Query 003406
Match_columns 823
No_of_seqs 341 out of 1237
Neff 3.9
Searched_HMMs 46136
Date Thu Mar 28 22:51:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/003406.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/003406hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd04714 BAH_BAHCC1 BAH, or Bro 99.9 2.4E-27 5.2E-32 221.8 5.6 118 694-819 1-120 (121)
2 cd04717 BAH_polybromo BAH, or 99.9 1.1E-26 2.5E-31 215.8 7.5 118 694-822 1-120 (121)
3 cd04715 BAH_Orc1p_like BAH, or 99.9 6.1E-26 1.3E-30 222.4 8.3 132 672-810 6-145 (159)
4 cd04713 BAH_plant_3 BAH, or Br 99.9 3.5E-25 7.7E-30 213.7 6.9 128 682-821 6-136 (146)
5 cd04370 BAH BAH, or Bromo Adja 99.9 6.3E-24 1.4E-28 191.4 6.7 118 694-821 1-122 (123)
6 cd04721 BAH_plant_1 BAH, or Br 99.9 2E-23 4.3E-28 198.5 6.4 116 690-815 1-118 (130)
7 PF01426 BAH: BAH domain; Int 99.9 1.3E-23 2.8E-28 190.4 2.6 115 695-821 1-118 (119)
8 smart00439 BAH Bromo adjacent 99.9 8.4E-23 1.8E-27 185.0 6.9 116 696-821 1-119 (120)
9 cd04718 BAH_plant_2 BAH, or Br 99.9 2.1E-22 4.6E-27 195.2 4.5 92 715-821 56-147 (148)
10 cd04716 BAH_plantDCM_I BAH, or 99.8 5.5E-22 1.2E-26 187.2 5.2 117 694-821 1-120 (122)
11 cd04709 BAH_MTA BAH, or Bromo 99.8 4E-21 8.7E-26 189.5 6.4 117 695-822 2-140 (164)
12 cd04720 BAH_Orc1p_Yeast BAH, o 99.8 4.5E-20 9.7E-25 184.0 7.1 124 689-821 44-177 (179)
13 KOG1827 Chromatin remodeling c 99.8 3.7E-20 8.1E-25 210.8 5.7 121 690-821 184-306 (629)
14 cd04712 BAH_DCM_I BAH, or Brom 99.7 1.1E-17 2.4E-22 159.4 7.0 112 692-821 1-128 (130)
15 cd04710 BAH_fungalPHD BAH, or 99.7 9.7E-18 2.1E-22 160.9 6.3 116 690-818 5-133 (135)
16 cd04708 BAH_plantDCM_II BAH, o 99.6 1.8E-16 3.9E-21 161.0 6.8 119 691-820 2-144 (202)
17 cd04760 BAH_Dnmt1_I BAH, or Br 99.6 6.6E-16 1.4E-20 146.7 7.7 117 694-818 1-123 (124)
18 cd04719 BAH_Orc1p_animal BAH, 99.6 8.8E-16 1.9E-20 146.5 6.9 108 695-813 2-121 (128)
19 KOG0825 PHD Zn-finger protein 99.6 2.8E-16 6.1E-21 179.8 3.0 118 329-456 144-267 (1134)
20 KOG1886 BAH domain proteins [T 99.5 1.5E-15 3.3E-20 168.5 3.3 142 670-821 19-168 (464)
21 cd04711 BAH_Dnmt1_II BAH, or B 99.4 6.4E-14 1.4E-18 134.8 3.7 90 715-819 30-133 (137)
22 KOG1244 Predicted transcriptio 98.9 8.2E-10 1.8E-14 116.3 2.3 53 401-456 280-332 (336)
23 KOG1246 DNA-binding protein ju 98.7 1.8E-08 4E-13 121.6 8.2 141 401-562 154-310 (904)
24 PF00628 PHD: PHD-finger; Int 98.6 1E-08 2.2E-13 82.0 1.3 48 404-454 1-50 (51)
25 smart00249 PHD PHD zinc finger 98.4 2.9E-07 6.4E-12 70.2 3.6 46 404-452 1-47 (47)
26 KOG4299 PHD Zn-finger protein 98.3 2.6E-07 5.6E-12 106.3 1.8 51 403-456 254-306 (613)
27 KOG1512 PHD Zn-finger protein 98.2 4.5E-07 9.8E-12 96.5 2.0 48 403-455 315-363 (381)
28 KOG1973 Chromatin remodeling p 98.2 5.3E-07 1.2E-11 96.0 2.4 48 402-456 219-269 (274)
29 cd04718 BAH_plant_2 BAH, or Br 98.1 1.9E-06 4E-11 84.9 2.7 32 427-460 1-32 (148)
30 KOG1245 Chromatin remodeling c 97.9 2.6E-06 5.6E-11 106.9 -0.7 52 402-456 1108-1159(1404)
31 COG5034 TNG2 Chromatin remodel 97.9 6.4E-06 1.4E-10 86.9 2.2 47 401-454 220-269 (271)
32 KOG0955 PHD finger protein BR1 97.7 2.3E-05 4.9E-10 95.9 3.0 53 400-456 217-270 (1051)
33 KOG4443 Putative transcription 97.5 3.3E-05 7.1E-10 89.8 1.9 51 403-456 69-119 (694)
34 KOG0957 PHD finger protein [Ge 97.4 4.5E-05 9.7E-10 86.4 0.9 50 403-454 545-597 (707)
35 KOG0956 PHD finger protein AF1 97.4 6.4E-05 1.4E-09 87.7 2.0 62 403-468 6-75 (900)
36 KOG0954 PHD finger protein [Ge 97.4 5.7E-05 1.2E-09 88.7 1.5 51 401-455 270-321 (893)
37 COG5076 Transcription factor i 97.4 4.5E-05 9.7E-10 84.1 0.2 95 687-784 267-363 (371)
38 KOG0383 Predicted helicase [Ge 97.4 6E-05 1.3E-09 89.3 1.1 48 401-454 46-93 (696)
39 KOG4323 Polycomb-like PHD Zn-f 97.3 7.1E-05 1.5E-09 85.0 1.5 51 403-455 169-224 (464)
40 COG5141 PHD zinc finger-contai 97.3 7.9E-05 1.7E-09 84.4 1.6 50 402-455 193-243 (669)
41 PF13831 PHD_2: PHD-finger; PD 96.9 0.00027 5.8E-09 54.6 0.1 35 416-453 2-36 (36)
42 PF12678 zf-rbx1: RING-H2 zinc 93.7 0.012 2.6E-07 51.5 -1.1 24 329-352 50-73 (73)
43 PF13639 zf-RING_2: Ring finge 93.7 0.0092 2E-07 46.8 -1.8 24 329-352 21-44 (44)
44 KOG3554 Histone deacetylase co 93.1 0.16 3.4E-06 58.4 6.1 110 696-817 5-159 (693)
45 PHA02929 N1R/p28-like protein; 92.2 0.04 8.7E-07 58.6 -0.1 31 329-359 200-230 (238)
46 KOG1473 Nucleosome remodeling 92.0 0.085 1.8E-06 65.5 2.3 45 403-453 345-389 (1414)
47 KOG0957 PHD finger protein [Ge 90.8 0.2 4.2E-06 58.1 3.5 66 403-468 120-195 (707)
48 PF12861 zf-Apc11: Anaphase-pr 90.3 0.063 1.4E-06 49.2 -0.7 28 329-356 52-82 (85)
49 KOG0317 Predicted E3 ubiquitin 88.2 0.14 3.1E-06 55.8 -0.1 33 329-361 257-289 (293)
50 COG5194 APC11 Component of SCF 87.4 0.13 2.7E-06 47.0 -0.9 27 330-356 55-81 (88)
51 PF12861 zf-Apc11: Anaphase-pr 86.5 0.36 7.9E-06 44.4 1.6 46 405-455 35-80 (85)
52 PF15446 zf-PHD-like: PHD/FYVE 86.2 0.38 8.2E-06 49.2 1.6 66 404-469 1-75 (175)
53 KOG4628 Predicted E3 ubiquitin 85.1 0.62 1.3E-05 52.3 2.8 45 403-455 230-276 (348)
54 KOG0804 Cytoplasmic Zn-finger 85.1 0.31 6.8E-06 55.9 0.5 28 325-354 193-220 (493)
55 PHA02926 zinc finger-like prot 84.6 0.28 6E-06 52.2 -0.2 35 325-359 193-233 (242)
56 KOG0802 E3 ubiquitin ligase [P 84.5 0.21 4.6E-06 58.4 -1.2 28 329-356 314-341 (543)
57 PF14446 Prok-RING_1: Prokaryo 82.3 0.89 1.9E-05 38.7 2.0 34 402-435 5-38 (54)
58 KOG4443 Putative transcription 82.0 0.42 9.2E-06 56.9 -0.1 51 402-455 18-71 (694)
59 cd00162 RING RING-finger (Real 81.9 0.43 9.4E-06 35.5 -0.0 27 329-355 18-45 (45)
60 KOG1493 Anaphase-promoting com 81.1 0.28 6.1E-06 44.5 -1.5 27 330-356 52-81 (84)
61 COG5243 HRD1 HRD ubiquitin lig 80.5 0.46 1E-05 53.6 -0.4 26 329-354 318-343 (491)
62 KOG4628 Predicted E3 ubiquitin 77.3 0.98 2.1E-05 50.8 0.9 34 324-357 243-279 (348)
63 KOG1473 Nucleosome remodeling 77.2 0.6 1.3E-05 58.5 -0.9 59 395-458 421-482 (1414)
64 KOG4299 PHD Zn-finger protein 76.9 1.4 3.1E-05 52.4 2.1 48 402-455 47-95 (613)
65 KOG1512 PHD Zn-finger protein 76.6 0.71 1.5E-05 50.6 -0.4 53 402-454 258-316 (381)
66 PF10383 Clr2: Transcription-s 75.6 2.7 5.8E-05 41.4 3.3 26 685-710 1-26 (139)
67 KOG1632 Uncharacterized PHD Zn 74.8 1.4 3E-05 49.4 1.3 51 407-458 64-116 (345)
68 PF13920 zf-C3HC4_3: Zinc fing 73.1 0.68 1.5E-05 37.3 -1.3 31 328-358 19-50 (50)
69 KOG2930 SCF ubiquitin ligase, 69.8 1 2.2E-05 43.1 -1.1 31 326-356 75-108 (114)
70 smart00504 Ubox Modified RING 68.0 2.4 5.3E-05 34.9 0.9 32 328-359 18-49 (63)
71 PTZ00112 origin recognition co 65.6 9.1 0.0002 48.4 5.4 58 684-741 440-521 (1164)
72 KOG1701 Focal adhesion adaptor 62.4 3.5 7.6E-05 47.5 1.1 29 325-361 348-376 (468)
73 PF07227 DUF1423: Protein of u 59.5 6.6 0.00014 45.6 2.7 66 400-472 126-203 (446)
74 TIGR00599 rad18 DNA repair pro 56.6 7 0.00015 44.9 2.2 33 326-358 41-73 (397)
75 PF11793 FANCL_C: FANCL C-term 55.1 6.4 0.00014 34.5 1.3 52 403-455 3-64 (70)
76 KOG0320 Predicted E3 ubiquitin 54.7 3 6.5E-05 43.2 -0.9 28 329-356 151-178 (187)
77 COG5475 Uncharacterized small 53.1 25 0.00055 30.6 4.4 39 694-740 2-40 (60)
78 KOG1844 PHD Zn-finger proteins 52.3 8.7 0.00019 44.2 2.1 48 407-458 90-138 (508)
79 smart00744 RINGv The RING-vari 50.6 3.4 7.5E-05 34.0 -1.0 23 330-352 25-49 (49)
80 PLN03208 E3 ubiquitin-protein 49.0 6 0.00013 41.5 0.2 33 329-361 36-84 (193)
81 KOG0823 Predicted E3 ubiquitin 48.9 14 0.00031 39.7 2.9 74 401-484 46-125 (230)
82 KOG0956 PHD finger protein AF1 47.8 9.2 0.0002 46.5 1.4 52 403-454 118-179 (900)
83 KOG0383 Predicted helicase [Ge 47.6 20 0.00042 44.1 4.1 50 401-455 505-554 (696)
84 PF07649 C1_3: C1-like domain; 47.3 9 0.00019 28.3 0.8 28 404-432 2-29 (30)
85 PF13832 zf-HC5HC2H_2: PHD-zin 47.0 11 0.00024 34.8 1.6 31 402-435 55-87 (110)
86 KOG4367 Predicted Zn-finger pr 44.8 28 0.00061 40.6 4.5 79 325-432 110-190 (699)
87 TIGR00570 cdk7 CDK-activating 44.6 9.5 0.00021 42.6 0.8 56 328-384 25-85 (309)
88 PF13901 DUF4206: Domain of un 42.7 20 0.00042 37.4 2.7 43 402-455 152-198 (202)
89 KOG4265 Predicted E3 ubiquitin 41.0 8 0.00017 43.7 -0.4 27 333-359 313-339 (349)
90 smart00184 RING Ring finger. E 40.9 6.4 0.00014 28.0 -0.8 24 328-351 15-39 (39)
91 KOG1493 Anaphase-promoting com 40.2 5 0.00011 36.7 -1.7 46 405-455 34-79 (84)
92 COG5540 RING-finger-containing 40.0 11 0.00024 42.2 0.4 30 326-355 341-371 (374)
93 PF13639 zf-RING_2: Ring finge 39.7 9.1 0.0002 30.0 -0.2 43 404-453 2-44 (44)
94 PHA02862 5L protein; Provision 39.4 7.1 0.00015 39.5 -1.0 28 329-356 24-53 (156)
95 KOG1632 Uncharacterized PHD Zn 38.4 4.1 8.8E-05 45.8 -3.2 56 400-455 237-295 (345)
96 PF10367 Vps39_2: Vacuolar sor 37.3 23 0.00049 31.8 2.0 33 400-434 76-108 (109)
97 KOG1734 Predicted RING-contain 35.4 11 0.00023 41.6 -0.5 28 329-356 252-281 (328)
98 PF04564 U-box: U-box domain; 35.4 13 0.00029 32.5 0.1 43 330-379 23-66 (73)
99 PF14634 zf-RING_5: zinc-RING 35.0 11 0.00025 29.8 -0.3 25 329-353 20-44 (44)
100 KOG1244 Predicted transcriptio 34.7 11 0.00023 41.7 -0.6 53 402-455 224-284 (336)
101 PF09926 DUF2158: Uncharacteri 33.6 28 0.00061 29.6 1.8 38 697-737 1-38 (53)
102 KOG1952 Transcription factor N 33.0 13 0.00028 46.3 -0.4 55 401-457 190-247 (950)
103 KOG3612 PHD Zn-finger protein 31.9 32 0.00069 41.1 2.5 48 401-454 59-107 (588)
104 PF13923 zf-C3HC4_2: Zinc fing 30.8 9.3 0.0002 29.4 -1.4 23 329-351 17-39 (39)
105 PF00130 C1_1: Phorbol esters/ 30.8 43 0.00094 27.0 2.4 35 401-435 10-45 (53)
106 PRK14559 putative protein seri 28.8 44 0.00096 40.8 3.1 48 403-455 2-50 (645)
107 KOG4718 Non-SMC (structural ma 28.2 12 0.00026 40.0 -1.5 53 397-455 176-228 (235)
108 PF13771 zf-HC5HC2H: PHD-like 27.9 36 0.00078 30.2 1.6 30 403-435 37-68 (90)
109 PHA02825 LAP/PHD finger-like p 27.7 15 0.00032 37.7 -0.9 30 330-359 31-62 (162)
110 PLN03208 E3 ubiquitin-protein 27.6 34 0.00073 36.1 1.6 63 402-470 18-92 (193)
111 COG5219 Uncharacterized conser 27.3 18 0.00039 45.6 -0.5 27 330-356 1495-1523(1525)
112 COG1773 Rubredoxin [Energy pro 26.8 42 0.00091 29.0 1.7 41 403-454 4-44 (55)
113 TIGR00595 priA primosomal prot 26.2 39 0.00083 39.8 1.9 44 401-455 212-262 (505)
