Query psy5115
Match_columns 171
No_of_seqs 233 out of 1560
Neff 9.2
Searched_HMMs 46136
Date Fri Aug 16 17:37:28 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5115.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/5115hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd05496 Bromo_WDR9_II Bromodom 100.0 4.2E-32 9.2E-37 183.7 12.8 107 62-168 4-111 (119)
2 cd05497 Bromo_Brdt_I_like Brom 100.0 6E-32 1.3E-36 180.3 11.9 103 61-163 3-107 (107)
3 cd05505 Bromo_WSTF_like Bromod 100.0 4.3E-32 9.3E-37 177.8 10.5 96 64-159 1-96 (97)
4 cd05495 Bromo_cbp_like Bromodo 100.0 1.8E-31 4E-36 178.3 12.8 102 62-163 2-106 (108)
5 cd05502 Bromo_tif1_like Bromod 100.0 7.4E-31 1.6E-35 176.1 13.0 104 60-164 1-107 (109)
6 cd05504 Bromo_Acf1_like Bromod 100.0 7.3E-31 1.6E-35 177.2 12.7 105 59-163 8-112 (115)
7 cd05503 Bromo_BAZ2A_B_like Bro 100.0 2.9E-31 6.3E-36 174.5 10.4 97 64-160 1-97 (97)
8 cd05508 Bromo_RACK7 Bromodomai 100.0 7.7E-31 1.7E-35 172.3 11.1 96 63-159 3-98 (99)
9 cd05511 Bromo_TFIID Bromodomai 100.0 9.8E-31 2.1E-35 175.9 11.5 106 66-171 3-108 (112)
10 cd05507 Bromo_brd8_like Bromod 100.0 1.2E-30 2.5E-35 173.5 11.6 100 63-162 3-102 (104)
11 cd05509 Bromo_gcn5_like Bromod 100.0 1.9E-30 4.1E-35 172.1 11.2 100 64-163 2-101 (101)
12 cd05500 Bromo_BDF1_2_I Bromodo 100.0 3.4E-30 7.3E-35 171.3 11.8 101 60-160 1-103 (103)
13 cd05510 Bromo_SPT7_like Bromod 100.0 3.9E-30 8.4E-35 172.6 11.4 104 61-164 5-110 (112)
14 cd05501 Bromo_SP100C_like Brom 100.0 1.3E-29 2.9E-34 166.2 12.4 99 63-164 2-100 (102)
15 cd05499 Bromo_BDF1_2_II Bromod 100.0 1.2E-29 2.5E-34 168.5 10.5 96 65-160 2-102 (102)
16 cd05506 Bromo_plant1 Bromodoma 100.0 1.9E-29 4E-34 166.8 11.1 96 65-160 2-99 (99)
17 cd05516 Bromo_SNF2L2 Bromodoma 100.0 1.7E-29 3.7E-34 168.7 10.5 99 64-162 2-106 (107)
18 cd05498 Bromo_Brdt_II_like Bro 100.0 2.3E-29 5E-34 167.2 10.8 96 65-160 2-102 (102)
19 cd05528 Bromo_AAA Bromodomain; 100.0 5.7E-29 1.2E-33 167.0 11.7 102 63-164 3-108 (112)
20 cd05513 Bromo_brd7_like Bromod 100.0 4.1E-29 8.8E-34 163.8 10.6 94 65-158 3-96 (98)
21 cd05512 Bromo_brd1_like Bromod 100.0 7.6E-29 1.6E-33 162.9 10.7 93 65-157 3-95 (98)
22 cd05529 Bromo_WDR9_I_like Brom 100.0 7.9E-28 1.7E-32 165.3 13.0 105 58-162 19-127 (128)
23 cd05524 Bromo_polybromo_I Brom 100.0 3.3E-28 7.2E-33 163.8 10.7 102 65-166 4-111 (113)
24 KOG1474|consensus 100.0 1.5E-28 3.3E-33 207.6 10.9 111 58-168 217-329 (640)
25 cd05519 Bromo_SNF2 Bromodomain 100.0 6.6E-28 1.4E-32 160.2 10.2 95 65-159 2-102 (103)
26 cd05525 Bromo_ASH1 Bromodomain 100.0 1.7E-27 3.6E-32 158.4 11.2 95 65-159 4-104 (106)
27 cd05515 Bromo_polybromo_V Brom 99.9 1.6E-27 3.4E-32 158.7 10.6 97 65-161 2-104 (105)
28 cd05520 Bromo_polybromo_III Br 99.9 1.5E-27 3.3E-32 158.0 10.0 81 79-159 22-102 (103)
29 smart00297 BROMO bromo domain. 99.9 3.3E-27 7.2E-32 158.1 11.1 102 61-162 5-106 (107)
30 cd05517 Bromo_polybromo_II Bro 99.9 2.7E-27 5.8E-32 156.9 10.2 93 66-158 3-101 (103)
31 cd05518 Bromo_polybromo_IV Bro 99.9 2.7E-27 5.9E-32 156.7 10.0 93 67-159 4-102 (103)
32 cd05522 Bromo_Rsc1_2_II Bromod 99.9 5.1E-26 1.1E-30 151.2 10.3 94 66-159 4-103 (104)
33 PF00439 Bromodomain: Bromodom 99.9 9.5E-26 2.1E-30 144.7 9.0 84 68-151 1-84 (84)
34 cd05521 Bromo_Rsc1_2_I Bromodo 99.9 2.5E-25 5.4E-30 147.9 10.8 95 65-161 3-103 (106)
35 cd05492 Bromo_ZMYND11 Bromodom 99.9 4.2E-25 9.2E-30 146.8 11.9 96 69-164 6-107 (109)
36 cd04369 Bromodomain Bromodomai 99.9 6.4E-25 1.4E-29 144.4 9.8 95 65-159 2-98 (99)
37 KOG1245|consensus 99.9 9.4E-25 2E-29 195.0 6.7 95 68-163 1306-1400(1404)
38 cd05526 Bromo_polybromo_VI Bro 99.9 5.1E-22 1.1E-26 131.7 10.9 100 63-164 3-108 (110)
39 COG5076 Transcription factor i 99.8 5.8E-20 1.3E-24 147.4 9.5 89 79-167 164-252 (371)
40 KOG1472|consensus 99.7 1.2E-16 2.7E-21 134.2 6.3 104 63-166 606-709 (720)
41 cd05494 Bromodomain_1 Bromodom 99.4 9.1E-14 2E-18 93.6 4.5 76 64-139 4-88 (114)
42 KOG0955|consensus 99.4 1.9E-13 4.1E-18 119.5 7.2 104 66-169 568-671 (1051)
43 cd05491 Bromo_TBP7_like Bromod 99.4 2.9E-13 6.2E-18 90.2 4.7 42 101-142 62-103 (119)
44 KOG0008|consensus 99.3 1.4E-12 3.1E-17 114.5 5.7 99 68-166 1387-1485(1563)
45 KOG1827|consensus 99.3 1.2E-11 2.6E-16 103.0 8.9 103 59-161 48-156 (629)
46 KOG0008|consensus 99.2 5.9E-11 1.3E-15 104.6 7.4 108 61-168 1259-1366(1563)
47 KOG0386|consensus 99.1 1.2E-10 2.5E-15 100.7 6.8 99 66-164 1027-1131(1157)
48 PF00628 PHD: PHD-finger; Int 99.0 5.5E-11 1.2E-15 68.8 1.2 45 3-48 4-49 (51)
49 smart00249 PHD PHD zinc finger 99.0 3.8E-10 8.2E-15 63.7 2.9 44 3-47 4-47 (47)
50 KOG1472|consensus 99.0 8.1E-10 1.8E-14 93.6 5.4 68 77-144 300-367 (720)
51 KOG1828|consensus 98.7 2.2E-08 4.8E-13 78.8 4.0 89 65-154 210-298 (418)
52 KOG1828|consensus 98.6 3.7E-09 8.1E-14 83.0 -0.6 96 66-161 22-117 (418)
53 KOG1474|consensus 98.5 1.6E-08 3.6E-13 86.4 -0.2 90 75-164 4-95 (640)
54 cd05493 Bromo_ALL-1 Bromodomai 98.2 3.5E-06 7.5E-11 57.6 5.5 62 103-164 59-120 (131)
55 KOG4299|consensus 97.9 3.3E-06 7.1E-11 70.5 1.4 47 2-48 254-303 (613)
56 KOG1632|consensus 97.8 1.4E-06 3.1E-11 69.3 -2.5 46 3-48 64-111 (345)
57 KOG4323|consensus 97.7 7E-06 1.5E-10 66.9 -0.3 38 13-50 184-224 (464)
58 KOG3612|consensus 97.6 1E-05 2.2E-10 66.5 -0.2 121 11-144 69-196 (588)
59 PF13831 PHD_2: PHD-finger; PD 97.5 2.4E-05 5.1E-10 41.6 -0.2 35 12-48 2-36 (36)
60 COG5076 Transcription factor i 97.4 3.6E-05 7.8E-10 62.2 0.5 93 72-164 272-364 (371)
61 KOG0383|consensus 97.4 6.8E-05 1.5E-09 64.4 1.2 46 1-48 47-92 (696)
62 KOG1512|consensus 97.2 0.00018 3.8E-09 55.1 1.7 42 3-48 319-361 (381)
63 KOG0644|consensus 97.1 0.00036 7.9E-09 60.4 2.8 65 96-160 1046-1110(1113)
64 KOG0825|consensus 96.8 0.0012 2.5E-08 57.1 3.7 37 11-48 227-264 (1134)
65 KOG1844|consensus 96.5 0.0012 2.7E-08 55.4 1.8 44 4-49 91-134 (508)
66 KOG0954|consensus 96.4 0.0013 2.7E-08 56.4 0.9 43 3-48 273-319 (893)
67 KOG2752|consensus 96.2 0.0025 5.5E-08 49.5 1.9 27 4-30 133-165 (345)
68 cd04718 BAH_plant_2 BAH, or Br 95.8 0.0094 2E-07 41.7 3.0 25 24-49 2-26 (148)
69 KOG0955|consensus 95.7 0.0074 1.6E-07 54.4 2.6 46 3-51 221-270 (1051)
70 KOG0957|consensus 95.3 0.0083 1.8E-07 49.5 1.5 44 4-48 550-596 (707)
71 KOG1473|consensus 95.3 0.012 2.6E-07 52.9 2.4 43 4-48 347-389 (1414)
72 PF07496 zf-CW: CW-type Zinc F 94.3 0.035 7.7E-07 31.6 1.9 35 13-48 2-36 (50)
73 KOG1632|consensus 93.7 0.0041 8.8E-08 49.8 -3.7 42 12-53 253-298 (345)
74 PF13639 zf-RING_2: Ring finge 93.4 0.0088 1.9E-07 32.9 -1.6 40 3-48 5-44 (44)
75 KOG0732|consensus 92.8 0.1 2.2E-06 47.3 3.2 62 81-142 533-601 (1080)
76 PF15446 zf-PHD-like: PHD/FYVE 92.8 0.054 1.2E-06 38.6 1.2 29 4-32 2-35 (175)
77 PF00301 Rubredoxin: Rubredoxi 92.2 0.15 3.2E-06 28.6 2.3 35 15-49 2-42 (47)
78 PF13832 zf-HC5HC2H_2: PHD-zin 92.1 0.081 1.7E-06 35.1 1.3 27 3-29 57-85 (110)
79 PF07227 DUF1423: Protein of u 92.0 0.29 6.2E-06 40.3 4.5 49 120-168 351-399 (446)
80 COG5141 PHD zinc finger-contai 91.7 0.087 1.9E-06 43.7 1.3 35 11-48 207-241 (669)
81 cd00730 rubredoxin Rubredoxin; 91.2 0.2 4.4E-06 28.4 2.1 34 16-49 3-42 (50)
82 KOG0956|consensus 90.9 0.12 2.6E-06 44.5 1.5 42 4-48 8-55 (900)
83 COG1773 Rubredoxin [Energy pro 89.4 0.45 9.7E-06 27.5 2.5 35 15-49 4-44 (55)
84 KOG0957|consensus 89.3 0.27 5.8E-06 41.0 2.2 42 7-48 129-177 (707)
85 PF07649 C1_3: C1-like domain; 89.2 0.13 2.8E-06 25.8 0.2 25 4-29 6-30 (30)
86 TIGR02606 antidote_CC2985 puta 88.7 1 2.2E-05 27.3 4.0 28 107-134 12-39 (69)
87 cd00350 rubredoxin_like Rubred 88.1 0.63 1.4E-05 23.9 2.4 10 40-49 16-25 (33)
88 PF14446 Prok-RING_1: Prokaryo 87.5 0.37 8.1E-06 27.8 1.4 26 4-29 11-36 (54)
89 KOG0644|consensus 87.4 0.13 2.9E-06 45.3 -0.7 72 84-156 86-187 (1113)
90 PF10497 zf-4CXXC_R1: Zinc-fin 86.5 0.36 7.8E-06 32.0 1.1 32 18-49 31-69 (105)
91 PF12861 zf-Apc11: Anaphase-pr 85.4 0.38 8.2E-06 30.5 0.8 33 14-49 47-79 (85)
92 KOG1512|consensus 85.0 0.26 5.7E-06 38.1 -0.1 36 13-48 278-315 (381)
93 PF13771 zf-HC5HC2H: PHD-like 85.0 0.74 1.6E-05 29.1 2.0 29 3-31 38-68 (90)
94 KOG1827|consensus 84.9 0.11 2.5E-06 44.5 -2.3 74 82-155 214-287 (629)
95 PF03693 RHH_2: Uncharacterise 84.1 1.9 4E-05 27.1 3.5 27 107-133 15-41 (80)
96 PF14372 DUF4413: Domain of un 82.8 8.9 0.00019 25.0 6.5 50 115-164 3-52 (101)
97 KOG4443|consensus 82.2 0.37 8.1E-06 41.4 -0.3 38 11-48 32-69 (694)
98 PF13913 zf-C2HC_2: zinc-finge 81.4 0.63 1.4E-05 22.3 0.5 13 14-26 2-14 (25)
99 KOG4443|consensus 78.6 1.3 2.8E-05 38.2 1.7 36 12-48 81-116 (694)
100 cd00162 RING RING-finger (Real 78.4 0.64 1.4E-05 24.6 -0.1 39 6-48 4-42 (45)
101 PF11793 FANCL_C: FANCL C-term 77.8 0.65 1.4E-05 28.3 -0.2 36 13-48 19-62 (70)
102 PF00130 C1_1: Phorbol esters/ 77.1 2.4 5.1E-05 23.9 2.1 21 12-32 26-46 (53)
103 KOG4299|consensus 76.8 1.8 3.8E-05 37.2 2.0 45 4-49 50-94 (613)
104 PF00645 zf-PARP: Poly(ADP-rib 75.9 1.7 3.7E-05 27.1 1.4 44 21-72 38-81 (82)
105 KOG1952|consensus 75.8 0.8 1.7E-05 40.6 -0.2 42 9-51 202-246 (950)
106 COG0777 AccD Acetyl-CoA carbox 75.8 2.3 4.9E-05 33.0 2.2 31 10-48 24-54 (294)
107 KOG2626|consensus 73.6 2.2 4.9E-05 35.9 1.8 48 3-50 24-76 (544)
108 KOG1829|consensus 73.1 0.55 1.2E-05 40.1 -1.8 28 14-49 531-558 (580)
109 PF12678 zf-rbx1: RING-H2 zinc 72.3 0.82 1.8E-05 28.0 -0.8 30 14-48 44-73 (73)
110 KOG1244|consensus 70.5 0.73 1.6E-05 35.5 -1.5 38 11-48 243-282 (336)
111 PF03107 C1_2: C1 domain; Int 70.5 6.1 0.00013 19.6 2.4 25 4-29 6-30 (30)
112 PF13922 PHD_3: PHD domain of 70.3 0.77 1.7E-05 27.4 -1.1 20 13-32 42-61 (69)
113 PRK05452 anaerobic nitric oxid 69.1 5.6 0.00012 33.5 3.3 37 14-50 425-467 (479)
114 PTZ00396 Casein kinase II subu 68.9 3.1 6.8E-05 31.9 1.6 31 19-49 122-156 (251)
115 PF05191 ADK_lid: Adenylate ki 68.7 4.5 9.7E-05 21.2 1.7 26 16-48 3-28 (36)
116 PF13717 zinc_ribbon_4: zinc-r 67.5 5.2 0.00011 20.9 1.8 16 10-25 21-36 (36)
117 PRK05654 acetyl-CoA carboxylas 66.0 3.9 8.4E-05 32.2 1.6 32 9-48 22-53 (292)
118 PF01214 CK_II_beta: Casein ki 63.4 2.8 6E-05 30.7 0.4 30 19-48 101-134 (184)
119 PRK04023 DNA polymerase II lar 63.1 12 0.00026 34.4 4.2 40 2-49 627-671 (1121)
120 COG5047 SEC23 Vesicle coat com 62.1 3.7 8E-05 35.2 0.9 32 14-50 53-85 (755)
121 smart00744 RINGv The RING-vari 59.9 2.7 5.9E-05 23.6 -0.2 36 10-48 11-49 (49)
122 PF08746 zf-RING-like: RING-li 57.6 4.5 9.7E-05 22.1 0.5 31 14-47 11-43 (43)
123 KOG0383|consensus 56.4 14 0.0003 32.7 3.4 31 19-50 1-31 (696)
124 PF15227 zf-C3HC4_4: zinc fing 55.9 3.2 7E-05 22.4 -0.3 28 19-47 15-42 (42)
125 PF12172 DUF35_N: Rubredoxin-l 55.3 11 0.00023 19.6 1.7 11 16-26 13-23 (37)
126 TIGR02605 CxxC_CxxC_SSSS putat 54.8 14 0.0003 20.7 2.2 30 14-49 5-34 (52)
127 PF03380 DUF282: Caenorhabditi 54.7 7.5 0.00016 20.8 1.0 16 17-32 2-17 (39)
128 PF09723 Zn-ribbon_8: Zinc rib 54.4 14 0.00029 19.9 2.1 29 15-49 6-34 (42)
129 PF09986 DUF2225: Uncharacteri 54.3 89 0.0019 23.3 9.0 63 14-77 5-83 (214)
130 TIGR00515 accD acetyl-CoA carb 54.2 4.8 0.0001 31.6 0.3 31 10-48 22-52 (285)
131 PF04810 zf-Sec23_Sec24: Sec23 54.1 3.9 8.4E-05 21.9 -0.1 30 14-48 2-31 (40)
132 smart00184 RING Ring finger. E 53.5 3 6.5E-05 20.9 -0.7 27 17-47 13-39 (39)
133 KOG0732|consensus 53.4 6.1 0.00013 36.4 0.9 52 91-142 796-849 (1080)
134 PF13341 RAG2_PHD: RAG2 PHD do 52.9 5.9 0.00013 24.0 0.5 35 14-48 30-69 (78)
135 PF07975 C1_4: TFIIH C1-like d 52.6 8.6 0.00019 21.9 1.1 32 12-48 19-50 (51)
136 PF13923 zf-C3HC4_2: Zinc fing 52.6 4.1 8.8E-05 21.4 -0.2 37 6-47 3-39 (39)
137 PF09416 UPF1_Zn_bind: RNA hel 52.2 10 0.00022 26.8 1.6 20 9-28 9-28 (152)
138 smart00109 C1 Protein kinase C 51.7 4.7 0.0001 21.8 -0.1 18 14-31 27-44 (49)
139 smart00661 RPOL9 RNA polymeras 51.7 9.7 0.00021 21.2 1.3 10 40-49 19-28 (52)
140 cd00029 C1 Protein kinase C co 51.5 9.1 0.0002 20.8 1.1 19 13-31 27-45 (50)
141 PF14319 Zn_Tnp_IS91: Transpos 50.3 28 0.00061 23.1 3.5 33 4-48 33-67 (111)
142 smart00531 TFIIE Transcription 50.2 11 0.00024 26.3 1.7 38 8-48 93-130 (147)
143 PF04668 Tsg: Twisted gastrula 49.5 6.8 0.00015 27.0 0.4 26 21-47 102-130 (132)
144 COG5415 Predicted integral mem 48.9 9.6 0.00021 28.4 1.2 30 14-48 192-221 (251)
145 COG3609 Predicted transcriptio 48.8 41 0.00089 21.4 4.0 32 106-137 14-45 (89)
146 COG4575 ElaB Uncharacterized c 48.4 77 0.0017 20.9 6.0 50 121-170 10-60 (104)
147 PHA02929 N1R/p28-like protein; 48.2 5.2 0.00011 30.5 -0.3 29 16-49 196-224 (238)
148 KOG4628|consensus 47.3 20 0.00044 28.9 2.8 42 4-50 235-276 (348)
149 PF08772 NOB1_Zn_bind: Nin one 46.6 22 0.00049 21.8 2.4 27 13-51 8-34 (73)
150 PF03966 Trm112p: Trm112p-like 46.5 13 0.00029 22.2 1.4 11 14-24 53-63 (68)
151 PF05502 Dynactin_p62: Dynacti 46.2 9.8 0.00021 32.2 1.0 16 14-29 5-20 (483)
152 KOG1493|consensus 46.0 1.5 3.2E-05 27.2 -2.9 29 19-49 50-78 (84)
153 PRK10991 fucI L-fucose isomera 46.0 32 0.0007 29.7 4.0 45 92-137 194-238 (588)
154 PHA02825 LAP/PHD finger-like p 45.3 17 0.00037 25.9 1.9 44 2-48 9-55 (162)
155 PF02318 FYVE_2: FYVE-type zin 45.0 6 0.00013 26.6 -0.4 30 15-48 72-101 (118)
156 PF04423 Rad50_zn_hook: Rad50 45.0 23 0.00049 20.1 2.1 18 43-69 22-39 (54)
157 PF11860 DUF3380: Protein of u 44.8 90 0.0019 22.7 5.6 48 110-157 98-172 (175)
158 CHL00174 accD acetyl-CoA carbo 44.6 15 0.00033 28.9 1.8 31 10-48 34-64 (296)
159 PF10058 DUF2296: Predicted in 44.3 17 0.00037 20.9 1.5 31 13-48 21-51 (54)
160 PF13719 zinc_ribbon_5: zinc-r 44.2 21 0.00046 18.6 1.8 15 11-25 22-36 (37)
161 PF14634 zf-RING_5: zinc-RING 43.8 6.5 0.00014 21.3 -0.3 39 4-48 5-43 (44)
162 KOG1734|consensus 43.4 17 0.00037 28.3 1.8 27 19-48 251-277 (328)
163 PRK04338 N(2),N(2)-dimethylgua 42.8 57 0.0012 26.7 4.9 18 102-119 336-353 (382)
164 PF12171 zf-C2H2_jaz: Zinc-fin 42.6 14 0.00029 17.6 0.8 9 17-25 4-12 (27)
165 PF07215 DUF1419: Protein of u 42.4 19 0.0004 23.9 1.6 16 15-30 87-102 (111)
166 PF07882 Fucose_iso_N2: L-fuco 42.2 5.6 0.00012 28.8 -0.9 49 95-144 25-73 (181)
167 PF13912 zf-C2H2_6: C2H2-type 41.9 15 0.00033 17.2 0.9 10 16-25 3-12 (27)
168 KOG1246|consensus 40.4 27 0.00059 32.0 2.9 44 4-50 161-204 (904)
169 PF08134 cIII: cIII protein fa 40.0 61 0.0013 17.3 3.2 23 137-159 14-36 (44)
170 PF10083 DUF2321: Uncharacteri 40.0 5.8 0.00013 28.1 -1.1 73 3-77 30-115 (158)
171 PF00096 zf-C2H2: Zinc finger, 39.7 16 0.00035 16.3 0.8 8 17-24 3-10 (23)
172 PF05207 zf-CSL: CSL zinc fing 39.0 18 0.0004 20.8 1.1 14 12-25 38-51 (55)
173 smart00647 IBR In Between Ring 38.8 36 0.00079 19.4 2.5 20 11-30 37-56 (64)
174 KOG2114|consensus 38.7 10 0.00023 34.0 0.0 23 19-49 858-880 (933)
175 PF13894 zf-C2H2_4: C2H2-type 38.4 19 0.00041 15.8 1.0 6 17-22 3-8 (24)
176 PF00097 zf-C3HC4: Zinc finger 37.2 10 0.00023 19.8 -0.1 29 16-47 13-41 (41)
177 KOG2932|consensus 36.9 21 0.00045 28.4 1.4 21 21-48 110-130 (389)
178 COG2835 Uncharacterized conser 36.6 23 0.0005 20.8 1.3 18 8-25 20-37 (60)
179 TIGR00100 hypA hydrogenase nic 36.5 44 0.00096 22.3 2.8 27 14-51 70-96 (115)
180 KOG3092|consensus 36.2 19 0.00042 26.5 1.1 31 19-49 108-142 (216)
181 smart00154 ZnF_AN1 AN1-like Zi 36.0 33 0.00072 18.1 1.7 22 5-26 2-24 (39)
182 PF14835 zf-RING_6: zf-RING of 35.5 36 0.00079 20.4 2.0 40 3-49 9-48 (65)
183 cd08767 Cdt1_c The C-terminal 35.3 74 0.0016 21.6 3.8 50 58-114 77-126 (126)
184 COG5141 PHD zinc finger-contai 34.5 11 0.00024 31.8 -0.4 27 3-29 236-274 (669)
185 KOG3277|consensus 34.1 26 0.00056 24.9 1.4 16 6-21 96-111 (165)
186 PF14056 DUF4250: Domain of un 34.0 68 0.0015 18.5 2.9 24 104-128 7-30 (55)
187 KOG3005|consensus 34.0 15 0.00032 28.5 0.2 46 3-48 187-239 (276)
188 smart00547 ZnF_RBZ Zinc finger 33.4 23 0.00049 16.5 0.8 9 40-48 1-9 (26)
189 PF13465 zf-H2C2_2: Zinc-finge 33.4 25 0.00055 16.6 0.9 11 14-24 14-24 (26)
190 PF12411 Choline_sulf_C: Choli 33.3 63 0.0014 18.6 2.7 35 73-112 16-51 (54)
191 KOG0827|consensus 32.4 11 0.00025 30.7 -0.7 39 8-48 14-52 (465)
192 KOG1814|consensus 32.1 11 0.00025 30.9 -0.7 22 8-29 287-308 (445)
193 PF05715 zf-piccolo: Piccolo Z 31.8 13 0.00029 21.8 -0.3 34 14-48 22-56 (61)
194 KOG3970|consensus 31.3 27 0.00058 26.4 1.2 31 19-49 69-102 (299)
195 COG5574 PEX10 RING-finger-cont 31.0 12 0.00026 28.9 -0.7 39 6-48 220-258 (271)
196 PF00641 zf-RanBP: Zn-finger i 30.8 16 0.00035 17.9 -0.0 10 39-48 2-11 (30)
197 PF07754 DUF1610: Domain of un 30.6 34 0.00074 16.2 1.1 10 39-48 14-23 (24)
198 PF14225 MOR2-PAG1_C: Cell mor 30.6 1.1E+02 0.0023 23.8 4.4 33 104-136 149-181 (262)
199 COG5041 SKB2 Casein kinase II, 30.1 27 0.00058 26.1 1.0 30 19-48 123-156 (242)
200 smart00834 CxxC_CXXC_SSSS Puta 30.0 79 0.0017 16.2 2.7 30 14-49 5-34 (41)
201 PHA02862 5L protein; Provision 30.0 15 0.00033 25.8 -0.3 43 3-48 4-49 (156)
202 TIGR00155 pqiA_fam integral me 29.9 49 0.0011 27.3 2.6 30 12-48 11-40 (403)
203 PF05180 zf-DNL: DNL zinc fing 29.7 22 0.00047 21.4 0.4 21 6-27 21-41 (66)
204 KOG4739|consensus 29.1 38 0.00082 25.8 1.6 25 19-50 22-46 (233)
205 KOG2879|consensus 29.0 43 0.00094 26.1 2.0 29 19-50 257-285 (298)
206 PF05418 Apo-VLDL-II: Apovitel 28.9 1.4E+02 0.0031 18.3 5.0 46 118-167 30-75 (82)
207 PRK06266 transcription initiat 28.9 43 0.00094 24.3 1.9 57 9-78 112-168 (178)
208 PHA00626 hypothetical protein 28.9 44 0.00096 19.4 1.5 29 16-48 2-30 (59)
209 PHA02926 zinc finger-like prot 28.7 14 0.0003 27.9 -0.7 32 18-49 195-227 (242)
210 TIGR00375 conserved hypothetic 28.6 36 0.00079 27.8 1.6 25 23-48 241-265 (374)
211 PF14445 Prok-RING_2: Prokaryo 28.2 8.1 0.00017 21.9 -1.5 27 14-48 22-48 (57)
212 PF11944 DUF3461: Protein of u 28.1 2E+02 0.0043 19.6 5.7 56 115-170 63-125 (125)
213 PF04100 Vps53_N: Vps53-like, 26.9 3.6E+02 0.0077 22.1 7.2 64 105-169 120-183 (383)
214 COG3355 Predicted transcriptio 26.5 99 0.0022 21.2 3.2 37 96-136 83-119 (126)
215 COG5243 HRD1 HRD ubiquitin lig 26.5 17 0.00037 29.6 -0.6 26 19-49 317-342 (491)
216 PF11740 KfrA_N: Plasmid repli 26.0 2E+02 0.0042 18.8 6.6 32 105-136 21-52 (120)
217 COG4640 Predicted membrane pro 25.9 37 0.00079 28.0 1.2 8 41-48 15-22 (465)
218 COG4306 Uncharacterized protei 25.8 97 0.0021 21.2 3.0 73 3-77 30-115 (160)
219 smart00451 ZnF_U1 U1-like zinc 25.4 30 0.00066 17.1 0.5 11 15-25 4-14 (35)
220 TIGR00595 priA primosomal prot 25.4 53 0.0012 27.9 2.1 33 14-49 222-261 (505)
221 smart00096 UTG Uteroglobin. 25.0 1.7E+02 0.0036 17.8 3.7 32 134-165 23-54 (69)
222 PF15469 Sec5: Exocyst complex 24.7 2.6E+02 0.0057 19.9 6.2 30 107-136 91-120 (182)
223 TIGR00373 conserved hypothetic 24.6 37 0.00081 24.0 0.9 54 9-75 104-157 (158)
224 PRK10144 formate-dependent nit 24.2 56 0.0012 22.4 1.6 30 40-70 39-68 (126)
225 PLN03208 E3 ubiquitin-protein 23.9 30 0.00066 25.5 0.3 32 18-49 34-76 (193)
226 TIGR00737 nifR3_yhdG putative 23.8 3.6E+02 0.0079 21.2 7.7 49 99-147 225-276 (319)
227 PF10491 Nrf1_DNA-bind: NLS-bi 23.6 58 0.0013 24.3 1.7 23 122-144 185-207 (214)
228 smart00150 SPEC Spectrin repea 23.6 1.3E+02 0.0028 18.3 3.3 12 104-115 28-39 (101)
229 KOG1986|consensus 23.5 45 0.00098 29.5 1.3 31 14-49 53-83 (745)
230 PRK14559 putative protein seri 23.3 88 0.0019 27.6 3.1 46 1-48 1-48 (645)
231 TIGR03369 cellulose_bcsE cellu 23.1 4E+02 0.0087 21.4 6.5 29 114-142 210-238 (322)
232 PF09297 zf-NADH-PPase: NADH p 22.8 69 0.0015 15.8 1.5 10 12-21 19-28 (32)
233 PF05605 zf-Di19: Drought indu 22.8 46 0.001 18.7 0.9 9 40-48 1-9 (54)
234 PLN02436 cellulose synthase A 22.5 75 0.0016 29.7 2.6 43 2-48 37-85 (1094)
235 PF12874 zf-met: Zinc-finger o 22.5 42 0.00091 15.2 0.6 8 17-24 3-10 (25)
236 PF02891 zf-MIZ: MIZ/SP-RING z 22.1 36 0.00077 19.1 0.3 10 39-48 39-48 (50)
237 TIGR02098 MJ0042_CXXC MJ0042 f 22.1 89 0.0019 15.9 1.9 14 12-25 23-36 (38)
238 KOG2752|consensus 22.0 31 0.00068 27.4 0.1 26 3-28 57-82 (345)
239 PHA02763 hypothetical protein; 22.0 1.5E+02 0.0032 18.9 3.0 33 100-132 49-81 (102)
240 PLN02400 cellulose synthase 21.8 84 0.0018 29.5 2.7 43 2-48 37-85 (1085)
241 PF06220 zf-U1: U1 zinc finger 21.7 40 0.00086 17.8 0.4 8 17-24 6-13 (38)
242 PRK14714 DNA polymerase II lar 21.5 1.4E+02 0.0031 28.6 4.1 33 15-49 680-717 (1337)
243 TIGR03147 cyt_nit_nrfF cytochr 20.8 71 0.0015 21.9 1.6 30 40-70 39-68 (126)
244 KOG1080|consensus 20.8 89 0.0019 29.2 2.7 36 12-49 588-623 (1005)
245 PF06945 DUF1289: Protein of u 20.7 1E+02 0.0023 17.2 2.1 35 41-75 14-48 (51)
246 PLN02638 cellulose synthase A 20.1 80 0.0017 29.6 2.2 43 2-48 18-66 (1079)
247 PF08996 zf-DNA_Pol: DNA Polym 20.0 51 0.0011 24.0 0.9 42 8-49 12-53 (188)
248 PF01485 IBR: IBR domain; Int 20.0 73 0.0016 18.0 1.4 16 15-30 41-56 (64)
No 1
>cd05496 Bromo_WDR9_II Bromodomain; WDR9 repeat II_like subfamily. WDR9 is a human gene located in the Down Syndrome critical region-2 of chromosome 21. It encodes for a nuclear protein containing WD40 repeats and two bromodomains, which may function as a transcriptional regulator involved in chromatin remodeling and play a role in embryonic development. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=100.00 E-value=4.2e-32 Score=183.66 Aligned_cols=107 Identities=25% Similarity=0.450 Sum_probs=102.5
Q ss_pred hhHHHHHHHHHHHHHhCcCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCC
Q psy5115 62 PRDFESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPR 141 (171)
Q Consensus 62 ~~~~~~~~~~l~~l~~~~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~ 141 (171)
+++.+.|..+++.|++++.+++|..||++..+|+|+++|++||||+||++||++|.|.++.+|.+||+|||.||..||++
T Consensus 4 ~~w~~~c~~il~~l~~~~~s~~F~~PVd~~~~pdY~~iIk~PmDL~tIk~kL~~~~Y~~~~ef~~D~~lif~Na~~yN~~ 83 (119)
T cd05496 4 SDWKKQCKELVNLMWDCEDSEPFRQPVDLLKYPDYRDIIDTPMDLGTVKETLFGGNYDDPMEFAKDVRLIFSNSKSYTPN 83 (119)
T ss_pred HHHHHHHHHHHHHHHhCCccccccCCCChhhcCcHHHHhCCcccHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHCCC
Confidence 46788999999999999999999999999999999999999999999999999999999999999999999999999985
Q ss_pred -CCHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy5115 142 -ESPFFKHAHQLEMFFVQKVKILREKLV 168 (171)
Q Consensus 142 -~s~~~~~a~~l~~~f~~~~~~~~~~~~ 168 (171)
+|.++.+|..|++.|++.++++.+.+.
T Consensus 84 ~~s~i~~~a~~L~~~F~~~~~~l~~~~~ 111 (119)
T cd05496 84 KRSRIYSMTLRLSALFEEHIKKIISDWK 111 (119)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 899999999999999999999988774
No 2
>cd05497 Bromo_Brdt_I_like Bromodomain, Brdt_like subfamily, repeat I. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.98 E-value=6e-32 Score=180.29 Aligned_cols=103 Identities=38% Similarity=0.619 Sum_probs=95.8
Q ss_pred ChhHHHHHHHHHHHHHhCcCCCCCccCCCCC--CCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhh
Q psy5115 61 TPRDFESLRKLMKQIQAHKSAWPFMEPVDPH--EAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYY 138 (171)
Q Consensus 61 ~~~~~~~~~~~l~~l~~~~~~~~F~~pv~~~--~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~y 138 (171)
+.+..-.+..+|+.|.+++.+++|..||++. .+|+|+++|++||||++|++||++|.|.|+++|.+||+|||.||..|
T Consensus 3 ~~q~~~~~~~il~~l~~~~~s~~F~~PVd~~~~~~pdY~~iIk~PmDL~tI~~kL~~~~Y~s~~ef~~D~~li~~Na~~y 82 (107)
T cd05497 3 TNQLQYLLKVVLKALWKHKFAWPFQQPVDAVKLNLPDYHKIIKTPMDLGTIKKRLENNYYWSASECIQDFNTMFTNCYIY 82 (107)
T ss_pred cHHHHHHHHHHHHHHHhCCcCccccCCCCcccccCCcHHHHHcCcccHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHH
Confidence 3444555678899999999999999999987 69999999999999999999999999999999999999999999999
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHH
Q psy5115 139 NPRESPFFKHAHQLEMFFVQKVKIL 163 (171)
Q Consensus 139 n~~~s~~~~~a~~l~~~f~~~~~~~ 163 (171)
|+++|.++.+|..|++.|++.++++
T Consensus 83 N~~~s~i~~~A~~l~~~f~~~l~~~ 107 (107)
T cd05497 83 NKPGDDVVLMAQTLEKLFLQKLAQM 107 (107)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHcC
Confidence 9999999999999999999998764
No 3
>cd05505 Bromo_WSTF_like Bromodomain; Williams syndrome transcription factor-like subfamily (WSTF-like). The Williams-Beuren syndrome deletion transcript 9 is a putative transcriptional regulator. WSTF was found to play a role in vitamin D-mediated transcription as part of two chromatin remodeling complexes, WINAC and WICH. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.98 E-value=4.3e-32 Score=177.83 Aligned_cols=96 Identities=29% Similarity=0.556 Sum_probs=93.0
Q ss_pred HHHHHHHHHHHHHhCcCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCCC
Q psy5115 64 DFESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRES 143 (171)
Q Consensus 64 ~~~~~~~~l~~l~~~~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~s 143 (171)
+++.|.++++.|++++.+++|..||++..+|+|+++|++||||+||++||++|.|.|+++|.+||+|||+||..||+++|
T Consensus 1 ~~~~c~~il~~l~~~~~s~~F~~pv~~~~~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~yN~~~s 80 (97)
T cd05505 1 ELQKCEEILSKILKYRFSWPFREPVTADEAEDYKKVITNPMDLQTMQTKCSCGSYSSVQEFLDDMKLVFSNAEKYYENGS 80 (97)
T ss_pred CHHHHHHHHHHHHhCCCcccccCCCChhhcccHHHHcCCcCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHCCCCC
Confidence 35789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHH
Q psy5115 144 PFFKHAHQLEMFFVQK 159 (171)
Q Consensus 144 ~~~~~a~~l~~~f~~~ 159 (171)
.++..|..|++.|.+.
