97.54 E-value=6.4e-05 Score=52.32 Aligned_cols=42 Identities=21% Similarity=0.363 Sum_probs=34.4
Q ss_pred chhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChh
Q psy7337 89 TCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSH 152 (233)
Q Consensus 89 ~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~ 152 (233)
.|++|+..+ ..| ++.+|||+|...|+.+++. . ...||+||..
T Consensus 3 ~Cpi~~~~~-~~P-v~~~~G~v~~~~~i~~~~~------------------~--~~~cP~~~~~ 44 (63)
T smart00504 3 LCPISLEVM-KDP-VILPSGQTYERRAIEKWLL------------------S--HGTDPVTGQP 44 (63)
T ss_pred CCcCCCCcC-CCC-EECCCCCEEeHHHHHHHHH------------------H--CCCCCCCcCC
Confidence 599999997 667 5679999999999999851 1 3689999973
No 18
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=97.43 E-value=0.00033 Score=66.02 Aligned_cols=49 Identities=31% Similarity=0.762 Sum_probs=38.2
Q ss_pred CCCchhhhhhccCCCC-----------eEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhhh
Q psy7337 86 NCDTCLLCEVQLVSNT-----------FYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHMI 154 (233)
Q Consensus 86 ~~~~C~~C~~~L~~~~-----------f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~i 154 (233)
.+..|.+|...++..+ ---.||||.||-+||..|+. | ...||+|..+.+
T Consensus 286 ~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~E---R-----------------qQTCPICr~p~i 345 (491)
T COG5243 286 SDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLE---R-----------------QQTCPICRRPVI 345 (491)
T ss_pred CCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHH---h-----------------ccCCCcccCccc
Confidence 4567999999976322 36789999999999999971 1 379999998643
No 19
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=97.40 E-value=6.6e-05 Score=50.71 Aligned_cols=43 Identities=28% Similarity=0.776 Sum_probs=34.5
Q ss_pred CchhhhhhccCCCCeEEecCCCc-cchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChh
Q psy7337 88 DTCLLCEVQLVSNTFYIFPCGHT-FHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSH 152 (233)
Q Consensus 88 ~~C~~C~~~L~~~~f~vFpCgH~-FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~ 152 (233)
..|.+|.... ...+++||||. |...|+..+.. -...||+|...
T Consensus 3 ~~C~iC~~~~--~~~~~~pCgH~~~C~~C~~~~~~--------------------~~~~CP~Cr~~ 46 (50)
T PF13920_consen 3 EECPICFENP--RDVVLLPCGHLCFCEECAERLLK--------------------RKKKCPICRQP 46 (50)
T ss_dssp SB-TTTSSSB--SSEEEETTCEEEEEHHHHHHHHH--------------------TTSBBTTTTBB
T ss_pred CCCccCCccC--CceEEeCCCChHHHHHHhHHhcc--------------------cCCCCCcCChh
Confidence 5799999984 56899999999 99999998841 24799999864
No 20
>KOG0317|consensus
Probab=97.18 E-value=0.00014 Score=66.25 Aligned_cols=51 Identities=29% Similarity=0.578 Sum_probs=39.6
Q ss_pred cCcccccCCCchhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCCh
Q psy7337 79 NRYHMIQNCDTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGS 151 (233)
Q Consensus 79 ~r~~iI~~~~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~ 151 (233)
....+..++-+|.+|-... . .--.-||||.|--.|+.+|.+. ..|||+|..
T Consensus 231 ~~~~i~~a~~kC~LCLe~~-~-~pSaTpCGHiFCWsCI~~w~~e--------------------k~eCPlCR~ 281 (293)
T KOG0317|consen 231 SLSSIPEATRKCSLCLENR-S-NPSATPCGHIFCWSCILEWCSE--------------------KAECPLCRE 281 (293)
T ss_pred CCccCCCCCCceEEEecCC-C-CCCcCcCcchHHHHHHHHHHcc--------------------ccCCCcccc
Confidence 3455666668899999885 3 3346799999999999999732 478999987
No 21
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=97.04 E-value=0.00043 Score=59.91 Aligned_cols=73 Identities=23% Similarity=0.403 Sum_probs=44.0
Q ss_pred cCCCchhhhhhccCCCCeEEecCCCccchhhhhhcCChH--HHhhccccccchhhHh-hhhhCCCCCCChhhhhhhhccC
Q psy7337 85 QNCDTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPE--QKAKLDSEETGSEAVN-NYLSRECPYCGSHMIEKESKKE 161 (233)
Q Consensus 85 ~~~~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~--~~~~l~~~~t~~~eld-~ila~eCPlCG~~~i~~Id~pf 161 (233)
.....|++|...+ ..| ++-+|||.|+..|+..|+... ...++.. .. .--...||+|+...-..--.|+
T Consensus 16 ~~~~~CpICld~~-~dP-VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~-------~~~~k~~~~CPvCR~~Is~~~LvPi 86 (193)
T PLN03208 16 GGDFDCNICLDQV-RDP-VVTLCGHLFCWPCIHKWTYASNNSRQRVDQ-------YDHKREPPKCPVCKSDVSEATLVPI 86 (193)
T ss_pred CCccCCccCCCcC-CCc-EEcCCCchhHHHHHHHHHHhcccccccccc-------ccccCCCCcCCCCCCcCChhcEEEe
Confidence 3456799999986 555 557899999999999996110 0000000 00 0012589999986544444466
Q ss_pred CCCCC
Q psy7337 162 GGDGG 166 (233)
Q Consensus 162 ~~~~~ 166 (233)
...+.
T Consensus 87 ygrg~ 91 (193)
T PLN03208 87 YGRGQ 91 (193)
T ss_pred eccCC
Confidence 54443
No 22
>KOG0978|consensus
Probab=97.03 E-value=0.00077 Score=67.96 Aligned_cols=43 Identities=28% Similarity=0.784 Sum_probs=34.2
Q ss_pred CchhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCCh
Q psy7337 88 DTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGS 151 (233)
Q Consensus 88 ~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~ 151 (233)
-+|++|... ....++-.|||+|-..|+...+. .| ...||-||.
T Consensus 644 LkCs~Cn~R--~Kd~vI~kC~H~FC~~Cvq~r~e--tR-----------------qRKCP~Cn~ 686 (698)
T KOG0978|consen 644 LKCSVCNTR--WKDAVITKCGHVFCEECVQTRYE--TR-----------------QRKCPKCNA 686 (698)
T ss_pred eeCCCccCc--hhhHHHHhcchHHHHHHHHHHHH--Hh-----------------cCCCCCCCC
Confidence 479999944 66788888999999999987641 22 369999996
No 23
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.01 E-value=0.00031 Score=50.74 Aligned_cols=44 Identities=30% Similarity=0.602 Sum_probs=24.4
Q ss_pred CCchhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhh
Q psy7337 87 CDTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHM 153 (233)
Q Consensus 87 ~~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~ 153 (233)
.-+|+.|...| ..|+.++.|.|.|-..|+...+ +.+||.|..++
T Consensus 7 lLrCs~C~~~l-~~pv~l~~CeH~fCs~Ci~~~~----------------------~~~CPvC~~Pa 50 (65)
T PF14835_consen 7 LLRCSICFDIL-KEPVCLGGCEHIFCSSCIRDCI----------------------GSECPVCHTPA 50 (65)
T ss_dssp TTS-SSS-S---SS-B---SSS--B-TTTGGGGT----------------------TTB-SSS--B-
T ss_pred hcCCcHHHHHh-cCCceeccCccHHHHHHhHHhc----------------------CCCCCCcCChH
Confidence 35899999987 9999999999999999997764 46899998754
No 24
>PHA02926 zinc finger-like protein; Provisional
Probab=96.94 E-value=0.00027 Score=62.51 Aligned_cols=64 Identities=22% Similarity=0.379 Sum_probs=41.6
Q ss_pred cCCCchhhhhhccCCC------CeEEe-cCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhhhhhh
Q psy7337 85 QNCDTCLLCEVQLVSN------TFYIF-PCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHMIEKE 157 (233)
Q Consensus 85 ~~~~~C~~C~~~L~~~------~f~vF-pCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~i~~I 157 (233)
+.+..|++|-..+... .|-+. +|+|+|+..|+..|....+ +.-....||+|+......+
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~--------------~~~~~rsCPiCR~~f~~I~ 233 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRR--------------ETGASDNCPICRTRFRNIT 233 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhcc--------------ccCcCCcCCCCcceeeeec
Confidence 3457899999887532 35555 5999999999999952100 1112357999998654444
Q ss_pred hccCC
Q psy7337 158 SKKEG 162 (233)
Q Consensus 158 d~pf~ 162 (233)
-.+|.
T Consensus 234 pSrf~ 238 (242)
T PHA02926 234 MSKFY 238 (242)
T ss_pred cccce
Confidence 44443
No 25
>KOG0802|consensus
Probab=96.94 E-value=0.0003 Score=69.18 Aligned_cols=45 Identities=31% Similarity=0.809 Sum_probs=36.8
Q ss_pred CCchhhhhhccCCCC---eEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCCh
Q psy7337 87 CDTCLLCEVQLVSNT---FYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGS 151 (233)
Q Consensus 87 ~~~C~~C~~~L~~~~---f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~ 151 (233)
+..|.+|...+...+ --..||||+||..||..|+. . .+.||+|..
T Consensus 291 ~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~e------------------r--~qtCP~CR~ 338 (543)
T KOG0802|consen 291 DELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFE------------------R--QQTCPTCRT 338 (543)
T ss_pred CCeeeeechhhccccccccceeecccchHHHHHHHHHH------------------H--hCcCCcchh
Confidence 578999999995432 57889999999999999961 1 379999987
No 26
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=96.89 E-value=0.00058 Score=63.00 Aligned_cols=64 Identities=20% Similarity=0.372 Sum_probs=41.8
Q ss_pred CCchhhhhhccCCCC---eEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhhhhhhhccCCC
Q psy7337 87 CDTCLLCEVQLVSNT---FYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHMIEKESKKEGG 163 (233)
Q Consensus 87 ~~~C~~C~~~L~~~~---f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~i~~Id~pf~~ 163 (233)
+..|++|.......| |++.+|||.|-..|+...... -...||.|+...-..=-.|.+-
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~-------------------~~~~CP~C~~~lrk~~fr~q~F 63 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVR-------------------GSGSCPECDTPLRKNNFRVQLF 63 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcC-------------------CCCCCCCCCCccchhhcccccc
Confidence 367999999654333 566699999999999875310 1258999998554443334443
Q ss_pred CCCCch
Q psy7337 164 DGGGTE 169 (233)
Q Consensus 164 ~~~~~e 169 (233)
++...+
T Consensus 64 ~D~~ve 69 (309)
T TIGR00570 64 EDPTVE 69 (309)
T ss_pred ccHHHH
Confidence 333333
No 27
>KOG0320|consensus
Probab=96.76 E-value=0.0004 Score=59.40 Aligned_cols=44 Identities=30% Similarity=0.663 Sum_probs=33.3
Q ss_pred CchhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCCh
Q psy7337 88 DTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGS 151 (233)
Q Consensus 88 ~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~ 151 (233)
..|++|..+....--+.-.|||.|-+.|+...+. .+..||+|+.
T Consensus 132 ~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk--------------------~~~~CP~C~k 175 (187)
T KOG0320|consen 132 YKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALK--------------------NTNKCPTCRK 175 (187)
T ss_pred cCCCceecchhhccccccccchhHHHHHHHHHHH--------------------hCCCCCCccc
Confidence 4699998887333234467999999999987641 2689999997
No 28
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=96.67 E-value=0.00075 Score=64.30 Aligned_cols=47 Identities=30% Similarity=0.704 Sum_probs=36.6
Q ss_pred ccCCCchhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChh
Q psy7337 84 IQNCDTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSH 152 (233)
Q Consensus 84 I~~~~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~ 152 (233)
+.....|++|...+ ..|+ +.+|||.|+..|+..++. . ...||+|+..
T Consensus 23 Le~~l~C~IC~d~~-~~Pv-itpCgH~FCs~CI~~~l~------------------~--~~~CP~Cr~~ 69 (397)
T TIGR00599 23 LDTSLRCHICKDFF-DVPV-LTSCSHTFCSLCIRRCLS------------------N--QPKCPLCRAE 69 (397)
T ss_pred cccccCCCcCchhh-hCcc-CCCCCCchhHHHHHHHHh------------------C--CCCCCCCCCc
Confidence 44457899999876 6665 579999999999998851 1 2479999874
No 29
>KOG1493|consensus
Probab=96.61 E-value=0.00026 Score=52.79 Aligned_cols=33 Identities=30% Similarity=0.534 Sum_probs=24.7
Q ss_pred CchhhhhhccCCCCeEEecCCCccchhhhhhcC
Q psy7337 88 DTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 88 ~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~ 120 (233)
..|+.|..|=-+-|.+.=.|.|.||.+|+.+|+
T Consensus 32 g~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl 64 (84)
T KOG1493|consen 32 GCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWL 64 (84)
T ss_pred CcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHh
Confidence 345555555445677777799999999999998
No 30
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=96.60 E-value=0.00025 Score=51.69 Aligned_cols=57 Identities=25% Similarity=0.481 Sum_probs=23.4
Q ss_pred CchhhhhhccC-C--CCeEEe---cCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhh
Q psy7337 88 DTCLLCEVQLV-S--NTFYIF---PCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHM 153 (233)
Q Consensus 88 ~~C~~C~~~L~-~--~~f~vF---pCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~ 153 (233)
..|.+|...+. . .|-++= .|++.||..||.+|+...... +. .-..+...||+|...+
T Consensus 3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~--------~~-~~~~~~G~CP~C~~~i 65 (70)
T PF11793_consen 3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKS--------RQ-SFIPIFGECPYCSSPI 65 (70)
T ss_dssp -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSS--------S--TTT--EEE-TTT-SEE
T ss_pred CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccC--------Ce-eecccccCCcCCCCee
Confidence 56999998875 2 355555 399999999999997111110 11 1224457899998743
No 31
>KOG1941|consensus
Probab=96.56 E-value=0.00085 Score=63.60 Aligned_cols=57 Identities=28% Similarity=0.575 Sum_probs=41.5
Q ss_pred CchhhhhhccCCC--CeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhhhhhhhc-cCCC
Q psy7337 88 DTCLLCEVQLVSN--TFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHMIEKESK-KEGG 163 (233)
Q Consensus 88 ~~C~~C~~~L~~~--~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~i~~Id~-pf~~ 163 (233)
-.|..||+.+..+ ..-..||.|.||..|+.+.+ .+--..+||-|.. .+.+|.. .|+.
T Consensus 366 L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L------------------~~n~~rsCP~Crk-lrSs~~rpgfvg 425 (518)
T KOG1941|consen 366 LYCGLCGESIGLKNERLQALPCSHIFHLRCLQEIL------------------ENNGTRSCPNCRK-LRSSMKRPGFVG 425 (518)
T ss_pred hhhhhhhhhhcCCcccccccchhHHHHHHHHHHHH------------------HhCCCCCCccHHH-HHhhccCCCCcC
Confidence 4699999998644 47799999999999998775 1112479999984 4455553 4443
No 32
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=96.55 E-value=0.0013 Score=43.25 Aligned_cols=29 Identities=28% Similarity=0.787 Sum_probs=22.7
Q ss_pred hhhhhhccCCCCeEEecCCCccchhhhhhcC
Q psy7337 90 CLLCEVQLVSNTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 90 C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~ 120 (233)
|++|...+ ..|.. .+|||+|=..||..+.
T Consensus 1 CpiC~~~~-~~Pv~-l~CGH~FC~~Cl~~~~ 29 (42)
T PF15227_consen 1 CPICLDLF-KDPVS-LPCGHSFCRSCLERLW 29 (42)
T ss_dssp ETTTTSB--SSEEE--SSSSEEEHHHHHHHH
T ss_pred CCccchhh-CCccc-cCCcCHHHHHHHHHHH
Confidence 78888876 66655 6999999999999875
No 33
>KOG2930|consensus
Probab=96.51 E-value=0.0011 Score=52.12 Aligned_cols=33 Identities=33% Similarity=0.827 Sum_probs=25.7
Q ss_pred CchhhhhhccCC--------------CCeEEec-CCCccchhhhhhcC
Q psy7337 88 DTCLLCEVQLVS--------------NTFYIFP-CGHTFHSHCIVQDL 120 (233)
Q Consensus 88 ~~C~~C~~~L~~--------------~~f~vFp-CgH~FH~~CL~~~~ 120 (233)
+.|++|.--|++ .-.++.. |.|+||.+|+.+|+
T Consensus 47 DnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWl 94 (114)
T KOG2930|consen 47 DNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWL 94 (114)
T ss_pred chhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHH
Confidence 579999988752 1245555 99999999999997
No 34
>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=96.47 E-value=0.0021 Score=43.71 Aligned_cols=31 Identities=19% Similarity=0.513 Sum_probs=23.4
Q ss_pred hhhhhhccCCCCeEEecCC-----CccchhhhhhcC
Q psy7337 90 CLLCEVQLVSNTFYIFPCG-----HTFHSHCIVQDL 120 (233)
Q Consensus 90 C~~C~~~L~~~~f~vFpCg-----H~FH~~CL~~~~ 120 (233)
|.+|...-.....++-||. |.||..||..|+
T Consensus 2 CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~ 37 (49)
T smart00744 2 CRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWI 37 (49)
T ss_pred ccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHH
Confidence 7788773333444577985 999999999997
No 35
>KOG2063|consensus
Probab=96.38 E-value=0.0085 Score=62.13 Aligned_cols=113 Identities=14% Similarity=0.246 Sum_probs=89.0
Q ss_pred HHHHHHHHhhc-CCCChhhhhhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCccccc
Q psy7337 7 IKTALEFLDES-DLISIEDILPFFSDFTCMDQFKHAICASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQACANRYHMIQ 85 (233)
Q Consensus 7 I~~al~~l~es-~~L~ieDLLp~fpd~v~I~~fKd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l~~r~~iI~ 85 (233)
...++++|... ..+.+..+++.+|+.+.+.++-..+.+.|+..-.+...-+-...-++...-..+.++...+...++|.
T Consensus 753 ~~~il~~l~~h~~r~d~~~~~~~Lp~~~sl~~~~~~l~~~Lr~~~~~~r~~q~~~~l~q~E~~~~~~~l~~~~s~~~~l~ 832 (877)
T KOG2063|consen 753 PLYILNFLQKHADRLDLAQVLKLLPDDISLKDLCSFLSKLLRKRFEALRTTQVQKSLLQAELLPSTEELNKLRSSKIQLN 832 (877)
T ss_pred chhhhhHHHhhhhhcCHHHHHHhCCccCcHhHHHHHHHHHHHHHHHhcchhHHHHHHHHHhhcchHHHHHHhhcceEEEc
Confidence 34566778787 88999999999999999999999999999886554443332222233333444567778888899999
Q ss_pred CCCchhhhhhccCCCCeEEecCCCccchhhhhhc
Q psy7337 86 NCDTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQD 119 (233)
Q Consensus 86 ~~~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~ 119 (233)
....|.+|.+++...-|..+|=|+..|-.|-...
T Consensus 833 ~~~~C~~C~k~i~~s~f~ryp~g~lvh~~C~~~~ 866 (877)
T KOG2063|consen 833 DESLCSICEKRIGTSVFVRYPNGILVHLSCAKDL 866 (877)
T ss_pred hhhHhHHHHhhhcCeeEEECCCCcEEEEEeechh
Confidence 9899999999998899999999999999998744
No 36
>KOG0828|consensus
Probab=96.25 E-value=0.0012 Score=64.08 Aligned_cols=50 Identities=28% Similarity=0.845 Sum_probs=37.4
Q ss_pred ccCCCchhhhhhccC---------------CCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCC
Q psy7337 84 IQNCDTCLLCEVQLV---------------SNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPY 148 (233)
Q Consensus 84 I~~~~~C~~C~~~L~---------------~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPl 148 (233)
+....-|.+|-.++- .+.+.+-||.|.||..||.+||.. + .-.||.
T Consensus 568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~------------------y-kl~CPv 628 (636)
T KOG0828|consen 568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDT------------------Y-KLICPV 628 (636)
T ss_pred hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhh------------------h-cccCCc
Confidence 344567999999984 134666789999999999999821 1 248999
Q ss_pred CChh
Q psy7337 149 CGSH 152 (233)
Q Consensus 149 CG~~ 152 (233)
|..+
T Consensus 629 CR~p 632 (636)
T KOG0828|consen 629 CRCP 632 (636)
T ss_pred cCCC
Confidence 9864
No 37
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=96.15 E-value=0.0036 Score=47.16 Aligned_cols=44 Identities=32% Similarity=0.696 Sum_probs=32.6
Q ss_pred CchhhhhhccCC--------------CCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCCh
Q psy7337 88 DTCLLCEVQLVS--------------NTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGS 151 (233)
Q Consensus 88 ~~C~~C~~~L~~--------------~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~ 151 (233)
+.|++|.-++.+ .|.+-=.|.|+||.+|+.+|++. ..-||++..
T Consensus 21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~T--------------------k~~CPld~q 78 (88)
T COG5194 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDT--------------------KGVCPLDRQ 78 (88)
T ss_pred chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhh--------------------CCCCCCCCc
Confidence 567777777652 23455559999999999999732 378999975
No 38
>KOG0804|consensus
Probab=96.09 E-value=0.0031 Score=60.67 Aligned_cols=33 Identities=27% Similarity=0.666 Sum_probs=27.4
Q ss_pred CchhhhhhccCCC--CeEEecCCCccchhhhhhcC
Q psy7337 88 DTCLLCEVQLVSN--TFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 88 ~~C~~C~~~L~~~--~f~vFpCgH~FH~~CL~~~~ 120 (233)
-+|++|...+-.. ..+.-+|.|+||..|+..|-
T Consensus 176 PTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~ 210 (493)
T KOG0804|consen 176 PTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW 210 (493)
T ss_pred CCcchhHhhcCccccceeeeecccccchHHHhhcc
Confidence 4799999998432 35777899999999999995
No 39
>KOG0827|consensus
Probab=96.02 E-value=0.0017 Score=61.43 Aligned_cols=33 Identities=27% Similarity=0.591 Sum_probs=23.1
Q ss_pred CCchhhhhhccC--CCCeEEec-CCCccchhhhhhcC
Q psy7337 87 CDTCLLCEVQLV--SNTFYIFP-CGHTFHSHCIVQDL 120 (233)
Q Consensus 87 ~~~C~~C~~~L~--~~~f~vFp-CgH~FH~~CL~~~~ 120 (233)
+..|.+|.. +. .+..-... |||.||..||.+|.
T Consensus 4 ~A~C~Ic~d-~~p~~~~l~~i~~cGhifh~~cl~qwf 39 (465)
T KOG0827|consen 4 MAECHICID-GRPNDHELGPIGTCGHIFHTTCLTQWF 39 (465)
T ss_pred cceeeEecc-CCccccccccccchhhHHHHHHHHHHH
Confidence 457999933 22 22333334 99999999999997
No 40
>KOG4445|consensus
Probab=95.76 E-value=0.0044 Score=57.08 Aligned_cols=35 Identities=26% Similarity=0.653 Sum_probs=32.2
Q ss_pred CCCchhhhhhccCCCC-eEEecCCCccchhhhhhcC
Q psy7337 86 NCDTCLLCEVQLVSNT-FYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 86 ~~~~C~~C~~~L~~~~-f~vFpCgH~FH~~CL~~~~ 120 (233)
++..|.+|...+.+.+ |.+-+|-|.||..||..++
T Consensus 114 p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl 149 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTACDHYMHFACLARYL 149 (368)
T ss_pred CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHH
Confidence 4578999999998888 9999999999999999987
No 41
>KOG0823|consensus
Probab=95.56 E-value=0.0057 Score=54.23 Aligned_cols=60 Identities=27% Similarity=0.461 Sum_probs=42.8
Q ss_pred CchhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhhhhhhhccCCCCCC
Q psy7337 88 DTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHMIEKESKKEGGDGG 166 (233)
Q Consensus 88 ~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~i~~Id~pf~~~~~ 166 (233)
-.|.+|... .+.-+|-.|||.|--.||.+|+.. +. -..+||.|...+-..=-.|+..-+.
T Consensus 48 FdCNICLd~--akdPVvTlCGHLFCWpClyqWl~~----~~-------------~~~~cPVCK~~Vs~~~vvPlYGrG~ 107 (230)
T KOG0823|consen 48 FDCNICLDL--AKDPVVTLCGHLFCWPCLYQWLQT----RP-------------NSKECPVCKAEVSIDTVVPLYGRGS 107 (230)
T ss_pred eeeeeeccc--cCCCEEeecccceehHHHHHHHhh----cC-------------CCeeCCccccccccceEEeeeccCC
Confidence 459999887 567788999999999999999711 01 1378999987554444457654444
No 42
>KOG2164|consensus
Probab=95.15 E-value=0.01 Score=57.96 Aligned_cols=50 Identities=28% Similarity=0.576 Sum_probs=34.9
Q ss_pred CCchhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhh
Q psy7337 87 CDTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHM 153 (233)
Q Consensus 87 ~~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~ 153 (233)
...|++|..+- .-|... .|||.|--.||.+++... .... ..+||+|+..+
T Consensus 186 ~~~CPICL~~~-~~p~~t-~CGHiFC~~CiLqy~~~s---~~~~------------~~~CPiC~s~I 235 (513)
T KOG2164|consen 186 DMQCPICLEPP-SVPVRT-NCGHIFCGPCILQYWNYS---AIKG------------PCSCPICRSTI 235 (513)
T ss_pred CCcCCcccCCC-Cccccc-ccCceeeHHHHHHHHhhh---cccC------------CccCCchhhhc
Confidence 67899999885 223222 299999999999987322 1111 37999999843
No 43
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=95.02 E-value=0.015 Score=38.59 Aligned_cols=30 Identities=30% Similarity=0.834 Sum_probs=18.0
Q ss_pred hhhhhhccC--CCCeEEecCCCccchhhhhhcC
Q psy7337 90 CLLCEVQLV--SNTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 90 C~~C~~~L~--~~~f~vFpCgH~FH~~CL~~~~ 120 (233)
|++|.. .. ..+-++.+|||+|-.+||.+..
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~ 32 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLS 32 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHH
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHH
Confidence 788888 42 2356778899999999998774
No 44
>KOG2879|consensus
Probab=94.73 E-value=0.018 Score=52.40 Aligned_cols=50 Identities=26% Similarity=0.503 Sum_probs=39.4
Q ss_pred cCCCchhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhh
Q psy7337 85 QNCDTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHM 153 (233)
Q Consensus 85 ~~~~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~ 153 (233)
..+..|++||.+= +-|++.-+|||.|-=-|+..... . -.+--||.||+..
T Consensus 237 t~~~~C~~Cg~~P-tiP~~~~~C~HiyCY~Ci~ts~~-----------------~-~asf~Cp~Cg~~~ 286 (298)
T KOG2879|consen 237 TSDTECPVCGEPP-TIPHVIGKCGHIYCYYCIATSRL-----------------W-DASFTCPLCGENV 286 (298)
T ss_pred cCCceeeccCCCC-CCCeeeccccceeehhhhhhhhc-----------------c-hhhcccCccCCCC
Confidence 3456799999996 89999999999999999987641 0 1134899999954
No 45
>KOG4739|consensus
Probab=94.65 E-value=0.014 Score=51.91 Aligned_cols=42 Identities=24% Similarity=0.643 Sum_probs=35.6
Q ss_pred chhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChh
Q psy7337 89 TCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSH 152 (233)
Q Consensus 89 ~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~ 152 (233)
.|..|+..=...+||+-.|+|+|-..|..... +..||+|+..
T Consensus 5 hCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~----------------------~~~C~lCkk~ 46 (233)
T KOG4739|consen 5 HCNKCFRFPSQDPFFLTACRHVFCEPCLKASS----------------------PDVCPLCKKS 46 (233)
T ss_pred EeccccccCCCCceeeeechhhhhhhhcccCC----------------------ccccccccce
Confidence 58888887778899999999999999987653 2499999985
No 46
>KOG2177|consensus
Probab=94.45 E-value=0.018 Score=48.89 Aligned_cols=43 Identities=28% Similarity=0.753 Sum_probs=35.6
Q ss_pred CCchhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCCh
Q psy7337 87 CDTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGS 151 (233)
Q Consensus 87 ~~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~ 151 (233)
.-.|++|...+ ..| .+.||||.|-..|+..... ....||.|..
T Consensus 13 ~~~C~iC~~~~-~~p-~~l~C~H~~c~~C~~~~~~--------------------~~~~Cp~cr~ 55 (386)
T KOG2177|consen 13 ELTCPICLEYF-REP-VLLPCGHNFCRACLTRSWE--------------------GPLSCPVCRP 55 (386)
T ss_pred cccChhhHHHh-hcC-ccccccchHhHHHHHHhcC--------------------CCcCCcccCC
Confidence 35799999998 666 9999999999999988742 2369999993
No 47
>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=94.10 E-value=0.026 Score=41.04 Aligned_cols=45 Identities=18% Similarity=0.308 Sum_probs=31.8
Q ss_pred CCchhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChh
Q psy7337 87 CDTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSH 152 (233)
Q Consensus 87 ~~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~ 152 (233)
.-.|++|+..+ ..|.+ .||||.|-+.|+..|+.. -...||+||..
T Consensus 4 ~f~CpIt~~lM-~dPVi-~~~G~tyer~~I~~~l~~-------------------~~~~~P~t~~~ 48 (73)
T PF04564_consen 4 EFLCPITGELM-RDPVI-LPSGHTYERSAIERWLEQ-------------------NGGTDPFTRQP 48 (73)
T ss_dssp GGB-TTTSSB--SSEEE-ETTSEEEEHHHHHHHHCT-------------------TSSB-TTT-SB
T ss_pred ccCCcCcCcHh-hCcee-CCcCCEEcHHHHHHHHHc-------------------CCCCCCCCCCc
Confidence 35799999987 67765 599999999999999621 13689999863
No 48
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.03 E-value=0.015 Score=60.50 Aligned_cols=51 Identities=24% Similarity=0.544 Sum_probs=36.5
Q ss_pred cccCCCchhhhhhccC----CCCeEEec-CCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCCh
Q psy7337 83 MIQNCDTCLLCEVQLV----SNTFYIFP-CGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGS 151 (233)
Q Consensus 83 iI~~~~~C~~C~~~L~----~~~f~vFp-CgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~ 151 (233)
.++.-..|++|-.-|. ..|----| |.|-||..||.+|.... -.+-||+|+.