114 KOG0827 Predicted E3 ubiquitin 25.5 21 0.00045 41.2 -0.4 27 328-354 25-54 (465)
115 KOG1428 Inhibitor of type V ad 25.3 19 0.00041 47.3 -0.8 30 330-359 3508-3547(3738)
116 KOG4323 Polycomb-like PHD Zn-f 24.5 48 0.001 39.1 2.2 50 403-456 84-134 (464)
117 KOG1701 Focal adhesion adaptor 24.1 7.5 0.00016 45.0 -4.1 71 326-433 291-361 (468)
118 COG1107 Archaea-specific RecJ- 23.9 42 0.00092 40.7 1.7 50 403-455 54-104 (715)
119 KOG1080 Histone H3 (Lys4) meth 23.6 65 0.0014 41.3 3.3 50 402-454 573-623 (1005)
120 TIGR01206 lysW lysine biosynth 23.5 56 0.0012 28.0 1.9 44 404-447 4-52 (54)
121 PF15446 zf-PHD-like: PHD/FYVE 23.5 63 0.0014 33.7 2.6 20 416-435 122-141 (175)
122 KOG4217 Nuclear receptors of t 23.2 3.7E+02 0.0079 32.4 8.8 97 151-255 134-234 (605)
123 PF05191 ADK_lid: Adenylate ki 23.0 53 0.0011 25.8 1.5 28 419-454 2-29 (36)
124 KOG0827 Predicted E3 ubiquitin 22.9 22 0.00047 41.1 -0.8 46 403-453 5-52 (465)
125 PF05502 Dynactin_p62: Dynacti 22.8 43 0.00093 39.5 1.4 32 417-455 4-35 (483)
126 PRK14873 primosome assembly pr 22.3 56 0.0012 40.0 2.3 43 401-455 382-431 (665)
127 KOG1483 Zn2+ transporter ZNT1 21.8 98 0.0021 36.0 3.9 61 59-127 75-135 (404)
128 PF14444 S1-like: S1-like 21.8 87 0.0019 27.4 2.7 42 673-714 4-51 (58)
129 KOG0824 Predicted E3 ubiquitin 21.5 83 0.0018 35.5 3.2 33 327-359 23-56 (324)
130 PF04641 Rtf2: Rtf2 RING-finge 21.1 62 0.0013 34.8 2.1 37 325-362 131-167 (260)
131 TIGR00110 ilvD dihydroxy-acid 20.9 95 0.0021 37.4 3.7 57 62-118 181-240 (535)
132 PF09345 DUF1987: Domain of un 20.9 51 0.0011 31.2 1.3 25 717-741 65-89 (99)
133 KOG1829 Uncharacterized conser 20.7 28 0.00062 41.9 -0.5 46 402-456 511-560 (580)
134 smart00109 C1 Protein kinase C 20.6 45 0.00097 25.8 0.7 34 402-435 11-44 (49)
135 PF02771 Acyl-CoA_dh_N: Acyl-C 20.3 91 0.002 27.8 2.7 51 81-132 1-55 (113)
136 PHA02929 N1R/p28-like protein; 20.2 51 0.0011 35.7 1.3 48 402-455 174-225 (238)
No 1
>cd04714 BAH_BAHCC1 BAH, or Bromo Adjacent Homology domain, as present in mammalian BAHCC1 and similar proteins. BAHCC1 stands for BAH domain and coiled-coil containing 1. 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=99.94 E-value=2.4e-27 Score=221.84 Aligned_cols=118 Identities=20% Similarity=0.374 Sum_probs=104.4
Q ss_pred CEEEeecCEEEEecCCCCCCh--hhhhhhhccCCCCceEEEeeeeccCCCCCCccCCCCCCCcccccccCCccccccccc
Q 003406 694 GVTYKVKDHVLLHSSNNKLMP--SKLQTMWEDTGTGSKWVMVNRCFFPGDLPEAVGCPCAPESNELYESNNESSVMAGLI 771 (823)
Q Consensus 694 GetyrvgDcVLl~S~~~~~~P--akI~~lWE~~~sG~~~v~v~WYYrPE~t~~~~grp~~~~~NEVf~S~H~D~n~Va~I 771 (823)
|++|+|||||+|++++++.+| |+|.+|||+ .+|++|++++||||||||.+ ||...+.+||||.|+|+|+|++.+|
T Consensus 1 ~~~~~vGD~V~v~~~~~~~~pyIgrI~~i~e~-~~g~~~~~v~WfyrPeEt~~--~~~~~~~~~EvF~S~~~d~~~~~~I 77 (121)
T cd04714 1 KEIIRVGDCVLFKSPGRPSLPYVARIESLWED-PEGNMVVRVKWYYRPEETKG--GRKPNHGEKELFASDHQDENSVQTI 77 (121)
T ss_pred CCEEEcCCEEEEeCCCCCCCCEEEEEEEEEEc-CCCCEEEEEEEEEcHHHccC--cccccCCCCceEecCCcccccHHHh
Confidence 789999999999999887888 999999997 46999999999999999976 4555899999999999999999999
Q ss_pred ccceEEeCcchhhhhHHHhhhcCCCCCCCCCCeEEEeeeeecccCccc
Q 003406 772 RGPCEVLPPGKFKEENERLNHLGNEANKGRHPVFLCQWFYDELKGVFR 819 (823)
Q Consensus 772 egKC~Vl~f~ry~~~~~rr~~~g~~~~~~~~p~F~Cr~~Yd~~~~~f~ 819 (823)
.|||.|+++.+|.++..++ +......++|+|+..||+.+..++
T Consensus 78 ~gkc~V~~~~ey~~~~~~~-----~~~~~~~d~~~Ce~~yn~~~~~~~ 120 (121)
T cd04714 78 EHKCYVLTFAEYERLARVK-----KKPQDGVDFYYCAGTYNPDTGMLK 120 (121)
T ss_pred CcccEEEehhHheeccccc-----CCCCcCCCEEEEeccCCCCcCccc
Confidence 9999999999997666553 233457779999999999998876
No 2
>cd04717 BAH_polybromo BAH, or Bromo Adjacent Homology domain, as present in polybromo and yeast RSC1/2. The human polybromo protein (BAF180) is a component of the SWI/SNF chromatin-remodeling complex PBAF. It is thought that polybromo participates in transcriptional regulation. Saccharomyces cerevisiae RSC1 and RSC2 are part of the 15-subunit nucleosome remodeling RSC complex. 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=99.93 E-value=1.1e-26 Score=215.79 Aligned_cols=118 Identities=20% Similarity=0.399 Sum_probs=103.4
Q ss_pred CEEEeecCEEEEecCCCCCCh--hhhhhhhccCCCCceEEEeeeeccCCCCCCccCCCCCCCcccccccCCccccccccc
Q 003406 694 GVTYKVKDHVLLHSSNNKLMP--SKLQTMWEDTGTGSKWVMVNRCFFPGDLPEAVGCPCAPESNELYESNNESSVMAGLI 771 (823)
Q Consensus 694 GetyrvgDcVLl~S~~~~~~P--akI~~lWE~~~sG~~~v~v~WYYrPE~t~~~~grp~~~~~NEVf~S~H~D~n~Va~I 771 (823)
|..||+||||+|++++++..| |+|.+||++. +|.+|+.+.||||||||.+..++ .+++||||.|.|.|+|++++|
T Consensus 1 g~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~-~g~~~~~~~Wf~rP~et~~~~~~--~~~~~Evfls~~~d~~~~~~I 77 (121)
T cd04717 1 GLQYRVGDCVYVANPEDPSKPIIFRIERLWKDE-DGEKFFFGCWFYRPEETFHEPTR--KFYKNEVFKSPLYETVPVEEI 77 (121)
T ss_pred CCEEECCCEEEEeCCCCCCCCEEEEEeEEEECC-CCCEEEEEEEEeChHHccCCCcc--ccccCceEEcCccccccHHHh
Confidence 688999999999999987888 9999999985 69999999999999999875554 789999999999999999999
Q ss_pred ccceEEeCcchhhhhHHHhhhcCCCCCCCCCCeEEEeeeeecccCccccCC
Q 003406 772 RGPCEVLPPGKFKEENERLNHLGNEANKGRHPVFLCQWFYDELKGVFRPVS 822 (823)
Q Consensus 772 egKC~Vl~f~ry~~~~~rr~~~g~~~~~~~~p~F~Cr~~Yd~~~~~f~~v~ 822 (823)
.|||.||++.+|++. .+......++|+||..||+.++.|.||=
T Consensus 78 ~~kc~Vl~~~~y~~~--------~p~~~~~~dvy~ce~~y~~~~~~~~~~k 120 (121)
T cd04717 78 VGKCAVMDVKDYIKG--------RPTEISEEDVYVCESRYNESAKSFKKIK 120 (121)
T ss_pred cCeeEEEehHHHhcC--------CCCCCCCCCEEEEeEEECcccccEeccc
Confidence 999999999999433 1222233479999999999999999974
No 3
>cd04715 BAH_Orc1p_like BAH, or Bromo Adjacent Homology domain, as present in the Schizosaccharomyces pombe homolog of Saccharomyces cerevisiae Orc1p and similar proteins. Orc1 is part of the Yeast Sir1-origin recognition complex, the Orc1p BAH doman functions in epigenetic silencing. 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=99.92 E-value=6.1e-26 Score=222.38 Aligned_cols=132 Identities=23% Similarity=0.328 Sum_probs=104.4
Q ss_pred EEccceeEEecCeeeEEEEEECCEEEeecCEEEEecCCCCCCh--hhhhhhhccC-CCCceEEEeeeeccCCCCCCccCC
Q 003406 672 QWIGDVLQIVDGKKFYQSCRIGGVTYKVKDHVLLHSSNNKLMP--SKLQTMWEDT-GTGSKWVMVNRCFFPGDLPEAVGC 748 (823)
Q Consensus 672 ~W~G~~~qvv~~k~~Y~~~~~~GetyrvgDcVLl~S~~~~~~P--akI~~lWE~~-~sG~~~v~v~WYYrPE~t~~~~gr 748 (823)
.|.|.|.|..+++ ||+++.++|++|++||||||++++ .+| |+|.+|||+. ++|.++++|.|||||+||+....+
T Consensus 6 ~~~g~~~~~~~~~-~Y~s~~~~g~~y~lGD~Vlv~s~~--~~~yIgkI~~iwe~~~~~g~~~~~v~WfyRp~E~~~~~~~ 82 (159)
T cd04715 6 VKRGEGGKKKDGQ-FYRSFTYDGVEYRLYDDVYVHNGD--SEPYIGKIIKIYETAIDSGKKKVKVIWFFRPSEIRMELKG 82 (159)
T ss_pred eecccccccCCce-EEEEEEECCEEEeCCCEEEEeCCC--CCCEEEEEEEEEEcCCcCCceEEEEEeeeCHHHhcccccc
Confidence 5999999997766 999999999999999999999865 677 9999999964 239999999999999999864433
Q ss_pred CCCCCcccccccCCcc-----cccccccccceEEeCcchhhhhHHHhhhcCCCCCCCCCCeEEEeee
Q 003406 749 PCAPESNELYESNNES-----SVMAGLIRGPCEVLPPGKFKEENERLNHLGNEANKGRHPVFLCQWF 810 (823)
Q Consensus 749 p~~~~~NEVf~S~H~D-----~n~Va~IegKC~Vl~f~ry~~~~~rr~~~g~~~~~~~~p~F~Cr~~ 810 (823)
...+++||||.|.|+| +|++++|.|||+||++++|. |.-+.......+..++|.|.|.
T Consensus 83 ~~~~~~nEvFlS~~~d~~~~~~n~l~sI~gKC~Vl~~~ey~----~~~~~s~~~~~~~~~~f~~~f~ 145 (159)
T cd04715 83 EPKRHINEVFLACGRGEGLANINLLESIIGKCNVVCISEDF----RNPQPSDGIPTSADFLFPCNFD 145 (159)
T ss_pred CcccCCCcEEEecCcCccccccCcHHHccceeEEEEehHhh----hCCCCcCCccccCcceeeeEEE
Confidence 3467899999999974 57888999999999999992 1111111223344447777653
No 4
>cd04713 BAH_plant_3 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=99.91 E-value=3.5e-25 Score=213.68 Aligned_cols=128 Identities=24% Similarity=0.360 Sum_probs=108.5
Q ss_pred cCeeeEEEEEECCEEEeecCEEEEecCCCCCCh--hhhhhhhccCCCCceEEEeeeeccCCCCCCccCCCC-CCCccccc
Q 003406 682 DGKKFYQSCRIGGVTYKVKDHVLLHSSNNKLMP--SKLQTMWEDTGTGSKWVMVNRCFFPGDLPEAVGCPC-APESNELY 758 (823)
Q Consensus 682 ~~k~~Y~~~~~~GetyrvgDcVLl~S~~~~~~P--akI~~lWE~~~sG~~~v~v~WYYrPE~t~~~~grp~-~~~~NEVf 758 (823)
.+|++|+++.++|++|+|||||||++++. .+| |+|..||++. +|.++|+|.|||||+|+....++.. .+.+||||
T Consensus 6 ~~~~~y~s~~~dg~~y~vgD~Vlv~~~~~-~~pyI~~I~~i~~~~-~~~~~v~V~WFyRpeEi~~~~~~~~~~~~~~ElF 83 (146)
T cd04713 6 KKKCHYTSFEKDGNKYRLEDCVLLVPEDD-QKPYIAIIKDIYKQE-EGSLKLEVQWLYRPEEIEKKKGGNWKAEDPRELF 83 (146)
T ss_pred cceeeeeeEEECCEEEECCCEEEEeCCCC-CCCEEEEEEEEEEcC-CCCEEEEEEeeECHHHhccccccccccCCCCeEE
Confidence 36999999999999999999999998777 778 9999999975 5999999999999999986444322 34589999
Q ss_pred ccCCcccccccccccceEEeCcchhhhhHHHhhhcCCCCCCCCCCeEEEeeeeecccCccccC
Q 003406 759 ESNNESSVMAGLIRGPCEVLPPGKFKEENERLNHLGNEANKGRHPVFLCQWFYDELKGVFRPV 821 (823)
Q Consensus 759 ~S~H~D~n~Va~IegKC~Vl~f~ry~~~~~rr~~~g~~~~~~~~p~F~Cr~~Yd~~~~~f~~v 821 (823)
.|.|.|++++.+|.|||+|+.+.+|.++..+ ...++||||+.||..++.|-.+
T Consensus 84 ~S~~~d~~~~~~I~gkc~V~~~~~~~~~~~~----------~~~~~F~cr~~yD~~~~~~~~~ 136 (146)
T cd04713 84 YSFHRDEVPAESVLHPCKVAFVPKGKQIPLR----------KGHSGFIVRRVYDNVNKKLWKL 136 (146)
T ss_pred EeCCCCcCCHHHCcceeEEEECCccccCCcc----------CCCCeEEEEEEEcCCCCcEeec
Confidence 9999999999999999999988777443221 1345899999999999988765
No 5
>cd04370 BAH BAH, or Bromo Adjacent Homology domain (also called ELM1 and BAM for Bromo Adjacent Motif). BAH domains have first been described as domains found in the polybromo protein and Yeast Rsc1/Rsc2 (Remodeling of the Structure of Chromatin). They also occur in mammalian DNA methyltransferases and the MTA1 subunits of histone deacetylase complexes. A BAH domain is also found in Yeast Sir3p and in the origin receptor complex protein 1 (Orc1p), where it was found to interact with the N-terminal lobe of the silence information regulator 1 protein (Sir1p), confirming the initial hypothesis that BAH plays a role in protein-protein interactions.
Probab=99.89 E-value=6.3e-24 Score=191.42 Aligned_cols=118 Identities=29% Similarity=0.513 Sum_probs=101.6
Q ss_pred CEEEeecCEEEEecCCC--CCCh--hhhhhhhccCCCCceEEEeeeeccCCCCCCccCCCCCCCcccccccCCccccccc
Q 003406 694 GVTYKVKDHVLLHSSNN--KLMP--SKLQTMWEDTGTGSKWVMVNRCFFPGDLPEAVGCPCAPESNELYESNNESSVMAG 769 (823)
Q Consensus 694 GetyrvgDcVLl~S~~~--~~~P--akI~~lWE~~~sG~~~v~v~WYYrPE~t~~~~grp~~~~~NEVf~S~H~D~n~Va 769 (823)
|.+|++||||+|++++. ...| |+|..||++. .|.+||+|+|||||+||++... ..+.+||||.|+|.|++.|.