T Consensus 81 ~i~~~a~~le~~f~~~ 96 (97)
T cd05505 81 YVLSCMRKTEQCCVNL 96 (97)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 9999999999999875
No 4
>cd05495 Bromo_cbp_like Bromodomain, cbp_like subfamily. Cbp (CREB binding protein or CREBBP) is an acetyltransferase acting on histone, which gives a specific tag for transcriptional activation and also acetylates non-histone proteins. CREBBP binds specifically to phosphorylated CREB protein and augments the activity of phosphorylated CREB to activate transcription of cAMP-responsive genes. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.98 E-value=1.8e-31 Score=178.32 Aligned_cols=102 Identities=29% Similarity=0.581 Sum_probs=98.0
Q ss_pred hhHHHHHHHHHHHHHhC-cCCCCCccCCCCC--CCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhh
Q psy5115 62 PRDFESLRKLMKQIQAH-KSAWPFMEPVDPH--EAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYY 138 (171)
Q Consensus 62 ~~~~~~~~~~l~~l~~~-~~~~~F~~pv~~~--~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~y 138 (171)
+++++.|..+++.|.++ +.+++|..||++. ++|+|+++|++||||+||++||++|.|.++.+|.+||++||+||..|
T Consensus 2 ~~l~~~~~~il~~l~~~~~~s~~F~~PV~~~~~~~pdY~~iIk~PmDL~tI~~kL~~~~Y~s~~ef~~D~~li~~Na~~y 81 (108)
T cd05495 2 EELRQALMPTLEKLYKQDPESLPFRQPVDPKLLGIPDYFDIVKNPMDLSTIRRKLDTGQYQDPWQYVDDVWLMFDNAWLY 81 (108)
T ss_pred HHHHHHHHHHHHHHHHcCcccchhcCCCCccccCCCcHHHHhCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHH
Confidence 46788999999999999 9999999999987 69999999999999999999999999999999999999999999999
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHH
Q psy5115 139 NPRESPFFKHAHQLEMFFVQKVKIL 163 (171)
Q Consensus 139 n~~~s~~~~~a~~l~~~f~~~~~~~ 163 (171)
|+++|.++++|..|++.|++.++.+
T Consensus 82 N~~~s~i~~~a~~l~~~F~~~~~~~ 106 (108)
T cd05495 82 NRKTSRVYKYCTKLAEVFEQEIDPV 106 (108)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999998865
No 5
>cd05502 Bromo_tif1_like Bromodomain; tif1_like subfamily. Tif1 (transcription intermediary factor 1) is a member of the tripartite motif (TRIM) protein family, which is characterized by a particular domain architecture. It functions by recruiting coactivators and/or corepressors to modulate transcription. Vertebrate Tif1-gamma, also labeled E3 ubiquitin-protein ligase TRIM33, plays a role in the control of hematopoiesis. Its homologue in Xenopus laevis, Ectodermin, has been shown to function in germ-layer specification and control of cell growth during embryogenesis. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.97 E-value=7.4e-31 Score=176.12 Aligned_cols=104 Identities=34% Similarity=0.702 Sum_probs=100.3
Q ss_pred CChhHHHHHHHHHHHHHhCcCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhc---CCCCCHHHHHHHHHHHHHHHh
Q psy5115 60 LTPRDFESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQ---QRYKKLSEFIGDMTKIFDNCR 136 (171)
Q Consensus 60 l~~~~~~~~~~~l~~l~~~~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~---~~Y~s~~~f~~Dv~li~~Na~ 136 (171)
|++.+++.|.+++..|++++.+++|..||++ .+|+|+++|++||||++|++||++ |.|.++++|.+||++||+||.
T Consensus 1 ~~~~~~~~c~~il~~l~~~~~s~~F~~pv~~-~~p~Y~~iI~~PmdL~tI~~kL~~~~~~~Y~s~~~f~~D~~li~~Na~ 79 (109)
T cd05502 1 LSPIDQRKCERLLLELYCHELSLPFHEPVSP-SVPNYYKIIKTPMDLSLIRKKLQPKSPQHYSSPEEFVADVRLMFKNCY 79 (109)
T ss_pred CCHHHHHHHHHHHHHHHhCCCChhhcCCCCC-CCCCHHHHCCCCccHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHH
Confidence 5788999999999999999999999999999 799999999999999999999998 699999999999999999999
Q ss_pred hhCCCCCHHHHHHHHHHHHHHHHHHHHH
Q psy5115 137 YYNPRESPFFKHAHQLEMFFVQKVKILR 164 (171)
Q Consensus 137 ~yn~~~s~~~~~a~~l~~~f~~~~~~~~ 164 (171)
.||+++|.++.+|..|++.|++.++++.
T Consensus 80 ~yN~~~s~i~~~a~~l~~~f~~~~~~~~ 107 (109)
T cd05502 80 KFNEEDSEVAQAGKELELFFEEQLKEIL 107 (109)
T ss_pred HHCCCCCHHHHHHHHHHHHHHHHHHHHC
Confidence 9999999999999999999999998864
No 6
>cd05504 Bromo_Acf1_like Bromodomain; Acf1_like or BAZ1A_like subfamily. Bromo adjacent to zinc finger 1A (BAZ1A) was identified as a novel human bromodomain gene by cDNA library screening. The Drosophila homologue, Acf1, is part of the CHRAC (chromatin accessibility complex) and regulates ISWI-induced nucleosome remodeling. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.97 E-value=7.3e-31 Score=177.22 Aligned_cols=105 Identities=37% Similarity=0.820 Sum_probs=101.2
Q ss_pred CCChhHHHHHHHHHHHHHhCcCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhh
Q psy5115 59 NLTPRDFESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYY 138 (171)
Q Consensus 59 ~l~~~~~~~~~~~l~~l~~~~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~y 138 (171)
.-.+.++..|..+|..|+.++.+++|..||++..+|+|+++|++||||++|++||++|.|.|+++|.+||+|||+||..|
T Consensus 8 ~~~~~~~~~c~~il~~l~~~~~s~~F~~pvd~~~~pdY~~vI~~PmDL~tI~~kL~~~~Y~s~~~f~~Dv~LI~~Na~~y 87 (115)
T cd05504 8 HHGPLNLSALEQLLVEIVKHKDSWPFLRPVSKIEVPDYYDIIKKPMDLGTIKEKLNMGEYKLAEEFLSDIQLVFSNCFLY 87 (115)
T ss_pred CCCHHHHHHHHHHHHHHHhCCCchhhcCCCCccccccHHHHhcCcccHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHH
Confidence 44678899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHH
Q psy5115 139 NPRESPFFKHAHQLEMFFVQKVKIL 163 (171)
Q Consensus 139 n~~~s~~~~~a~~l~~~f~~~~~~~ 163 (171)
|+++|.++.+|..|++.|++.++++
T Consensus 88 N~~~s~i~~~A~~l~~~f~~~~~~~ 112 (115)
T cd05504 88 NPEHTSVYKAGTRLQRFFIKRCRKL 112 (115)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHh
Confidence 9999999999999999999999876
No 7
>cd05503 Bromo_BAZ2A_B_like Bromodomain, BAZ2A/BAZ2B_like subfamily. Bromo adjacent to zinc finger 2A (BAZ2A) and 2B (BAZ2B) were identified as a novel human bromodomain gene by cDNA library screening. BAZ2A is also known as Tip5 (Transcription termination factor I-interacting protein 5) and hWALp3. The proteins may play roles in transcriptional regulation. Human Tip5 is part of a complex termed NoRC (nucleolar remodeling complex), which induces nucleosome sliding and may play a role in the regulation of the rDNA locus. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.97 E-value=2.9e-31 Score=174.46 Aligned_cols=97 Identities=34% Similarity=0.747 Sum_probs=93.9
Q ss_pred HHHHHHHHHHHHHhCcCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCCC
Q psy5115 64 DFESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRES 143 (171)
Q Consensus 64 ~~~~~~~~l~~l~~~~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~s 143 (171)
++..|.+++..|.+++.+++|..||++..+|+|+++|++||||++|++||++|.|.|+++|..||++||+||..||+++|
T Consensus 1 ~~~~c~~il~~l~~~~~~~~F~~pv~~~~~p~Y~~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~yN~~~s 80 (97)
T cd05503 1 DLALCETILDEMEAHEDAWPFLEPVNTKLVPGYRKIIKKPMDFSTIREKLESGQYKTLEEFAEDVRLVFDNCETFNEDDS 80 (97)
T ss_pred CHHHHHHHHHHHHcCCCchhhcCCCCccccCCHHHHhCCCCCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHCCCCC
Confidence 36789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHH
Q psy5115 144 PFFKHAHQLEMFFVQKV 160 (171)
Q Consensus 144 ~~~~~a~~l~~~f~~~~ 160 (171)
.++++|..|++.|++.|
T Consensus 81 ~i~~~a~~l~~~f~~~~ 97 (97)
T cd05503 81 EVGRAGHNMRKFFEKRW 97 (97)
T ss_pred HHHHHHHHHHHHHHHhC
Confidence 99999999999999875
No 8
>cd05508 Bromo_RACK7 Bromodomain, RACK7_like subfamily. RACK7 (also called human protein kinase C-binding protein) was identified as a potential tumor suppressor genes, it shares domain architecture with BS69/ZMYND11; both have been implicated in the regulation of cellular proliferation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.97 E-value=7.7e-31 Score=172.27 Aligned_cols=96 Identities=27% Similarity=0.446 Sum_probs=90.3
Q ss_pred hHHHHHHHHHHHHHhCcCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCC
Q psy5115 63 RDFESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRE 142 (171)
Q Consensus 63 ~~~~~~~~~l~~l~~~~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~ 142 (171)
+....|..++..+. ++.+++|..||++..+|+|+.+|++||||+||++||++|.|.|+++|.+||+|||+||..||+++
T Consensus 3 ~l~~~L~~~~~~~~-~~~s~~F~~PV~~~~~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~LI~~Na~~YN~~~ 81 (99)
T cd05508 3 QLSKLLKFALERMK-QPGAEPFLKPVDLEQFPDYAQYVFKPMDLSTLEKNVRKKAYGSTDAFLADAKWILHNAIIYNGGD 81 (99)
T ss_pred HHHHHHHHHHHHHh-CcCcchhcCCCChhhCCCHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCC
Confidence 45566777888888 99999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CHHHHHHHHHHHHHHHH
Q psy5115 143 SPFFKHAHQLEMFFVQK 159 (171)
Q Consensus 143 s~~~~~a~~l~~~f~~~ 159 (171)
|.++.+|+.|.+.+++.
T Consensus 82 s~i~~~A~~l~~~~~~e 98 (99)
T cd05508 82 HKLTQAAKAIVKICEQE 98 (99)
T ss_pred CHHHHHHHHHHHHHHhh
Confidence 99999999999998865
No 9
>cd05511 Bromo_TFIID Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, a large multi-domain complex, which initiates the assembly of the transcription machinery. TAFII250 contains two bromodomains that specifically bind to acetylated histone H4. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.97 E-value=9.8e-31 Score=175.91 Aligned_cols=106 Identities=32% Similarity=0.626 Sum_probs=102.0
Q ss_pred HHHHHHHHHHHhCcCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCCCHH
Q psy5115 66 ESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPF 145 (171)
Q Consensus 66 ~~~~~~l~~l~~~~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~s~~ 145 (171)
-.+..+++.|++++.+++|..||++..+|+|+++|++||||++|++||++|.|.|+++|.+||++||+||..||+++|.+
T Consensus 3 ~~l~~ii~~l~~~~~s~~F~~pv~~~~~p~Y~~~I~~PmdL~tI~~kl~~~~Y~s~~ef~~Dv~li~~Na~~yN~~~s~i 82 (112)
T cd05511 3 FILDEIVNELKNLPDSWPFHTPVNKKKVPDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPDSVY 82 (112)
T ss_pred HHHHHHHHHHHhCCCchhhcCCCChhhcccHHHHhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCCCHH
Confidence 35788999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcC
Q psy5115 146 FKHAHQLEMFFVQKVKILREKLVELK 171 (171)
Q Consensus 146 ~~~a~~l~~~f~~~~~~~~~~~~~~~ 171 (171)
+.+|..|++.|++.++++++++++++
T Consensus 83 ~~~A~~l~~~~~~~~~~~~~~~~~~~ 108 (112)
T cd05511 83 TKKAKEMLELAEELLAEREEKLTQLE 108 (112)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence 99999999999999999999998763
No 10
>cd05507 Bromo_brd8_like Bromodomain, brd8_like subgroup. In mammals, brd8 (bromodomain containing 8) interacts with the thyroid hormone receptor in a ligand-dependent fashion and enhances thyroid hormone-dependent activation from thyroid response elements. Brd8 is thought to be a nuclear receptor coactivator. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.97 E-value=1.2e-30 Score=173.50 Aligned_cols=100 Identities=25% Similarity=0.407 Sum_probs=96.2
Q ss_pred hHHHHHHHHHHHHHhCcCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCC
Q psy5115 63 RDFESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRE 142 (171)
Q Consensus 63 ~~~~~~~~~l~~l~~~~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~ 142 (171)
.+++.|..+++.|..++.+++|..||++..+|+|+++|++||||+||++||++|.|.|+++|.+||.|||+||..||+++
T Consensus 3 ~~~~~~~~il~~l~~~~~a~~F~~pV~~~~~p~Y~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~yN~~~ 82 (104)
T cd05507 3 AWKKAILLVYRTLASHRYASVFLKPVTEDIAPGYHSVVYRPMDLSTIKKNIENGTIRSTAEFQRDVLLMFQNAIMYNSSD 82 (104)
T ss_pred HHHHHHHHHHHHHHcCCCCHhhcCCCCccccCCHHHHhCCCcCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCC
Confidence 46788999999999999999999999998999999999999999999999999999999999999999999999999999
Q ss_pred CHHHHHHHHHHHHHHHHHHH
Q psy5115 143 SPFFKHAHQLEMFFVQKVKI 162 (171)
Q Consensus 143 s~~~~~a~~l~~~f~~~~~~ 162 (171)
|.++.+|..|++.+.+.+..
T Consensus 83 s~v~~~A~~l~~~~~~~~~~ 102 (104)
T cd05507 83 HDVYLMAVEMQREVMSQIQQ 102 (104)
T ss_pred CHHHHHHHHHHHHHHHHhhc
Confidence 99999999999999988765
No 11
>cd05509 Bromo_gcn5_like Bromodomain; Gcn5_like subfamily. Gcn5p is a histone acetyltransferase (HAT) which mediates acetylation of histones at lysine residues; such acetylation is generally correlated with the activation of transcription. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.97 E-value=1.9e-30 Score=172.10 Aligned_cols=100 Identities=49% Similarity=0.953 Sum_probs=96.6
Q ss_pred HHHHHHHHHHHHHhCcCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCCC
Q psy5115 64 DFESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRES 143 (171)
Q Consensus 64 ~~~~~~~~l~~l~~~~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~s 143 (171)
++..|..+++.+.+++.+++|..||++..+|+|+++|++||||++|++||++|.|.|+++|..||++||+||..||+++|
T Consensus 2 ~~~~~~~il~~l~~~~~a~~F~~pv~~~~~p~Y~~~I~~PmdL~tI~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yN~~~s 81 (101)
T cd05509 2 LYTQLKKVLDSLKNHKSAWPFLEPVDKEEAPDYYDVIKKPMDLSTMEEKLENGYYVTLEEFVADLKLIFDNCRLYNGPDT 81 (101)
T ss_pred hHHHHHHHHHHHHhCCCchhhcCCCChhhcCCHHHHhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCCC
Confidence 46789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q psy5115 144 PFFKHAHQLEMFFVQKVKIL 163 (171)
Q Consensus 144 ~~~~~a~~l~~~f~~~~~~~ 163 (171)
.++++|..|++.|++.++++
T Consensus 82 ~~~~~a~~l~~~f~~~~~~~ 101 (101)
T cd05509 82 EYYKCANKLEKFFWKKLKEL 101 (101)
T ss_pred HHHHHHHHHHHHHHHHHhhC
Confidence 99999999999999998763
No 12
>cd05500 Bromo_BDF1_2_I Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat I. BDF1 and BDF2 are yeast transcription factors involved in the expression of a wide range of genes, including snRNAs; they are required for sporulation and DNA repair and protect histone H4 from deacetylation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.97 E-value=3.4e-30 Score=171.25 Aligned_cols=101 Identities=32% Similarity=0.598 Sum_probs=97.0
Q ss_pred CChhHHHHHHHHHHHHHhCcCCCCCccCCCCC--CCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhh
Q psy5115 60 LTPRDFESLRKLMKQIQAHKSAWPFMEPVDPH--EAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRY 137 (171)
Q Consensus 60 l~~~~~~~~~~~l~~l~~~~~~~~F~~pv~~~--~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~ 137 (171)
|++.+++.|.+++..|.+++.+++|..||++. .+|+|+++|++||||++|++||++|.|.++.+|..||++||+||..
T Consensus 1 ~t~~~~~~~~~ii~~l~~~~~a~~F~~pv~~~~~~~p~Y~~~I~~P~dL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~ 80 (103)
T cd05500 1 MTKHQHKFLLSSIRSLKRLKDARPFLVPVDPVKLNIPHYPTIIKKPMDLGTIERKLKSNVYTSVEEFTADFNLMVDNCLT 80 (103)
T ss_pred CCHHHHHHHHHHHHHHHcCCCChhhcCCCCcccccCCCHHHHhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Confidence 57889999999999999999999999999986 6999999999999999999999999999999999999999999999
Q ss_pred hCCCCCHHHHHHHHHHHHHHHHH
Q psy5115 138 YNPRESPFFKHAHQLEMFFVQKV 160 (171)
Q Consensus 138 yn~~~s~~~~~a~~l~~~f~~~~ 160 (171)
||+++|.++.+|..|++.|++.+
T Consensus 81 yN~~~s~~~~~A~~l~~~fe~~~ 103 (103)
T cd05500 81 FNGPEHPVSQMGKRLQAAFEKHL 103 (103)
T ss_pred HCCCCCHHHHHHHHHHHHHHHhC
Confidence 99999999999999999999853
No 13
>cd05510 Bromo_SPT7_like Bromodomain; SPT7_like subfamily. SPT7 is a yeast protein that functions as a component of the transcription regulatory histone acetylation (HAT) complexes SAGA, SALSA, and SLIK. SAGA is involved in the RNA polymerase II-dependent transcriptional regulation of about 10% of all yeast genes. The SPT7 bromodomain has been shown to weakly interact with acetylated histone H3, but not H4. The human representative of this subfamily is cat eye syndrome critical region protein 2 (CECR2). Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.97 E-value=3.9e-30 Score=172.57 Aligned_cols=104 Identities=33% Similarity=0.637 Sum_probs=98.1
Q ss_pred ChhHHHHHHHHHHHHHhC-cCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhC
Q psy5115 61 TPRDFESLRKLMKQIQAH-KSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYN 139 (171)
Q Consensus 61 ~~~~~~~~~~~l~~l~~~-~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn 139 (171)
.++..+.|..+++.|.++ +.+++|..||++..+|+|+++|++||||++|++||++|.|.|+++|.+|++|||+||..||
T Consensus 5 ~~~~~~~~~~il~~l~~~~~~s~~F~~pv~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~Li~~N~~~yN 84 (112)
T cd05510 5 QEEFYESLDKVLNELKTYTEHSTPFLTKVSKREAPDYYDIIKKPMDLGTMLKKLKNLQYKSKAEFVDDLNLIWKNCLLYN 84 (112)
T ss_pred HHHHHHHHHHHHHHHHhcCccccchhcCCChhhcCCHHHHhcCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHC
Confidence 467788999999999999 8999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCC-HHHHHHHHHHHHHHHHHHHHH
Q psy5115 140 PRES-PFFKHAHQLEMFFVQKVKILR 164 (171)
Q Consensus 140 ~~~s-~~~~~a~~l~~~f~~~~~~~~ 164 (171)
+++| .++++|..|++.|++.+..++
T Consensus 85 ~~~s~~~~~~A~~l~~~~~~~~~~~~ 110 (112)
T cd05510 85 SDPSHPLRRHANFMKKKAEHLLKLIP 110 (112)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHCC
Confidence 9766 688999999999999998764
No 14
>cd05501 Bromo_SP100C_like Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major component of PML-SP100 nuclear bodies (NBs), which are poorly understood. It is covalently modified by SUMO-1 and may play a role in processes at the chromatin level. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.97 E-value=1.3e-29 Score=166.20 Aligned_cols=99 Identities=23% Similarity=0.355 Sum_probs=93.0
Q ss_pred hHHHHHHHHHHHHHhCcCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCC
Q psy5115 63 RDFESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRE 142 (171)
Q Consensus 63 ~~~~~~~~~l~~l~~~~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~ 142 (171)
+++..|..|+..|..++.+++|..+ +..+|+|+++|++||||+||++||.+|.|.|+++|.+||+|||.||.+||+++
T Consensus 2 ~~l~~ce~il~~l~~~~~s~~f~~~--p~~~pdY~~iIk~PMDL~tI~~kL~~~~Y~s~~ef~~D~~Lif~N~~~yN~~~ 79 (102)
T cd05501 2 EELLKCEFLLLKVYCMSKSGFFISK--PYYIRDYCQGIKEPMWLNKVKERLNERVYHTVEGFVRDMRLIFHNHKLFYKDD 79 (102)
T ss_pred HHHHHHHHHHHHHHhCcccccccCC--CCCCCchHHHcCCCCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHcCCC
Confidence 5678899999999999999999774 45789999999999999999999999999999999999999999999999999
Q ss_pred CHHHHHHHHHHHHHHHHHHHHH
Q psy5115 143 SPFFKHAHQLEMFFVQKVKILR 164 (171)
Q Consensus 143 s~~~~~a~~l~~~f~~~~~~~~ 164 (171)
.++.+|..|++.|++.++++-
T Consensus 80 -~~~~~a~~L~~~Fek~~~~~f 100 (102)
T cd05501 80 -DFGQVGITLEKKFEKNFKEVF 100 (102)
T ss_pred -HHHHHHHHHHHHHHHHHHHHh
Confidence 999999999999999998763
No 15
>cd05499 Bromo_BDF1_2_II Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat II. BDF1 and BDF2 are yeast transcription factors involved in the expression of a wide range of genes, including snRNAs; they are required for sporulation and DNA repair and protect histone H4 from deacetylation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.96 E-value=1.2e-29 Score=168.49 Aligned_cols=96 Identities=34% Similarity=0.733 Sum_probs=91.3
Q ss_pred HHHHHHHHHHHHhC---cCCCCCccCCCCC--CCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhC
Q psy5115 65 FESLRKLMKQIQAH---KSAWPFMEPVDPH--EAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYN 139 (171)
Q Consensus 65 ~~~~~~~l~~l~~~---~~~~~F~~pv~~~--~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn 139 (171)
++.|.++|+.|++. +.+++|..||++. .+|+|+++|++||||++|++||++|.|.|+++|.+|+++||+||..||
T Consensus 2 ~~~c~~Il~~l~~~~~~~~s~~F~~pvd~~~~~~pdY~~~I~~P~dL~~I~~kl~~~~Y~s~~ef~~D~~li~~N~~~yn 81 (102)
T cd05499 2 LKFCEEVLKELMKPKHSAYNWPFLDPVDPVALNIPNYFSIIKKPMDLGTISKKLQNGQYQSAKEFERDVRLIFKNCYTFN 81 (102)
T ss_pred hHHHHHHHHHHHcccCCcccchhcCCCCccccCCCCHHHHhcCCCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHC
Confidence 57899999999984 5689999999998 899999999999999999999999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHHHHH
Q psy5115 140 PRESPFFKHAHQLEMFFVQKV 160 (171)
Q Consensus 140 ~~~s~~~~~a~~l~~~f~~~~ 160 (171)
+++|.++.+|..|++.|++.|
T Consensus 82 ~~~s~~~~~a~~l~~~fe~~~ 102 (102)
T cd05499 82 PEGTDVYMMGHQLEEVFNDKW 102 (102)
T ss_pred CCCCHHHHHHHHHHHHHHHhC
Confidence 999999999999999999865
No 16
>cd05506 Bromo_plant1 Bromodomain, uncharacterized subfamily specific to plants. Might function as a global transcription factor. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.96 E-value=1.9e-29 Score=166.78 Aligned_cols=96 Identities=30% Similarity=0.589 Sum_probs=92.5
Q ss_pred HHHHHHHHHHHHhCcCCCCCccCCCCC--CCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCC
Q psy5115 65 FESLRKLMKQIQAHKSAWPFMEPVDPH--EAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRE 142 (171)
Q Consensus 65 ~~~~~~~l~~l~~~~~~~~F~~pv~~~--~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~ 142 (171)
++.|..+|+.|++++.+++|..||++. .+|+|+++|++||||++|++||++|.|.|+++|.+|+++||.||..||+++
T Consensus 2 ~~~c~~il~~l~~~~~~~~F~~pv~~~~~~~p~Y~~~I~~P~dl~tI~~kL~~~~Y~s~~ef~~D~~li~~Na~~yn~~~ 81 (99)
T cd05506 2 MKQCGTLLRKLMKHKWGWVFNAPVDVVALGLPDYFDIIKKPMDLGTVKKKLEKGEYSSPEEFAADVRLTFANAMRYNPPG 81 (99)
T ss_pred HHHHHHHHHHHHhCCCCccccCCCCccccCCCCHHHHHcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCC
Confidence 578999999999999999999999976 689999999999999999999999999999999999999999999999999
Q ss_pred CHHHHHHHHHHHHHHHHH
Q psy5115 143 SPFFKHAHQLEMFFVQKV 160 (171)
Q Consensus 143 s~~~~~a~~l~~~f~~~~ 160 (171)
|.++.+|..|++.|++.|
T Consensus 82 s~i~~~a~~l~~~fe~~w 99 (99)
T cd05506 82 NDVHTMAKELLKIFETRW 99 (99)
T ss_pred CHHHHHHHHHHHHHHHhC
Confidence 999999999999999875
No 17
>cd05516 Bromo_SNF2L2 Bromodomain, SNF2L2-like subfamily, specific to animals. SNF2L2 (SNF2-alpha) or SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 2 is a global transcriptional activator, which cooperates with nuclear hormone receptors to boost transcriptional activation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.96 E-value=1.7e-29 Score=168.66 Aligned_cols=99 Identities=22% Similarity=0.429 Sum_probs=93.0
Q ss_pred HHHHHHHHHHHHHhCcC------CCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhh
Q psy5115 64 DFESLRKLMKQIQAHKS------AWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRY 137 (171)
Q Consensus 64 ~~~~~~~~l~~l~~~~~------~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~ 137 (171)
..+.+..+++.+.+++. +++|..||+...+|+||++|++||||++|++||++|.|.++++|..||.|||.||..
T Consensus 2 l~~~~~~il~~v~~~~d~~g~~~s~~F~~~p~~~~~pdYy~iI~~Pmdl~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~ 81 (107)
T cd05516 2 LTKKMNKIVDVVIKYKDSDGRQLAEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLEDLEKDVMLLCQNAQT 81 (107)
T ss_pred HHHHHHHHHHHHHhhhCcCCCEeeHHhhcCCCcccCCCHHHHcCCCCCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHH
Confidence 45678888888887765 899999999999999999999999999999999999999999999999999999999
Q ss_pred hCCCCCHHHHHHHHHHHHHHHHHHH
Q psy5115 138 YNPRESPFFKHAHQLEMFFVQKVKI 162 (171)
Q Consensus 138 yn~~~s~~~~~a~~l~~~f~~~~~~ 162 (171)
||+++|.++.+|..|++.|++.+++
T Consensus 82 yN~~~s~i~~~a~~l~~~f~~~~~~ 106 (107)
T cd05516 82 FNLEGSLIYEDSIVLQSVFKSARQK 106 (107)
T ss_pred HCCCCCHHHHHHHHHHHHHHHHHhc
Confidence 9999999999999999999998875
No 18
>cd05498 Bromo_Brdt_II_like Bromodomain, Brdt_like subfamily, repeat II. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.96 E-value=2.3e-29 Score=167.16 Aligned_cols=96 Identities=33% Similarity=0.693 Sum_probs=91.9
Q ss_pred HHHHHHHHHHHHhC---cCCCCCccCCCCC--CCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhC
Q psy5115 65 FESLRKLMKQIQAH---KSAWPFMEPVDPH--EAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYN 139 (171)
Q Consensus 65 ~~~~~~~l~~l~~~---~~~~~F~~pv~~~--~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn 139 (171)
++.|..||+.|+.+ +.+++|..||++. .+|+|+++|++||||++|++||++|.|.|+++|..||++||+||..||
T Consensus 2 ~~~c~~il~~l~~~~~~~~a~~F~~pv~~~~~~~p~Y~~~I~~Pmdl~~I~~kl~~~~Y~s~~ef~~D~~li~~Na~~yn 81 (102)
T cd05498 2 LKFCSGILKELFSKKHKAYAWPFYKPVDPEALGLHDYHDIIKHPMDLSTIKKKLDNREYADAQEFAADVRLMFSNCYKYN 81 (102)
T ss_pred hhHHHHHHHHHHhCCCccccCcccCcCCccccCCCcHHHHccCCCcHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHC
Confidence 57899999999999 8899999999986 599999999999999999999999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHHHHH
Q psy5115 140 PRESPFFKHAHQLEMFFVQKV 160 (171)
Q Consensus 140 ~~~s~~~~~a~~l~~~f~~~~ 160 (171)
+++|.++.+|..|++.|++.|
T Consensus 82 ~~~s~i~~~a~~l~~~fe~~~ 102 (102)
T cd05498 82 PPDHPVHAMARKLQDVFEDRW 102 (102)
T ss_pred CCCCHHHHHHHHHHHHHHHhC
Confidence 999999999999999999875
No 19
>cd05528 Bromo_AAA Bromodomain; sub-family co-occurring with AAA domains. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. The structure(2DKW) in this alignment is an uncharacterized protein predicted from analysis of cDNA clones from human fetal liver
Probab=99.96 E-value=5.7e-29 Score=167.01 Aligned_cols=102 Identities=29% Similarity=0.465 Sum_probs=96.5
Q ss_pred hHHHHHHHHHHHHHhCcCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCC
Q psy5115 63 RDFESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRE 142 (171)
Q Consensus 63 ~~~~~~~~~l~~l~~~~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~ 142 (171)
+.+..|..+++.|++++.+++|..||++..+|+|+++|++||||++|++||++|.|.|+++|.+||++||+||..||+++
T Consensus 3 ~lr~~L~~il~~l~~~~~~~~F~~pv~~~~~pdY~~vI~~PmdL~tI~~kl~~~~Y~s~~ef~~Dv~li~~Na~~yN~~~ 82 (112)
T cd05528 3 ELRLFLRDVLKRLASDKRFNAFTKPVDEEEVPDYYEIIKQPMDLQTILQKLDTHQYLTAKDFLKDIDLIVTNALEYNPDR 82 (112)
T ss_pred HHHHHHHHHHHHHHhCCCchhhcCCCCccccCcHHHHHcCCCCHHHHHHHHcCCCcCCHHHHHHHHHHHHHHHHHHCCCC
Confidence 56677899999999999999999999999999999999999999999999999999999999999999999999999994
Q ss_pred ----CHHHHHHHHHHHHHHHHHHHHH
Q psy5115 143 ----SPFFKHAHQLEMFFVQKVKILR 164 (171)
Q Consensus 143 ----s~~~~~a~~l~~~f~~~~~~~~ 164 (171)
|.++.+|..|++.|.+.+.+..
T Consensus 83 s~~~s~i~~~A~~L~~~~~~~~~~~~ 108 (112)
T cd05528 83 DPADKLIRSRACELRDEVHAMIEAEL 108 (112)
T ss_pred CccccHHHHHHHHHHHHHHHHHHhcC
Confidence 6999999999999999988653
No 20
>cd05513 Bromo_brd7_like Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown to inhibit cell growth and the progression of the cell cycle by regulating cell-cycle genes at the transcriptional level. BRD7 has been identified as a gene involved in nasopharyngeal carcinoma. The protein interacts with acetylated histone H3 via its bromodomain. Bromodomains are 110 amino acid long domains that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.96 E-value=4.1e-29 Score=163.82 Aligned_cols=94 Identities=28% Similarity=0.481 Sum_probs=89.1
Q ss_pred HHHHHHHHHHHHhCcCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCCCH
Q psy5115 65 FESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESP 144 (171)
Q Consensus 65 ~~~~~~~l~~l~~~~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~s~ 144 (171)
...+..+++.|++++.+++|..||++..+|+|+++|++||||+||++||++|.|.|+++|.+||++||.||..||+++|.
T Consensus 3 ~~~l~~il~~l~~~~~~~~F~~PV~~~~~pdY~~vIk~PmDL~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~yN~~~s~ 82 (98)
T cd05513 3 QKALEQLIRQLQRKDPHGFFAFPVTDFIAPGYSSIIKHPMDFSTMKEKIKNNDYQSIEEFKDDFKLMCENAMKYNKPDTI 82 (98)
T ss_pred HHHHHHHHHHHHcCCccccccCcCCccccccHHHHHcCccCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHCCCCCH
Confidence 56788999999999999999999999899999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHH
Q psy5115 145 FFKHAHQLEMFFVQ 158 (171)
Q Consensus 145 ~~~~a~~l~~~f~~ 158 (171)
++++|..|.....+
T Consensus 83 ~~~~A~~L~~~~~~ 96 (98)
T cd05513 83 YYKAAKKLLHSGMK 96 (98)
T ss_pred HHHHHHHHHHhhhh
Confidence 99999999776543
No 21
>cd05512 Bromo_brd1_like Bromodomain; brd1_like subfamily. BRD1 is a mammalian gene which encodes for a nuclear protein assumed to be a transcriptional regulator. BRD1 has been implicated with brain development and susceptibility to schizophrenia and bipolar affective disorder. Bromodomains are 110 amino acid long domains that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.96 E-value=7.6e-29 Score=162.85 Aligned_cols=93 Identities=37% Similarity=0.607 Sum_probs=88.7
Q ss_pred HHHHHHHHHHHHhCcCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCCCH
Q psy5115 65 FESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESP 144 (171)
Q Consensus 65 ~~~~~~~l~~l~~~~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~s~ 144 (171)
...|..+++.|..++.+++|..||++..+|+|+++|++||||+||++||++|.|.|+++|..||++||+||..||+++|.
T Consensus 3 ~~~l~~il~~l~~~~~~~~F~~pVd~~~~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~yN~~~s~ 82 (98)
T cd05512 3 EVLLRKTLDQLQEKDTAEIFSEPVDLSEVPDYLDHIKQPMDFSTMRKKLESQRYRTLEDFEADFNLIINNCLAYNAKDTI 82 (98)
T ss_pred HHHHHHHHHHHHhCCCchhhcCCCCccccCCHHHHhcCCcCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHCCCCCH
Confidence 35788999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHH
Q psy5115 145 FFKHAHQLEMFFV 157 (171)
Q Consensus 145 ~~~~a~~l~~~f~ 157 (171)
++++|..|++.-.
T Consensus 83 ~~~~A~~l~~~~~ 95 (98)
T cd05512 83 FYRAAVRLRDQGG 95 (98)
T ss_pred HHHHHHHHHHhhc
Confidence 9999999987643
No 22
>cd05529 Bromo_WDR9_I_like Bromodomain; WDR9 repeat I_like subfamily. WDR9 is a human gene located in the Down Syndrome critical region-2 of chromosome 21. It encodes for a nuclear protein containing WD40 repeats and two bromodomains, which may function as a transcriptional regulator involved in chromatin remodeling and play a role in embryonic development. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.96 E-value=7.9e-28 Score=165.34 Aligned_cols=105 Identities=28% Similarity=0.395 Sum_probs=100.0
Q ss_pred cCCChhHHHHHHHHHHHHH---hCcCCCCCccCCCCC-CCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHH
Q psy5115 58 KNLTPRDFESLRKLMKQIQ---AHKSAWPFMEPVDPH-EAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFD 133 (171)
Q Consensus 58 ~~l~~~~~~~~~~~l~~l~---~~~~~~~F~~pv~~~-~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~ 133 (171)
..+..+....+..++.+|. .++.+++|..||++. .+|+|+++|++||||++|++||++|.|.++++|..||+|||+
T Consensus 19 ~~~~~~~~~~i~~~l~~l~~~~~~~~~~~F~~pv~~~~~~p~Y~~iI~~PmdL~tI~~kl~~~~Y~s~~~f~~Dv~Li~~ 98 (128)
T cd05529 19 PHIRDEERERLISGLDKLLLSLQLEIAEYFEYPVDLRAWYPDYWNRVPVPMDLETIRSRLENRYYRSLEALRHDVRLILS 98 (128)
T ss_pred CCCCHHHHHHHHHHHHHHHhcccCcccccccCCCCccccCCcHHHHcCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHH
Confidence 4577888999999999999 889999999999999 999999999999999999999999999999999999999999
Q ss_pred HHhhhCCCCCHHHHHHHHHHHHHHHHHHH
Q psy5115 134 NCRYYNPRESPFFKHAHQLEMFFVQKVKI 162 (171)
Q Consensus 134 Na~~yn~~~s~~~~~a~~l~~~f~~~~~~ 162 (171)
||..||+++|.++.+|..|++.|.+.+..
T Consensus 99 Na~~yN~~~s~i~~~A~~l~~~~~~~l~~ 127 (128)
T cd05529 99 NAETFNEPNSEIAKKAKRLSDWLLRILSS 127 (128)
T ss_pred HHHHHCCCCCHHHHHHHHHHHHHHHHhcc
Confidence 99999999999999999999999988763
No 23
>cd05524 Bromo_polybromo_I Bromodomain, polybromo repeat I. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.
Probab=99.96 E-value=3.3e-28 Score=163.76 Aligned_cols=102 Identities=23% Similarity=0.425 Sum_probs=94.3
Q ss_pred HHHHHHHHHHHHhCc------CCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhh
Q psy5115 65 FESLRKLMKQIQAHK------SAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYY 138 (171)
Q Consensus 65 ~~~~~~~l~~l~~~~------~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~y 138 (171)
.+.|..+++.|.+.+ .+.+|.++|+...+|+||++|++||||++|++||++|.|.|+++|.+||++||+||..|
T Consensus 4 ~~~c~~il~~l~~~~~~~g~~l~~~F~~~p~~~~~PdYy~iI~~Pmdl~tI~~kl~~~~Y~s~~~f~~D~~lm~~Na~~y 83 (113)
T cd05524 4 IAVCQELYDTIRNYKSEDGRILCESFIRVPKRRNEPEYYEVVSNPIDLLKIQQKLKTEEYDDVDDLTADFELLINNAKAY 83 (113)
T ss_pred HHHHHHHHHHHHhhcccCCCchhHHHhcCCCcccCCCHHHHhCCccCHHHHHHHhCcCCCCCHHHHHHHHHHHHHHHHHH
Confidence 567889999998643 45689999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q psy5115 139 NPRESPFFKHAHQLEMFFVQKVKILREK 166 (171)
Q Consensus 139 n~~~s~~~~~a~~l~~~f~~~~~~~~~~ 166 (171)
|+++|.++++|..|++.|++.++++.+.