T Consensus 1465 ~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss------------------~~s~CPlCRs 1520 (1525)
T COG5219 1465 KFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASS------------------ARSNCPLCRS 1520 (1525)
T ss_pred hcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhc------------------CCCCCCcccc
Confidence 3455578999988774 34444444 99999999999997110 1378999984
No 49
>KOG3268|consensus
Probab=94.01 E-value=0.017 Score=49.79 Aligned_cols=40 Identities=30% Similarity=0.787 Sum_probs=28.0
Q ss_pred ecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhh
Q psy7337 105 FPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHM 153 (233)
Q Consensus 105 FpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~ 153 (233)
-.||..||+-||..|+ |.-+. +++. -+++-.+||+|++++
T Consensus 188 ~qCgkpFHqiCL~dWL----RgilT----sRQS-FdiiFGeCPYCS~Pi 227 (234)
T KOG3268|consen 188 IQCGKPFHQICLTDWL----RGILT----SRQS-FDIIFGECPYCSDPI 227 (234)
T ss_pred cccCCcHHHHHHHHHH----HHHhh----ccce-eeeeeccCCCCCCcc
Confidence 3499999999999997 22222 1233 346679999999854
No 50
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.63 E-value=0.027 Score=51.02 Aligned_cols=34 Identities=26% Similarity=0.511 Sum_probs=28.5
Q ss_pred cCCCchhhhhhccCCCCeEEecCCCccchhhhhh-cC
Q psy7337 85 QNCDTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQ-DL 120 (233)
Q Consensus 85 ~~~~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~-~~ 120 (233)
..+-+|.+|... ...+..-||||.|--.||.. |.
T Consensus 213 ~~d~kC~lC~e~--~~~ps~t~CgHlFC~~Cl~~~~t 247 (271)
T COG5574 213 LADYKCFLCLEE--PEVPSCTPCGHLFCLSCLLISWT 247 (271)
T ss_pred ccccceeeeecc--cCCcccccccchhhHHHHHHHHH
Confidence 446789999998 46677889999999999998 63
No 51
>KOG3970|consensus
Probab=93.58 E-value=0.034 Score=49.61 Aligned_cols=46 Identities=24% Similarity=0.409 Sum_probs=36.4
Q ss_pred HHHHHHHhcCcccccCCCchhhhhhccCCCCeEEecCCCccchhhhhhcC
Q psy7337 71 RNDIQACANRYHMIQNCDTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 71 ~~el~~l~~r~~iI~~~~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~ 120 (233)
+..|+=|+... .+..|.+|+.+|.....+-+-|-|.||-+||.++.
T Consensus 38 QSYLqWL~DsD----Y~pNC~LC~t~La~gdt~RLvCyhlfHW~Clnera 83 (299)
T KOG3970|consen 38 QSYLQWLQDSD----YNPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERA 83 (299)
T ss_pred HHHHHHHhhcC----CCCCCceeCCccccCcceeehhhhhHHHHHhhHHH
Confidence 34445554432 23579999999999999999999999999999885
No 52
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=93.42 E-value=0.037 Score=38.84 Aligned_cols=33 Identities=24% Similarity=0.440 Sum_probs=26.2
Q ss_pred CCchhhhhhccCCCCeEEecCCCccchhhhhhcC
Q psy7337 87 CDTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 87 ~~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~ 120 (233)
+..|++..+++ ..|+.--.|||.|-+..+.+++
T Consensus 11 ~~~CPiT~~~~-~~PV~s~~C~H~fek~aI~~~i 43 (57)
T PF11789_consen 11 SLKCPITLQPF-EDPVKSKKCGHTFEKEAILQYI 43 (57)
T ss_dssp -SB-TTTSSB--SSEEEESSS--EEEHHHHHHHC
T ss_pred ccCCCCcCChh-hCCcCcCCCCCeecHHHHHHHH
Confidence 46899999998 8999999999999999999997
No 53
>PHA02862 5L protein; Provisional
Probab=93.41 E-value=0.017 Score=48.05 Aligned_cols=55 Identities=22% Similarity=0.432 Sum_probs=39.0
Q ss_pred CCchhhhhhccCCCCeEEecCCC-----ccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCCh-hhhhhhhcc
Q psy7337 87 CDTCLLCEVQLVSNTFYIFPCGH-----TFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGS-HMIEKESKK 160 (233)
Q Consensus 87 ~~~C~~C~~~L~~~~f~vFpCgH-----~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~-~~i~~Id~p 160 (233)
++.|.+|...- +.. +-||+- ..|+.||.+|+++.+ ...|++|+. ..++..-+|
T Consensus 2 ~diCWIC~~~~-~e~--~~PC~C~GS~K~VHq~CL~~WIn~S~------------------k~~CeLCkteY~Ik~~yKp 60 (156)
T PHA02862 2 SDICWICNDVC-DER--NNFCGCNEEYKVVHIKCMQLWINYSK------------------KKECNLCKTKYNIKKTYVS 60 (156)
T ss_pred CCEEEEecCcC-CCC--cccccccCcchhHHHHHHHHHHhcCC------------------CcCccCCCCeEEEEEcccc
Confidence 46799999985 333 367654 689999999984321 379999997 556666666
Q ss_pred CC
Q psy7337 161 EG 162 (233)
Q Consensus 161 f~ 162 (233)
|.
T Consensus 61 f~ 62 (156)
T PHA02862 61 FK 62 (156)
T ss_pred HH
Confidence 65
No 54
>PF04641 Rtf2: Rtf2 RING-finger
Probab=93.33 E-value=0.066 Score=48.04 Aligned_cols=46 Identities=24% Similarity=0.599 Sum_probs=33.9
Q ss_pred CchhhhhhccCC-CCeEEe-cCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhhh
Q psy7337 88 DTCLLCEVQLVS-NTFYIF-PCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHMI 154 (233)
Q Consensus 88 ~~C~~C~~~L~~-~~f~vF-pCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~i 154 (233)
-.|++++..+.+ .+|+++ ||||+|=..||.+-- -...||+||.+.-
T Consensus 114 ~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k---------------------~~~~Cp~c~~~f~ 161 (260)
T PF04641_consen 114 FICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK---------------------KSKKCPVCGKPFT 161 (260)
T ss_pred eECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc---------------------ccccccccCCccc
Confidence 469999999853 466655 799999988886541 0256999998544
No 55
>KOG2079|consensus
Probab=93.22 E-value=0.29 Score=51.82 Aligned_cols=86 Identities=15% Similarity=0.262 Sum_probs=64.4
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHhcCcccccCCCchhhhhhccCC-CCeEEec-CCC
Q psy7337 33 TCMDQFKHAICASLEQYNQHIVDLKEDMSEATRSAEQVRNDI-QACANRYHMIQNCDTCLLCEVQLVS-NTFYIFP-CGH 109 (233)
Q Consensus 33 v~I~~fKd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el-~~l~~r~~iI~~~~~C~~C~~~L~~-~~f~vFp-CgH 109 (233)
++.+++|+.+...++.|..+-+..+..+.....+.-.+..+. ..+.+|..-+.. ..|.+|++++.. ..-++|. |||
T Consensus 1079 ~tf~D~kqlLl~~~~s~~~e~el~~~s~kii~~~~l~l~~~~r~~~shr~~~iht-~~c~~c~q~~~~h~~~~~Fl~wgh 1157 (1206)
T KOG2079|consen 1079 MTFQDLKQLLLNVFNSYKLERELSELSQKIIEDSSLDLVQQYRKFLSHRGWSIHT-DDCEICGQKIWAHLDPLLFLAWGH 1157 (1206)
T ss_pred eehhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHhhccCceecC-cchHhhhhhhhccCcchheeeccc
Confidence 577999999999999999998887777777644444444433 344556666654 679999999963 3566777 999
Q ss_pred ccchhhhhhc
Q psy7337 110 TFHSHCIVQD 119 (233)
Q Consensus 110 ~FH~~CL~~~ 119 (233)
.-|..|...-
T Consensus 1158 ~qh~qc~~~~ 1167 (1206)
T KOG2079|consen 1158 VQHHQCMISV 1167 (1206)
T ss_pred hhhHHHHHHH
Confidence 9999998654
No 56
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=92.32 E-value=0.11 Score=36.35 Aligned_cols=33 Identities=21% Similarity=0.675 Sum_probs=28.0
Q ss_pred CCchhhhhhccC-CCCeEEec-CCCccchhhhhhc
Q psy7337 87 CDTCLLCEVQLV-SNTFYIFP-CGHTFHSHCIVQD 119 (233)
Q Consensus 87 ~~~C~~C~~~L~-~~~f~vFp-CgH~FH~~CL~~~ 119 (233)
+.+|..|++++. ....++-| ||-.||++|-...
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~ 39 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKA 39 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhhC
Confidence 468999999997 56778888 9999999997654
No 57
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=91.13 E-value=0.13 Score=36.06 Aligned_cols=43 Identities=28% Similarity=0.847 Sum_probs=32.2
Q ss_pred cCCCchhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCCh
Q psy7337 85 QNCDTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGS 151 (233)
Q Consensus 85 ~~~~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~ 151 (233)
.+.+.|-.|+.. ...-.+.||||..-..|..-+ + -+-||+||.
T Consensus 5 ~~~~~~~~~~~~--~~~~~~~pCgH~I~~~~f~~~--------------------r--YngCPfC~~ 47 (55)
T PF14447_consen 5 QPEQPCVFCGFV--GTKGTVLPCGHLICDNCFPGE--------------------R--YNGCPFCGT 47 (55)
T ss_pred ccceeEEEcccc--ccccccccccceeeccccChh--------------------h--ccCCCCCCC
Confidence 345678888876 455678999999988887544 1 279999996
No 58
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=91.04 E-value=0.07 Score=46.82 Aligned_cols=43 Identities=28% Similarity=0.739 Sum_probs=33.8
Q ss_pred chhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhh
Q psy7337 89 TCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHM 153 (233)
Q Consensus 89 ~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~ 153 (233)
.|.+|.+.. ..-+|-.|||.|...|....+.. +.+|..||..+
T Consensus 198 ~C~iCKkdy--~spvvt~CGH~FC~~Cai~~y~k--------------------g~~C~~Cgk~t 240 (259)
T COG5152 198 LCGICKKDY--ESPVVTECGHSFCSLCAIRKYQK--------------------GDECGVCGKAT 240 (259)
T ss_pred eehhchhhc--cchhhhhcchhHHHHHHHHHhcc--------------------CCcceecchhh
Confidence 799999885 33467789999999999877611 47999999754
No 59
>KOG0269|consensus
Probab=91.03 E-value=0.41 Score=49.04 Aligned_cols=33 Identities=18% Similarity=0.455 Sum_probs=25.6
Q ss_pred CchhhhhhccCCCCeEEecCCCccchhhhhhcC
Q psy7337 88 DTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 88 ~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~ 120 (233)
..|.+|+..|.+--++.--|||.-|..|+.+|.
T Consensus 780 ~~CtVC~~vi~G~~~~c~~C~H~gH~sh~~sw~ 812 (839)
T KOG0269|consen 780 AKCTVCDLVIRGVDVWCQVCGHGGHDSHLKSWF 812 (839)
T ss_pred cCceeecceeeeeEeecccccccccHHHHHHHH
Confidence 357777777755555555699999999999996
No 60
>KOG1039|consensus
Probab=90.55 E-value=0.12 Score=48.64 Aligned_cols=56 Identities=27% Similarity=0.627 Sum_probs=40.1
Q ss_pred cCCCchhhhhhccCCCC-----eEEec-CCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhh
Q psy7337 85 QNCDTCLLCEVQLVSNT-----FYIFP-CGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHM 153 (233)
Q Consensus 85 ~~~~~C~~C~~~L~~~~-----f~vFp-CgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~ 153 (233)
.....|.+|...+...+ |-+.| |.|+|-..|+..|....+ ...-+...||+|.-.+
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q-------------~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQ-------------FESKTSKSCPFCRVPS 220 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhc-------------cccccccCCCcccCcc
Confidence 34578999999997666 65556 999999999999951110 0222358999997643
No 61
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=90.40 E-value=0.14 Score=47.39 Aligned_cols=33 Identities=36% Similarity=0.733 Sum_probs=26.4
Q ss_pred CCCchhhhhhccCCCCeEEecCCCccchhhhhhcC
Q psy7337 86 NCDTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 86 ~~~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~ 120 (233)
...+|-+|...+ .-| ..-+|||.|..-|+..++
T Consensus 24 s~lrC~IC~~~i-~ip-~~TtCgHtFCslCIR~hL 56 (391)
T COG5432 24 SMLRCRICDCRI-SIP-CETTCGHTFCSLCIRRHL 56 (391)
T ss_pred hHHHhhhhhhee-ecc-eecccccchhHHHHHHHh
Confidence 346899999986 333 456899999999999887
No 62
>KOG1645|consensus
Probab=90.22 E-value=0.17 Score=48.50 Aligned_cols=56 Identities=25% Similarity=0.597 Sum_probs=41.7
Q ss_pred CCchhhhhhccC---CCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhhhhhhhcc
Q psy7337 87 CDTCLLCEVQLV---SNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHMIEKESKK 160 (233)
Q Consensus 87 ~~~C~~C~~~L~---~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~i~~Id~p 160 (233)
+..|++|..... ++..+...|||.|-.+|+..|+. .+-+.-||+|..-+...+=.|
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~------------------k~~~~~cp~c~~katkr~i~~ 62 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLG------------------KKTKMQCPLCSGKATKRQIRP 62 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHh------------------hhhhhhCcccCChhHHHHHHH
Confidence 578999998874 35577777999999999999972 233578999988554444333
No 63
>KOG2932|consensus
Probab=89.20 E-value=0.19 Score=46.80 Aligned_cols=43 Identities=26% Similarity=0.658 Sum_probs=31.1
Q ss_pred chhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhhh
Q psy7337 89 TCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHMI 154 (233)
Q Consensus 89 ~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~i 154 (233)
-|..|+.+|.-. --..||.|+|--+|....- -+.||+|.+.+.
T Consensus 92 fCd~Cd~PI~IY-GRmIPCkHvFCl~CAr~~~----------------------dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 92 FCDRCDFPIAIY-GRMIPCKHVFCLECARSDS----------------------DKICPLCDDRVQ 134 (389)
T ss_pred eecccCCcceee-ecccccchhhhhhhhhcCc----------------------cccCcCcccHHH
Confidence 499999998311 1257899999888876541 268999998543
No 64
>KOG1785|consensus
Probab=88.54 E-value=0.21 Score=47.90 Aligned_cols=65 Identities=22% Similarity=0.539 Sum_probs=45.0
Q ss_pred CchhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhh---hhhhhccCCCC
Q psy7337 88 DTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHM---IEKESKKEGGD 164 (233)
Q Consensus 88 ~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~---i~~Id~pf~~~ 164 (233)
+.|-+|... +...-+=||||.....||..|-. -++ +.-||+|..-+ -..|-.||-.-
T Consensus 370 eLCKICaen--dKdvkIEPCGHLlCt~CLa~WQ~----------------sd~--gq~CPFCRcEIKGte~viid~F~pr 429 (563)
T KOG1785|consen 370 ELCKICAEN--DKDVKIEPCGHLLCTSCLAAWQD----------------SDE--GQTCPFCRCEIKGTEPVIIDPFDPR 429 (563)
T ss_pred HHHHHhhcc--CCCcccccccchHHHHHHHhhcc----------------cCC--CCCCCceeeEeccccceeeeccCCC
Confidence 469999887 78899999999999999999941 122 58999997621 11222466655
Q ss_pred CCCchhhh
Q psy7337 165 GGGTEEKT 172 (233)
Q Consensus 165 ~~~~ee~~ 172 (233)
..+.+.+-
T Consensus 430 ~~~s~~~~ 437 (563)
T KOG1785|consen 430 PVGSEKRK 437 (563)
T ss_pred ccchhhcc
Confidence 55555553
No 65
>KOG4159|consensus
Probab=88.16 E-value=0.34 Score=46.44 Aligned_cols=47 Identities=32% Similarity=0.783 Sum_probs=35.5
Q ss_pred cCCCchhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhh
Q psy7337 85 QNCDTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHM 153 (233)
Q Consensus 85 ~~~~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~ 153 (233)
..+-.|.+|...+ -.|... ||||+|-..||.+-++ ...+||+|....
T Consensus 82 ~sef~c~vc~~~l-~~pv~t-pcghs~c~~Cl~r~ld--------------------~~~~cp~Cr~~l 128 (398)
T KOG4159|consen 82 RSEFECCVCSRAL-YPPVVT-PCGHSFCLECLDRSLD--------------------QETECPLCRDEL 128 (398)
T ss_pred cchhhhhhhHhhc-CCCccc-cccccccHHHHHHHhc--------------------cCCCCccccccc
Confidence 4557799997776 566666 9999999999887542 147999988733
No 66
>KOG0287|consensus
Probab=87.46 E-value=0.3 Score=46.07 Aligned_cols=32 Identities=38% Similarity=0.628 Sum_probs=26.2
Q ss_pred CCchhhhhhccCCCCeEEecCCCccchhhhhhcC
Q psy7337 87 CDTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 87 ~~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~ 120 (233)
--+|.+|...+ .-|+ +-||||.|..-|+..++
T Consensus 23 lLRC~IC~eyf-~ip~-itpCsHtfCSlCIR~~L 54 (442)
T KOG0287|consen 23 LLRCGICFEYF-NIPM-ITPCSHTFCSLCIRKFL 54 (442)
T ss_pred HHHHhHHHHHh-cCce-eccccchHHHHHHHHHh
Confidence 35899999986 5554 45799999999998886
No 67
>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=87.20 E-value=0.35 Score=29.55 Aligned_cols=28 Identities=18% Similarity=0.545 Sum_probs=22.2
Q ss_pred chhhhhhccCCCCeEEecCCCccchhhh
Q psy7337 89 TCLLCEVQLVSNTFYIFPCGHTFHSHCI 116 (233)
Q Consensus 89 ~C~~C~~~L~~~~f~vFpCgH~FH~~CL 116 (233)
+|..|++++.....++..=+..||.+|+
T Consensus 1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf 28 (39)
T smart00132 1 KCAGCGKPIRGGELVLRALGKVWHPECF 28 (39)
T ss_pred CccccCCcccCCcEEEEeCCccccccCC
Confidence 5899999997664555555999999997
No 68
>KOG1428|consensus
Probab=85.77 E-value=0.24 Score=54.27 Aligned_cols=63 Identities=24% Similarity=0.534 Sum_probs=40.9
Q ss_pred cCCCchhhhhhc-cCCCCeEEecCCCccchhhhhh-----cCChHHHhhccccccchhhHhhhhhCCCCCCChhhhhhhh
Q psy7337 85 QNCDTCLLCEVQ-LVSNTFYIFPCGHTFHSHCIVQ-----DLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHMIEKES 158 (233)
Q Consensus 85 ~~~~~C~~C~~~-L~~~~f~vFpCgH~FH~~CL~~-----~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~i~~Id 158 (233)
+.++.|-+|-.. |...|.+-+.|||.||-.|... |+.| ||.- .. -.||+|-..+-..+-
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GP----RItF---------~F--isCPiC~n~InH~~L 3548 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGP----RITF---------GF--ISCPICKNKINHIVL 3548 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCC----eeEE---------ee--eecccccchhhhHHH
Confidence 345567777544 4457899999999999999864 4444 2210 11 489999876555554
Q ss_pred ccCC
Q psy7337 159 KKEG 162 (233)
Q Consensus 159 ~pf~ 162 (233)
+.++
T Consensus 3549 kDLl 3552 (3738)
T KOG1428|consen 3549 KDLL 3552 (3738)
T ss_pred HHHH
Confidence 5444
No 69
>KOG4275|consensus
Probab=85.35 E-value=0.48 Score=43.83 Aligned_cols=46 Identities=22% Similarity=0.603 Sum_probs=32.6
Q ss_pred CCchhhhhhccCCCCeEEecCCCccc-hhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhhhhhhh
Q psy7337 87 CDTCLLCEVQLVSNTFYIFPCGHTFH-SHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHMIEKES 158 (233)
Q Consensus 87 ~~~C~~C~~~L~~~~f~vFpCgH~FH-~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~i~~Id 158 (233)
...|++|-.. ...-+.++|||..- ..|-. .| ++||+|...+++.+.
T Consensus 300 ~~LC~ICmDa--P~DCvfLeCGHmVtCt~CGk-rm-----------------------~eCPICRqyi~rvvr 346 (350)
T KOG4275|consen 300 RRLCAICMDA--PRDCVFLECGHMVTCTKCGK-RM-----------------------NECPICRQYIVRVVR 346 (350)
T ss_pred HHHHHHHhcC--CcceEEeecCcEEeehhhcc-cc-----------------------ccCchHHHHHHHHHh
Confidence 3569999876 45678889999872 22322 21 599999998887653
No 70
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=85.28 E-value=0.46 Score=37.31 Aligned_cols=32 Identities=16% Similarity=0.522 Sum_probs=30.4
Q ss_pred chhhhhhccCCCCeEEecCCCccchhhhhhcC
Q psy7337 89 TCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 89 ~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~ 120 (233)
+|.+||.++...+.+.|.=+-..|-.|+....
T Consensus 4 kC~iCg~~I~~gqlFTF~~kG~VH~~C~~~~~ 35 (101)
T PF09943_consen 4 KCYICGKPIYEGQLFTFTKKGPVHYECFREKA 35 (101)
T ss_pred EEEecCCeeeecceEEEecCCcEeHHHHHHHH
Confidence 69999999999999999999999999999876
No 71
>KOG4692|consensus
Probab=84.37 E-value=1.2 Score=42.40 Aligned_cols=82 Identities=22% Similarity=0.354 Sum_probs=50.5
Q ss_pred HHHHHHHHHHHHHHhcCcccccCCCchhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhh
Q psy7337 64 TRSAEQVRNDIQACANRYHMIQNCDTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLS 143 (233)
Q Consensus 64 ~~~~~~l~~el~~l~~r~~iI~~~~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila 143 (233)
.+.+..+...-...-+....-..++.|++|--. .-..+.-||||-=...|+.+.+. =.
T Consensus 399 ~r~~~~l~~~~~~~~~~~lp~sEd~lCpICyA~--pi~Avf~PC~H~SC~~CI~qHlm--------------------N~ 456 (489)
T KOG4692|consen 399 NRASSQLPERKEESFNKDLPDSEDNLCPICYAG--PINAVFAPCSHRSCYGCITQHLM--------------------NC 456 (489)
T ss_pred HHHHhhcchhhHHhhcCCCCCcccccCcceecc--cchhhccCCCCchHHHHHHHHHh--------------------cC
Confidence 333344433333333444443446789998643 22355668999999999998861 14
Q ss_pred CCCCCCChhhhhhhhccCCCCCCCchhhh
Q psy7337 144 RECPYCGSHMIEKESKKEGGDGGGTEEKT 172 (233)
Q Consensus 144 ~eCPlCG~~~i~~Id~pf~~~~~~~ee~~ 172 (233)
+.|.+|..-++. .+.+.+.+++.|
T Consensus 457 k~CFfCktTv~~-----~~ld~~~~~~~d 480 (489)
T KOG4692|consen 457 KRCFFCKTTVID-----VILDKEEEEEED 480 (489)
T ss_pred CeeeEecceeee-----hhcccccccccc
Confidence 799999875443 344556666666
No 72
>KOG1814|consensus
Probab=84.33 E-value=0.43 Score=45.86 Aligned_cols=33 Identities=24% Similarity=0.692 Sum_probs=29.1
Q ss_pred CchhhhhhccCC-CCeEEecCCCccchhhhhhcC
Q psy7337 88 DTCLLCEVQLVS-NTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 88 ~~C~~C~~~L~~-~~f~vFpCgH~FH~~CL~~~~ 120 (233)
-.|.+|-..-.+ .-|+..||+|.|-+.|+..+.
T Consensus 185 f~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~ 218 (445)
T KOG1814|consen 185 FDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYF 218 (445)
T ss_pred ccceeeehhhcCcceeeecccchHHHHHHHHHHH
Confidence 569999888666 789999999999999999886
No 73
>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=84.14 E-value=0.49 Score=38.92 Aligned_cols=32 Identities=16% Similarity=0.306 Sum_probs=29.0
Q ss_pred CchhhhhhccCC-CCeEEecCC------Cccchhhhhhc
Q psy7337 88 DTCLLCEVQLVS-NTFYIFPCG------HTFHSHCIVQD 119 (233)
Q Consensus 88 ~~C~~C~~~L~~-~~f~vFpCg------H~FH~~CL~~~ 119 (233)
..|++|-..|.. ..+++.+|| |.||.+|+.+|
T Consensus 27 ~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw 65 (134)
T PF05883_consen 27 VECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRW 65 (134)
T ss_pred eeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHH
Confidence 579999999976 689999998 78999999999
No 74
>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=84.04 E-value=0.5 Score=31.86 Aligned_cols=27 Identities=22% Similarity=0.584 Sum_probs=23.0
Q ss_pred hhhhhhccCCCCeEEecCCCccchhhh
Q psy7337 90 CLLCEVQLVSNTFYIFPCGHTFHSHCI 116 (233)
Q Consensus 90 C~~C~~~L~~~~f~vFpCgH~FH~~CL 116 (233)
|+.|+++|.....++-.-|..||..|+
T Consensus 1 C~~C~~~I~~~~~~~~~~~~~~H~~Cf 27 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKAMGKFWHPECF 27 (58)
T ss_dssp BTTTSSBESSSSEEEEETTEEEETTTS
T ss_pred CCCCCCCccCcEEEEEeCCcEEEcccc
Confidence 889999997677665678999999997
No 75
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=83.69 E-value=3.4 Score=35.82 Aligned_cols=31 Identities=23% Similarity=0.519 Sum_probs=20.1
Q ss_pred CchhhhhhccCCCCe---EE---ecCCCccchhhhhh
Q psy7337 88 DTCLLCEVQLVSNTF---YI---FPCGHTFHSHCIVQ 118 (233)
Q Consensus 88 ~~C~~C~~~L~~~~f---~v---FpCgH~FH~~CL~~ 118 (233)
..|.+|+.+=.-.|| .+ =.|+-.||+.|...
T Consensus 153 fiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~ 189 (202)
T PF13901_consen 153 FICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK 189 (202)
T ss_pred CCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC
Confidence 568888854222332 12 23999999999864
No 76
>KOG0825|consensus
Probab=83.35 E-value=0.34 Score=50.02 Aligned_cols=47 Identities=17% Similarity=0.253 Sum_probs=32.2
Q ss_pred CchhhhhhccCCCCeE--EecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhhhh
Q psy7337 88 DTCLLCEVQLVSNTFY--IFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHMIE 155 (233)
Q Consensus 88 ~~C~~C~~~L~~~~f~--vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~i~ 155 (233)
..|..|-+... ...+ --+|+|.||..|+..|- -++..||+|.-..-.
T Consensus 124 ~~CP~Ci~s~~-DqL~~~~k~c~H~FC~~Ci~sWs--------------------R~aqTCPiDR~EF~~ 172 (1134)
T KOG0825|consen 124 NQCPNCLKSCN-DQLEESEKHTAHYFCEECVGSWS--------------------RCAQTCPVDRGEFGE 172 (1134)
T ss_pred hhhhHHHHHHH-HHhhccccccccccHHHHhhhhh--------------------hhcccCchhhhhhhe
Confidence 45777766642 2222 23599999999999994 135799999865444
No 77
>KOG1813|consensus
Probab=83.17 E-value=0.47 Score=43.76 Aligned_cols=44 Identities=23% Similarity=0.615 Sum_probs=33.4
Q ss_pred CchhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhh
Q psy7337 88 DTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHM 153 (233)
Q Consensus 88 ~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~ 153 (233)
..|.+|.++. - .-+|-.|||.|-..|....+. + +..|++||..+
T Consensus 242 f~c~icr~~f-~-~pVvt~c~h~fc~~ca~~~~q---k-----------------~~~c~vC~~~t 285 (313)
T KOG1813|consen 242 FKCFICRKYF-Y-RPVVTKCGHYFCEVCALKPYQ---K-----------------GEKCYVCSQQT 285 (313)
T ss_pred cccccccccc-c-cchhhcCCceeehhhhccccc---c-----------------CCcceeccccc
Confidence 4599999985 2 335778999999999987751 1 36899999743
No 78
>KOG0309|consensus
Probab=82.39 E-value=0.45 Score=48.95 Aligned_cols=32 Identities=22% Similarity=0.680 Sum_probs=26.6
Q ss_pred chhhhhhccCCCCeEEecCCCccchhhhhhcC
Q psy7337 89 TCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 89 ~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~ 120 (233)
.|++|+..+.+.-++.-.|||+-|.+|..+|.
T Consensus 1030 ~C~~C~l~V~gss~~Cg~C~Hv~H~sc~~eWf 1061 (1081)
T KOG0309|consen 1030 QCAICHLAVRGSSNFCGTCGHVGHTSCMMEWF 1061 (1081)
T ss_pred eeeeEeeEeeccchhhccccccccHHHHHHHH
Confidence 46666666666778888999999999999996
No 79
>KOG4265|consensus
Probab=81.23 E-value=1 Score=42.39 Aligned_cols=51 Identities=25% Similarity=0.580 Sum_probs=35.8
Q ss_pred CCchhhhhhccCCCCeEEecCCCcc-chhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhhhhhhhc
Q psy7337 87 CDTCLLCEVQLVSNTFYIFPCGHTF-HSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHMIEKESK 159 (233)
Q Consensus 87 ~~~C~~C~~~L~~~~f~vFpCgH~F-H~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~i~~Id~ 159 (233)
+..|-+|-.. .+..++.||+|.. -..|...- -..++-||+|...+-.+++.