T Consensus 1 g~~y~vgd~V~v~~~~~~~~~~~~i~~I~~i~~~~-~~~~~~~v~wf~rp~e~~~~~~--~~~~~~Elf~s~~~~~i~v~ 77 (123)
T cd04370 1 GITYEVGDSVYVEPDDSIKSDPPYIARIEELWEDT-NGSKQVKVRWFYRPEETPKGLS--PFALRRELFLSDHLDEIPVE 77 (123)
T ss_pred CCEEecCCEEEEecCCcCCCCCCEEEEEeeeeECC-CCCEEEEEEEEEchhHhccccc--cccccceeEEecCccccCHH
Confidence 78999999999999886 4556 9999999974 6999999999999999987543 36889999999999999999
Q ss_pred ccccceEEeCcchhhhhHHHhhhcCCCCCCCCCCeEEEeeeeecccCccccC
Q 003406 770 LIRGPCEVLPPGKFKEENERLNHLGNEANKGRHPVFLCQWFYDELKGVFRPV 821 (823)
Q Consensus 770 ~IegKC~Vl~f~ry~~~~~rr~~~g~~~~~~~~p~F~Cr~~Yd~~~~~f~~v 821 (823)
+|.|||.|+++.+|.+... .......++||||+.||..++.|.++
T Consensus 78 ~I~gkc~V~~~~~~~~~~~-------~~~~~~~~~f~~r~~yd~~~~~fk~~ 122 (123)
T cd04370 78 SIIGKCKVLFVSEFEGLKQ-------RPNKIDTDDFFCRLAYDPTTKEFKAL 122 (123)
T ss_pred HhccccEEEechHhhcccc-------ccccCCCCeEEEEEEECcCcceEEeC
Confidence 9999999999999954433 22334667999999999999999876
No 6
>cd04721 BAH_plant_1 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=99.88 E-value=2e-23 Score=198.45 Aligned_cols=116 Identities=22% Similarity=0.271 Sum_probs=99.0
Q ss_pred EEECCEEEeecCEEEEecCCCCCCh--hhhhhhhccCCCCceEEEeeeeccCCCCCCccCCCCCCCcccccccCCccccc
Q 003406 690 CRIGGVTYKVKDHVLLHSSNNKLMP--SKLQTMWEDTGTGSKWVMVNRCFFPGDLPEAVGCPCAPESNELYESNNESSVM 767 (823)
Q Consensus 690 ~~~~GetyrvgDcVLl~S~~~~~~P--akI~~lWE~~~sG~~~v~v~WYYrPE~t~~~~grp~~~~~NEVf~S~H~D~n~ 767 (823)
++|+|.+|+||||||+++.+ ..| |+|+.||++ .+|.+||.+.|||||+++.+...+.+ +.+||||.|.|.|+++
T Consensus 1 ~~r~~~~i~vGD~V~v~~~~--~~~~va~Ie~i~ed-~~g~~~v~v~WF~~p~E~~~~~~~~~-~~~~EvFlS~~~d~i~ 76 (130)
T cd04721 1 FCRNGVTISVHDFVYVLSEE--EDRYVAYIEDLYED-KKGSKMVKVRWFHTTDEVGAALSPDS-VNPREIFLSPNLQVIS 76 (130)
T ss_pred CccCCEEEECCCEEEEeCCC--CCcEEEEEEEEEEc-CCCCEEEEEEEecCHHHhccccCCCC-CCCCeEEEcCCccccc
Confidence 47999999999999999866 556 999999998 57999999999999999988544322 8999999999999999
Q ss_pred ccccccceEEeCcchhhhhHHHhhhcCCCCCCCCCCeEEEeeeeeccc
Q 003406 768 AGLIRGPCEVLPPGKFKEENERLNHLGNEANKGRHPVFLCQWFYDELK 815 (823)
Q Consensus 768 Va~IegKC~Vl~f~ry~~~~~rr~~~g~~~~~~~~p~F~Cr~~Yd~~~ 815 (823)
+.||.|||.||++.+|.+..... .......+|+||+.||...
T Consensus 77 ~~~I~gk~~Vls~~~y~k~~~~~------~~~~~~~~f~C~~~~d~~~ 118 (130)
T cd04721 77 VECIDGLATVLTREHYEKFQSVP------KNSSELQAYFCYRQIDNNK 118 (130)
T ss_pred hHHeeeeeEECCHHHHhhhhccc------cCccccccEEEEEEecCCC
Confidence 99999999999999996555432 1225667999999999864
No 7
>PF01426 BAH: BAH domain; InterPro: IPR001025 The BAH (bromo-adjacent homology) family contains proteins such as eukaryotic DNA (cytosine-5) methyltransferases IPR001525 from INTERPRO, the origin recognition complex 1 (Orc1) proteins, as well as several proteins involved in transcriptional regulation. The BAH domain appears to act as a protein-protein interaction module specialised in gene silencing, as suggested for example by its interaction within yeast Orc1p with the silent information regulator Sir1p. The BAH module might therefore play an important role by linking DNA methylation, replication and transcriptional regulation [].; GO: 0003677 DNA binding; PDB: 4DA4_A 3PT6_B 3AV6_A 3AV5_A 3AV4_A 3PT9_A 3SWR_A 3PTA_A 1M4Z_A 1ZBX_A ....
Probab=99.88 E-value=1.3e-23 Score=190.37 Aligned_cols=115 Identities=28% Similarity=0.515 Sum_probs=97.0
Q ss_pred EEEeecCEEEEecCCCCCCh--hhhhhhhccCCCC-ceEEEeeeeccCCCCCCccCCCCCCCcccccccCCccccccccc
Q 003406 695 VTYKVKDHVLLHSSNNKLMP--SKLQTMWEDTGTG-SKWVMVNRCFFPGDLPEAVGCPCAPESNELYESNNESSVMAGLI 771 (823)
Q Consensus 695 etyrvgDcVLl~S~~~~~~P--akI~~lWE~~~sG-~~~v~v~WYYrPE~t~~~~grp~~~~~NEVf~S~H~D~n~Va~I 771 (823)
++|++||||+++++++...| |+|..||++...+ ++|+.|+|||||++|. .+ ....+||||.|+|.|++++++|
T Consensus 1 ~~~~vGD~V~v~~~~~~~~~~v~~I~~i~~~~~~~~~~~~~v~Wf~rp~d~~--~~--~~~~~~Elf~s~~~~~~~~~~I 76 (119)
T PF01426_consen 1 VTYKVGDFVYVKPDDPPEPPYVARIEEIWEDKDGNKEKMVKVRWFYRPEDTS--LG--KTFSPRELFLSDHCDDIPVESI 76 (119)
T ss_dssp EEEETTSEEEEECTSTTSEEEEEEEEEEEEETTTSEEEEEEEEEEEEGGGST--TG--GHSCTTEEEEEEEEEEEEGGGE
T ss_pred CEEeCCCEEEEeCCCCCCCCEEEEEEEEEcCCCCCEEEEEEEEEeECccccc--cc--ccCCCCEEEEECcEeEEehhhE
Confidence 68999999999999987778 9999999986555 5999999999999982 22 2445699999999999999999
Q ss_pred ccceEEeCcchhhhhHHHhhhcCCCCCCCCCCeEEEeeeeecccCccccC
Q 003406 772 RGPCEVLPPGKFKEENERLNHLGNEANKGRHPVFLCQWFYDELKGVFRPV 821 (823)
Q Consensus 772 egKC~Vl~f~ry~~~~~rr~~~g~~~~~~~~p~F~Cr~~Yd~~~~~f~~v 821 (823)
.|||.|++...|.+...... . ....||||+.||+.++.|.++
T Consensus 77 ~gkc~V~~~~~~~~~~~~~~-------~-~~~~F~cr~~yd~~~~~f~~~ 118 (119)
T PF01426_consen 77 RGKCNVLHLEDYEQARPYGK-------E-EPDTFFCRYAYDPQKKRFKKL 118 (119)
T ss_dssp EEEEEEEEHHHHTTGCCHCH-------H-TTTEEEEEEEEETTTTEEEE-
T ss_pred EeeeEEEECCcccccccccc-------C-CCCEEEEEEEEeCCcCEEeCC
Confidence 99999999999955443331 2 456999999999999999875
No 8
>smart00439 BAH Bromo adjacent homology domain.
Probab=99.87 E-value=8.4e-23 Score=184.96 Aligned_cols=116 Identities=26% Similarity=0.424 Sum_probs=98.3
Q ss_pred EEeecCEEEEecCCCCCCh--hhhhhhhccCCCCc-eEEEeeeeccCCCCCCccCCCCCCCcccccccCCcccccccccc
Q 003406 696 TYKVKDHVLLHSSNNKLMP--SKLQTMWEDTGTGS-KWVMVNRCFFPGDLPEAVGCPCAPESNELYESNNESSVMAGLIR 772 (823)
Q Consensus 696 tyrvgDcVLl~S~~~~~~P--akI~~lWE~~~sG~-~~v~v~WYYrPE~t~~~~grp~~~~~NEVf~S~H~D~n~Va~Ie 772 (823)
+|++||||++++.....++ |+|..||++. .|. +|+.|.|||||+||++...+ .+.+||||.|+|.|++.+.+|.
T Consensus 1 ~~~vgd~V~v~~~~~~~~~~i~~I~~i~~~~-~~~~~~~~v~Wf~rp~e~~~~~~~--~~~~~Elf~s~~~~~i~~~~I~ 77 (120)
T smart00439 1 TIRVGDFVLVEPDDADEPYYIGRIEEIFETK-KNSEKMVRVRWFYRPEETVLEKAA--LFDKNEVFLSDEYDTVPLSDII 77 (120)
T ss_pred CcccCCEEEEeCCCCCCCCEEEEEEEEEECC-CCCEEEEEEEEEEChhhccccccc--cCCCcceEEEccCccCChHHee
Confidence 4899999999999865666 9999999985 566 89999999999999875443 6789999999999999999999
Q ss_pred cceEEeCcchhhhhHHHhhhcCCCCCCCCCCeEEEeeeeecccCccccC
Q 003406 773 GPCEVLPPGKFKEENERLNHLGNEANKGRHPVFLCQWFYDELKGVFRPV 821 (823)
Q Consensus 773 gKC~Vl~f~ry~~~~~rr~~~g~~~~~~~~p~F~Cr~~Yd~~~~~f~~v 821 (823)
|||.|+++..|.+... .......++||||+.||..++.|.++
T Consensus 78 ~kc~V~~~~~~~~~~~-------~~~~~~~~~f~cr~~yd~~~~~f~~~ 119 (120)
T smart00439 78 GKCNVLSKSDYPGLRP-------EGKIGEPDVFFCESLYDPEKGAFKKL 119 (120)
T ss_pred eEEEEEEcchhccccc-------ccCCCCCCeEEEEEEEccccCcccCC
Confidence 9999999999944221 11123567999999999999999876
No 9
>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=99.85 E-value=2.1e-22 Score=195.18 Aligned_cols=92 Identities=25% Similarity=0.510 Sum_probs=82.2
Q ss_pred hhhhhhhccCCCCceEEEeeeeccCCCCCCccCCCCCCCcccccccCCcccccccccccceEEeCcchhhhhHHHhhhcC
Q 003406 715 SKLQTMWEDTGTGSKWVMVNRCFFPGDLPEAVGCPCAPESNELYESNNESSVMAGLIRGPCEVLPPGKFKEENERLNHLG 794 (823)
Q Consensus 715 akI~~lWE~~~sG~~~v~v~WYYrPE~t~~~~grp~~~~~NEVf~S~H~D~n~Va~IegKC~Vl~f~ry~~~~~rr~~~g 794 (823)
|+|++||++. |++||.++||||||+|.+ ||..+|++.|||.|+|+|++++.+|.|||.|++|.+|..
T Consensus 56 ArIekiW~~~--G~~~~~grWy~rPEET~~--gr~~~~~~kEvFlS~~~d~~~~~~I~gkC~V~~~keY~k--------- 122 (148)
T cd04718 56 ARIEKLWEEN--GTYWYAARWYTLPEETHM--GRQPHNLRRELYLTNDFADIEMECILRHCSVKCPKEFRD--------- 122 (148)
T ss_pred HHHHHHHhcc--CceEEEEEEEeCchhccC--ccccccccceeeeccccccccHHHHhcccEEcCHHHccc---------
Confidence 9999999974 999999999999999887 677799999999999999999999999999999999942
Q ss_pred CCCCCCCCCeEEEeeeeecccCccccC
Q 003406 795 NEANKGRHPVFLCQWFYDELKGVFRPV 821 (823)
Q Consensus 795 ~~~~~~~~p~F~Cr~~Yd~~~~~f~~v 821 (823)
......++||||+.||++++.|.++
T Consensus 123 --~e~~g~Dvy~Ce~~Yd~~~~~Fkr~ 147 (148)
T cd04718 123 --ASNDGDDVFLCEYEYDVHWQSFKRL 147 (148)
T ss_pred --ccCCCCceEEEEEEEhhhcCceeec
Confidence 1123455999999999999999876
No 10
>cd04716 BAH_plantDCM_I BAH, or Bromo Adjacent Homology domain, first copy present in DNA (Cytosine-5)-methyltransferases (DCM) from plants. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. 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=99.85 E-value=5.5e-22 Score=187.20 Aligned_cols=117 Identities=11% Similarity=0.180 Sum_probs=98.2
Q ss_pred CEEEeecCEEEEecCCCCCCh--hhhhhhhccCCCCceEEEeeeeccCCCCCCccCC-CCCCCcccccccCCcccccccc
Q 003406 694 GVTYKVKDHVLLHSSNNKLMP--SKLQTMWEDTGTGSKWVMVNRCFFPGDLPEAVGC-PCAPESNELYESNNESSVMAGL 770 (823)
Q Consensus 694 GetyrvgDcVLl~S~~~~~~P--akI~~lWE~~~sG~~~v~v~WYYrPE~t~~~~gr-p~~~~~NEVf~S~H~D~n~Va~ 770 (823)
|..|++||||++++++. .+| |||.+|||+ .+|.+|+++.||||||||.. || +..+..+|||.|+|+|+|++.|
T Consensus 1 g~~~~lgD~V~v~~~~~-~~~yi~rI~~i~e~-~~g~~~~~v~WyyRpeet~~--~r~~~~~~~rEvFlS~~~D~~pl~~ 76 (122)
T cd04716 1 GITYNLGDDAYVQGGEG-EEPFICKITEFFEG-TDGKTYFTAQWFYRAEDTVI--ERQATNHDKKRVFYSEIKNDNPLDC 76 (122)
T ss_pred CcEEEcCCEEEEECCCC-CCCEEEEEEEEEEc-CCCceEEEEEEEEcHHHhcc--ccccccCCCceEEEecccCccchhh
Confidence 78899999999999975 666 999999997 68999999999999999876 55 3578899999999999999999
Q ss_pred cccceEEeCcchhhhhHHHhhhcCCCCCCCCCCeEEEeeeeecccCccccC
Q 003406 771 IRGPCEVLPPGKFKEENERLNHLGNEANKGRHPVFLCQWFYDELKGVFRPV 821 (823)
Q Consensus 771 IegKC~Vl~f~ry~~~~~rr~~~g~~~~~~~~p~F~Cr~~Yd~~~~~f~~v 821 (823)
|.+||.|+++..+..+-. .+......+|||++.|+..=.-|..+
T Consensus 77 I~~Kc~V~~~~~~~~~~~-------~~~~~~~~df~c~~~Y~~~~~tF~~~ 120 (122)
T cd04716 77 LISKVKILQVPPNVGTKR-------KKPNSEKCDYYYDMEYCVPYSTFQTL 120 (122)
T ss_pred eeeeeEEEEeCCCCCccc-------ccccCCCceEEEeeEeccchhheEeC
Confidence 999999999988844322 12233455999999999987777543
No 11
>cd04709 BAH_MTA BAH, or Bromo Adjacent Homology domain, as present in MTA1 and similar proteins. The Metastasis-associated protein MTA1 is part of the NURD (nucleosome remodeling and deacetylating) complex and plays a role in cellular transformation and metastasis. 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=99.83 E-value=4e-21 Score=189.45 Aligned_cols=117 Identities=21% Similarity=0.250 Sum_probs=96.3
Q ss_pred EEEeecCEEEEecCCCCCCh--hhhhhhhccCCCCceEEEeeeeccCCCCCCc------cCCC--------------CCC
Q 003406 695 VTYKVKDHVLLHSSNNKLMP--SKLQTMWEDTGTGSKWVMVNRCFFPGDLPEA------VGCP--------------CAP 752 (823)
Q Consensus 695 etyrvgDcVLl~S~~~~~~P--akI~~lWE~~~sG~~~v~v~WYYrPE~t~~~------~grp--------------~~~ 752 (823)
.+|||||||+|.+++ ..++ ++|..||++ ++|.++|+|+|||||+|++.. .+|. ...