T Consensus 84 N~~~s~~~~~A~~L~~~f~~~~~~~~~~ 111 (113)
T cd05524 84 YKPDSPEHKDACKLWELFLSARNEVLSG 111 (113)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhcc
Confidence 9999999999999999999999887653
No 24
>KOG1474|consensus
Probab=99.95 E-value=1.5e-28 Score=207.56 Aligned_cols=111 Identities=35% Similarity=0.636 Sum_probs=105.1
Q ss_pred cCCChhHHHHHHHHHHHHHhCcCCCCCccCCCCC--CCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHH
Q psy5115 58 KNLTPRDFESLRKLMKQIQAHKSAWPFMEPVDPH--EAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNC 135 (171)
Q Consensus 58 ~~l~~~~~~~~~~~l~~l~~~~~~~~F~~pv~~~--~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na 135 (171)
.....++++.|..||..|+.++.+|+|..|||+. .+|+|+++|++||||+||+.||.+|.|.++.+|..||+|||.||
T Consensus 217 ~~~~~~~lk~C~~iLk~l~~~k~awpF~~PVD~v~LgLpDY~~IIK~PMDLgTIK~kL~~~~Y~~~~eF~~DVRL~F~Nc 296 (640)
T KOG1474|consen 217 SKLTVELLKQCLSILKRLMKHKHAWPFNEPVDVVKLGLPDYHDIIKHPMDLGTIKKKLEKGEYKSAEEFAADVRLTFDNC 296 (640)
T ss_pred ccccHHHHHHHHHHHHHHHhccCCCCcCCCcCHHhcCCcchhhhcCCCccHHHHHhhhcccccCCHHHHHHHHHHHHHHH
Confidence 3577889999999999999999999999999997 69999999999999999999999999999999999999999999
Q ss_pred hhhCCCCCHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy5115 136 RYYNPRESPFFKHAHQLEMFFVQKVKILREKLV 168 (171)
Q Consensus 136 ~~yn~~~s~~~~~a~~l~~~f~~~~~~~~~~~~ 168 (171)
++||++++.|+.+|+.|++.|+..|+.+...+.
T Consensus 297 m~YNp~g~dV~~Ma~~L~~~Fe~rw~~~~~~~~ 329 (640)
T KOG1474|consen 297 MTYNPEGSDVYAMAKKLQEVFEERWASMPLEIE 329 (640)
T ss_pred HhcCCCCCHHHHHHHHHHHHHHHHHhhcccccc
Confidence 999999999999999999999999998765543
No 25
>cd05519 Bromo_SNF2 Bromodomain, SNF2-like subfamily, specific to fungi. SNF2 is a yeast protein involved in transcriptional activation, it is the catalytic component of the SWI/SNF ATP-dependent chromatin remodeling complex. The protein is essential for the regulation of gene expression (both positive and negative) of a large number of genes. The SWI/SNF complex changes chromatin structure by altering DNA-histone contacts within the nucleosome, which results in a re-positioning of the nucleosome and facilitates or represses the binding of gene-specific transcription factors. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.95 E-value=6.6e-28 Score=160.21 Aligned_cols=95 Identities=31% Similarity=0.514 Sum_probs=88.5
Q ss_pred HHHHHHHHHHHHhC------cCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhh
Q psy5115 65 FESLRKLMKQIQAH------KSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYY 138 (171)
Q Consensus 65 ~~~~~~~l~~l~~~------~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~y 138 (171)
++.|..+++.+... +.+++|..||+...+|+|+++|++||||++|++||++|.|.|+.+|..||++||.||..|
T Consensus 2 ~~~~~~i~~~v~~~~~~~~~~~~~~F~~~p~~~~~pdYy~iIk~Pmdl~~I~~kl~~~~Y~s~~~f~~D~~li~~Na~~y 81 (103)
T cd05519 2 KAAMLEIYDAVLNCEDETGRKLSELFLEKPSKKLYPDYYVIIKRPIALDQIKRRIEGRAYKSLEEFLEDFHLMFANARTY 81 (103)
T ss_pred HHHHHHHHHHHHHhcCcCCCchhHHhcCCCCCCCCcCHHHHcCCCcCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHH
Confidence 46788888888844 458899999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCHHHHHHHHHHHHHHHH
Q psy5115 139 NPRESPFFKHAHQLEMFFVQK 159 (171)
Q Consensus 139 n~~~s~~~~~a~~l~~~f~~~ 159 (171)
|+++|.++.+|..|++.|++.
T Consensus 82 n~~~s~i~~~A~~l~~~f~~~ 102 (103)
T cd05519 82 NQEGSIVYEDAVEMEKAFKKK 102 (103)
T ss_pred CCCCCHHHHHHHHHHHHHHHh
Confidence 999999999999999999875
No 26
>cd05525 Bromo_ASH1 Bromodomain; ASH1_like sub-family. ASH1 (absent, small, or homeotic 1) is a member of the trithorax-group in Drosophila melanogaster, an epigenetic transcriptional regulator of HOX genes. Drosophila ASH1 has been shown to methylate specific lysines in histones H3 and H4. Mammalian ASH1 has been shown to methylate histone H3. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.95 E-value=1.7e-27 Score=158.44 Aligned_cols=95 Identities=33% Similarity=0.523 Sum_probs=86.3
Q ss_pred HHHHHHHHHHHHhCc------CCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhh
Q psy5115 65 FESLRKLMKQIQAHK------SAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYY 138 (171)
Q Consensus 65 ~~~~~~~l~~l~~~~------~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~y 138 (171)
...|..+++.+...+ .+++|.++|+...+|+||++|++||||++|++||++|.|.|+++|..|+.+||+||..|
T Consensus 4 ~~~l~~i~~~i~~~kd~~g~~~s~~F~~lp~k~~~pdYy~~I~~P~dL~tI~~kl~~~~Y~s~~ef~~D~~l~f~Na~~y 83 (106)
T cd05525 4 AQVLKEICDAIITYKDSNGQSLAIPFINLPSKKKNPDYYERITDPVDLSTIEKQILTGYYKTPEAFDSDMLKVFRNAEKY 83 (106)
T ss_pred HHHHHHHHHHHHHhhccCCCcccHhhccCCCcccCCchhhhCCCCcCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHH
Confidence 345666666666543 46899999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCHHHHHHHHHHHHHHHH
Q psy5115 139 NPRESPFFKHAHQLEMFFVQK 159 (171)
Q Consensus 139 n~~~s~~~~~a~~l~~~f~~~ 159 (171)
|+++|.++++|..|++.|++.
T Consensus 84 n~~~S~i~~~A~~L~~~f~~~ 104 (106)
T cd05525 84 YGRKSPIGRDVCRLRKAYYQA 104 (106)
T ss_pred CCCCCHHHHHHHHHHHHHHHc
Confidence 999999999999999999874
No 27
>cd05515 Bromo_polybromo_V Bromodomain, polybromo repeat V. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.
Probab=99.95 E-value=1.6e-27 Score=158.74 Aligned_cols=97 Identities=28% Similarity=0.560 Sum_probs=88.2
Q ss_pred HHHHHHHHHHHHhC------cCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhh
Q psy5115 65 FESLRKLMKQIQAH------KSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYY 138 (171)
Q Consensus 65 ~~~~~~~l~~l~~~------~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~y 138 (171)
.++|..+++.+... +.+++|..||+..++|+|+++|++||||++|++||++|.|.|+++|..||.+||.||..|
T Consensus 2 ~~~~~~~~~~i~~~~d~~~~~~a~~F~~~p~~~~~pdYy~iIk~PmdL~tI~~kl~~~~Y~s~~ef~~D~~l~~~Na~~y 81 (105)
T cd05515 2 QQKLWELYNAVKNYTDGRGRRLSLIFMRLPSKSEYPDYYDVIKKPIDMEKIRSKIEGNQYQSLDDMVSDFVLMFDNACKY 81 (105)
T ss_pred hHHHHHHHHHHHHhhCcCCCcccHHhccCCCcccCCcHHHHcCCCcCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHH
Confidence 35677777777654 457899999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHH
Q psy5115 139 NPRESPFFKHAHQLEMFFVQKVK 161 (171)
Q Consensus 139 n~~~s~~~~~a~~l~~~f~~~~~ 161 (171)
|+++|.++.+|..|++.|.+..+
T Consensus 82 N~~~s~i~~~A~~L~~~~~~~~~ 104 (105)
T cd05515 82 NEPDSQIYKDALTLQKVLLETKR 104 (105)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHc
Confidence 99999999999999999987653
No 28
>cd05520 Bromo_polybromo_III Bromodomain, polybromo repeat III. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.
Probab=99.95 E-value=1.5e-27 Score=158.01 Aligned_cols=81 Identities=30% Similarity=0.580 Sum_probs=78.0
Q ss_pred cCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHH
Q psy5115 79 KSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQ 158 (171)
Q Consensus 79 ~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~s~~~~~a~~l~~~f~~ 158 (171)
+.+++|.++|+...+|+||++|++||||++|++||++|.|.++.+|.+||++||.||..||+++|.++.+|..|++.|++
T Consensus 22 ~~s~pF~~~p~~~~~PdYy~iI~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~lm~~Na~~yN~~~s~i~~~A~~L~~~f~~ 101 (103)
T cd05520 22 LLAEPFLKLPSKRKYPDYYQEIKNPISLQQIRTKLKNGEYETLEELEADLNLMFENAKRYNVPNSRIYKDAEKLQKLMQA 101 (103)
T ss_pred CccHhhhcCCCcccCCCHHHHcCCCcCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHH
Confidence 46889999999999999999999999999999999999999999999999999999999999999999999999999986
Q ss_pred H
Q psy5115 159 K 159 (171)
Q Consensus 159 ~ 159 (171)
.
T Consensus 102 ~ 102 (103)
T cd05520 102 K 102 (103)
T ss_pred h
Confidence 4
No 29
>smart00297 BROMO bromo domain.
Probab=99.95 E-value=3.3e-27 Score=158.15 Aligned_cols=102 Identities=36% Similarity=0.795 Sum_probs=96.9
Q ss_pred ChhHHHHHHHHHHHHHhCcCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCC
Q psy5115 61 TPRDFESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNP 140 (171)
Q Consensus 61 ~~~~~~~~~~~l~~l~~~~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~ 140 (171)
.......|..++..+..++.+++|..||++..+|+|+.+|++||||++|++||++|.|.|+++|.+||++||.||..||+
T Consensus 5 ~~~~~~~~~~i~~~~~~~~~~~~F~~~~~~~~~p~Y~~~i~~P~dl~~I~~kl~~~~Y~s~~ef~~D~~li~~Na~~~n~ 84 (107)
T smart00297 5 QKKLQSLLKAVLDKLDSHRLSWPFLKPVDRKEAPDYYDIIKKPMDLSTIKKKLENGKYSSVEEFVADVQLMFSNAKTYNG 84 (107)
T ss_pred HHHHHHHHHHHHHHHHhCccchhhccCCChhhccCHHHHhcCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCC
Confidence 44566788889999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHHHHHHH
Q psy5115 141 RESPFFKHAHQLEMFFVQKVKI 162 (171)
Q Consensus 141 ~~s~~~~~a~~l~~~f~~~~~~ 162 (171)
++|.++.+|..|++.|++.+++
T Consensus 85 ~~s~~~~~a~~l~~~f~~~~~~ 106 (107)
T smart00297 85 PDSEVYKDAKKLEKFFEKKLRE 106 (107)
T ss_pred CCCHHHHHHHHHHHHHHHHHhh
Confidence 9999999999999999999876
No 30
>cd05517 Bromo_polybromo_II Bromodomain, polybromo repeat II. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.
Probab=99.95 E-value=2.7e-27 Score=156.86 Aligned_cols=93 Identities=29% Similarity=0.494 Sum_probs=85.8
Q ss_pred HHHHHHHHHHHhCc------CCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhC
Q psy5115 66 ESLRKLMKQIQAHK------SAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYN 139 (171)
Q Consensus 66 ~~~~~~l~~l~~~~------~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn 139 (171)
+.+..+++.+.+.. .+++|.++|+...+|+||++|++||||++|++||++|.|.++.+|..||++||.||..||
T Consensus 3 ~~~~~l~~~i~~~~d~~gr~~~~~F~~lp~~~~~pdYy~vI~~PmdL~tI~~kl~~~~Y~s~~~f~~D~~lm~~Na~~yN 82 (103)
T cd05517 3 QILEQLLEAVMTATDPSGRLISELFQKLPSKVLYPDYYAVIKEPIDLKTIAQRIQSGYYKSIEDMEKDLDLMVKNAKTFN 82 (103)
T ss_pred HHHHHHHHHHHHhhCcCCCChhHHHhcCCCCCCCCCHHHHcCCCcCHHHHHHHHCcCCCCCHHHHHHHHHHHHHHHHHHC
Confidence 46677777777654 468999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHHH
Q psy5115 140 PRESPFFKHAHQLEMFFVQ 158 (171)
Q Consensus 140 ~~~s~~~~~a~~l~~~f~~ 158 (171)
+++|.++.+|..|++.|+.
T Consensus 83 ~~~s~i~~~A~~l~~~f~~ 101 (103)
T cd05517 83 EPGSQVYKDANAIKKIFTA 101 (103)
T ss_pred CCCCHHHHHHHHHHHHHHh
Confidence 9999999999999999975
No 31
>cd05518 Bromo_polybromo_IV Bromodomain, polybromo repeat IV. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.
Probab=99.95 E-value=2.7e-27 Score=156.73 Aligned_cols=93 Identities=32% Similarity=0.544 Sum_probs=83.8
Q ss_pred HHHHHHHHHHh------CcCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCC
Q psy5115 67 SLRKLMKQIQA------HKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNP 140 (171)
Q Consensus 67 ~~~~~l~~l~~------~~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~ 140 (171)
++..+++.+.+ ++.+.+|..+|+...+|+||++|++||||++|++||++|.|.|+++|.+||++||.||..||+
T Consensus 4 ~~~~l~~~v~~~~d~~gr~~~~~F~~~p~~~~~pdYy~iIk~Pmdl~tI~~kl~~~~Y~s~~ef~~D~~li~~Na~~yN~ 83 (103)
T cd05518 4 RMLALFLYVLEYREGSGRRLCDLFMEKPSKKDYPDYYKIILEPIDLKTIEHNIRNDKYATEEELMDDFKLMFRNARHYNE 83 (103)
T ss_pred HHHHHHHHHHHhhccCCCcccHHHhcCCCcccCccHHHHcCCCcCHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHCC
Confidence 45555555544 356889999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHHHH
Q psy5115 141 RESPFFKHAHQLEMFFVQK 159 (171)
Q Consensus 141 ~~s~~~~~a~~l~~~f~~~ 159 (171)
++|.++.+|..|++.|++.
T Consensus 84 ~~s~i~~~A~~le~~~~~~ 102 (103)
T cd05518 84 EGSQVYEDANILEKVLKEK 102 (103)
T ss_pred CCCHHHHHHHHHHHHHHhc
Confidence 9999999999999998763
No 32
>cd05522 Bromo_Rsc1_2_II Bromodomain, repeat II in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are components of the RSC complex (remodeling the structure of chromatin), are essential for transcriptional control, and have a specific domain architecture including two bromodomains. The RSC complex has also been linked to homologous recombination and nonhomologous end-joining repair of DNA double strand breaks. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.94 E-value=5.1e-26 Score=151.15 Aligned_cols=94 Identities=23% Similarity=0.503 Sum_probs=85.3
Q ss_pred HHHHHHHHHHHh------CcCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhC
Q psy5115 66 ESLRKLMKQIQA------HKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYN 139 (171)
Q Consensus 66 ~~~~~~l~~l~~------~~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn 139 (171)
.++..+++.+.+ ++.+++|.++|+....|+||++|++||||++|++||++|.|.++.+|..|+.+||.||..||
T Consensus 4 ~~~~~i~~~v~~~~d~~g~~l~~~F~~~p~~~~~pdYy~~I~~Pmdl~tI~~kl~~~~Y~s~~~f~~D~~li~~Na~~yn 83 (104)
T cd05522 4 ARIKNILKGLRKERDENGRLLTLHFEKLPDKAREPEYYQEISNPISLDDIKKKVKRRKYKSFDQFLNDLNLMFENAKLYN 83 (104)
T ss_pred HHHHHHHHHHHHHhCcCCCcccHHHhcCCCccccCcHHHHhCCCcCHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHHHC
Confidence 355566666654 35688999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHHHH
Q psy5115 140 PRESPFFKHAHQLEMFFVQK 159 (171)
Q Consensus 140 ~~~s~~~~~a~~l~~~f~~~ 159 (171)
+++|.++.+|..|++.|+++
T Consensus 84 ~~~s~i~~~A~~l~~~f~~l 103 (104)
T cd05522 84 ENDSQEYKDAVLLEKEARLL 103 (104)
T ss_pred CCCCHHHHHHHHHHHHHHHh
Confidence 99999999999999999874
No 33
>PF00439 Bromodomain: Bromodomain; InterPro: IPR001487 Bromodomains are found in a variety of mammalian, invertebrate and yeast DNA-binding proteins []. Bromodomains can interact with acetylated lysine []. In some proteins, the classical bromodomain has diverged to such an extent that parts of the region are either missing or contain an insertion (e.g., mammalian protein HRX, Caenorhabditis elegans hypothetical protein ZK783.4, yeast protein YTA7). The bromodomain may occur as a single copy, or in duplicate. The precise function of the domain is unclear, but it may be involved in protein-protein interactions and may play a role in assembly or activity of multi-component complexes involved in transcriptional activation [].; GO: 0005515 protein binding; PDB: 3P1C_A 4A9K_B 3SVH_A 3P1E_B 3P1F_A 1JSP_B 2L85_A 3P1D_B 3DWY_B 2D82_A ....
Probab=99.93 E-value=9.5e-26 Score=144.75 Aligned_cols=84 Identities=43% Similarity=0.861 Sum_probs=79.7
Q ss_pred HHHHHHHHHhCcCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCCCHHHH
Q psy5115 68 LRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPFFK 147 (171)
Q Consensus 68 ~~~~l~~l~~~~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~s~~~~ 147 (171)
|..+++.|++++.+++|..||++..+|+|+.+|+.||||++|++||++|.|.++++|..||++||.||..||+++|.+++
T Consensus 1 C~~il~~l~~~~~~~~F~~~~~~~~~p~y~~~i~~P~dL~~I~~kl~~~~Y~s~~~f~~Dv~~i~~Na~~yn~~~s~~~~ 80 (84)
T PF00439_consen 1 CREILEELMKHPISSPFSKPVDPKEYPDYYEIIKNPMDLSTIRKKLENGKYKSIEEFEADVRLIFQNARRYNPPDSPIYK 80 (84)
T ss_dssp HHHHHHHHHTSTTGGGGSSSTHTTTSTTHHHHSSSS--HHHHHHHHHTTSSSSHHHHHHHHHHHHHHHHHHSCTTSHHHH
T ss_pred CHHHHHHHHcCCCchhhcCCCChhhCCCHHHHHhhccchhhhhHHhhccchhhHHHHHHHHHHHHHHHHHHCCCcCHHHH
Confidence 67899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHH
Q psy5115 148 HAHQ 151 (171)
Q Consensus 148 ~a~~ 151 (171)
+|.+
T Consensus 81 ~A~~ 84 (84)
T PF00439_consen 81 AAEK 84 (84)
T ss_dssp HHHH
T ss_pred HhcC
Confidence 9974
No 34
>cd05521 Bromo_Rsc1_2_I Bromodomain, repeat I in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are components of the RSC complex (remodeling the structure of chromatin), are essential for transcriptional control, and have a specific domain architecture including two bromodomains. The RSC complex has also been linked to homologous recombination and nonhomologous end-joining repair of DNA double strand breaks. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.93 E-value=2.5e-25 Score=147.91 Aligned_cols=95 Identities=29% Similarity=0.467 Sum_probs=85.8
Q ss_pred HHHHHHHHHHHHhCcC------CCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhh
Q psy5115 65 FESLRKLMKQIQAHKS------AWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYY 138 (171)
Q Consensus 65 ~~~~~~~l~~l~~~~~------~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~y 138 (171)
.+.|..+++.+...+. +.+|..+|+...+|+||++|++||||++|++||++ |.|+++|.+|+.+||+||..|
T Consensus 3 ~~~~~~l~~~i~~~~~~~g~~~~~~F~~lp~~~~~pdYy~iI~~PmdL~tI~~kl~~--Y~s~~ef~~D~~li~~Na~~y 80 (106)
T cd05521 3 SKKLKPLYDGIYTLKEENGIEIHPIFNVLPLRKDYPDYYKIIKNPLSLNTVKKRLPH--YTNAQEFVNDLAQIPWNARLY 80 (106)
T ss_pred HHHHHHHHHHHHhhcCcCCCCchHhhhcCCccccCccHHHHhcCCCCHHHHHHHHHc--CCCHHHHHHHHHHHHHHHHHH
Confidence 4567777777776543 46899999888999999999999999999999998 999999999999999999999
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHH
Q psy5115 139 NPRESPFFKHAHQLEMFFVQKVK 161 (171)
Q Consensus 139 n~~~s~~~~~a~~l~~~f~~~~~ 161 (171)
|+++|.++.+|..|++.|.+.+.
T Consensus 81 N~~~s~i~~~A~~le~~~~~~~~ 103 (106)
T cd05521 81 NTKGSVIYKYALILEKYINDVII 103 (106)
T ss_pred cCCCCHHHHHHHHHHHHHHHhhc
Confidence 99999999999999999998763
No 35
>cd05492 Bromo_ZMYND11 Bromodomain; ZMYND11_like sub-family. ZMYND11 or BS69 is a ubiquitously expressed nuclear protein that has been shown to associate with chromatin. It interacts with chromatin remodeling factors and might play a role in chromatin remodeling and gene expression. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.93 E-value=4.2e-25 Score=146.83 Aligned_cols=96 Identities=17% Similarity=0.257 Sum_probs=85.3
Q ss_pred HHHHHHHHh-CcCCCCCccCCCCC-----CCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCC
Q psy5115 69 RKLMKQIQA-HKSAWPFMEPVDPH-----EAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRE 142 (171)
Q Consensus 69 ~~~l~~l~~-~~~~~~F~~pv~~~-----~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~ 142 (171)
.-++..+.. .+...+|..||.+. .+|+|+.+|++||||+||++||++|.|+++++|.+||.+||+||.+|||++
T Consensus 6 ~f~~~~~k~~lp~~~~~~~~v~~~~~~~~~~pdY~~iIk~PmDL~tI~~kl~~~~Y~s~~ef~~Dv~LI~~N~~~yNg~~ 85 (109)
T cd05492 6 KFIVSRMKSWLPPDTTNRAIVLNKRGKATKLPKRRRLIHTHLDVADIQEKINSEKYTSLEEFKADALLLLHNTAIFHGAD 85 (109)
T ss_pred HHHHHHHHhcCcccccccccccccCchhccCCCHHHHhCCCCcHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHCCCC
Confidence 344555555 46678999999632 489999999999999999999999999999999999999999999999999
Q ss_pred CHHHHHHHHHHHHHHHHHHHHH
Q psy5115 143 SPFFKHAHQLEMFFVQKVKILR 164 (171)
Q Consensus 143 s~~~~~a~~l~~~f~~~~~~~~ 164 (171)
|.++.+|+.|.......+.+++
T Consensus 86 s~~~~~A~~l~~d~~~el~Ei~ 107 (109)
T cd05492 86 SEQYDAARWLYRDTCHDLRELR 107 (109)
T ss_pred CHHHHHHHHHHHHHHHHHHHHh
Confidence 9999999999999999888875
No 36
>cd04369 Bromodomain Bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.
Probab=99.92 E-value=6.4e-25 Score=144.44 Aligned_cols=95 Identities=44% Similarity=0.780 Sum_probs=90.7
Q ss_pred HHHHHHHHHHHHhC--cCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCC
Q psy5115 65 FESLRKLMKQIQAH--KSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRE 142 (171)
Q Consensus 65 ~~~~~~~l~~l~~~--~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~ 142 (171)
...|..+++.+... +.+.+|..||++...|+|+.+|++||||++|++|+++|.|.++.+|..|+++||.||..||+++
T Consensus 2 ~~~~~~i~~~l~~~~~~~~~~F~~~~~~~~~~~Y~~~i~~P~~l~~I~~kl~~~~Y~s~~~f~~D~~li~~Na~~~n~~~ 81 (99)
T cd04369 2 KKKLRSLLDALKKLKRDLSEPFLEPVDPKEAPDYYEVIKNPMDLSTIKKKLKNGEYKSLEEFEADVRLIFSNAKTYNGPG 81 (99)
T ss_pred HHHHHHHHHHHHhhcccccHHHhcCCChhcCCCHHHHHhCcccHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHCCCC
Confidence 35688899999998 9999999999998999999999999999999999999999999999999999999999999999
Q ss_pred CHHHHHHHHHHHHHHHH
Q psy5115 143 SPFFKHAHQLEMFFVQK 159 (171)
Q Consensus 143 s~~~~~a~~l~~~f~~~ 159 (171)
|.++.+|..|+..|++.
T Consensus 82 ~~~~~~a~~l~~~~~~~ 98 (99)
T cd04369 82 SPIYKDAKKLEKLFEKL 98 (99)
T ss_pred CHHHHHHHHHHHHHHHh
Confidence 99999999999999875
No 37
>KOG1245|consensus
Probab=99.91 E-value=9.4e-25 Score=194.95 Aligned_cols=95 Identities=38% Similarity=0.779 Sum_probs=91.6
Q ss_pred HHHHHHHHHhCcCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCCCHHHH
Q psy5115 68 LRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPFFK 147 (171)
Q Consensus 68 ~~~~l~~l~~~~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~s~~~~ 147 (171)
|..|+..|..++.+|||++||++..+|+|++||++||||+||+.|+..|.|.++++|..||+|||.||..||++ |.+++
T Consensus 1306 ~e~il~e~~~~~~awPFlepVn~~~vp~Y~~IIk~Pmdl~tir~k~~~~~Y~~~eef~~Di~lvf~Nc~~yN~~-s~i~~ 1384 (1404)
T KOG1245|consen 1306 CEDILHELVVHKAAWPFLEPVNPKEVPDYYDIIKKPMDLSTIREKLSKGIYPSPEEFATDIELVFDNCETYNED-SEIGR 1384 (1404)
T ss_pred HHHHHHHHHHhhhcchhhccCChhhcccHHHHhcChhHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHHHhccc-hhhhh
Confidence 78999999999999999999999999999999999999999999999999999999999999999999999998 99999
Q ss_pred HHHHHHHHHHHHHHHH
Q psy5115 148 HAHQLEMFFVQKVKIL 163 (171)
Q Consensus 148 ~a~~l~~~f~~~~~~~ 163 (171)
++..|+.+|.+.|+..
T Consensus 1385 ag~~l~~ff~~~~~~~ 1400 (1404)
T KOG1245|consen 1385 AGTCLRRFFHKRWRKK 1400 (1404)
T ss_pred hcchHHHHHHHHHHhh
Confidence 9999999999966543
No 38
>cd05526 Bromo_polybromo_VI Bromodomain, polybromo repeat VI. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.
Probab=99.88 E-value=5.1e-22 Score=131.69 Aligned_cols=100 Identities=24% Similarity=0.350 Sum_probs=89.1
Q ss_pred hHHHHHHHHHHHHHhCc------CCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHh
Q psy5115 63 RDFESLRKLMKQIQAHK------SAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCR 136 (171)
Q Consensus 63 ~~~~~~~~~l~~l~~~~------~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~ 136 (171)
..+..+..++..++++. .+.+|.+.|+ ..++|+.+|+.||||+.|++|+++|.|+++++|..|+.+||.||.
T Consensus 3 ~vq~~l~~l~~~V~~~~D~~Gr~~s~~f~~LP~--~~~~~~~~ik~Pi~l~~Ik~ki~~~~Y~~ld~~~~D~~lmf~NAr 80 (110)
T cd05526 3 LVQELLATLFVSVMNHQDEEGRCYSDSLAELPE--LAVDGVGPKKIPLTLDIIKRNVDKGRYRRLDKFQEDMFEVLERAR 80 (110)
T ss_pred HHHHHHHHHHHHHHhccCCCCCCchHHHHHCCC--cccCchhhhcCCccHHHHHHHHHcCCcCcHHHHHHHHHHHHHHHH
Confidence 34567888888888775 4678998887 346778999999999999999999999999999999999999999
Q ss_pred hhCCCCCHHHHHHHHHHHHHHHHHHHHH
Q psy5115 137 YYNPRESPFFKHAHQLEMFFVQKVKILR 164 (171)
Q Consensus 137 ~yn~~~s~~~~~a~~l~~~f~~~~~~~~ 164 (171)
.||+++|.++++|..|++.|.+.-+++-
T Consensus 81 ~yN~~~S~iy~dA~eLq~~f~~~rd~~~ 108 (110)
T cd05526 81 RLSRTDSEIYEDAVELQQFFIKIRDELC 108 (110)
T ss_pred HhCcccCHHHHHHHHHHHHHHHHHHHHh
Confidence 9999999999999999999998877764
No 39
>COG5076 Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin structure and dynamics / Transcription]
Probab=99.82 E-value=5.8e-20 Score=147.41 Aligned_cols=89 Identities=35% Similarity=0.705 Sum_probs=84.5
Q ss_pred cCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHH
Q psy5115 79 KSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQ 158 (171)
Q Consensus 79 ~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~s~~~~~a~~l~~~f~~ 158 (171)
..+.+|..+|+...+|+||.+|+.||||.+|+++|+++.|.++++|..|+.|||.||.+||+++|.++.+|..|++.|.+
T Consensus 164 ~~s~~F~~~p~k~~~PdYy~iIk~Pm~L~~i~kkl~~~~Y~s~eef~~D~~lM~~N~~~yN~~~s~v~~~a~~l~~~~~~ 243 (371)
T COG5076 164 FLSSIFLGLPSKREYPDYYEIIKSPMDLLTIQKKLKNGRYKSFEEFVSDLNLMFDNCKLYNGPDSSVYVDAKELEKYFLK 243 (371)
T ss_pred ccccccccCCccccCCChheeecchhhHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhccCCCcchhhhhHHHHHHHHH
Confidence 45788999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHh
Q psy5115 159 KVKILREKL 167 (171)
Q Consensus 159 ~~~~~~~~~ 167 (171)
.+..+....
T Consensus 244 ~i~~~~~~~ 252 (371)
T COG5076 244 LIEEIPEEM 252 (371)
T ss_pred HHHhccccc
Confidence 999776544
No 40
>KOG1472|consensus
Probab=99.66 E-value=1.2e-16 Score=134.17 Aligned_cols=104 Identities=38% Similarity=0.869 Sum_probs=98.1
Q ss_pred hHHHHHHHHHHHHHhCcCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCC
Q psy5115 63 RDFESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRE 142 (171)
Q Consensus 63 ~~~~~~~~~l~~l~~~~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~ 142 (171)
.....+..++..|..+..+|||.+||+..++|+||.+|++||||.||+.+|+++.|..+..|..|+.++|.||+.||+++
T Consensus 606 ~~~s~~~~il~~l~~h~~awPf~~Pv~~~e~pdyy~~I~~pmDl~tM~~~l~~~~y~~~~~f~ad~~~vf~ncr~yn~~~ 685 (720)
T KOG1472|consen 606 KLFSAIQNILDQLQNHGDAWPFLKPVNKKEVPDYYDVIKHPMDLRTMQNRLKDNQYTEVELFMADVVRVFANCRMYNGSD 685 (720)
T ss_pred hhhHHHHhHHhhhhcCCccCCccCccccccCCcHHHHhcccccHHHHhhhccccchhhHHHHHHHHHHHHhhhhccCCcc
Confidence 45567888999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHH
Q psy5115 143 SPFFKHAHQLEMFFVQKVKILREK 166 (171)
Q Consensus 143 s~~~~~a~~l~~~f~~~~~~~~~~ 166 (171)
+..++.|..|...|...+.+....
T Consensus 686 ~~y~k~~~~le~~~~~k~~~~i~~ 709 (720)
T KOG1472|consen 686 TQYYKCAQALEKFFLFKLNELILR 709 (720)
T ss_pred chheecccchhhhhcchhhhhhhh
Confidence 999999999999999988876443
No 41
>cd05494 Bromodomain_1 Bromodomain; uncharacterized subfamily. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.
Probab=99.45 E-value=9.1e-14 Score=93.59 Aligned_cols=76 Identities=28% Similarity=0.462 Sum_probs=58.7
Q ss_pred HHHHHHHHHHHHHhCcCCCCCccCCCC--CCCCccccccCCCCCHHHHHHHHhcCCCCC-------HHHHHHHHHHHHHH
Q psy5115 64 DFESLRKLMKQIQAHKSAWPFMEPVDP--HEAPDYYNVVKEPMDLKTIELRIAQQRYKK-------LSEFIGDMTKIFDN 134 (171)
Q Consensus 64 ~~~~~~~~l~~l~~~~~~~~F~~pv~~--~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s-------~~~f~~Dv~li~~N 134 (171)
....+...+..+.+++.+++|..||++ ..+|+|+++|++||||+||+++|.++.++. -....+++..+..|
T Consensus 4 ~~~~~l~~l~~~~~~~~~~pF~~PVd~~~~~~pdY~~iIK~PMDL~ti~~kl~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (114)
T cd05494 4 ALERVLRELKRHRRNEDAWPFLEPVNPPRRGAPDYRDVIKRPMSFGTKVNNIVETGARDLEDLQIVQEDPADKQIDDEGR 83 (114)
T ss_pred HHHHHHHHHHHhhhCCCCCCcCCCCCchhcCCCChhhhcCCCCChHHHHHHHHccccccccccccccccccccccccccc
Confidence 456777788888888899999999999 789999999999999999999999975533 33444445555555
Q ss_pred HhhhC
Q psy5115 135 CRYYN 139 (171)
Q Consensus 135 a~~yn 139 (171)
+..++
T Consensus 84 ~~~~~ 88 (114)
T cd05494 84 RSPSN 88 (114)
T ss_pred cCccc
Confidence 44444
No 42
>KOG0955|consensus
Probab=99.44 E-value=1.9e-13 Score=119.45 Aligned_cols=104 Identities=30% Similarity=0.560 Sum_probs=96.3
Q ss_pred HHHHHHHHHHHhCcCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCCCHH
Q psy5115 66 ESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPF 145 (171)
Q Consensus 66 ~~~~~~l~~l~~~~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~s~~ 145 (171)
..++.+++.+...+....|..|+++.++|+|.++|++||||.+++.++++|.|.++++|..|+.+|..||+.||..+..+
T Consensus 568 kLl~~~l~~lq~kD~~gif~~pvd~~e~pdy~~iik~pmd~~t~~~kl~s~~y~tle~ieed~~l~~~nc~~yn~~dtv~ 647 (1051)
T KOG0955|consen 568 KLLQKSLDKLQKKDSYGIFAEPVDPSELPDYIDIIKKPMDFFTMRLKLESGAYSTLEPIEEDVNLIVSNCMEYNAKDTVY 647 (1051)
T ss_pred HHHHHHHHHhhcccccCceeeccChhhcccHHHHhcCccchhhhhhhccccchhhhhHHHHhHhHhHhHHHHhhccCeeh
Confidence 34557788888888999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhh
Q psy5115 146 FKHAHQLEMFFVQKVKILREKLVE 169 (171)
Q Consensus 146 ~~~a~~l~~~f~~~~~~~~~~~~~ 169 (171)
++.|..+++.....+...+.+.++
T Consensus 648 ~r~av~~~e~~~~~~~~arke~e~ 671 (1051)
T KOG0955|consen 648 YRAAVRLRELIKKDFRNARKEPES 671 (1051)
T ss_pred HhhhHHHHhhhhhHHHhcccchhh
Confidence 999999999999999887766554
No 43
>cd05491 Bromo_TBP7_like Bromodomain; TBP7_like subfamily, limited to fungi. TBP7, or TAT-binding protein homolog 7, is a yeast protein of unknown function that contains AAA-superfamily ATP-ase domains and a bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.
Probab=99.41 E-value=2.9e-13 Score=90.22 Aligned_cols=42 Identities=31% Similarity=0.453 Sum_probs=39.4
Q ss_pred CCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCC
Q psy5115 101 KEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRE 142 (171)
Q Consensus 101 ~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~ 142 (171)
-.||||+||++||.+|.|.++.+|++||++||.||..||+++
T Consensus 62 ~y~MDL~tIe~RL~ng~Y~tp~~F~~DiklI~~Nc~~ynd~d 103 (119)
T cd05491 62 FYNMDLDTIEERLWNGYYATPKDFLKDIKRIVRDAKTIGDRE 103 (119)
T ss_pred EeccCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhCCHH
Confidence 358999999999999999999999999999999999999753
No 44
>KOG0008|consensus
Probab=99.33 E-value=1.4e-12 Score=114.52 Aligned_cols=99 Identities=34% Similarity=0.605 Sum_probs=87.5
Q ss_pred HHHHHHHHHhCcCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCCCHHHH
Q psy5115 68 LRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPFFK 147 (171)
Q Consensus 68 ~~~~l~~l~~~~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~s~~~~ 147 (171)
+-.++.++..-+.+|+|.+||++...|+||..|++||||++|.+++..+.|.+.++|..||++|..|+..|||.++....
T Consensus 1387 ~d~~vs~~~~ipes~~f~~~v~~k~~~~yy~kik~pmdl~~i~~n~~~~~y~s~~e~l~dv~~i~~n~~~~ng~e~~y~~ 1466 (1563)
T KOG0008|consen 1387 LDNIVSQMKEIPESWPFHEPVNKKRVPDYYKKIKNPMDLETILKNIPPHKYDSRSEFLDDVNLIYVNSVEYNGAESAYTK 1466 (1563)
T ss_pred hhhHHHHHHhcchhcccccccchhhchHHHHHhcChhhHHHHhhcCCccccccHHHHhhhhHhhcccceeecCccccccH
Confidence 44566777777899999999999999999999999999999999999999999999999999999999999999999988
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q psy5115 148 HAHQLEMFFVQKVKILREK 166 (171)
Q Consensus 148 ~a~~l~~~f~~~~~~~~~~ 166 (171)
.|+.+-......+.+.-..