T Consensus 290 gkeCVIClse--~rdt~vLPCRHLCLCs~Ca~~L--------------------r~q~n~CPICRqpi~~ll~i 341 (349)
T KOG4265|consen 290 GKECVICLSE--SRDTVVLPCRHLCLCSGCAKSL--------------------RYQTNNCPICRQPIEELLEI 341 (349)
T ss_pred CCeeEEEecC--CcceEEecchhhehhHhHHHHH--------------------HHhhcCCCccccchHhhhee
Confidence 4679999887 7889999999973 33443222 14468999999866554443
No 80
>KOG2660|consensus
Probab=80.84 E-value=0.42 Score=44.57 Aligned_cols=46 Identities=39% Similarity=0.668 Sum_probs=36.5
Q ss_pred cCCCchhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCCh
Q psy7337 85 QNCDTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGS 151 (233)
Q Consensus 85 ~~~~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~ 151 (233)
.+-..|.+|+..| -.+.-+--|=|.|-+.||..++ .. ...||.|+-
T Consensus 13 n~~itC~LC~GYl-iDATTI~eCLHTFCkSCivk~l------------------~~--~~~CP~C~i 58 (331)
T KOG2660|consen 13 NPHITCRLCGGYL-IDATTITECLHTFCKSCIVKYL------------------EE--SKYCPTCDI 58 (331)
T ss_pred ccceehhhcccee-ecchhHHHHHHHHHHHHHHHHH------------------HH--hccCCccce
Confidence 3446899999988 5566667799999999999985 11 579999975
No 81
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=79.88 E-value=0.6 Score=39.49 Aligned_cols=55 Identities=20% Similarity=0.447 Sum_probs=35.9
Q ss_pred CCchhhhhhccCCCCeEEecC--CC---ccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCCh-hhhhhhhcc
Q psy7337 87 CDTCLLCEVQLVSNTFYIFPC--GH---TFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGS-HMIEKESKK 160 (233)
Q Consensus 87 ~~~C~~C~~~L~~~~f~vFpC--gH---~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~-~~i~~Id~p 160 (233)
+..|.+|...-. +. ..|| .. ..|+.||..|++.. =+..|++|+. ..+...-+|
T Consensus 8 ~~~CRIC~~~~~--~~-~~PC~CkGs~k~VH~sCL~rWi~~s------------------~~~~CeiC~~~Y~i~~~~kp 66 (162)
T PHA02825 8 DKCCWICKDEYD--VV-TNYCNCKNENKIVHKECLEEWINTS------------------KNKSCKICNGPYNIKKNYKK 66 (162)
T ss_pred CCeeEecCCCCC--Cc-cCCcccCCCchHHHHHHHHHHHhcC------------------CCCcccccCCeEEEEEecCC
Confidence 457999988742 32 3575 44 55999999998321 1479999998 334444445
Q ss_pred CC
Q psy7337 161 EG 162 (233)
Q Consensus 161 f~ 162 (233)
|.
T Consensus 67 l~ 68 (162)
T PHA02825 67 CT 68 (162)
T ss_pred Cc
Confidence 43
No 82
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=79.69 E-value=5.6 Score=35.73 Aligned_cols=12 Identities=42% Similarity=1.002 Sum_probs=9.6
Q ss_pred CCCCCCChhhhh
Q psy7337 144 RECPYCGSHMIE 155 (233)
Q Consensus 144 ~eCPlCG~~~i~ 155 (233)
..||.||.+.+.
T Consensus 222 v~CP~CgRILy~ 233 (239)
T COG1579 222 VFCPYCGRILYY 233 (239)
T ss_pred ccCCccchHHHh
Confidence 589999997654
No 83
>KOG1002|consensus
Probab=79.56 E-value=1.1 Score=44.62 Aligned_cols=31 Identities=26% Similarity=0.565 Sum_probs=27.6
Q ss_pred CchhhhhhccCCCCeEEecCCCccchhhhhhcC
Q psy7337 88 DTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 88 ~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~ 120 (233)
..|.+|+.+ ....++-.|.|.|.+-|+.+++
T Consensus 537 ~~C~lc~d~--aed~i~s~ChH~FCrlCi~eyv 567 (791)
T KOG1002|consen 537 VECGLCHDP--AEDYIESSCHHKFCRLCIKEYV 567 (791)
T ss_pred eeecccCCh--hhhhHhhhhhHHHHHHHHHHHH
Confidence 469999999 5778888999999999999887
No 84
>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=79.12 E-value=6.4 Score=31.07 Aligned_cols=33 Identities=18% Similarity=0.348 Sum_probs=24.1
Q ss_pred CCCchhhhhhcc---CCCCeEEecCCCccchhhhhh
Q psy7337 86 NCDTCLLCEVQL---VSNTFYIFPCGHTFHSHCIVQ 118 (233)
Q Consensus 86 ~~~~C~~C~~~L---~~~~f~vFpCgH~FH~~CL~~ 118 (233)
....|.+|+.++ .+....-..|+|.+-..|-..
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~ 88 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY 88 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc
Confidence 346899999984 356677888999999998765
No 85
>PF04363 DUF496: Protein of unknown function (DUF496); InterPro: IPR007458 Members of this family are uncharacterised proteins.
Probab=79.08 E-value=7.2 Score=30.05 Aligned_cols=64 Identities=8% Similarity=0.248 Sum_probs=45.2
Q ss_pred HHhhc--CCCChhhhhhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7337 13 FLDES--DLISIEDILPFFSDFTCMDQFKHAICASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQA 76 (233)
Q Consensus 13 ~l~es--~~L~ieDLLp~fpd~v~I~~fKd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~ 76 (233)
-+.+. .++.++.|..|+.+.+++.+++.-|.++-.+|...+...--.-.+..+.-..+.+.+..
T Consensus 27 KIRDNqKRV~LLdNL~~YI~~~Ms~edi~~II~nMr~DYEdRVDDyiIknAElsKeRReis~k~k~ 92 (95)
T PF04363_consen 27 KIRDNQKRVLLLDNLSDYIKPDMSIEDIRAIIENMRSDYEDRVDDYIIKNAELSKERREISKKIKE 92 (95)
T ss_pred HHhhhHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHhHHHHhHHHHHHhhHHHhHHHHHHHHHHHH
Confidence 34443 57779999999999999999999999999999998876333323334444444444443
No 86
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=78.30 E-value=1.1 Score=34.82 Aligned_cols=33 Identities=15% Similarity=0.463 Sum_probs=29.1
Q ss_pred CchhhhhhccCCCCeEEecCCCccchhhhhhcC
Q psy7337 88 DTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 88 ~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~ 120 (233)
-.|.+|+.++...+-+.|.=.-+.|-+|+....
T Consensus 7 wkC~VCg~~iieGqkFTF~~kGsVH~eCl~~s~ 39 (103)
T COG4847 7 WKCYVCGGTIIEGQKFTFTKKGSVHYECLAESK 39 (103)
T ss_pred eeEeeeCCEeeeccEEEEeeCCcchHHHHHHHH
Confidence 479999999998888888779999999998764
No 87
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=77.77 E-value=0.82 Score=29.90 Aligned_cols=9 Identities=56% Similarity=1.280 Sum_probs=7.9
Q ss_pred hCCCCCCCh
Q psy7337 143 SRECPYCGS 151 (233)
Q Consensus 143 a~eCPlCG~ 151 (233)
...||-||.
T Consensus 26 ~~~CP~Cg~ 34 (42)
T PF09723_consen 26 PVPCPECGS 34 (42)
T ss_pred CCcCCCCCC
Confidence 479999998
No 88
>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 PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=75.51 E-value=1.9 Score=25.90 Aligned_cols=28 Identities=25% Similarity=0.654 Sum_probs=10.8
Q ss_pred chhhhhhccCCCCeEEec-CCCccchhhh
Q psy7337 89 TCLLCEVQLVSNTFYIFP-CGHTFHSHCI 116 (233)
Q Consensus 89 ~C~~C~~~L~~~~f~vFp-CgH~FH~~CL 116 (233)
.|..|+.++.+..+|.=+ |.-.+|..|.
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhcC
Confidence 599999999663555444 9999999985
No 90
>PRK05423 hypothetical protein; Provisional
Probab=75.28 E-value=9.2 Score=29.85 Aligned_cols=60 Identities=8% Similarity=0.261 Sum_probs=43.8
Q ss_pred CCCChhhhhhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7337 18 DLISIEDILPFFSDFTCMDQFKHAICASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQAC 77 (233)
Q Consensus 18 ~~L~ieDLLp~fpd~v~I~~fKd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l 77 (233)
.++.++.|+.|+.+.+++.+++.-|-++-..|...+...--.-.+..+.-..+.+.|..+
T Consensus 41 RVlLLdNL~~YIk~~Ms~e~i~~II~nMr~DYEdRVDDyiIknAElSKeRReiskklk~~ 100 (104)
T PRK05423 41 RVLLLDNLSDYIKPGMSIEEIQGIIANMKSDYEDRVDDYIIKNAELSKERREISKKLKAM 100 (104)
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhhHHHhhHHHHHhhHHhhHHHHHHHHHHHHh
Confidence 578899999999999999999999999999999988764333333334444444444443
No 91
>KOG3113|consensus
Probab=72.48 E-value=2.4 Score=38.62 Aligned_cols=44 Identities=18% Similarity=0.450 Sum_probs=31.7
Q ss_pred CchhhhhhccCCC-Ce-EEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhh
Q psy7337 88 DTCLLCEVQLVSN-TF-YIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHM 153 (233)
Q Consensus 88 ~~C~~C~~~L~~~-~f-~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~ 153 (233)
..|++-|..+.+. .| +.-+|||+|-...|.+- -++.|+.||-..
T Consensus 112 fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei----------------------kas~C~~C~a~y 157 (293)
T KOG3113|consen 112 FICPVTGLEMNGKYRFCALRCCGCVFSERALKEI----------------------KASVCHVCGAAY 157 (293)
T ss_pred eecccccceecceEEEEEEeccceeccHHHHHHh----------------------hhccccccCCcc
Confidence 3599999998653 34 44559999977776443 368999999743
No 92
>KOG0297|consensus
Probab=72.28 E-value=1.9 Score=41.01 Aligned_cols=36 Identities=25% Similarity=0.647 Sum_probs=31.8
Q ss_pred ccCCCchhhhhhccCCCCeEEecCCCccchhhhhhcC
Q psy7337 84 IQNCDTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 84 I~~~~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~ 120 (233)
++.+..|++|...+ ..|+-.-.|||.|-..|+..++
T Consensus 18 ~~~~l~C~~C~~vl-~~p~~~~~cgh~fC~~C~~~~~ 53 (391)
T KOG0297|consen 18 LDENLLCPICMSVL-RDPVQTTTCGHRFCAGCLLESL 53 (391)
T ss_pred CcccccCccccccc-cCCCCCCCCCCcccccccchhh
Confidence 56678899999998 7777778899999999999986
No 93
>PF14353 CpXC: CpXC protein
Probab=71.39 E-value=0.92 Score=36.05 Aligned_cols=32 Identities=31% Similarity=0.518 Sum_probs=21.5
Q ss_pred ChHHHhhccccccchhhHhhhhhCCCCCCChhhhhhhhccCC
Q psy7337 121 DPEQKAKLDSEETGSEAVNNYLSRECPYCGSHMIEKESKKEG 162 (233)
Q Consensus 121 ~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~i~~Id~pf~ 162 (233)
.|+.+.+|.+ ..+..-.||-||... .++.||+
T Consensus 24 ~p~l~e~il~--------g~l~~~~CP~Cg~~~--~~~~p~l 55 (128)
T PF14353_consen 24 DPELKEKILD--------GSLFSFTCPSCGHKF--RLEYPLL 55 (128)
T ss_pred CHHHHHHHHc--------CCcCEEECCCCCCce--ecCCCEE
Confidence 5566666654 345567999999854 4667775
No 94
>KOG0311|consensus
Probab=71.28 E-value=0.63 Score=43.97 Aligned_cols=48 Identities=29% Similarity=0.587 Sum_probs=36.9
Q ss_pred CCchhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhhh
Q psy7337 87 CDTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHMI 154 (233)
Q Consensus 87 ~~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~i 154 (233)
.-.|++|..-| ....-+--|+|-|-.+|+...+ |. =.++||-|.....
T Consensus 43 ~v~c~icl~ll-k~tmttkeClhrfc~~ci~~a~------r~-------------gn~ecptcRk~l~ 90 (381)
T KOG0311|consen 43 QVICPICLSLL-KKTMTTKECLHRFCFDCIWKAL------RS-------------GNNECPTCRKKLV 90 (381)
T ss_pred hhccHHHHHHH-HhhcccHHHHHHHHHHHHHHHH------Hh-------------cCCCCchHHhhcc
Confidence 45799999887 6677777899999999998765 00 1379999987443
No 95
>KOG0824|consensus
Probab=71.27 E-value=1.6 Score=40.48 Aligned_cols=51 Identities=22% Similarity=0.395 Sum_probs=38.3
Q ss_pred CchhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhhhhhhhc
Q psy7337 88 DTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHMIEKESK 159 (233)
Q Consensus 88 ~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~i~~Id~ 159 (233)
..|.+|.... ..| +..+|+|.|---|+....- .+. .-|++|...+-..|+.
T Consensus 8 ~eC~IC~nt~-n~P-v~l~C~HkFCyiCiKGsy~-----------------ndk--~~CavCR~pids~i~~ 58 (324)
T KOG0824|consen 8 KECLICYNTG-NCP-VNLYCFHKFCYICIKGSYK-----------------NDK--KTCAVCRFPIDSTIDF 58 (324)
T ss_pred CcceeeeccC-CcC-ccccccchhhhhhhcchhh-----------------cCC--CCCceecCCCCcchhc
Confidence 4699999987 778 8889999999999985430 111 4699999866555543
No 96
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=70.70 E-value=4.7 Score=27.40 Aligned_cols=24 Identities=25% Similarity=0.483 Sum_probs=12.3
Q ss_pred HHHHHHHHHHhcCcccccCCCchhhhhhcc
Q psy7337 68 EQVRNDIQACANRYHMIQNCDTCLLCEVQL 97 (233)
Q Consensus 68 ~~l~~el~~l~~r~~iI~~~~~C~~C~~~L 97 (233)
..+.+.+..+.. ....|++|+++|
T Consensus 7 ~~~~k~i~~l~~------~~~~CPlC~r~l 30 (54)
T PF04423_consen 7 EELKKYIEELKE------AKGCCPLCGRPL 30 (54)
T ss_dssp HHHHHHHHHHTT-------SEE-TTT--EE
T ss_pred HHHHHHHHHHhc------CCCcCCCCCCCC
Confidence 344455555544 223899999998
No 97
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=70.51 E-value=3.5 Score=27.46 Aligned_cols=34 Identities=21% Similarity=0.459 Sum_probs=23.4
Q ss_pred CCCchhhhhhccCC--CCeEEec-CCCccchhhhhhc
Q psy7337 86 NCDTCLLCEVQLVS--NTFYIFP-CGHTFHSHCIVQD 119 (233)
Q Consensus 86 ~~~~C~~C~~~L~~--~~f~vFp-CgH~FH~~CL~~~ 119 (233)
....|..|++.|.+ .+-|.-. |+-.+|..|+..-
T Consensus 10 ~~~~C~~C~~~i~g~~~~g~~C~~C~~~~H~~C~~~~ 46 (53)
T PF00130_consen 10 KPTYCDVCGKFIWGLGKQGYRCSWCGLVCHKKCLSKV 46 (53)
T ss_dssp STEB-TTSSSBECSSSSCEEEETTTT-EEETTGGCTS
T ss_pred CCCCCcccCcccCCCCCCeEEECCCCChHhhhhhhhc
Confidence 44789999999943 3333333 9999999999764
No 98
>KOG3039|consensus
Probab=70.41 E-value=3.2 Score=37.73 Aligned_cols=34 Identities=15% Similarity=0.306 Sum_probs=25.4
Q ss_pred eEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhhhh
Q psy7337 102 FYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHMIE 155 (233)
Q Consensus 102 f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~i~ 155 (233)
.++=||||+|-.+|....+.. -.-||+||.++-.
T Consensus 238 a~Lr~sg~Vv~~ecvEklir~--------------------D~v~pv~d~plkd 271 (303)
T KOG3039|consen 238 AVLRPSGHVVTKECVEKLIRK--------------------DMVDPVTDKPLKD 271 (303)
T ss_pred EEeccCCcEeeHHHHHHhccc--------------------cccccCCCCcCcc
Confidence 456679999999999887621 1469999986543
No 99
>KOG3799|consensus
Probab=69.45 E-value=28 Score=29.07 Aligned_cols=35 Identities=17% Similarity=0.337 Sum_probs=20.5
Q ss_pred ccccCCCchhhhhhccCCC--CeEEecCCCccchhhh
Q psy7337 82 HMIQNCDTCLLCEVQLVSN--TFYIFPCGHTFHSHCI 116 (233)
Q Consensus 82 ~iI~~~~~C~~C~~~L~~~--~f~vFpCgH~FH~~CL 116 (233)
+-+..+..|.+|.+.-+.. ....|.|.-.|-+.|-
T Consensus 60 aGv~ddatC~IC~KTKFADG~GH~C~YCq~r~CARCG 96 (169)
T KOG3799|consen 60 AGVGDDATCGICHKTKFADGCGHNCSYCQTRFCARCG 96 (169)
T ss_pred cccCcCcchhhhhhcccccccCcccchhhhhHHHhcC
Confidence 5556678999999985422 2333444444444443
No 100
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=69.28 E-value=3.4 Score=27.26 Aligned_cols=32 Identities=16% Similarity=0.400 Sum_probs=23.1
Q ss_pred chhhhhhccCCCCeEEec-CCCccchhhhhhcC
Q psy7337 89 TCLLCEVQLVSNTFYIFP-CGHTFHSHCIVQDL 120 (233)
Q Consensus 89 ~C~~C~~~L~~~~f~vFp-CgH~FH~~CL~~~~ 120 (233)
.|.+|++.-....++.=. |+..||..|+....
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~ 33 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPE 33 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCCh
Confidence 488999955444444444 99999999997653
No 101
>KOG1940|consensus
Probab=67.46 E-value=3.1 Score=38.09 Aligned_cols=32 Identities=28% Similarity=0.702 Sum_probs=26.4
Q ss_pred chhhhhhccCC--CCeEEecCCCccchhhhhhcC
Q psy7337 89 TCLLCEVQLVS--NTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 89 ~C~~C~~~L~~--~~f~vFpCgH~FH~~CL~~~~ 120 (233)
.|++|..-++. ....+.+|||.-|..|+.+..
T Consensus 160 ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~ 193 (276)
T KOG1940|consen 160 NCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMI 193 (276)
T ss_pred CCchhHHHhccccccCCccCcccchHHHHHHHHh
Confidence 39999998864 356788899999999998774
No 102
>PF06676 DUF1178: Protein of unknown function (DUF1178); InterPro: IPR009562 This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown.
Probab=67.43 E-value=2.7 Score=35.15 Aligned_cols=26 Identities=23% Similarity=0.369 Sum_probs=17.4
Q ss_pred CCCCCCChhh-hhhhhccCCCCCCCch
Q psy7337 144 RECPYCGSHM-IEKESKKEGGDGGGTE 169 (233)
Q Consensus 144 ~eCPlCG~~~-i~~Id~pf~~~~~~~e 169 (233)
-.||.||... -+.+..|=+......+
T Consensus 33 v~CP~Cgs~~V~K~lmAP~v~~~~~~~ 59 (148)
T PF06676_consen 33 VSCPVCGSTEVSKALMAPAVATSRSKE 59 (148)
T ss_pred ccCCCCCCCeEeeecCCCeecCCCCCc
Confidence 4899999954 4556667766555543
No 103
>KOG1829|consensus
Probab=66.52 E-value=3.7 Score=41.24 Aligned_cols=14 Identities=29% Similarity=0.819 Sum_probs=12.3
Q ss_pred cCCCccchhhhhhc
Q psy7337 106 PCGHTFHSHCIVQD 119 (233)
Q Consensus 106 pCgH~FH~~CL~~~ 119 (233)
.|||.||..|+...
T Consensus 536 ~C~avfH~~C~~r~ 549 (580)
T KOG1829|consen 536 TCLAVFHKKCLRRK 549 (580)
T ss_pred HHHHHHHHHHHhcc
Confidence 49999999999765
No 104
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=65.58 E-value=2.4 Score=25.23 Aligned_cols=23 Identities=26% Similarity=0.606 Sum_probs=15.0
Q ss_pred chhhhhhccCCCCeEEecCCCcc
Q psy7337 89 TCLLCEVQLVSNTFYIFPCGHTF 111 (233)
Q Consensus 89 ~C~~C~~~L~~~~f~vFpCgH~F 111 (233)
.|+.|+..+....-+-=.|||.|
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCCC
Confidence 58888888743333333399988
No 105
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=65.19 E-value=5.4 Score=26.66 Aligned_cols=31 Identities=23% Similarity=0.485 Sum_probs=20.7
Q ss_pred hhhhhhccCCCCeEEecCCC-----ccchhhhhhcC
Q psy7337 90 CLLCEVQLVSNTFYIFPCGH-----TFHSHCIVQDL 120 (233)
Q Consensus 90 C~~C~~~L~~~~f~vFpCgH-----~FH~~CL~~~~ 120 (233)
|-+|...-...+.++-||+= ..|..||.+|+
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~ 36 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWI 36 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHH
T ss_pred CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHH
Confidence 56777776555567777543 67999999996
No 106
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=64.69 E-value=6.9 Score=36.61 Aligned_cols=32 Identities=41% Similarity=0.712 Sum_probs=25.8
Q ss_pred CchhhhhhccCCCCeEEecCCCccchhhhhhcC
Q psy7337 88 DTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 88 ~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~ 120 (233)
-.|.+|+..| -.|.-.=-|||.|...|+...+
T Consensus 275 LkCplc~~Ll-rnp~kT~cC~~~fc~eci~~al 306 (427)
T COG5222 275 LKCPLCHCLL-RNPMKTPCCGHTFCDECIGTAL 306 (427)
T ss_pred ccCcchhhhh-hCcccCccccchHHHHHHhhhh
Confidence 5799999887 5566664599999999998665
No 107
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=64.07 E-value=16 Score=31.02 Aligned_cols=13 Identities=15% Similarity=0.692 Sum_probs=10.8
Q ss_pred CCCChhhhhhcCC
Q psy7337 18 DLISIEDILPFFS 30 (233)
Q Consensus 18 ~~L~ieDLLp~fp 30 (233)
..|+|+|+|.|+-
T Consensus 78 ~~ltl~~vI~fLq 90 (161)
T TIGR02894 78 GSLTLQDVISFLQ 90 (161)
T ss_pred ccCCHHHHHHHHH
Confidence 5688999999984
No 108
>PF03979 Sigma70_r1_1: Sigma-70 factor, region 1.1; InterPro: IPR007127 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. This entry represents Region 1.1 which modulates DNA binding by region 2 and 4 when sigma is unbound by the core RNA polymerase [, ]. Region 1.1 is also involved in promoter binding.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2K6X_A.
Probab=62.77 E-value=10 Score=28.05 Aligned_cols=51 Identities=18% Similarity=0.183 Sum_probs=32.9
Q ss_pred hhHHHHHHHHhhcCCCChhhhhhcCCCccchhhHHHHHHHHHHHHHHHHHH
Q psy7337 5 NDIKTALEFLDESDLISIEDILPFFSDFTCMDQFKHAICASLEQYNQHIVD 55 (233)
Q Consensus 5 ~dI~~al~~l~es~~L~ieDLLp~fpd~v~I~~fKd~I~~sL~ey~~~Ie~ 55 (233)
..|+++|..-++.|.|+..+|..+||+...=..--+.|...|....-+|..
T Consensus 7 ~~i~~Li~~gK~~G~lT~~eI~~~L~~~~~~~e~id~i~~~L~~~gI~Vvd 57 (82)
T PF03979_consen 7 EAIKKLIEKGKKKGYLTYDEINDALPEDDLDPEQIDEIYDTLEDEGIEVVD 57 (82)
T ss_dssp HHHHHHHHHHHHHSS-BHHHHHHH-S-S---HHHHHHHHHHHHTT----B-
T ss_pred HHHHHHHHHHhhcCcCCHHHHHHHcCccCCCHHHHHHHHHHHHHCCCEEec
Confidence 357888888888899999999999997654455667888888887777654
No 109
>KOG1571|consensus
Probab=62.73 E-value=10 Score=35.91 Aligned_cols=22 Identities=32% Similarity=0.827 Sum_probs=17.9
Q ss_pred CchhhhhhccCCCCeEEecCCCcc
Q psy7337 88 DTCLLCEVQLVSNTFYIFPCGHTF 111 (233)
Q Consensus 88 ~~C~~C~~~L~~~~f~vFpCgH~F 111 (233)
.-|.+|...- ..++..||||..
T Consensus 306 ~lcVVcl~e~--~~~~fvpcGh~c 327 (355)
T KOG1571|consen 306 DLCVVCLDEP--KSAVFVPCGHVC 327 (355)
T ss_pred CceEEecCCc--cceeeecCCcEE
Confidence 5699998873 448899999995
No 110
>PHA03096 p28-like protein; Provisional
Probab=61.16 E-value=12 Score=34.40 Aligned_cols=33 Identities=21% Similarity=0.460 Sum_probs=26.9
Q ss_pred CchhhhhhccCC-----CCeEEec-CCCccchhhhhhcC
Q psy7337 88 DTCLLCEVQLVS-----NTFYIFP-CGHTFHSHCIVQDL 120 (233)
Q Consensus 88 ~~C~~C~~~L~~-----~~f~vFp-CgH~FH~~CL~~~~ 120 (233)
-.|.+|...+.. +.|=..+ |.|.|-..|+..|.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr 217 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWM 217 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHH
Confidence 469999988764 3465666 99999999999997
No 111
>KOG1100|consensus
Probab=60.19 E-value=5.2 Score=35.03 Aligned_cols=42 Identities=29% Similarity=0.599 Sum_probs=30.0
Q ss_pred hhhhhhccCCCCeEEecCCCccc-hhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhhhhhh
Q psy7337 90 CLLCEVQLVSNTFYIFPCGHTFH-SHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHMIEKE 157 (233)
Q Consensus 90 C~~C~~~L~~~~f~vFpCgH~FH-~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~i~~I 157 (233)
|-.|+.. .....+.||.|.-| ..|-.. ...||+|-.+....+
T Consensus 161 Cr~C~~~--~~~VlllPCrHl~lC~~C~~~------------------------~~~CPiC~~~~~s~~ 203 (207)
T KOG1100|consen 161 CRKCGER--EATVLLLPCRHLCLCGICDES------------------------LRICPICRSPKTSSV 203 (207)
T ss_pred ceecCcC--CceEEeecccceEeccccccc------------------------CccCCCCcChhhcee
Confidence 9999987 66699999999764 233221 257999988766544
No 112
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=59.34 E-value=4 Score=27.27 Aligned_cols=17 Identities=29% Similarity=0.620 Sum_probs=11.3
Q ss_pred CCCCCCChhhh-hhhhcc
Q psy7337 144 RECPYCGSHMI-EKESKK 160 (233)
Q Consensus 144 ~eCPlCG~~~i-~~Id~p 160 (233)
..||.||...+ +.|..|
T Consensus 27 ~~CP~Cg~~~~~r~~s~~ 44 (52)
T TIGR02605 27 ATCPECGGEKLRRLLSAV 44 (52)
T ss_pred CCCCCCCCCceeEEeccc
Confidence 57999998443 555544
No 113
>PF11571 Med27: Mediator complex subunit 27; InterPro: IPR021627 Mediator is a large complex of up to 33 proteins that is conserved from plants to fungi to humans - the number and representation of individual subunits varying with species. It is arranged into four different sections, a core, a head, a tail and a kinase-activity part, and the number of subunits within each of these is what varies with species. Overall, Mediator regulates the transcriptional activity of RNA polymerase II but it would appear that each of the four different sections has a slightly different function []. Mediator exists in two major forms in human cells: a smaller form that interacts strongly with pol II and activates transcription, and a large form that does not interact strongly with pol II and does not directly activate transcription. The ubiquitous expression of Med27 mRNA suggests a universal requirement for Med27 in transcriptional initiation. Loss of Crsp34/Med27 decreases amacrine cell number, but increases the number of rod photoreceptor cells [].
Probab=58.87 E-value=5.6 Score=30.11 Aligned_cols=29 Identities=17% Similarity=0.207 Sum_probs=21.8
Q ss_pred Cchhhhhhcc---CCCCeEEe----cCCCccchhhh
Q psy7337 88 DTCLLCEVQL---VSNTFYIF----PCGHTFHSHCI 116 (233)
Q Consensus 88 ~~C~~C~~~L---~~~~f~vF----pCgH~FH~~CL 116 (233)
..|..||+-| ...|-+.+ +-.++||..|.
T Consensus 55 ~pC~~C~klL~~~~~LPP~~r~~~~~~~~ayH~~C~ 90 (90)
T PF11571_consen 55 TPCKKCGKLLSSKAFLPPVRRPKDFRSWEAYHEGCR 90 (90)
T ss_pred chhhHHHhHhhhcccCCCeeecccCCCCcccCcccC
Confidence 6899999999 23455555 45689999993
No 114
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=58.62 E-value=4.6 Score=38.32 Aligned_cols=47 Identities=28% Similarity=0.645 Sum_probs=31.6
Q ss_pred CCCchhhhhhccC--CCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCCh
Q psy7337 86 NCDTCLLCEVQLV--SNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGS 151 (233)
Q Consensus 86 ~~~~C~~C~~~L~--~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~ 151 (233)
..+.|++|-.++- +..|+--|||....+-|-..- ..-|-.-||-|..
T Consensus 13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~i-------------------rq~lngrcpacrr 61 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNI-------------------RQNLNGRCPACRR 61 (480)
T ss_pred ccccCcccccccccccCCcccCCcccHHHHHHHHHH-------------------HhhccCCChHhhh
Confidence 3467999999975 456666667776666664321 1224579999986
No 115
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=58.52 E-value=5.3 Score=28.11 Aligned_cols=31 Identities=19% Similarity=0.357 Sum_probs=22.5
Q ss_pred CCchhhhhhccCC----CCeEEecCCCccchhhhh
Q psy7337 87 CDTCLLCEVQLVS----NTFYIFPCGHTFHSHCIV 117 (233)
Q Consensus 87 ~~~C~~C~~~L~~----~~f~vFpCgH~FH~~CL~ 117 (233)
++.|+.||..... +-|.-..||+.+|++-..