T Consensus 2 ~~yrvGD~Vy~~~~~-~~Py~I~rI~e~~~~-~~~~~~vkV~wfYRp~DI~~~~~~l~~~~r~~~~~~~~~~~~~~~~~~ 79 (164)
T cd04709 2 NMYRVGDYVYFESSP-NNPYLIRRIEELNKT-ARGHVEAKVVCYYRRRDIPDSLYQLADQHRRELEEKSDDLTPKQRHQL 79 (164)
T ss_pred cEEecCCEEEEECCC-CCCCEEEEEEEEEeC-CCCCEEEEEEEEEChhHccchhhhhcccccccccccccccchhhhhcc
Confidence 589999999999993 2334 999999996 589999999999999998653 2222 124
Q ss_pred CcccccccCCcccccccccccceEEeCcchhhhhHHHhhhcCCCCCCCCCCeEEEeeeeecccCccccCC
Q 003406 753 ESNELYESNNESSVMAGLIRGPCEVLPPGKFKEENERLNHLGNEANKGRHPVFLCQWFYDELKGVFRPVS 822 (823)
Q Consensus 753 ~~NEVf~S~H~D~n~Va~IegKC~Vl~f~ry~~~~~rr~~~g~~~~~~~~p~F~Cr~~Yd~~~~~f~~v~ 822 (823)
...|||.|.|.|.++|++|+|||.|+++.+|..+.... ....+|||+..||+.++.|...=
T Consensus 80 ~~rELF~S~~~d~~p~~~IrGKC~V~~~~d~~~l~~~~---------~~~d~Ff~~~~YDP~~k~l~~~~ 140 (164)
T cd04709 80 RHRELFLSRQVETLPATHIRGKCSVTLLNDTESARSYL---------AREDTFFYSLVYDPEQKTLLADQ 140 (164)
T ss_pred CcceeEEecccccccHHHeeeeEEEEEehhhhhhhhcc---------CCCCEEEEEEEECCCCCeecccc
Confidence 58999999999999999999999999999997763332 34569999999999999997643
No 12
>cd04720 BAH_Orc1p_Yeast BAH, or Bromo Adjacent Homology domain, as present in Orc1p, which again is part of the Saccharomyces cerevisiae Sir1-origin recognition complex, and as present in Sir3p. The Orc1p BAH doman functions in epigenetic silencing. 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=99.80 E-value=4.5e-20 Score=183.98 Aligned_cols=124 Identities=18% Similarity=0.144 Sum_probs=101.6
Q ss_pred EEEE-CCEEEeecCEEEEecCCCCCCh--hhhhhhhccCCCCceEEEeeeeccCCCCCCccCCCCCCC-------ccccc
Q 003406 689 SCRI-GGVTYKVKDHVLLHSSNNKLMP--SKLQTMWEDTGTGSKWVMVNRCFFPGDLPEAVGCPCAPE-------SNELY 758 (823)
Q Consensus 689 ~~~~-~GetyrvgDcVLl~S~~~~~~P--akI~~lWE~~~sG~~~v~v~WYYrPE~t~~~~grp~~~~-------~NEVf 758 (823)
.... ||..|+|||||||+++.. ..| |.|..+|++..++.+.+.|.|||||++.........++. +||||
T Consensus 44 l~R~~d~~~~~vGD~Vlik~~~~-~~~~V~iI~ei~~~~~~~~v~i~v~Wy~r~~Ei~~~~~~~~~~~~~~~~~~~nElf 122 (179)
T cd04720 44 LARDSDGLELSVGDTILVKDDVA-NSPSVYLIHEIRLNTLNNEVELWVMWFLRWFEINPARYYKQFDPEFRSESNKNELY 122 (179)
T ss_pred EEEccCCeEEeCCCEEEEeCCCC-CCCEEEEEEEEEeCCCCCEEEEEEEEcCCHHHcccccccccccchhcccCCCceEE
Confidence 3444 999999999999999876 666 999999998655778999999999999865443223444 89999
Q ss_pred ccCCcccccccccccceEEeCcchhhhhHHHhhhcCCCCCCCCCCeEEEeeeeecccCccccC
Q 003406 759 ESNNESSVMAGLIRGPCEVLPPGKFKEENERLNHLGNEANKGRHPVFLCQWFYDELKGVFRPV 821 (823)
Q Consensus 759 ~S~H~D~n~Va~IegKC~Vl~f~ry~~~~~rr~~~g~~~~~~~~p~F~Cr~~Yd~~~~~f~~v 821 (823)
.|.|.|++.+.+|.|||.||++.+|.++.... ....-.||||+.||+.++.|.++
T Consensus 123 lT~~~d~i~l~~Ii~k~~Vls~~ef~~~~~~~--------~~~~~~F~cR~~~d~~~~~F~~~ 177 (179)
T cd04720 123 LTAELSEIKLKDIIDKANVLSESEFNDLSTDD--------KNGERTFFCRYACEPDGEEFVWI 177 (179)
T ss_pred EecccceEEhhheeeeEEEecHHHhhhhcccc--------cCCCceEEEEEEEeCCCCeEccc
Confidence 99999999999999999999999995443321 11234999999999999999886
No 13
>KOG1827 consensus Chromatin remodeling complex RSC, subunit RSC1/Polybromo and related proteins [Chromatin structure and dynamics; Transcription]
Probab=99.79 E-value=3.7e-20 Score=210.83 Aligned_cols=121 Identities=23% Similarity=0.450 Sum_probs=116.9
Q ss_pred EEECCEEEeecCEEEEecCCCCCCh--hhhhhhhccCCCCceEEEeeeeccCCCCCCccCCCCCCCcccccccCCccccc
Q 003406 690 CRIGGVTYKVKDHVLLHSSNNKLMP--SKLQTMWEDTGTGSKWVMVNRCFFPGDLPEAVGCPCAPESNELYESNNESSVM 767 (823)
Q Consensus 690 ~~~~GetyrvgDcVLl~S~~~~~~P--akI~~lWE~~~sG~~~v~v~WYYrPE~t~~~~grp~~~~~NEVf~S~H~D~n~ 767 (823)
|.++|..|.|||||++++.++...| ++|+++|++ .+|++|+..||||||++|.|+++| .|++||||++..++.++
T Consensus 184 ~~i~~~~~~~gd~vlv~~~~d~~~p~v~~Ier~w~~-~dg~k~~~~~w~~rP~~T~H~a~r--~F~k~Evfkt~~~~~~~ 260 (629)
T KOG1827|consen 184 VEIDGTKYIVGDYVLVQNPADNLKPIVAQIERLWKL-PDGEKWPQGCWIYRPEETVHRADR--KFYKQEVFKTSLYRDDL 260 (629)
T ss_pred ccccCcccccCceeeecCcccccCCceeeecccccC-cccccccceeEeeCCccCcccccc--chhcccceecccccccH
Confidence 8999999999999999999998887 999999997 699999999999999999999999 88999999999999999
Q ss_pred ccccccceEEeCcchhhhhHHHhhhcCCCCCCCCCCeEEEeeeeecccCccccC
Q 003406 768 AGLIRGPCEVLPPGKFKEENERLNHLGNEANKGRHPVFLCQWFYDELKGVFRPV 821 (823)
Q Consensus 768 Va~IegKC~Vl~f~ry~~~~~rr~~~g~~~~~~~~p~F~Cr~~Yd~~~~~f~~v 821 (823)
|+-|.|+|||.++.+| ..+++..-+..|+|+|+++||+.+|.|+|+
T Consensus 261 ~q~l~g~c~v~~~~~y--------i~~~p~~ls~~dv~lcesRyn~~~K~f~ki 306 (629)
T KOG1827|consen 261 VQRLLGKCYVMKPTEY--------ISGDPENLSEEDVFLCESRYNEQLKKFNKI 306 (629)
T ss_pred HHHhhcceEEeehhHh--------hhcCcccccccceeeEEeeeccchhhhccc
Confidence 9999999999999999 888898899999999999999999999997
No 14
>cd04712 BAH_DCM_I BAH, or Bromo Adjacent Homology domain, as present in DNA (Cytosine-5)-methyltransferases (DCM) 1. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. 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=99.71 E-value=1.1e-17 Score=159.41 Aligned_cols=112 Identities=24% Similarity=0.278 Sum_probs=96.4
Q ss_pred ECCEEEeecCEEEEecCCCC----------CCh--hhhhhhhccCCCCceEEEeeeeccCCCCCCccCCCCCCCcccccc
Q 003406 692 IGGVTYKVKDHVLLHSSNNK----------LMP--SKLQTMWEDTGTGSKWVMVNRCFFPGDLPEAVGCPCAPESNELYE 759 (823)
Q Consensus 692 ~~GetyrvgDcVLl~S~~~~----------~~P--akI~~lWE~~~sG~~~v~v~WYYrPE~t~~~~grp~~~~~NEVf~ 759 (823)
+.|+.|+|||+|+++..+.. .+| ++|+.|||+ .+|++|+.++|||||+||.. |+ .+.+||||.
T Consensus 1 ~~~~~i~vGD~V~v~~d~~~~~~~~~~~~~~~~~i~~V~~~~e~-~~g~~~~h~~W~yrp~eTv~--g~--~~~~~ElFL 75 (130)
T cd04712 1 IHGLTIRVGDVVSVERDDADSTTKWNDDHRWLPLVQFVEYMKKG-SDGSKMFHGRWLYRGCDTVL--GN--YANERELFL 75 (130)
T ss_pred CCCCEEeCCCEEEEcCCCCCccccccccccccceEEEEEEeeec-CCCceEEEEEEEEcchhccc--cc--cCCCceEEE
Confidence 36889999999999998765 356 999999997 48999999999999999886 55 889999999
Q ss_pred cCCccccccc----ccccceEEeCcchhhhhHHHhhhcCCCCCCCCCCeEEEeeeeecccCccccC
Q 003406 760 SNNESSVMAG----LIRGPCEVLPPGKFKEENERLNHLGNEANKGRHPVFLCQWFYDELKGVFRPV 821 (823)
Q Consensus 760 S~H~D~n~Va----~IegKC~Vl~f~ry~~~~~rr~~~g~~~~~~~~p~F~Cr~~Yd~~~~~f~~v 821 (823)
|+|.++++++ +|.+||.|.-+..+.. ...+..|+|+-.|++.++.|..+
T Consensus 76 Sd~c~~~~~~~~~~~I~~k~~V~~~~~~~~-------------~~~~~~F~r~syy~~e~~~F~~l 128 (130)
T cd04712 76 TNECTCLELDLLSTEIKGVHKVDWSGTPWG-------------KGLPEFFVRQSYYWPERGAFTSL 128 (130)
T ss_pred eccccccccccccceeEEEEEEEEecCcCC-------------cCCCCEEEEEEEECccCCceEcC
Confidence 9999999999 9999999997766621 34555888888999999999764
No 15
>cd04710 BAH_fungalPHD BAH, or Bromo Adjacent Homology domain, as present in fungal proteins containing PHD domains. 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=99.71 E-value=9.7e-18 Score=160.88 Aligned_cols=116 Identities=20% Similarity=0.243 Sum_probs=95.4
Q ss_pred EEECCEEEeecCEEEEecCCCCCCh--hhhhhhhccCC-----------CCceEEEeeeeccCCCCCCccCCCCCCCccc
Q 003406 690 CRIGGVTYKVKDHVLLHSSNNKLMP--SKLQTMWEDTG-----------TGSKWVMVNRCFFPGDLPEAVGCPCAPESNE 756 (823)
Q Consensus 690 ~~~~GetyrvgDcVLl~S~~~~~~P--akI~~lWE~~~-----------sG~~~v~v~WYYrPE~t~~~~grp~~~~~NE 756 (823)
...+|..|++||||++.+.+...+. |||..+|...+ .+...++|.|||||+|+.. ++ ....+|
T Consensus 5 ~~~~g~~~~vgD~Vyv~~~~~~ePyyIgrI~e~~~~~~~~~~~~~~~~~~~~~~vrV~wfYRp~Di~~---~~-~~d~re 80 (135)
T cd04710 5 VLKNGELLKVNDHIYMSSEPPGEPYYIGRIMEFVPKHEFPSGIHARVFPASYFQVRLNWYYRPRDISR---RV-VADSRL 80 (135)
T ss_pred EccCCeEEeCCCEEEEecCCCCCCCEEEEEEEEEecCCCCccccccccCCCcEEEEEEEEeCHHHcCC---cc-cCCceE
Confidence 4578999999999999998875555 99999999532 2346899999999999753 33 567999
Q ss_pred ccccCCcccccccccccceEEeCcchhhhhHHHhhhcCCCCCCCCCCeEEEeeeeecccCcc
Q 003406 757 LYESNNESSVMAGLIRGPCEVLPPGKFKEENERLNHLGNEANKGRHPVFLCQWFYDELKGVF 818 (823)
Q Consensus 757 Vf~S~H~D~n~Va~IegKC~Vl~f~ry~~~~~rr~~~g~~~~~~~~p~F~Cr~~Yd~~~~~f 818 (823)
||+|.|.|..++++|+|||.|.+.+++..+..-. ..+..|||...||+.++.|
T Consensus 81 lf~S~h~d~~p~~si~gKC~V~~~~di~~l~~~~---------~~~~~Fyf~~lyD~~~~r~ 133 (135)
T cd04710 81 LYASMHSDICPIGSVRGKCTVRHRDQIPDLEEYK---------KRPNHFYFDQLFDRYILRY 133 (135)
T ss_pred EEEEeeEeeechHHEEeEEEEEEecccchhhhhc---------cCCCEEEEEeeeCcchhhc
Confidence 9999999999999999999999999884433332 2255899999999999877
No 16
>cd04708 BAH_plantDCM_II BAH, or Bromo Adjacent Homology domain, second copy present in DNA (Cytosine-5)-methyltransferases (DCM) from plants. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. 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=99.64 E-value=1.8e-16 Score=161.03 Aligned_cols=119 Identities=25% Similarity=0.408 Sum_probs=93.3
Q ss_pred EECCEEEeecCEEEEecCC----------------CCCCh---hhhhhhhccCCC-----CceEEEeeeeccCCCCCCcc
Q 003406 691 RIGGVTYKVKDHVLLHSSN----------------NKLMP---SKLQTMWEDTGT-----GSKWVMVNRCFFPGDLPEAV 746 (823)
Q Consensus 691 ~~~GetyrvgDcVLl~S~~----------------~~~~P---akI~~lWE~~~s-----G~~~v~v~WYYrPE~t~~~~ 746 (823)
..+|++|+|||.|-++... -...| ++|-.+-+..++ .+.-|+|+||||||||..
T Consensus 2 ~~~Gv~Y~vgD~VYv~p~~f~~~~~~~~~~~~G~N~~~~p~~I~qI~ei~~~k~~~~~~~~~~~vrVrwFYRPEdt~~-- 79 (202)
T cd04708 2 VYDGVTYSVGDFLYVSPDAFAEEERERATFKAGRNVGLKAFVVCQVLEIVVEKESKQADVASTQVKVRRFYRPEDVSP-- 79 (202)
T ss_pred cCCCEEEecCCeEEECcccccccccccccccccccCCCCCcEEEEEEEEEecccCCCCCCcceEEEEEEEechhhcCc--
Confidence 4689999999999999981 12346 777777653222 378999999999999843
Q ss_pred CCCCCCCcccccccCCcccccccccccceEEeCcchhhhhHHHhhhcCCCCCCCCCCeEEEeeeeecccCcccc
Q 003406 747 GCPCAPESNELYESNNESSVMAGLIRGPCEVLPPGKFKEENERLNHLGNEANKGRHPVFLCQWFYDELKGVFRP 820 (823)
Q Consensus 747 grp~~~~~NEVf~S~H~D~n~Va~IegKC~Vl~f~ry~~~~~rr~~~g~~~~~~~~p~F~Cr~~Yd~~~~~f~~ 820 (823)
.+.-....+|||-|.|.+++++.+|+|||+|+.+..+-++. +....+++|||++.||+.||.|..