T Consensus 1467 k~~k~~ev~~~~~~e~~~~ 1485 (1563)
T KOG0008|consen 1467 KARKIGEVGLANLLEYIEH 1485 (1563)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 8888777766665554433
No 45
>KOG1827|consensus
Probab=99.30 E-value=1.2e-11 Score=103.04 Aligned_cols=103 Identities=26% Similarity=0.473 Sum_probs=92.8
Q ss_pred CCChhHHHHHHHHHHHHHhCc------CCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q psy5115 59 NLTPRDFESLRKLMKQIQAHK------SAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIF 132 (171)
Q Consensus 59 ~l~~~~~~~~~~~l~~l~~~~------~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~ 132 (171)
.+....+.++..++..+.... .+..|.+.++....|+||..|..||.|+.|++|++.+.|.+.+.|..|+.+|+
T Consensus 48 ~i~~~~~~~f~~il~~~~~~~d~~gk~~~d~feklp~~~~~p~yy~~i~~pisl~~ik~kv~k~~y~~~~~f~~D~~lm~ 127 (629)
T KOG1827|consen 48 VIDPPLIPKFKTILASLLDLKDDEGKQLFDKFEKLPSRKEFPEYYYVIQQPISLDQIKRKVKKGRYKRLSFFQLDFLLMT 127 (629)
T ss_pred ccChHHHHHHHHHHHHHHhhccccCcccchhHhhccccccCCCcceeecCcccHHHHHHHHHhcccccHHHHHHHHHHHH
Confidence 346677778888888887664 36679999999999999999999999999999999999999999999999999
Q ss_pred HHHhhhCCCCCHHHHHHHHHHHHHHHHHH
Q psy5115 133 DNCRYYNPRESPFFKHAHQLEMFFVQKVK 161 (171)
Q Consensus 133 ~Na~~yn~~~s~~~~~a~~l~~~f~~~~~ 161 (171)
.||+.||.++|.++++|..|+..|.....
T Consensus 128 ena~~~n~~ds~~~~~s~~l~~~~~~~~~ 156 (629)
T KOG1827|consen 128 ENARLYNRPDSLIYKDSGELEKYFISLED 156 (629)
T ss_pred HHHHHhcCcchhhhhhhhhhhcchhhhhc
Confidence 99999999999999999999999988654
No 46
>KOG0008|consensus
Probab=99.17 E-value=5.9e-11 Score=104.62 Aligned_cols=108 Identities=24% Similarity=0.438 Sum_probs=94.2
Q ss_pred ChhHHHHHHHHHHHHHhCcCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCC
Q psy5115 61 TPRDFESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNP 140 (171)
Q Consensus 61 ~~~~~~~~~~~l~~l~~~~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~ 140 (171)
+......+..++.++...+.+.+|..||+..++++||.+|+.||||.++++.+....|.+-+.|+.|+.+|+.|..+||+
T Consensus 1259 ~V~~ss~l~~i~n~~~~~~~t~~f~~Pv~~k~v~dyy~vi~~P~~lq~~kk~v~kr~y~~r~~fle~~~~~~~ns~~yng 1338 (1563)
T KOG0008|consen 1259 SVSLSSILETIINQARSSPNTYPFPTPVNAKEVKDYYRVITPPMDLQTQKKLVRKRLYESREHFLEELPLIVSNSTKYNG 1338 (1563)
T ss_pred eeecccchHHHHHHHhcCCCCcCCCCccchhhccchhhccCCCcchHHHHHHHHHHHHHHHHHHHHHhHHHhhchhhhcC
Confidence 34445567788999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy5115 141 RESPFFKHAHQLEMFFVQKVKILREKLV 168 (171)
Q Consensus 141 ~~s~~~~~a~~l~~~f~~~~~~~~~~~~ 168 (171)
+.+.+...+..+....-..|.+-..++.
T Consensus 1339 ~~~~~t~~~q~mls~~~~~~~ekedk~~ 1366 (1563)
T KOG0008|consen 1339 PLASLTRQQQSMLSLCFEKLKEKEDKLW 1366 (1563)
T ss_pred chHHHHHHHHHHHHHHHHhhchhHHHHH
Confidence 9999999988877666555554444433
No 47
>KOG0386|consensus
Probab=99.13 E-value=1.2e-10 Score=100.68 Aligned_cols=99 Identities=25% Similarity=0.444 Sum_probs=89.1
Q ss_pred HHHHHHHHHHHhC------cCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhC
Q psy5115 66 ESLRKLMKQIQAH------KSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYN 139 (171)
Q Consensus 66 ~~~~~~l~~l~~~------~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn 139 (171)
+.+..|+....++ ..+..|...++...+|+||.+|+.|+++..|.+++.++.|.+..+...|+.+++.||++||
T Consensus 1027 ~~~~~i~~~~~~~~~~~~r~~~~~~~~~~s~k~~~d~~~~i~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~na~~~~ 1106 (1157)
T KOG0386|consen 1027 KQALKIASTSIKYKDSAGRELSEVFLKLPSRKEYPDYYEIIKKPVAIDKIKKRIENHKYNSLKELEKDFMLLFNNARTYN 1106 (1157)
T ss_pred HHHHHHHHHHHhcccccccccchhcccCcccccccchHHHhcchhhHHHHhhhccccccchHHHHHHHHHhhcchhhhhc
Confidence 4466666666533 4577899999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHH
Q psy5115 140 PRESPFFKHAHQLEMFFVQKVKILR 164 (171)
Q Consensus 140 ~~~s~~~~~a~~l~~~f~~~~~~~~ 164 (171)
..+|.++.+|..|.+++.....++.
T Consensus 1107 ~egs~~y~d~~~l~~~~~~~~~~~~ 1131 (1157)
T KOG0386|consen 1107 EEGSRVYEDAIVLQSVFKSARQEIS 1131 (1157)
T ss_pred cCCceechhHHHHHHHHhhhHHHHh
Confidence 9999999999999999998887765
No 48
>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=99.05 E-value=5.5e-11 Score=68.77 Aligned_cols=45 Identities=29% Similarity=0.747 Sum_probs=35.1
Q ss_pred ccccccCCCceeEecCCCCceecccccCccccCcCC-CCCCCCCccC
Q psy5115 3 FHTLAVIEPKFYICCDTCQDWFHGRCVGILQSEADN-IDEYICPNCN 48 (171)
Q Consensus 3 ~~~~~~~~~~~~i~C~~C~r~~H~~C~~~~~~~~~~-~~~~~Cp~C~ 48 (171)
.|.+ .++++.||+|+.|.+|||..|+++....... .+.|+|+.|.
T Consensus 4 vC~~-~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 4 VCGQ-SDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp TTTS-SCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred CCCC-cCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 4656 5566779999999999999999887653332 3489999995
No 49
>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 KOG1472|consensus
Probab=98.96 E-value=8.1e-10 Score=93.60 Aligned_cols=68 Identities=37% Similarity=0.694 Sum_probs=63.9
Q ss_pred hCcCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCCCH
Q psy5115 77 AHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESP 144 (171)
Q Consensus 77 ~~~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~s~ 144 (171)
+...+++|..+|+...+|+||.+|+.||||.++.+|+..+.|.+.++|+.|+.+||.||..||...+.
T Consensus 300 ~~~~s~~~~~kvs~~~a~~y~~i~k~pmdl~t~~~k~~~~~y~~~~~fv~d~~~~~~n~~~~n~ee~~ 367 (720)
T KOG1472|consen 300 RTEHSTPFLEKVSKEDAPNYYQIIKAPMDLSTELKKLKSGPYCSKEEFVNDLMLIWRNCEKYNSEESH 367 (720)
T ss_pred ccccccccccCCChhhCcchHHhhhcchHHHHHHHHhccccccchhHHHHHHHHHHhcchhhccccch
Confidence 46789999999999999999999999999999999999999999999999999999999999985543
No 51
>KOG1828|consensus
Probab=98.66 E-value=2.2e-08 Score=78.76 Aligned_cols=89 Identities=11% Similarity=0.025 Sum_probs=79.2
Q ss_pred HHHHHHHHHHHHhCcCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCCCH
Q psy5115 65 FESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESP 144 (171)
Q Consensus 65 ~~~~~~~l~~l~~~~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~s~ 144 (171)
...+.....++...+....|..++....+|.|..+|++|+++.|+.+|..++.|.| -+|..|..+|..||.+||.++..
T Consensus 210 ~~l~~~q~~kl~~~~p~~~lnyg~tas~aP~YSm~Ik~~~~~~Tygdk~~andy~S-~~f~~D~kl~~l~amT~gehsk~ 288 (418)
T KOG1828|consen 210 QQLQTLQEDKLNRVDPVAYLNYGPTASFAPGYSMTITEVEPPGTYGDKSSANDYES-LSFTQDRKLIALKAVTNGEHSKS 288 (418)
T ss_pred HHHHHHHHHHhcccCchhhhcccchhhhcccccccccccCCCcchhhhhhhhhhhh-hhhhcccchhhHHHHhcCCcchH
Confidence 33444456777777888899999988899999999999999999999999999999 89999999999999999999999
Q ss_pred HHHHHHHHHH
Q psy5115 145 FFKHAHQLEM 154 (171)
Q Consensus 145 ~~~~a~~l~~ 154 (171)
+++.|+.+..
T Consensus 289 yyelank~lh 298 (418)
T KOG1828|consen 289 YYELANKQLH 298 (418)
T ss_pred HHHHHHhhhh
Confidence 9999988765
No 52
>KOG1828|consensus
Probab=98.65 E-value=3.7e-09 Score=83.04 Aligned_cols=96 Identities=22% Similarity=0.272 Sum_probs=83.7
Q ss_pred HHHHHHHHHHHhCcCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCCCHH
Q psy5115 66 ESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPF 145 (171)
Q Consensus 66 ~~~~~~l~~l~~~~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~s~~ 145 (171)
.....++.++.+.+.-..|.-|+...-.|+|.++|+.|||+.+++.|++.++|.+..+|..|.+++..||..||..++.+
T Consensus 22 ~~~ehhlrkl~sKdp~q~fafplt~~map~y~~iis~Pmd~~t~r~kidd~~yl~L~~m~~d~kl~~~na~~yn~~~Tv~ 101 (418)
T KOG1828|consen 22 GDAEHHLRKLPSKDPKQKFAFPLTDKMAPNYLEIISEPMDRITKRSKIDDTRYLVLSQMEFDRKLPDGNATLYNLHPTVP 101 (418)
T ss_pred hhHHHHHHhccccChhhhhccccchhhccchHhhhhcccccccccccCCCccceechhhhhhhcccccchhhhhcCCccc
Confidence 34555667777777777888888888899999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHH
Q psy5115 146 FKHAHQLEMFFVQKVK 161 (171)
Q Consensus 146 ~~~a~~l~~~f~~~~~ 161 (171)
+..|+.|.-+......
T Consensus 102 ~~aaKrL~~v~~~~~q 117 (418)
T KOG1828|consen 102 IVAAKRLCPVRLGMTQ 117 (418)
T ss_pred cccccccchhhcchhh
Confidence 9999998766544443
No 53
>KOG1474|consensus
Probab=98.52 E-value=1.6e-08 Score=86.42 Aligned_cols=90 Identities=38% Similarity=0.728 Sum_probs=81.9
Q ss_pred HHhCcCCCCCccCCCCC--CCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHH
Q psy5115 75 IQAHKSAWPFMEPVDPH--EAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQL 152 (171)
Q Consensus 75 l~~~~~~~~F~~pv~~~--~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~s~~~~~a~~l 152 (171)
+..+..+|+|..||+.. ..|.|+..|.+|||+.+|..++++..|.+..+-.+|+..+|.||..||.++..+..++..+
T Consensus 4 ~~~~~~~~~f~~~v~~v~l~~~~~~~~~~~~~d~~~~~~~~e~n~~~~~~~~~~~f~~~~sn~~~~~~~~~~v~~~~~~~ 83 (640)
T KOG1474|consen 4 ARKHKLAWPFLEPVDAVALNLPAYYEIIKRPMDIGTIEKRVENNYYFSASECIADFKTKFSNCYLFNDSGDDVVRMKQSL 83 (640)
T ss_pred cccccccccccCccchhhccchhhhcccCCCCCchhhhhhhccCccccHhhhhhhccccccchhcccCCccchhhccccc
Confidence 45678899999999965 5899999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHH
Q psy5115 153 EMFFVQKVKILR 164 (171)
Q Consensus 153 ~~~f~~~~~~~~ 164 (171)
+..|.+....+.
T Consensus 84 ~~~~~~~~~~~~ 95 (640)
T KOG1474|consen 84 EKLFPKKLRSMP 95 (640)
T ss_pred hhhccccccccc
Confidence 999877665543
No 54
>cd05493 Bromo_ALL-1 Bromodomain, ALL-1 like proteins. ALL-1 is a vertebrate homologue of Drosophila trithorax and is often affected in chromosomal rearrangements that are linked to acute leukemias, such as acute lymphocytic leukemia (ALL). Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.
Probab=98.21 E-value=3.5e-06 Score=57.57 Aligned_cols=62 Identities=18% Similarity=0.335 Sum_probs=55.1
Q ss_pred CCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHHHHHHHH
Q psy5115 103 PMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILR 164 (171)
Q Consensus 103 Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~s~~~~~a~~l~~~f~~~~~~~~ 164 (171)
|.||..|++|++.|.|+|+.+|..||-.|+.-++.-.+...++-+....++.+|.+.|.++-
T Consensus 59 p~dL~~V~kkl~~G~Y~sv~~F~~DvvkIiqa~l~~e~~~pe~~ka~s~~Ksf~ik~me~vf 120 (131)
T cd05493 59 PLDLEAVGKKLEAGFYTSVLDFSDDIVKIIQAALNSEGGQPEIKKANSMAKSFFIKLMESVF 120 (131)
T ss_pred cccHHHHHHHHhccceehHHHHHHHHHHHHHHHHhhccCCccccCcchHHHHHHHHHHHHhc
Confidence 88999999999999999999999999999999998777677777777788888888887654
No 55
>KOG4299|consensus
Probab=97.94 E-value=3.3e-06 Score=70.45 Aligned_cols=47 Identities=30% Similarity=0.685 Sum_probs=37.1
Q ss_pred CccccccCCCce--eEecCCCCceecccccCcc-ccCcCCCCCCCCCccC
Q psy5115 2 KFHTLAVIEPKF--YICCDTCQDWFHGRCVGIL-QSEADNIDEYICPNCN 48 (171)
Q Consensus 2 ~~~~~~~~~~~~--~i~C~~C~r~~H~~C~~~~-~~~~~~~~~~~Cp~C~ 48 (171)
.||..|...+.| .|+||+|++.||..|+.+. ..+.-+++.|+|+.|.
T Consensus 254 ~fCsaCn~~~~F~~~i~CD~Cp~sFH~~CLePPl~~eniP~g~W~C~ec~ 303 (613)
T KOG4299|consen 254 DFCSACNGSGLFNDIICCDGCPRSFHQTCLEPPLEPENIPPGSWFCPECK 303 (613)
T ss_pred HHHHHhCCccccccceeecCCchHHHHhhcCCCCCcccCCCCccccCCCe
Confidence 378888777775 5999999999999999442 2334467899999998
No 56
>KOG1632|consensus
Probab=97.82 E-value=1.4e-06 Score=69.31 Aligned_cols=46 Identities=33% Similarity=0.747 Sum_probs=41.7
Q ss_pred ccccccCCCceeEecCCCCceecccc--cCccccCcCCCCCCCCCccC
Q psy5115 3 FHTLAVIEPKFYICCDTCQDWFHGRC--VGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 3 ~~~~~~~~~~~~i~C~~C~r~~H~~C--~~~~~~~~~~~~~~~Cp~C~ 48 (171)
.|.++.+.+++|+.|+.|..|||+.| +++........+.|.|..|.
T Consensus 64 ~~~~~~~p~~~~~~cd~C~~~~~~ec~~v~~~~~e~p~~~~~~c~~c~ 111 (345)
T KOG1632|consen 64 KCYKPCDPDDLMEQCDLCEDWYHGECWEVGTAEKEAPKEDPKVCDECK 111 (345)
T ss_pred hcccccCchhhhhccccccccccccccccCchhhcCCccccccccccc
Confidence 46778888889999999999999999 99998888888999999998
No 57
>KOG4323|consensus
Probab=97.70 E-value=7e-06 Score=66.90 Aligned_cols=38 Identities=34% Similarity=0.849 Sum_probs=28.3
Q ss_pred eeEecCCCCceecccccCcc--ccCc-CCCCCCCCCccCCC
Q psy5115 13 FYICCDTCQDWFHGRCVGIL--QSEA-DNIDEYICPNCNNS 50 (171)
Q Consensus 13 ~~i~C~~C~r~~H~~C~~~~--~~~~-~~~~~~~Cp~C~~~ 50 (171)
.||+|++|.-|||..|+... +... +..-+|+|..|...
T Consensus 184 rmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~ 224 (464)
T KOG4323|consen 184 RMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRG 224 (464)
T ss_pred eeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccc
Confidence 59999999999999998332 2222 23448999999953
No 58
>KOG3612|consensus
Probab=97.64 E-value=1e-05 Score=66.52 Aligned_cols=121 Identities=16% Similarity=0.144 Sum_probs=89.9
Q ss_pred CceeEecCCCCceecccccCccccCcCCCCCCCCCccCCCCcccccccCC-------ChhHHHHHHHHHHHHHhCcCCCC
Q psy5115 11 PKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNNSSSNLANMKNL-------TPRDFESLRKLMKQIQAHKSAWP 83 (171)
Q Consensus 11 ~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~~~~~~~~~~~~l-------~~~~~~~~~~~l~~l~~~~~~~~ 83 (171)
+|.++.|+.|.|+||..|....+...+....|.||.|...........++ .+.+... .++...+ ...+
T Consensus 69 pg~vl~c~vc~Rs~h~~c~sp~~q~r~~s~p~~~p~p~s~k~~~~~nqp~gn~~~~~~~sd~Er---~~d~nsk--~~~~ 143 (588)
T KOG3612|consen 69 PGAVLKCIVCHRSFHENCQSPDPQKRNYSVPSDKPQPYSFKVNELDNQPLGNTQNLETPSDPER---LLDHNSK--INQT 143 (588)
T ss_pred CcceeeeehhhccccccccCcchhhccccccccCCcccccCCCccccccccchhcccccCchhh---HHhhhcc--cccc
Confidence 45589999999999999998888888888999999999543332211111 1111111 2222211 1111
Q ss_pred CccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCCCH
Q psy5115 84 FMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESP 144 (171)
Q Consensus 84 F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~s~ 144 (171)
-.+.|..+...|+|..++....-++.|++...|-++-..+..|..++.+.+++
T Consensus 144 --------~~~~~~~lkhep~D~~d~e~~v~eqk~~~q~klp~~t~~lq~~~~~~~gsdae 196 (588)
T KOG3612|consen 144 --------LLATTDFLKHEPIDWDDDEFFVCEQKGARQRKLPRITDELQSSLDSDEGSDAE 196 (588)
T ss_pred --------cchhHHHhhcCccccccchhccccCcccccccccccccccccccccccCCCcc
Confidence 24678889999999999999999999999999999999999999999998877
No 59
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=97.46 E-value=2.4e-05 Score=41.55 Aligned_cols=35 Identities=26% Similarity=0.762 Sum_probs=19.2
Q ss_pred ceeEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 12 KFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 12 ~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
..||.|+.|.-.+|..|=|+.... ..+.|+|..|+
T Consensus 2 n~ll~C~~C~v~VH~~CYGv~~~~--~~~~W~C~~C~ 36 (36)
T PF13831_consen 2 NPLLFCDNCNVAVHQSCYGVSEVP--DGDDWLCDRCE 36 (36)
T ss_dssp CEEEE-SSS--EEEHHHHT-SS----SS-----HHH-
T ss_pred CceEEeCCCCCcCChhhCCcccCC--CCCcEECCcCC
Confidence 469999999999999999986543 33359998884
No 60
>COG5076 Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin structure and dynamics / Transcription]
Probab=97.44 E-value=3.6e-05 Score=62.18 Aligned_cols=93 Identities=40% Similarity=0.827 Sum_probs=83.9
Q ss_pred HHHHHhCcCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHH
Q psy5115 72 MKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQ 151 (171)
Q Consensus 72 l~~l~~~~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~s~~~~~a~~ 151 (171)
+.....+..+|+|..+++....|.|++.+..+|++++.+.++..+.|+...+|..|..++++|+..||+.....+..+..
T Consensus 272 i~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 351 (371)
T COG5076 272 ITNSQAHVGAWPFLRPVSDEEVPDYYKDIRDPMDLSTKELKLRNNYYRPEETFVRDAKLFFDNCVMYNGEVTDYYKNANV 351 (371)
T ss_pred ccccccccccccccccCCcccccchhhhhhcccccccchhhhhcccCCCccccccccchhhhcccccchhhhhhhhhccc
Confidence 34445667789999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHH
Q psy5115 152 LEMFFVQKVKILR 164 (171)
Q Consensus 152 l~~~f~~~~~~~~ 164 (171)
+...+...++..+
T Consensus 352 ~~~~~~~~~~~~~ 364 (371)
T COG5076 352 LEDFVIKKTRLIR 364 (371)
T ss_pred hhhhHhhhhhhhh
Confidence 9988887776543
No 61
>KOG0383|consensus
Probab=97.36 E-value=6.8e-05 Score=64.39 Aligned_cols=46 Identities=28% Similarity=0.634 Sum_probs=37.1
Q ss_pred CCccccccCCCceeEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 1 MKFHTLAVIEPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 1 ~~~~~~~~~~~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
+++|+-|.+++. ++.|+.|+.|||..|.+...... +.++|.|+.|.
T Consensus 47 ~e~c~ic~~~g~-~l~c~tC~~s~h~~cl~~pl~~~-p~~~~~c~Rc~ 92 (696)
T KOG0383|consen 47 QEACRICADGGE-LLWCDTCPASFHASCLGPPLTPQ-PNGEFICPRCF 92 (696)
T ss_pred hhhhhhhcCCCc-EEEeccccHHHHHHccCCCCCcC-Cccceeeeeec
Confidence 467999999887 88999999999999997654433 33449999995
No 62
>KOG1512|consensus
Probab=97.19 E-value=0.00018 Score=55.06 Aligned_cols=42 Identities=33% Similarity=0.642 Sum_probs=33.9
Q ss_pred ccccccCCCceeEecCCCCceecccccCccccCcCCCCCCCCC-ccC
Q psy5115 3 FHTLAVIEPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICP-NCN 48 (171)
Q Consensus 3 ~~~~~~~~~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp-~C~ 48 (171)
+|-+|-.+++ ++.||.|+|-||..|+|+.. -+.+.|.|. .|.
T Consensus 319 IC~~P~~E~E-~~FCD~CDRG~HT~CVGL~~---lP~G~WICD~~C~ 361 (381)
T KOG1512|consen 319 ICLGPVIESE-HLFCDVCDRGPHTLCVGLQD---LPRGEWICDMRCR 361 (381)
T ss_pred ccCCcccchh-eeccccccCCCCcccccccc---ccCccchhhhHHH
Confidence 4667766666 99999999999999999853 356799998 465
No 63
>KOG0644|consensus
Probab=97.09 E-value=0.00036 Score=60.44 Aligned_cols=65 Identities=17% Similarity=0.274 Sum_probs=56.7
Q ss_pred cccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHHHH
Q psy5115 96 YYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKV 160 (171)
Q Consensus 96 Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~s~~~~~a~~l~~~f~~~~ 160 (171)
|..-..-|..++.|+.+|++..|++.+.|..||..|..||.+|.+.+..+...+..|...|...+
T Consensus 1046 ~~~~fpvpls~evi~~rlEn~yYrs~e~~~hdvs~mlsnae~~fg~~~~~~~ki~~l~~~~~~Tl 1110 (1113)
T KOG0644|consen 1046 VDNRFPVPLSLEVIRSRLENNYYRSQEALRHDVSVMLSNAETFFGRNKNVAIKISFLSPWFDRTL 1110 (1113)
T ss_pred cCCCCCCcccHHHHHHHHHhhhhhhhHhhhcchhhhhcccceeecccccHHHHhhhcchhhhhhc
Confidence 44556778999999999999999999999999999999999999988877777777877776654
No 64
>KOG0825|consensus
Probab=96.84 E-value=0.0012 Score=57.09 Aligned_cols=37 Identities=27% Similarity=0.741 Sum_probs=29.4
Q ss_pred CceeEecCCCCce-ecccccCccccCcCCCCCCCCCccC
Q psy5115 11 PKFYICCDTCQDW-FHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 11 ~~~~i~C~~C~r~-~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
++.||.||.|... ||..|+.+... +.+..+|+|+.|.
T Consensus 227 EdVLLLCDsCN~~~YH~YCLDPdl~-eiP~~eWYC~NC~ 264 (1134)
T KOG0825|consen 227 EDVLLLCDSCNKVYYHVYCLDPDLS-ESPVNEWYCTNCS 264 (1134)
T ss_pred HHhheeecccccceeeccccCcccc-cccccceecCcch
Confidence 4559999999988 99999966322 2356789999998
No 65
>KOG1844|consensus
Probab=96.53 E-value=0.0012 Score=55.41 Aligned_cols=44 Identities=32% Similarity=0.666 Sum_probs=34.7
Q ss_pred cccccCCCceeEecCCCCceecccccCccccCcCCCCCCCCCccCC
Q psy5115 4 HTLAVIEPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNN 49 (171)
Q Consensus 4 ~~~~~~~~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~~ 49 (171)
|..-.+.+|+|++|+.|++|.|..|.|..... .++.|.|..|..
T Consensus 91 c~~~~~~~g~~i~c~~c~~Wqh~~C~g~~~~~--~p~~y~c~~c~~ 134 (508)
T KOG1844|consen 91 CGLEDDMEGLMIQCDWCGRWQHKICCGSFKST--KPDKYVCEICTP 134 (508)
T ss_pred cccccCCCceeeCCcccCcccCceeeeecCCC--Cchhceeeeecc
Confidence 33334438899999999999999999875442 378999999993
No 66
>KOG0954|consensus
Probab=96.37 E-value=0.0013 Score=56.43 Aligned_cols=43 Identities=23% Similarity=0.590 Sum_probs=35.1
Q ss_pred ccccccCC----CceeEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 3 FHTLAVIE----PKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 3 ~~~~~~~~----~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
.|++|..+ ..+||.||.|.-..|..|-|+..- +.+.|+|..|.
T Consensus 273 iCDvCrspD~e~~neMVfCd~Cn~cVHqaCyGIle~---p~gpWlCr~Ca 319 (893)
T KOG0954|consen 273 ICDVCRSPDSEEANEMVFCDKCNICVHQACYGILEV---PEGPWLCRTCA 319 (893)
T ss_pred eeceecCCCccccceeEEeccchhHHHHhhhceeec---CCCCeeehhcc
Confidence 46666666 556999999999999999999743 44789999887
No 67
>KOG2752|consensus
Probab=96.24 E-value=0.0025 Score=49.45 Aligned_cols=27 Identities=26% Similarity=0.677 Sum_probs=23.2
Q ss_pred cccccCC-----CceeEecCCCCceec-ccccC
Q psy5115 4 HTLAVIE-----PKFYICCDTCQDWFH-GRCVG 30 (171)
Q Consensus 4 ~~~~~~~-----~~~~i~C~~C~r~~H-~~C~~ 30 (171)
|+++|++ +|.|+||-.|..||| ..|+.
T Consensus 133 Cd~~Ypdp~~~~e~~m~QC~iCEDWFHce~c~~ 165 (345)
T KOG2752|consen 133 CDTPYPDPVRTEEGEMLQCVICEDWFHCEGCMQ 165 (345)
T ss_pred ecCCCCCccccccceeeeEEeccchhcccccCc
Confidence 5888887 778999999999999 77763
No 68
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=95.84 E-value=0.0094 Score=41.72 Aligned_cols=25 Identities=28% Similarity=0.573 Sum_probs=19.0
Q ss_pred ecccccCccccCcCCCCCCCCCccCC
Q psy5115 24 FHGRCVGILQSEADNIDEYICPNCNN 49 (171)
Q Consensus 24 ~H~~C~~~~~~~~~~~~~~~Cp~C~~ 49 (171)
||..|+.+.-. ..+.+.|+||.|..
T Consensus 2 ~H~~CL~Ppl~-~~P~g~W~Cp~C~~ 26 (148)
T cd04718 2 FHLCCLRPPLK-EVPEGDWICPFCEV 26 (148)
T ss_pred cccccCCCCCC-CCCCCCcCCCCCcC
Confidence 89999965433 34567899999994
No 69
>KOG0955|consensus
Probab=95.69 E-value=0.0074 Score=54.38 Aligned_cols=46 Identities=22% Similarity=0.437 Sum_probs=36.9
Q ss_pred ccccccCCCce----eEecCCCCceecccccCccccCcCCCCCCCCCccCCCC
Q psy5115 3 FHTLAVIEPKF----YICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNNSS 51 (171)
Q Consensus 3 ~~~~~~~~~~~----~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~~~~ 51 (171)
.|..|.+++.+ .|.||.|.-.+|..|.|+. ..+.+.|+|..|-.+.
T Consensus 221 ~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cygi~---~ipeg~WlCr~Cl~s~ 270 (1051)
T KOG0955|consen 221 VCCICLDGECQNSNVIVFCDGCNLAVHQECYGIP---FIPEGQWLCRRCLQSP 270 (1051)
T ss_pred cceeecccccCCCceEEEcCCCcchhhhhccCCC---CCCCCcEeehhhccCc
Confidence 57777777654 8999999999999999964 3456689999998544
No 70
>KOG0957|consensus
Probab=95.35 E-value=0.0083 Score=49.54 Aligned_cols=44 Identities=20% Similarity=0.441 Sum_probs=29.0
Q ss_pred cccccCCCceeEecCCCCceecccccCcc--ccCcCC-CCCCCCCccC
Q psy5115 4 HTLAVIEPKFYICCDTCQDWFHGRCVGIL--QSEADN-IDEYICPNCN 48 (171)
Q Consensus 4 ~~~~~~~~~~~i~C~~C~r~~H~~C~~~~--~~~~~~-~~~~~Cp~C~ 48 (171)
|.+..|.. .+++||.|..-||.-|+.+. ....+. .--|.|..|.
T Consensus 550 Ckks~dQH-ll~~CDtC~lhYHlGCL~PPLTR~Pkk~kn~gWqCsECd 596 (707)
T KOG0957|consen 550 CKKSTDQH-LLTQCDTCHLHYHLGCLSPPLTRLPKKNKNFGWQCSECD 596 (707)
T ss_pred eccchhhH-HHhhcchhhceeeccccCCccccCcccccCcceeecccc
Confidence 44433333 38999999999999998442 111111 2359999995
No 71
>KOG1473|consensus
Probab=95.27 E-value=0.012 Score=52.87 Aligned_cols=43 Identities=26% Similarity=0.404 Sum_probs=34.0
Q ss_pred cccccCCCceeEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 4 HTLAVIEPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 4 ~~~~~~~~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
|+.+-|.+. ++||+.|+|+||.+|+... ......+.|-|-.|.
T Consensus 347 crf~~d~~~-~lc~Et~prvvhlEcv~hP-~~~~~s~~~e~evc~ 389 (1414)
T KOG1473|consen 347 CRFCHDLGD-LLCCETCPRVVHLECVFHP-RFAVPSAFWECEVCN 389 (1414)
T ss_pred ccccCcccc-eeecccCCceEEeeecCCc-cccCCCccchhhhhh
Confidence 666666666 9999999999999999653 334466789999998
No 72
>PF07496 zf-CW: CW-type Zinc Finger; InterPro: IPR011124 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 CW-type zinc finger motif, named for its conserved cysteine and tryptophan residues. It is predicted to be a highly specialised mononuclear four-cysteine (C4) zinc finger that plays a role in DNA binding and/or promoting protein-protein interactions in complicated eukaryotic processes including chromatin methylation status and early embryonic development. Weak homology to members of IPR001965 from INTERPRO further evidences these predictions. The domain is found exclusively in vertebrates, vertebrate-infecting parasites and higher plants []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2RR4_A 2E61_A 2L7P_A.
Probab=94.30 E-value=0.035 Score=31.56 Aligned_cols=35 Identities=17% Similarity=0.485 Sum_probs=18.3
Q ss_pred eeEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 13 FYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 13 ~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
.+|||+.|.+|=... .+........++.|+|..-.
T Consensus 2 ~WVQCd~C~KWR~lp-~~~~~~~~~~~d~W~C~~n~ 36 (50)
T PF07496_consen 2 YWVQCDSCLKWRRLP-EEVDPIREELPDPWYCSMNP 36 (50)
T ss_dssp EEEE-TTT--EEEE--CCHHCTSCCSSTT--GGGSS
T ss_pred eEEECCCCCceeeCC-hhhCcccccCCCeEEcCCCC
Confidence 589999999998776 33332223345689998743
No 73
>KOG1632|consensus
Probab=93.70 E-value=0.0041 Score=49.81 Aligned_cols=42 Identities=43% Similarity=1.059 Sum_probs=33.4
Q ss_pred ceeEecCCCCceecccccCccccCcCCCCC----CCCCccCCCCcc
Q psy5115 12 KFYICCDTCQDWFHGRCVGILQSEADNIDE----YICPNCNNSSSN 53 (171)
Q Consensus 12 ~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~----~~Cp~C~~~~~~ 53 (171)
.++++|+.|..|||+.|+.+.+........ |.|+.|......
T Consensus 253 ~~~~~~~~~e~w~~~~~v~~~~a~~~~~~~~~~~~~c~~~~~~~~~ 298 (345)
T KOG1632|consen 253 KFEICCDLCESWFHGDCVQIFEARKRLNEIRNEVYKCPHCTVLKFE 298 (345)
T ss_pred HHHHHHHHHHHHhcccccccccchhhhhhhhccceecCceeecccc
Confidence 668899999999999999887765555555 999999854433
No 74
>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=93.42 E-value=0.0088 Score=32.92 Aligned_cols=40 Identities=18% Similarity=0.372 Sum_probs=26.6
Q ss_pred ccccccCCCceeEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 3 FHTLAVIEPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 3 ~~~~~~~~~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
+|...++++..++... |..+||..|+..--.. ...||.|+
T Consensus 5 IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~-----~~~CP~CR 44 (44)
T PF13639_consen 5 ICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKR-----NNSCPVCR 44 (44)
T ss_dssp TTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHH-----SSB-TTTH
T ss_pred CCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHh-----CCcCCccC
Confidence 4556666566677776 9999999998432211 24999984
No 75
>KOG0732|consensus
Probab=92.83 E-value=0.1 Score=47.31 Aligned_cols=62 Identities=15% Similarity=0.110 Sum_probs=54.9
Q ss_pred CCCCccCCCCCC-----CCccccccCCCCCHHHHHHHHhcCCCCCHHHHHH--HHHHHHHHHhhhCCCC
Q psy5115 81 AWPFMEPVDPHE-----APDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIG--DMTKIFDNCRYYNPRE 142 (171)
Q Consensus 81 ~~~F~~pv~~~~-----~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~--Dv~li~~Na~~yn~~~ 142 (171)
...|..|++... .++|...|+++||+...-.++..+.|.++.+|.. ++.+|+.|++.||+..
T Consensus 533 ~~~~s~Pl~~~~~~ll~~~~~~~~iq~~~~va~~~~k~~e~~~~~v~~~e~~~~i~lic~~~lli~~~~ 601 (1080)
T KOG0732|consen 533 SVIFSRPLSTYLKPLLPFQDALEDIQGLMDVASSMAKIEEHLKLLVRSFESNFAIRLICRPRLLINGGK 601 (1080)
T ss_pred ccCCCCCCCcceecccchHHHHHHhhcchhHHhhhhhHHHHhHHHHHhhhcccchhhhcCcHHhcCCCc
Confidence 556777777552 4588999999999999999999999999999999 9999999999999865
No 76
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=92.75 E-value=0.054 Score=38.60 Aligned_cols=29 Identities=17% Similarity=0.422 Sum_probs=23.0
Q ss_pred cccccC-----CCceeEecCCCCceecccccCcc
Q psy5115 4 HTLAVI-----EPKFYICCDTCQDWFHGRCVGIL 32 (171)
Q Consensus 4 ~~~~~~-----~~~~~i~C~~C~r~~H~~C~~~~ 32 (171)
|.+|+. .-|.||.|.+|...||..|+|..
T Consensus 2 C~~C~~~g~~~~kG~Lv~CQGCs~sYHk~CLG~R 35 (175)
T PF15446_consen 2 CDTCGYEGDDRNKGPLVYCQGCSSSYHKACLGPR 35 (175)
T ss_pred cccccCCCCCccCCCeEEcCccChHHHhhhcCCc
Confidence 666653 25679999999999999997653
No 77
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=92.23 E-value=0.15 Score=28.64 Aligned_cols=35 Identities=26% Similarity=0.553 Sum_probs=20.3
Q ss_pred EecCCCCceeccccc----Ccc--ccCcCCCCCCCCCccCC
Q psy5115 15 ICCDTCQDWFHGRCV----GIL--QSEADNIDEYICPNCNN 49 (171)
Q Consensus 15 i~C~~C~r~~H~~C~----~~~--~~~~~~~~~~~Cp~C~~ 49 (171)
-+|..|.-+|...=- ++. .+..+.++.|.||.|..
T Consensus 2 y~C~~CgyvYd~~~Gd~~~~i~pGt~F~~Lp~~w~CP~C~a 42 (47)
T PF00301_consen 2 YQCPVCGYVYDPEKGDPENGIPPGTPFEDLPDDWVCPVCGA 42 (47)
T ss_dssp EEETTTSBEEETTTBBGGGTB-TT--GGGS-TT-B-TTTSS
T ss_pred cCCCCCCEEEcCCcCCcccCcCCCCCHHHCCCCCcCcCCCC
Confidence 468889888887652 111 12345688999999973
No 78
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=92.07 E-value=0.081 Score=35.10 Aligned_cols=27 Identities=22% Similarity=0.412 Sum_probs=23.4
Q ss_pred ccccccCCCceeEecCC--CCceeccccc
Q psy5115 3 FHTLAVIEPKFYICCDT--CQDWFHGRCV 29 (171)
Q Consensus 3 ~~~~~~~~~~~~i~C~~--C~r~~H~~C~ 29 (171)
-|..|....|..|+|.. |.++||..|.
T Consensus 57 ~C~iC~~~~G~~i~C~~~~C~~~fH~~CA 85 (110)
T PF13832_consen 57 KCSICGKSGGACIKCSHPGCSTAFHPTCA 85 (110)
T ss_pred cCcCCCCCCceeEEcCCCCCCcCCCHHHH
Confidence 46667777888999998 9999999996
No 79
>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=91.97 E-value=0.29 Score=40.29 Aligned_cols=49 Identities=10% Similarity=0.148 Sum_probs=35.6
Q ss_pred CHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy5115 120 KLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILREKLV 168 (171)
Q Consensus 120 s~~~f~~Dv~li~~Na~~yn~~~s~~~~~a~~l~~~f~~~~~~~~~~~~ 168 (171)
.+++..+=|++=-..|.+|.....+.-+-|..|+.+....-.++.+++.