T Consensus 28 Sq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~na 62 (69)
T PF07282_consen 28 SQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVNA 62 (69)
T ss_pred ccCccCcccccccccccceEEcCCCCCEECcHHHH
Confidence 4679999998754 234445599999988643
No 116
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=56.27 E-value=6.3 Score=27.72 Aligned_cols=29 Identities=14% Similarity=0.324 Sum_probs=23.1
Q ss_pred hCCCCCCChhhhhhhhccCCCCCCCchhh
Q psy7337 143 SRECPYCGSHMIEKESKKEGGDGGGTEEK 171 (233)
Q Consensus 143 a~eCPlCG~~~i~~Id~pf~~~~~~~ee~ 171 (233)
...||.||.......-.+|..++.+..-+
T Consensus 17 k~~CP~CG~~t~~~~P~rfSp~D~y~~yR 45 (56)
T PRK13130 17 KEICPVCGGKTKNPHPPRFSPEDKYGKYR 45 (56)
T ss_pred cccCcCCCCCCCCCCCCCCCCCCccHHHH
Confidence 46899999988888888888777766655
No 117
>COG2926 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=54.29 E-value=56 Score=25.65 Aligned_cols=38 Identities=8% Similarity=0.286 Sum_probs=33.5
Q ss_pred CCCChhhhhhcCCCccchhhHHHHHHHHHHHHHHHHHH
Q psy7337 18 DLISIEDILPFFSDFTCMDQFKHAICASLEQYNQHIVD 55 (233)
Q Consensus 18 ~~L~ieDLLp~fpd~v~I~~fKd~I~~sL~ey~~~Ie~ 55 (233)
.++.+..|..|+.+++.+..++.-|-..=.+|...+..
T Consensus 41 RvlLLdNL~~Yik~~Ms~eei~~II~~MksDYEdRVDD 78 (109)
T COG2926 41 RVLLLDNLSDYIKPDMSIEEIQGIIESMKSDYEDRVDD 78 (109)
T ss_pred HHHHHHhHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 68888999999999999999998888888888888766
No 118
>KOG0827|consensus
Probab=54.15 E-value=7.4 Score=37.48 Aligned_cols=33 Identities=21% Similarity=0.418 Sum_probs=26.3
Q ss_pred CchhhhhhccCC--CCeEEecCCCccchhhhhhcC
Q psy7337 88 DTCLLCEVQLVS--NTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 88 ~~C~~C~~~L~~--~~f~vFpCgH~FH~~CL~~~~ 120 (233)
..|++|...|-. ...-...|||++|.+||.+|+
T Consensus 197 ~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L 231 (465)
T KOG0827|consen 197 GSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWL 231 (465)
T ss_pred hhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHH
Confidence 469999988732 234566799999999999998
No 119
>PRK12495 hypothetical protein; Provisional
Probab=53.71 E-value=37 Score=30.30 Aligned_cols=38 Identities=11% Similarity=0.164 Sum_probs=24.4
Q ss_pred HHHHhcCcccccCCCchhhhhhccCCCCeEEe--cCCCccc
Q psy7337 74 IQACANRYHMIQNCDTCLLCEVQLVSNTFYIF--PCGHTFH 112 (233)
Q Consensus 74 l~~l~~r~~iI~~~~~C~~C~~~L~~~~f~vF--pCgH~FH 112 (233)
|.+|-.+...+. ...|..||.||+..+-.+| .|++.+-
T Consensus 30 ma~lL~~gatms-a~hC~~CG~PIpa~pG~~~Cp~CQ~~~~ 69 (226)
T PRK12495 30 MSELLLQGATMT-NAHCDECGDPIFRHDGQEFCPTCQQPVT 69 (226)
T ss_pred HHHHHHhhcccc-hhhcccccCcccCCCCeeECCCCCCccc
Confidence 444433344443 3689999999986664444 3888775
No 120
>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=53.59 E-value=6.2 Score=24.76 Aligned_cols=10 Identities=40% Similarity=1.205 Sum_probs=8.0
Q ss_pred CCCCCCChhh
Q psy7337 144 RECPYCGSHM 153 (233)
Q Consensus 144 ~eCPlCG~~~ 153 (233)
..||-||..+
T Consensus 27 ~~CP~Cg~~~ 36 (41)
T smart00834 27 ATCPECGGDV 36 (41)
T ss_pred CCCCCCCCcc
Confidence 6899999843
No 121
>PRK02224 chromosome segregation protein; Provisional
Probab=53.50 E-value=26 Score=36.19 Aligned_cols=15 Identities=13% Similarity=0.388 Sum_probs=11.2
Q ss_pred CCchhhhhhccCCCC
Q psy7337 87 CDTCLLCEVQLVSNT 101 (233)
Q Consensus 87 ~~~C~~C~~~L~~~~ 101 (233)
...|+.|++++-..+
T Consensus 451 ~~~Cp~C~r~~~~~~ 465 (880)
T PRK02224 451 AGKCPECGQPVEGSP 465 (880)
T ss_pred cccCCCCCCcCCCcc
Confidence 468999999984433
No 122
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=53.47 E-value=6.3 Score=23.12 Aligned_cols=18 Identities=28% Similarity=0.744 Sum_probs=11.3
Q ss_pred hhhhhhccCCCC-eEEecC
Q psy7337 90 CLLCEVQLVSNT-FYIFPC 107 (233)
Q Consensus 90 C~~C~~~L~~~~-f~vFpC 107 (233)
|..|+..|..+. .+.|+|
T Consensus 1 C~sC~~~i~~r~~~v~f~C 19 (24)
T PF07754_consen 1 CTSCGRPIAPREQAVPFPC 19 (24)
T ss_pred CccCCCcccCcccCceEeC
Confidence 667777776554 566654
No 123
>cd04776 HTH_GnyR Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR. Putative helix-turn-helix (HTH) regulatory protein, GnyR, and other related proteins. GnyR belongs to the gnyRDBHAL cluster, which is involved in acyclic isoprenoid degradation in Pseudomonas aeruginosa. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=53.33 E-value=83 Score=24.69 Aligned_cols=66 Identities=12% Similarity=0.158 Sum_probs=31.4
Q ss_pred hHHHH--HHHHhhcCCCChhhhhhcCCCc----cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7337 6 DIKTA--LEFLDESDLISIEDILPFFSDF----TCMDQFKHAICASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQA 76 (233)
Q Consensus 6 dI~~a--l~~l~es~~L~ieDLLp~fpd~----v~I~~fKd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~ 76 (233)
||..+ |..+++.| +++++|-.++... .+.+.+. ..+..-..+++.+...+.........+...+..
T Consensus 41 ~l~~l~~I~~lr~~G-~~L~~I~~~l~~~~~~~~~~~~~~----~~~~~l~~~~~~l~~~~~~l~~~~~~L~~~~~~ 112 (118)
T cd04776 41 DRARLKLILRGKRLG-FSLEEIRELLDLYDPPGGNRKQLE----KMLEKIEKRRAELEQQRRDIDAALAELDAAEER 112 (118)
T ss_pred HHHHHHHHHHHHHCC-CCHHHHHHHHHhhccCCchHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444 34555554 6888887777532 1222222 223333444555555555444444444444433
No 124
>PF14255 Cys_rich_CPXG: Cysteine-rich CPXCG
Probab=51.33 E-value=4.2 Score=28.10 Aligned_cols=25 Identities=32% Similarity=0.658 Sum_probs=15.6
Q ss_pred CCCCCChhhhhhhhccCCCCCCCchh
Q psy7337 145 ECPYCGSHMIEKESKKEGGDGGGTEE 170 (233)
Q Consensus 145 eCPlCG~~~i~~Id~pf~~~~~~~ee 170 (233)
.||.||..+--.||..-. +.++.|+
T Consensus 2 ~CPyCge~~~~~iD~s~~-~Q~yiED 26 (52)
T PF14255_consen 2 QCPYCGEPIEILIDPSAG-DQEYIED 26 (52)
T ss_pred CCCCCCCeeEEEEecCCC-CeeEEee
Confidence 599999876666664433 4444444
No 125
>KOG0826|consensus
Probab=50.75 E-value=12 Score=35.29 Aligned_cols=44 Identities=23% Similarity=0.415 Sum_probs=37.8
Q ss_pred CchhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChh
Q psy7337 88 DTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSH 152 (233)
Q Consensus 88 ~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~ 152 (233)
..|++|.+.. ..|.+++--|-+|.-.|+..++.. ...||..|.+
T Consensus 301 ~~CpvClk~r-~Nptvl~vSGyVfCY~Ci~~Yv~~--------------------~~~CPVT~~p 344 (357)
T KOG0826|consen 301 EVCPVCLKKR-QNPTVLEVSGYVFCYPCIFSYVVN--------------------YGHCPVTGYP 344 (357)
T ss_pred ccChhHHhcc-CCCceEEecceEEeHHHHHHHHHh--------------------cCCCCccCCc
Confidence 5699999998 889999999999999999999721 3789999873
No 126
>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea. Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st
Probab=50.01 E-value=98 Score=23.63 Aligned_cols=45 Identities=13% Similarity=0.214 Sum_probs=31.8
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy7337 34 CMDQFKHAICASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQACA 78 (233)
Q Consensus 34 ~I~~fKd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l~ 78 (233)
+.+...+.|-+.++.....|..+...++........++.+|..+.
T Consensus 60 ~~~ea~~~Le~~~e~le~~i~~l~~~~~~l~~~~~elk~~l~~~~ 104 (105)
T cd00632 60 EKEEARTELKERLETIELRIKRLERQEEDLQEKLKELQEKIQQAQ 104 (105)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 346667777777777777777777777777777777777776653
No 127
>PF02186 TFIIE_beta: TFIIE beta subunit core domain; InterPro: IPR003166 Initiation of eukaryotic mRNA transcription requires melting of promoter DNA with the help of the general transcription factors TFIIE and TFIIH. In higher eukaryotes, the general transcription factor TFIIE consists of two subunits: the large alpha subunit (IPR002853 from INTERPRO) and the small beta (IPR003166 from INTERPRO). TFIIE beta has been found to bind to the region where the promoter starts to open to be single-stranded upon transcription initiation by RNA polymerase II. The approximately 120-residue central core domain of TFIIE beta plays a role in double-stranded DNA binding of TFIIE []. The TFIIE beta central core DNA-binding domain consists of three helices with a beta hairpin at the C terminus, resembling the winged helix proteins. It shows a novel double-stranded DNA-binding activity where the DNA-binding surface locates on the opposite side to the previously reported winged helix motif by forming a positively charged furrow []. This entry represents the beta subunit of the transcription factor TFIIE.; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005673 transcription factor TFIIE complex; PDB: 1D8K_A 1D8J_A.
Probab=49.91 E-value=19 Score=25.82 Aligned_cols=25 Identities=24% Similarity=0.650 Sum_probs=21.0
Q ss_pred hHHHHHHHHhhc-CCCChhhhhhcCC
Q psy7337 6 DIKTALEFLDES-DLISIEDILPFFS 30 (233)
Q Consensus 6 dI~~al~~l~es-~~L~ieDLLp~fp 30 (233)
-+..|+++|++. ..++++||+.+++
T Consensus 6 ql~~~VeymK~r~~Plt~~eI~d~l~ 31 (65)
T PF02186_consen 6 QLAKAVEYMKKRDHPLTLEEILDYLS 31 (65)
T ss_dssp HHHHHHHHHHHH-S-B-HHHHHHHHT
T ss_pred HHHHHHHHHHhcCCCcCHHHHHHHHc
Confidence 467899999998 8999999999999
No 128
>KOG4172|consensus
Probab=49.53 E-value=4.9 Score=28.45 Aligned_cols=50 Identities=22% Similarity=0.572 Sum_probs=30.7
Q ss_pred CCchhhhhhccCCCCeEEecCCCcc-chhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhhhhhh
Q psy7337 87 CDTCLLCEVQLVSNTFYIFPCGHTF-HSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHMIEKE 157 (233)
Q Consensus 87 ~~~C~~C~~~L~~~~f~vFpCgH~F-H~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~i~~I 157 (233)
++.|.+|-.. .-..+++.|||.. --+|-.+ +..-+..-||+|..++-..|
T Consensus 7 ~dECTICye~--pvdsVlYtCGHMCmCy~Cg~r-------------------l~~~~~g~CPiCRapi~dvI 57 (62)
T KOG4172|consen 7 SDECTICYEH--PVDSVLYTCGHMCMCYACGLR-------------------LKKALHGCCPICRAPIKDVI 57 (62)
T ss_pred ccceeeeccC--cchHHHHHcchHHhHHHHHHH-------------------HHHccCCcCcchhhHHHHHH
Confidence 3679999765 2345778899974 2233222 22235689999987654433
No 129
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=49.25 E-value=7.8 Score=34.21 Aligned_cols=29 Identities=24% Similarity=0.423 Sum_probs=20.5
Q ss_pred CchhhhhhccCCCCeEEecCCCccchhhhh
Q psy7337 88 DTCLLCEVQLVSNTFYIFPCGHTFHSHCIV 117 (233)
Q Consensus 88 ~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~ 117 (233)
..|+.||. +..+.|..=.|||.+|++=..
T Consensus 310 ~~C~~cg~-~~~r~~~C~~cg~~~~rD~na 338 (364)
T COG0675 310 KTCPCCGH-LSGRLFKCPRCGFVHDRDVNA 338 (364)
T ss_pred ccccccCC-ccceeEECCCCCCeehhhHHH
Confidence 67999999 433444444499999988443
No 130
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=48.66 E-value=15 Score=38.02 Aligned_cols=78 Identities=23% Similarity=0.293 Sum_probs=41.8
Q ss_pred hhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhhhhhhhccCCC--CCCC-chhhhccchhhhh-----hCC-c
Q psy7337 114 HCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHMIEKESKKEGG--DGGG-TEEKTKVNDERVE-----KKP-K 184 (233)
Q Consensus 114 ~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~i~~Id~pf~~--~~~~-~ee~~~~~~~~~~-----~~~-~ 184 (233)
.|..++-+|..|+...+ ...||.||.. .+.. +++. .+...++..+..- .+- +
T Consensus 156 ~C~~EY~dP~nRRfHAQ------------p~aCp~CGP~-------~~l~~~~g~~~~~~~~ai~~a~klL~~G~IvAIK 216 (750)
T COG0068 156 FCDKEYKDPLNRRFHAQ------------PIACPKCGPH-------LFLVNHDGEAIAEANEAIRKAAKLLKVGKIVAIK 216 (750)
T ss_pred HHHHHhcCccccccccc------------cccCcccCCC-------eEEEcCCCcchhhhhHHHHHHHHHHhhCCEEEEe
Confidence 45555545544444443 4799999983 2333 2221 1111133222221 222 7
Q ss_pred cchhHhHhhccccccchhhhhhhHHHHHhhhhhee
Q psy7337 185 ALEKEEREVKMEGKEMKEEEEDKDVVEKKRKRYLR 219 (233)
Q Consensus 185 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 219 (233)
.+++||-.-+.. +.++|++-|+|--|
T Consensus 217 GiGGFhLaCda~---------~~eaV~~LR~rk~R 242 (750)
T COG0068 217 GIGGFHLACDAR---------NEEAVAKLRKRKNR 242 (750)
T ss_pred ecCceeeeecCC---------chHHHHHHHHhcCC
Confidence 788888776643 34678888887655
No 131
>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=48.44 E-value=38 Score=35.59 Aligned_cols=13 Identities=23% Similarity=0.631 Sum_probs=10.5
Q ss_pred CCCchhhhhhccC
Q psy7337 86 NCDTCLLCEVQLV 98 (233)
Q Consensus 86 ~~~~C~~C~~~L~ 98 (233)
++..|++||.++.
T Consensus 456 ~~~~CPvCg~~l~ 468 (908)
T COG0419 456 AGEKCPVCGQELP 468 (908)
T ss_pred CCCCCCCCCCCCC
Confidence 3678999998873
No 132
>cd04787 HTH_HMRTR_unk Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators. Putative helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR), unknown subgroup. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules, such as, metal ions, drugs, and organic substrates. This subgroup lacks one of the c
Probab=48.03 E-value=1.4e+02 Score=23.78 Aligned_cols=59 Identities=12% Similarity=0.204 Sum_probs=29.8
Q ss_pred HHHHhhcCCCChhhhhhcCCCcc----chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7337 11 LEFLDESDLISIEDILPFFSDFT----CMDQFKHAICASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQAC 77 (233)
Q Consensus 11 l~~l~es~~L~ieDLLp~fpd~v----~I~~fKd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l 77 (233)
|..+++.| +++++|-.++.... ....++..+ ..+++.+...+....+....+...+...
T Consensus 50 I~~lr~~G-~sL~eI~~~l~~~~~~~~~~~~~~~~l-------~~~~~~l~~~i~~l~~~~~~l~~~~~~~ 112 (133)
T cd04787 50 ILSARQLG-FSLKDIKEILSHADQGESPCPMVRRLI-------EQRLAETERRIKELLKLRDRMQQAVSQW 112 (133)
T ss_pred HHHHHHcC-CCHHHHHHHHhhhccCCCcHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555 88888888776321 112233222 3445555555555555444454444444
No 133
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=47.97 E-value=9.9 Score=36.26 Aligned_cols=45 Identities=29% Similarity=0.766 Sum_probs=31.9
Q ss_pred CCchhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCCh
Q psy7337 87 CDTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGS 151 (233)
Q Consensus 87 ~~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~ 151 (233)
++.|.+|...+. =.-+.||||-.-.-|.... | -| +-.++||+|..
T Consensus 61 n~~C~ICA~~~T--Ys~~~PC~H~~CH~Ca~Rl-----R-AL------------Y~~K~C~~CrT 105 (493)
T COG5236 61 NMNCQICAGSTT--YSARYPCGHQICHACAVRL-----R-AL------------YMQKGCPLCRT 105 (493)
T ss_pred cceeEEecCCce--EEEeccCCchHHHHHHHHH-----H-HH------------HhccCCCcccc
Confidence 467999999862 2347899999888887643 1 11 12589999986
No 134
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=47.49 E-value=10 Score=22.86 Aligned_cols=28 Identities=29% Similarity=0.632 Sum_probs=19.1
Q ss_pred chhhhhhccCCCCeE-EecCCCccchhhh
Q psy7337 89 TCLLCEVQLVSNTFY-IFPCGHTFHSHCI 116 (233)
Q Consensus 89 ~C~~C~~~L~~~~f~-vFpCgH~FH~~CL 116 (233)
.|.+|++.+.+..|| --.|+..+|..|.
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~c~f~lh~~Ca 30 (30)
T PF03107_consen 2 WCDVCRRKIDGFYFYHCSECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCCcCCCEeEEeCCCCCeEcCccC
Confidence 599999998443133 3348888888873
No 135
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=47.25 E-value=6.3 Score=37.93 Aligned_cols=33 Identities=24% Similarity=0.310 Sum_probs=0.0
Q ss_pred CchhhhhhccC----------------CCCeEEec-CCCccchhhhhhcC
Q psy7337 88 DTCLLCEVQLV----------------SNTFYIFP-CGHTFHSHCIVQDL 120 (233)
Q Consensus 88 ~~C~~C~~~L~----------------~~~f~vFp-CgH~FH~~CL~~~~ 120 (233)
-.|++|...-. ..|.++|. |||+--......|-
T Consensus 329 r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs 378 (416)
T PF04710_consen 329 RTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWS 378 (416)
T ss_dssp --------------------------------------------------
T ss_pred ccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhh
Confidence 46999987531 23567775 99999888888775
No 136
>KOG2041|consensus
Probab=47.18 E-value=11 Score=39.36 Aligned_cols=30 Identities=40% Similarity=0.823 Sum_probs=22.5
Q ss_pred CCeEEec-CCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhh
Q psy7337 100 NTFYIFP-CGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHM 153 (233)
Q Consensus 100 ~~f~vFp-CgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~ 153 (233)
..|.+-| |.|.-|.+=+..+ +-||||-.+.
T Consensus 1154 ~~fWlC~~CkH~a~~~EIs~y------------------------~~CPLCHs~~ 1184 (1189)
T KOG2041|consen 1154 NIFWLCPRCKHRAHQHEISKY------------------------NCCPLCHSME 1184 (1189)
T ss_pred ceEEEcccccccccccccccc------------------------ccCccccChh
Confidence 3466777 9999988766655 7999997743
No 137
>cd04769 HTH_MerR2 Helix-Turn-Helix DNA binding domain of MerR2-like transcription regulators. Helix-turn-helix (HTH) transcription regulator MerR2 and related proteins. MerR2 in Bacillus cereus RC607 regulates resistance to organomercurials. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=47.16 E-value=92 Score=24.13 Aligned_cols=20 Identities=5% Similarity=0.277 Sum_probs=13.7
Q ss_pred HHHHhhcCCCChhhhhhcCCC
Q psy7337 11 LEFLDESDLISIEDILPFFSD 31 (233)
Q Consensus 11 l~~l~es~~L~ieDLLp~fpd 31 (233)
|..+++.| +++++|-.++..
T Consensus 49 I~~lr~~G-~sl~eI~~~l~~ 68 (116)
T cd04769 49 IKEARQLG-FTLAELKAIFAG 68 (116)
T ss_pred HHHHHHcC-CCHHHHHHHHhc
Confidence 34556654 888888888764
No 138
>cd01107 HTH_BmrR Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BmrR and YdfL of Bacillus subtilis, and related proteins; N-terminal domain. Bmr is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. BmrR is comprised of two distinct domains that harbor a regulatory (effector-binding) site and an active (DNA-binding) site. The conserved N-terminal domain contains a winged HTH motif that mediates DNA binding, while the C-terminal domain binds coactivating, toxic compounds. BmrR shares the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=46.95 E-value=93 Score=23.83 Aligned_cols=22 Identities=14% Similarity=0.374 Sum_probs=15.3
Q ss_pred HHHHhhcCCCChhhhhhcCCCcc
Q psy7337 11 LEFLDESDLISIEDILPFFSDFT 33 (233)
Q Consensus 11 l~~l~es~~L~ieDLLp~fpd~v 33 (233)
|..++..| +++.||..++....
T Consensus 51 I~~lr~~G-~sl~~i~~l~~~~~ 72 (108)
T cd01107 51 IKYLRDLG-FPLEEIKEILDADN 72 (108)
T ss_pred HHHHHHcC-CCHHHHHHHHhcCC
Confidence 34455555 89999998887654
No 139
>PF03791 KNOX2: KNOX2 domain ; InterPro: IPR005541 The MEINOX region is comprised of two domains, KNOX1 and KNOX2. KNOX1 plays a role in suppressing target gene expression. KNOX2, essential for function, is thought to be necessary for homo-dimerization [].; GO: 0003677 DNA binding, 0005634 nucleus
Probab=46.01 E-value=99 Score=21.41 Aligned_cols=45 Identities=20% Similarity=0.335 Sum_probs=33.4
Q ss_pred CCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7337 30 SDFTCMDQFKHAICASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQAC 77 (233)
Q Consensus 30 pd~v~I~~fKd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l 77 (233)
...-.+|.|...-|..|..|..++++--+ ++..-...+..+|..+
T Consensus 6 ~~dpELDqFMeaYc~~L~kykeeL~~p~~---EA~~f~~~ie~qL~~L 50 (52)
T PF03791_consen 6 GADPELDQFMEAYCDMLVKYKEELQRPFQ---EAMEFCREIEQQLSSL 50 (52)
T ss_pred CCCccHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHH
Confidence 45567899999999999999988876333 5555566666777665
No 140
>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=45.56 E-value=17 Score=23.83 Aligned_cols=14 Identities=21% Similarity=0.717 Sum_probs=9.5
Q ss_pred CCCccchhhhhhcC
Q psy7337 107 CGHTFHSHCIVQDL 120 (233)
Q Consensus 107 CgH~FH~~CL~~~~ 120 (233)
|+=.+|..|+..++
T Consensus 19 C~~r~H~~C~~~y~ 32 (43)
T PF08746_consen 19 CNVRLHDDCFKKYF 32 (43)
T ss_dssp S--EE-HHHHHHHT
T ss_pred cCchHHHHHHHHHH
Confidence 66679999999886
No 141
>PRK14127 cell division protein GpsB; Provisional
Probab=45.24 E-value=87 Score=24.85 Aligned_cols=59 Identities=19% Similarity=0.386 Sum_probs=41.3
Q ss_pred CChhhhhhc-CC------CccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy7337 20 ISIEDILPF-FS------DFTCMDQFKHAICASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQACA 78 (233)
Q Consensus 20 L~ieDLLp~-fp------d~v~I~~fKd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l~ 78 (233)
|+..||+.- |+ +-..++.|=+.|.+-++.+..++..|+.++.........++.++....
T Consensus 6 LTp~DI~~KeF~~~~RGYd~~EVD~FLd~V~~dye~l~~e~~~Lk~e~~~l~~~l~e~~~~~~~~~ 71 (109)
T PRK14127 6 LTPKDILEKEFKTSMRGYDQDEVDKFLDDVIKDYEAFQKEIEELQQENARLKAQVDELTKQVSVGA 71 (109)
T ss_pred CCHHHHhhCccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Confidence 666777632 32 123567888888888888888888888888877777777766665543
No 142
>cd04779 HTH_MerR-like_sg4 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 4). Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=45.09 E-value=1.4e+02 Score=24.08 Aligned_cols=58 Identities=16% Similarity=0.217 Sum_probs=31.0
Q ss_pred HHHhhcCCCChhhhhhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7337 12 EFLDESDLISIEDILPFFSDFTCMDQFKHAICASLEQYNQHIVDLKEDMSEATRSAEQV 70 (233)
Q Consensus 12 ~~l~es~~L~ieDLLp~fpd~v~I~~fKd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l 70 (233)
..+++. -+++.+|-.++......+.....+...++..+.++..+...+.......+.+
T Consensus 50 ~~lr~~-G~sL~eI~~~l~~~~~~~~~~~~~~~~~~~l~~~i~~Le~~l~~L~~~~~~l 107 (134)
T cd04779 50 EHLKGQ-RLSLAEIKDQLEEVQRSDKEQREVAQEVQLVCDQIDGLEHRLKQLKPIASQT 107 (134)
T ss_pred HHHHHC-CCCHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444544 4888888888764433223333444555555555555555555444444333
No 143
>PRK07220 DNA topoisomerase I; Validated
Probab=44.22 E-value=78 Score=32.76 Aligned_cols=11 Identities=36% Similarity=0.896 Sum_probs=9.0
Q ss_pred CchhhhhhccC
Q psy7337 88 DTCLLCEVQLV 98 (233)
Q Consensus 88 ~~C~~C~~~L~ 98 (233)
..|+.||..+.
T Consensus 590 ~~CP~Cg~~l~ 600 (740)
T PRK07220 590 GKCPLCGSDLM 600 (740)
T ss_pred cccccCCCeee
Confidence 47999998775
No 144
>PHA02562 46 endonuclease subunit; Provisional
Probab=44.20 E-value=30 Score=33.64 Aligned_cols=30 Identities=17% Similarity=0.384 Sum_probs=16.9
Q ss_pred HHHHHHHhcCcccccCCCchhhhhhccCCC
Q psy7337 71 RNDIQACANRYHMIQNCDTCLLCEVQLVSN 100 (233)
Q Consensus 71 ~~el~~l~~r~~iI~~~~~C~~C~~~L~~~ 100 (233)
..++..+..-...+.....|+.|++++.+.
T Consensus 268 ~~~l~~~~~~~~~~~~~~~Cp~C~~~~~~~ 297 (562)
T PHA02562 268 KSKIEQFQKVIKMYEKGGVCPTCTQQISEG 297 (562)
T ss_pred HHHHHHHHHHHHHhcCCCCCCCCCCcCCCc
Confidence 333333333333333456899999998543
No 145
>KOG3005|consensus
Probab=43.71 E-value=13 Score=34.02 Aligned_cols=53 Identities=26% Similarity=0.558 Sum_probs=34.2
Q ss_pred CCchhhhhhccCC-CCeEE---ec-CCCccchhhhhhcC-ChHHHhhccccccchhhHhhhhhCCCCCCCh
Q psy7337 87 CDTCLLCEVQLVS-NTFYI---FP-CGHTFHSHCIVQDL-DPEQKAKLDSEETGSEAVNNYLSRECPYCGS 151 (233)
Q Consensus 87 ~~~C~~C~~~L~~-~~f~v---Fp-CgH~FH~~CL~~~~-~~~~~~~l~~~~t~~~eld~ila~eCPlCG~ 151 (233)
+..|.+|.+.+.. ..+.+ ++ |+-.+|..||..+. ..+...-+ -+...||.|+.
T Consensus 182 ~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~------------p~eg~cp~C~~ 240 (276)
T KOG3005|consen 182 NVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLI------------PLEGMCPKCEK 240 (276)
T ss_pred chhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCcee------------ccCCCCCchhc
Confidence 3589999999943 33322 33 99999999999843 11111111 13589999987
No 146
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=43.36 E-value=10 Score=27.87 Aligned_cols=32 Identities=19% Similarity=0.389 Sum_probs=23.6
Q ss_pred Cchhhhhhcc-CCCCeEEecCCCccchhhhhhc
Q psy7337 88 DTCLLCEVQL-VSNTFYIFPCGHTFHSHCIVQD 119 (233)
Q Consensus 88 ~~C~~C~~~L-~~~~f~vFpCgH~FH~~CL~~~ 119 (233)
..|.+|+++. ..-+-..-.|.-.||-.|....
T Consensus 37 ~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~~ 69 (90)
T PF13771_consen 37 LKCSICKKKGGACIGCSHPGCSRSFHVPCARKA 69 (90)
T ss_pred CCCcCCCCCCCeEEEEeCCCCCcEEChHHHccC
Confidence 5899999983 2233444559999999999764
No 147
>PF14354 Lar_restr_allev: Restriction alleviation protein Lar
Probab=43.12 E-value=9.4 Score=26.20 Aligned_cols=15 Identities=33% Similarity=0.926 Sum_probs=10.6
Q ss_pred CCCCCCChhhhhhhh
Q psy7337 144 RECPYCGSHMIEKES 158 (233)
Q Consensus 144 ~eCPlCG~~~i~~Id 158 (233)
.-||+||...+..-.
T Consensus 4 kPCPFCG~~~~~~~~ 18 (61)
T PF14354_consen 4 KPCPFCGSADVLIRQ 18 (61)
T ss_pred cCCCCCCCcceEeec
Confidence 579999986655433
No 148
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=43.05 E-value=13 Score=23.54 Aligned_cols=33 Identities=15% Similarity=0.369 Sum_probs=24.6
Q ss_pred CCCchhhhhhccCCC--CeEEecCCCccchhhhhh
Q psy7337 86 NCDTCLLCEVQLVSN--TFYIFPCGHTFHSHCIVQ 118 (233)
Q Consensus 86 ~~~~C~~C~~~L~~~--~f~vFpCgH~FH~~CL~~ 118 (233)
....|.+|++.|... .+..-.|+=.+|..|...