T Consensus 80 ~~~y~sd~rely~Sde~~~~~~~~I~GKC~V~~~~d~~~~~---------~~~~~~~~Ffc~~~Yd~~tg~f~~ 144 (202)
T cd04708 80 EKAYASDIREVYYSEDTLTVPVEAVEGKCEVRKKSDLPDSD---------APVIFEHVFFCELLYDPAKGSLKQ 144 (202)
T ss_pred ccceecCceeEEEeccceeechhHcceEEEEEecCcchhhh---------ccccCCCceEEEEEEcCCCCccCC
Confidence 22234479999999999999999999999999999883332 112347799999999999999974
No 17
>cd04760 BAH_Dnmt1_I BAH, or Bromo Adjacent Homology domain, first copy present in DNA (Cytosine-5)-methyltransferases from Bilateria, Dnmt1 and similar proteins. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. 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=99.62 E-value=6.6e-16 Score=146.71 Aligned_cols=117 Identities=19% Similarity=0.222 Sum_probs=91.9
Q ss_pred CEEEeecCEEEEecCCCCCCh--hhhhhhhccCCCCceEEEeeeeccCCCCCCccCCCCCCCcccccccCCccccccccc
Q 003406 694 GVTYKVKDHVLLHSSNNKLMP--SKLQTMWEDTGTGSKWVMVNRCFFPGDLPEAVGCPCAPESNELYESNNESSVMAGLI 771 (823)
Q Consensus 694 GetyrvgDcVLl~S~~~~~~P--akI~~lWE~~~sG~~~v~v~WYYrPE~t~~~~grp~~~~~NEVf~S~H~D~n~Va~I 771 (823)
|+.|++||||++++.....+| ++|..|||+ .+|++|+.++|||||+||.. |+ .+.+.|||.|+|++++.++||
T Consensus 1 g~~i~vGD~V~v~~~~~~~p~~I~rV~~mfe~-~~g~k~~h~rWf~Rg~dTVl--G~--~~~~kEvFlsd~c~d~~l~~I 75 (124)
T cd04760 1 GEELEAGDCVSVKPDDPTKPLYIARVTYMWKD-SIGGKMFHAHWFCRGSDTVL--GE--TSDPLELFLVDECEDMALSSI 75 (124)
T ss_pred CCEEecCCEEEEecCCCCCCcEEEEEhhheec-CCCCcEEEEEEEEECCcccc--cc--cCCCcEEEeecccCCcchHHh
Confidence 789999999999998776667 999999997 47999999999999999875 55 578899999999999999999
Q ss_pred ccceEEeCcc----hhhhhHHHhhhcCCCCCCCCCCeEEEeeeeecccCcc
Q 003406 772 RGPCEVLPPG----KFKEENERLNHLGNEANKGRHPVFLCQWFYDELKGVF 818 (823)
Q Consensus 772 egKC~Vl~f~----ry~~~~~rr~~~g~~~~~~~~p~F~Cr~~Yd~~~~~f 818 (823)
.+||.|+.-. =+..--. +.........+..|||..-||+...-|
T Consensus 76 ~~Kv~V~~~~p~~~w~~~~g~---~~~~~~~~ddg~tffyq~~yd~~~arf 123 (124)
T cd04760 76 HGKVNVIYKAPSENWSMEGGM---DEEDEIFEDDGKTFFYQKWYDPECARF 123 (124)
T ss_pred eeeeEEEEeCCCcchhhhcCC---CCccccccCCCCeEEEEEeeChhhhcc
Confidence 9999999732 2200000 011222234556999999999976555
No 18
>cd04719 BAH_Orc1p_animal BAH, or Bromo Adjacent Homology domain, as present in animal homologs of Saccharomyces cerevisiae Orc1p. Orc1 is part of the Yeast Sir1-origin recognition complex. The Orc1p BAH doman functions in epigenetic silencing. In vertebrates, a similar ORC protein complex exists, which has been shown essential for DNA replication in Xenopus laevis. 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=99.61 E-value=8.8e-16 Score=146.51 Aligned_cols=108 Identities=23% Similarity=0.387 Sum_probs=86.4
Q ss_pred EEEeecCEEEEecCCCCCCh--hhhhhhhccCCCC---ceEEEeeeeccCCCCCCc----cCCCCCCCcccccccCCc--
Q 003406 695 VTYKVKDHVLLHSSNNKLMP--SKLQTMWEDTGTG---SKWVMVNRCFFPGDLPEA----VGCPCAPESNELYESNNE-- 763 (823)
Q Consensus 695 etyrvgDcVLl~S~~~~~~P--akI~~lWE~~~sG---~~~v~v~WYYrPE~t~~~----~grp~~~~~NEVf~S~H~-- 763 (823)
.+|+||||||+++.+. ..| |||..||++. .| ...+.|.|||||++.+.. .|| .+...|||.+.|.
T Consensus 2 ~~i~vGd~VlI~~~d~-~~~yVAkI~~i~e~~-~~~~~~~~~~VqWy~R~~Ev~~~~~~~~~~--~~~~~EvF~~~~~~~ 77 (128)
T cd04719 2 LTIEVGDFVLIEGEDA-DGPDVARILHLYEDG-NEDDDPKRAIVQWFSRPSEVPKNKRKLLGR--EPHSQEVFFYSRSSC 77 (128)
T ss_pred eEEecCCEEEEECCCC-CCCcEeeehhhhccc-cCCcccceEEEEcccChHHccccchhhccC--CCCCcEEEEecCccc
Confidence 4899999999999988 667 9999999973 44 568999999999998642 333 3578999999997
Q ss_pred -ccccccccccceEEeCcchhhhhHHHhhhcCCCCCCCCCCeEEEeeeeec
Q 003406 764 -SSVMAGLIRGPCEVLPPGKFKEENERLNHLGNEANKGRHPVFLCQWFYDE 813 (823)
Q Consensus 764 -D~n~Va~IegKC~Vl~f~ry~~~~~rr~~~g~~~~~~~~p~F~Cr~~Yd~ 813 (823)
++.++.||.|||.|+++..|..+.. ...+...+.|++|+...-
T Consensus 78 ~~~i~~etI~gkc~V~~~~~y~~l~~-------~~~~~~~~~F~r~~~~~k 121 (128)
T cd04719 78 DNDIDAETIIGKVRVEPVEPKTDLPE-------TKKKTGGPLFVKRYWDTK 121 (128)
T ss_pred cCcEeHHHcccEEEEEEcCCccchhh-------hccccCceEEEEEEeccc
Confidence 4999999999999999999955543 222445678888887543
No 19
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=99.60 E-value=2.8e-16 Score=179.78 Aligned_cols=118 Identities=18% Similarity=0.408 Sum_probs=84.7
Q ss_pred CCcccCcCcccccccccCCCCccccCCCcceeecC----CCCCCCchhhhHH-HHHhcCCCCCCCCCCCCCCcccccccc
Q 003406 329 APQAVRDQSFRPFISQTGNMPNVHQPLQGTNIVQA----PQFGSNHGEIAKI-VQKLLHPKLPQHPTWTPPSREYMSKAF 403 (823)
Q Consensus 329 ~~Q~~hd~CIrpWSk~SNsCPiCRq~F~gI~~Vq~----P~~~s~hkeIaKi-Vqkll~pkl~~~psw~p~s~ey~~~~~ 403 (823)
++|++|+.||..|++++++||+||..|..|.+... +.+.....+..+. +..+.. +.. ........+..
T Consensus 144 c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~V~eS~~~~~~vR~lP~EEs~~~~e~~~d----~~~---d~~~~~~~E~~ 216 (1134)
T KOG0825|consen 144 TAHYFCEECVGSWSRCAQTCPVDRGEFGEVKVLESTGIEANVRCLPSEESENILEKGGD----EKQ---DQISGLSQEEV 216 (1134)
T ss_pred cccccHHHHhhhhhhhcccCchhhhhhheeeeeccccccceeEecchhhhhhhhhhccc----ccc---ccccCcccccc
Confidence 58999999999999999999999999999875421 1111222222222 111100 000 00112223446
Q ss_pred cccccccCCCCCCceEecCCCCCc-ccccccccCcCCCCCCCCCcccccccccc
Q 003406 404 TCQICKLTANEVETVVLCDACEKG-FHLKCLQMNNQKGIPRGGEWHCMSCLKLS 456 (823)
Q Consensus 404 ~C~VC~~g~~e~~~MLlCDgCd~g-YHl~CL~PppL~~VPeG~dWyCp~Cl~~~ 456 (823)
.|.||...+.+ +.||+||+|+.+ ||+|||+| +|.++|.+ +|||+.|.-+.
T Consensus 217 ~C~IC~~~DpE-dVLLLCDsCN~~~YH~YCLDP-dl~eiP~~-eWYC~NC~dL~ 267 (1134)
T KOG0825|consen 217 KCDICTVHDPE-DVLLLCDSCNKVYYHVYCLDP-DLSESPVN-EWYCTNCSLLE 267 (1134)
T ss_pred cceeeccCChH-HhheeecccccceeeccccCc-cccccccc-ceecCcchhhh
Confidence 79999999888 999999999999 99999999 79999999 99999997543
No 20
>KOG1886 consensus BAH domain proteins [Transcription]
Probab=99.55 E-value=1.5e-15 Score=168.51 Aligned_cols=142 Identities=21% Similarity=0.292 Sum_probs=119.0
Q ss_pred ceEEccceeEEecC-----eeeEEEEEECCEEEeecCEEEEecCCCCCCh--hhhhhhhccCCCCceEEEeeeeccCCCC
Q 003406 670 NVQWIGDVLQIVDG-----KKFYQSCRIGGVTYKVKDHVLLHSSNNKLMP--SKLQTMWEDTGTGSKWVMVNRCFFPGDL 742 (823)
Q Consensus 670 ~~~W~G~~~qvv~~-----k~~Y~~~~~~GetyrvgDcVLl~S~~~~~~P--akI~~lWE~~~sG~~~v~v~WYYrPE~t 742 (823)
-|.|.|+..+.-|+ ..|++...++|..+..+|.|||.+.+.+.+| |.|..+|.+...+.+.|.|.||||||+.
T Consensus 19 ~a~~~g~a~~~qGv~~~k~~h~~t~~~~~g~~~~~~d~vllvped~~~pPyvaii~~i~a~~~g~~~k~ev~W~YrPee~ 98 (464)
T KOG1886|consen 19 EASSMGDANKEQGVGGVKSLHFETFIYRGGRYINYGDSVLLVPEDPGKPPYVAIIEDIYAQERGGNVKVEVQWFYRPEES 98 (464)
T ss_pred hhhhhhhhhhhccccccccccccceeeccCcccccCcceeecCCCCCCCCeeEEEeeeeccccCCCcceecccccCCCcc
Confidence 57899999888653 5688888888888888999999999988888 9999999998778999999999999998
Q ss_pred CCccCCCCCCC-cccccccCCcccccccccccceEEeCcchhhhhHHHhhhcCCCCCCCCCCeEEEeeeeecccCccccC
Q 003406 743 PEAVGCPCAPE-SNELYESNNESSVMAGLIRGPCEVLPPGKFKEENERLNHLGNEANKGRHPVFLCQWFYDELKGVFRPV 821 (823)
Q Consensus 743 ~~~~grp~~~~-~NEVf~S~H~D~n~Va~IegKC~Vl~f~ry~~~~~rr~~~g~~~~~~~~p~F~Cr~~Yd~~~~~f~~v 821 (823)
....+=-.-.. ..|||-|-|.|++.+.+|.|||.|+.|-.|.++-.|+ -.+-|+||+.||..++.|.+.
T Consensus 99 ~~~~~~~~~a~~~relF~SfH~De~~A~ti~~rC~V~fvp~~kqlp~~~----------~~~~f~~r~vYd~~~~~~~~~ 168 (464)
T KOG1886|consen 99 EGGGSGKWGAKQPRELFLSFHEDEAFAETILHRCKVHFVPAYKQLPNRV----------GHESFICRRVYDAVTSKLRKL 168 (464)
T ss_pred CCCCCCCcccCCCccccccccccchhhhhhcccceeeeccccccccccC----------CCCCcccccccccccccccCc
Confidence 76332211122 3389999999999999999999999999997666555 345899999999999998764
No 21
>cd04711 BAH_Dnmt1_II BAH, or Bromo Adjacent Homology domain, second copy present in DNA (Cytosine-5)-methyltransferases from Bilateria, Dnmt1 and similar proteins. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. 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=99.43 E-value=6.4e-14 Score=134.79 Aligned_cols=90 Identities=17% Similarity=0.281 Sum_probs=69.4
Q ss_pred hhhhhhhccCCCC------ceEEEeeeeccCCCCCCccCCCCCCCc-ccccccCCcccccccccccceEEe-------Cc
Q 003406 715 SKLQTMWEDTGTG------SKWVMVNRCFFPGDLPEAVGCPCAPES-NELYESNNESSVMAGLIRGPCEVL-------PP 780 (823)
Q Consensus 715 akI~~lWE~~~sG------~~~v~v~WYYrPE~t~~~~grp~~~~~-NEVf~S~H~D~n~Va~IegKC~Vl-------~f 780 (823)
|||..+--...+. +.+|+|+||||||++..++ +...+.- ||||.|.|.|..++.+|+|||+|. .+
T Consensus 30 grI~eI~~~k~~~~k~~~~~ikvrV~~fYRPEdi~~g~-~~ayhsDirevy~Sd~~~~~~~~~I~GKC~V~~~~di~~s~ 108 (137)
T cd04711 30 GRIKEIFCAKRSNGKPNESDIKLRINKFYRPENTHKGF-KATYHADINMLYWSDEEATVDFSAVQGRCTVEYGEDLPESV 108 (137)
T ss_pred EEEEEEecCCCCCCCCCccceEEEEEEEeccccccccc-ccccccceeeEEeecceeecChhhccceEEEEeccccchhH
Confidence 6766665533333 6799999999999986532 2334454 999999999999999999999999 45
Q ss_pred chhhhhHHHhhhcCCCCCCCCCCeEEEeeeeecccCccc
Q 003406 781 GKFKEENERLNHLGNEANKGRHPVFLCQWFYDELKGVFR 819 (823)
Q Consensus 781 ~ry~~~~~rr~~~g~~~~~~~~p~F~Cr~~Yd~~~~~f~ 819 (823)
.+| . ...+..|+|++.||..||.|.
T Consensus 109 ~~y--------~------~~gpd~Fyf~~~Y~a~t~~F~ 133 (137)
T cd04711 109 QEY--------S------GGGPDRFYFLEAYNAKTKSFE 133 (137)
T ss_pred HHH--------h------cCCCcceEEhhhhccccCccc
Confidence 566 1 122348999999999999996
No 22
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=98.86 E-value=8.2e-10 Score=116.29 Aligned_cols=53 Identities=32% Similarity=0.904 Sum_probs=48.1
Q ss_pred ccccccccccCCCCCCceEecCCCCCcccccccccCcCCCCCCCCCcccccccccc
Q 003406 401 KAFTCQICKLTANEVETVVLCDACEKGFHLKCLQMNNQKGIPRGGEWHCMSCLKLS 456 (823)
Q Consensus 401 ~~~~C~VC~~g~~e~~~MLlCDgCd~gYHl~CL~PppL~~VPeG~dWyCp~Cl~~~ 456 (823)
+=.+|.+|+..+++ ++||+||.||+|||||||.| ++.+.|+| .|-|..|+...
T Consensus 280 eck~csicgtsend-dqllfcddcdrgyhmyclsp-pm~eppeg-swsc~KOG~~~ 332 (336)
T KOG1244|consen 280 ECKYCSICGTSEND-DQLLFCDDCDRGYHMYCLSP-PMVEPPEG-SWSCHLCLEEL 332 (336)
T ss_pred ecceeccccCcCCC-ceeEeecccCCceeeEecCC-CcCCCCCC-chhHHHHHHHH
Confidence 33569999998888 99999999999999999999 79999999 99999998654
No 23
>KOG1246 consensus DNA-binding protein jumonji/RBP2/SMCY, contains JmjC domain [General function prediction only]
Probab=98.73 E-value=1.8e-08 Score=121.57 Aligned_cols=141 Identities=21% Similarity=0.376 Sum_probs=101.8
Q ss_pred ccccccccccCCCCCCceEecCCCCCcccccccccCcCCCCCCCCCccccccccccCCCCCCCCccccccc-ccccC---
Q 003406 401 KAFTCQICKLTANEVETVVLCDACEKGFHLKCLQMNNQKGIPRGGEWHCMSCLKLSNGKPLPPKYGRVMRS-INTTK--- 476 (823)
Q Consensus 401 ~~~~C~VC~~g~~e~~~MLlCDgCd~gYHl~CL~PppL~~VPeG~dWyCp~Cl~~~~gkp~pP~yGfvqrs-~ySfK--- 476 (823)
+...|..|.++..+ ..+ +||+|+..||.+|+.| ++..++++ +|.|+.|......++ ...+||.++. .|++.
T Consensus 154 ~~~~~~~~~k~~~~-~~~-~~~~~~~~~~~~~~~~-~~~~~~~~-~~~~~~~~~~~~~~~-~~~~gf~~~~~~yt~~~f~ 228 (904)
T KOG1246|consen 154 DYPQCNTCSKGKEE-KLL-LCDSCDDSYHTYCLRP-PLTRVPDG-DWRCPKCIPTPESKP-NYKFGFEQGSREYTLPKFE 228 (904)
T ss_pred cchhhhccccCCCc-cce-ecccccCcccccccCC-CCCcCCcC-cccCCcccccccCCc-ccccCcCCCCCccccchhh
Confidence 34679999998777 555 9999999999999999 79999999 999999998744333 6789999986 66611
Q ss_pred ------------CCCCCCCCCCCChhhhccccccccCccceEecCCCCCCCCccCCCCCCcccccccccccCCCcccccc
Q 003406 477 ------------MPSNTSVIQSPSDKKFISVDQKVNNQQKITVNGSSGGSGALGSNSNDCDLKIHNIRATQGGNLVSSTK 544 (823)
Q Consensus 477 ------------~p~~~~g~~~vSEkdvErL~~~~~~ee~vVEYGADIhStt~GSGFP~~~~k~~~~r~~~g~~~~~s~~ 544 (823)
++..........|+++|+++.... .++.|+||+|+++..+|+|||..... +. +. .+
T Consensus 229 ~~~~~~~~~~~~~~~~~~~~~~~vE~e~w~~v~~~~-~~~~~~~g~d~~~~~~~s~~~~~~~~----~~-----~~--~~ 296 (904)
T KOG1246|consen 229 EYADNFKKDYFPKSKNSPDSTEDVEKEFWRLVASNL-ESVEVLYGADLSTKEFGSGFPKSASG----PL-----LG--SE 296 (904)
T ss_pred hHhhhhhccccccccCCCCchHHHHHHHHHhhcccc-cceeeeeccchhhccccccccccCCC----CC-----CC--cc
Confidence 111111111245667777776664 56669999999999999999977766 21 11 11
Q ss_pred ccccccccCCCCCCCCCc
Q 003406 545 SKDQETSSGTYPSNVTKP 562 (823)
Q Consensus 545 ~~d~~~s~~~~p~n~~~~ 562 (823)
..+ |..++.||-+-
T Consensus 297 ~~~----y~~s~wnL~~i 310 (904)
T KOG1246|consen 297 AEK----YSNSGWNLNNI 310 (904)
T ss_pred hhh----hccCccccccc
Confidence 122 56888998883
No 24
>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=98.62 E-value=1e-08 Score=82.03 Aligned_cols=48 Identities=29% Similarity=0.925 Sum_probs=40.3
Q ss_pred cccccccCCCCCCceEecCCCCCcccccccccCcCC--CCCCCCCcccccccc
Q 003406 404 TCQICKLTANEVETVVLCDACEKGFHLKCLQMNNQK--GIPRGGEWHCMSCLK 454 (823)
Q Consensus 404 ~C~VC~~g~~e~~~MLlCDgCd~gYHl~CL~PppL~--~VPeG~dWyCp~Cl~ 454 (823)
+|.+|+..+++ +.||.||.|+++||+.|++| ++. .++.+ .|+|+.|..