T Consensus 351 ~~eeLESIVRiKqAEA~MFQ~kAdEARrEAE~LqrI~~aK~~k~EEEYa 399 (446)
T PF07227_consen 351 QIEELESIVRIKQAEAKMFQLKADEARREAEGLQRIALAKSEKIEEEYA 399 (446)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 4566666677777788888877777778888887777777666666554
No 80
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=91.72 E-value=0.087 Score=43.67 Aligned_cols=35 Identities=26% Similarity=0.584 Sum_probs=29.1
Q ss_pred CceeEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 11 PKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 11 ~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
....|.||+|.-..|..|-|+.. -+.+.|+|..|.
T Consensus 207 ~naiVfCdgC~i~VHq~CYGI~f---~peG~WlCrkCi 241 (669)
T COG5141 207 SNAIVFCDGCEICVHQSCYGIQF---LPEGFWLCRKCI 241 (669)
T ss_pred cceEEEecCcchhhhhhccccee---cCcchhhhhhhc
Confidence 34589999999999999999853 245689999998
No 81
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=91.20 E-value=0.2 Score=28.44 Aligned_cols=34 Identities=26% Similarity=0.544 Sum_probs=22.4
Q ss_pred ecCCCCceeccccc----Cc--cccCcCCCCCCCCCccCC
Q psy5115 16 CCDTCQDWFHGRCV----GI--LQSEADNIDEYICPNCNN 49 (171)
Q Consensus 16 ~C~~C~r~~H~~C~----~~--~~~~~~~~~~~~Cp~C~~ 49 (171)
+|..|.-+|+..=- ++ ..+..+.++.|.||.|..
T Consensus 3 ~C~~CgyiYd~~~Gd~~~~i~pGt~f~~Lp~~w~CP~C~a 42 (50)
T cd00730 3 ECRICGYIYDPAEGDPDEGIPPGTPFEDLPDDWVCPVCGA 42 (50)
T ss_pred CCCCCCeEECCCCCCcccCcCCCCCHhHCCCCCCCCCCCC
Confidence 68899988886431 11 112334688999999973
No 82
>KOG0956|consensus
Probab=90.89 E-value=0.12 Score=44.51 Aligned_cols=42 Identities=26% Similarity=0.588 Sum_probs=34.4
Q ss_pred cccccCCCc----eeEecC--CCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 4 HTLAVIEPK----FYICCD--TCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 4 ~~~~~~~~~----~~i~C~--~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
|=+|-|+.| .+|-|| .|...+|.-|-||-+- +.+.|+|..|.
T Consensus 8 CCVCSDErGWaeNPLVYCDG~nCsVAVHQaCYGIvqV---PtGpWfCrKCe 55 (900)
T KOG0956|consen 8 CCVCSDERGWAENPLVYCDGHNCSVAVHQACYGIVQV---PTGPWFCRKCE 55 (900)
T ss_pred eeeecCcCCCccCceeeecCCCceeeeehhcceeEec---CCCchhhhhhh
Confidence 557777755 489999 7999999999998643 56789999998
No 83
>COG1773 Rubredoxin [Energy production and conversion]
Probab=89.36 E-value=0.45 Score=27.54 Aligned_cols=35 Identities=26% Similarity=0.547 Sum_probs=23.1
Q ss_pred EecCCCCceeccccc----Cc--cccCcCCCCCCCCCccCC
Q psy5115 15 ICCDTCQDWFHGRCV----GI--LQSEADNIDEYICPNCNN 49 (171)
Q Consensus 15 i~C~~C~r~~H~~C~----~~--~~~~~~~~~~~~Cp~C~~ 49 (171)
-+|..|.-+|...=- ++ .....+-++.|.||.|..
T Consensus 4 ~~C~~CG~vYd~e~Gdp~~gi~pgT~fedlPd~w~CP~Cg~ 44 (55)
T COG1773 4 WRCSVCGYVYDPEKGDPRCGIAPGTPFEDLPDDWVCPECGV 44 (55)
T ss_pred eEecCCceEeccccCCccCCCCCCCchhhCCCccCCCCCCC
Confidence 578899888865431 11 112345688999999984
No 84
>KOG0957|consensus
Probab=89.34 E-value=0.27 Score=41.02 Aligned_cols=42 Identities=21% Similarity=0.574 Sum_probs=31.2
Q ss_pred ccCCCceeEecCCCCceecccccCcccc-------CcCCCCCCCCCccC
Q psy5115 7 AVIEPKFYICCDTCQDWFHGRCVGILQS-------EADNIDEYICPNCN 48 (171)
Q Consensus 7 ~~~~~~~~i~C~~C~r~~H~~C~~~~~~-------~~~~~~~~~Cp~C~ 48 (171)
..++-|..|+||.|+--.|.-|-|..+- .......|+|..|.
T Consensus 129 rs~da~ei~qCd~CGi~VHEgCYGv~dn~si~s~~s~~stepWfCeaC~ 177 (707)
T KOG0957|consen 129 RSVDAGEILQCDKCGINVHEGCYGVLDNVSIPSGSSDCSTEPWFCEACL 177 (707)
T ss_pred ccccccceeeccccCceecccccccccccccCCCCccCCCCchhhhhHh
Confidence 3556666999999999999999776521 11134689999888
No 85
>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=89.20 E-value=0.13 Score=25.78 Aligned_cols=25 Identities=16% Similarity=0.438 Sum_probs=10.1
Q ss_pred cccccCCCceeEecCCCCceeccccc
Q psy5115 4 HTLAVIEPKFYICCDTCQDWFHGRCV 29 (171)
Q Consensus 4 ~~~~~~~~~~~i~C~~C~r~~H~~C~ 29 (171)
|..+.++ +.+-.|..|.-.+|..|+
T Consensus 6 C~~~~~~-~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 6 CGKPIDG-GWFYRCSECDFDLHEECA 30 (30)
T ss_dssp TS----S---EEE-TTT-----HHHH
T ss_pred CCCcCCC-CceEECccCCCccChhcC
Confidence 4444444 468899999999999884
No 86
>TIGR02606 antidote_CC2985 putative addiction module antidote protein, CC2985 family. This bacterial protein family has a very similar seed alignment to that of Pfam model pfam03693 but is a more stringent model with higher cutoff scores. Proteins that score above the trusted cutoff to this model almost invariably are found adjacent to a ParE family protein (pfam05016), where ParE is the killing partner of an addiction module for plasmid stabilization. Members of this family, therefore, are putative addiction module antidote proteins. Some are encoded on plasmids or in prophage regions, but others appear chromosomal. A genome may contain several identical copies, such as the four in Magnetococcus sp. MC-1. This family is named for one member, CC2985 of Caulobacter crescentus CB15.
Probab=88.74 E-value=1 Score=27.35 Aligned_cols=28 Identities=18% Similarity=0.369 Sum_probs=24.3
Q ss_pred HHHHHHHhcCCCCCHHHHHHHHHHHHHH
Q psy5115 107 KTIELRIAQQRYKKLSEFIGDMTKIFDN 134 (171)
Q Consensus 107 ~~I~~kl~~~~Y~s~~~f~~Dv~li~~N 134 (171)
..|+.++++|.|.|..++++|..+++.-
T Consensus 12 ~~i~~~V~sG~Y~s~SEVir~aLR~le~ 39 (69)
T TIGR02606 12 SFIRSQVQSGRYGSASEVVRAALRLLEE 39 (69)
T ss_pred HHHHHHHHCCCCCCHHHHHHHHHHHHHH
Confidence 4588999999999999999998887654
No 87
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=88.10 E-value=0.63 Score=23.85 Aligned_cols=10 Identities=30% Similarity=1.162 Sum_probs=8.3
Q ss_pred CCCCCCccCC
Q psy5115 40 DEYICPNCNN 49 (171)
Q Consensus 40 ~~~~Cp~C~~ 49 (171)
+.|.||.|..
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 4799999974
No 88
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=87.46 E-value=0.37 Score=27.77 Aligned_cols=26 Identities=15% Similarity=0.350 Sum_probs=20.4
Q ss_pred cccccCCCceeEecCCCCceeccccc
Q psy5115 4 HTLAVIEPKFYICCDTCQDWFHGRCV 29 (171)
Q Consensus 4 ~~~~~~~~~~~i~C~~C~r~~H~~C~ 29 (171)
|..+..+++-.|.|..|.-.||..|-
T Consensus 11 Cg~~~~~~dDiVvCp~CgapyHR~C~ 36 (54)
T PF14446_consen 11 CGKKFKDGDDIVVCPECGAPYHRDCW 36 (54)
T ss_pred hCCcccCCCCEEECCCCCCcccHHHH
Confidence 55555445558999999999999996
No 89
>KOG0644|consensus
Probab=87.42 E-value=0.13 Score=45.28 Aligned_cols=72 Identities=11% Similarity=0.119 Sum_probs=56.9
Q ss_pred CccCCCCCCCCccccccCCCCCHHHHHHHHhcCCC--------------C----------CHHH------HHHHHHHHHH
Q psy5115 84 FMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRY--------------K----------KLSE------FIGDMTKIFD 133 (171)
Q Consensus 84 F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y--------------~----------s~~~------f~~Dv~li~~ 133 (171)
|.-+++....|.|..++..|.+|++++.+|.+..| . ++.+ ...-+..|-+
T Consensus 86 lv~~~d~~~pp~~~~~a~vpTlLgtg~qsLl~r~k~~~~~~~~~s~~~~~h~~~~~~~~~sl~s~~~~~~~h~~a~~i~~ 165 (1113)
T KOG0644|consen 86 LVPMLDKPIPPRYCTIARVPTLLGTGRQSLLRRAKDIRHTVWKGSAFRWPHMHADQVRGVSLRSIGGGFEIHHRAPSIGC 165 (1113)
T ss_pred hccCcCCCCCcceeeeecccchhcchhHHHHhhhhhcccccccccccccccccCcccccceeccCCcchhhhhcCccccc
Confidence 34556666778888899999999999999998877 2 3333 6778889999
Q ss_pred HHhhhCCCCCHHHHHHHHHHHHH
Q psy5115 134 NCRYYNPRESPFFKHAHQLEMFF 156 (171)
Q Consensus 134 Na~~yn~~~s~~~~~a~~l~~~f 156 (171)
|+..++.|++ +++.++.+.++.
T Consensus 166 at~~~akPgt-mvqkmk~ikrLl 187 (1113)
T KOG0644|consen 166 ATFSIAKPGT-MVQKMKNIKRLL 187 (1113)
T ss_pred ceeeecCcHH-HHHHHHHHHHHH
Confidence 9999999999 777776665554
No 90
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=86.47 E-value=0.36 Score=31.95 Aligned_cols=32 Identities=28% Similarity=0.697 Sum_probs=22.3
Q ss_pred CCC---Cceeccccc----CccccCcCCCCCCCCCccCC
Q psy5115 18 DTC---QDWFHGRCV----GILQSEADNIDEYICPNCNN 49 (171)
Q Consensus 18 ~~C---~r~~H~~C~----~~~~~~~~~~~~~~Cp~C~~ 49 (171)
..| ..-|...|+ +....+.....+|.||.|+.
T Consensus 31 ~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 31 SSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred CCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 677 888999996 33322333456899999983
No 91
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=85.38 E-value=0.38 Score=30.49 Aligned_cols=33 Identities=24% Similarity=0.515 Sum_probs=20.6
Q ss_pred eEecCCCCceecccccCccccCcCCCCCCCCCccCC
Q psy5115 14 YICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNN 49 (171)
Q Consensus 14 ~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~~ 49 (171)
++-+ .|...||..|+-.=.. .....-.||.|+.
T Consensus 47 lv~g-~C~H~FH~hCI~kWl~--~~~~~~~CPmCR~ 79 (85)
T PF12861_consen 47 LVWG-KCSHNFHMHCILKWLS--TQSSKGQCPMCRQ 79 (85)
T ss_pred eeec-cCccHHHHHHHHHHHc--cccCCCCCCCcCC
Confidence 3444 5999999999722111 1122459999984
No 92
>KOG1512|consensus
Probab=85.01 E-value=0.26 Score=38.14 Aligned_cols=36 Identities=22% Similarity=0.599 Sum_probs=27.7
Q ss_pred eeEecCCCCceecccccCccccCcCC--CCCCCCCccC
Q psy5115 13 FYICCDTCQDWFHGRCVGILQSEADN--IDEYICPNCN 48 (171)
Q Consensus 13 ~~i~C~~C~r~~H~~C~~~~~~~~~~--~~~~~Cp~C~ 48 (171)
-||+|..|.-.+|+.|+..++....- .=.|.|..|+
T Consensus 278 S~I~C~~C~~~~HP~Ci~M~~elv~~~KTY~W~C~~C~ 315 (381)
T KOG1512|consen 278 SWIVCKPCATRPHPYCVAMIPELVGQYKTYFWKCSSCE 315 (381)
T ss_pred cceeecccccCCCCcchhcCHHHHhHHhhcchhhcccH
Confidence 39999999999999999765544332 3368888886
No 93
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=85.00 E-value=0.74 Score=29.15 Aligned_cols=29 Identities=21% Similarity=0.351 Sum_probs=23.0
Q ss_pred ccccccCCCceeEecC--CCCceecccccCc
Q psy5115 3 FHTLAVIEPKFYICCD--TCQDWFHGRCVGI 31 (171)
Q Consensus 3 ~~~~~~~~~~~~i~C~--~C~r~~H~~C~~~ 31 (171)
-|..|....|-.|.|. +|.+.||..|...
T Consensus 38 ~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 38 KCSICKKKGGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred CCcCCCCCCCeEEEEeCCCCCcEEChHHHcc
Confidence 4666666667799998 5999999999743
No 94
>KOG1827|consensus
Probab=84.86 E-value=0.11 Score=44.45 Aligned_cols=74 Identities=11% Similarity=0.007 Sum_probs=65.8
Q ss_pred CCCccCCCCCCCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHH
Q psy5115 82 WPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQLEMF 155 (171)
Q Consensus 82 ~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~s~~~~~a~~l~~~ 155 (171)
..|...++...+|.|+.+++-||.+....+++..++|.....|..|....+.|+..|+....-+...+..+.+.
T Consensus 214 er~w~~~dg~k~~~~~w~~rP~~T~H~a~r~F~k~Evfkt~~~~~~~~q~l~g~c~v~~~~~yi~~~p~~ls~~ 287 (629)
T KOG1827|consen 214 ERLWKLPDGEKWPQGCWIYRPEETVHRADRKFYKQEVFKTSLYRDDLVQRLLGKCYVMKPTEYISGDPENLSEE 287 (629)
T ss_pred cccccCcccccccceeEeeCCccCccccccchhcccceecccccccHHHHhhcceEEeehhHhhhcCccccccc
Confidence 35667777888999999999999999999999999999999999999999999999998888888877766543
No 95
>PF03693 RHH_2: Uncharacterised protein family (UPF0156); InterPro: IPR022789 This family of proteins are about 80 amino acids in length and their function is unknown. The proteins contain a conserved GRY motif. This family appears to be related to ribbon-helix-helix DNA-binding proteins. ; PDB: 3KXE_C.
Probab=84.13 E-value=1.9 Score=27.06 Aligned_cols=27 Identities=26% Similarity=0.480 Sum_probs=22.3
Q ss_pred HHHHHHHhcCCCCCHHHHHHHHHHHHH
Q psy5115 107 KTIELRIAQQRYKKLSEFIGDMTKIFD 133 (171)
Q Consensus 107 ~~I~~kl~~~~Y~s~~~f~~Dv~li~~ 133 (171)
.-|+.++.+|.|.|..++++|.-.++.
T Consensus 15 ~~i~~~V~sG~Y~s~SEvvR~aLRlle 41 (80)
T PF03693_consen 15 AFIEEQVASGRYSSASEVVREALRLLE 41 (80)
T ss_dssp HHHHHHHCTTS-SSHHHHHHHHHHHHH
T ss_pred HHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence 458999999999999999999777664
No 96
>PF14372 DUF4413: Domain of unknown function (DUF4413)
Probab=82.80 E-value=8.9 Score=24.95 Aligned_cols=50 Identities=18% Similarity=0.164 Sum_probs=41.8
Q ss_pred cCCCCCHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHHHHHHHH
Q psy5115 115 QQRYKKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILR 164 (171)
Q Consensus 115 ~~~Y~s~~~f~~Dv~li~~Na~~yn~~~s~~~~~a~~l~~~f~~~~~~~~ 164 (171)
...|.|...|...+..|-..-...+..+..+..+|..+.+.|.+-|++..
T Consensus 3 ~~~~pTsn~~f~~i~~i~~~l~~~~~~d~~l~~ma~~M~~KfdKYw~~~~ 52 (101)
T PF14372_consen 3 GSSYPTSNLYFHEIWKIKDLLRDWNNDDPDLKNMAKKMKEKFDKYWKDCN 52 (101)
T ss_pred CCCcCcHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHhH
Confidence 45788998898888888887777776778899999999999999998653
No 97
>KOG4443|consensus
Probab=82.22 E-value=0.37 Score=41.37 Aligned_cols=38 Identities=24% Similarity=0.580 Sum_probs=28.4
Q ss_pred CceeEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 11 PKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 11 ~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
.|-|+.|+.|+.-||..||.+--....-..-|.||.|+
T Consensus 32 ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~cr 69 (694)
T KOG4443|consen 32 AGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCR 69 (694)
T ss_pred cCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCce
Confidence 34499999999999999997432323334459999888
No 98
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=81.40 E-value=0.63 Score=22.28 Aligned_cols=13 Identities=23% Similarity=0.603 Sum_probs=10.1
Q ss_pred eEecCCCCceecc
Q psy5115 14 YICCDTCQDWFHG 26 (171)
Q Consensus 14 ~i~C~~C~r~~H~ 26 (171)
|+.|..|+|.|..
T Consensus 2 l~~C~~CgR~F~~ 14 (25)
T PF13913_consen 2 LVPCPICGRKFNP 14 (25)
T ss_pred CCcCCCCCCEECH
Confidence 6788888888854
No 99
>KOG4443|consensus
Probab=78.59 E-value=1.3 Score=38.21 Aligned_cols=36 Identities=19% Similarity=0.565 Sum_probs=28.5
Q ss_pred ceeEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 12 KFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 12 ~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
...+.|+.|+-.||..|..+.-. ......|+|+.|-
T Consensus 81 ~kf~~Ck~cDvsyh~yc~~P~~~-~v~sg~~~ckk~~ 116 (694)
T KOG4443|consen 81 KKFLLCKRCDVSYHCYCQKPPND-KVPSGPWLCKKCT 116 (694)
T ss_pred ccccccccccccccccccCCccc-cccCcccccHHHH
Confidence 44788999999999999866433 2367789999886
No 100
>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=78.36 E-value=0.64 Score=24.59 Aligned_cols=39 Identities=18% Similarity=0.396 Sum_probs=24.6
Q ss_pred cccCCCceeEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 6 LAVIEPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 6 ~~~~~~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
.+.+.-...+.-..|...||..|+...... ....||.|+
T Consensus 4 iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~----~~~~Cp~C~ 42 (45)
T cd00162 4 ICLEEFREPVVLLPCGHVFCRSCIDKWLKS----GKNTCPLCR 42 (45)
T ss_pred cCchhhhCceEecCCCChhcHHHHHHHHHh----CcCCCCCCC
Confidence 334433334555679999999998432211 356899997
No 101
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=77.77 E-value=0.65 Score=28.27 Aligned_cols=36 Identities=25% Similarity=0.401 Sum_probs=13.1
Q ss_pred eeEecC--CCCceecccccCc-----ccc-CcCCCCCCCCCccC
Q psy5115 13 FYICCD--TCQDWFHGRCVGI-----LQS-EADNIDEYICPNCN 48 (171)
Q Consensus 13 ~~i~C~--~C~r~~H~~C~~~-----~~~-~~~~~~~~~Cp~C~ 48 (171)
..+.|+ .|...||..|+.. ... ..-.+....||.|.
T Consensus 19 p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~ 62 (70)
T PF11793_consen 19 PDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCS 62 (70)
T ss_dssp --B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-
T ss_pred CceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCC
Confidence 468898 9999999999621 110 01123346799997
No 102
>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=77.09 E-value=2.4 Score=23.88 Aligned_cols=21 Identities=24% Similarity=0.419 Sum_probs=16.8
Q ss_pred ceeEecCCCCceecccccCcc
Q psy5115 12 KFYICCDTCQDWFHGRCVGIL 32 (171)
Q Consensus 12 ~~~i~C~~C~r~~H~~C~~~~ 32 (171)
..-+.|+.|...+|..|....
T Consensus 26 ~~g~~C~~C~~~~H~~C~~~~ 46 (53)
T PF00130_consen 26 KQGYRCSWCGLVCHKKCLSKV 46 (53)
T ss_dssp SCEEEETTTT-EEETTGGCTS
T ss_pred CCeEEECCCCChHhhhhhhhc
Confidence 447899999999999998654
No 103
>KOG4299|consensus
Probab=76.76 E-value=1.8 Score=37.18 Aligned_cols=45 Identities=24% Similarity=0.457 Sum_probs=32.7
Q ss_pred cccccCCCceeEecCCCCceecccccCccccCcCCCCCCCCCccCC
Q psy5115 4 HTLAVIEPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNN 49 (171)
Q Consensus 4 ~~~~~~~~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~~ 49 (171)
|.-+..+++ .++|+.|+-.||..|.+...........|.|..|-.
T Consensus 50 ~~~~~~~gn-~~~~~~~~~s~h~~~~~~~~sp~~~~~~~~~~~~~~ 94 (613)
T KOG4299|consen 50 CGICKSGGN-LLCCDHCPASFHLECDKPPLSPDLKGSEINCSRCPK 94 (613)
T ss_pred cchhhhcCC-ccccccCccccchhccCcccCcccccccccccCCCc
Confidence 555555555 899999999999999977554444455677777763
No 104
>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=75.93 E-value=1.7 Score=27.08 Aligned_cols=44 Identities=25% Similarity=0.491 Sum_probs=25.7
Q ss_pred CceecccccCccccCcCCCCCCCCCccCCCCcccccccCCChhHHHHHHHHH
Q psy5115 21 QDWFHGRCVGILQSEADNIDEYICPNCNNSSSNLANMKNLTPRDFESLRKLM 72 (171)
Q Consensus 21 ~r~~H~~C~~~~~~~~~~~~~~~Cp~C~~~~~~~~~~~~l~~~~~~~~~~~l 72 (171)
..|||..|........... . ...........|..+++..+..+|
T Consensus 38 ~~W~H~~C~~~~~~~~~~~---~-----~~~~~i~G~~~L~~~Dq~~i~~~i 81 (82)
T PF00645_consen 38 PKWYHWDCFFKKQLRNRET---T-----GDIEEIKGFDELKPEDQEKIRKLI 81 (82)
T ss_dssp EEEEEHHHHHHTTCCTTSS---T-----SCGGGCETCCCS-HHHHHHHHHHH
T ss_pred CceECccccccchhhhccc---C-----CCHHHCCChHHCCHHHHHHHHHHh
Confidence 4799999984332221111 1 222344556678899998888766
No 105
>KOG1952|consensus
Probab=75.82 E-value=0.8 Score=40.62 Aligned_cols=42 Identities=29% Similarity=0.582 Sum_probs=29.4
Q ss_pred CCCceeEecCCCCceecccccCc---cccCcCCCCCCCCCccCCCC
Q psy5115 9 IEPKFYICCDTCQDWFHGRCVGI---LQSEADNIDEYICPNCNNSS 51 (171)
Q Consensus 9 ~~~~~~i~C~~C~r~~H~~C~~~---~~~~~~~~~~~~Cp~C~~~~ 51 (171)
+....+-.|..|..+||..|+.. + .+....+.|.||.|+...
T Consensus 202 ~~t~~~WSC~sCYhVFHl~CI~~WArs-~ek~~~~~WrCP~Cqsv~ 246 (950)
T KOG1952|consen 202 KRTAPVWSCKSCYHVFHLNCIKKWARS-SEKTGQDGWRCPACQSVS 246 (950)
T ss_pred cccCCceecchhhhhhhHHHHHHHHHH-hhhccCccccCCcccchh
Confidence 33445788999999999999721 1 122245789999999433
No 106
>COG0777 AccD Acetyl-CoA carboxylase beta subunit [Lipid metabolism]
Probab=75.76 E-value=2.3 Score=33.01 Aligned_cols=31 Identities=16% Similarity=0.610 Sum_probs=22.5
Q ss_pred CCceeEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 10 EPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 10 ~~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
.+|.|+.|..|....|..=+ ..+.|.||.|.
T Consensus 24 ~e~lw~KCp~c~~~~y~~eL--------~~n~~vcp~c~ 54 (294)
T COG0777 24 PEGLWTKCPSCGEMLYRKEL--------ESNLKVCPKCG 54 (294)
T ss_pred CCCceeECCCccceeeHHHH--------HhhhhcccccC
Confidence 37889999999976554322 23369999997
No 107
>KOG2626|consensus
Probab=73.61 E-value=2.2 Score=35.91 Aligned_cols=48 Identities=21% Similarity=0.420 Sum_probs=31.4
Q ss_pred ccccccCCCceeEecCCCCceecccccCcccc-----CcCCCCCCCCCccCCC
Q psy5115 3 FHTLAVIEPKFYICCDTCQDWFHGRCVGILQS-----EADNIDEYICPNCNNS 50 (171)
Q Consensus 3 ~~~~~~~~~~~~i~C~~C~r~~H~~C~~~~~~-----~~~~~~~~~Cp~C~~~ 50 (171)
||..-..-+..-++|+.|.+|||..|...... .......+.|..|..+
T Consensus 24 y~e~~r~l~~~elqcs~clk~~~~~~~~~~~~~~s~~pf~t~y~fvc~~c~~~ 76 (544)
T KOG2626|consen 24 YCEGERNLGIVELQCSTCLKWFHLPTLEAFHLIKSSLPFMTSYEFVCKECTPS 76 (544)
T ss_pred ccccccccCceeeEeeecccccccccccccccccccCCcccceeEEeccccCc
Confidence 55555556666899999999999755322111 1113457899999844
No 108
>KOG1829|consensus
Probab=73.10 E-value=0.55 Score=40.15 Aligned_cols=28 Identities=32% Similarity=0.786 Sum_probs=22.0
Q ss_pred eEecCCCCceecccccCccccCcCCCCCCCCCccCC
Q psy5115 14 YICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNN 49 (171)
Q Consensus 14 ~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~~ 49 (171)
..-|+.|..|||..|..... + -||.|..
T Consensus 531 ~~rC~~C~avfH~~C~~r~s-----~---~CPrC~R 558 (580)
T KOG1829|consen 531 TRRCSTCLAVFHKKCLRRKS-----P---CCPRCER 558 (580)
T ss_pred ceeHHHHHHHHHHHHHhccC-----C---CCCchHH
Confidence 67899999999999985421 1 2999983
No 109
>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=72.29 E-value=0.82 Score=28.04 Aligned_cols=30 Identities=27% Similarity=0.613 Sum_probs=18.3
Q ss_pred eEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 14 YICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 14 ~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
.+.=..|+..||..|+..=.. . ...||.|+
T Consensus 44 ~i~~~~C~H~FH~~Ci~~Wl~-~----~~~CP~CR 73 (73)
T PF12678_consen 44 PIVWGPCGHIFHFHCISQWLK-Q----NNTCPLCR 73 (73)
T ss_dssp -EEEETTSEEEEHHHHHHHHT-T----SSB-TTSS
T ss_pred ceEecccCCCEEHHHHHHHHh-c----CCcCCCCC
Confidence 344457999999999842111 1 23999995
No 110
>KOG1244|consensus
Probab=70.47 E-value=0.73 Score=35.53 Aligned_cols=38 Identities=18% Similarity=0.497 Sum_probs=27.0
Q ss_pred CceeEecCCCCceecccccCccccCcCC--CCCCCCCccC
Q psy5115 11 PKFYICCDTCQDWFHGRCVGILQSEADN--IDEYICPNCN 48 (171)
Q Consensus 11 ~~~~i~C~~C~r~~H~~C~~~~~~~~~~--~~~~~Cp~C~ 48 (171)
++.+|.|+.|+|.=|+.|+-.+.-.... .=-|.|..|.
T Consensus 243 peelvscsdcgrsghpsclqft~nm~~avk~yrwqcieck 282 (336)
T KOG1244|consen 243 PEELVSCSDCGRSGHPSCLQFTANMIAAVKTYRWQCIECK 282 (336)
T ss_pred chhhcchhhcCCCCCcchhhhhHHHHHHHHhheeeeeecc
Confidence 5669999999999999997443222111 2258888887
No 111
>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=70.46 E-value=6.1 Score=19.59 Aligned_cols=25 Identities=20% Similarity=0.343 Sum_probs=18.1
Q ss_pred cccccCCCceeEecCCCCceeccccc
Q psy5115 4 HTLAVIEPKFYICCDTCQDWFHGRCV 29 (171)
Q Consensus 4 ~~~~~~~~~~~i~C~~C~r~~H~~C~ 29 (171)
|++.-++.. .-.|+.|.-..|..|+
T Consensus 6 C~~~~~~~~-~Y~C~~c~f~lh~~Ca 30 (30)
T PF03107_consen 6 CRRKIDGFY-FYHCSECCFTLHVRCA 30 (30)
T ss_pred CCCCcCCCE-eEEeCCCCCeEcCccC
Confidence 444444443 7888999999999884
No 112
>PF13922 PHD_3: PHD domain of transcriptional enhancer, Asx
Probab=70.31 E-value=0.77 Score=27.42 Aligned_cols=20 Identities=30% Similarity=0.786 Sum_probs=18.2
Q ss_pred eeEecCCCCceecccccCcc
Q psy5115 13 FYICCDTCQDWFHGRCVGIL 32 (171)
Q Consensus 13 ~~i~C~~C~r~~H~~C~~~~ 32 (171)
-||.|.+|+..-|-.|+|++
T Consensus 42 AMi~Cq~CGAFCHDDCIgps 61 (69)
T PF13922_consen 42 AMIMCQGCGAFCHDDCIGPS 61 (69)
T ss_pred HHHHHhhccchhccccccHH
Confidence 49999999999999999875
No 113
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=69.12 E-value=5.6 Score=33.50 Aligned_cols=37 Identities=19% Similarity=0.421 Sum_probs=25.8
Q ss_pred eEecCCCCceeccccc------CccccCcCCCCCCCCCccCCC
Q psy5115 14 YICCDTCQDWFHGRCV------GILQSEADNIDEYICPNCNNS 50 (171)
Q Consensus 14 ~i~C~~C~r~~H~~C~------~~~~~~~~~~~~~~Cp~C~~~ 50 (171)
.-.|..|.-.|-..=- ....+..+-|+.|.||.|..+
T Consensus 425 ~~~c~~c~~~yd~~~g~~~~~~~~gt~~~~lp~~~~cp~c~~~ 467 (479)
T PRK05452 425 RMQCSVCQWIYDPAKGEPMQDVAPGTPWSEVPDNFLCPECSLG 467 (479)
T ss_pred eEEECCCCeEECCCCCCcccCCCCCCChhhCCCCCcCcCCCCc
Confidence 5689999988887532 222233456889999999843
No 114
>PTZ00396 Casein kinase II subunit beta; Provisional
Probab=68.86 E-value=3.1 Score=31.92 Aligned_cols=31 Identities=16% Similarity=0.366 Sum_probs=23.7
Q ss_pred CCCceeccccc----CccccCcCCCCCCCCCccCC
Q psy5115 19 TCQDWFHGRCV----GILQSEADNIDEYICPNCNN 49 (171)
Q Consensus 19 ~C~r~~H~~C~----~~~~~~~~~~~~~~Cp~C~~ 49 (171)
.|+|+++.-+. |+++......-+.+||.|..
T Consensus 122 ~CPRv~C~~q~~LPvGlSd~~g~~~VKlyCP~C~D 156 (251)
T PTZ00396 122 HCPRVLCEGQNVLPIGLSDVLKTSRVKVYCPRCQE 156 (251)
T ss_pred CCCCccCCCCcccccccCCCcCcCceeEeCCCchh
Confidence 79999988763 66655555677899999993
No 115
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=68.71 E-value=4.5 Score=21.19 Aligned_cols=26 Identities=27% Similarity=0.563 Sum_probs=18.4
Q ss_pred ecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 16 CCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 16 ~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
.|..|+++||..=.+ +...-.|..|.
T Consensus 3 ~C~~Cg~~Yh~~~~p-------P~~~~~Cd~cg 28 (36)
T PF05191_consen 3 ICPKCGRIYHIEFNP-------PKVEGVCDNCG 28 (36)
T ss_dssp EETTTTEEEETTTB---------SSTTBCTTTT
T ss_pred CcCCCCCccccccCC-------CCCCCccCCCC
Confidence 589999999965543 22346899887
No 116
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=67.46 E-value=5.2 Score=20.87 Aligned_cols=16 Identities=19% Similarity=0.432 Sum_probs=12.5
Q ss_pred CCceeEecCCCCceec
Q psy5115 10 EPKFYICCDTCQDWFH 25 (171)
Q Consensus 10 ~~~~~i~C~~C~r~~H 25 (171)
+.|-.++|..|...|+
T Consensus 21 ~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 21 PKGRKVRCSKCGHVFF 36 (36)
T ss_pred CCCcEEECCCCCCEeC
Confidence 4556899999998775
No 117
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=65.98 E-value=3.9 Score=32.18 Aligned_cols=32 Identities=16% Similarity=0.606 Sum_probs=22.4
Q ss_pred CCCceeEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 9 IEPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 9 ~~~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
..++.|+.|+.|...++..=+ ....+.||.|.
T Consensus 22 ~~~~~~~~c~~c~~~~~~~~l--------~~~~~vc~~c~ 53 (292)
T PRK05654 22 VPEGLWTKCPSCGQVLYRKEL--------EANLNVCPKCG 53 (292)
T ss_pred CCCCCeeECCCccchhhHHHH--------HhcCCCCCCCC
Confidence 346679999999977655322 11247999997
No 118
>PF01214 CK_II_beta: Casein kinase II regulatory subunit; InterPro: IPR000704 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. Casein kinase, a ubiquitous, well-conserved protein kinase involved in cell metabolism and differentiation, is characterised by its preference for Ser or Thr in acidic stretches of amino acids. The enzyme is a tetramer of 2 alpha- and 2 beta-subunits [, ]. However, some species (e.g., mammals) possess 2 related forms of the alpha-subunit (alpha and alpha'), while others (e.g., fungi) possess 2 related beta-subunits (beta and beta') []. The alpha-subunit is the catalytic unit and contains regions characteristic of serine/threonine protein kinases. The beta-subunit is believed to be regulatory, possessing an N-terminal auto-phosphorylation site, an internal acidic domain, and a potential metal-binding motif []. The beta subunit is a highly conserved protein of about 25kDa that contains, in its central section, a cysteine-rich motif, CX(n)C, that could be involved in binding a metal such as zinc []. The mammalian beta-subunit gene promoter shares common features with those of other mammalian protein kinases and is closely related to the promoter of the regulatory subunit of cAMP-dependent protein kinase [].; GO: 0019887 protein kinase regulator activity, 0005956 protein kinase CK2 complex; PDB: 2R6M_B 1RQF_K 1DS5_G 1QF8_B 3EED_A 4DGL_A 1JWH_D.
Probab=63.37 E-value=2.8 Score=30.69 Aligned_cols=30 Identities=17% Similarity=0.547 Sum_probs=20.6
Q ss_pred CCCceeccccc----CccccCcCCCCCCCCCccC
Q psy5115 19 TCQDWFHGRCV----GILQSEADNIDEYICPNCN 48 (171)
Q Consensus 19 ~C~r~~H~~C~----~~~~~~~~~~~~~~Cp~C~ 48 (171)
.|+|+++..+. |+++......-+.+||.|+
T Consensus 101 ~CPRv~C~~~~lLPiGlsd~~g~~~vKlyCP~C~ 134 (184)
T PF01214_consen 101 RCPRVYCNGQPLLPIGLSDTPGESTVKLYCPRCK 134 (184)
T ss_dssp B-SBGGGTT-B-EEEBS-SSTTS-BBEEEETTTT
T ss_pred cCCcccCCCCceeCccCCCCCCccceeEECCCCc
Confidence 69999988663 6665556667789999999
No 119
>PRK04023 DNA polymerase II large subunit; Validated
Probab=63.13 E-value=12 Score=34.41 Aligned_cols=40 Identities=25% Similarity=0.442 Sum_probs=28.0
Q ss_pred CccccccCCCceeEecCCCC-----ceecccccCccccCcCCCCCCCCCccCC
Q psy5115 2 KFHTLAVIEPKFYICCDTCQ-----DWFHGRCVGILQSEADNIDEYICPNCNN 49 (171)
Q Consensus 2 ~~~~~~~~~~~~~i~C~~C~-----r~~H~~C~~~~~~~~~~~~~~~Cp~C~~ 49 (171)
++|..|.... ....|..|+ -+|+..|-.. ...+.||.|..
T Consensus 627 RfCpsCG~~t-~~frCP~CG~~Te~i~fCP~CG~~-------~~~y~CPKCG~ 671 (1121)
T PRK04023 627 RKCPSCGKET-FYRRCPFCGTHTEPVYRCPRCGIE-------VEEDECEKCGR 671 (1121)
T ss_pred ccCCCCCCcC-CcccCCCCCCCCCcceeCccccCc-------CCCCcCCCCCC
Confidence 5787777764 477899996 4688888422 12367999984
No 120
>COG5047 SEC23 Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking and secretion]
Probab=62.15 E-value=3.7 Score=35.24 Aligned_cols=32 Identities=25% Similarity=0.597 Sum_probs=24.5
Q ss_pred eEecCC-CCceecccccCccccCcCCCCCCCCCccCCC
Q psy5115 14 YICCDT-CQDWFHGRCVGILQSEADNIDEYICPNCNNS 50 (171)
Q Consensus 14 ~i~C~~-C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~~~ 50 (171)
-|.|.+ |.-++...|+--.. ...|.||.|.+.
T Consensus 53 pv~C~~pC~avlnpyC~id~r-----~~~W~CpfCnqr 85 (755)
T COG5047 53 PVKCTAPCKAVLNPYCHIDER-----NQSWICPFCNQR 85 (755)
T ss_pred CceecccchhhcCcceeeccC-----CceEecceecCC
Confidence 578888 99999999993221 226999999954
No 121
>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=59.89 E-value=2.7 Score=23.61 Aligned_cols=36 Identities=17% Similarity=0.443 Sum_probs=19.5
Q ss_pred CCceeEe-c--CCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 10 EPKFYIC-C--DTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 10 ~~~~~i~-C--~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
+++.++. | .+-.+++|..|+..=-. ....-.||.|.