T Consensus 10 ~~~~C~~C~~~i~~~~~~~~C~~C~~~~H~~C~~~ 44 (49)
T smart00109 10 KPTKCCVCRKSIWGSFQGLRCSWCKVKCHKKCAEK 44 (49)
T ss_pred CCCCccccccccCcCCCCcCCCCCCchHHHHHHhh
Confidence 346799999999653 333444999999999865
No 149
>cd00029 C1 Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second messenger, released by activation of Phospholipase D. Phorbol Esters (PE) can act as analogues of DAG and mimic its downstream effects in, for example, tumor promotion. Protein Kinases C are activated by DAG/PE, this activation is mediated by their N-terminal conserved region (C1). DAG/PE binding may be phospholipid dependent. C1 domains may also mediate DAG/PE signals in chimaerins (a family of Rac GTPase activating proteins), RasGRPs (exchange factors for Ras/Rap1), and Munc13 isoforms (scaffolding proteins involved in exocytosis).
Probab=42.67 E-value=18 Score=23.23 Aligned_cols=34 Identities=15% Similarity=0.246 Sum_probs=24.7
Q ss_pred CCCchhhhhhccCCC--C-eEEecCCCccchhhhhhc
Q psy7337 86 NCDTCLLCEVQLVSN--T-FYIFPCGHTFHSHCIVQD 119 (233)
Q Consensus 86 ~~~~C~~C~~~L~~~--~-f~vFpCgH~FH~~CL~~~ 119 (233)
....|.+|++.|.+. + +..=.|+-.+|..|...-
T Consensus 10 ~~~~C~~C~~~i~~~~~~~~~C~~C~~~~H~~C~~~v 46 (50)
T cd00029 10 KPTFCDVCRKSIWGLFKQGLRCSWCKVKCHKKCADKV 46 (50)
T ss_pred CCCChhhcchhhhccccceeEcCCCCCchhhhhhccC
Confidence 346799999999752 3 223349999999998653
No 150
>PRK01156 chromosome segregation protein; Provisional
Probab=42.57 E-value=51 Score=34.31 Aligned_cols=55 Identities=16% Similarity=0.396 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccccCCCchhhhhhcc
Q psy7337 43 CASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQACANRYHMIQNCDTCLLCEVQL 97 (233)
Q Consensus 43 ~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l~~r~~iI~~~~~C~~C~~~L 97 (233)
...+++.+..++.+...+.........++..+.++..---.+.....|+.|+.++
T Consensus 408 ~~~~~e~~~~~~~l~~~i~~l~~~i~~l~~~~~el~~~~~~l~~~~~Cp~c~~~~ 462 (895)
T PRK01156 408 KKELNEINVKLQDISSKVSSLNQRIRALRENLDELSRNMEMLNGQSVCPVCGTTL 462 (895)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCcC
Confidence 3344555666666666676666666666666665543111111224688888887
No 151
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=42.38 E-value=9.7 Score=27.11 Aligned_cols=14 Identities=36% Similarity=0.814 Sum_probs=11.6
Q ss_pred CCCCCCChhhhhhh
Q psy7337 144 RECPYCGSHMIEKE 157 (233)
Q Consensus 144 ~eCPlCG~~~i~~I 157 (233)
..||||+..|+...
T Consensus 40 p~CPlC~s~M~~~~ 53 (59)
T PF14169_consen 40 PVCPLCKSPMVSGT 53 (59)
T ss_pred ccCCCcCCccccce
Confidence 68999999887654
No 152
>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=42.20 E-value=1.3e+02 Score=23.04 Aligned_cols=44 Identities=11% Similarity=0.274 Sum_probs=27.4
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7337 34 CMDQFKHAICASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQAC 77 (233)
Q Consensus 34 ~I~~fKd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l 77 (233)
+++...+.+-+.++..+.++..+.+.+.........++..++.+
T Consensus 84 ~~~eA~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~l~~~l~~~ 127 (129)
T cd00890 84 SLEEAIEFLKKRLETLEKQIEKLEKQLEKLQDQITELQEELQQL 127 (129)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44566666666666666666666666666666666666555543
No 153
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=41.10 E-value=98 Score=27.57 Aligned_cols=37 Identities=19% Similarity=0.309 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy7337 42 ICASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQACA 78 (233)
Q Consensus 42 I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l~ 78 (233)
....|.+|.++++.|..+-....+.+..|+.||..+.
T Consensus 30 ee~~L~e~~kE~~~L~~Er~~h~eeLrqI~~DIn~lE 66 (230)
T PF10146_consen 30 EEKCLEEYRKEMEELLQERMAHVEELRQINQDINTLE 66 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456666666666666666666666666666666653
No 154
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=40.95 E-value=12 Score=30.79 Aligned_cols=24 Identities=29% Similarity=0.613 Sum_probs=17.4
Q ss_pred CchhhhhhccCCCCeEEe-c-CCCcc
Q psy7337 88 DTCLLCEVQLVSNTFYIF-P-CGHTF 111 (233)
Q Consensus 88 ~~C~~C~~~L~~~~f~vF-p-CgH~F 111 (233)
..|+.||-|||-..=-|| | |||.+
T Consensus 29 ~hCp~Cg~PLF~KdG~v~CPvC~~~~ 54 (131)
T COG1645 29 KHCPKCGTPLFRKDGEVFCPVCGYRE 54 (131)
T ss_pred hhCcccCCcceeeCCeEECCCCCceE
Confidence 689999999986543333 3 99855
No 155
>PF11598 COMP: Cartilage oligomeric matrix protein; InterPro: IPR024665 Thrombospondins are adhesive glycoproteins that mediate cell-to-cell and cell-to-matrix interactions. Cartilage oligomeric matrix protein may play a role in the structural integrity of cartilage via its interaction with other extracellular matrix proteins such as collagen and fibronectin [, ]. Thrombospondin 3 and 4 and cartilage oligomeric matrix proteins contain a five-stranded coiled-coil domain represented by this entry. This domain has a binding site between two internal rings formed by Leu37 and Thr40 [].; PDB: 1MZ9_D 1FBM_A 1VDF_E.
Probab=40.56 E-value=1.1e+02 Score=20.51 Aligned_cols=36 Identities=25% Similarity=0.396 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7337 39 KHAICASLEQYNQHIVDLKEDMSEATRSAEQVRNDI 74 (233)
Q Consensus 39 Kd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el 74 (233)
-..|...|.+.+.-+..++..+....+++.-+|+-|
T Consensus 3 ~~~l~~ql~~l~~~l~elk~~l~~Q~kE~~~LRntI 38 (45)
T PF11598_consen 3 DSQLIKQLSELNQMLQELKELLRQQIKETRFLRNTI 38 (45)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356777888888888888888877666666555443
No 156
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=40.19 E-value=19 Score=27.51 Aligned_cols=32 Identities=19% Similarity=0.407 Sum_probs=22.7
Q ss_pred CCchhhhhhccCCCCeEEec--CCCccchhhhhhc
Q psy7337 87 CDTCLLCEVQLVSNTFYIFP--CGHTFHSHCIVQD 119 (233)
Q Consensus 87 ~~~C~~C~~~L~~~~f~vFp--CgH~FH~~CL~~~ 119 (233)
...|.+|++.- +...--.. |...||..|....
T Consensus 55 ~~~C~iC~~~~-G~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 55 KLKCSICGKSG-GACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred CCcCcCCCCCC-ceeEEcCCCCCCcCCCHHHHHHC
Confidence 46899999983 33333333 8889999999764
No 157
>PLN02436 cellulose synthase A
Probab=40.19 E-value=51 Score=35.69 Aligned_cols=58 Identities=16% Similarity=0.374 Sum_probs=41.2
Q ss_pred CCchhhhhhccC----CCCeEEec-CCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhhhhhhhccC
Q psy7337 87 CDTCLLCEVQLV----SNTFYIFP-CGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHMIEKESKKE 161 (233)
Q Consensus 87 ~~~C~~C~~~L~----~~~f~vFp-CgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~i~~Id~pf 161 (233)
.+.|.+||..+. +.+|++-. ||--.-..|...+-. --.+.||-|+...-+.---|-
T Consensus 36 ~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~-------------------eg~~~Cpqckt~Y~r~kgs~~ 96 (1094)
T PLN02436 36 GQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERR-------------------EGNQACPQCKTRYKRIKGSPR 96 (1094)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhh-------------------cCCccCcccCCchhhccCCCC
Confidence 468999999984 45788877 999999999954421 114799999986655444444
Q ss_pred CC
Q psy7337 162 GG 163 (233)
Q Consensus 162 ~~ 163 (233)
+.
T Consensus 97 ~~ 98 (1094)
T PLN02436 97 VE 98 (1094)
T ss_pred cC
Confidence 43
No 158
>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal. Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.
Probab=40.16 E-value=1.6e+02 Score=22.75 Aligned_cols=44 Identities=9% Similarity=0.136 Sum_probs=31.4
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7337 34 CMDQFKHAICASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQAC 77 (233)
Q Consensus 34 ~I~~fKd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l 77 (233)
+.++++..|-+.++.....|..+.+.++...+...++++.|..+
T Consensus 64 ~~~e~~~~l~~r~e~ie~~i~~lek~~~~l~~~l~e~q~~l~~~ 107 (110)
T TIGR02338 64 DKEEAIQELKEKKETLELRVKTLQRQEERLREQLKELQEKIQEA 107 (110)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35667777777777777777777777777777777777766654
No 159
>COG2260 Predicted Zn-ribbon RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=39.70 E-value=14 Score=26.24 Aligned_cols=24 Identities=17% Similarity=0.401 Sum_probs=17.5
Q ss_pred CCCCCCChhhhhhhhccCCCCCCC
Q psy7337 144 RECPYCGSHMIEKESKKEGGDGGG 167 (233)
Q Consensus 144 ~eCPlCG~~~i~~Id~pf~~~~~~ 167 (233)
..||.||......+--.|..++.+
T Consensus 18 e~Cp~CG~~t~~~~PprFSPeD~y 41 (59)
T COG2260 18 EKCPVCGGDTKVPHPPRFSPEDKY 41 (59)
T ss_pred ccCCCCCCccccCCCCCCCccchH
Confidence 589999998777666677654443
No 160
>KOG3800|consensus
Probab=39.08 E-value=18 Score=33.48 Aligned_cols=44 Identities=25% Similarity=0.602 Sum_probs=32.0
Q ss_pred chhhhhhccCCCC---eEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCCh
Q psy7337 89 TCLLCEVQLVSNT---FYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGS 151 (233)
Q Consensus 89 ~C~~C~~~L~~~~---f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~ 151 (233)
.|+.|.......| +++=+|||.....|...-. ..=..-||-|+.
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF-------------------~~g~~~CpeC~~ 48 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIF-------------------SLGPAQCPECMV 48 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHH-------------------hcCCCCCCcccc
Confidence 5899988776554 4455799999999987643 111368999987
No 161
>PF08776 VASP_tetra: VASP tetramerisation domain; InterPro: IPR014885 Vasodilator-stimulated phosphoprotein (VASP) is an actin cytoskeletal regulatory protein. This region corresponds to the tetramerisation domain which forms a right handed alpha helical coiled coil structure []. ; PDB: 1USE_A 1USD_A.
Probab=38.68 E-value=1.1e+02 Score=20.07 Aligned_cols=34 Identities=21% Similarity=0.490 Sum_probs=20.2
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7337 34 CMDQFKHAICASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQA 76 (233)
Q Consensus 34 ~I~~fKd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~ 76 (233)
.++-||..|. ++...++++.+.+|= +++++++.+
T Consensus 4 dle~~KqEIL---~EvrkEl~K~K~EII------eA~~~eL~r 37 (40)
T PF08776_consen 4 DLERLKQEIL---EEVRKELQKVKEEII------EAIRQELSR 37 (40)
T ss_dssp HHHHHHHHHH---HHHHHHHHHHHHHHH------HHHHHHHHH
T ss_pred hHHHHHHHHH---HHHHHHHHHHHHHHH------HHHHHHHhc
Confidence 4567787774 455556777666663 345555543
No 162
>PRK03918 chromosome segregation protein; Provisional
Probab=38.54 E-value=1e+02 Score=31.78 Aligned_cols=39 Identities=15% Similarity=0.417 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCcccccCCCchhhhhhcc
Q psy7337 53 IVDLKEDMSEATRSAEQVRNDIQACANRYHMIQNCDTCLLCEVQL 97 (233)
Q Consensus 53 Ie~lk~eie~~~~~~~~l~~el~~l~~r~~iI~~~~~C~~C~~~L 97 (233)
+..++..+.........++..+..+.. ....|+.|+.+|
T Consensus 407 i~~l~~~~~~~~~~i~eL~~~l~~L~~------~~~~Cp~c~~~L 445 (880)
T PRK03918 407 ISKITARIGELKKEIKELKKAIEELKK------AKGKCPVCGREL 445 (880)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh------cCCCCCCCCCcC
Confidence 333333333333344444444444432 235899999998
No 163
>PRK10246 exonuclease subunit SbcC; Provisional
Probab=38.48 E-value=72 Score=34.24 Aligned_cols=17 Identities=29% Similarity=0.581 Sum_probs=13.5
Q ss_pred cccCCCchhhhhhccCCCC
Q psy7337 83 MIQNCDTCLLCEVQLVSNT 101 (233)
Q Consensus 83 iI~~~~~C~~C~~~L~~~~ 101 (233)
.+.++..|++||.. .+|
T Consensus 499 ~L~~GePCPVCGS~--~HP 515 (1047)
T PRK10246 499 QLQAGQPCPLCGST--SHP 515 (1047)
T ss_pred hCCCCCCcCCCCcc--cCc
Confidence 45678999999997 555
No 164
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=38.22 E-value=2.1e+02 Score=23.70 Aligned_cols=9 Identities=22% Similarity=0.320 Sum_probs=6.2
Q ss_pred chhhhhhcc
Q psy7337 89 TCLLCEVQL 97 (233)
Q Consensus 89 ~C~~C~~~L 97 (233)
.|+.|+...
T Consensus 111 ~Cp~c~~r~ 119 (158)
T TIGR00373 111 ICPNMCVRF 119 (158)
T ss_pred ECCCCCcEe
Confidence 477777665
No 165
>cd04781 HTH_MerR-like_sg6 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 6) with at least two conserved cysteines present in the C-terminal portion of the protein. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, an
Probab=38.20 E-value=1.7e+02 Score=22.71 Aligned_cols=21 Identities=14% Similarity=0.273 Sum_probs=14.4
Q ss_pred HHHHhhcCCCChhhhhhcCCCc
Q psy7337 11 LEFLDESDLISIEDILPFFSDF 32 (233)
Q Consensus 11 l~~l~es~~L~ieDLLp~fpd~ 32 (233)
|..+++.| +++++|-.++...
T Consensus 49 I~~lr~~G-~~L~eI~~~l~~~ 69 (120)
T cd04781 49 IALGRAAG-FSLDEIQAMLSHD 69 (120)
T ss_pred HHHHHHcC-CCHHHHHHHHhcc
Confidence 45566665 6888888888653
No 166
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=37.50 E-value=12 Score=24.52 Aligned_cols=20 Identities=35% Similarity=0.735 Sum_probs=13.2
Q ss_pred hCCCCCCChhhhhhhhccCC
Q psy7337 143 SRECPYCGSHMIEKESKKEG 162 (233)
Q Consensus 143 a~eCPlCG~~~i~~Id~pf~ 162 (233)
...||.||..++-....|++
T Consensus 21 ~~~Cp~CG~~~~~~~~~~~v 40 (46)
T PRK00398 21 GVRCPYCGYRILFKERPPVV 40 (46)
T ss_pred ceECCCCCCeEEEccCCCcc
Confidence 36999999866554444443
No 167
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=37.28 E-value=53 Score=35.47 Aligned_cols=57 Identities=18% Similarity=0.406 Sum_probs=40.2
Q ss_pred CCchhhhhhccC----CCCeEEec-CCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhhhhhhhccC
Q psy7337 87 CDTCLLCEVQLV----SNTFYIFP-CGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHMIEKESKKE 161 (233)
Q Consensus 87 ~~~C~~C~~~L~----~~~f~vFp-CgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~i~~Id~pf 161 (233)
.+.|.+||..+. +.+|++-. ||--.-+.|...+. .--...||-|+...-+.---|-
T Consensus 15 ~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~-------------------~~g~~~cp~c~t~y~~~~~~~~ 75 (1044)
T PLN02915 15 AKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYER-------------------SEGNQCCPQCNTRYKRHKGCPR 75 (1044)
T ss_pred cchhhccccccCcCCCCCEEEEeccCCCccccchhhhhh-------------------hcCCccCCccCCchhhhcCCCC
Confidence 478999999985 45788776 88889999995442 1114799999986655443344
Q ss_pred C
Q psy7337 162 G 162 (233)
Q Consensus 162 ~ 162 (233)
+
T Consensus 76 ~ 76 (1044)
T PLN02915 76 V 76 (1044)
T ss_pred c
Confidence 3
No 168
>cd04783 HTH_MerR1 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator. Helix-turn-helix (HTH) transcription regulator MerR1. MerR1 transcription regulators, such as Tn21 MerR and Tn501 MerR, mediate response to mercury exposure in eubacteria. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines that define a mercury binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=37.20 E-value=2e+02 Score=22.48 Aligned_cols=21 Identities=10% Similarity=0.173 Sum_probs=15.1
Q ss_pred HHHHhhcCCCChhhhhhcCCCc
Q psy7337 11 LEFLDESDLISIEDILPFFSDF 32 (233)
Q Consensus 11 l~~l~es~~L~ieDLLp~fpd~ 32 (233)
|..+++.| ++++||-.++...
T Consensus 50 I~~lr~~G-~sL~eI~~~l~~~ 70 (126)
T cd04783 50 IKRAQELG-FTLDEIAELLELD 70 (126)
T ss_pred HHHHHHcC-CCHHHHHHHHhcc
Confidence 44566666 8999999888643
No 169
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=36.83 E-value=2.3e+02 Score=24.07 Aligned_cols=34 Identities=12% Similarity=0.045 Sum_probs=21.8
Q ss_pred HHHHHHHhhcCCCChhhhhhcCCCccchhhHHHHHH
Q psy7337 8 KTALEFLDESDLISIEDILPFFSDFTCMDQFKHAIC 43 (233)
Q Consensus 8 ~~al~~l~es~~L~ieDLLp~fpd~v~I~~fKd~I~ 43 (233)
-.+|..|...|.++-+||-..+ .++...++..+-
T Consensus 25 ~~Vl~~L~~~g~~tdeeLA~~L--gi~~~~VRk~L~ 58 (178)
T PRK06266 25 FEVLKALIKKGEVTDEEIAEQT--GIKLNTVRKILY 58 (178)
T ss_pred hHHHHHHHHcCCcCHHHHHHHH--CCCHHHHHHHHH
Confidence 3456666777777888777776 445566665443
No 170
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=36.69 E-value=18 Score=25.91 Aligned_cols=29 Identities=28% Similarity=0.615 Sum_probs=21.9
Q ss_pred Cchhhhhhcc-CCCCeEEec---CCCccchhhh
Q psy7337 88 DTCLLCEVQL-VSNTFYIFP---CGHTFHSHCI 116 (233)
Q Consensus 88 ~~C~~C~~~L-~~~~f~vFp---CgH~FH~~CL 116 (233)
..|..||..| ....+++|+ ||-.-=..|.
T Consensus 10 ~~CtSCg~~i~p~e~~v~F~CPnCGe~~I~Rc~ 42 (61)
T COG2888 10 PVCTSCGREIAPGETAVKFPCPNCGEVEIYRCA 42 (61)
T ss_pred ceeccCCCEeccCCceeEeeCCCCCceeeehhh
Confidence 5799999999 677889998 6655544444
No 171
>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=36.66 E-value=12 Score=33.94 Aligned_cols=33 Identities=24% Similarity=0.567 Sum_probs=25.9
Q ss_pred CchhhhhhccCCCC---eEEec-CCCccchhhhhhcC
Q psy7337 88 DTCLLCEVQLVSNT---FYIFP-CGHTFHSHCIVQDL 120 (233)
Q Consensus 88 ~~C~~C~~~L~~~~---f~vFp-CgH~FH~~CL~~~~ 120 (233)
.+|++|.......| |++=| |-|.....|...-+
T Consensus 11 ~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIF 47 (314)
T COG5220 11 RRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIF 47 (314)
T ss_pred ccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHh
Confidence 58999998876555 66667 98988888987654
No 172
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=36.59 E-value=9 Score=35.48 Aligned_cols=26 Identities=19% Similarity=0.301 Sum_probs=20.9
Q ss_pred CchhhhhhccCC----CCeEEec-CCCccch
Q psy7337 88 DTCLLCEVQLVS----NTFYIFP-CGHTFHS 113 (233)
Q Consensus 88 ~~C~~C~~~L~~----~~f~vFp-CgH~FH~ 113 (233)
.+|+.|+..+.. ..++|-| |||.|..
T Consensus 39 ~kc~~C~~~~~~~~l~~~~~vcp~c~~h~rl 69 (296)
T CHL00174 39 VQCENCYGLNYKKFLKSKMNICEQCGYHLKM 69 (296)
T ss_pred eECCCccchhhHHHHHHcCCCCCCCCCCcCC
Confidence 579999999874 4578888 9998843
No 173
>PF12269 zf-CpG_bind_C: CpG binding protein zinc finger C terminal domain; InterPro: IPR022056 This domain family is found in eukaryotes, and is approximately 240 amino acids in length. This domain is the zinc finger domain of a CpG binding DNA methyltransferase protein. It contains a CxxC motif which forms the zinc finger and binds to DNA.
Probab=36.45 E-value=1.6e+02 Score=26.47 Aligned_cols=21 Identities=24% Similarity=0.572 Sum_probs=15.5
Q ss_pred CCeEEecCCCccchhhhhhcC
Q psy7337 100 NTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 100 ~~f~vFpCgH~FH~~CL~~~~ 120 (233)
...+.+.|||.+|..=....|
T Consensus 83 ~~~~Cv~Cg~~i~~~~a~kHm 103 (236)
T PF12269_consen 83 LSIYCVTCGHEIPSKKALKHM 103 (236)
T ss_pred eeeeeeeCCCcCCHHHHHHHH
Confidence 467888899999976555554
No 174
>PLN02189 cellulose synthase
Probab=36.00 E-value=73 Score=34.46 Aligned_cols=58 Identities=16% Similarity=0.387 Sum_probs=41.3
Q ss_pred CCchhhhhhccC----CCCeEEec-CCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhhhhhhhccC
Q psy7337 87 CDTCLLCEVQLV----SNTFYIFP-CGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHMIEKESKKE 161 (233)
Q Consensus 87 ~~~C~~C~~~L~----~~~f~vFp-CgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~i~~Id~pf 161 (233)
.+.|.+||..+. +.+|++-. ||--.-..|...+-. --.+.||-|+...-+.---|-
T Consensus 34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~-------------------eg~q~CpqCkt~Y~r~kgs~~ 94 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERR-------------------EGTQNCPQCKTRYKRLKGSPR 94 (1040)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhh-------------------cCCccCcccCCchhhccCCCC
Confidence 468999999975 46788888 999999999954421 114799999986655444444
Q ss_pred CC
Q psy7337 162 GG 163 (233)
Q Consensus 162 ~~ 163 (233)
+.
T Consensus 95 v~ 96 (1040)
T PLN02189 95 VE 96 (1040)
T ss_pred cC
Confidence 43
No 175
>TIGR02047 CadR-PbrR Cd(II)/Pb(II)-responsive transcriptional regulator. This model represents the cadmium(II) and/or lead(II) responsive transcriptional activator of the proteobacterial metal efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(6-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=35.92 E-value=2.1e+02 Score=22.53 Aligned_cols=18 Identities=17% Similarity=0.254 Sum_probs=11.3
Q ss_pred HHHhhcCCCChhhhhhcCC
Q psy7337 12 EFLDESDLISIEDILPFFS 30 (233)
Q Consensus 12 ~~l~es~~L~ieDLLp~fp 30 (233)
..+++.| +++++|-.+|.
T Consensus 51 ~~lr~lG-~sL~eI~~~l~ 68 (127)
T TIGR02047 51 RNCRTLD-MSLAEIRQLLR 68 (127)
T ss_pred HHHHHcC-CCHHHHHHHHH
Confidence 3445544 78888777764
No 176
>PRK10227 DNA-binding transcriptional regulator CueR; Provisional
Probab=35.79 E-value=2.3e+02 Score=22.76 Aligned_cols=42 Identities=10% Similarity=0.109 Sum_probs=20.7
Q ss_pred HHHhhcCCCChhhhhhcCC----CccchhhHHHHHHHHHHHHHHHHH
Q psy7337 12 EFLDESDLISIEDILPFFS----DFTCMDQFKHAICASLEQYNQHIV 54 (233)
Q Consensus 12 ~~l~es~~L~ieDLLp~fp----d~v~I~~fKd~I~~sL~ey~~~Ie 54 (233)
..+++.| +++++|-.+++ +..+.+.++..+.+.+.+.+.+|+
T Consensus 51 ~~lr~~G-~sl~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~ 96 (135)
T PRK10227 51 RQARQVG-FNLEESGELVNLFNDPQRHSADVKRRTLEKVAEIERHIE 96 (135)
T ss_pred HHHHHCC-CCHHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 3445554 88888766654 222344444444444444333333
No 177
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=35.67 E-value=88 Score=21.94 Aligned_cols=31 Identities=26% Similarity=0.516 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7337 47 EQYNQHIVDLKEDMSEATRSAEQVRNDIQAC 77 (233)
Q Consensus 47 ~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l 77 (233)
...+.++..++..++........++.+++.+
T Consensus 20 ~~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 20 YQLNQEIAELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3444556666666666666666666666666
No 178
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=35.53 E-value=9.8 Score=34.92 Aligned_cols=28 Identities=21% Similarity=0.576 Sum_probs=22.1
Q ss_pred CchhhhhhccCC----CCeEEec-CCCccchhh
Q psy7337 88 DTCLLCEVQLVS----NTFYIFP-CGHTFHSHC 115 (233)
Q Consensus 88 ~~C~~C~~~L~~----~~f~vFp-CgH~FH~~C 115 (233)
.+|+.|+..+.. ..++|-| |||.|....
T Consensus 27 ~~c~~c~~~~~~~~l~~~~~vc~~c~~h~rl~a 59 (285)
T TIGR00515 27 TKCPKCGQVLYTKELERNLEVCPKCDHHMRMDA 59 (285)
T ss_pred eECCCCcchhhHHHHHhhCCCCCCCCCcCcCCH
Confidence 579999999874 4678888 999986433
No 179
>PRK07218 replication factor A; Provisional
Probab=35.30 E-value=14 Score=35.76 Aligned_cols=72 Identities=33% Similarity=0.331 Sum_probs=34.7
Q ss_pred CCCCCCChhhh-hhhhccCCCCCCCchhhhcc-chhhhhhCC-ccchhHhHhhccccccchhhhhhhHHH-HHhh----h
Q psy7337 144 RECPYCGSHMI-EKESKKEGGDGGGTEEKTKV-NDERVEKKP-KALEKEEREVKMEGKEMKEEEEDKDVV-EKKR----K 215 (233)
Q Consensus 144 ~eCPlCG~~~i-~~Id~pf~~~~~~~ee~~~~-~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~----~ 215 (233)
..||.||..-. ..+..+|+.|+ ++-...++ +.+..+.+- ..|+. + ++|..+.-|+++| +.-| -
T Consensus 310 ~~C~~hG~ve~~~dlrik~vLDD-Gtg~~~~~~~~e~~e~l~G~~~e~--a------~~~~~~~~d~~~v~~~i~~~llG 380 (423)
T PRK07218 310 GQCRSHGAVEGEDDLRIKAILDD-GTGSVTVILDRELTEIVYGGTLED--A------EELAREAMDKDVVAEDIRERLVG 380 (423)
T ss_pred CcCCCCCCcCCeeeeEEEEEEEC-CCCeEEEEEChhhhHhHhCCCHHH--H------HHHHHhhhcchhhHHHHHHhhcC
Confidence 47999998321 12222343322 22222222 444444443 22221 1 2444455566666 4333 3
Q ss_pred hheeecCCC
Q psy7337 216 RYLRVSGGK 224 (233)
Q Consensus 216 ~~~~~~~~~ 224 (233)
||++|.|--
T Consensus 381 ~~~~v~G~~ 389 (423)
T PRK07218 381 REYRVRGNL 389 (423)
T ss_pred cEEEEEecc
Confidence 899999963
No 180
>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal
Probab=34.97 E-value=2.1e+02 Score=22.42 Aligned_cols=43 Identities=12% Similarity=0.361 Sum_probs=30.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy7337 37 QFKHAICASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQACAN 79 (233)
Q Consensus 37 ~fKd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l~~ 79 (233)
+.++.+...+...+.++.....+++.+.........++..++.
T Consensus 73 ~~q~~L~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~k~lk~ 115 (118)
T PF13815_consen 73 HCQEYLSSQLEQLEERLQELQQEIEKLKQKLKKQKEEIKKLKK 115 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566677777777777777777777777777777777766643
No 181
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=34.63 E-value=2.1e+02 Score=24.44 Aligned_cols=37 Identities=16% Similarity=0.260 Sum_probs=22.6
Q ss_pred HHHHhhc-CCCChhhhhhcCCC--ccchhhHHHHHHHHHH
Q psy7337 11 LEFLDES-DLISIEDILPFFSD--FTCMDQFKHAICASLE 47 (233)
Q Consensus 11 l~~l~es-~~L~ieDLLp~fpd--~v~I~~fKd~I~~sL~ 47 (233)
++++.++ ...++.||=...|. .++...+|+.|...+.
T Consensus 2 l~~f~e~~~~y~lKELEK~~pK~~gI~~~~VKdvlq~LvD 41 (188)
T PF03962_consen 2 LEIFHESKDFYTLKELEKLAPKEKGIVSMSVKDVLQSLVD 41 (188)
T ss_pred hHHHhhcCCcccHHHHHHHcccccCCchhhHHHHHHHHhc
Confidence 4566666 67777777777775 4444556655554444
No 182
>PF07368 DUF1487: Protein of unknown function (DUF1487); InterPro: IPR009961 This family consists of several uncharacterised proteins from Drosophila melanogaster. The function of this family is unknown.