T Consensus 1 ~C~vC~~~~~~-~~~i~C~~C~~~~H~~C~~~-~~~~~~~~~~-~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDD-GDMIQCDSCNRWYHQECVGP-PEKAEEIPSG-DWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTT-SSEEEBSTTSCEEETTTSTS-SHSHHSHHSS-SBSSHHHHH
T ss_pred eCcCCCCcCCC-CCeEEcCCCChhhCcccCCC-ChhhccCCCC-cEECcCCcC
Confidence 48999986555 89999999999999999998 555 55566 899999974
No 25
>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 KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.28 E-value=2.6e-07 Score=106.30 Aligned_cols=51 Identities=31% Similarity=0.776 Sum_probs=45.5
Q ss_pred ccccccccCCCCCCceEecCCCCCcccccccccCc--CCCCCCCCCcccccccccc
Q 003406 403 FTCQICKLTANEVETVVLCDACEKGFHLKCLQMNN--QKGIPRGGEWHCMSCLKLS 456 (823)
Q Consensus 403 ~~C~VC~~g~~e~~~MLlCDgCd~gYHl~CL~Ppp--L~~VPeG~dWyCp~Cl~~~ 456 (823)
++|.-|+..+.- ..+|+||+|+.+||++||+| | .+.+|.| .|||+.|....
T Consensus 254 ~fCsaCn~~~~F-~~~i~CD~Cp~sFH~~CLeP-Pl~~eniP~g-~W~C~ec~~k~ 306 (613)
T KOG4299|consen 254 DFCSACNGSGLF-NDIICCDGCPRSFHQTCLEP-PLEPENIPPG-SWFCPECKIKS 306 (613)
T ss_pred HHHHHhCCcccc-ccceeecCCchHHHHhhcCC-CCCcccCCCC-ccccCCCeeee
Confidence 589999998665 67799999999999999999 6 5789999 99999998765
No 27
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.22 E-value=4.5e-07 Score=96.55 Aligned_cols=48 Identities=35% Similarity=0.881 Sum_probs=43.1
Q ss_pred ccccccccCCCCCCceEecCCCCCcccccccccCcCCCCCCCCCcccc-ccccc
Q 003406 403 FTCQICKLTANEVETVVLCDACEKGFHLKCLQMNNQKGIPRGGEWHCM-SCLKL 455 (823)
Q Consensus 403 ~~C~VC~~g~~e~~~MLlCDgCd~gYHl~CL~PppL~~VPeG~dWyCp-~Cl~~ 455 (823)
..|.||+....+ +.|++||.||+|||++|+ +|..+|.| .|.|. .|...
T Consensus 315 ~lC~IC~~P~~E-~E~~FCD~CDRG~HT~CV---GL~~lP~G-~WICD~~C~~~ 363 (381)
T KOG1512|consen 315 ELCRICLGPVIE-SEHLFCDVCDRGPHTLCV---GLQDLPRG-EWICDMRCREA 363 (381)
T ss_pred HhhhccCCcccc-hheeccccccCCCCcccc---ccccccCc-cchhhhHHHHh
Confidence 459999999888 999999999999999999 89999999 99998 45543
No 28
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=98.22 E-value=5.3e-07 Score=95.97 Aligned_cols=48 Identities=27% Similarity=0.712 Sum_probs=38.6
Q ss_pred cccccccccCCCCCCceEecCC--CC-CcccccccccCcCCCCCCCCCcccccccccc
Q 003406 402 AFTCQICKLTANEVETVVLCDA--CE-KGFHLKCLQMNNQKGIPRGGEWHCMSCLKLS 456 (823)
Q Consensus 402 ~~~C~VC~~g~~e~~~MLlCDg--Cd-~gYHl~CL~PppL~~VPeG~dWyCp~Cl~~~ 456 (823)
..+|..+...+ +.|+.||. |+ .|||+.|+ +|..-|+| .|||+.|....
T Consensus 219 ~~yC~Cnqvsy---g~Mi~CDn~~C~~eWFH~~CV---GL~~~Pkg-kWyC~~C~~~~ 269 (274)
T KOG1973|consen 219 PTYCICNQVSY---GKMIGCDNPGCPIEWFHFTCV---GLKTKPKG-KWYCPRCKAEN 269 (274)
T ss_pred CEEEEeccccc---ccccccCCCCCCcceEEEecc---ccccCCCC-cccchhhhhhh
Confidence 34554443332 79999997 99 99999999 89999999 99999998653
No 29
>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=98.07 E-value=1.9e-06 Score=84.91 Aligned_cols=32 Identities=41% Similarity=0.913 Sum_probs=28.6
Q ss_pred cccccccccCcCCCCCCCCCccccccccccCCCC
Q 003406 427 GFHLKCLQMNNQKGIPRGGEWHCMSCLKLSNGKP 460 (823)
Q Consensus 427 gYHl~CL~PppL~~VPeG~dWyCp~Cl~~~~gkp 460 (823)
|||++||+| ||..+|+| +|+||.|.....+++
T Consensus 1 g~H~~CL~P-pl~~~P~g-~W~Cp~C~~~~~~~~ 32 (148)
T cd04718 1 GFHLCCLRP-PLKEVPEG-DWICPFCEVEKSGQS 32 (148)
T ss_pred CcccccCCC-CCCCCCCC-CcCCCCCcCCCCCCc
Confidence 799999999 79999999 999999998765544
No 30
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=97.86 E-value=2.6e-06 Score=106.92 Aligned_cols=52 Identities=38% Similarity=0.959 Sum_probs=47.4
Q ss_pred cccccccccCCCCCCceEecCCCCCcccccccccCcCCCCCCCCCcccccccccc
Q 003406 402 AFTCQICKLTANEVETVVLCDACEKGFHLKCLQMNNQKGIPRGGEWHCMSCLKLS 456 (823)
Q Consensus 402 ~~~C~VC~~g~~e~~~MLlCDgCd~gYHl~CL~PppL~~VPeG~dWyCp~Cl~~~ 456 (823)
...|.+|...... +.|++||+|+.+||++|+.| .+..+|.| +|+|+.|+...
T Consensus 1108 ~~~c~~cr~k~~~-~~m~lc~~c~~~~h~~C~rp-~~~~~~~~-dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1108 NALCKVCRRKKQD-EKMLLCDECLSGFHLFCLRP-ALSSVPPG-DWMCPSCRKEH 1159 (1404)
T ss_pred hhhhhhhhhcccc-hhhhhhHhhhhhHHHHhhhh-hhccCCcC-CccCCccchhh
Confidence 3679999988666 89999999999999999999 89999999 99999999764
No 31
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=97.86 E-value=6.4e-06 Score=86.92 Aligned_cols=47 Identities=36% Similarity=0.973 Sum_probs=37.9
Q ss_pred ccccccccccCCCCCCceEecCC--CCC-cccccccccCcCCCCCCCCCcccccccc
Q 003406 401 KAFTCQICKLTANEVETVVLCDA--CEK-GFHLKCLQMNNQKGIPRGGEWHCMSCLK 454 (823)
Q Consensus 401 ~~~~C~VC~~g~~e~~~MLlCDg--Cd~-gYHl~CL~PppL~~VPeG~dWyCp~Cl~ 454 (823)
+..+| -|++... +.|+-||+ |.+ |||+.|+ +|++.|+| .|||+.|..
T Consensus 220 e~lYC-fCqqvSy--GqMVaCDn~nCkrEWFH~~CV---GLk~pPKG-~WYC~eCk~ 269 (271)
T COG5034 220 EELYC-FCQQVSY--GQMVACDNANCKREWFHLECV---GLKEPPKG-KWYCPECKK 269 (271)
T ss_pred ceeEE-Eeccccc--ccceecCCCCCchhheecccc---ccCCCCCC-cEeCHHhHh
Confidence 34556 4665433 59999996 884 9999999 89999999 999999974
No 32
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=97.66 E-value=2.3e-05 Score=95.90 Aligned_cols=53 Identities=30% Similarity=0.735 Sum_probs=45.3
Q ss_pred cccccccccccCCCCC-CceEecCCCCCcccccccccCcCCCCCCCCCcccccccccc
Q 003406 400 SKAFTCQICKLTANEV-ETVVLCDACEKGFHLKCLQMNNQKGIPRGGEWHCMSCLKLS 456 (823)
Q Consensus 400 ~~~~~C~VC~~g~~e~-~~MLlCDgCd~gYHl~CL~PppL~~VPeG~dWyCp~Cl~~~ 456 (823)
..+..|.||..++... +.+|+||+|+..+|+.|++ +.-+|+| .|+|..|+...
T Consensus 217 ~~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cyg---i~~ipeg-~WlCr~Cl~s~ 270 (1051)
T KOG0955|consen 217 EEDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYG---IPFIPEG-QWLCRRCLQSP 270 (1051)
T ss_pred CCCccceeecccccCCCceEEEcCCCcchhhhhccC---CCCCCCC-cEeehhhccCc
Confidence 4668999999876543 7999999999999999995 5579999 99999998654
No 33
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=97.54 E-value=3.3e-05 Score=89.82 Aligned_cols=51 Identities=25% Similarity=0.787 Sum_probs=46.1
Q ss_pred ccccccccCCCCCCceEecCCCCCcccccccccCcCCCCCCCCCcccccccccc
Q 003406 403 FTCQICKLTANEVETVVLCDACEKGFHLKCLQMNNQKGIPRGGEWHCMSCLKLS 456 (823)
Q Consensus 403 ~~C~VC~~g~~e~~~MLlCDgCd~gYHl~CL~PppL~~VPeG~dWyCp~Cl~~~ 456 (823)
.+|+.|+.+.+. ..+++|+.||-.||.||..| +++.||.| .|+|+.|....
T Consensus 69 rvCe~c~~~gD~-~kf~~Ck~cDvsyh~yc~~P-~~~~v~sg-~~~ckk~~~c~ 119 (694)
T KOG4443|consen 69 RVCEACGTTGDP-KKFLLCKRCDVSYHCYCQKP-PNDKVPSG-PWLCKKCTRCR 119 (694)
T ss_pred eeeeeccccCCc-ccccccccccccccccccCC-ccccccCc-ccccHHHHhhh
Confidence 569999988777 89999999999999999999 79999999 99999996544
No 34
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=97.41 E-value=4.5e-05 Score=86.41 Aligned_cols=50 Identities=32% Similarity=0.907 Sum_probs=44.0
Q ss_pred ccccccccCCCCCCceEecCCCCCcccccccccCcCCCCCCCC---Ccccccccc
Q 003406 403 FTCQICKLTANEVETVVLCDACEKGFHLKCLQMNNQKGIPRGG---EWHCMSCLK 454 (823)
Q Consensus 403 ~~C~VC~~g~~e~~~MLlCDgCd~gYHl~CL~PppL~~VPeG~---dWyCp~Cl~ 454 (823)
..|.||++..+. ..++.||.|...||+-||+| ||..+|+.. -|.|..|..
T Consensus 545 ysCgiCkks~dQ-Hll~~CDtC~lhYHlGCL~P-PLTR~Pkk~kn~gWqCsECdk 597 (707)
T KOG0957|consen 545 YSCGICKKSTDQ-HLLTQCDTCHLHYHLGCLSP-PLTRLPKKNKNFGWQCSECDK 597 (707)
T ss_pred eeeeeeccchhh-HHHhhcchhhceeeccccCC-ccccCcccccCcceeeccccc
Confidence 569999998766 88999999999999999999 799999863 399999953
No 35
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=97.40 E-value=6.4e-05 Score=87.67 Aligned_cols=62 Identities=26% Similarity=0.601 Sum_probs=46.2
Q ss_pred ccccccccC-CCCCCceEecCC--CCCcccccccccCcCCCCCCCCCcccccccccc-----CCCCCCCCcccc
Q 003406 403 FTCQICKLT-ANEVETVVLCDA--CEKGFHLKCLQMNNQKGIPRGGEWHCMSCLKLS-----NGKPLPPKYGRV 468 (823)
Q Consensus 403 ~~C~VC~~g-~~e~~~MLlCDg--Cd~gYHl~CL~PppL~~VPeG~dWyCp~Cl~~~-----~gkp~pP~yGfv 468 (823)
.-|+||... .+.++.|+.||+ |.-+.|.-|+ ++-+||.| .|||.+|.... ..+-+|.++|-.
T Consensus 6 GGCCVCSDErGWaeNPLVYCDG~nCsVAVHQaCY---GIvqVPtG-pWfCrKCesqeraarvrCeLCP~kdGAL 75 (900)
T KOG0956|consen 6 GGCCVCSDERGWAENPLVYCDGHNCSVAVHQACY---GIVQVPTG-PWFCRKCESQERAARVRCELCPHKDGAL 75 (900)
T ss_pred cceeeecCcCCCccCceeeecCCCceeeeehhcc---eeEecCCC-chhhhhhhhhhhhccceeecccCcccce
Confidence 459999842 222389999996 9999999999 78899999 99999996543 223335556644
No 36
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=97.39 E-value=5.7e-05 Score=88.65 Aligned_cols=51 Identities=27% Similarity=0.772 Sum_probs=46.0
Q ss_pred ccccccccccCCCCC-CceEecCCCCCcccccccccCcCCCCCCCCCccccccccc
Q 003406 401 KAFTCQICKLTANEV-ETVVLCDACEKGFHLKCLQMNNQKGIPRGGEWHCMSCLKL 455 (823)
Q Consensus 401 ~~~~C~VC~~g~~e~-~~MLlCDgCd~gYHl~CL~PppL~~VPeG~dWyCp~Cl~~ 455 (823)
++.+|.+|..++.+. +.|++||.|+...|+.|+ +|.++|+| .|.|..|.-.
T Consensus 270 edviCDvCrspD~e~~neMVfCd~Cn~cVHqaCy---GIle~p~g-pWlCr~Calg 321 (893)
T KOG0954|consen 270 EDVICDVCRSPDSEEANEMVFCDKCNICVHQACY---GILEVPEG-PWLCRTCALG 321 (893)
T ss_pred ccceeceecCCCccccceeEEeccchhHHHHhhh---ceeecCCC-Ceeehhcccc
Confidence 668899999987654 899999999999999999 78999999 9999999754
No 37
>COG5076 Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin structure and dynamics / Transcription]
Probab=97.37 E-value=4.5e-05 Score=84.07 Aligned_cols=95 Identities=12% Similarity=-0.049 Sum_probs=85.3
Q ss_pred EEEEEECCEEEeecCEEEEecCCCCCCh--hhhhhhhccCCCCceEEEeeeeccCCCCCCccCCCCCCCcccccccCCcc
Q 003406 687 YQSCRIGGVTYKVKDHVLLHSSNNKLMP--SKLQTMWEDTGTGSKWVMVNRCFFPGDLPEAVGCPCAPESNELYESNNES 764 (823)
Q Consensus 687 Y~~~~~~GetyrvgDcVLl~S~~~~~~P--akI~~lWE~~~sG~~~v~v~WYYrPE~t~~~~grp~~~~~NEVf~S~H~D 764 (823)
-.++.+.+....+|+|++++..++...| ++++..|.+ .++..|..++|||+|+++.++..+ .++.|+++.-...+
T Consensus 267 ~~~~~i~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~ 343 (371)
T COG5076 267 RESVLITNSQAHVGAWPFLRPVSDEEVPDYYKDIRDPMD-LSTKELKLRNNYYRPEETFVRDAK--LFFDNCVMYNGEVT 343 (371)
T ss_pred chhhcccccccccccccccccCCcccccchhhhhhcccc-cccchhhhhcccCCCccccccccc--hhhhcccccchhhh
Confidence 3456678889999999999999999999 999999997 477778899999999987776654 89999999999999
Q ss_pred cccccccccceEEeCcchhh
Q 003406 765 SVMAGLIRGPCEVLPPGKFK 784 (823)
Q Consensus 765 ~n~Va~IegKC~Vl~f~ry~ 784 (823)
.+.+..+.+.|+|-.+.+|-
T Consensus 344 ~~~~~~~~~~~~~~~~~~~~ 363 (371)
T COG5076 344 DYYKNANVLEDFVIKKTRLI 363 (371)
T ss_pred hhhhhccchhhhHhhhhhhh
Confidence 99999999999999999983
No 38
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=97.35 E-value=6e-05 Score=89.26 Aligned_cols=48 Identities=31% Similarity=0.748 Sum_probs=43.3
Q ss_pred ccccccccccCCCCCCceEecCCCCCcccccccccCcCCCCCCCCCcccccccc
Q 003406 401 KAFTCQICKLTANEVETVVLCDACEKGFHLKCLQMNNQKGIPRGGEWHCMSCLK 454 (823)
Q Consensus 401 ~~~~C~VC~~g~~e~~~MLlCDgCd~gYHl~CL~PppL~~VPeG~dWyCp~Cl~ 454 (823)
+...|.+|..+ +.+|+||.|..+||.+|+++ ++..+|.+ +|.|++|..