T Consensus 11 ~~~~l~~PC~C~G~~~~vH~~Cl~~W~~---~~~~~~C~iC~ 49 (49)
T smart00744 11 EGDPLVSPCRCKGSLKYVHQECLERWIN---ESGNKTCEICK 49 (49)
T ss_pred CCCeeEeccccCCchhHHHHHHHHHHHH---HcCCCcCCCCC
Confidence 4444443 3 33458999999732111 11123888884
No 122
>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=57.60 E-value=4.5 Score=22.05 Aligned_cols=31 Identities=26% Similarity=0.605 Sum_probs=14.1
Q ss_pred eEecC--CCCceecccccCccccCcCCCCCCCCCcc
Q psy5115 14 YICCD--TCQDWFHGRCVGILQSEADNIDEYICPNC 47 (171)
Q Consensus 14 ~i~C~--~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C 47 (171)
=+.|+ .|.--+|..|..-- .....+. .||.|
T Consensus 11 G~~C~~~~C~~r~H~~C~~~y--~r~~~~~-~CP~C 43 (43)
T PF08746_consen 11 GQRCSNRDCNVRLHDDCFKKY--FRHRSNP-KCPNC 43 (43)
T ss_dssp SEE-SS--S--EE-HHHHHHH--TTT-SS--B-TTT
T ss_pred eccCCCCccCchHHHHHHHHH--HhcCCCC-CCcCC
Confidence 36788 69988999998432 1112222 78877
No 123
>KOG0383|consensus
Probab=56.42 E-value=14 Score=32.72 Aligned_cols=31 Identities=26% Similarity=0.579 Sum_probs=23.3
Q ss_pred CCCceecccccCccccCcCCCCCCCCCccCCC
Q psy5115 19 TCQDWFHGRCVGILQSEADNIDEYICPNCNNS 50 (171)
Q Consensus 19 ~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~~~ 50 (171)
.|+|.||..|....-. .+....|.||.|..+
T Consensus 1 ~~~r~~~~~~~~p~~~-~~~~~~~k~~~~e~~ 31 (696)
T KOG0383|consen 1 TCPRAYHRVCLDPKLK-EEPEMDPKCPGCESS 31 (696)
T ss_pred CCCcccCcCCCCcccc-cCCcCCccCcchhhc
Confidence 4899999999975433 333578999999844
No 124
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=55.91 E-value=3.2 Score=22.42 Aligned_cols=28 Identities=29% Similarity=0.696 Sum_probs=15.2
Q ss_pred CCCceecccccCccccCcCCCCCCCCCcc
Q psy5115 19 TCQDWFHGRCVGILQSEADNIDEYICPNC 47 (171)
Q Consensus 19 ~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C 47 (171)
.|+..|...|+....... ....+.||.|
T Consensus 15 ~CGH~FC~~Cl~~~~~~~-~~~~~~CP~C 42 (42)
T PF15227_consen 15 PCGHSFCRSCLERLWKEP-SGSGFSCPEC 42 (42)
T ss_dssp SSSSEEEHHHHHHHHCCS-SSST---SSS
T ss_pred CCcCHHHHHHHHHHHHcc-CCcCCCCcCC
Confidence 678888888874433222 2223899987
No 125
>PF12172 DUF35_N: Rubredoxin-like zinc ribbon domain (DUF35_N); InterPro: IPR022002 This domain has no known function and is found in conserved hypothetical archaeal and bacterial proteins. The domain is duplicated in O53566 from SWISSPROT. The structure of a DUF35 representative reveals two long N-terminal helices followed by a rubredoxin-like zinc ribbon domain represented in this family and a C-terminal OB fold domain. Zinc is chelated by the four conserved cysteines in the alignment. ; PDB: 3IRB_A.
Probab=55.33 E-value=11 Score=19.56 Aligned_cols=11 Identities=18% Similarity=0.374 Sum_probs=5.9
Q ss_pred ecCCCCceecc
Q psy5115 16 CCDTCQDWFHG 26 (171)
Q Consensus 16 ~C~~C~r~~H~ 26 (171)
.|..|.++++.
T Consensus 13 rC~~Cg~~~~p 23 (37)
T PF12172_consen 13 RCRDCGRVQFP 23 (37)
T ss_dssp E-TTT--EEES
T ss_pred EcCCCCCEecC
Confidence 49999999763
No 126
>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=54.82 E-value=14 Score=20.66 Aligned_cols=30 Identities=20% Similarity=0.430 Sum_probs=20.5
Q ss_pred eEecCCCCceecccccCccccCcCCCCCCCCCccCC
Q psy5115 14 YICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNN 49 (171)
Q Consensus 14 ~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~~ 49 (171)
-..|..|+..|... ....+ .+...||.|..
T Consensus 5 ey~C~~Cg~~fe~~-~~~~~-----~~~~~CP~Cg~ 34 (52)
T TIGR02605 5 EYRCTACGHRFEVL-QKMSD-----DPLATCPECGG 34 (52)
T ss_pred EEEeCCCCCEeEEE-EecCC-----CCCCCCCCCCC
Confidence 35799999888866 32221 34578999984
No 127
>PF03380 DUF282: Caenorhabditis protein of unknown function, DUF282; InterPro: IPR005044 This family consists of proteins of unknown function found in Caenorhabditis species.
Probab=54.67 E-value=7.5 Score=20.80 Aligned_cols=16 Identities=25% Similarity=0.829 Sum_probs=14.5
Q ss_pred cCCCCceecccccCcc
Q psy5115 17 CDTCQDWFHGRCVGIL 32 (171)
Q Consensus 17 C~~C~r~~H~~C~~~~ 32 (171)
|..|..+|...|.|..
T Consensus 2 Cs~C~~iYdt~CqG~g 17 (39)
T PF03380_consen 2 CSVCSKIYDTTCQGFG 17 (39)
T ss_pred CcccccccCCCCccCC
Confidence 8999999999999764
No 128
>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=54.38 E-value=14 Score=19.93 Aligned_cols=29 Identities=28% Similarity=0.580 Sum_probs=20.6
Q ss_pred EecCCCCceecccccCccccCcCCCCCCCCCccCC
Q psy5115 15 ICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNN 49 (171)
Q Consensus 15 i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~~ 49 (171)
..|..|+..|...-- ++ + .+...||.|+.
T Consensus 6 y~C~~Cg~~fe~~~~-~~----~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 6 YRCEECGHEFEVLQS-IS----E-DDPVPCPECGS 34 (42)
T ss_pred EEeCCCCCEEEEEEE-cC----C-CCCCcCCCCCC
Confidence 468999988877643 22 1 44689999984
No 129
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=54.33 E-value=89 Score=23.31 Aligned_cols=63 Identities=19% Similarity=0.407 Sum_probs=37.9
Q ss_pred eEecCCCCceecccccCcccc-----CcC-----------CCCCCCCCccCCCCcccccccCCChhHHHHHHHHHHHHHh
Q psy5115 14 YICCDTCQDWFHGRCVGILQS-----EAD-----------NIDEYICPNCNNSSSNLANMKNLTPRDFESLRKLMKQIQA 77 (171)
Q Consensus 14 ~i~C~~C~r~~H~~C~~~~~~-----~~~-----------~~~~~~Cp~C~~~~~~~~~~~~l~~~~~~~~~~~l~~l~~ 77 (171)
-+.|..|..-|...=+..... +.+ .-+.|+||.|.-+.....- ..+++...+.+...+...+.
T Consensus 5 ~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~~F-~~l~~~~~~~i~~~i~~~~~ 83 (214)
T PF09986_consen 5 KITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEEDF-EKLSPEQKEKIKENISSRWK 83 (214)
T ss_pred ceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccccc-ccCCHHHHHHHHHHHHhhcc
Confidence 378999998888876522111 011 1247999999955443211 25667777777666665554
No 130
>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=54.16 E-value=4.8 Score=31.55 Aligned_cols=31 Identities=16% Similarity=0.544 Sum_probs=21.9
Q ss_pred CCceeEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 10 EPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 10 ~~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
.++.|+.|+.|...++..=+ ...-+.||.|.
T Consensus 22 ~~~~~~~c~~c~~~~~~~~l--------~~~~~vc~~c~ 52 (285)
T TIGR00515 22 PEGVWTKCPKCGQVLYTKEL--------ERNLEVCPKCD 52 (285)
T ss_pred CCCCeeECCCCcchhhHHHH--------HhhCCCCCCCC
Confidence 45679999999987664322 12248999998
No 131
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 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. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=54.12 E-value=3.9 Score=21.86 Aligned_cols=30 Identities=23% Similarity=0.595 Sum_probs=16.8
Q ss_pred eEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 14 YICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 14 ~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
.+.|..|.-..-..|.-. .....|.|+.|.
T Consensus 2 p~rC~~C~aylNp~~~~~-----~~~~~w~C~~C~ 31 (40)
T PF04810_consen 2 PVRCRRCRAYLNPFCQFD-----DGGKTWICNFCG 31 (40)
T ss_dssp S-B-TTT--BS-TTSEEE-----TTTTEEEETTT-
T ss_pred ccccCCCCCEECCcceEc-----CCCCEEECcCCC
Confidence 467888887777777622 134579999997
No 132
>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=53.50 E-value=3 Score=20.91 Aligned_cols=27 Identities=22% Similarity=0.523 Sum_probs=17.3
Q ss_pred cCCCCceecccccCccccCcCCCCCCCCCcc
Q psy5115 17 CDTCQDWFHGRCVGILQSEADNIDEYICPNC 47 (171)
Q Consensus 17 C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C 47 (171)
-..|...||..|+..... .....||.|
T Consensus 13 ~~~C~H~~c~~C~~~~~~----~~~~~CP~C 39 (39)
T smart00184 13 VLPCGHTFCRSCIRKWLK----SGNNTCPIC 39 (39)
T ss_pred EecCCChHHHHHHHHHHH----hCcCCCCCC
Confidence 346999999999843211 234568876
No 133
>KOG0732|consensus
Probab=53.40 E-value=6.1 Score=36.42 Aligned_cols=52 Identities=15% Similarity=0.228 Sum_probs=42.2
Q ss_pred CCCCccccccCCC--CCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCC
Q psy5115 91 HEAPDYYNVVKEP--MDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRE 142 (171)
Q Consensus 91 ~~~p~Y~~~i~~P--mdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~ 142 (171)
....++...+..| |++..+.+++..|.|.+..+|..|+.+|..||..+...+
T Consensus 796 ~~~~~~v~~l~~~~~~~~~~~~~r~~s~~~~~~~q~l~d~~li~r~a~~~~~~~ 849 (1080)
T KOG0732|consen 796 ESSDNVVKILQINQMDWLEEILKRVWSGEYSTPKQFLSDIKLILRDASSSEDSE 849 (1080)
T ss_pred cccccceeehhhhhhHHHHHHhhcCCcccccccccccccchhhcccchhccCch
Confidence 3456666666655 566778899999999999999999999999999887643
No 134
>PF13341 RAG2_PHD: RAG2 PHD domain; PDB: 2JWO_A 2V86_B 2V85_B 2V87_A 2V83_C 2V89_A 2V88_A.
Probab=52.86 E-value=5.9 Score=24.01 Aligned_cols=35 Identities=20% Similarity=0.649 Sum_probs=19.4
Q ss_pred eEecC-CCCceecccccCccccC----cCCCCCCCCCccC
Q psy5115 14 YICCD-TCQDWFHGRCVGILQSE----ADNIDEYICPNCN 48 (171)
Q Consensus 14 ~i~C~-~C~r~~H~~C~~~~~~~----~~~~~~~~Cp~C~ 48 (171)
||-|+ +=+.|.|+.|..+++.. .....+|+|..-.
T Consensus 30 MI~cs~~~GHWvhaqCm~LsE~~L~~LSq~n~KYfC~dH~ 69 (78)
T PF13341_consen 30 MIFCSRGGGHWVHAQCMDLSETMLIQLSQENTKYFCNDHV 69 (78)
T ss_dssp EEEE-STT-EEEETGGGT--HHHHHHHHHSSS-B--TTTT
T ss_pred EEEEeCCCceEeEeecccchHHHHHHHccCCceEEEhhhh
Confidence 88887 55699999998665431 1245578887765
No 135
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=52.64 E-value=8.6 Score=21.89 Aligned_cols=32 Identities=22% Similarity=0.527 Sum_probs=17.4
Q ss_pred ceeEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 12 KFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 12 ~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
.....|..|...|..+|..-. ......||.|.
T Consensus 19 ~~~y~C~~C~~~FC~dCD~fi-----HE~LH~CPGC~ 50 (51)
T PF07975_consen 19 SSRYRCPKCKNHFCIDCDVFI-----HETLHNCPGCE 50 (51)
T ss_dssp -EEE--TTTT--B-HHHHHTT-----TTTS-SSSTT-
T ss_pred CCeEECCCCCCccccCcChhh-----hccccCCcCCC
Confidence 357899999999999996332 22357899985
No 136
>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=52.64 E-value=4.1 Score=21.37 Aligned_cols=37 Identities=19% Similarity=0.443 Sum_probs=23.0
Q ss_pred cccCCCceeEecCCCCceecccccCccccCcCCCCCCCCCcc
Q psy5115 6 LAVIEPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNC 47 (171)
Q Consensus 6 ~~~~~~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C 47 (171)
.+++.-...+....|+..|+..|+...-.. ...||.|
T Consensus 3 iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~-----~~~CP~C 39 (39)
T PF13923_consen 3 ICLDELRDPVVVTPCGHSFCKECIEKYLEK-----NPKCPVC 39 (39)
T ss_dssp TTTSB-SSEEEECTTSEEEEHHHHHHHHHC-----TSB-TTT
T ss_pred CCCCcccCcCEECCCCCchhHHHHHHHHHC-----cCCCcCC
Confidence 344444446678899999999998432111 2688876
No 137
>PF09416 UPF1_Zn_bind: RNA helicase (UPF2 interacting domain); InterPro: IPR018999 UPF1 (or regulator of nonsense transcripts 1 homologue) is an essential RNA helicase that detects mRNAs containing premature stop codons and triggers their degradation. This domain contains 3 zinc binding motifs and forms interactions with another protein (UPF2) that is also involved nonsense-mediated mRNA decay (NMD) []. ; GO: 0003677 DNA binding, 0004386 helicase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay, 0005737 cytoplasm; PDB: 2IYK_B 2WJY_A 2WJV_A 2XZL_A.
Probab=52.17 E-value=10 Score=26.84 Aligned_cols=20 Identities=30% Similarity=0.876 Sum_probs=13.9
Q ss_pred CCCceeEecCCCCceecccc
Q psy5115 9 IEPKFYICCDTCQDWFHGRC 28 (171)
Q Consensus 9 ~~~~~~i~C~~C~r~~H~~C 28 (171)
++..-++.|..|.+||..-=
T Consensus 9 ~~p~~vv~C~~c~kWFCNg~ 28 (152)
T PF09416_consen 9 HDPSCVVKCNTCNKWFCNGR 28 (152)
T ss_dssp --CCCEEEETTTTEEEES--
T ss_pred CCcccEeEcCCCCcEeecCC
Confidence 34455999999999997654
No 138
>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=51.73 E-value=4.7 Score=21.84 Aligned_cols=18 Identities=22% Similarity=0.505 Sum_probs=14.2
Q ss_pred eEecCCCCceecccccCc
Q psy5115 14 YICCDTCQDWFHGRCVGI 31 (171)
Q Consensus 14 ~i~C~~C~r~~H~~C~~~ 31 (171)
-+.|+.|....|..|+..
T Consensus 27 ~~~C~~C~~~~H~~C~~~ 44 (49)
T smart00109 27 GLRCSWCKVKCHKKCAEK 44 (49)
T ss_pred CcCCCCCCchHHHHHHhh
Confidence 577888888888888743
No 139
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=51.66 E-value=9.7 Score=21.18 Aligned_cols=10 Identities=20% Similarity=1.006 Sum_probs=8.0
Q ss_pred CCCCCCccCC
Q psy5115 40 DEYICPNCNN 49 (171)
Q Consensus 40 ~~~~Cp~C~~ 49 (171)
..|.||.|.-
T Consensus 19 ~~~vC~~Cg~ 28 (52)
T smart00661 19 RRFVCRKCGY 28 (52)
T ss_pred CEEECCcCCC
Confidence 3699999983
No 140
>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=51.54 E-value=9.1 Score=20.84 Aligned_cols=19 Identities=21% Similarity=0.449 Sum_probs=16.3
Q ss_pred eeEecCCCCceecccccCc
Q psy5115 13 FYICCDTCQDWFHGRCVGI 31 (171)
Q Consensus 13 ~~i~C~~C~r~~H~~C~~~ 31 (171)
.-+.|+.|....|..|...
T Consensus 27 ~~~~C~~C~~~~H~~C~~~ 45 (50)
T cd00029 27 QGLRCSWCKVKCHKKCADK 45 (50)
T ss_pred ceeEcCCCCCchhhhhhcc
Confidence 4578999999999999854
No 141
>PF14319 Zn_Tnp_IS91: Transposase zinc-binding domain
Probab=50.35 E-value=28 Score=23.12 Aligned_cols=33 Identities=18% Similarity=0.462 Sum_probs=20.4
Q ss_pred cccccCCCceeEecCCCCcee--cccccCccccCcCCCCCCCCCccC
Q psy5115 4 HTLAVIEPKFYICCDTCQDWF--HGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 4 ~~~~~~~~~~~i~C~~C~r~~--H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
|+...-| +....|+.|+... -..|- .=.||.|+
T Consensus 33 Crt~~~G-~~~~~C~~Cg~~~~~~~SCk-----------~R~CP~C~ 67 (111)
T PF14319_consen 33 CRTEALG-FHRYRCEDCGHEKIVYNSCK-----------NRHCPSCQ 67 (111)
T ss_pred cCCccCC-cceeecCCCCceEEecCccc-----------CcCCCCCC
Confidence 4444433 4488899998442 23444 23899998
No 142
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=50.21 E-value=11 Score=26.28 Aligned_cols=38 Identities=21% Similarity=0.392 Sum_probs=23.4
Q ss_pred cCCCceeEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 8 VIEPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 8 ~~~~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
++.+.....|..|..-|-..=+ ....+.++.+.||.|+
T Consensus 93 ~e~~~~~Y~Cp~C~~~y~~~ea---~~~~d~~~~f~Cp~Cg 130 (147)
T smart00531 93 DETNNAYYKCPNCQSKYTFLEA---NQLLDMDGTFTCPRCG 130 (147)
T ss_pred cccCCcEEECcCCCCEeeHHHH---HHhcCCCCcEECCCCC
Confidence 3445557889999877764211 1111234569999998
No 143
>PF04668 Tsg: Twisted gastrulation (Tsg) protein conserved region; InterPro: IPR006761 Tsg was identified in Drosophila melanogaster as being required to specify the dorsal-most structures in the embryo, for example the amnioserosa. Biochemical experiments have revealed three key properties of Tsg: it can synergistically inhibit Dpp/BMP action in both D. melanogaster and vertebrates by forming a tripartite complete between itself, SOG/chordin and a BMP ligand; Tsg seems to enhance the Tld/BMP-1-mediated cleavage rate of SOG/chordin and may change the preference of site utilisation; Tsg can promote the dissociation of chordin cysteine-rich-containing fragments from the ligand to inhibit BMP signalling [, ].
Probab=49.55 E-value=6.8 Score=26.99 Aligned_cols=26 Identities=42% Similarity=0.891 Sum_probs=15.6
Q ss_pred Cceecccc---cCccccCcCCCCCCCCCcc
Q psy5115 21 QDWFHGRC---VGILQSEADNIDEYICPNC 47 (171)
Q Consensus 21 ~r~~H~~C---~~~~~~~~~~~~~~~Cp~C 47 (171)
-||||.-| +|..--.. -..+-.|..|
T Consensus 102 YRWFHdgCCECVG~~CinY-GinesrC~~C 130 (132)
T PF04668_consen 102 YRWFHDGCCECVGPTCINY-GINESRCSNC 130 (132)
T ss_pred ceeeccchhhccCchhhhc-cCCcHhHhcC
Confidence 59999955 66543322 2345566666
No 144
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=48.95 E-value=9.6 Score=28.41 Aligned_cols=30 Identities=33% Similarity=0.851 Sum_probs=21.9
Q ss_pred eEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 14 YICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 14 ~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
-+.|.+|.. |.-|..+.+ .+.++|.||.|.
T Consensus 192 alIC~~C~h--hngl~~~~e---k~~~efiC~~Cn 221 (251)
T COG5415 192 ALICPQCHH--HNGLYRLAE---KPIIEFICPHCN 221 (251)
T ss_pred hhccccccc--ccccccccc---ccchheecccch
Confidence 467888863 778886653 345589999998
No 145
>COG3609 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]
Probab=48.78 E-value=41 Score=21.36 Aligned_cols=32 Identities=25% Similarity=0.316 Sum_probs=25.8
Q ss_pred HHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhh
Q psy5115 106 LKTIELRIAQQRYKKLSEFIGDMTKIFDNCRY 137 (171)
Q Consensus 106 l~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~ 137 (171)
...|...++.|.|.|..+++++....+.--..
T Consensus 14 ~~~i~~lV~~G~y~s~SeviR~alr~l~~~~~ 45 (89)
T COG3609 14 VEFIDELVESGRYKSRSEVIRAALRLLLEKRV 45 (89)
T ss_pred HHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHH
Confidence 46788999999999999999987776655443
No 146
>COG4575 ElaB Uncharacterized conserved protein [Function unknown]
Probab=48.41 E-value=77 Score=20.89 Aligned_cols=50 Identities=14% Similarity=0.200 Sum_probs=42.0
Q ss_pred HHHHHHHHHHHHHHHhh-hCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q psy5115 121 LSEFIGDMTKIFDNCRY-YNPRESPFFKHAHQLEMFFVQKVKILREKLVEL 170 (171)
Q Consensus 121 ~~~f~~Dv~li~~Na~~-yn~~~s~~~~~a~~l~~~f~~~~~~~~~~~~~~ 170 (171)
+++..+|++.+..++-. +-..++.-...+..|+...+..+++.+..+.+.
T Consensus 10 ~~~l~~el~~L~d~lEevL~ssg~~a~~e~~~lR~r~~~~Lk~~r~rl~~~ 60 (104)
T COG4575 10 IDQLLAELQELLDTLEEVLKSSGSLAGDEAEELRSKAESALKEARDRLGDT 60 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcccchhhHHHHHHHHHHHHHHHHHHHHHhh
Confidence 37888999999999874 556778888999999999999999999887653
No 147
>PHA02929 N1R/p28-like protein; Provisional
Probab=48.25 E-value=5.2 Score=30.49 Aligned_cols=29 Identities=24% Similarity=0.698 Sum_probs=20.4
Q ss_pred ecCCCCceecccccCccccCcCCCCCCCCCccCC
Q psy5115 16 CCDTCQDWFHGRCVGILQSEADNIDEYICPNCNN 49 (171)
Q Consensus 16 ~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~~ 49 (171)
.=..|...||..|+..-.. ..-.||.|+.
T Consensus 196 vl~~C~H~FC~~CI~~Wl~-----~~~tCPlCR~ 224 (238)
T PHA02929 196 ILSNCNHVFCIECIDIWKK-----EKNTCPVCRT 224 (238)
T ss_pred ecCCCCCcccHHHHHHHHh-----cCCCCCCCCC
Confidence 3458999999999844211 1348999984
No 148
>KOG4628|consensus
Probab=47.31 E-value=20 Score=28.92 Aligned_cols=42 Identities=17% Similarity=0.332 Sum_probs=25.7
Q ss_pred cccccCCCceeEecCCCCceecccccCccccCcCCCCCCCCCccCCC
Q psy5115 4 HTLAVIEPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNNS 50 (171)
Q Consensus 4 ~~~~~~~~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~~~ 50 (171)
|---|..|+.+.. =-|..-||..|+..=-... .-.||.|+..
T Consensus 235 ClEdY~~GdklRi-LPC~H~FH~~CIDpWL~~~----r~~CPvCK~d 276 (348)
T KOG4628|consen 235 CLEDYEKGDKLRI-LPCSHKFHVNCIDPWLTQT----RTFCPVCKRD 276 (348)
T ss_pred eecccccCCeeeE-ecCCCchhhccchhhHhhc----CccCCCCCCc
Confidence 3333444444444 5789999999995422211 2479999953
No 149
>PF08772 NOB1_Zn_bind: Nin one binding (NOB1) Zn-ribbon like; InterPro: IPR014881 This entry corresponds to a zinc ribbon and is found on the RNA binding protein NOB1. ; PDB: 2CON_A.
Probab=46.62 E-value=22 Score=21.82 Aligned_cols=27 Identities=22% Similarity=0.802 Sum_probs=12.0
Q ss_pred eeEecCCCCceecccccCccccCcCCCCCCCCCccCCCC
Q psy5115 13 FYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNNSS 51 (171)
Q Consensus 13 ~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~~~~ 51 (171)
.++.|..|..... +....+||.|.+..
T Consensus 8 ~vlrC~aCf~~t~------------~~~k~FCp~CGn~T 34 (73)
T PF08772_consen 8 WVLRCHACFKITK------------DMTKQFCPKCGNAT 34 (73)
T ss_dssp EEEE-SSS--EES-------------SS--S-SSS--S-
T ss_pred eeEEccccccCcC------------CCCceeCcccCCCc
Confidence 4677888877643 34468999999543
No 150
>PF03966 Trm112p: Trm112p-like protein; InterPro: IPR005651 This family of short proteins have no known function. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The function of this family is uncertain. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The entry contains 2 families: Trm112, which is required for tRNA methylation in Saccharomyces cerevisiae (Baker's yeast) and is found in complexes with 2 tRNA methylases (TRM9 and TRM11) also with putative methyltransferase YDR140W []. The zinc-finger protein Ynr046w is plurifunctional and a component of the eRF1 methyltransferase in yeast []. The crystal structure of Ynr046w has been determined to 1.7 A resolution. It comprises a zinc-binding domain built from both the N- and C-terminal sequences and an inserted domain, absent from bacterial and archaeal orthologs of the protein, composed of three alpha-helices []. UPF0434, which are proteins that are functionally uncharacterised. ; PDB: 3Q87_A 2KPI_A 2K5R_A 2HF1_A 2JS4_A 2J6A_A 2JR6_A 2PK7_A 2JNY_A.
Probab=46.48 E-value=13 Score=22.20 Aligned_cols=11 Identities=18% Similarity=0.628 Sum_probs=10.1
Q ss_pred eEecCCCCcee
Q psy5115 14 YICCDTCQDWF 24 (171)
Q Consensus 14 ~i~C~~C~r~~ 24 (171)
.+.|..|.|||
T Consensus 53 ~L~Cp~c~r~Y 63 (68)
T PF03966_consen 53 ELICPECGREY 63 (68)
T ss_dssp EEEETTTTEEE
T ss_pred EEEcCCCCCEE
Confidence 78899999998
No 151
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=46.24 E-value=9.8 Score=32.17 Aligned_cols=16 Identities=31% Similarity=0.777 Sum_probs=8.2
Q ss_pred eEecCCCCceeccccc
Q psy5115 14 YICCDTCQDWFHGRCV 29 (171)
Q Consensus 14 ~i~C~~C~r~~H~~C~ 29 (171)
+..|..|...-+..|+
T Consensus 5 L~fC~~C~~irc~~c~ 20 (483)
T PF05502_consen 5 LYFCEHCHKIRCPRCV 20 (483)
T ss_pred ceecccccccCChhhc
Confidence 4556656544444444
No 152
>KOG1493|consensus
Probab=46.00 E-value=1.5 Score=27.17 Aligned_cols=29 Identities=24% Similarity=0.545 Sum_probs=17.9
Q ss_pred CCCceecccccCccccCcCCCCCCCCCccCC
Q psy5115 19 TCQDWFHGRCVGILQSEADNIDEYICPNCNN 49 (171)
Q Consensus 19 ~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~~ 49 (171)
.|...||..|+-.- .......-.||.|++
T Consensus 50 ~C~h~fh~hCI~~w--l~~~tsq~~CPmcRq 78 (84)
T KOG1493|consen 50 YCLHAFHAHCILKW--LNTPTSQGQCPMCRQ 78 (84)
T ss_pred HHHHHHHHHHHHHH--hcCccccccCCcchh
Confidence 44567999997211 112334579999984
No 153
>PRK10991 fucI L-fucose isomerase; Provisional
Probab=45.99 E-value=32 Score=29.73 Aligned_cols=45 Identities=22% Similarity=0.331 Sum_probs=38.5
Q ss_pred CCCccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhh
Q psy5115 92 EAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRY 137 (171)
Q Consensus 92 ~~p~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~ 137 (171)
.+..|.-+--.++|+..|.+|++.+.|.. ++|...+.++-.|+..
T Consensus 194 ~l~~~fGI~ve~VDmsEIirR~~~~~~d~-eE~e~al~wlk~~~~~ 238 (588)
T PRK10991 194 FFESYLGMRVEAVDMTELRRRIDQKIYDE-EELEMALAWAKKNCKE 238 (588)
T ss_pred HHHHHhCCEEEEeCHHHHHHHHHhccCCH-HHHHHHHHHHHHhccc
Confidence 44567777778999999999999999988 5999999999999864
No 154
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=45.25 E-value=17 Score=25.91 Aligned_cols=44 Identities=18% Similarity=0.285 Sum_probs=28.2
Q ss_pred CccccccCCCceeE---ecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 2 KFHTLAVIEPKFYI---CCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 2 ~~~~~~~~~~~~~i---~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
+.|+-|+++++.+. .|.|=..|.|..|+..= .+.++...|+.|.
T Consensus 9 ~~CRIC~~~~~~~~~PC~CkGs~k~VH~sCL~rW---i~~s~~~~CeiC~ 55 (162)
T PHA02825 9 KCCWICKDEYDVVTNYCNCKNENKIVHKECLEEW---INTSKNKSCKICN 55 (162)
T ss_pred CeeEecCCCCCCccCCcccCCCchHHHHHHHHHH---HhcCCCCcccccC
Confidence 35666676665433 35566789999997321 1123467899998
No 155
>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=45.02 E-value=6 Score=26.56 Aligned_cols=30 Identities=17% Similarity=0.484 Sum_probs=24.1
Q ss_pred EecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 15 ICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 15 i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
..|..|.+.+...|-... .....|.|..|.
T Consensus 72 ~~C~~C~~~VC~~C~~~~----~~~~~WlC~vC~ 101 (118)
T PF02318_consen 72 RVCVDCKHRVCKKCGVYS----KKEPIWLCKVCQ 101 (118)
T ss_dssp EEETTTTEEEETTSEEET----SSSCCEEEHHHH
T ss_pred CcCCcCCccccCccCCcC----CCCCCEEChhhH
Confidence 789999999999998552 234479999996
No 156
>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=45.01 E-value=23 Score=20.06 Aligned_cols=18 Identities=28% Similarity=0.617 Sum_probs=9.3
Q ss_pred CCCccCCCCcccccccCCChhHHHHHH
Q psy5115 43 ICPNCNNSSSNLANMKNLTPRDFESLR 69 (171)
Q Consensus 43 ~Cp~C~~~~~~~~~~~~l~~~~~~~~~ 69 (171)
.||.|+ ++|+++....+.
T Consensus 22 ~CPlC~---------r~l~~e~~~~li 39 (54)
T PF04423_consen 22 CCPLCG---------RPLDEEHRQELI 39 (54)
T ss_dssp E-TTT-----------EE-HHHHHHHH
T ss_pred cCCCCC---------CCCCHHHHHHHH
Confidence 899998 566666654433
No 157
>PF11860 DUF3380: Protein of unknown function (DUF3380); InterPro: IPR024408 Proteins in this entry including lysozyme from Enterobacteria phage PRD1 [, ].
Probab=44.81 E-value=90 Score=22.66 Aligned_cols=48 Identities=21% Similarity=0.211 Sum_probs=28.2
Q ss_pred HHHHhcCCCCCHHHHHHHHH------------HHHHH---------------HhhhCCCCCHHHHHHHHHHHHHH
Q psy5115 110 ELRIAQQRYKKLSEFIGDMT------------KIFDN---------------CRYYNPRESPFFKHAHQLEMFFV 157 (171)
Q Consensus 110 ~~kl~~~~Y~s~~~f~~Dv~------------li~~N---------------a~~yn~~~s~~~~~a~~l~~~f~ 157 (171)
--.-+.-.|.|+++|+.++. .|-.| |+.|||++-.......+|...+.
T Consensus 98 Gfn~~~~Gy~sv~~fv~am~~se~~Ql~af~~Fi~~~~~L~~aLr~~dW~~fAr~YNGp~y~~n~Yd~kl~~ay~ 172 (175)
T PF11860_consen 98 GFNWKALGYASVEEFVEAMCESEAAQLDAFVRFIKANPALLKALRAKDWAAFARGYNGPGYAKNQYDTKLARAYA 172 (175)
T ss_pred HHHHHHcCCCCHHHHHHHHHhCHHHHHHHHHHHHHcCHHHHHHHHhCCHHHHHHHcCCchhhhccHHHHHHHHHH
Confidence 33444556888888888665 11111 56788877555455555555544
No 158
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=44.61 E-value=15 Score=28.94 Aligned_cols=31 Identities=16% Similarity=0.528 Sum_probs=21.4
Q ss_pred CCceeEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 10 EPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 10 ~~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
.++.|+.|+.|...++.+=. ....+.||.|.
T Consensus 34 p~~lw~kc~~C~~~~~~~~l--------~~~~~vcp~c~ 64 (296)
T CHL00174 34 YKHLWVQCENCYGLNYKKFL--------KSKMNICEQCG 64 (296)
T ss_pred CCCCeeECCCccchhhHHHH--------HHcCCCCCCCC
Confidence 45679999999876554322 12258999997
No 159
>PF10058 DUF2296: Predicted integral membrane metal-binding protein (DUF2296); InterPro: IPR019273 This domain, found mainly in the eukaryotic lunapark proteins, has no known function [].
Probab=44.26 E-value=17 Score=20.88 Aligned_cols=31 Identities=26% Similarity=0.633 Sum_probs=19.6
Q ss_pred eeEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 13 FYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 13 ~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
..+.|..|.. |.=.+. .+....-.|.||.|.
T Consensus 21 ~aLIC~~C~~--hNGla~---~~~~~~i~y~C~~Cg 51 (54)
T PF10058_consen 21 YALICSKCFS--HNGLAP---KEEFEEIQYRCPYCG 51 (54)
T ss_pred eeEECcccch--hhcccc---cccCCceEEEcCCCC
Confidence 3667888875 554543 222234489999996
No 160
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=44.20 E-value=21 Score=18.58 Aligned_cols=15 Identities=20% Similarity=0.439 Sum_probs=12.1
Q ss_pred CceeEecCCCCceec
Q psy5115 11 PKFYICCDTCQDWFH 25 (171)
Q Consensus 11 ~~~~i~C~~C~r~~H 25 (171)
+|-.+.|..|...|+
T Consensus 22 ~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 22 GGRKVRCPKCGHVFR 36 (37)
T ss_pred CCcEEECCCCCcEee
Confidence 445899999998875
No 161
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=43.78 E-value=6.5 Score=21.26 Aligned_cols=39 Identities=21% Similarity=0.357 Sum_probs=24.0
Q ss_pred cccccCCCceeEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 4 HTLAVIEPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 4 ~~~~~~~~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
|...|+++.. ..=-.|+.+|...|+.... ...-.||.|+
T Consensus 5 C~~~~~~~~~-~~l~~CgH~~C~~C~~~~~-----~~~~~CP~C~ 43 (44)
T PF14634_consen 5 CFEKYSEERR-PRLTSCGHIFCEKCLKKLK-----GKSVKCPICR 43 (44)
T ss_pred cCccccCCCC-eEEcccCCHHHHHHHHhhc-----CCCCCCcCCC
Confidence 5555532221 2224778899999985433 3457999996
No 162
>KOG1734|consensus
Probab=43.37 E-value=17 Score=28.26 Aligned_cols=27 Identities=26% Similarity=0.586 Sum_probs=19.2
Q ss_pred CCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 19 TCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 19 ~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
.|..+||..|+.-=.- ..++-+||.|+
T Consensus 251 sCnHvFHEfCIrGWci---vGKkqtCPYCK 277 (328)
T KOG1734|consen 251 SCNHVFHEFCIRGWCI---VGKKQTCPYCK 277 (328)
T ss_pred ecccchHHHhhhhhee---ecCCCCCchHH
Confidence 5899999999743211 23356999998
No 163
>PRK04338 N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional
Probab=42.77 E-value=57 Score=26.71 Aligned_cols=18 Identities=6% Similarity=0.139 Sum_probs=13.8
Q ss_pred CCCCHHHHHHHHhcCCCC
Q psy5115 102 EPMDLKTIELRIAQQRYK 119 (171)
Q Consensus 102 ~Pmdl~~I~~kl~~~~Y~ 119 (171)
.|..+..|...|++..|.
T Consensus 336 ~~p~~~~~~~~L~~~Gy~ 353 (382)
T PRK04338 336 SAPPMDEILEALREAGFE 353 (382)
T ss_pred CCCCHHHHHHHHHHCCCe
Confidence 466788888888887774
No 164
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=42.64 E-value=14 Score=17.56 Aligned_cols=9 Identities=44% Similarity=1.501 Sum_probs=5.5
Q ss_pred cCCCCceec
Q psy5115 17 CDTCQDWFH 25 (171)
Q Consensus 17 C~~C~r~~H 25 (171)
|+.|+++|-
T Consensus 4 C~~C~k~f~ 12 (27)
T PF12171_consen 4 CDACDKYFS 12 (27)
T ss_dssp BTTTTBBBS
T ss_pred cccCCCCcC
Confidence 666666653
No 165
>PF07215 DUF1419: Protein of unknown function (DUF1419); InterPro: IPR009862 This family consists of several bacterial proteins of around 110 residues in length. Members of this family seem to be specific to Agrobacterium species and to Rhizobium loti (Mesorhizobium loti). The function of this family is unknown.
Probab=42.40 E-value=19 Score=23.85 Aligned_cols=16 Identities=31% Similarity=0.517 Sum_probs=13.4
Q ss_pred EecCCCCceecccccC
Q psy5115 15 ICCDTCQDWFHGRCVG 30 (171)
Q Consensus 15 i~C~~C~r~~H~~C~~ 30 (171)
+.=|++.||||+.|.-
T Consensus 87 l~Idg~~R~FhgyCDL 102 (111)
T PF07215_consen 87 LRIDGRIRYFHGYCDL 102 (111)
T ss_pred EEECCceeEEEEeeec
Confidence 4458999999999973
No 166
>PF07882 Fucose_iso_N2: L-fucose isomerase, second N-terminal domain; InterPro: IPR012889 Proteins containing this domain are similar to L-fucose isomerase expressed by Escherichia coli (P11552 from SWISSPROT, 5.3.1.3 from EC). This enzyme corresponds to glucose-6-phosphate isomerase in glycolysis, and converts an aldo-hexose to a ketose to prepare it for aldol cleavage. The enzyme is a hexamer, with each subunit being wedge-shaped and composed of three domains. Both domains 1 and 2 contain central parallel beta- sheets with surrounding alpha helices. The active centre is shared between pairs of subunits related along the molecular three-fold axis, with domains 2 and 3 from one subunit providing most of the substrate-contacting residues []. ; GO: 0008736 L-fucose isomerase activity, 0006004 fucose metabolic process, 0005737 cytoplasm; PDB: 3A9R_A 3A9T_C 3A9S_C 1FUI_E.