Probab=34.46 E-value=36 Score=30.15 Aligned_cols=98 Identities=11% Similarity=0.191 Sum_probs=52.9
Q ss_pred CchhHHHHHHHHhhc--CCCChhhhhhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q psy7337 3 ERNDIKTALEFLDES--DLISIEDILPFFSDFTCMDQFKHAICASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQACANR 80 (233)
Q Consensus 3 ~~~dI~~al~~l~es--~~L~ieDLLp~fpd~v~I~~fKd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l~~r 80 (233)
+.+|+..|+..|.++ +-+...-+--.|=. ..+++.+++.+..--+.+......--.|.++. +.++.++-+
T Consensus 12 e~GDlnsA~~~L~~sl~~Pf~~~~VatVlVq----Esireefi~rvr~~m~pl~~~va~Hpny~rsl----~~i~~l~~~ 83 (215)
T PF07368_consen 12 EDGDLNSAMHYLLESLHNPFAPGAVATVLVQ----ESIREEFIERVRSRMKPLSPQVANHPNYLRSL----KKIKCLNAK 83 (215)
T ss_pred eCCCHHHHHHHHHHHHhCcccCCcEEEEEEe----HHHHHHHHHHHHHhCccCChhhccCcHHHHHH----HHHHhcCCe
Confidence 578999999999887 43332222211111 45566655554443222222222223334433 335556666
Q ss_pred cccccCCCchhhhhhccCCCCeEEecCCCccchh
Q psy7337 81 YHMIQNCDTCLLCEVQLVSNTFYIFPCGHTFHSH 114 (233)
Q Consensus 81 ~~iI~~~~~C~~C~~~L~~~~f~vFpCgH~FH~~ 114 (233)
++..... +.+....|.+|+.|-|.|-.+
T Consensus 84 ~I~~~~~------~~~~~aSPilV~d~~h~~fg~ 111 (215)
T PF07368_consen 84 TIVADFE------NVPPPASPILVCDFTHSYFGD 111 (215)
T ss_pred EEEeccc------CCCCCCCCEEEcCCCHHHcCC
Confidence 6655221 234446788999999988554
No 183
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=33.82 E-value=1.1e+02 Score=25.79 Aligned_cols=37 Identities=14% Similarity=0.359 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCc
Q psy7337 45 SLEQYNQHIVDLKEDMSEATRSAEQVRNDIQACANRY 81 (233)
Q Consensus 45 sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l~~r~ 81 (233)
..+..+.+++.++++++....+.+.++++.+.+...|
T Consensus 155 ~~~~~~~ei~~lk~el~~~~~~~~~LkkQ~~~l~~ey 191 (192)
T PF05529_consen 155 ENKKLSEEIEKLKKELEKKEKEIEALKKQSEGLQKEY 191 (192)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3345667788888888888888888888887776543
No 184
>PRK10778 dksA RNA polymerase-binding transcription factor; Provisional
Probab=33.62 E-value=87 Score=26.06 Aligned_cols=19 Identities=21% Similarity=0.375 Sum_probs=12.9
Q ss_pred CchhhhhhccCCCCeEEec
Q psy7337 88 DTCLLCEVQLVSNTFYIFP 106 (233)
Q Consensus 88 ~~C~~C~~~L~~~~f~vFp 106 (233)
..|..||.+|.....-++|
T Consensus 112 G~Ce~CGe~I~~~RL~A~P 130 (151)
T PRK10778 112 GYCESCGVEIGIRRLEARP 130 (151)
T ss_pred ceeccCCCcccHHHHhcCC
Confidence 3599999999544444444
No 185
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=33.62 E-value=83 Score=27.02 Aligned_cols=10 Identities=40% Similarity=1.172 Sum_probs=8.0
Q ss_pred CCCCCCChhh
Q psy7337 144 RECPYCGSHM 153 (233)
Q Consensus 144 ~eCPlCG~~~ 153 (233)
-.||.||...
T Consensus 133 F~Cp~Cg~~L 142 (176)
T COG1675 133 FTCPKCGEDL 142 (176)
T ss_pred CCCCCCCchh
Confidence 4899999854
No 186
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=33.14 E-value=19 Score=20.62 Aligned_cols=21 Identities=19% Similarity=0.585 Sum_probs=10.9
Q ss_pred hhhhhhccCCCCeEEecCCCc
Q psy7337 90 CLLCEVQLVSNTFYIFPCGHT 110 (233)
Q Consensus 90 C~~C~~~L~~~~f~vFpCgH~ 110 (233)
|+.||..+....-+-=.||+-
T Consensus 2 Cp~CG~~~~~~~~fC~~CG~~ 22 (23)
T PF13240_consen 2 CPNCGAEIEDDAKFCPNCGTP 22 (23)
T ss_pred CcccCCCCCCcCcchhhhCCc
Confidence 666666664433333335553
No 187
>TIGR02043 ZntR Zn(II)-responsive transcriptional regulator. This model represents the zinc and cadmium (II) responsive transcriptional activator of the gamma proteobacterial zinc efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-Cys-X(8-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=32.86 E-value=2.5e+02 Score=22.26 Aligned_cols=18 Identities=17% Similarity=0.244 Sum_probs=12.6
Q ss_pred HHHhhcCCCChhhhhhcCC
Q psy7337 12 EFLDESDLISIEDILPFFS 30 (233)
Q Consensus 12 ~~l~es~~L~ieDLLp~fp 30 (233)
..+++.| +++.+|-.++.
T Consensus 52 ~~lr~~G-~sl~eI~~~l~ 69 (131)
T TIGR02043 52 LKAKELG-FTLDEIKELLS 69 (131)
T ss_pred HHHHHcC-CCHHHHHHHHH
Confidence 4455554 78888888886
No 188
>KOG4185|consensus
Probab=32.84 E-value=21 Score=31.99 Aligned_cols=33 Identities=27% Similarity=0.627 Sum_probs=24.4
Q ss_pred CchhhhhhccCCCC----eEEecCCCccchhhhhhcC
Q psy7337 88 DTCLLCEVQLVSNT----FYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 88 ~~C~~C~~~L~~~~----f~vFpCgH~FH~~CL~~~~ 120 (233)
-.|.+|+..+.+.. --+..|||.|-..|+..-+
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~ 40 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLL 40 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHh
Confidence 36999999986431 2234499999999998764
No 189
>PHA01750 hypothetical protein
Probab=32.27 E-value=1.8e+02 Score=21.35 Aligned_cols=39 Identities=13% Similarity=0.298 Sum_probs=19.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy7337 37 QFKHAICASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQACA 78 (233)
Q Consensus 37 ~fKd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l~ 78 (233)
.||+++-+.++ +++.+++.++++.....+++.+++.+++
T Consensus 31 ~lkdAvkeIV~---~ELdNL~~ei~~~kikqDnl~~qv~eik 69 (75)
T PHA01750 31 ALKDAVKEIVN---SELDNLKTEIEELKIKQDELSRQVEEIK 69 (75)
T ss_pred HHHHHHHHHHH---HHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 45555444332 2345555555555544455555555443
No 190
>KOG4299|consensus
Probab=31.89 E-value=34 Score=34.68 Aligned_cols=34 Identities=26% Similarity=0.525 Sum_probs=26.3
Q ss_pred CCchhhhhhccCCCCeEEec-CCCccchhhhhhcC
Q psy7337 87 CDTCLLCEVQLVSNTFYIFP-CGHTFHSHCIVQDL 120 (233)
Q Consensus 87 ~~~C~~C~~~L~~~~f~vFp-CgH~FH~~CL~~~~ 120 (233)
..-|+.|+.+=.-.+.++|- |--+||..||..-+
T Consensus 253 ~~fCsaCn~~~~F~~~i~CD~Cp~sFH~~CLePPl 287 (613)
T KOG4299|consen 253 EDFCSACNGSGLFNDIICCDGCPRSFHQTCLEPPL 287 (613)
T ss_pred HHHHHHhCCccccccceeecCCchHHHHhhcCCCC
Confidence 35799999974334457777 99999999998654
No 191
>KOG2264|consensus
Probab=31.87 E-value=1.1e+02 Score=31.36 Aligned_cols=39 Identities=15% Similarity=0.352 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7337 39 KHAICASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQAC 77 (233)
Q Consensus 39 Kd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l 77 (233)
++.+..-+.+||.+|+.+++.|.....+..+++..+++.
T Consensus 102 rqel~seI~~~n~kiEelk~~i~~~q~eL~~Lk~~ieqa 140 (907)
T KOG2264|consen 102 RQELNSEIEEINTKIEELKRLIPQKQLELSALKGEIEQA 140 (907)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHhHHHHHHHHhHHHHH
Confidence 445555677788888888888877777777777666553
No 192
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=31.65 E-value=26 Score=31.06 Aligned_cols=26 Identities=31% Similarity=0.639 Sum_probs=20.0
Q ss_pred CchhhhhhccC-CCCeEEecCCCccch
Q psy7337 88 DTCLLCEVQLV-SNTFYIFPCGHTFHS 113 (233)
Q Consensus 88 ~~C~~C~~~L~-~~~f~vFpCgH~FH~ 113 (233)
-.|++|+.+|. ...-++-+.||.|-.
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~~h~fd~ 29 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICPQNHQFDC 29 (272)
T ss_pred ccCCCCCcchhcCCCEEEcCCCCCCcc
Confidence 36999999995 245677789999943
No 193
>PF02996 Prefoldin: Prefoldin subunit; InterPro: IPR004127 This entry comprises of several prefoldin subunits. Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal alpha subunit, eukaryotic prefoldin subunits 3 and 5 and the UXT (ubiquitously expressed transcript) family. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 1FXK_C 2ZDI_C.
Probab=31.59 E-value=2e+02 Score=21.82 Aligned_cols=45 Identities=11% Similarity=0.271 Sum_probs=35.1
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy7337 34 CMDQFKHAICASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQACA 78 (233)
Q Consensus 34 ~I~~fKd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l~ 78 (233)
+++.-.+.+-+.++..+..++.+...+......+..+...++++.
T Consensus 74 s~~eA~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~ 118 (120)
T PF02996_consen 74 SLEEAIEFLKKRIKELEEQLEKLEKELAELQAQIEQLEQTLQQLY 118 (120)
T ss_dssp EHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 567778888888888888888888888888877777777776654
No 194
>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=31.53 E-value=21 Score=28.16 Aligned_cols=27 Identities=26% Similarity=0.662 Sum_probs=20.2
Q ss_pred CchhhhhhccCC--CCeEEec-CCCccchh
Q psy7337 88 DTCLLCEVQLVS--NTFYIFP-CGHTFHSH 114 (233)
Q Consensus 88 ~~C~~C~~~L~~--~~f~vFp-CgH~FH~~ 114 (233)
..|..||..++. +.-+|-| ||..|...
T Consensus 10 R~Cp~CG~kFYDLnk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYDLNKDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhccCCCCCccCCCCCCccCcc
Confidence 469999999863 3345555 99999776
No 195
>KOG4236|consensus
Probab=31.26 E-value=16 Score=37.20 Aligned_cols=32 Identities=22% Similarity=0.516 Sum_probs=27.0
Q ss_pred CchhhhhhccCC---CCeEEecCCCccchhhhhhc
Q psy7337 88 DTCLLCEVQLVS---NTFYIFPCGHTFHSHCIVQD 119 (233)
Q Consensus 88 ~~C~~C~~~L~~---~~f~vFpCgH~FH~~CL~~~ 119 (233)
.-|..||.-|++ ...-.+.||-.||+.|...-
T Consensus 157 tFCD~CGEmL~GLvrQGlKC~gCglNyHKRCa~ki 191 (888)
T KOG4236|consen 157 TFCDFCGEMLFGLVRQGLKCEGCGLNYHKRCAFKI 191 (888)
T ss_pred hHHHHHHHHHHHHHHccccccCCCCcHhhhhhhcC
Confidence 459999999874 46789999999999998754
No 196
>cd01109 HTH_YyaN Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB. Putative helix-turn-helix (HTH) MerR-like transcription regulators of Bacillus subtilis, YyaN and YraB, and related proteins; N-terminal domain. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=30.91 E-value=2.4e+02 Score=21.52 Aligned_cols=18 Identities=28% Similarity=0.475 Sum_probs=11.7
Q ss_pred HHHhhcCCCChhhhhhcCC
Q psy7337 12 EFLDESDLISIEDILPFFS 30 (233)
Q Consensus 12 ~~l~es~~L~ieDLLp~fp 30 (233)
..+++-| +++++|-.++.
T Consensus 51 ~~lr~~G-~sL~eI~~~l~ 68 (113)
T cd01109 51 KCLRNTG-MSIKDIKEYAE 68 (113)
T ss_pred HHHHHcC-CCHHHHHHHHH
Confidence 4455555 78888777764
No 197
>COG0777 AccD Acetyl-CoA carboxylase beta subunit [Lipid metabolism]
Probab=30.88 E-value=15 Score=33.84 Aligned_cols=30 Identities=23% Similarity=0.546 Sum_probs=22.7
Q ss_pred CchhhhhhccCC----CCeEEec-CCCccchhhhh
Q psy7337 88 DTCLLCEVQLVS----NTFYIFP-CGHTFHSHCIV 117 (233)
Q Consensus 88 ~~C~~C~~~L~~----~~f~vFp-CgH~FH~~CL~ 117 (233)
.+|+.|+.-++. ..+.|-| |||.|+.....
T Consensus 29 ~KCp~c~~~~y~~eL~~n~~vcp~c~~h~ri~A~~ 63 (294)
T COG0777 29 TKCPSCGEMLYRKELESNLKVCPKCGHHMRISARE 63 (294)
T ss_pred eECCCccceeeHHHHHhhhhcccccCcccccCHHH
Confidence 579999999873 4466666 99999766543
No 198
>KOG0298|consensus
Probab=30.50 E-value=16 Score=39.98 Aligned_cols=32 Identities=31% Similarity=0.335 Sum_probs=26.8
Q ss_pred CchhhhhhccCCCCeEEecCCCccchhhhhhcC
Q psy7337 88 DTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 88 ~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~ 120 (233)
..|.+|+..+ -..-.++.|||.|-..|...|.
T Consensus 1154 ~~c~ic~dil-~~~~~I~~cgh~~c~~c~~~~l 1185 (1394)
T KOG0298|consen 1154 FVCEICLDIL-RNQGGIAGCGHEPCCRCDELWL 1185 (1394)
T ss_pred cchHHHHHHH-HhcCCeeeechhHhhhHHHHHH
Confidence 3799999988 4455678999999999998885
No 199
>cd04782 HTH_BltR Helix-Turn-Helix DNA binding domain of the BltR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BltR (BmrR-like transporter) of Bacillus subtilis, and related proteins; N-terminal domain. Blt, like Bmr, is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. These regulators are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. They share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=30.49 E-value=1.6e+02 Score=22.13 Aligned_cols=19 Identities=26% Similarity=0.513 Sum_probs=11.7
Q ss_pred HHHhhcCCCChhhhhhcCCC
Q psy7337 12 EFLDESDLISIEDILPFFSD 31 (233)
Q Consensus 12 ~~l~es~~L~ieDLLp~fpd 31 (233)
..+++.| +++.+|-.++..
T Consensus 51 ~~lr~~G-~~l~eI~~~l~~ 69 (97)
T cd04782 51 LLLKELG-ISLKEIKDYLDN 69 (97)
T ss_pred HHHHHcC-CCHHHHHHHHhc
Confidence 4455554 777777776654
No 200
>cd04770 HTH_HMRTR Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators. Helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR): MerR1 (mercury), CueR (copper), CadR (cadmium), PbrR (lead), ZntR (zinc), and other related proteins. These transcription regulators mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=30.07 E-value=2.6e+02 Score=21.57 Aligned_cols=20 Identities=15% Similarity=0.167 Sum_probs=13.4
Q ss_pred HHHHhhcCCCChhhhhhcCCC
Q psy7337 11 LEFLDESDLISIEDILPFFSD 31 (233)
Q Consensus 11 l~~l~es~~L~ieDLLp~fpd 31 (233)
|..+++.| +++++|-.++..
T Consensus 50 I~~lr~~G-~sl~eI~~~l~~ 69 (123)
T cd04770 50 IRRAQALG-FSLAEIRELLSL 69 (123)
T ss_pred HHHHHHCC-CCHHHHHHHHHh
Confidence 34556665 888888877753
No 201
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=29.94 E-value=25 Score=38.63 Aligned_cols=106 Identities=17% Similarity=0.281 Sum_probs=58.6
Q ss_pred CchhhhhhccCCCCeEEecCCCcc-----chhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhhhhhhhccCC
Q psy7337 88 DTCLLCEVQLVSNTFYIFPCGHTF-----HSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHMIEKESKKEG 162 (233)
Q Consensus 88 ~~C~~C~~~L~~~~f~vFpCgH~F-----H~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~i~~Id~pf~ 162 (233)
-+|+.||..... ++.-.||+.. +..|=.+-.+ ++--+..||.||...+..-..-+.
T Consensus 668 rkCPkCG~~t~~--~fCP~CGs~te~vy~CPsCGaev~~-----------------des~a~~CP~CGtplv~~~~~~i~ 728 (1337)
T PRK14714 668 RRCPSCGTETYE--NRCPDCGTHTEPVYVCPDCGAEVPP-----------------DESGRVECPRCDVELTPYQRRTIN 728 (1337)
T ss_pred EECCCCCCcccc--ccCcccCCcCCCceeCccCCCccCC-----------------CccccccCCCCCCcccccceEEec
Confidence 469999987532 2333388653 4444332211 111146899999755443333222
Q ss_pred CCCCCchhhhccchhhhhhCCccchhHhHhhccccccchhhhhhhHHHHHhhhhh
Q psy7337 163 GDGGGTEEKTKVNDERVEKKPKALEKEEREVKMEGKEMKEEEEDKDVVEKKRKRY 217 (233)
Q Consensus 163 ~~~~~~ee~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 217 (233)
--+.|.-+-++.+.-+.+++..----.|-++++--|--.|-++..|..-|
T Consensus 729 -----~~~~~~~A~~~~g~~~~~~~~~KgVkgl~S~~k~~EplEKGiLRak~~v~ 778 (1337)
T PRK14714 729 -----VKEEYRSALENVGERENAFDLLKGVKGLTSREKIPEPLEKGILRAKHDVY 778 (1337)
T ss_pred -----HHHHHHHHHHHhCcccccccccccceecccCCCCCcchHhhhhhhhcCee
Confidence 23444445556666666666555555677777766666666666655444
No 202
>PHA02942 putative transposase; Provisional
Probab=29.91 E-value=25 Score=33.41 Aligned_cols=31 Identities=23% Similarity=0.411 Sum_probs=21.0
Q ss_pred CCchhhhhhccC---CCCeEEecCCCccchhhhh
Q psy7337 87 CDTCLLCEVQLV---SNTFYIFPCGHTFHSHCIV 117 (233)
Q Consensus 87 ~~~C~~C~~~L~---~~~f~vFpCgH~FH~~CL~ 117 (233)
++.|+.||.... .+-|..-.|||..|++=..
T Consensus 325 Sq~Cs~CG~~~~~l~~r~f~C~~CG~~~drD~nA 358 (383)
T PHA02942 325 SVSCPKCGHKMVEIAHRYFHCPSCGYENDRDVIA 358 (383)
T ss_pred CccCCCCCCccCcCCCCEEECCCCCCEeCcHHHH
Confidence 367999997642 2334555699999887543
No 203
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=29.73 E-value=3.6e+02 Score=27.19 Aligned_cols=21 Identities=33% Similarity=0.392 Sum_probs=9.8
Q ss_pred hHHHHHHHHhhcCCCChhhhh
Q psy7337 6 DIKTALEFLDESDLISIEDIL 26 (233)
Q Consensus 6 dI~~al~~l~es~~L~ieDLL 26 (233)
+.+++++-|++.|.+.++|+.
T Consensus 17 ~~~~~l~~L~~lg~vhi~~~~ 37 (646)
T PRK05771 17 YKDEVLEALHELGVVHIEDLK 37 (646)
T ss_pred HHHHHHHHHHhCCCEEEeecc
Confidence 344444444444444444443
No 204
>cd04784 HTH_CadR-PbrR Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators. Helix-turn-helix (HTH) CadR and PbrR transcription regulators including Pseudomonas aeruginosa CadR and Ralstonia metallidurans PbrR that regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which form a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=29.72 E-value=2.7e+02 Score=21.71 Aligned_cols=19 Identities=16% Similarity=0.352 Sum_probs=13.3
Q ss_pred HHHHhhcCCCChhhhhhcCC
Q psy7337 11 LEFLDESDLISIEDILPFFS 30 (233)
Q Consensus 11 l~~l~es~~L~ieDLLp~fp 30 (233)
|..+++.| +++++|-.++.
T Consensus 50 I~~lr~~G-~sL~eI~~~l~ 68 (127)
T cd04784 50 IRRCRSLD-MSLDEIRTLLQ 68 (127)
T ss_pred HHHHHHcC-CCHHHHHHHHH
Confidence 45556665 88888888775
No 205
>KOG1701|consensus
Probab=29.28 E-value=21 Score=34.84 Aligned_cols=45 Identities=29% Similarity=0.750 Sum_probs=0.0
Q ss_pred chhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhhhhhh
Q psy7337 89 TCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHMIEKE 157 (233)
Q Consensus 89 ~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~i~~I 157 (233)
+|..|++.|.+..||-.. |-.|-..|....+ ..|-.||..+...|
T Consensus 304 tC~~C~r~L~Gq~FY~v~-~k~~CE~cyq~tl-----------------------ekC~~Cg~~I~d~i 348 (468)
T KOG1701|consen 304 TCRTCRRQLAGQSFYQVD-GKPYCEGCYQDTL-----------------------EKCNKCGEPIMDRI 348 (468)
T ss_pred ehHhhhhhhccccccccC-CcccchHHHHHHH-----------------------HHHhhhhhHHHHHH
No 206
>PF05766 NinG: Bacteriophage Lambda NinG protein; InterPro: IPR008713 The ninR region of phage lambda contains two recombination genes, ninB (also known as orf) and ninG (also known as rap). These genes are involved in the RecF and RecBCD recombination pathways of Escherichia coli that operate on phage lambda [, ]. NinB and NinG participate in Red recombination, the primary pathway operating when wild-type lambda grows lytically in rec+ cells [].
Probab=29.04 E-value=21 Score=30.98 Aligned_cols=41 Identities=17% Similarity=0.263 Sum_probs=27.5
Q ss_pred HHHHHHHHHhcCccccc-CCCchhhhhhccCCCCeEEecCCCccch
Q psy7337 69 QVRNDIQACANRYHMIQ-NCDTCLLCEVQLVSNTFYIFPCGHTFHS 113 (233)
Q Consensus 69 ~l~~el~~l~~r~~iI~-~~~~C~~C~~~L~~~~f~vFpCgH~FH~ 113 (233)
.+.++.+..-++|+.+. .+..|..||... ---|-|||.+=.
T Consensus 68 ~~~~~aq~afn~~IR~RD~~~~CiSCG~~~----~~~~dagHy~s~ 109 (189)
T PF05766_consen 68 DWLKEAQKAFNKYIRLRDAGKPCISCGRKH----GGQWDAGHYRSR 109 (189)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCcccCCCcC----CCCccccccccc
Confidence 34445555556676665 478899999932 245889999844
No 207
>KOG1001|consensus
Probab=28.86 E-value=29 Score=35.65 Aligned_cols=30 Identities=30% Similarity=0.845 Sum_probs=25.7
Q ss_pred CchhhhhhccCCCCeEEecCCCccchhhhhhcC
Q psy7337 88 DTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 88 ~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~ 120 (233)
..|.+|.. ...+++-+|||.|-..|+...+
T Consensus 455 ~~c~ic~~---~~~~~it~c~h~~c~~c~~~~i 484 (674)
T KOG1001|consen 455 HWCHICCD---LDSFFITRCGHDFCVECLKKSI 484 (674)
T ss_pred cccccccc---cccceeecccchHHHHHHHhcc
Confidence 57888888 5678888999999999998876
No 208
>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=28.82 E-value=16 Score=21.91 Aligned_cols=13 Identities=46% Similarity=1.278 Sum_probs=6.3
Q ss_pred CCCCCChhhhhhh
Q psy7337 145 ECPYCGSHMIEKE 157 (233)
Q Consensus 145 eCPlCG~~~i~~I 157 (233)
.||.||...++..
T Consensus 1 ~CP~C~s~l~~~~ 13 (28)
T PF03119_consen 1 TCPVCGSKLVREE 13 (28)
T ss_dssp B-TTT--BEEE-C
T ss_pred CcCCCCCEeEcCC
Confidence 4999999766543
No 209
>PRK00420 hypothetical protein; Validated
Probab=28.77 E-value=43 Score=26.69 Aligned_cols=25 Identities=16% Similarity=0.421 Sum_probs=17.0
Q ss_pred CCchhhhhhccCC---CCeEEecCCCcc
Q psy7337 87 CDTCLLCEVQLVS---NTFYIFPCGHTF 111 (233)
Q Consensus 87 ~~~C~~C~~~L~~---~~f~vFpCgH~F 111 (233)
+..|+.||.||+. ...+.-.||..+
T Consensus 23 ~~~CP~Cg~pLf~lk~g~~~Cp~Cg~~~ 50 (112)
T PRK00420 23 SKHCPVCGLPLFELKDGEVVCPVHGKVY 50 (112)
T ss_pred cCCCCCCCCcceecCCCceECCCCCCee
Confidence 3789999999973 234444477755
No 210
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=28.74 E-value=2e+02 Score=20.20 Aligned_cols=39 Identities=18% Similarity=0.323 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCc
Q psy7337 43 CASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQACANRY 81 (233)
Q Consensus 43 ~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l~~r~ 81 (233)
-+-|......|..++.+++....+.+.+...+..+-.=|
T Consensus 6 En~~~~~~~~i~tvk~en~~i~~~ve~i~envk~ll~lY 44 (55)
T PF05377_consen 6 ENELPRIESSINTVKKENEEISESVEKIEENVKDLLSLY 44 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444455555555555555555555554443333
No 211
>cd04768 HTH_BmrR-like Helix-Turn-Helix DNA binding domain of BmrR-like transcription regulators. Helix-turn-helix (HTH) BmrR-like transcription regulators (TipAL, Mta, SkgA, BmrR, and BltR), N-terminal domain. These proteins have been shown to regulate expression of specific regulons in response to various toxic substances, antibiotics, or oxygen radicals in Bacillus subtilis, Streptomyces, and Caulobacter crescentus. They are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=28.63 E-value=1.7e+02 Score=21.92 Aligned_cols=20 Identities=25% Similarity=0.338 Sum_probs=13.5
Q ss_pred HHHhhcCCCChhhhhhcCCCc
Q psy7337 12 EFLDESDLISIEDILPFFSDF 32 (233)
Q Consensus 12 ~~l~es~~L~ieDLLp~fpd~ 32 (233)
..+++.| +++++|-.++...
T Consensus 51 ~~lr~~G-~~l~~I~~~l~~~ 70 (96)
T cd04768 51 LFLRELG-FSLAEIKELLDTE 70 (96)
T ss_pred HHHHHcC-CCHHHHHHHHhcC
Confidence 4555555 8888888877653
No 212
>PRK15002 redox-sensitivie transcriptional activator SoxR; Provisional
Probab=28.33 E-value=2.4e+02 Score=23.40 Aligned_cols=18 Identities=17% Similarity=0.224 Sum_probs=12.2
Q ss_pred HHHhhcCCCChhhhhhcCC
Q psy7337 12 EFLDESDLISIEDILPFFS 30 (233)
Q Consensus 12 ~~l~es~~L~ieDLLp~fp 30 (233)
..+++.| ++|++|-.+|+
T Consensus 61 ~~lr~lG-~sL~eIk~ll~ 78 (154)
T PRK15002 61 KIAQRIG-IPLATIGEAFG 78 (154)
T ss_pred HHHHHcC-CCHHHHHHHHH
Confidence 4455555 88888887775
No 213
>PF04728 LPP: Lipoprotein leucine-zipper; InterPro: IPR006817 This repeating sequence, NAKVDQLSNDV, is found in the enterobacterial outer membrane lipoprotein LPP. The outer membrane lipoprotein is the most abundant protein in an Escherichia coli cell. The messenger RNA for the lipoprotein of the E. coli outer membrane codes for a putative precursor, prolipoprotein, which has 20 additional amino acid residues extending from the amino terminus of the lipoprotein.; GO: 0019867 outer membrane; PDB: 1JCC_A 2GUV_C 2GUS_A 1JCD_A 1KFM_A 1T8Z_D 1KFN_A 1EQ7_A.
Probab=28.33 E-value=2.2e+02 Score=20.08 Aligned_cols=36 Identities=8% Similarity=0.256 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy7337 43 CASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQACA 78 (233)
Q Consensus 43 ~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l~ 78 (233)
..-+..-+.++.+|..++......+...+.+-.+.+
T Consensus 9 s~dVq~L~~kvdqLs~dv~~lr~~v~~ak~EAaRAN 44 (56)
T PF04728_consen 9 SSDVQTLNSKVDQLSSDVNALRADVQAAKEEAARAN 44 (56)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334445555666666666666555555555554443
No 214
>COG3024 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.30 E-value=26 Score=25.40 Aligned_cols=15 Identities=27% Similarity=0.771 Sum_probs=12.1
Q ss_pred hhhCCCCCCChhhhh
Q psy7337 141 YLSRECPYCGSHMIE 155 (233)
Q Consensus 141 ila~eCPlCG~~~i~ 155 (233)
.++..||.||..++.
T Consensus 5 ~~~v~CP~Cgkpv~w 19 (65)
T COG3024 5 RITVPCPTCGKPVVW 19 (65)
T ss_pred cccccCCCCCCcccc
Confidence 456899999997765
No 215
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=28.16 E-value=2.8e+02 Score=22.00 Aligned_cols=46 Identities=13% Similarity=0.211 Sum_probs=31.7
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy7337 34 CMDQFKHAICASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQACAN 79 (233)
Q Consensus 34 ~I~~fKd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l~~ 79 (233)
+++.-.+.+-+.++..+..++.+...+....+..+.+...+.++..