T Consensus 46 ~~e~c~ic~~~----g~~l~c~tC~~s~h~~cl~~-pl~~~p~~-~~~c~Rc~~ 93 (696)
T KOG0383|consen 46 EQEACRICADG----GELLWCDTCPASFHASCLGP-PLTPQPNG-EFICPRCFC 93 (696)
T ss_pred hhhhhhhhcCC----CcEEEeccccHHHHHHccCC-CCCcCCcc-ceeeeeecc
Confidence 44679999987 78999999999999999999 79999999 699999944
No 39
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=97.35 E-value=7.1e-05 Score=84.96 Aligned_cols=51 Identities=29% Similarity=0.649 Sum_probs=40.5
Q ss_pred ccccccccCCCC-CCceEecCCCCCcccccccccCcCC----CCCCCCCccccccccc
Q 003406 403 FTCQICKLTANE-VETVVLCDACEKGFHLKCLQMNNQK----GIPRGGEWHCMSCLKL 455 (823)
Q Consensus 403 ~~C~VC~~g~~e-~~~MLlCDgCd~gYHl~CL~PppL~----~VPeG~dWyCp~Cl~~ 455 (823)
..|.+|..+.-. ++.||.|++|..|||..|..| .++ .-|.. +|||..|...
T Consensus 169 ~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp-~i~~~l~~D~~~-~w~C~~C~~~ 224 (464)
T KOG4323|consen 169 LQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQP-LIKDELAGDPFY-EWFCDVCNRG 224 (464)
T ss_pred ceeeeeecCCcCccceeeeecccccHHHHHhccC-CCCHhhccCccc-eEeehhhccc
Confidence 349999876543 379999999999999999999 443 34666 8999999854
No 40
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=97.33 E-value=7.9e-05 Score=84.39 Aligned_cols=50 Identities=34% Similarity=0.750 Sum_probs=44.0
Q ss_pred cccccccccCCCCC-CceEecCCCCCcccccccccCcCCCCCCCCCccccccccc
Q 003406 402 AFTCQICKLTANEV-ETVVLCDACEKGFHLKCLQMNNQKGIPRGGEWHCMSCLKL 455 (823)
Q Consensus 402 ~~~C~VC~~g~~e~-~~MLlCDgCd~gYHl~CL~PppL~~VPeG~dWyCp~Cl~~ 455 (823)
+..|.+|...+++. +.+++||+|+-..|..|+ ++.-+|+| .|+|.+|+-.
T Consensus 193 d~~C~~c~~t~~eN~naiVfCdgC~i~VHq~CY---GI~f~peG-~WlCrkCi~~ 243 (669)
T COG5141 193 DDICTKCTSTHNENSNAIVFCDGCEICVHQSCY---GIQFLPEG-FWLCRKCIYG 243 (669)
T ss_pred hhhhHhccccccCCcceEEEecCcchhhhhhcc---cceecCcc-hhhhhhhccc
Confidence 47899999887754 789999999999999999 67799999 9999999854
No 41
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=96.86 E-value=0.00027 Score=54.64 Aligned_cols=35 Identities=29% Similarity=0.924 Sum_probs=20.8
Q ss_pred CceEecCCCCCcccccccccCcCCCCCCCCCccccccc
Q 003406 416 ETVVLCDACEKGFHLKCLQMNNQKGIPRGGEWHCMSCL 453 (823)
Q Consensus 416 ~~MLlCDgCd~gYHl~CL~PppL~~VPeG~dWyCp~Cl 453 (823)
+.||.|++|.-..|..|+ ++..+|.+.+|+|..|.
T Consensus 2 n~ll~C~~C~v~VH~~CY---Gv~~~~~~~~W~C~~C~ 36 (36)
T PF13831_consen 2 NPLLFCDNCNVAVHQSCY---GVSEVPDGDDWLCDRCE 36 (36)
T ss_dssp CEEEE-SSS--EEEHHHH---T-SS--SS-----HHH-
T ss_pred CceEEeCCCCCcCChhhC---CcccCCCCCcEECCcCC
Confidence 579999999999999999 67788887689999884
No 42
>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=93.70 E-value=0.012 Score=51.51 Aligned_cols=24 Identities=8% Similarity=0.173 Sum_probs=22.1
Q ss_pred CCcccCcCcccccccccCCCCccc
Q 003406 329 APQAVRDQSFRPFISQTGNMPNVH 352 (823)
Q Consensus 329 ~~Q~~hd~CIrpWSk~SNsCPiCR 352 (823)
-+|.+|..||..|-+..++||+||
T Consensus 50 C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 50 CGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cCCCEEHHHHHHHHhcCCcCCCCC
Confidence 599999999999999999999997
No 43
>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=93.66 E-value=0.0092 Score=46.79 Aligned_cols=24 Identities=4% Similarity=0.265 Sum_probs=21.8
Q ss_pred CCcccCcCcccccccccCCCCccc
Q 003406 329 APQAVRDQSFRPFISQTGNMPNVH 352 (823)
Q Consensus 329 ~~Q~~hd~CIrpWSk~SNsCPiCR 352 (823)
-+|.+|..||..|.+..++||+||
T Consensus 21 C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 21 CGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCeeCHHHHHHHHHhCCcCCccC
Confidence 489999999999999999999997
No 44
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=93.14 E-value=0.16 Score=58.35 Aligned_cols=110 Identities=23% Similarity=0.336 Sum_probs=79.7
Q ss_pred EEeecCEEEEecCCCCCCh---hhhhhhhccCCCCceEEEeeeeccCCCC------------------------------
Q 003406 696 TYKVKDHVLLHSSNNKLMP---SKLQTMWEDTGTGSKWVMVNRCFFPGDL------------------------------ 742 (823)
Q Consensus 696 tyrvgDcVLl~S~~~~~~P---akI~~lWE~~~sG~~~v~v~WYYrPE~t------------------------------ 742 (823)
+|+|||-|-|-++... | -||+.|=.+ .+|....+|--|||=-|.
T Consensus 5 ~y~vgd~vYf~~sss~--PYliRrIEELnKT-a~GnVeAkvVc~~RRRDIs~~L~~lAD~~ar~~~~y~a~~~a~~~~e~ 81 (693)
T KOG3554|consen 5 MYRVGDYVYFENSSSN--PYLIRRIEELNKT-ANGNVEAKVVCYLRRRDISSHLLKLADKHARRFDNYAAPEAAPEATEA 81 (693)
T ss_pred cceecceEEEecCCCC--hHHHHHHHHHhcc-ccCCcceEEEEEEEccchHHHHHHHHHHHhhhcccccCcccCcccchh
Confidence 8999999999987754 7 899999885 688888888888886441
Q ss_pred --------CCccCCC----CCCCcccccccCCcccccccccccceEEeCcchhhhhHHHhhhcCCCCCCCCCCeEEEeee
Q 003406 743 --------PEAVGCP----CAPESNELYESNNESSVMAGLIRGPCEVLPPGKFKEENERLNHLGNEANKGRHPVFLCQWF 810 (823)
Q Consensus 743 --------~~~~grp----~~~~~NEVf~S~H~D~n~Va~IegKC~Vl~f~ry~~~~~rr~~~g~~~~~~~~p~F~Cr~~ 810 (823)
+.-+|-+ ...-..|||-|++...-++.-|.|||-|.-..+=..+.--. ...+.||--.+
T Consensus 82 e~EEe~e~p~~vdlt~~qrhqLrhrElFlsRQ~EsLPAthIRGKCsV~LLnete~~~~YL---------~~eDtFfySLV 152 (693)
T KOG3554|consen 82 EIEEESECPAPVDLTEKQRHQLRHRELFLSRQSESLPATHIRGKCSVTLLNETESLQSYL---------EKEDTFFYSLV 152 (693)
T ss_pred hhhhhccCCCcCCCCHHHHHHHHHHHHHHhhhhccCchhhhccceeEEEecChHHHHhhc---------cccceeEEEee
Confidence 1112211 11235799999999999999999999998765442222111 12348999999
Q ss_pred eecccCc
Q 003406 811 YDELKGV 817 (823)
Q Consensus 811 Yd~~~~~ 817 (823)
||+.-+-
T Consensus 153 yDP~~kT 159 (693)
T KOG3554|consen 153 YDPNQKT 159 (693)
T ss_pred eccchhh
Confidence 9998653
No 45
>PHA02929 N1R/p28-like protein; Provisional
Probab=92.18 E-value=0.04 Score=58.63 Aligned_cols=31 Identities=6% Similarity=0.105 Sum_probs=28.5
Q ss_pred CCcccCcCcccccccccCCCCccccCCCcce
Q 003406 329 APQAVRDQSFRPFISQTGNMPNVHQPLQGTN 359 (823)
Q Consensus 329 ~~Q~~hd~CIrpWSk~SNsCPiCRq~F~gI~ 359 (823)
.+|.+|-.||.+|.+..++||+||+.|..|.
T Consensus 200 C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~v~ 230 (238)
T PHA02929 200 CNHVFCIECIDIWKKEKNTCPVCRTPFISVI 230 (238)
T ss_pred CCCcccHHHHHHHHhcCCCCCCCCCEeeEEe
Confidence 5899999999999999999999999998654
No 46
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=92.03 E-value=0.085 Score=65.49 Aligned_cols=45 Identities=24% Similarity=0.738 Sum_probs=41.7
Q ss_pred ccccccccCCCCCCceEecCCCCCcccccccccCcCCCCCCCCCccccccc
Q 003406 403 FTCQICKLTANEVETVVLCDACEKGFHLKCLQMNNQKGIPRGGEWHCMSCL 453 (823)
Q Consensus 403 ~~C~VC~~g~~e~~~MLlCDgCd~gYHl~CL~PppL~~VPeG~dWyCp~Cl 453 (823)
+.|.+|.+. +.++||..|++.||+.|..| |+-.+|+. +|-|--|.
T Consensus 345 dhcrf~~d~----~~~lc~Et~prvvhlEcv~h-P~~~~~s~-~~e~evc~ 389 (1414)
T KOG1473|consen 345 DHCRFCHDL----GDLLCCETCPRVVHLECVFH-PRFAVPSA-FWECEVCN 389 (1414)
T ss_pred ccccccCcc----cceeecccCCceEEeeecCC-ccccCCCc-cchhhhhh
Confidence 679999977 78899999999999999999 79999999 99999997
No 47
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=90.83 E-value=0.2 Score=58.10 Aligned_cols=66 Identities=24% Similarity=0.590 Sum_probs=44.4
Q ss_pred ccccccccCCCCC-CceEecCCCCCcccccccccCcCCCCCCC------CCccccccccccC---CCCCCCCcccc
Q 003406 403 FTCQICKLTANEV-ETVVLCDACEKGFHLKCLQMNNQKGIPRG------GEWHCMSCLKLSN---GKPLPPKYGRV 468 (823)
Q Consensus 403 ~~C~VC~~g~~e~-~~MLlCDgCd~gYHl~CL~PppL~~VPeG------~dWyCp~Cl~~~~---gkp~pP~yGfv 468 (823)
.+|+||......+ +.+|.||.|+-..|-.|++----..||.+ ..|||.-|+.... ..-+|-.||-.
T Consensus 120 ~iCcVClg~rs~da~ei~qCd~CGi~VHEgCYGv~dn~si~s~~s~~stepWfCeaC~~Gvs~P~CElCPn~~Gif 195 (707)
T KOG0957|consen 120 VICCVCLGQRSVDAGEILQCDKCGINVHEGCYGVLDNVSIPSGSSDCSTEPWFCEACLYGVSLPHCELCPNRFGIF 195 (707)
T ss_pred eEEEEeecCccccccceeeccccCceecccccccccccccCCCCccCCCCchhhhhHhcCCCCCccccCCCcCCcc
Confidence 4799998543222 89999999999999999965212345544 2499999987642 12225556633
No 48
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=90.32 E-value=0.063 Score=49.21 Aligned_cols=28 Identities=18% Similarity=0.371 Sum_probs=25.0
Q ss_pred CCcccCcCccccccccc---CCCCccccCCC
Q 003406 329 APQAVRDQSFRPFISQT---GNMPNVHQPLQ 356 (823)
Q Consensus 329 ~~Q~~hd~CIrpWSk~S---NsCPiCRq~F~ 356 (823)
.+|.+|-.||..|-+.. +.||+||+.|.
T Consensus 52 C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 52 CSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 58999999999998853 89999999986
No 49
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=88.24 E-value=0.14 Score=55.78 Aligned_cols=33 Identities=9% Similarity=0.159 Sum_probs=29.8
Q ss_pred CCcccCcCcccccccccCCCCccccCCCcceee
Q 003406 329 APQAVRDQSFRPFISQTGNMPNVHQPLQGTNIV 361 (823)
Q Consensus 329 ~~Q~~hd~CIrpWSk~SNsCPiCRq~F~gI~~V 361 (823)
.||.++..||++|......||.||+.|+.-.++
T Consensus 257 CGHiFCWsCI~~w~~ek~eCPlCR~~~~pskvi 289 (293)
T KOG0317|consen 257 CGHIFCWSCILEWCSEKAECPLCREKFQPSKVI 289 (293)
T ss_pred CcchHHHHHHHHHHccccCCCcccccCCCccee
Confidence 589999999999999999999999999976644
No 50
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=87.44 E-value=0.13 Score=47.01 Aligned_cols=27 Identities=19% Similarity=0.262 Sum_probs=26.1
Q ss_pred CcccCcCcccccccccCCCCccccCCC
Q 003406 330 PQAVRDQSFRPFISQTGNMPNVHQPLQ 356 (823)
Q Consensus 330 ~Q~~hd~CIrpWSk~SNsCPiCRq~F~ 356 (823)
.|.+|+.||..|-..-|.||+|||.|.
T Consensus 55 nHaFH~HCI~rWL~Tk~~CPld~q~w~ 81 (88)
T COG5194 55 NHAFHDHCIYRWLDTKGVCPLDRQTWV 81 (88)
T ss_pred chHHHHHHHHHHHhhCCCCCCCCceeE
Confidence 899999999999999999999999997
No 51
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=86.54 E-value=0.36 Score=44.36 Aligned_cols=46 Identities=22% Similarity=0.558 Sum_probs=30.1
Q ss_pred ccccccCCCCCCceEecCCCCCcccccccccCcCCCCCCCCCccccccccc
Q 003406 405 CQICKLTANEVETVVLCDACEKGFHLKCLQMNNQKGIPRGGEWHCMSCLKL 455 (823)
Q Consensus 405 C~VC~~g~~e~~~MLlCDgCd~gYHl~CL~PppL~~VPeG~dWyCp~Cl~~ 455 (823)
|..|+.++++ -.++++. |...||+.|+.- =|.+- .. .=.||.|+..