Probab=42.25 E-value=5.6 Score=28.80 Aligned_cols=49 Identities=20% Similarity=0.395 Sum_probs=34.0
Q ss_pred ccccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCCCH
Q psy5115 95 DYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESP 144 (171)
Q Consensus 95 ~Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~s~ 144 (171)
.|.-+=..-+|...|.+|++.+-|.. ++|.+-+.++-.||..|.+.+.+
T Consensus 25 ~ylGmr~E~VD~~Ei~RR~e~~iyD~-~E~e~A~~W~~~~~~~g~d~npe 73 (181)
T PF07882_consen 25 EYLGMRVEYVDMSEIIRRMEEGIYDE-EEFEKALAWVKENCKEGDDKNPE 73 (181)
T ss_dssp HCT--EEEEE-THHHHHHHHCT-S-H-HHHHHHHHHHHHHSEE---TSTG
T ss_pred HHhCCCceeecHHHHHHHHHccCCCH-HHHHHHHHHHHHhCCcCCCCCch
Confidence 44444455689999999999999976 79999999999999988775544
No 167
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=41.89 E-value=15 Score=17.16 Aligned_cols=10 Identities=40% Similarity=0.913 Sum_probs=6.5
Q ss_pred ecCCCCceec
Q psy5115 16 CCDTCQDWFH 25 (171)
Q Consensus 16 ~C~~C~r~~H 25 (171)
.|+.|.+.|.
T Consensus 3 ~C~~C~~~F~ 12 (27)
T PF13912_consen 3 ECDECGKTFS 12 (27)
T ss_dssp EETTTTEEES
T ss_pred CCCccCCccC
Confidence 5667766664
No 168
>KOG1246|consensus
Probab=40.37 E-value=27 Score=31.96 Aligned_cols=44 Identities=25% Similarity=0.561 Sum_probs=31.7
Q ss_pred cccccCCCceeEecCCCCceecccccCccccCcCCCCCCCCCccCCC
Q psy5115 4 HTLAVIEPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNNS 50 (171)
Q Consensus 4 ~~~~~~~~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~~~ 50 (171)
|.+..+. ... .|++|...+|..|..+... ......|.|+.|..+
T Consensus 161 ~~k~~~~-~~~-~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~ 204 (904)
T KOG1246|consen 161 CSKGKEE-KLL-LCDSCDDSYHTYCLRPPLT-RVPDGDWRCPKCIPT 204 (904)
T ss_pred cccCCCc-cce-ecccccCcccccccCCCCC-cCCcCcccCCccccc
Confidence 4444444 334 9999999999999976544 345667889999843
No 169
>PF08134 cIII: cIII protein family; InterPro: IPR012995 This family consists of the CIII family of regulatory proteins. The lambda CIII protein has 54 amino acids and it forms an amphipathic helix within its amino acid sequence. Lambda CIII stabilises the lambda CII protein and the host sigma factor 32, responsible for transcribing genes of the heat shock regulon [].
Probab=40.01 E-value=61 Score=17.33 Aligned_cols=23 Identities=26% Similarity=0.251 Sum_probs=11.4
Q ss_pred hhCCCCCHHHHHHHHHHHHHHHH
Q psy5115 137 YYNPRESPFFKHAHQLEMFFVQK 159 (171)
Q Consensus 137 ~yn~~~s~~~~~a~~l~~~f~~~ 159 (171)
.|++..|++.+-.++|-....+.
T Consensus 14 AyYP~ESELskr~rrLIRaa~k~ 36 (44)
T PF08134_consen 14 AYYPTESELSKRIRRLIRAARKQ 36 (44)
T ss_pred eecCcHHHHHHHHHHHHHHHHHH
Confidence 35666665555544444443333
No 170
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=39.99 E-value=5.8 Score=28.07 Aligned_cols=73 Identities=16% Similarity=0.336 Sum_probs=37.2
Q ss_pred ccccccCCCceeEecCCCCceeccccc--CccccCcCCCCCCCCCccCCC-Cccc----------ccccCCChhHHHHHH
Q psy5115 3 FHTLAVIEPKFYICCDTCQDWFHGRCV--GILQSEADNIDEYICPNCNNS-SSNL----------ANMKNLTPRDFESLR 69 (171)
Q Consensus 3 ~~~~~~~~~~~~i~C~~C~r~~H~~C~--~~~~~~~~~~~~~~Cp~C~~~-~~~~----------~~~~~l~~~~~~~~~ 69 (171)
||++|.. .....|..|.--.-+.=+ |............+|..|... +... ....+|++++.+.+.
T Consensus 30 fC~kCG~--~tI~~Cp~C~~~IrG~y~v~gv~~~g~~~~~PsYC~~CGkpyPWt~~~L~aa~el~ee~eeLs~deke~~~ 107 (158)
T PF10083_consen 30 FCSKCGA--KTITSCPNCSTPIRGDYHVEGVFGLGGHYEAPSYCHNCGKPYPWTENALEAANELIEEDEELSPDEKEQFK 107 (158)
T ss_pred HHHHhhH--HHHHHCcCCCCCCCCceecCCeeeeCCCCCCChhHHhCCCCCchHHHHHHHHHHHHHHhhcCCHHHHHHHH
Confidence 5666533 235668777533222211 111111223456899999842 1111 113466777777777
Q ss_pred HHHHHHHh
Q psy5115 70 KLMKQIQA 77 (171)
Q Consensus 70 ~~l~~l~~ 77 (171)
.-+..|..
T Consensus 108 ~sl~dL~~ 115 (158)
T PF10083_consen 108 ESLPDLTK 115 (158)
T ss_pred hhhHHHhh
Confidence 66666654
No 171
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=39.73 E-value=16 Score=16.27 Aligned_cols=8 Identities=38% Similarity=1.036 Sum_probs=3.8
Q ss_pred cCCCCcee
Q psy5115 17 CDTCQDWF 24 (171)
Q Consensus 17 C~~C~r~~ 24 (171)
|+.|++.|
T Consensus 3 C~~C~~~f 10 (23)
T PF00096_consen 3 CPICGKSF 10 (23)
T ss_dssp ETTTTEEE
T ss_pred CCCCCCcc
Confidence 44554444
No 172
>PF05207 zf-CSL: CSL zinc finger; InterPro: IPR007872 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 probable zinc binding motif that contains four cysteines and may chelate zinc, known as the DPH-type after the diphthamide (DPH) biosynthesis protein in which it was first characterised, including the proteins DPH3 and DPH4. This domain is also found associated with N-terminal domain of heat shock protein DnaJ IPR001623 from INTERPRO domain. Diphthamide is a unique post-translationally modified histidine residue found only in translation elongation factor 2 (eEF-2). It is conserved from archaea to humans and serves as the target for diphteria toxin and Pseudomonas exotoxin A. These two toxins catalyse the transfer of ADP-ribose to diphtamide on eEF-2, thus inactivating eEF-2, halting cellular protein synthesis, and causing cell death []. The biosynthesis of diphtamide is dependent on at least five proteins, DPH1 to -5, and a still unidentified amidating enzyme. DPH3 and DPH4 share a conserved region, which encode a putative zinc finger, the DPH-type or CSL-type (after the conserved motif of the final cysteine) zinc finger [, ]. The function of this motif is unknown. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2L6L_A 1WGE_A 2JR7_A 1YOP_A 1YWS_A.
Probab=39.00 E-value=18 Score=20.76 Aligned_cols=14 Identities=29% Similarity=1.011 Sum_probs=10.6
Q ss_pred ceeEecCCCCceec
Q psy5115 12 KFYICCDTCQDWFH 25 (171)
Q Consensus 12 ~~~i~C~~C~r~~H 25 (171)
..+|+|+.|.-|.+
T Consensus 38 ~~iv~C~sCSL~I~ 51 (55)
T PF05207_consen 38 EVIVQCDSCSLWIR 51 (55)
T ss_dssp --EEEETTTTEEEE
T ss_pred CEEEECCCCccEEE
Confidence 45899999998875
No 173
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=38.84 E-value=36 Score=19.39 Aligned_cols=20 Identities=25% Similarity=0.311 Sum_probs=14.4
Q ss_pred CceeEecCCCCceecccccC
Q psy5115 11 PKFYICCDTCQDWFHGRCVG 30 (171)
Q Consensus 11 ~~~~i~C~~C~r~~H~~C~~ 30 (171)
+...+.|..|...|...|..
T Consensus 37 ~~~~v~C~~C~~~fC~~C~~ 56 (64)
T smart00647 37 GCNRVTCPKCGFSFCFRCKV 56 (64)
T ss_pred CCCeeECCCCCCeECCCCCC
Confidence 44578888888887777763
No 174
>KOG2114|consensus
Probab=38.65 E-value=10 Score=33.98 Aligned_cols=23 Identities=30% Similarity=0.759 Sum_probs=17.9
Q ss_pred CCCceecccccCccccCcCCCCCCCCCccCC
Q psy5115 19 TCQDWFHGRCVGILQSEADNIDEYICPNCNN 49 (171)
Q Consensus 19 ~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~~ 49 (171)
.|...||..|+. .++..||.|..
T Consensus 858 ~CgHsyHqhC~e--------~~~~~CP~C~~ 880 (933)
T KOG2114|consen 858 LCGHSYHQHCLE--------DKEDKCPKCLP 880 (933)
T ss_pred ecccHHHHHhhc--------cCcccCCccch
Confidence 468999999996 22468999984
No 175
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=38.43 E-value=19 Score=15.75 Aligned_cols=6 Identities=33% Similarity=1.176 Sum_probs=1.6
Q ss_pred cCCCCc
Q psy5115 17 CDTCQD 22 (171)
Q Consensus 17 C~~C~r 22 (171)
|+.|+.
T Consensus 3 C~~C~~ 8 (24)
T PF13894_consen 3 CPICGK 8 (24)
T ss_dssp -SSTS-
T ss_pred CcCCCC
Confidence 334433
No 176
>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=37.16 E-value=10 Score=19.77 Aligned_cols=29 Identities=21% Similarity=0.431 Sum_probs=19.1
Q ss_pred ecCCCCceecccccCccccCcCCCCCCCCCcc
Q psy5115 16 CCDTCQDWFHGRCVGILQSEADNIDEYICPNC 47 (171)
Q Consensus 16 ~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C 47 (171)
.=..|...|+..|+...-.. .+...||.|
T Consensus 13 ~~~~C~H~fC~~C~~~~~~~---~~~~~CP~C 41 (41)
T PF00097_consen 13 ILLPCGHSFCRDCLRKWLEN---SGSVKCPLC 41 (41)
T ss_dssp EETTTSEEEEHHHHHHHHHH---TSSSBTTTT
T ss_pred EEecCCCcchHHHHHHHHHh---cCCccCCcC
Confidence 45678889999997432221 345678887
No 177
>KOG2932|consensus
Probab=36.87 E-value=21 Score=28.41 Aligned_cols=21 Identities=29% Similarity=0.642 Sum_probs=14.4
Q ss_pred CceecccccCccccCcCCCCCCCCCccC
Q psy5115 21 QDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 21 ~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
..+|..+|..... .-.||.|.
T Consensus 110 kHvFCl~CAr~~~-------dK~Cp~C~ 130 (389)
T KOG2932|consen 110 KHVFCLECARSDS-------DKICPLCD 130 (389)
T ss_pred chhhhhhhhhcCc-------cccCcCcc
Confidence 4678888875432 24899997
No 178
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=36.58 E-value=23 Score=20.85 Aligned_cols=18 Identities=22% Similarity=0.331 Sum_probs=11.6
Q ss_pred cCCCceeEecCCCCceec
Q psy5115 8 VIEPKFYICCDTCQDWFH 25 (171)
Q Consensus 8 ~~~~~~~i~C~~C~r~~H 25 (171)
++.++..+-|..|.+||-
T Consensus 20 ~~~~~~~L~c~~~~~aYp 37 (60)
T COG2835 20 YDEEKQELICPRCKLAYP 37 (60)
T ss_pred EeccCCEEEecccCceee
Confidence 344555677777777774
No 179
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=36.46 E-value=44 Score=22.30 Aligned_cols=27 Identities=30% Similarity=0.708 Sum_probs=16.5
Q ss_pred eEecCCCCceecccccCccccCcCCCCCCCCCccCCCC
Q psy5115 14 YICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNNSS 51 (171)
Q Consensus 14 ~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~~~~ 51 (171)
.+.|..|...|... ...+.||.|....
T Consensus 70 ~~~C~~Cg~~~~~~-----------~~~~~CP~Cgs~~ 96 (115)
T TIGR00100 70 ECECEDCSEEVSPE-----------IDLYRCPKCHGIM 96 (115)
T ss_pred EEEcccCCCEEecC-----------CcCccCcCCcCCC
Confidence 45677777554321 1147899998544
No 180
>KOG3092|consensus
Probab=36.24 E-value=19 Score=26.54 Aligned_cols=31 Identities=19% Similarity=0.559 Sum_probs=22.1
Q ss_pred CCCceecc--cc--cCccccCcCCCCCCCCCccCC
Q psy5115 19 TCQDWFHG--RC--VGILQSEADNIDEYICPNCNN 49 (171)
Q Consensus 19 ~C~r~~H~--~C--~~~~~~~~~~~~~~~Cp~C~~ 49 (171)
.|+|+|.. .+ +|+++-.....-+-+||.|..
T Consensus 108 ~CPRV~C~~q~~LPvGLsDipg~~~VklYCP~C~d 142 (216)
T KOG3092|consen 108 RCPRVYCCGQPVLPVGLSDIPGKSTVKLYCPSCED 142 (216)
T ss_pred cCCcccccCCccccccccCCCCcceEEEeCCCccc
Confidence 69999875 33 355555555666789999994
No 181
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=35.98 E-value=33 Score=18.14 Aligned_cols=22 Identities=18% Similarity=0.422 Sum_probs=13.2
Q ss_pred ccccCCCce-eEecCCCCceecc
Q psy5115 5 TLAVIEPKF-YICCDTCQDWFHG 26 (171)
Q Consensus 5 ~~~~~~~~~-~i~C~~C~r~~H~ 26 (171)
..+...++. .+.|..|...|..
T Consensus 2 ~~C~~~~~l~~f~C~~C~~~FC~ 24 (39)
T smart00154 2 HFCRKKVGLTGFKCRHCGNLFCG 24 (39)
T ss_pred cccCCcccccCeECCccCCcccc
Confidence 344444454 5678888877644
No 182
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=35.48 E-value=36 Score=20.38 Aligned_cols=40 Identities=20% Similarity=0.418 Sum_probs=16.2
Q ss_pred ccccccCCCceeEecCCCCceecccccCccccCcCCCCCCCCCccCC
Q psy5115 3 FHTLAVIEPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNN 49 (171)
Q Consensus 3 ~~~~~~~~~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~~ 49 (171)
-|+.|.+-=..-|.=-+|...|...|++..- . .-||.|..
T Consensus 9 rCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~--~-----~~CPvC~~ 48 (65)
T PF14835_consen 9 RCSICFDILKEPVCLGGCEHIFCSSCIRDCI--G-----SECPVCHT 48 (65)
T ss_dssp S-SSS-S--SS-B---SSS--B-TTTGGGGT--T-----TB-SSS--
T ss_pred CCcHHHHHhcCCceeccCccHHHHHHhHHhc--C-----CCCCCcCC
Confidence 3555555544334435788899999995421 1 24999983
No 183
>cd08767 Cdt1_c The C-terminal fold of replication licensing factor Cdt1 is essential for Cdt1 activity and directly interacts with MCM2-7 helicase. Cdt1 is a replication licensing factor in eukaryotes that recruits the Minichromosome Maintenance Complex (MCM2-7) to the Origin Recognition Complex (ORC). The Cdt1 protein is divided into three regions based on sequence comparison and biochemical analyses: the N-terminal region (Cdt1_n) binds DNA in a sequence-, strand-, and conformation-independent manner; the middle winged helix fold (Cdt1_m) binds geminin to inhibit both binding of the MCM complex to origins of replication and DNA; and the C-terminal region (Cdt1_c) is essential for Cdt1 activity and directly interacts with the MCM2-7 helicase. Precise duplication of chromosomal DNA is required for genomic stability during replication. Assembly of replication factors to start DNA replication in eukaryotes must occur only once per cell cycle. To form a pre-replicative complex on replicat
Probab=35.32 E-value=74 Score=21.60 Aligned_cols=50 Identities=20% Similarity=0.427 Sum_probs=32.0
Q ss_pred cCCChhHHHHHHHHHHHHHhCcCCCCCccCCCCCCCCccccccCCCCCHHHHHHHHh
Q psy5115 58 KNLTPRDFESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIA 114 (171)
Q Consensus 58 ~~l~~~~~~~~~~~l~~l~~~~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~kl~ 114 (171)
..++..+......+|..+. ..|.=..++ .--+|..+++. .|+++|++||.
T Consensus 77 ~~~s~~E~E~~l~LL~el~---P~Wis~~~~---~~~~~lk~~k~-~~~~~V~~rL~ 126 (126)
T cd08767 77 SILSRGEVEEHLRLLAELA---PDWISEKSL---RKGDYLKIDKK-VDLEKVRKRLE 126 (126)
T ss_pred CCCCHHHHHHHHHHHHHhC---hHHheeeee---CCceEEEECcc-ccHHHHHHHhC
Confidence 3567777777777777654 122111111 23467777777 99999999984
No 184
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=34.54 E-value=11 Score=31.79 Aligned_cols=27 Identities=22% Similarity=0.551 Sum_probs=24.1
Q ss_pred ccccccCCCceeEecCCC------------Cceeccccc
Q psy5115 3 FHTLAVIEPKFYICCDTC------------QDWFHGRCV 29 (171)
Q Consensus 3 ~~~~~~~~~~~~i~C~~C------------~r~~H~~C~ 29 (171)
+|++|.-++-+.++|.-| +||-|..|.
T Consensus 236 lCrkCi~~~~~i~~C~fCps~dGaFkqT~dgrW~H~iCA 274 (669)
T COG5141 236 LCRKCIYGEYQIRCCSFCPSSDGAFKQTSDGRWGHVICA 274 (669)
T ss_pred hhhhhcccccceeEEEeccCCCCceeeccCCchHhHhHH
Confidence 689999999989999999 599999994
No 185
>KOG3277|consensus
Probab=34.06 E-value=26 Score=24.86 Aligned_cols=16 Identities=19% Similarity=0.370 Sum_probs=12.1
Q ss_pred cccCCCceeEecCCCC
Q psy5115 6 LAVIEPKFYICCDTCQ 21 (171)
Q Consensus 6 ~~~~~~~~~i~C~~C~ 21 (171)
..|..|--.|+|++|.
T Consensus 96 ~AY~~GvVivqC~gC~ 111 (165)
T KOG3277|consen 96 QAYEKGVVIVQCPGCK 111 (165)
T ss_pred hhhhCceEEEECCCCc
Confidence 3567777788899995
No 186
>PF14056 DUF4250: Domain of unknown function (DUF4250)
Probab=34.02 E-value=68 Score=18.53 Aligned_cols=24 Identities=25% Similarity=0.477 Sum_probs=19.5
Q ss_pred CCHHHHHHHHhcCCCCCHHHHHHHH
Q psy5115 104 MDLKTIELRIAQQRYKKLSEFIGDM 128 (171)
Q Consensus 104 mdl~~I~~kl~~~~Y~s~~~f~~Dv 128 (171)
|=|+.|-.||+. .|.|.+++..|.
T Consensus 7 mLlS~VN~kLRD-~~~sLd~Lc~~~ 30 (55)
T PF14056_consen 7 MLLSIVNMKLRD-EYSSLDELCYDY 30 (55)
T ss_pred HHHHHHHHHHHh-ccCCHHHHHHHh
Confidence 457888888877 899999998775
No 187
>KOG3005|consensus
Probab=33.97 E-value=15 Score=28.47 Aligned_cols=46 Identities=20% Similarity=0.335 Sum_probs=30.3
Q ss_pred cccccc-CCCceeEecC--CCCceecccccCccccCcC----CCCCCCCCccC
Q psy5115 3 FHTLAV-IEPKFYICCD--TCQDWFHGRCVGILQSEAD----NIDEYICPNCN 48 (171)
Q Consensus 3 ~~~~~~-~~~~~~i~C~--~C~r~~H~~C~~~~~~~~~----~~~~~~Cp~C~ 48 (171)
.|.+.+ ..+...+.|. .|....|..|.+....... -|-+-.||.|+
T Consensus 187 lc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~ 239 (276)
T KOG3005|consen 187 LCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCE 239 (276)
T ss_pred HHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchh
Confidence 356666 3444466676 8999999999866222221 24467899997
No 188
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=33.44 E-value=23 Score=16.52 Aligned_cols=9 Identities=33% Similarity=1.294 Sum_probs=7.4
Q ss_pred CCCCCCccC
Q psy5115 40 DEYICPNCN 48 (171)
Q Consensus 40 ~~~~Cp~C~ 48 (171)
+.|.|+.|.
T Consensus 1 g~W~C~~C~ 9 (26)
T smart00547 1 GDWECPACT 9 (26)
T ss_pred CcccCCCCC
Confidence 369999996
No 189
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=33.43 E-value=25 Score=16.56 Aligned_cols=11 Identities=27% Similarity=0.516 Sum_probs=7.1
Q ss_pred eEecCCCCcee
Q psy5115 14 YICCDTCQDWF 24 (171)
Q Consensus 14 ~i~C~~C~r~~ 24 (171)
...|+.|++.|
T Consensus 14 ~~~C~~C~k~F 24 (26)
T PF13465_consen 14 PYKCPYCGKSF 24 (26)
T ss_dssp SEEESSSSEEE
T ss_pred CCCCCCCcCee
Confidence 45677776665
No 190
>PF12411 Choline_sulf_C: Choline sulfatase enzyme C terminal
Probab=33.34 E-value=63 Score=18.60 Aligned_cols=35 Identities=26% Similarity=0.531 Sum_probs=23.0
Q ss_pred HHHHhC-cCCCCCccCCCCCCCCccccccCCCCCHHHHHHH
Q psy5115 73 KQIQAH-KSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELR 112 (171)
Q Consensus 73 ~~l~~~-~~~~~F~~pv~~~~~p~Y~~~i~~Pmdl~~I~~k 112 (171)
..|... ..+|.|..+.+.. ...|.+.|||..++.+
T Consensus 16 ~AL~~G~~~~WDyqP~~das-----~~YvRnh~~Ld~lE~~ 51 (54)
T PF12411_consen 16 SALKQGRFTSWDYQPPQDAS-----QRYVRNHMDLDDLERR 51 (54)
T ss_pred HHHHcCCCCCCCCCCCcCcH-----HHHHHcCCCHHHHHHH
Confidence 444433 3566666655443 3679999999998765
No 191
>KOG0827|consensus
Probab=32.36 E-value=11 Score=30.72 Aligned_cols=39 Identities=21% Similarity=0.309 Sum_probs=24.5
Q ss_pred cCCCceeEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 8 VIEPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 8 ~~~~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
++....+-.=..|+..||..|+-.- ++-.|..-.||.|+
T Consensus 14 ~p~~~~l~~i~~cGhifh~~cl~qw--fe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 14 RPNDHELGPIGTCGHIFHTTCLTQW--FEGDPSNRGCPICQ 52 (465)
T ss_pred CccccccccccchhhHHHHHHHHHH--HccCCccCCCCcee
Confidence 3334445555679999999998432 22222224899998
No 192
>KOG1814|consensus
Probab=32.09 E-value=11 Score=30.89 Aligned_cols=22 Identities=18% Similarity=0.297 Sum_probs=19.1
Q ss_pred cCCCceeEecCCCCceeccccc
Q psy5115 8 VIEPKFYICCDTCQDWFHGRCV 29 (171)
Q Consensus 8 ~~~~~~~i~C~~C~r~~H~~C~ 29 (171)
-|.+..|+.|.+|.-+|...|.
T Consensus 287 ~d~~~~l~~CskCnFaFCtlCk 308 (445)
T KOG1814|consen 287 QDPGRALAICSKCNFAFCTLCK 308 (445)
T ss_pred cCchhhhhhhccCccHHHHHHH
Confidence 5667779999999999999994
No 193
>PF05715 zf-piccolo: Piccolo Zn-finger; InterPro: IPR008899 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This (predicted) zinc finger is found in the bassoon and piccolo proteins, both of which are components of the presynaptic cytoskeletal matrix (PCM) assembled at the active zone of neurotransmitter release, where Piccolo plays a role in the trafficking of synaptic vesicles (SVs) [, , ]. The Piccolo zinc fingers were found to interact with the dual prenylated rab3A and VAMP2/Synaptobrevin II receptor PRA1. There are eight conserved cysteines in Piccolo-type zinc fingers, suggesting that they coordinates two zinc ligands. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding, 0045202 synapse
Probab=31.82 E-value=13 Score=21.78 Aligned_cols=34 Identities=24% Similarity=0.657 Sum_probs=22.6
Q ss_pred eEecCCCCceeccccc-CccccCcCCCCCCCCCccC
Q psy5115 14 YICCDTCQDWFHGRCV-GILQSEADNIDEYICPNCN 48 (171)
Q Consensus 14 ~i~C~~C~r~~H~~C~-~~~~~~~~~~~~~~Cp~C~ 48 (171)
.-.|..|..-...-|- .+.+- ..+..+|+|-.|+
T Consensus 22 yntCT~Ck~~VCnlCGFNP~Ph-l~E~~eWLCLnCQ 56 (61)
T PF05715_consen 22 YNTCTECKSQVCNLCGFNPTPH-LTEVKEWLCLNCQ 56 (61)
T ss_pred ccHHHHHhhhhhcccCCCCCcc-ccccceeeeecch
Confidence 5568888877777775 22222 2245689999997
No 194
>KOG3970|consensus
Probab=31.29 E-value=27 Score=26.44 Aligned_cols=31 Identities=26% Similarity=0.686 Sum_probs=21.1
Q ss_pred CCCceecccccCccccC---cCCCCCCCCCccCC
Q psy5115 19 TCQDWFHGRCVGILQSE---ADNIDEYICPNCNN 49 (171)
Q Consensus 19 ~C~r~~H~~C~~~~~~~---~~~~~~~~Cp~C~~ 49 (171)
.|...||..|....... .--+..|.||-|..
T Consensus 69 vCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~ 102 (299)
T KOG3970|consen 69 VCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQ 102 (299)
T ss_pred hhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCC
Confidence 57899999997432221 11356799999973
No 195
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=30.98 E-value=12 Score=28.86 Aligned_cols=39 Identities=28% Similarity=0.596 Sum_probs=25.2
Q ss_pred cccCCCceeEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 6 LAVIEPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 6 ~~~~~~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
-|.+... ...|..|+.+|...|+-+.-.... .=+||.|+
T Consensus 220 lC~e~~~-~ps~t~CgHlFC~~Cl~~~~t~~k---~~~CplCR 258 (271)
T COG5574 220 LCLEEPE-VPSCTPCGHLFCLSCLLISWTKKK---YEFCPLCR 258 (271)
T ss_pred eeecccC-CcccccccchhhHHHHHHHHHhhc---cccCchhh
Confidence 3344433 556889999999999855322111 12599998
No 196
>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 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 RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....
Probab=30.84 E-value=16 Score=17.89 Aligned_cols=10 Identities=30% Similarity=1.135 Sum_probs=8.2
Q ss_pred CCCCCCCccC
Q psy5115 39 IDEYICPNCN 48 (171)
Q Consensus 39 ~~~~~Cp~C~ 48 (171)
.+.|.|+.|.
T Consensus 2 ~g~W~C~~C~ 11 (30)
T PF00641_consen 2 EGDWKCPSCT 11 (30)
T ss_dssp SSSEEETTTT
T ss_pred CcCccCCCCc
Confidence 3579999997
No 197
>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=30.60 E-value=34 Score=16.18 Aligned_cols=10 Identities=40% Similarity=1.102 Sum_probs=8.1
Q ss_pred CCCCCCCccC
Q psy5115 39 IDEYICPNCN 48 (171)
Q Consensus 39 ~~~~~Cp~C~ 48 (171)
...|.||.|.
T Consensus 14 ~v~f~CPnCG 23 (24)
T PF07754_consen 14 AVPFPCPNCG 23 (24)
T ss_pred CceEeCCCCC
Confidence 4579999995
No 198
>PF14225 MOR2-PAG1_C: Cell morphogenesis C-terminal
Probab=30.56 E-value=1.1e+02 Score=23.79 Aligned_cols=33 Identities=15% Similarity=0.308 Sum_probs=29.8
Q ss_pred CCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHh
Q psy5115 104 MDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCR 136 (171)
Q Consensus 104 mdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~ 136 (171)
-+|..|-....+|.|++.++|.+.+-.-++++.
T Consensus 149 ~~La~il~~ya~~~fr~~~dfl~~v~~~l~~~f 181 (262)
T PF14225_consen 149 PNLARILSSYAKGRFRDKDDFLSQVVSYLREAF 181 (262)
T ss_pred ccHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHh
Confidence 489999999999999999999999988888765
No 199
>COG5041 SKB2 Casein kinase II, beta subunit [Signal transduction mechanisms / Cell division and chromosome partitioning / Transcription]
Probab=30.06 E-value=27 Score=26.05 Aligned_cols=30 Identities=20% Similarity=0.547 Sum_probs=22.2
Q ss_pred CCCceecccc----cCccccCcCCCCCCCCCccC
Q psy5115 19 TCQDWFHGRC----VGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 19 ~C~r~~H~~C----~~~~~~~~~~~~~~~Cp~C~ 48 (171)
.|+|+++.-= +|+++-....+-.-+||.|.
T Consensus 123 ~CPRv~Cn~~~vLPvGLsDi~g~~~vkLyCpsC~ 156 (242)
T COG5041 123 ACPRVYCNGQQVLPVGLSDIPGKSSVKLYCPSCE 156 (242)
T ss_pred CCCcccccCcceeccccccCCCCceeEEecCchh
Confidence 6899986544 36665555667789999998
No 200
>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=30.03 E-value=79 Score=16.23 Aligned_cols=30 Identities=23% Similarity=0.447 Sum_probs=19.1
Q ss_pred eEecCCCCceecccccCccccCcCCCCCCCCCccCC
Q psy5115 14 YICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNN 49 (171)
Q Consensus 14 ~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~~ 49 (171)
...|..|+..|-..-. .. ....-.||.|..
T Consensus 5 ~y~C~~Cg~~fe~~~~-~~-----~~~~~~CP~Cg~ 34 (41)
T smart00834 5 EYRCEDCGHTFEVLQK-IS-----DDPLATCPECGG 34 (41)
T ss_pred EEEcCCCCCEEEEEEe-cC-----CCCCCCCCCCCC
Confidence 4578888887765422 11 134678999984
No 201
>PHA02862 5L protein; Provisional
Probab=30.00 E-value=15 Score=25.77 Aligned_cols=43 Identities=12% Similarity=0.214 Sum_probs=27.6
Q ss_pred ccccccCCCce---eEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 3 FHTLAVIEPKF---YICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 3 ~~~~~~~~~~~---~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
.|.-|+++++. .-.|.|--+|.|..|+..= -..+..-.|+.|+
T Consensus 4 iCWIC~~~~~e~~~PC~C~GS~K~VHq~CL~~W---In~S~k~~CeLCk 49 (156)
T PHA02862 4 ICWICNDVCDERNNFCGCNEEYKVVHIKCMQLW---INYSKKKECNLCK 49 (156)
T ss_pred EEEEecCcCCCCcccccccCcchhHHHHHHHHH---HhcCCCcCccCCC
Confidence 35555555443 3447777999999997321 1234456999998
No 202
>TIGR00155 pqiA_fam integral membrane protein, PqiA family. This family consists of uncharacterized predicted integral membrane proteins found, so far, only in the Proteobacteria. Of two members in E. coli, one is induced by paraquat and is designated PqiA, paraquat-inducible protein A.
Probab=29.90 E-value=49 Score=27.34 Aligned_cols=30 Identities=20% Similarity=0.421 Sum_probs=21.0
Q ss_pred ceeEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 12 KFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 12 ~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
..++.|..|+..++..= .+..+...||.|.
T Consensus 11 ~~~~~C~~Cd~l~~~~~-------l~~g~~a~CpRCg 40 (403)
T TIGR00155 11 AKHILCSQCDMLVALPR-------IESGQKAACPRCG 40 (403)
T ss_pred CCeeeCCCCCCcccccC-------CCCCCeeECCCCC
Confidence 33788999998876531 1233467999998
No 203
>PF05180 zf-DNL: DNL zinc finger; InterPro: IPR007853 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 DNL-type zinc finger is found in Tim15, a zinc finger protein essential for protein import into mitochondria. Mitochondrial functions rely on the correct transport of resident proteins synthesized in the cytosol to mitochondria. Protein import into mitochondria is mediated by membrane protein complexes, protein translocators, in the outer and inner mitochondrial membranes, in cooperation with their assistant proteins in the cytosol, intermembrane space and matrix. Proteins destined to the mitochondrial matrix cross the outer membrane with the aid of the outer membrane translocator, the tOM40 complex, and then the inner membrane with the aid of the inner membrane translocator, the TIM23 complex, and mitochondrial motor and chaperone (MMC) proteins including mitochondrial heat- shock protein 70 (mtHsp70), and translocase in the inner mitochondrial membrane (Tim)15. Tim15 is also known as zinc finger motif (Zim)17 or mtHsp70 escort protein (Hep)1. Tim15 contains a zinc-finger motif (CXXC and CXXC) of ~100 residues, which has been named DNL after a short C-terminal motif of D(N/H)L [, , ]. The DNL-type zinc finger is an L-shaped molecule. The two CXXC motifs are located at the end of the L, and are sandwiched by two- stranded antiparallel beta-sheets. Two short alpha-helices constitute another leg of the L. The outer (convex) face of the L has a large acidic groove, which is lined with five acidic residues, whereas the inner (concave) face of the L has two positively charged residues, next to the CXXC motifs []. This entry represents the DNL-type zinc finger.; GO: 0008270 zinc ion binding; PDB: 2E2Z_A.
Probab=29.71 E-value=22 Score=21.44 Aligned_cols=21 Identities=19% Similarity=0.287 Sum_probs=12.7
Q ss_pred cccCCCceeEecCCCCceeccc
Q psy5115 6 LAVIEPKFYICCDTCQDWFHGR 27 (171)
Q Consensus 6 ~~~~~~~~~i~C~~C~r~~H~~ 27 (171)
+.|+.+--+|+|++|..+ |..
T Consensus 21 ~aY~~GvViv~C~gC~~~-HlI 41 (66)
T PF05180_consen 21 QAYHKGVVIVQCPGCKNR-HLI 41 (66)
T ss_dssp HHHHTSEEEEE-TTS--E-EES
T ss_pred HHHhCCeEEEECCCCcce-eee
Confidence 456667778899999877 543
No 204
>KOG4739|consensus
Probab=29.05 E-value=38 Score=25.79 Aligned_cols=25 Identities=28% Similarity=0.833 Sum_probs=17.6
Q ss_pred CCCceecccccCccccCcCCCCCCCCCccCCC
Q psy5115 19 TCQDWFHGRCVGILQSEADNIDEYICPNCNNS 50 (171)
Q Consensus 19 ~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~~~ 50 (171)
.|..+|...|.+.+-++ .|+.|+.+
T Consensus 22 aC~HvfC~~C~k~~~~~-------~C~lCkk~ 46 (233)
T KOG4739|consen 22 ACRHVFCEPCLKASSPD-------VCPLCKKS 46 (233)
T ss_pred echhhhhhhhcccCCcc-------ccccccce
Confidence 55678888888664321 89999854
No 205
>KOG2879|consensus
Probab=29.02 E-value=43 Score=26.14 Aligned_cols=29 Identities=17% Similarity=0.505 Sum_probs=20.8
Q ss_pred CCCceecccccCccccCcCCCCCCCCCccCCC
Q psy5115 19 TCQDWFHGRCVGILQSEADNIDEYICPNCNNS 50 (171)
Q Consensus 19 ~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~~~ 50 (171)
.|...|.-.|+..+. .....+.||.|..+
T Consensus 257 ~C~HiyCY~Ci~ts~---~~~asf~Cp~Cg~~ 285 (298)
T KOG2879|consen 257 KCGHIYCYYCIATSR---LWDASFTCPLCGEN 285 (298)
T ss_pred cccceeehhhhhhhh---cchhhcccCccCCC
Confidence 478889999986542 23446899999843
No 206
>PF05418 Apo-VLDL-II: Apovitellenin I (Apo-VLDL-II); InterPro: IPR008404 This family consists of several avian apovitellenin I sequences. As part of the avian reproductive effort, large quantities of triglyceride-rich very-low-density lipoprotein (VLDL) particles are transported by receptor-mediated endocytosis into the female germ cells. Although the oocytes are surrounded by a layer of granulosa cells harbouring high levels of active lipoprotein lipase, non-lipolysed VLDL is transported into the yolk. This is because VLDL particles from laying chickens (Gallus gallus) are protected from lipolysis by apolipoprotein (apo)-VLDL-II, a potent dimeric lipoprotein lipase inhibitor []. Apo-VLDL-II is produced in the liver and secreted into the blood stream when induced by estrogen production in female birds.; GO: 0004857 enzyme inhibitor activity, 0006629 lipid metabolic process, 0042627 chylomicron
Probab=28.93 E-value=1.4e+02 Score=18.30 Aligned_cols=46 Identities=11% Similarity=0.148 Sum_probs=31.1
Q ss_pred CCCHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHHHHHHHHHHh
Q psy5115 118 YKKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILREKL 167 (171)
Q Consensus 118 Y~s~~~f~~Dv~li~~Na~~yn~~~s~~~~~a~~l~~~f~~~~~~~~~~~ 167 (171)
-..+.+|+.|+..+-- --+....+.+.+.+|...|++.+.+++.-|
T Consensus 30 sPr~~qfL~d~~Q~~v----v~g~Rn~lirEt~k~sil~Eql~EKik~lw 75 (82)
T PF05418_consen 30 SPRVGQFLLDASQTPV----VVGTRNFLIRETSKLSILAEQLVEKIKSLW 75 (82)
T ss_pred ChhHHHHHHHHhcccc----hhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456789988876432 122334677778888888888888877643
No 207
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=28.88 E-value=43 Score=24.27 Aligned_cols=57 Identities=16% Similarity=0.380 Sum_probs=32.3
Q ss_pred CCCceeEecCCCCceecccccCccccCcCCCCCCCCCccCCCCcccccccCCChhHHHHHHHHHHHHHhC
Q psy5115 9 IEPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNNSSSNLANMKNLTPRDFESLRKLMKQIQAH 78 (171)
Q Consensus 9 ~~~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~~~~~~~~~~~~l~~~~~~~~~~~l~~l~~~ 78 (171)
+.++..-.|..|.+-|-.. ......|.||.|...=. .--+......+.+.++.|.+.