T Consensus 91 ~~~eA~~~l~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~l~~l~~ 136 (140)
T PRK03947 91 DLDEAIEILDKRKEELEKALEKLEEALQKLASRIAQLAQELQQLQQ 136 (140)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5566666777777777777777777777777777777666666543
No 216
>PHA01750 hypothetical protein
Probab=27.88 E-value=2.5e+02 Score=20.63 Aligned_cols=39 Identities=23% Similarity=0.441 Sum_probs=25.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7337 36 DQFKHAICASLEQYNQHIVDLKEDMSEATRSAEQVRNDI 74 (233)
Q Consensus 36 ~~fKd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el 74 (233)
+.+++-+.+.|..-..+|+.++..++...+...++++.+
T Consensus 34 dAvkeIV~~ELdNL~~ei~~~kikqDnl~~qv~eik~k~ 72 (75)
T PHA01750 34 DAVKEIVNSELDNLKTEIEELKIKQDELSRQVEEIKRKL 72 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhh
Confidence 455656666666666667776666666666666666554
No 217
>cd01282 HTH_MerR-like_sg3 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 3). Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=27.82 E-value=2.4e+02 Score=21.67 Aligned_cols=18 Identities=22% Similarity=0.418 Sum_probs=10.9
Q ss_pred HHHhhcCCCChhhhhhcCC
Q psy7337 12 EFLDESDLISIEDILPFFS 30 (233)
Q Consensus 12 ~~l~es~~L~ieDLLp~fp 30 (233)
..+++.| +++++|-.++.
T Consensus 50 ~~lr~~G-~sl~eI~~~l~ 67 (112)
T cd01282 50 RRLLAAG-LTLEEIREFLP 67 (112)
T ss_pred HHHHHcC-CCHHHHHHHHH
Confidence 3444444 77777777664
No 218
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=27.82 E-value=3.5e+02 Score=22.38 Aligned_cols=24 Identities=17% Similarity=0.185 Sum_probs=14.2
Q ss_pred hhhhhhccCCCCeEEecCCCccch
Q psy7337 90 CLLCEVQLVSNTFYIFPCGHTFHS 113 (233)
Q Consensus 90 C~~C~~~L~~~~f~vFpCgH~FH~ 113 (233)
+..-|..+....++.-.|||..|-
T Consensus 101 ~Y~sGE~~g~G~l~C~~Cg~~~~~ 124 (146)
T PF07295_consen 101 VYHSGEVVGPGTLVCENCGHEVEL 124 (146)
T ss_pred CeecCcEecCceEecccCCCEEEe
Confidence 555555554455666667777653
No 219
>KOG0230|consensus
Probab=27.81 E-value=23 Score=39.46 Aligned_cols=17 Identities=29% Similarity=0.702 Sum_probs=14.0
Q ss_pred EecCCCccchhhhhhcC
Q psy7337 104 IFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 104 vFpCgH~FH~~CL~~~~ 120 (233)
+.+|||.||++||.-+.
T Consensus 878 ~~~C~Hsl~rD~L~ffg 894 (1598)
T KOG0230|consen 878 VASCGHSLHRDCLRFFG 894 (1598)
T ss_pred ccCCcchhhhhhhhhcc
Confidence 45599999999998654
No 220
>TIGR03655 anti_R_Lar restriction alleviation protein, Lar family. Restriction alleviation proteins provide a countermeasure to host cell restriction enzyme defense against foreign DNA such as phage or plasmids. This family consists of homologs to the phage antirestriction protein Lar, and most members belong to phage genomes or prophage regions of bacterial genomes.
Probab=27.26 E-value=27 Score=23.64 Aligned_cols=10 Identities=40% Similarity=1.368 Sum_probs=7.8
Q ss_pred CCCCCCChhh
Q psy7337 144 RECPYCGSHM 153 (233)
Q Consensus 144 ~eCPlCG~~~ 153 (233)
.-||+||...
T Consensus 2 kPCPfCGg~~ 11 (53)
T TIGR03655 2 KPCPFCGGAD 11 (53)
T ss_pred CCCCCCCCcc
Confidence 4799999843
No 221
>KOG1812|consensus
Probab=27.22 E-value=52 Score=31.36 Aligned_cols=34 Identities=29% Similarity=0.763 Sum_probs=26.4
Q ss_pred CCchhhhhhccC-C-CCeEEecCCCccchhhhhhcC
Q psy7337 87 CDTCLLCEVQLV-S-NTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 87 ~~~C~~C~~~L~-~-~~f~vFpCgH~FH~~CL~~~~ 120 (233)
...|.+|..-.. . .-|++-.|+|.|-.+|..+++
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~i 181 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHI 181 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchhhhHHhHHHh
Confidence 467999994432 2 457788899999999999876
No 222
>cd04786 HTH_MerR-like_sg7 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 7) with a conserved cysteine present in the C-terminal portion of the protein. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic su
Probab=27.07 E-value=3.3e+02 Score=21.77 Aligned_cols=19 Identities=11% Similarity=0.302 Sum_probs=12.8
Q ss_pred HHHhhcCCCChhhhhhcCCC
Q psy7337 12 EFLDESDLISIEDILPFFSD 31 (233)
Q Consensus 12 ~~l~es~~L~ieDLLp~fpd 31 (233)
..++..| +++++|-.++..
T Consensus 51 ~~lr~~G-fsL~eI~~ll~~ 69 (131)
T cd04786 51 SSAQQAG-FSLDEIRQLLPA 69 (131)
T ss_pred HHHHHcC-CCHHHHHHHHhc
Confidence 3445545 688888888863
No 223
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=26.69 E-value=39 Score=22.15 Aligned_cols=25 Identities=20% Similarity=0.438 Sum_probs=17.2
Q ss_pred chhhhhhccCCC-----CeEEec-CCCccch
Q psy7337 89 TCLLCEVQLVSN-----TFYIFP-CGHTFHS 113 (233)
Q Consensus 89 ~C~~C~~~L~~~-----~f~vFp-CgH~FH~ 113 (233)
-|+.||..|... ..++=| |||.+..
T Consensus 2 FCp~Cg~~l~~~~~~~~~~~vC~~Cg~~~~~ 32 (52)
T smart00661 2 FCPKCGNMLIPKEGKEKRRFVCRKCGYEEPI 32 (52)
T ss_pred CCCCCCCccccccCCCCCEEECCcCCCeEEC
Confidence 488899887532 356666 9987754
No 224
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=26.52 E-value=24 Score=23.17 Aligned_cols=16 Identities=31% Similarity=0.960 Sum_probs=12.3
Q ss_pred hhhhCCCCCCChhhhh
Q psy7337 140 NYLSRECPYCGSHMIE 155 (233)
Q Consensus 140 ~ila~eCPlCG~~~i~ 155 (233)
.+++..||.||-+.++
T Consensus 14 ~ML~~~Cp~C~~PL~~ 29 (41)
T PF06677_consen 14 TMLDEHCPDCGTPLMR 29 (41)
T ss_pred hHhcCccCCCCCeeEE
Confidence 4678999999975544
No 225
>cd00864 PI3Ka Phosphoinositide 3-kinase family, accessory domain (PIK domain); PIK domain is conserved in PI3 and PI4-kinases. Its role is unclear, but it has been suggested to be involved in substrate presentation. Phosphoinositide 3-kinases play an important role in a variety of fundamental cellular processes and can be divided into three main classes, defined by their substrate specificity and domain architecture.
Probab=26.14 E-value=1.2e+02 Score=25.02 Aligned_cols=49 Identities=16% Similarity=0.110 Sum_probs=40.5
Q ss_pred chhHHHHHHHHhhcCCCChhhhhhcCCCccchhhHHHHHHHHHHHHHHH
Q psy7337 4 RNDIKTALEFLDESDLISIEDILPFFSDFTCMDQFKHAICASLEQYNQH 52 (233)
Q Consensus 4 ~~dI~~al~~l~es~~L~ieDLLp~fpd~v~I~~fKd~I~~sL~ey~~~ 52 (233)
..++..+..+|..-..+++.|.|.+|.....-..++.+.++.|+.+..+
T Consensus 53 ~~~~~e~~~lL~~W~~~~~~~aL~LL~~~~~~~~vr~yAv~~L~~~~~~ 101 (152)
T cd00864 53 DEEVSELYQLLKWWAPLSPEDALELLSPKYPDPVVRQYAVRVLESASDD 101 (152)
T ss_pred HHHHHHHHHHHhcCCCCCHHHHHHHcCCcCCCHHHHHHHHHHHHhCCHH
Confidence 3567888888888678999999999986655589999999999886654
No 226
>cd04785 HTH_CadR-PbrR-like Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators. Helix-turn-helix (HTH) CadR- and PbrR-like transcription regulators. CadR and PbrR regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which comprise a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=26.13 E-value=3.2e+02 Score=21.38 Aligned_cols=19 Identities=16% Similarity=0.329 Sum_probs=13.1
Q ss_pred HHHHhhcCCCChhhhhhcCC
Q psy7337 11 LEFLDESDLISIEDILPFFS 30 (233)
Q Consensus 11 l~~l~es~~L~ieDLLp~fp 30 (233)
|..+++.| +++.+|-.++.
T Consensus 50 I~~lr~~G-~sL~eI~~~l~ 68 (126)
T cd04785 50 IRRARDLG-FSLEEIRALLA 68 (126)
T ss_pred HHHHHHCC-CCHHHHHHHHh
Confidence 34456556 78888888875
No 227
>cd00895 PI3Kc_C2_beta Phosphoinositide 3-kinase (PI3K), class II, beta isoform, catalytic domain; The PI3K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases. PI3Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 3-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) or its derivatives. PI3Ks play an important role in a variety of fundamental cellular processes, including cell motility, the Ras pathway, vesicle trafficking and secretion, immune cell activation and apoptosis. They can be divided into three main classes (I, II, and III), defined by their substrate specificity, regulation, and domain structure. Class II PI3Ks preferentially use PtdIns as a substrate to produce PtdIns(3)P, but can also phosphorylate PtdIns(4)P. They function as monomers and do not
Probab=25.82 E-value=1.1e+02 Score=29.17 Aligned_cols=15 Identities=27% Similarity=0.583 Sum_probs=11.6
Q ss_pred CCeEEecCCCccchh
Q psy7337 100 NTFYIFPCGHTFHSH 114 (233)
Q Consensus 100 ~~f~vFpCgH~FH~~ 114 (233)
....+=+.||.||.+
T Consensus 213 dNImi~~~GhlfHID 227 (354)
T cd00895 213 DNIMLKTTGHMFHID 227 (354)
T ss_pred CceeEcCCCCEEEEe
Confidence 356666899999986
No 228
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=25.80 E-value=18 Score=33.27 Aligned_cols=26 Identities=27% Similarity=0.673 Sum_probs=20.2
Q ss_pred CchhhhhhccCC----CCeEEec-CCCccch
Q psy7337 88 DTCLLCEVQLVS----NTFYIFP-CGHTFHS 113 (233)
Q Consensus 88 ~~C~~C~~~L~~----~~f~vFp-CgH~FH~ 113 (233)
.+|+.|+..+.. ..++|-| |||.|.-
T Consensus 28 ~~c~~c~~~~~~~~l~~~~~vc~~c~~h~rl 58 (292)
T PRK05654 28 TKCPSCGQVLYRKELEANLNVCPKCGHHMRI 58 (292)
T ss_pred eECCCccchhhHHHHHhcCCCCCCCCCCeeC
Confidence 579999999874 3466777 9998854
No 229
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=25.79 E-value=30 Score=20.30 Aligned_cols=10 Identities=30% Similarity=0.859 Sum_probs=7.7
Q ss_pred CCCCCCChhh
Q psy7337 144 RECPYCGSHM 153 (233)
Q Consensus 144 ~eCPlCG~~~ 153 (233)
..||+|+..+
T Consensus 2 v~CPiC~~~v 11 (26)
T smart00734 2 VQCPVCFREV 11 (26)
T ss_pred CcCCCCcCcc
Confidence 4799998753
No 230
>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=25.70 E-value=38 Score=22.54 Aligned_cols=33 Identities=21% Similarity=0.542 Sum_probs=26.1
Q ss_pred CchhhhhhccC--CCCeEEecCCCccchhhhhhcC
Q psy7337 88 DTCLLCEVQLV--SNTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 88 ~~C~~C~~~L~--~~~f~vFpCgH~FH~~CL~~~~ 120 (233)
..|..|++.+. .....-..||++|=..|....+
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 57999998864 3456667899999999998765
No 231
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=25.69 E-value=32 Score=24.48 Aligned_cols=29 Identities=21% Similarity=0.581 Sum_probs=20.9
Q ss_pred CchhhhhhccCCCC-eEEec---CCCccchhhh
Q psy7337 88 DTCLLCEVQLVSNT-FYIFP---CGHTFHSHCI 116 (233)
Q Consensus 88 ~~C~~C~~~L~~~~-f~vFp---CgH~FH~~CL 116 (233)
..|..|+..|.... .+.|+ ||..-=..|-
T Consensus 8 ~~CtSCg~~i~~~~~~~~F~CPnCG~~~I~RC~ 40 (59)
T PRK14890 8 PKCTSCGIEIAPREKAVKFLCPNCGEVIIYRCE 40 (59)
T ss_pred ccccCCCCcccCCCccCEeeCCCCCCeeEeech
Confidence 46999999998555 88887 7776333343
No 232
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=25.64 E-value=1.9e+02 Score=29.22 Aligned_cols=73 Identities=15% Similarity=0.221 Sum_probs=34.6
Q ss_pred hhHHHHHHHHhhc-CCCChhhhhhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7337 5 NDIKTALEFLDES-DLISIEDILPFFSDFTCMDQFKHAICASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQAC 77 (233)
Q Consensus 5 ~dI~~al~~l~es-~~L~ieDLLp~fpd~v~I~~fKd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l 77 (233)
+.+++++++|.+. ....+......-......+.++......+.+...++..+.+++++..+..+.+++++..+
T Consensus 53 ~~~~~~l~~L~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~i~~l~~~~~~L~~~~~~l~~~~~~l 126 (646)
T PRK05771 53 TKLSEALDKLRSYLPKLNPLREEKKKVSVKSLEELIKDVEEELEKIEKEIKELEEEISELENEIKELEQEIERL 126 (646)
T ss_pred HHHHHHHHHHHHhccccccchhhhccccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3466777777664 222211111000111223334444445555555556666666666666655665555554
No 233
>PRK09514 zntR zinc-responsive transcriptional regulator; Provisional
Probab=25.29 E-value=3.6e+02 Score=21.67 Aligned_cols=18 Identities=17% Similarity=0.285 Sum_probs=12.3
Q ss_pred HHHhhcCCCChhhhhhcCC
Q psy7337 12 EFLDESDLISIEDILPFFS 30 (233)
Q Consensus 12 ~~l~es~~L~ieDLLp~fp 30 (233)
..+++.| +++.+|-.++.
T Consensus 52 ~~lr~~G-~sL~eI~~~l~ 69 (140)
T PRK09514 52 RRAKQLG-FTLEEIRELLS 69 (140)
T ss_pred HHHHHcC-CCHHHHHHHHH
Confidence 3455554 68888888875
No 234
>cd00870 PI3Ka_III Phosphoinositide 3-kinase (PI3K) class III, accessory domain (PIK domain); PIK domain is conserved in all PI3 and PI4-kinases. Its role is unclear but it has been suggested to be involved in substrate presentation. In general, PI3Ks class III phosphorylate phosphoinositol (PtdIns) only. The prototypical PI3K class III, yeast Vps34, is involved in trafficking proteins from Golgi to the vacuole.
Probab=25.11 E-value=1.2e+02 Score=25.46 Aligned_cols=48 Identities=23% Similarity=0.329 Sum_probs=40.0
Q ss_pred hhHHHHHHHHhhcCCCChhhhhhcCCCccchhhHHHHHHHHHHHHHHH
Q psy7337 5 NDIKTALEFLDESDLISIEDILPFFSDFTCMDQFKHAICASLEQYNQH 52 (233)
Q Consensus 5 ~dI~~al~~l~es~~L~ieDLLp~fpd~v~I~~fKd~I~~sL~ey~~~ 52 (233)
..++.+.++|..-..++++|.|.+|.....-..+|.+-++.|+....+
T Consensus 61 ~e~~e~~~lL~~W~~i~~~~aLeLL~~~f~~~~VR~yAV~~L~~~sd~ 108 (166)
T cd00870 61 QEVKQALELMPKWAKIDIEDALELLSPYFTNPVVRKYAVSRLKLASDE 108 (166)
T ss_pred HHHHHHHHHHhcCCCCCHHHHHHHcCccCCCHHHHHHHHHHHHhCCHH
Confidence 457889998888788999999999987777788999998888875543
No 235
>PRK14011 prefoldin subunit alpha; Provisional
Probab=24.92 E-value=2.9e+02 Score=22.81 Aligned_cols=38 Identities=24% Similarity=0.355 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy7337 41 AICASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQACA 78 (233)
Q Consensus 41 ~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l~ 78 (233)
.+...|+.|+.+++.+...+.........+..-++.+.
T Consensus 7 ~~~~~l~~~~~qie~L~~si~~L~~a~~e~~~~ie~L~ 44 (144)
T PRK14011 7 NQFMALEVYNQQVQKLQEELSSIDMMKMELLKSIESME 44 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35567899999999999999888887777777777775
No 236
>PRK13752 putative transcriptional regulator MerR; Provisional
Probab=24.78 E-value=3.8e+02 Score=21.77 Aligned_cols=18 Identities=11% Similarity=0.261 Sum_probs=12.9
Q ss_pred HHHhhcCCCChhhhhhcCC
Q psy7337 12 EFLDESDLISIEDILPFFS 30 (233)
Q Consensus 12 ~~l~es~~L~ieDLLp~fp 30 (233)
..+++.| +++++|-.++.
T Consensus 58 ~~lr~~G-~sL~eI~~ll~ 75 (144)
T PRK13752 58 KSAQRLG-FSLDEIAELLR 75 (144)
T ss_pred HHHHHcC-CCHHHHHHHHh
Confidence 4555556 68888888885
No 237
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=24.76 E-value=3.7e+02 Score=21.66 Aligned_cols=45 Identities=13% Similarity=0.198 Sum_probs=35.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q psy7337 36 DQFKHAICASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQACANR 80 (233)
Q Consensus 36 ~~fKd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l~~r 80 (233)
+.+.+.+-+.++....+|..+....+......+.++..|...-+.
T Consensus 69 ~~~~~eL~er~E~Le~ri~tLekQe~~l~e~l~eLq~~i~~~l~~ 113 (119)
T COG1382 69 EEAVDELEERKETLELRIKTLEKQEEKLQERLEELQSEIQKALGD 113 (119)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 566777777778888888888888888888888888888776554
No 238
>KOG1952|consensus
Probab=24.75 E-value=49 Score=35.02 Aligned_cols=33 Identities=24% Similarity=0.552 Sum_probs=24.5
Q ss_pred CchhhhhhccCC-CCe-EEecCCCccchhhhhhcC
Q psy7337 88 DTCLLCEVQLVS-NTF-YIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 88 ~~C~~C~~~L~~-~~f-~vFpCgH~FH~~CL~~~~ 120 (233)
-.|.+|-..|.. .+. --=.|-|+||-.|+..|.
T Consensus 192 yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WA 226 (950)
T KOG1952|consen 192 YECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWA 226 (950)
T ss_pred eEEEEeeeeccccCCceecchhhhhhhHHHHHHHH
Confidence 369999999842 232 233388999999999996
No 239
>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]
Probab=24.42 E-value=2.9e+02 Score=22.96 Aligned_cols=38 Identities=13% Similarity=0.296 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy7337 41 AICASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQACA 78 (233)
Q Consensus 41 ~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l~ 78 (233)
.|..-++.|+.+|+.++..|.........++.-+.+++
T Consensus 10 ~l~a~lq~l~~qie~L~~~i~~l~~~~~e~~~~~~tl~ 47 (145)
T COG1730 10 ELAAQLQILQSQIESLQAQIAALNAAISELQTAIETLE 47 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677788888888888888888777777776666654
No 240
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=24.41 E-value=42 Score=32.84 Aligned_cols=14 Identities=36% Similarity=0.850 Sum_probs=12.3
Q ss_pred CCCccchhhhhhcC
Q psy7337 107 CGHTFHSHCIVQDL 120 (233)
Q Consensus 107 CgH~FH~~CL~~~~ 120 (233)
|||.-|.+|..+..
T Consensus 152 CgH~cH~dCALr~~ 165 (446)
T PF07227_consen 152 CGHWCHLDCALRHE 165 (446)
T ss_pred CCceehhhhhcccc
Confidence 99999999998643
No 241
>PF04645 DUF603: Protein of unknown function, DUF603; InterPro: IPR006739 This family includes several uncharacterised proteins from Borrelia species.
Probab=24.24 E-value=2.1e+02 Score=24.70 Aligned_cols=34 Identities=18% Similarity=0.258 Sum_probs=27.6
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7337 35 MDQFKHAICASLEQYNQHIVDLKEDMSEATRSAE 68 (233)
Q Consensus 35 I~~fKd~I~~sL~ey~~~Ie~lk~eie~~~~~~~ 68 (233)
|+.|+.+.-=.|..++.+|..|..+|+.....+.
T Consensus 96 I~sf~~Y~~leL~s~~~ei~~L~~kI~~L~~~in 129 (181)
T PF04645_consen 96 IDSFNQYKNLELKSIKKEIEILRLKISSLQKEIN 129 (181)
T ss_pred HHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHhh
Confidence 6778888888899999999888888887765544
No 242
>PRK08881 rpsN 30S ribosomal protein S14; Reviewed
Probab=24.19 E-value=79 Score=24.57 Aligned_cols=70 Identities=13% Similarity=0.137 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHhcCcccccCCCchhhhhhccCCCCeEEec-CCCccchhhh
Q psy7337 45 SLEQYNQHIVDLKEDMSEAT---RSAEQVRNDIQACANRYHMIQNCDTCLLCEVQLVSNTFYIFP-CGHTFHSHCI 116 (233)
Q Consensus 45 sL~ey~~~Ie~lk~eie~~~---~~~~~l~~el~~l~~r~~iI~~~~~C~~C~~~L~~~~f~vFp-CgH~FH~~CL 116 (233)
....|...-..++..+.... +.-..+..+|+.+...+..+..-++|.++|.+= .-+--|. |.|.|-.-..
T Consensus 16 l~~k~~~kR~~lK~i~~~~~l~~~~r~~~~~kL~~lPr~ss~tRi~NRC~~TGR~R--gv~r~F~LsRi~fRela~ 89 (101)
T PRK08881 16 LVAKYAAKRAELKAIISDPNLSDEERYEARLKLQKLPRNSSPTRLRNRCELTGRPR--GYYRKFGLSRIKLRELAH 89 (101)
T ss_pred HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhCCcccchHHHhccccCCCCCC--ccccCcCchHHHHHHHHH
Confidence 34556655555665555422 222346677888877666666668999999973 2222333 8888754443
No 243
>KOG4367|consensus
Probab=24.02 E-value=34 Score=33.73 Aligned_cols=32 Identities=25% Similarity=0.507 Sum_probs=25.8
Q ss_pred CCchhhhhhccCCCCeEEecCCCccchhhhhhcC
Q psy7337 87 CDTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDL 120 (233)
Q Consensus 87 ~~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~ 120 (233)
.-+|.+|+.-. +.-+++||||..-+.|...-+
T Consensus 4 elkc~vc~~f~--~epiil~c~h~lc~~ca~~~~ 35 (699)
T KOG4367|consen 4 ELKCPVCGSFY--REPIILPCSHNLCQACARNIL 35 (699)
T ss_pred cccCceehhhc--cCceEeecccHHHHHHHHhhc
Confidence 35799999863 555789999999999988654
No 244
>KOG1244|consensus
Probab=23.94 E-value=33 Score=31.75 Aligned_cols=39 Identities=21% Similarity=0.623 Sum_probs=28.5
Q ss_pred CcccccCCCchhhhhhccCCCCeEEec--CCCccchhhhhhcC
Q psy7337 80 RYHMIQNCDTCLLCEVQLVSNTFYIFP--CGHTFHSHCIVQDL 120 (233)
Q Consensus 80 r~~iI~~~~~C~~C~~~L~~~~f~vFp--CgH~FH~~CL~~~~ 120 (233)
|++-|.- ..|++||.+= +..-++|- |-..||..||..-|
T Consensus 275 rwqciec-k~csicgtse-nddqllfcddcdrgyhmyclsppm 315 (336)
T KOG1244|consen 275 RWQCIEC-KYCSICGTSE-NDDQLLFCDDCDRGYHMYCLSPPM 315 (336)
T ss_pred eeeeeec-ceeccccCcC-CCceeEeecccCCceeeEecCCCc
Confidence 5555543 5688998886 34445554 99999999999877
No 245
>COG5319 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.89 E-value=39 Score=27.84 Aligned_cols=31 Identities=19% Similarity=0.362 Sum_probs=20.6
Q ss_pred CCCCCCCh-hhhhhhhccCCCCCCCchhhhcc
Q psy7337 144 RECPYCGS-HMIEKESKKEGGDGGGTEEKTKV 174 (233)
Q Consensus 144 ~eCPlCG~-~~i~~Id~pf~~~~~~~ee~~~~ 174 (233)
-.||.||. -+-+++..|=++....-+.+.++
T Consensus 33 v~CPvCgs~~VsK~lmAPavStaR~~~ar~~~ 64 (142)
T COG5319 33 VTCPVCGSTEVSKLLMAPAVSTARKQEARQAL 64 (142)
T ss_pred eeCCCCCcHHHHHHhcccccchhhHHHHhhhh
Confidence 48999999 44556677766665555555433
No 246
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=23.88 E-value=27 Score=36.81 Aligned_cols=34 Identities=18% Similarity=0.638 Sum_probs=23.8
Q ss_pred CchhhhhhccCCCCeEEecCCC-----ccchhhhhhcCC
Q psy7337 88 DTCLLCEVQLVSNTFYIFPCGH-----TFHSHCIVQDLD 121 (233)
Q Consensus 88 ~~C~~C~~~L~~~~f~vFpCgH-----~FH~~CL~~~~~ 121 (233)
..|.+|+-.-....-..-||.- ..|+.||.+|+.
T Consensus 13 ~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~ 51 (1175)
T COG5183 13 RSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWME 51 (1175)
T ss_pred hhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHh
Confidence 5699998764433333446664 479999999993
No 247
>PF01396 zf-C4_Topoisom: Topoisomerase DNA binding C4 zinc finger; InterPro: IPR013498 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA. This entry represents the zinc-finger domain found in type IA topoisomerases, including bacterial and archaeal topoisomerase I and III enzymes, and in eukaryotic topoisomerase III enzymes. Escherichia coli topoisomerase I proteins contain five copies of a zinc-ribbon-like domain at their C terminus, two of which have lost their cysteine residues and are therefore probably not able to bind zinc []. This domain is still considered to be a member of the zinc-ribbon superfamily despite not being able to bind zinc. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0006265 DNA topological change, 0005694 chromosome
Probab=23.65 E-value=32 Score=22.03 Aligned_cols=12 Identities=33% Similarity=1.085 Sum_probs=9.0
Q ss_pred CCCCCCChhhhh
Q psy7337 144 RECPYCGSHMIE 155 (233)
Q Consensus 144 ~eCPlCG~~~i~ 155 (233)
..||.||..|+.
T Consensus 2 ~~CP~Cg~~lv~ 13 (39)
T PF01396_consen 2 EKCPKCGGPLVL 13 (39)
T ss_pred cCCCCCCceeEE
Confidence 479999976543
No 248
>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=23.36 E-value=40 Score=25.94 Aligned_cols=37 Identities=22% Similarity=0.767 Sum_probs=27.4
Q ss_pred CCchhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhhh
Q psy7337 87 CDTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHMI 154 (233)
Q Consensus 87 ~~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~i 154 (233)
...|.+|...+. .+ ||.|-..|...- .-|..||..++
T Consensus 44 ~~~C~~CK~~v~------q~-g~~YCq~CAYkk------------------------GiCamCGKki~ 80 (90)
T PF10235_consen 44 SSKCKICKTKVH------QP-GAKYCQTCAYKK------------------------GICAMCGKKIL 80 (90)
T ss_pred Cccccccccccc------cC-CCccChhhhccc------------------------CcccccCCeec
Confidence 468999999872 22 778888887554 68999998553
No 249
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=23.36 E-value=46 Score=22.48 Aligned_cols=7 Identities=57% Similarity=1.934 Sum_probs=5.7
Q ss_pred hCCCCCC
Q psy7337 143 SRECPYC 149 (233)
Q Consensus 143 a~eCPlC 149 (233)
...||.|
T Consensus 49 ~~~CP~C 55 (55)
T PF14311_consen 49 GKGCPYC 55 (55)
T ss_pred CCCCCCC
Confidence 4789988
No 250
>PF04135 Nop10p: Nucleolar RNA-binding protein, Nop10p family; InterPro: IPR007264 H/ACA ribonucleoprotein particles (RNPs) are a family of RNA pseudouridine synthases that specify modification sites through guide RNAs. More than 100 mammalian H/ACA RNAs form an equal number of ribonucleoproteins (RNPs) by associating with the same four core proteins: Cbf5, Gar1, Nhp2 and Nop10. The function of these H/ACA RNPs is essential for biogenesis of the ribosome, splicing of precursor mRNAs (pre-mRNAs), maintenance of telomeres and probably for additional cellular processes []. Recent crystal structures of archaeal H/ACA protein complexes show how the same four proteins accommodate >100 distinct but related H/ACA RNAs []. The complex contains a stable core composed of Cbf5 and Nop10, to which Gar1 and Nhp2 subsequently bind, the complex interacts with snoRNAs []. In eukaryotes Nop10 is a nucleolar protein that is specifically associated with H/ACA snoRNAs. It is essential for normal 18S rRNA production and rRNA pseudouridylation by the ribonucleoprotein particles containing H/ACA snoRNAs (H/ACA snoRNPs). Nop10 is probably necessary for the stability of these RNPs [].; PDB: 2RFK_B 3LWR_B 2HVY_C 3HAX_C 3MQK_B 3LWO_B 3LWV_B 3HAY_C 3HJY_B 2EY4_E ....
Probab=23.16 E-value=38 Score=23.55 Aligned_cols=28 Identities=18% Similarity=0.373 Sum_probs=20.1
Q ss_pred CCCCCCChhhhhhhhccCCCCCCCchhh
Q psy7337 144 RECPYCGSHMIEKESKKEGGDGGGTEEK 171 (233)
Q Consensus 144 ~eCPlCG~~~i~~Id~pf~~~~~~~ee~ 171 (233)
..||-||......-=..|.+++.+...+
T Consensus 18 ~~cp~cG~~T~~ahPaRFSPdDky~~yR 45 (53)
T PF04135_consen 18 DKCPPCGGPTESAHPARFSPDDKYSKYR 45 (53)
T ss_dssp SBBTTTSSBSEESSSSSS-TTTTTCHHH
T ss_pred CccCCCCCCCcCCcCCCCCCCCccHHHH
Confidence 5899999987777667787766665544
No 251
>PF09535 Gmx_para_CXXCG: Protein of unknown function (Gmx_para_CXXCG); InterPro: IPR011750 This entry consists of at least 10 paralogous proteins from Myxococcus xanthus that lack detectable sequence similarity to any other protein family. An imperfectly conserved CXXCG motif, a probable binding site, appears twice in the multiple sequence alignment.
Probab=23.12 E-value=33 Score=30.79 Aligned_cols=40 Identities=18% Similarity=0.326 Sum_probs=29.3
Q ss_pred cCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhhhhhhhccCCCCCCC
Q psy7337 106 PCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHMIEKESKKEGGDGGG 167 (233)
Q Consensus 106 pCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~i~~Id~pf~~~~~~ 167 (233)
...-.+|.+|+.... ..-||.||......=|.|+++-...
T Consensus 156 e~~GrLHpdc~p~~~----------------------~ppC~~CG~~~~~lPd~~~Ld~~SL 195 (237)
T PF09535_consen 156 EPHGRLHPDCLPPDR----------------------PPPCPTCGREGLRLPDEPILDAASL 195 (237)
T ss_pred ccccccccccCCCCC----------------------CCCCcccCcccccCCCcceeccccC
Confidence 356679999998875 3589999998776666666654433
No 252
>cd04777 HTH_MerR-like_sg1 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 1), N-terminal domain. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=22.69 E-value=3e+02 Score=20.75 Aligned_cols=18 Identities=28% Similarity=0.242 Sum_probs=10.6
Q ss_pred HHHhhcCCCChhhhhhcCC
Q psy7337 12 EFLDESDLISIEDILPFFS 30 (233)
Q Consensus 12 ~~l~es~~L~ieDLLp~fp 30 (233)
..+++.| +++++|-.+|.
T Consensus 49 ~~lr~~G-~sL~eI~~~l~ 66 (107)
T cd04777 49 LELKGLG-FSLIEIQKIFS 66 (107)
T ss_pred HHHHHCC-CCHHHHHHHHH
Confidence 3444444 67777766664
No 253
>PF13966 zf-RVT: zinc-binding in reverse transcriptase
Probab=22.67 E-value=60 Score=23.67 Aligned_cols=33 Identities=18% Similarity=0.211 Sum_probs=23.3
Q ss_pred HhcCcccccCCCchhhhhhccCCCCeEEecCCCcc
Q psy7337 77 CANRYHMIQNCDTCLLCEVQLVSNTFYIFPCGHTF 111 (233)
Q Consensus 77 l~~r~~iI~~~~~C~~C~~~L~~~~f~vFpCgH~F 111 (233)
+..|.+. .+..|..|+...-+..-+.|.|..+-
T Consensus 51 l~~r~~~--~~~~C~~C~~~~Et~~Hlf~~C~~a~ 83 (86)
T PF13966_consen 51 LQRRGIQ--VDPICPLCGNEEETIEHLFFHCPFAR 83 (86)
T ss_pred hhccCCc--cCCccccCCCccccccceeccCcCcc
Confidence 3345554 34789999998767777888887753
No 254
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=22.59 E-value=4.4e+02 Score=21.64 Aligned_cols=32 Identities=13% Similarity=0.435 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy7337 48 QYNQHIVDLKEDMSEATRSAEQVRNDIQACAN 79 (233)
Q Consensus 48 ey~~~Ie~lk~eie~~~~~~~~l~~el~~l~~ 79 (233)
..+.+|..++.++.........++.++..+..
T Consensus 76 ~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~ 107 (169)
T PF07106_consen 76 ELDAEIKELREELAELKKEVKSLEAELASLSS 107 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34444555555555555555555555555443
No 255
>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]
Probab=22.32 E-value=3.8e+02 Score=22.25 Aligned_cols=45 Identities=18% Similarity=0.283 Sum_probs=30.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy7337 35 MDQFKHAICASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQACAN 79 (233)
Q Consensus 35 I~~fKd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l~~ 79 (233)
.+.--+.|-+.++++...++.+++.+....+.+..+..+++.+..
T Consensus 92 ~~eAie~l~k~~~~l~~~~~~l~~~l~~l~~~~~~l~~~~q~~~q 136 (145)
T COG1730 92 ADEAIEFLKKRIEELEKAIEKLQQALAELAQRIEQLEQEAQQLQQ 136 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455666677777777777777777777777777777666543
No 256
>KOG4718|consensus
Probab=22.20 E-value=44 Score=29.78 Aligned_cols=45 Identities=27% Similarity=0.642 Sum_probs=31.7
Q ss_pred CchhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhh
Q psy7337 88 DTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHM 153 (233)
Q Consensus 88 ~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~ 153 (233)
..|..|+.-+. ...-.=.||-.||..|...++. . -.-||-||+.-
T Consensus 182 k~Cn~Ch~LvI-qg~rCg~c~i~~h~~c~qty~q------------------~--~~~cphc~d~w 226 (235)
T KOG4718|consen 182 KNCNLCHCLVI-QGIRCGSCNIQYHRGCIQTYLQ------------------R--RDICPHCGDLW 226 (235)
T ss_pred HHHhHhHHHhh-eeeccCcccchhhhHHHHHHhc------------------c--cCcCCchhccc
Confidence 36999998762 2233345777799999998851 1 26899999854
No 257
>cd04788 HTH_NolA-AlbR Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR. Helix-turn-helix (HTH) transcription regulators NolA and AlbR, N-terminal domain. In Bradyrhizobium (Arachis) sp. NC92, NolA is required for efficient nodulation of host plants. In Xanthomonas albilineans, AlbR regulates the expression of the pathotoxin, albicidin. These proteins are putatively comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. They share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=22.18 E-value=2.7e+02 Score=20.80 Aligned_cols=20 Identities=15% Similarity=0.026 Sum_probs=12.5
Q ss_pred HHHhhcCCCChhhhhhcCCCc
Q psy7337 12 EFLDESDLISIEDILPFFSDF 32 (233)
Q Consensus 12 ~~l~es~~L~ieDLLp~fpd~ 32 (233)
..+++.| +++.+|-.++...
T Consensus 51 ~~lr~~G-~~l~eI~~~l~~~ 70 (96)
T cd04788 51 IALRRLG-FSLREIGRALDGP 70 (96)
T ss_pred HHHHHcC-CCHHHHHHHHhCC
Confidence 4445554 7777777777543
No 258
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=21.97 E-value=42 Score=22.84 Aligned_cols=30 Identities=30% Similarity=0.702 Sum_probs=13.2
Q ss_pred hhhhhhccCCCC--eEEecCCCccchhhhhhc
Q psy7337 90 CLLCEVQLVSNT--FYIFPCGHTFHSHCIVQD 119 (233)
Q Consensus 90 C~~C~~~L~~~~--f~vFpCgH~FH~~CL~~~ 119 (233)
|++|-.++.... |+==+||+.+-..|...-
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i 32 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDI 32 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHH
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHH
Confidence 677888874443 444448888888887654
No 259
>TIGR01950 SoxR redox-sensitive transcriptional activator SoxR. SoxR is a MerR-family homodimeric transcription factor with a 2Fe-2S cluster in each monomer. The motif CIGCGCxxxxxC is conserved. Oxidation of the iron-sulfur cluster activates SoxR. The physiological role in E. coli is response to oxidative stress. It is activated by superoxide, singlet oxygen, nitric oxide (NO), and hydrogen peroxide. In E. coli, SoxR increases expression of transcription factor SoxS; different downstream targets may exist in other species.
Probab=21.88 E-value=4.4e+02 Score=21.38 Aligned_cols=19 Identities=11% Similarity=0.142 Sum_probs=12.7
Q ss_pred HHHHhhcCCCChhhhhhcCC
Q psy7337 11 LEFLDESDLISIEDILPFFS 30 (233)
Q Consensus 11 l~~l~es~~L~ieDLLp~fp 30 (233)
|..+++.| +++++|-.++.
T Consensus 50 I~~lr~~G-~sL~eI~~~l~ 68 (142)
T TIGR01950 50 IKAAQRVG-IPLATIGEALA 68 (142)
T ss_pred HHHHHHcC-CCHHHHHHHHH
Confidence 34555555 88888887775
No 260
>PF00645 zf-PARP: Poly(ADP-ribose) polymerase and DNA-Ligase Zn-finger region; InterPro: IPR001510 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 PARP (Poly(ADP) polymerase) type zinc finger domains. NAD(+) ADP-ribosyltransferase(2.4.2.30 from EC) [, ] is a eukaryotic enzyme that catalyses the covalent attachment of ADP-ribose units from NAD(+) to various nuclear acceptor proteins. This post-translational modification of nuclear proteins is dependent on DNA. It appears to be involved in the regulation of various important cellular processes such as differentiation, proliferation and tumour transformation as well as in the regulation of the molecular events involved in the recovery of the cell from DNA damage. Structurally, NAD(+) ADP-ribosyltransferase consists of three distinct domains: an N-terminal zinc-dependent DNA-binding domain, a central automodification domain and a C-terminal NAD-binding domain. The DNA-binding region contains a pair of PARP-type zinc finger domains which have been shown to bind DNA in a zinc-dependent manner. The PARP-type zinc finger domains seem to bind specifically to single-stranded DNA and to act as a DNA nick sensor. DNA ligase III [] contains, in its N-terminal section, a single copy of a zinc finger highly similar to those of PARP. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0008270 zinc ion binding; PDB: 1UW0_A 3OD8_D 3ODA_A 4AV1_A 2DMJ_A 4DQY_D 2L30_A 2CS2_A 2L31_A 3ODE_B ....
Probab=21.86 E-value=74 Score=22.98 Aligned_cols=34 Identities=18% Similarity=0.417 Sum_probs=24.1
Q ss_pred CCchhhhhhccCCCC-----eEEecCC-----CccchhhhhhcC
Q psy7337 87 CDTCLLCEVQLVSNT-----FYIFPCG-----HTFHSHCIVQDL 120 (233)
Q Consensus 87 ~~~C~~C~~~L~~~~-----f~vFpCg-----H~FH~~CL~~~~ 120 (233)
..+|..|+..|.... .+.++-+ +-||..|+....
T Consensus 7 Ra~Ck~C~~~I~kg~lRiG~~~~~~~~~~~~~~W~H~~C~~~~~ 50 (82)
T PF00645_consen 7 RAKCKGCKKKIAKGELRIGKIVPSPEGDGDIPKWYHWDCFFKKQ 50 (82)
T ss_dssp TEBETTTSCBE-TTSEEEEEEEEETTSSCEEEEEEEHHHHHHTT
T ss_pred CccCcccCCcCCCCCEEEEEEecccccCCCCCceECccccccch
Confidence 367999999996433 3444455 679999998775
No 261
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=21.82 E-value=2.9e+02 Score=21.40 Aligned_cols=35 Identities=9% Similarity=0.125 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q psy7337 46 LEQYNQHIVDLKEDMSEATRSAEQVRNDIQACANR 80 (233)
Q Consensus 46 L~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l~~r 80 (233)
+.+.+.++..++.+.+...+....|+.++..+++.
T Consensus 29 ~~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~~~ 63 (105)
T PRK00888 29 YWRVNDQVAAQQQTNAKLKARNDQLFAEIDDLKGG 63 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCc
Confidence 34455566666666666666667777777777653
No 262
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=21.78 E-value=4.4e+02 Score=21.37 Aligned_cols=45 Identities=11% Similarity=0.377 Sum_probs=25.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy7337 35 MDQFKHAICASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQACAN 79 (233)
Q Consensus 35 I~~fKd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l~~ 79 (233)
++.+-++|...=++-..+|+.+-..+++..+.+..+++++..++.
T Consensus 52 l~~vs~~l~~tKkhLsqRId~vd~klDe~~ei~~~i~~eV~~v~~ 96 (126)
T PF07889_consen 52 LEQVSESLSSTKKHLSQRIDRVDDKLDEQKEISKQIKDEVTEVRE 96 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHh
Confidence 445555555555555555666666666666555555555555443
No 263
>TIGR02051 MerR Hg(II)-responsive transcriptional regulator. This model represents the mercury (II) responsive transcriptional activator of the mer organomercurial resistance operon. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(8)-Cys-Pro, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=21.38 E-value=4e+02 Score=20.80 Aligned_cols=19 Identities=21% Similarity=0.177 Sum_probs=13.2
Q ss_pred HHHhhcCCCChhhhhhcCCC
Q psy7337 12 EFLDESDLISIEDILPFFSD 31 (233)
Q Consensus 12 ~~l~es~~L~ieDLLp~fpd 31 (233)
..++..| +++++|-.++..
T Consensus 50 ~~l~~~G-~sl~eI~~~l~~ 68 (124)
T TIGR02051 50 KRAQELG-FSLEEIGGLLGL 68 (124)
T ss_pred HHHHHCC-CCHHHHHHHHhc
Confidence 3445555 789888888863
No 264
>cd01108 HTH_CueR Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators. Helix-turn-helix (HTH) transcription regulators CueR and ActP, copper efflux regulators. In Bacillus subtilis, copper induced CueR regulates the copZA operon, preventing copper toxicity. In Rhizobium leguminosarum, ActP controls copper homeostasis; it detects cytoplasmic copper stress and activates transcription in response to increasing copper concentrations. These proteins are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have two conserved cysteines that define a monovalent copper ion binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements
Probab=21.29 E-value=4.1e+02 Score=20.82 Aligned_cols=18 Identities=17% Similarity=0.281 Sum_probs=12.4
Q ss_pred HHHhhcCCCChhhhhhcCC
Q psy7337 12 EFLDESDLISIEDILPFFS 30 (233)
Q Consensus 12 ~~l~es~~L~ieDLLp~fp 30 (233)
..+++.| +++++|-.+++
T Consensus 51 ~~lr~~G-~sL~eI~~~l~ 68 (127)
T cd01108 51 RRARDLG-FSLEEIRELLA 68 (127)
T ss_pred HHHHHcC-CCHHHHHHHHH
Confidence 4455555 68888888775
No 265
>PF07503 zf-HYPF: HypF finger; InterPro: IPR011125 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Proteins of the HypF family are involved in the maturation and regulation of hydrogenase []. In the N terminus they appear to have two zinc finger domains that are similar to those found in the DnaJ chaperone []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3TTD_A 3TSQ_A 3TTC_A 3TSP_A 3TTF_A 3TSU_A.
Probab=21.26 E-value=47 Score=21.03 Aligned_cols=28 Identities=21% Similarity=0.551 Sum_probs=14.3
Q ss_pred hhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChh
Q psy7337 113 SHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSH 152 (233)
Q Consensus 113 ~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~ 152 (233)
.+|+.++.+|..|..... ...|+-||..
T Consensus 3 ~~C~~Ey~~p~~RR~~~~------------~isC~~CGPr 30 (35)
T PF07503_consen 3 DDCLKEYFDPSNRRFHYQ------------FISCTNCGPR 30 (35)
T ss_dssp HHHHHHHCSTTSTTTT-T------------T--BTTCC-S
T ss_pred HHHHHHHcCCCCCcccCc------------CccCCCCCCC
Confidence 357776655544333322 4799999973
No 266
>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 COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.19 E-value=2.7e+02 Score=25.55 Aligned_cols=30 Identities=10% Similarity=0.359 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7337 48 QYNQHIVDLKEDMSEATRSAEQVRNDIQAC 77 (233)
Q Consensus 48 ey~~~Ie~lk~eie~~~~~~~~l~~el~~l 77 (233)
+-+.++..++.+|+.....+..++.+|..+
T Consensus 63 ~~~~k~~~~~~~i~~~~~eik~l~~eI~~~ 92 (265)
T COG3883 63 EIQSKIDELQKEIDQSKAEIKKLQKEIAEL 92 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333334444444444444444444444433
No 268
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=21.03 E-value=39 Score=28.32 Aligned_cols=20 Identities=25% Similarity=0.684 Sum_probs=12.1
Q ss_pred CCCCCChhhhhhhhccCCCC
Q psy7337 145 ECPYCGSHMIEKESKKEGGD 164 (233)
Q Consensus 145 eCPlCG~~~i~~Id~pf~~~ 164 (233)
.||+||.+....++.-+.++
T Consensus 2 ~cp~c~~~~~~~~~s~~~~~ 21 (154)
T PRK00464 2 RCPFCGHPDTRVIDSRPAED 21 (154)
T ss_pred cCCCCCCCCCEeEeccccCC
Confidence 58999976555554444433
No 269
>KOG3842|consensus
Probab=21.00 E-value=61 Score=30.71 Aligned_cols=12 Identities=25% Similarity=0.775 Sum_probs=9.8
Q ss_pred CCCeEEecCCCc
Q psy7337 99 SNTFYIFPCGHT 110 (233)
Q Consensus 99 ~~~f~vFpCgH~ 110 (233)
..|+++..|||+
T Consensus 314 ~QP~vYl~CGHV 325 (429)
T KOG3842|consen 314 KQPWVYLNCGHV 325 (429)
T ss_pred cCCeEEEecccc
Confidence 358899999986
No 270
>PF09278 MerR-DNA-bind: MerR, DNA binding; InterPro: IPR015358 This entry represents a family of DNA-binding domains that are predominantly found in the prokaryotic transcriptional regulator MerR. They adopt a structure consisting of a core of three alpha helices, with an architecture that is similar to that of the 'winged helix' fold []. ; PDB: 3QAO_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q09_A 1Q08_B 1Q0A_B 1Q07_A ....
Probab=20.88 E-value=2.8e+02 Score=18.69 Aligned_cols=37 Identities=16% Similarity=0.184 Sum_probs=17.8
Q ss_pred CCChhhhhhcC--C--CccchhhHHHHHHHHHHHHHHHHHH
Q psy7337 19 LISIEDILPFF--S--DFTCMDQFKHAICASLEQYNQHIVD 55 (233)
Q Consensus 19 ~L~ieDLLp~f--p--d~v~I~~fKd~I~~sL~ey~~~Ie~ 55 (233)
-+++++|=.++ + +..+.++....+...+.+-+.+|..
T Consensus 14 GfsL~eI~~~l~l~~~~~~~~~~~~~~l~~~~~~i~~~i~~ 54 (65)
T PF09278_consen 14 GFSLEEIRELLELYDQGDPPCADRRALLEEKLEEIEEQIAE 54 (65)
T ss_dssp T--HHHHHHHHHHCCSHCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHhccCCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 48888888877 2 2334455554444444443333333
No 271
>KOG0193|consensus
Probab=20.84 E-value=37 Score=34.70 Aligned_cols=32 Identities=25% Similarity=0.503 Sum_probs=26.5
Q ss_pred CchhhhhhccCCCCeEEecCCCccchhhhhhc
Q psy7337 88 DTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQD 119 (233)
Q Consensus 88 ~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~ 119 (233)
..|..|..+++..-|..=.||--||+.|-..-
T Consensus 190 ~fC~~~~~~~l~~gfrC~~C~~KfHq~Cs~~v 221 (678)
T KOG0193|consen 190 AFCDSCCNKFLFTGFRCQTCGYKFHQSCSPRV 221 (678)
T ss_pred hhhhhhcchhhhcccccCCCCCccccccCCCC
Confidence 45887778887888888899999999998653
No 272
>TIGR02890 spore_yteA sporulation protein, yteA family. Members of this predicted regulatory protein are found only in endospore-forming members of the Firmicutes group of bacteria, and in nearly every such species; Clostridium perfringens seems to be an exception. The member from Bacillus subtilis, the model system for the study of the sporulation program, has been designated both yteA and yzwB. Some (but not all) members of this family show a strong sequence match to PFAM family pfam01258 the C4-type zinc finger protein, DksA/TraR family, but only one of the four key Cys residues is conserved. All members of this protein family share an additional C-terminal domain. The function of proteins in this family is unknown. YteA was detected in mature spores of Bacillus subtilis by Kuwana, et al., and appears to be expressed under control of sigma-K.
Probab=20.82 E-value=4.9e+02 Score=21.73 Aligned_cols=18 Identities=17% Similarity=0.475 Sum_probs=12.7
Q ss_pred chhhhhhccCCCCeEEec
Q psy7337 89 TCLLCEVQLVSNTFYIFP 106 (233)
Q Consensus 89 ~C~~C~~~L~~~~f~vFp 106 (233)
.|..||.+|.....-+.|
T Consensus 88 ~Ce~CGe~I~~~RL~a~P 105 (159)
T TIGR02890 88 ICEVCGKPIPYERLEAIP 105 (159)
T ss_pred eecccCCcccHHHHhhCC
Confidence 599999999544444444
No 273
>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=20.70 E-value=43 Score=27.42 Aligned_cols=27 Identities=11% Similarity=0.093 Sum_probs=19.4
Q ss_pred CchhhhhhccCC--C-CeEEecCCCccchh
Q psy7337 88 DTCLLCEVQLVS--N-TFYIFPCGHTFHSH 114 (233)
Q Consensus 88 ~~C~~C~~~L~~--~-~f~vFpCgH~FH~~ 114 (233)
..|+.||..++. + |.+.=.||..|...
T Consensus 10 r~Cp~cg~kFYDLnk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 10 RICPNTGSKFYDLNRRPAVSPYTGEQFPPE 39 (129)
T ss_pred ccCCCcCccccccCCCCccCCCcCCccCcc
Confidence 469999999863 3 44444499999655
No 274
>cd07977 TFIIE_beta_winged_helix TFIIE_beta_winged_helix domain, located at the central core region of TFIIE beta, with double-stranded DNA binding activity. Transcription Factor IIE (TFIIE) beta winged-helix (or forkhead) domain is located at the central core region of TFIIE beta. The winged-helix is a form of helix-turn-helix (HTH) domain which typically binds DNA with the 3rd helix. The winged-helix domain is distinguished by the presence of a C-terminal beta-strand hairpin unit (the wing) that packs against the cleft of the tri-helical core. Although most winged-helix domains are multi-member families, TFIIE beta winged-helix domain is typically found as a single orthologous group. TFIIE is one of the six eukaryotic general transcription factors (TFIIA, TFIIB, TFIID, TFIIE, TFIIF and TFIIH) that are required for transcription initiation of protein-coding genes. TFIIE is a heterotetramer consisting of two copies each of alpha and beta subunits. TFIIE beta contains several functional
Probab=20.65 E-value=81 Score=23.12 Aligned_cols=26 Identities=12% Similarity=0.510 Sum_probs=21.9
Q ss_pred hHHHHHHHHhhc--CCCChhhhhhcCCC
Q psy7337 6 DIKTALEFLDES--DLISIEDILPFFSD 31 (233)
Q Consensus 6 dI~~al~~l~es--~~L~ieDLLp~fpd 31 (233)
-+-.|+++|++. ..++++|||.+++-
T Consensus 10 ~l~~aV~ymK~r~~~Plt~~EIl~~ls~ 37 (75)
T cd07977 10 QLAKIVDYMKKRHQHPLTLDEILDYLSL 37 (75)
T ss_pred hHHHHHHHHHhcCCCCccHHHHHHHHhc
Confidence 367889999996 48999999999884
No 275
>PF15616 TerY-C: TerY-C metal binding domain
Probab=20.48 E-value=50 Score=27.09 Aligned_cols=36 Identities=36% Similarity=0.901 Sum_probs=28.2
Q ss_pred CchhhhhhccCCCCeEEecCCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCCh
Q psy7337 88 DTCLLCEVQLVSNTFYIFPCGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGS 151 (233)
Q Consensus 88 ~~C~~C~~~L~~~~f~vFpCgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~ 151 (233)
-.|+.||-.. .|.+=.||+.| |+...- ..-||-||.
T Consensus 78 PgCP~CGn~~---~fa~C~CGkl~---Ci~g~~----------------------~~~CPwCg~ 113 (131)
T PF15616_consen 78 PGCPHCGNQY---AFAVCGCGKLF---CIDGEG----------------------EVTCPWCGN 113 (131)
T ss_pred CCCCCCcChh---cEEEecCCCEE---EeCCCC----------------------CEECCCCCC
Confidence 4799999863 58888999999 765531 368999998
No 276
>KOG1829|consensus
Probab=20.26 E-value=37 Score=34.33 Aligned_cols=35 Identities=17% Similarity=0.161 Sum_probs=26.9
Q ss_pred CCCchhhhhhccCCCCeEEec----CCCccchhhhhhcC
Q psy7337 86 NCDTCLLCEVQLVSNTFYIFP----CGHTFHSHCIVQDL 120 (233)
Q Consensus 86 ~~~~C~~C~~~L~~~~f~vFp----CgH~FH~~CL~~~~ 120 (233)
++-.|+.|+.+|...-+.-|. +|+.||..|-...+
T Consensus 339 Q~~~CAgC~~~i~~~~~~~~R~C~y~G~y~C~~Ch~~~~ 377 (580)
T KOG1829|consen 339 QNFRCAGCGHTIGPDLEQRPRLCRYLGKYFCDCCHQNDK 377 (580)
T ss_pred cCceecccCCCcccccccchhHhhhhhhhhCchhcccCc
Confidence 456899999999645555554 89999999987654
No 277
>cd00872 PI3Ka_I Phosphoinositide 3-kinase (PI3K) class I, accessory domain ; PIK domain is conserved in all PI3 and PI4-kinases. Its role is unclear but it has been suggested to be involved in substrate presentation. In general, PI3K class I prefer phosphoinositol (4,5)-bisphosphate as a substrate. Mammalian members interact with active Ras. They form heterodimers with adapter molecules linking them to different signaling pathways.
Probab=20.25 E-value=1.8e+02 Score=24.69 Aligned_cols=48 Identities=15% Similarity=0.196 Sum_probs=39.3
Q ss_pred chhHHHHHHHHhhcCCCChhhhhhcCCCccchhhHHHHHHHHHHHHHH
Q psy7337 4 RNDIKTALEFLDESDLISIEDILPFFSDFTCMDQFKHAICASLEQYNQ 51 (233)
Q Consensus 4 ~~dI~~al~~l~es~~L~ieDLLp~fpd~v~I~~fKd~I~~sL~ey~~ 51 (233)
...++.+.++|..-..++++|.|.++.....-..+|.+-++.|+....
T Consensus 53 ~~~v~e~~~lL~~W~~i~~~~aLeLL~~~f~d~~VR~yAV~~L~~~sd 100 (171)
T cd00872 53 RDDVAQMYQLLKRWPKLKPEQALELLDCNFPDEHVREFAVRCLEKLSD 100 (171)
T ss_pred HHHHHHHHHHHHCCCCCCHHHHHHHCCCcCCCHHHHHHHHHHHHhCCH
Confidence 356888999998888999999999998655558899988888887544
No 278
>PRK07726 DNA topoisomerase III; Provisional
Probab=20.15 E-value=1.8e+02 Score=29.73 Aligned_cols=22 Identities=14% Similarity=0.391 Sum_probs=14.1
Q ss_pred CchhhhhhccCC---CCeEEecCCC
Q psy7337 88 DTCLLCEVQLVS---NTFYIFPCGH 109 (233)
Q Consensus 88 ~~C~~C~~~L~~---~~f~vFpCgH 109 (233)
..|+.|+.++.. ..-..|.|..
T Consensus 611 ~~CP~C~~~~~~~~~~~~~f~~Cs~ 635 (658)
T PRK07726 611 PKCPDCGKPMLKVKGKNGKMLVCQD 635 (658)
T ss_pred ccccccCccceeecccCCeeEecCC
Confidence 579999998751 1122355887
No 279
>PF07200 Mod_r: Modifier of rudimentary (Mod(r)) protein; InterPro: IPR009851 This entry represents a conserved region approximately 150 residues long within a number of eukaryotic proteins that show homology with Drosophila melanogaster Modifier of rudimentary (Mod(r)) proteins. The N-terminal half of Mod(r) proteins is acidic, whereas the C-terminal half is basic [], and both of these regions are represented in this family.; PDB: 2CAZ_F 2P22_C 2F66_F.
Probab=20.15 E-value=4e+02 Score=21.29 Aligned_cols=58 Identities=9% Similarity=0.237 Sum_probs=25.1
Q ss_pred hhhhhhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy7337 22 IEDILPFFSDFTCMDQFKHAICASLEQYNQHIVDLKEDMSEATRSAEQVRNDIQACAN 79 (233)
Q Consensus 22 ieDLLp~fpd~v~I~~fKd~I~~sL~ey~~~Ie~lk~eie~~~~~~~~l~~el~~l~~ 79 (233)
+..++--+|....+...++.+.+.........-.++..++.....+.....++..+..
T Consensus 19 l~~~v~~l~~~~~~~~~~~~l~~~n~~lAe~nL~~~~~l~~~r~~l~~~~~~~~~L~~ 76 (150)
T PF07200_consen 19 LDAFVKSLPQVQELQQEREELLAENEELAEQNLSLEPELEELRSQLQELYEELKELES 76 (150)
T ss_dssp HHHHGGGGS--HHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHcCHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHHHHHHH
Confidence 4555666666666666665555554444333322334444444433333444444433
No 280
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=20.00 E-value=78 Score=23.87 Aligned_cols=48 Identities=17% Similarity=0.444 Sum_probs=19.6
Q ss_pred CCchhhhhhccC----CCCeEEec-CCCccchhhhhhcCChHHHhhccccccchhhHhhhhhCCCCCCChhh
Q psy7337 87 CDTCLLCEVQLV----SNTFYIFP-CGHTFHSHCIVQDLDPEQKAKLDSEETGSEAVNNYLSRECPYCGSHM 153 (233)
Q Consensus 87 ~~~C~~C~~~L~----~~~f~vFp-CgH~FH~~CL~~~~~~~~~~~l~~~~t~~~eld~ila~eCPlCG~~~ 153 (233)
.+.|.+||..+. +.+|++-. |+--.-+.|..-+. ..=...||-|+...
T Consensus 9 ~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYEr-------------------keg~q~CpqCkt~y 61 (80)
T PF14569_consen 9 GQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYER-------------------KEGNQVCPQCKTRY 61 (80)
T ss_dssp S-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHH-------------------HTS-SB-TTT--B-
T ss_pred CcccccccCccccCCCCCEEEEEcccCCccchhHHHHHh-------------------hcCcccccccCCCc
Confidence 478999999985 35677655 88888888886552 11137899999643
Done!