T Consensus 112 e~~~~~Y~Cp~C~~rytf~--------eA~~~~F~Cp~Cg~~L~-----~~dn~~~~~~l~~~I~~l~~~ 168 (178)
T PRK06266 112 EENNMFFFCPNCHIRFTFD--------EAMEYGFRCPQCGEMLE-----EYDNSELIKELKEQIKELEEE 168 (178)
T ss_pred ccCCCEEECCCCCcEEeHH--------HHhhcCCcCCCCCCCCe-----ecccHHHHHHHHHHHHHHHHH
Confidence 3444566778887554332 11234699999983111 112455666777777776543
No 208
>PHA00626 hypothetical protein
Probab=28.87 E-value=44 Score=19.41 Aligned_cols=29 Identities=21% Similarity=0.528 Sum_probs=18.3
Q ss_pred ecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 16 CCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 16 ~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
.|..|...-|..|-... .....|.|+.|.
T Consensus 2 ~CP~CGS~~Ivrcg~cr----~~snrYkCkdCG 30 (59)
T PHA00626 2 SCPKCGSGNIAKEKTMR----GWSDDYVCCDCG 30 (59)
T ss_pred CCCCCCCceeeeeceec----ccCcceEcCCCC
Confidence 36677765555655332 224579999998
No 209
>PHA02926 zinc finger-like protein; Provisional
Probab=28.68 E-value=14 Score=27.91 Aligned_cols=32 Identities=25% Similarity=0.607 Sum_probs=19.7
Q ss_pred CCCCceecccccCccccC-cCCCCCCCCCccCC
Q psy5115 18 DTCQDWFHGRCVGILQSE-ADNIDEYICPNCNN 49 (171)
Q Consensus 18 ~~C~r~~H~~C~~~~~~~-~~~~~~~~Cp~C~~ 49 (171)
+.|...|+..|...=... ........||.|+.
T Consensus 195 ~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~ 227 (242)
T PHA02926 195 DSCNHIFCITCINIWHRTRRETGASDNCPICRT 227 (242)
T ss_pred CCCCchHHHHHHHHHHHhccccCcCCcCCCCcc
Confidence 478888888887321111 11234678999984
No 210
>TIGR00375 conserved hypothetical protein TIGR00375. The member of this family from Methanococcus jannaschii, MJ0043, is considerably longer and appears to contain an intein N-terminal to the region of homology.
Probab=28.62 E-value=36 Score=27.82 Aligned_cols=25 Identities=24% Similarity=0.292 Sum_probs=12.8
Q ss_pred eecccccCccccCcCCCCCCCCCccC
Q psy5115 23 WFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 23 ~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
-+|..|.....+.....-.|.|| |.
T Consensus 241 ~~c~~C~~~~~~~~~~~~~~~Cp-CG 265 (374)
T TIGR00375 241 TACEACGEPAVSEDAETACANCP-CG 265 (374)
T ss_pred hhhcccCCcCCchhhhhcCCCCC-CC
Confidence 34556653322222122259999 98
No 211
>PF14445 Prok-RING_2: Prokaryotic RING finger family 2
Probab=28.18 E-value=8.1 Score=21.88 Aligned_cols=27 Identities=30% Similarity=0.696 Sum_probs=20.9
Q ss_pred eEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 14 YICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 14 ~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
+-||-.|+||-...|-... -|.|..|.
T Consensus 22 LRQCvlCGRWaC~sCW~de--------YY~CksC~ 48 (57)
T PF14445_consen 22 LRQCVLCGRWACNSCWQDE--------YYTCKSCN 48 (57)
T ss_pred HHHHhhhchhhhhhhhhhh--------HhHHHhhh
Confidence 7889999999999997321 37787775
No 212
>PF11944 DUF3461: Protein of unknown function (DUF3461); InterPro: IPR020911 This entry describes proteins of unknown function.
Probab=28.13 E-value=2e+02 Score=19.61 Aligned_cols=56 Identities=18% Similarity=0.293 Sum_probs=37.3
Q ss_pred cCCCCCHHHHHHHHHHHHHHHhhhCC-------CCCHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q psy5115 115 QQRYKKLSEFIGDMTKIFDNCRYYNP-------RESPFFKHAHQLEMFFVQKVKILREKLVEL 170 (171)
Q Consensus 115 ~~~Y~s~~~f~~Dv~li~~Na~~yn~-------~~s~~~~~a~~l~~~f~~~~~~~~~~~~~~ 170 (171)
.+.|..+.+.-.-++.++.---..-+ ....+..+-+.|+..+...++++++.++.|
T Consensus 63 ~~~y~~v~Eis~~L~~vieELdqi~~~~~~~~d~K~kiL~dL~HLE~Vv~~KIaEIe~dlekL 125 (125)
T PF11944_consen 63 SQQYKEVSEISPNLRYVIEELDQITGREQAEVDLKQKILDDLRHLEKVVNSKIAEIERDLEKL 125 (125)
T ss_pred CccceehhhccHHHHHHHHHHHHHHcchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 45677766655555555443222222 224577788889999999999999998764
No 213
>PF04100 Vps53_N: Vps53-like, N-terminal ; InterPro: IPR007234 Vps53 complexes with Vps52 and Vps54 to form a multi-subunit complex involved in regulating membrane trafficking events [].
Probab=26.85 E-value=3.6e+02 Score=22.14 Aligned_cols=64 Identities=8% Similarity=0.255 Sum_probs=44.8
Q ss_pred CHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy5115 105 DLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILREKLVE 169 (171)
Q Consensus 105 dl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~s~~~~~a~~l~~~f~~~~~~~~~~~~~ 169 (171)
.+..++.-++++.|..+...+.-|..++.-=..|- .-..|......+..+.......+...+..
T Consensus 120 a~~qL~~~~~~r~Y~e~a~~L~av~~L~~~F~~yk-si~~I~~L~~~i~~l~~~L~~qI~~df~~ 183 (383)
T PF04100_consen 120 AVEQLKELAKKRQYKEIASLLQAVKELLEHFKPYK-SIPQIAELSKRIDQLQNELKEQIFEDFEE 183 (383)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHccc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556677778999999999999999884444453 45677777777777666666666555543
No 214
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=26.53 E-value=99 Score=21.17 Aligned_cols=37 Identities=22% Similarity=0.460 Sum_probs=30.8
Q ss_pred cccccCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHh
Q psy5115 96 YYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCR 136 (171)
Q Consensus 96 Y~~~i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~ 136 (171)
-|..|-.|+|...|++++.+ .+.++..+|..++.+..
T Consensus 83 gy~yiY~~i~~ee~k~~i~~----~l~~w~~~~~~~i~~~~ 119 (126)
T COG3355 83 GYYYLYKPIDPEEIKKKILK----DLDEWYDKMKQLIEEFE 119 (126)
T ss_pred ceeEEEecCCHHHHHHHHHH----HHHHHHHHHHHHHHHHh
Confidence 34567789999999999988 88899999988887654
No 215
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=26.50 E-value=17 Score=29.64 Aligned_cols=26 Identities=23% Similarity=0.614 Sum_probs=18.8
Q ss_pred CCCceecccccCccccCcCCCCCCCCCccCC
Q psy5115 19 TCQDWFHGRCVGILQSEADNIDEYICPNCNN 49 (171)
Q Consensus 19 ~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~~ 49 (171)
-|+..+|.+|.+.=-+ . .-.||.|+.
T Consensus 317 pCGHilHl~CLknW~E-R----qQTCPICr~ 342 (491)
T COG5243 317 PCGHILHLHCLKNWLE-R----QQTCPICRR 342 (491)
T ss_pred cccceeeHHHHHHHHH-h----ccCCCcccC
Confidence 4889999999864321 1 358999994
No 216
>PF11740 KfrA_N: Plasmid replication region DNA-binding N-term; InterPro: IPR021104 The KfrA family of protiens are encoded on plasmids, generally in or near gene clusters invloved in stable inheritance functions. These proteins are thought to form an all-helical structure, consisting of an N-terminal helix-turn-helix DNA binding domain and an extended coiled-coil tail. The best-characterised KfrA protein, encoded on the broad host-range Plasmid RK2, is a site-specific DNA-binding protein whose operator overlaps its own promoter. The DNA-binding domain is essential for function, while the coiled-coil domain is probably responsible for formation of multimers, and may provide an example of a bridge to host structures required for plasmid partitioning []. This entry represents the N-terminal DNA-binding domain.
Probab=25.98 E-value=2e+02 Score=18.83 Aligned_cols=32 Identities=6% Similarity=0.150 Sum_probs=27.3
Q ss_pred CHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHh
Q psy5115 105 DLKTIELRIAQQRYKKLSEFIGDMTKIFDNCR 136 (171)
Q Consensus 105 dl~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~ 136 (171)
....|+..|-.|.+.++..+++..+.=..+..
T Consensus 21 T~~~Vr~~lG~GS~~ti~~~l~~w~~~~~~~~ 52 (120)
T PF11740_consen 21 TVRAVRERLGGGSMSTISKHLKEWREEREAQV 52 (120)
T ss_pred CHHHHHHHHCCCCHHHHHHHHHHHHHhhhccc
Confidence 78899999999999999988888877666666
No 217
>COG4640 Predicted membrane protein [Function unknown]
Probab=25.88 E-value=37 Score=27.98 Aligned_cols=8 Identities=25% Similarity=0.995 Sum_probs=5.4
Q ss_pred CCCCCccC
Q psy5115 41 EYICPNCN 48 (171)
Q Consensus 41 ~~~Cp~C~ 48 (171)
.+.|+.|.
T Consensus 15 ~~qC~qCG 22 (465)
T COG4640 15 DVQCTQCG 22 (465)
T ss_pred cccccccC
Confidence 35578777
No 218
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.83 E-value=97 Score=21.24 Aligned_cols=73 Identities=19% Similarity=0.346 Sum_probs=38.7
Q ss_pred ccccccCCCceeEecCCCCceeccccc--CccccCcCCCCCCCCCccCCC-Cccc----------ccccCCChhHHHHHH
Q psy5115 3 FHTLAVIEPKFYICCDTCQDWFHGRCV--GILQSEADNIDEYICPNCNNS-SSNL----------ANMKNLTPRDFESLR 69 (171)
Q Consensus 3 ~~~~~~~~~~~~i~C~~C~r~~H~~C~--~~~~~~~~~~~~~~Cp~C~~~-~~~~----------~~~~~l~~~~~~~~~ 69 (171)
||++|... -..+|..|.-.+.+.=. |....-.+..-.-+|-.|... +... ....++++++.+.+.
T Consensus 30 fcskcgea--ti~qcp~csasirgd~~vegvlglg~dye~psfchncgs~fpwterkiaga~elvea~~~l~pdevqqf~ 107 (160)
T COG4306 30 FCSKCGEA--TITQCPICSASIRGDYYVEGVLGLGGDYEPPSFCHNCGSRFPWTERKIAGAVELVEAGENLNPDEVQQFR 107 (160)
T ss_pred HHhhhchH--HHhcCCccCCcccccceeeeeeccCCCCCCcchhhcCCCCCCcHHHHHhHHHHHHHccccCCHHHHHHHH
Confidence 55555433 35788888755444332 222122233335689999832 1110 112457777777776
Q ss_pred HHHHHHHh
Q psy5115 70 KLMKQIQA 77 (171)
Q Consensus 70 ~~l~~l~~ 77 (171)
.-|-.|.+
T Consensus 108 tdlt~ltk 115 (160)
T COG4306 108 TDLTDLTK 115 (160)
T ss_pred hhHHHHhh
Confidence 66666654
No 219
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=25.43 E-value=30 Score=17.13 Aligned_cols=11 Identities=27% Similarity=0.718 Sum_probs=7.7
Q ss_pred EecCCCCceec
Q psy5115 15 ICCDTCQDWFH 25 (171)
Q Consensus 15 i~C~~C~r~~H 25 (171)
..|+.|..||.
T Consensus 4 ~~C~~C~~~~~ 14 (35)
T smart00451 4 FYCKLCNVTFT 14 (35)
T ss_pred eEccccCCccC
Confidence 34778877765
No 220
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=25.36 E-value=53 Score=27.95 Aligned_cols=33 Identities=27% Similarity=0.678 Sum_probs=18.3
Q ss_pred eEecCCCC--ceecc-----cccCccccCcCCCCCCCCCccCC
Q psy5115 14 YICCDTCQ--DWFHG-----RCVGILQSEADNIDEYICPNCNN 49 (171)
Q Consensus 14 ~i~C~~C~--r~~H~-----~C~~~~~~~~~~~~~~~Cp~C~~ 49 (171)
.+.|..|+ -.||. .|+-=. ...+-.|.||.|..
T Consensus 222 ~~~C~~C~~~l~~h~~~~~l~Ch~Cg---~~~~~~~~Cp~C~s 261 (505)
T TIGR00595 222 ILCCPNCDVSLTYHKKEGKLRCHYCG---YQEPIPKTCPQCGS 261 (505)
T ss_pred ccCCCCCCCceEEecCCCeEEcCCCc---CcCCCCCCCCCCCC
Confidence 56677775 45553 455110 11233589999984
No 221
>smart00096 UTG Uteroglobin.
Probab=25.02 E-value=1.7e+02 Score=17.79 Aligned_cols=32 Identities=13% Similarity=0.047 Sum_probs=22.1
Q ss_pred HHhhhCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q psy5115 134 NCRYYNPRESPFFKHAHQLEMFFVQKVKILRE 165 (171)
Q Consensus 134 Na~~yn~~~s~~~~~a~~l~~~f~~~~~~~~~ 165 (171)
-+...+.+++.+.+++.+|++.....-.+-+.
T Consensus 23 ~~l~~y~~~~~~~ea~~~lK~cvD~L~~~~k~ 54 (69)
T smart00096 23 ASLKQFKPDPDMLEAGRQLKKLVDTLPQETRE 54 (69)
T ss_pred HHHHhcCCCHHHHHHHHHHHHHHhcCCHHHHH
Confidence 44444558999999999999887774333333
No 222
>PF15469 Sec5: Exocyst complex component Sec5
Probab=24.69 E-value=2.6e+02 Score=19.87 Aligned_cols=30 Identities=10% Similarity=0.218 Sum_probs=23.5
Q ss_pred HHHHHHHhcCCCCCHHHHHHHHHHHHHHHh
Q psy5115 107 KTIELRIAQQRYKKLSEFIGDMTKIFDNCR 136 (171)
Q Consensus 107 ~~I~~kl~~~~Y~s~~~f~~Dv~li~~Na~ 136 (171)
+.|++.++.|.|.++-.....++.++.+..
T Consensus 91 ~~L~~~i~~~dy~~~i~dY~kak~l~~~~~ 120 (182)
T PF15469_consen 91 SNLRECIKKGDYDQAINDYKKAKSLFEKYK 120 (182)
T ss_pred HHHHHHHHcCcHHHHHHHHHHHHHHHHHhh
Confidence 567888999999888777777777777664
No 223
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=24.58 E-value=37 Score=24.05 Aligned_cols=54 Identities=15% Similarity=0.250 Sum_probs=26.7
Q ss_pred CCCceeEecCCCCceecccccCccccCcCCCCCCCCCccCCCCcccccccCCChhHHHHHHHHHHHH
Q psy5115 9 IEPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNNSSSNLANMKNLTPRDFESLRKLMKQI 75 (171)
Q Consensus 9 ~~~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~~~~~~~~~~~~l~~~~~~~~~~~l~~l 75 (171)
+.++..-.|..|..=|-. . ..-...|.||.|+..=. .--+....+.+.+.+..|
T Consensus 104 e~~~~~Y~Cp~c~~r~tf-------~-eA~~~~F~Cp~Cg~~L~-----~~dn~~~i~~l~~~i~~l 157 (158)
T TIGR00373 104 ETNNMFFICPNMCVRFTF-------N-EAMELNFTCPRCGAMLD-----YLDNSEAIEKLEEQIKFL 157 (158)
T ss_pred ccCCCeEECCCCCcEeeH-------H-HHHHcCCcCCCCCCEee-----eccCHHHHHHHHHHHHhh
Confidence 334445667777643321 1 11234699999982100 112344455555555543
No 224
>PRK10144 formate-dependent nitrite reductase complex subunit NrfF; Provisional
Probab=24.23 E-value=56 Score=22.38 Aligned_cols=30 Identities=17% Similarity=0.305 Sum_probs=16.2
Q ss_pred CCCCCCccCCCCcccccccCCChhHHHHHHH
Q psy5115 40 DEYICPNCNNSSSNLANMKNLTPRDFESLRK 70 (171)
Q Consensus 40 ~~~~Cp~C~~~~~~~~~~~~l~~~~~~~~~~ 70 (171)
.+--||.|++.+....+ .++..+.+..+.+
T Consensus 39 ~~LRC~vCqnqsiadSn-a~iA~dmR~~Vr~ 68 (126)
T PRK10144 39 SQLRCPQCQNQNLLESN-APVAVSMRHQVYS 68 (126)
T ss_pred HcCCCCCCCCCChhhcC-CHHHHHHHHHHHH
Confidence 47899999965543222 1334444444433
No 225
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=23.94 E-value=30 Score=25.50 Aligned_cols=32 Identities=19% Similarity=0.483 Sum_probs=19.7
Q ss_pred CCCCceecccccCccc-------cC----cCCCCCCCCCccCC
Q psy5115 18 DTCQDWFHGRCVGILQ-------SE----ADNIDEYICPNCNN 49 (171)
Q Consensus 18 ~~C~r~~H~~C~~~~~-------~~----~~~~~~~~Cp~C~~ 49 (171)
..|..+|+..|+..-. .. ........||.|+.
T Consensus 34 T~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~ 76 (193)
T PLN03208 34 TLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKS 76 (193)
T ss_pred cCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCC
Confidence 4689999999973110 00 01234579999993
No 226
>TIGR00737 nifR3_yhdG putative TIM-barrel protein, nifR3 family. Members of this family show a distant relationship to alpha/beta (TIM) barrel enzymes such as dihydroorotate dehydrogenase and glycolate oxidase.
Probab=23.83 E-value=3.6e+02 Score=21.19 Aligned_cols=49 Identities=14% Similarity=0.224 Sum_probs=32.0
Q ss_pred ccCCCCCHHHHHHHHhcCCCC---CHHHHHHHHHHHHHHHhhhCCCCCHHHH
Q psy5115 99 VVKEPMDLKTIELRIAQQRYK---KLSEFIGDMTKIFDNCRYYNPRESPFFK 147 (171)
Q Consensus 99 ~i~~Pmdl~~I~~kl~~~~Y~---s~~~f~~Dv~li~~Na~~yn~~~s~~~~ 147 (171)
.+.+|--+..+++.+..+.|. +..+...-+...+.-+..|.++...+..
T Consensus 225 ~l~~P~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~ 276 (319)
T TIGR00737 225 ALGNPWLFRQIEQYLTTGKYKPPPTFAEKLDAILRHLQLLADYYGESKGLRI 276 (319)
T ss_pred hhhCChHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHHHHHhCcchHHHH
Confidence 446776678888888878775 6667766666666666666554433333
No 227
>PF10491 Nrf1_DNA-bind: NLS-binding and DNA-binding and dimerisation domains of Nrf1; InterPro: IPR019525 Nuclear respiratory factor-1 is a transcriptional activator that has been implicated in the nuclear control of respiratory chain expression in vertebrates. The first 26 amino acids of nuclear respiratory factor-1 are required for the binding of dynein light chain. The interaction with dynein light chain is observed for both ewg and Nrf-1, transcription factors that are structurally and functionally similar between humans and Drosophila []. In Drosophila, the erect wing (ewg) protein is required for proper development of the central nervous system and the indirect flight muscles. The fly ewg gene encodes a novel DNA-binding domain that is also found in four genes previously identified in sea urchin, chicken, zebrafish, and human []. The highest level of expression of both ewg and Nrf-1 was found in the central nervous system, somites, first branchial arch, optic vesicle, and otic vesicle. In the mouse Nrf-1 protein, Q8C4C0 from SWISSPROT, there is also an NLS domain at 88-116, and a DNA binding and dimerisation domain at 127-282. Ewg is a site-specific transcriptional activator, and evolutionarily conserved regions of ewg contribute both positively and negatively to transcriptional activity [].
Probab=23.65 E-value=58 Score=24.30 Aligned_cols=23 Identities=26% Similarity=0.486 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHhhhCCCCCH
Q psy5115 122 SEFIGDMTKIFDNCRYYNPRESP 144 (171)
Q Consensus 122 ~~f~~Dv~li~~Na~~yn~~~s~ 144 (171)
..|..-++.|+.||+.|++....
T Consensus 185 vsWt~aLR~IV~nCYk~HgredL 207 (214)
T PF10491_consen 185 VSWTQALRTIVKNCYKYHGREDL 207 (214)
T ss_pred ccHHHHHHHHHHHHHHHhcHHHH
Confidence 38999999999999999986443
No 228
>smart00150 SPEC Spectrin repeats.
Probab=23.57 E-value=1.3e+02 Score=18.27 Aligned_cols=12 Identities=25% Similarity=0.479 Sum_probs=7.8
Q ss_pred CCHHHHHHHHhc
Q psy5115 104 MDLKTIELRIAQ 115 (171)
Q Consensus 104 mdl~~I~~kl~~ 115 (171)
-|+..++..++.
T Consensus 28 ~d~~~~~~~~~~ 39 (101)
T smart00150 28 KDLESVEALLKK 39 (101)
T ss_pred CCHHHHHHHHHH
Confidence 467777776663
No 229
>KOG1986|consensus
Probab=23.48 E-value=45 Score=29.49 Aligned_cols=31 Identities=26% Similarity=0.674 Sum_probs=24.1
Q ss_pred eEecCCCCceecccccCccccCcCCCCCCCCCccCC
Q psy5115 14 YICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNN 49 (171)
Q Consensus 14 ~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~~ 49 (171)
-+.|..|.-+..+.|.-.. -...|.||.|.+
T Consensus 53 P~~C~~C~AvlNPyc~vd~-----~a~~W~CpfC~q 83 (745)
T KOG1986|consen 53 PLRCSKCGAVLNPYCSVDF-----RAKSWICPFCNQ 83 (745)
T ss_pred CchhccchhhcCcceeecc-----cCceEecccccc
Confidence 4789999999999998322 133799999994
No 230
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=23.30 E-value=88 Score=27.65 Aligned_cols=46 Identities=26% Similarity=0.508 Sum_probs=26.3
Q ss_pred CCccccccCC-CceeEecCCCCceec-ccccCccccCcCCCCCCCCCccC
Q psy5115 1 MKFHTLAVIE-PKFYICCDTCQDWFH-GRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 1 ~~~~~~~~~~-~~~~i~C~~C~r~~H-~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
|..|-+|... ....-.|..|+...- ..|-.= ....+.+.-+||.|.
T Consensus 1 M~~Cp~Cg~~n~~~akFC~~CG~~l~~~~Cp~C--G~~~~~~~~fC~~CG 48 (645)
T PRK14559 1 MLICPQCQFENPNNNRFCQKCGTSLTHKPCPQC--GTEVPVDEAHCPNCG 48 (645)
T ss_pred CCcCCCCCCcCCCCCccccccCCCCCCCcCCCC--CCCCCcccccccccC
Confidence 6677666544 233567888875532 344311 112244566999999
No 231
>TIGR03369 cellulose_bcsE cellulose biosynthesis protein BcsE. This protein, called BcsE (bacterial cellulose synthase E) or YhjS, is required for cellulose biosynthesis in Salmonella enteritidis. Its role is this process across multiple bacterial species is implied by the partial phylogenetic profiling algorithm. Members are found in the vicinity of other cellulose biosynthesis genes. The model does not include a much less well-conserved N-terminal region about 150 amino acids in length for most members. Solano, et al. suggest this protein acts as a protease.
Probab=23.09 E-value=4e+02 Score=21.43 Aligned_cols=29 Identities=14% Similarity=0.189 Sum_probs=25.0
Q ss_pred hcCCCCCHHHHHHHHHHHHHHHhhhCCCC
Q psy5115 114 AQQRYKKLSEFIGDMTKIFDNCRYYNPRE 142 (171)
Q Consensus 114 ~~~~Y~s~~~f~~Dv~li~~Na~~yn~~~ 142 (171)
....|-.+.+|..-|+.++.|...-+.++
T Consensus 210 ~~kGYlp~~~F~~~v~~~~~~~~~~~~~~ 238 (322)
T TIGR03369 210 AAKGYLPPDTFCSYVRKVLERSLVLQLSG 238 (322)
T ss_pred cccCcCCHHHHHHHHHHHHhcchhhcCCc
Confidence 45689999999999999999998866654
No 232
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=22.84 E-value=69 Score=15.85 Aligned_cols=10 Identities=20% Similarity=0.617 Sum_probs=4.3
Q ss_pred ceeEecCCCC
Q psy5115 12 KFYICCDTCQ 21 (171)
Q Consensus 12 ~~~i~C~~C~ 21 (171)
|...+|..|.
T Consensus 19 g~~r~C~~Cg 28 (32)
T PF09297_consen 19 GWARRCPSCG 28 (32)
T ss_dssp SS-EEESSSS
T ss_pred cCEeECCCCc
Confidence 3345555554
No 233
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=22.82 E-value=46 Score=18.72 Aligned_cols=9 Identities=44% Similarity=1.442 Sum_probs=7.5
Q ss_pred CCCCCCccC
Q psy5115 40 DEYICPNCN 48 (171)
Q Consensus 40 ~~~~Cp~C~ 48 (171)
+.|.||.|.
T Consensus 1 ~~f~CP~C~ 9 (54)
T PF05605_consen 1 DSFTCPYCG 9 (54)
T ss_pred CCcCCCCCC
Confidence 368999997
No 234
>PLN02436 cellulose synthase A
Probab=22.50 E-value=75 Score=29.74 Aligned_cols=43 Identities=16% Similarity=0.390 Sum_probs=32.3
Q ss_pred CccccccCC------CceeEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 2 KFHTLAVIE------PKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 2 ~~~~~~~~~------~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
+.|+-|.|+ ++..|.|..|.--.+..|-- . +...+.=.||.|+
T Consensus 37 ~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cye---y-er~eg~~~Cpqck 85 (1094)
T PLN02436 37 QTCQICGDEIELTVDGEPFVACNECAFPVCRPCYE---Y-ERREGNQACPQCK 85 (1094)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhh---h-hhhcCCccCcccC
Confidence 578888887 45589999999888888872 2 2244567999999
No 235
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=22.47 E-value=42 Score=15.17 Aligned_cols=8 Identities=50% Similarity=1.331 Sum_probs=4.2
Q ss_pred cCCCCcee
Q psy5115 17 CDTCQDWF 24 (171)
Q Consensus 17 C~~C~r~~ 24 (171)
|+.|.++|
T Consensus 3 C~~C~~~f 10 (25)
T PF12874_consen 3 CDICNKSF 10 (25)
T ss_dssp ETTTTEEE
T ss_pred CCCCCCCc
Confidence 55555544
No 236
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=22.14 E-value=36 Score=19.07 Aligned_cols=10 Identities=40% Similarity=1.115 Sum_probs=4.3
Q ss_pred CCCCCCCccC
Q psy5115 39 IDEYICPNCN 48 (171)
Q Consensus 39 ~~~~~Cp~C~ 48 (171)
...|.||.|.
T Consensus 39 ~~~W~CPiC~ 48 (50)
T PF02891_consen 39 TPKWKCPICN 48 (50)
T ss_dssp S---B-TTT-
T ss_pred cCCeECcCCc
Confidence 3469999996
No 237
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=22.09 E-value=89 Score=15.92 Aligned_cols=14 Identities=14% Similarity=0.332 Sum_probs=10.0
Q ss_pred ceeEecCCCCceec
Q psy5115 12 KFYICCDTCQDWFH 25 (171)
Q Consensus 12 ~~~i~C~~C~r~~H 25 (171)
+..+.|..|+..|.
T Consensus 23 ~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 23 GGKVRCGKCGHVWY 36 (38)
T ss_pred CCEEECCCCCCEEE
Confidence 33788888887664
No 238
>KOG2752|consensus
Probab=22.00 E-value=31 Score=27.42 Aligned_cols=26 Identities=15% Similarity=0.151 Sum_probs=22.2
Q ss_pred ccccccCCCceeEecCCCCceecccc
Q psy5115 3 FHTLAVIEPKFYICCDTCQDWFHGRC 28 (171)
Q Consensus 3 ~~~~~~~~~~~~i~C~~C~r~~H~~C 28 (171)
.|-+|+.+++.+.+|-.|.-|+|..=
T Consensus 57 sClTC~P~~~~agvC~~C~~~CH~~H 82 (345)
T KOG2752|consen 57 SCLTCTPAPEMAGVCYACSLSCHDGH 82 (345)
T ss_pred EeecccCChhhceeEEEeeeeecCCc
Confidence 37788889989999999999999753
No 239
>PHA02763 hypothetical protein; Provisional
Probab=21.96 E-value=1.5e+02 Score=18.92 Aligned_cols=33 Identities=9% Similarity=0.327 Sum_probs=28.5
Q ss_pred cCCCCCHHHHHHHHhcCCCCCHHHHHHHHHHHH
Q psy5115 100 VKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIF 132 (171)
Q Consensus 100 i~~Pmdl~~I~~kl~~~~Y~s~~~f~~Dv~li~ 132 (171)
-+.|..+..+.+-++-..+.++++|++..+.+-
T Consensus 49 a~ap~t~~~LsKYv~~SGFe~VEeWl~eArrLh 81 (102)
T PHA02763 49 AKAPVTEYCLSKYVKFSGFENVEEWLNEARRLH 81 (102)
T ss_pred EecCchHHHHHHHhhhcchhhHHHHHHHHHHHh
Confidence 357999999999999999999999999887653
No 240
>PLN02400 cellulose synthase
Probab=21.76 E-value=84 Score=29.46 Aligned_cols=43 Identities=14% Similarity=0.418 Sum_probs=32.6
Q ss_pred CccccccCC------CceeEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 2 KFHTLAVIE------PKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 2 ~~~~~~~~~------~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
+.|+.|.|+ ++..|.|..|.--.+..|-- . +...+.=.||.|+
T Consensus 37 qiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYE---Y-ERkeGnq~CPQCk 85 (1085)
T PLN02400 37 QICQICGDDVGVTETGDVFVACNECAFPVCRPCYE---Y-ERKDGTQCCPQCK 85 (1085)
T ss_pred ceeeecccccCcCCCCCEEEEEccCCCccccchhh---e-ecccCCccCcccC
Confidence 578888887 55689999999888888872 2 2234567999999
No 241
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 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. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=21.73 E-value=40 Score=17.75 Aligned_cols=8 Identities=38% Similarity=1.410 Sum_probs=2.9
Q ss_pred cCCCCcee
Q psy5115 17 CDTCQDWF 24 (171)
Q Consensus 17 C~~C~r~~ 24 (171)
||-|..|+
T Consensus 6 CdyC~~~~ 13 (38)
T PF06220_consen 6 CDYCKKYL 13 (38)
T ss_dssp -TTT--B-
T ss_pred ccccccee
Confidence 67777776
No 242
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=21.53 E-value=1.4e+02 Score=28.58 Aligned_cols=33 Identities=18% Similarity=0.504 Sum_probs=16.0
Q ss_pred EecCCCCce-----ecccccCccccCcCCCCCCCCCccCC
Q psy5115 15 ICCDTCQDW-----FHGRCVGILQSEADNIDEYICPNCNN 49 (171)
Q Consensus 15 i~C~~C~r~-----~H~~C~~~~~~~~~~~~~~~Cp~C~~ 49 (171)
..|..|+.. .+..|-...+.. ......||.|..
T Consensus 680 ~fCP~CGs~te~vy~CPsCGaev~~d--es~a~~CP~CGt 717 (1337)
T PRK14714 680 NRCPDCGTHTEPVYVCPDCGAEVPPD--ESGRVECPRCDV 717 (1337)
T ss_pred ccCcccCCcCCCceeCccCCCccCCC--ccccccCCCCCC
Confidence 356666533 355554332221 111457888873
No 243
>TIGR03147 cyt_nit_nrfF cytochrome c nitrite reductase, accessory protein NrfF.
Probab=20.84 E-value=71 Score=21.88 Aligned_cols=30 Identities=17% Similarity=0.287 Sum_probs=16.3
Q ss_pred CCCCCCccCCCCcccccccCCChhHHHHHHH
Q psy5115 40 DEYICPNCNNSSSNLANMKNLTPRDFESLRK 70 (171)
Q Consensus 40 ~~~~Cp~C~~~~~~~~~~~~l~~~~~~~~~~ 70 (171)
.+-.||.|++.+....+ .++..+.+..+.+
T Consensus 39 ~~LRC~vCqnqsiadS~-a~iA~dmR~~Vr~ 68 (126)
T TIGR03147 39 KSLRCPQCQNQNLVESN-SPIAYDLRHEVYS 68 (126)
T ss_pred HhCCCCCCCCCChhhcC-CHHHHHHHHHHHH
Confidence 47899999965543222 1344444444443
No 244
>KOG1080|consensus
Probab=20.80 E-value=89 Score=29.16 Aligned_cols=36 Identities=31% Similarity=0.755 Sum_probs=29.5
Q ss_pred ceeEecCCCCceecccccCccccCcCCCCCCCCCccCC
Q psy5115 12 KFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNN 49 (171)
Q Consensus 12 ~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~~ 49 (171)
...+.|+.|.+.-|..|.|.++.. .+..|.|..|+.
T Consensus 588 n~~~~~~~~~~~~~s~~~g~~~~~--~~~~~~~~~~~~ 623 (1005)
T KOG1080|consen 588 NVSIICDRCTRSVHSECYGNLKSY--DGTSWVCDSCET 623 (1005)
T ss_pred ceeeeeccccccCCCcccccCCCC--CCCcchhhcccc
Confidence 348899999999999999887543 456799999984
No 245
>PF06945 DUF1289: Protein of unknown function (DUF1289); InterPro: IPR010710 This family consists of a number of hypothetical bacterial proteins. The aligned region spans around 56 residues and contains 4 highly conserved cysteine residues towards the N terminus. The function of this family is unknown.
Probab=20.72 E-value=1e+02 Score=17.22 Aligned_cols=35 Identities=9% Similarity=0.368 Sum_probs=25.7
Q ss_pred CCCCCccCCCCcccccccCCChhHHHHHHHHHHHH
Q psy5115 41 EYICPNCNNSSSNLANMKNLTPRDFESLRKLMKQI 75 (171)
Q Consensus 41 ~~~Cp~C~~~~~~~~~~~~l~~~~~~~~~~~l~~l 75 (171)
.=+|..|..+-.....-..|++.++..+...+..-
T Consensus 14 ~~~C~GC~RT~dEI~~W~~~s~~er~~i~~~l~~R 48 (51)
T PF06945_consen 14 DGVCRGCGRTLDEIRDWKSMSDDERRAILARLRAR 48 (51)
T ss_pred CCccCCCCCcHHHHHHHhhCCHHHHHHHHHHHHHH
Confidence 45899999766666666788888888777666543
No 246
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=20.12 E-value=80 Score=29.59 Aligned_cols=43 Identities=16% Similarity=0.414 Sum_probs=32.5
Q ss_pred CccccccCC------CceeEecCCCCceecccccCccccCcCCCCCCCCCccC
Q psy5115 2 KFHTLAVIE------PKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48 (171)
Q Consensus 2 ~~~~~~~~~------~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~ 48 (171)
+.|+.|.|+ ++..|.|..|.--.+..|- +. +...+.=.||.|+
T Consensus 18 qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCY---EY-Er~eG~q~CPqCk 66 (1079)
T PLN02638 18 QVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCY---EY-ERKDGNQSCPQCK 66 (1079)
T ss_pred ceeeecccccCcCCCCCEEEEeccCCCccccchh---hh-hhhcCCccCCccC
Confidence 578888887 5568999999988888887 22 2234567999999
No 247
>PF08996 zf-DNA_Pol: DNA Polymerase alpha zinc finger; InterPro: IPR015088 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 DNA Polymerase alpha zinc finger domain adopts an alpha-helix-like structure, followed by three turns, all of which involve proline. The resulting motif is a helix-turn-helix motif, in contrast to other zinc finger domains, which show anti-parallel sheet and helix conformation. Zinc binding occurs due to the presence of four cysteine residues positioned to bind the metal centre in a tetrahedral coordination geometry. The function of this domain is uncertain: it has been proposed that the zinc finger motif may be an essential part of the DNA binding domain []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0001882 nucleoside binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication; PDB: 3FLO_D 1N5G_A 1K0P_A 1K18_A.
Probab=20.02 E-value=51 Score=24.04 Aligned_cols=42 Identities=19% Similarity=0.286 Sum_probs=18.9
Q ss_pred cCCCceeEecCCCCceecccccCccccCcCCCCCCCCCccCC
Q psy5115 8 VIEPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNN 49 (171)
Q Consensus 8 ~~~~~~~i~C~~C~r~~H~~C~~~~~~~~~~~~~~~Cp~C~~ 49 (171)
++-+.+.+.|..|..-+...=+-........+..+.||.|..
T Consensus 12 ~~c~~l~~~C~~C~~~~~f~g~~~~~~~~~~~~~~~C~~C~~ 53 (188)
T PF08996_consen 12 KDCEPLKLTCPSCGTEFEFPGVFEEDGDDVSPSGLQCPNCST 53 (188)
T ss_dssp TT---EEEE-TTT--EEEE-SSS--SSEEEETTEEEETTT--
T ss_pred cCCCceEeECCCCCCCccccccccCCccccccCcCcCCCCCC
Confidence 345667899999987665432211111122355799999973
No 248
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=20.01 E-value=73 Score=18.01 Aligned_cols=16 Identities=25% Similarity=0.661 Sum_probs=10.6
Q ss_pred EecCCCCceecccccC
Q psy5115 15 ICCDTCQDWFHGRCVG 30 (171)
Q Consensus 15 i~C~~C~r~~H~~C~~ 30 (171)
+.|..|...|...|..
T Consensus 41 ~~C~~C~~~fC~~C~~ 56 (64)
T PF01485_consen 41 VTCPSCGTEFCFKCGE 56 (64)
T ss_dssp CCTTSCCSEECSSSTS
T ss_pred eECCCCCCcCccccCc
Confidence 6677777666666653
Done!