T Consensus 35 Cp~Ck~Pgd~-Cplv~g~-C~H~FH~hCI~k-Wl~~~-~~-~~~CPmCR~~ 80 (85)
T PF12861_consen 35 CPDCKFPGDD-CPLVWGK-CSHNFHMHCILK-WLSTQ-SS-KGQCPMCRQP 80 (85)
T ss_pred CCCccCCCCC-Cceeecc-CccHHHHHHHHH-HHccc-cC-CCCCCCcCCe
Confidence 4556555444 3455554 999999999976 35543 33 4589999854
No 52
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=86.20 E-value=0.38 Score=49.19 Aligned_cols=66 Identities=23% Similarity=0.572 Sum_probs=43.6
Q ss_pred ccccccc--CCCCCCceEecCCCCCcccccccccCc-----CCCCCCC-CCccccccccccCCC-CCCCCccccc
Q 003406 404 TCQICKL--TANEVETVVLCDACEKGFHLKCLQMNN-----QKGIPRG-GEWHCMSCLKLSNGK-PLPPKYGRVM 469 (823)
Q Consensus 404 ~C~VC~~--g~~e~~~MLlCDgCd~gYHl~CL~Ppp-----L~~VPeG-~dWyCp~Cl~~~~gk-p~pP~yGfvq 469 (823)
.|.+|.. ++.+-+.||+|.||-.+||..||.+.. ...|-.+ +-.-|..|+.....| +..|..|.=+
T Consensus 1 ~C~~C~~~g~~~~kG~Lv~CQGCs~sYHk~CLG~Rs~ReHlVTKVg~d~FVLQCr~Cig~~~kKD~~aP~~~~C~ 75 (175)
T PF15446_consen 1 TCDTCGYEGDDRNKGPLVYCQGCSSSYHKACLGPRSQREHLVTKVGDDDFVLQCRRCIGIAHKKDPRAPHHGMCQ 75 (175)
T ss_pred CcccccCCCCCccCCCeEEcCccChHHHhhhcCCccccceeeEEEcCCceEEechhhcChhhcccCCCCCCCccc
Confidence 4888964 222238999999999999999998843 1233333 125599998665333 3466666554
No 53
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.15 E-value=0.62 Score=52.28 Aligned_cols=45 Identities=22% Similarity=0.497 Sum_probs=35.0
Q ss_pred ccccccccCCCCCCceEecCCCCCcccccccccCcCCCCCCCCCc--cccccccc
Q 003406 403 FTCQICKLTANEVETVVLCDACEKGFHLKCLQMNNQKGIPRGGEW--HCMSCLKL 455 (823)
Q Consensus 403 ~~C~VC~~g~~e~~~MLlCDgCd~gYHl~CL~PppL~~VPeG~dW--yCp~Cl~~ 455 (823)
..|.||.+.+.+.+.+.. ==|...||..|.+|. |. +| +||-|...
T Consensus 230 ~~CaIClEdY~~GdklRi-LPC~H~FH~~CIDpW-L~------~~r~~CPvCK~d 276 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRI-LPCSHKFHVNCIDPW-LT------QTRTFCPVCKRD 276 (348)
T ss_pred ceEEEeecccccCCeeeE-ecCCCchhhccchhh-Hh------hcCccCCCCCCc
Confidence 589999999887444443 678999999999996 43 44 69999864
No 54
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=85.08 E-value=0.31 Score=55.92 Aligned_cols=28 Identities=4% Similarity=0.049 Sum_probs=25.7
Q ss_pred CCcCCCcccCcCcccccccccCCCCccccC
Q 003406 325 MSRTAPQAVRDQSFRPFISQTGNMPNVHQP 354 (823)
Q Consensus 325 mtRa~~Q~~hd~CIrpWSk~SNsCPiCRq~ 354 (823)
+++.++|.+|..|++.|.- .+||.||--
T Consensus 193 ~t~~c~Hsfh~~cl~~w~~--~scpvcR~~ 220 (493)
T KOG0804|consen 193 LTILCNHSFHCSCLMKWWD--SSCPVCRYC 220 (493)
T ss_pred eeeecccccchHHHhhccc--CcChhhhhh
Confidence 7899999999999999999 999999743
No 55
>PHA02926 zinc finger-like protein; Provisional
Probab=84.55 E-value=0.28 Score=52.17 Aligned_cols=35 Identities=6% Similarity=0.086 Sum_probs=28.5
Q ss_pred CCcCCCcccCcCcccccccc------cCCCCccccCCCcce
Q 003406 325 MSRTAPQAVRDQSFRPFISQ------TGNMPNVHQPLQGTN 359 (823)
Q Consensus 325 mtRa~~Q~~hd~CIrpWSk~------SNsCPiCRq~F~gI~ 359 (823)
+.-..+|.++-.||+.|.+. ..+||+||+.|..|.
T Consensus 193 IL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~ 233 (242)
T PHA02926 193 LLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNIT 233 (242)
T ss_pred ccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeec
Confidence 44557999999999999984 256999999999543
No 56
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.46 E-value=0.21 Score=58.38 Aligned_cols=28 Identities=14% Similarity=0.313 Sum_probs=25.3
Q ss_pred CCcccCcCcccccccccCCCCccccCCC
Q 003406 329 APQAVRDQSFRPFISQTGNMPNVHQPLQ 356 (823)
Q Consensus 329 ~~Q~~hd~CIrpWSk~SNsCPiCRq~F~ 356 (823)
.+|.+|+.|++.|-++.++||+||..+.
T Consensus 314 C~Hifh~~CL~~W~er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 314 CGHIFHDSCLRSWFERQQTCPTCRTVLY 341 (543)
T ss_pred cccchHHHHHHHHHHHhCcCCcchhhhh
Confidence 3899999999999999999999999433
No 57
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=82.30 E-value=0.89 Score=38.74 Aligned_cols=34 Identities=21% Similarity=0.701 Sum_probs=29.2
Q ss_pred cccccccccCCCCCCceEecCCCCCccccccccc
Q 003406 402 AFTCQICKLTANEVETVVLCDACEKGFHLKCLQM 435 (823)
Q Consensus 402 ~~~C~VC~~g~~e~~~MLlCDgCd~gYHl~CL~P 435 (823)
...|.+|++.-.+.+.+|.|..|...||..|...
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 4679999987654489999999999999999965
No 58
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=82.00 E-value=0.42 Score=56.95 Aligned_cols=51 Identities=22% Similarity=0.659 Sum_probs=38.1
Q ss_pred cccccccccCCCCC-CceEecCCCCCcccccccccCcCCCC--CCCCCccccccccc
Q 003406 402 AFTCQICKLTANEV-ETVVLCDACEKGFHLKCLQMNNQKGI--PRGGEWHCMSCLKL 455 (823)
Q Consensus 402 ~~~C~VC~~g~~e~-~~MLlCDgCd~gYHl~CL~PppL~~V--PeG~dWyCp~Cl~~ 455 (823)
...|.+|+..+... +.|+.|..|..-||.+|+.- -+... -.| |.|+.|+.-
T Consensus 18 ~~mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~-~~~~~~l~~g--WrC~~crvC 71 (694)
T KOG4443|consen 18 CLMCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTS-WAQHAVLSGG--WRCPSCRVC 71 (694)
T ss_pred hhhhhhhccccccccCcchhhhhhcccCCcchhhH-HHhHHHhcCC--cccCCceee
Confidence 35688898755433 78999999999999999974 23333 444 999999754
No 59
>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=81.87 E-value=0.43 Score=35.51 Aligned_cols=27 Identities=7% Similarity=0.256 Sum_probs=23.8
Q ss_pred CCcccCcCcccccccc-cCCCCccccCC
Q 003406 329 APQAVRDQSFRPFISQ-TGNMPNVHQPL 355 (823)
Q Consensus 329 ~~Q~~hd~CIrpWSk~-SNsCPiCRq~F 355 (823)
-+|.+|..|+..|.+. ...||.||+.+
T Consensus 18 C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 18 CGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 5899999999999987 78899999763
No 60
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=81.12 E-value=0.28 Score=44.51 Aligned_cols=27 Identities=19% Similarity=0.320 Sum_probs=23.4
Q ss_pred CcccCcCccccccccc---CCCCccccCCC
Q 003406 330 PQAVRDQSFRPFISQT---GNMPNVHQPLQ 356 (823)
Q Consensus 330 ~Q~~hd~CIrpWSk~S---NsCPiCRq~F~ 356 (823)
-|.+|..||..|-... +.||+|||.|.
T Consensus 52 ~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 52 LHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred HHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 6899999999996544 88999999987
No 61
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=80.47 E-value=0.46 Score=53.58 Aligned_cols=26 Identities=8% Similarity=0.309 Sum_probs=25.1
Q ss_pred CCcccCcCcccccccccCCCCccccC
Q 003406 329 APQAVRDQSFRPFISQTGNMPNVHQP 354 (823)
Q Consensus 329 ~~Q~~hd~CIrpWSk~SNsCPiCRq~ 354 (823)
.||.+|-.|++-|-....+||+||.+
T Consensus 318 CGHilHl~CLknW~ERqQTCPICr~p 343 (491)
T COG5243 318 CGHILHLHCLKNWLERQQTCPICRRP 343 (491)
T ss_pred ccceeeHHHHHHHHHhccCCCcccCc
Confidence 58999999999999999999999998
No 62
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.30 E-value=0.98 Score=50.76 Aligned_cols=34 Identities=18% Similarity=0.334 Sum_probs=27.7
Q ss_pred CCCcCC--CcccCcCcccccccccCC-CCccccCCCc
Q 003406 324 DMSRTA--PQAVRDQSFRPFISQTGN-MPNVHQPLQG 357 (823)
Q Consensus 324 dmtRa~--~Q~~hd~CIrpWSk~SNs-CPiCRq~F~g 357 (823)
|..|++ .|.+|-.||-+|-.+..+ ||+||+.-..
T Consensus 243 dklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 243 DKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRT 279 (348)
T ss_pred CeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence 345665 899999999999999955 9999996443
No 63
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=77.22 E-value=0.6 Score=58.51 Aligned_cols=59 Identities=22% Similarity=0.368 Sum_probs=46.4
Q ss_pred CcccccccccccccccCCCCCCceEecCC-CCCcccc-cccccC-cCCCCCCCCCccccccccccCC
Q 003406 395 SREYMSKAFTCQICKLTANEVETVVLCDA-CEKGFHL-KCLQMN-NQKGIPRGGEWHCMSCLKLSNG 458 (823)
Q Consensus 395 s~ey~~~~~~C~VC~~g~~e~~~MLlCDg-Cd~gYHl-~CL~Pp-pL~~VPeG~dWyCp~Cl~~~~g 458 (823)
.+.|-.....|.||+.. +.+|+|++ |...||+ .||+-- --..++++ -|+|+.|.-...+
T Consensus 421 gr~ywfi~rrl~Ie~~d----et~l~yysT~pqly~ll~cLd~~~~e~~L~d~-i~~~~ee~~rqM~ 482 (1414)
T KOG1473|consen 421 GRKYWFISRRLRIEGMD----ETLLWYYSTCPQLYHLLRCLDRTYVEMYLCDG-IWERREEIIRQMG 482 (1414)
T ss_pred ccchhceeeeeEEecCC----CcEEEEecCcHHHHHHHHHhchHHHHHhhccc-hhhhHHHHHHhcc
Confidence 45665566789999855 78999999 9999999 999721 13578999 9999999876543
No 64
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=76.86 E-value=1.4 Score=52.40 Aligned_cols=48 Identities=33% Similarity=0.701 Sum_probs=39.0
Q ss_pred cccccccccCCCCCCceEecCCCCCcccccccccCcCC-CCCCCCCccccccccc
Q 003406 402 AFTCQICKLTANEVETVVLCDACEKGFHLKCLQMNNQK-GIPRGGEWHCMSCLKL 455 (823)
Q Consensus 402 ~~~C~VC~~g~~e~~~MLlCDgCd~gYHl~CL~PppL~-~VPeG~dWyCp~Cl~~ 455 (823)
...|.+|..+ +.+++|+.|+..||+.|..+ ++. ..+.+ .|.|..|...
T Consensus 47 ~ts~~~~~~~----gn~~~~~~~~~s~h~~~~~~-~~sp~~~~~-~~~~~~~~~~ 95 (613)
T KOG4299|consen 47 ATSCGICKSG----GNLLCCDHCPASFHLECDKP-PLSPDLKGS-EINCSRCPKG 95 (613)
T ss_pred hhhcchhhhc----CCccccccCccccchhccCc-ccCcccccc-cccccCCCcc
Confidence 4679999988 67799999999999999998 555 33334 8999999763
No 65
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=76.63 E-value=0.71 Score=50.61 Aligned_cols=53 Identities=19% Similarity=0.306 Sum_probs=38.0
Q ss_pred cccccccccCCCC-----CCceEecCCCCCcccccccccCc-CCCCCCCCCcccccccc
Q 003406 402 AFTCQICKLTANE-----VETVVLCDACEKGFHLKCLQMNN-QKGIPRGGEWHCMSCLK 454 (823)
Q Consensus 402 ~~~C~VC~~g~~e-----~~~MLlCDgCd~gYHl~CL~Ppp-L~~VPeG~dWyCp~Cl~ 454 (823)
...|.+|-++... .+.|++|.-|...||.+|+..++ |..+=+...|-|..|..
T Consensus 258 ~~~~~~~~~~~~~~~~~r~~S~I~C~~C~~~~HP~Ci~M~~elv~~~KTY~W~C~~C~l 316 (381)
T KOG1512|consen 258 RNERKHFWDIQTNIIQSRRNSWIVCKPCATRPHPYCVAMIPELVGQYKTYFWKCSSCEL 316 (381)
T ss_pred hhhhhhhhcchhhhhhhhhccceeecccccCCCCcchhcCHHHHhHHhhcchhhcccHh
Confidence 3568888765322 17899999999999999998733 32332333899999953
No 66
>PF10383 Clr2: Transcription-silencing protein Clr2 ; InterPro: IPR018839 Clr2 (cryptic loci regulator) is a chromatin silencing protein, one of a quartet of proteins forming the core of SHREC, a multienzyme effector complex that mediates hetero-chromatic transcriptional gene silencing in fission yeast []. Clr2 does not have any obvious well-conserved domains but, along with the other core proteins, binds to the histone deacetylase Clr3, and on its own might also have a role in chromatin organisation at the cnt domain, the site of kinetochore assembly.
Probab=75.59 E-value=2.7 Score=41.40 Aligned_cols=26 Identities=27% Similarity=0.327 Sum_probs=23.1
Q ss_pred eeEEEEEECCEEEeecCEEEEecCCC
Q 003406 685 KFYQSCRIGGVTYKVKDHVLLHSSNN 710 (823)
Q Consensus 685 ~~Y~~~~~~GetyrvgDcVLl~S~~~ 710 (823)
.||++|.+|-|.|.|||.|.|+..+.
T Consensus 1 i~y~GiflGAE~I~vGD~VRl~~~~~ 26 (139)
T PF10383_consen 1 IYYRGIFLGAEMIWVGDAVRLKPLNA 26 (139)
T ss_pred CeECeEEEeeEEEEeCCEEEECccCC
Confidence 48999999999999999999966544
No 67
>KOG1632 consensus Uncharacterized PHD Zn-finger protein [General function prediction only]
Probab=74.80 E-value=1.4 Score=49.38 Aligned_cols=51 Identities=24% Similarity=0.550 Sum_probs=39.5
Q ss_pred ccccCCCCCCceEecCCCCCcccccc--cccCcCCCCCCCCCccccccccccCC
Q 003406 407 ICKLTANEVETVVLCDACEKGFHLKC--LQMNNQKGIPRGGEWHCMSCLKLSNG 458 (823)
Q Consensus 407 VC~~g~~e~~~MLlCDgCd~gYHl~C--L~PppL~~VPeG~dWyCp~Cl~~~~g 458 (823)
.|....+.+..|+-||.|..|||..| ++. +..++|.-..|+|..|.....+
T Consensus 64 ~~~~~~~p~~~~~~cd~C~~~~~~ec~~v~~-~~~e~p~~~~~~c~~c~~~~~~ 116 (345)
T KOG1632|consen 64 KCYKPCDPDDLMEQCDLCEDWYHGECWEVGT-AEKEAPKEDPKVCDECKEAQDG 116 (345)
T ss_pred hcccccCchhhhhccccccccccccccccCc-hhhcCCccccccccccchhhhh
Confidence 34444444348999999999999999 888 5677777668999999876644
No 68
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=73.10 E-value=0.68 Score=37.33 Aligned_cols=31 Identities=10% Similarity=0.265 Sum_probs=26.3
Q ss_pred CCCcc-cCcCcccccccccCCCCccccCCCcc
Q 003406 328 TAPQA-VRDQSFRPFISQTGNMPNVHQPLQGT 358 (823)
Q Consensus 328 a~~Q~-~hd~CIrpWSk~SNsCPiCRq~F~gI 358 (823)
.-+|. +...|+..|.+....||+||+++..|
T Consensus 19 pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~V 50 (50)
T PF13920_consen 19 PCGHLCFCEECAERLLKRKKKCPICRQPIESV 50 (50)
T ss_dssp TTCEEEEEHHHHHHHHHTTSBBTTTTBB-SEE
T ss_pred CCCChHHHHHHhHHhcccCCCCCcCChhhcCC
Confidence 35788 99999999999999999999997643
No 69
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=69.82 E-value=1 Score=43.05 Aligned_cols=31 Identities=6% Similarity=0.023 Sum_probs=27.4
Q ss_pred CcCC---CcccCcCcccccccccCCCCccccCCC
Q 003406 326 SRTA---PQAVRDQSFRPFISQTGNMPNVHQPLQ 356 (823)
Q Consensus 326 tRa~---~Q~~hd~CIrpWSk~SNsCPiCRq~F~ 356 (823)
+.+| +|.+|..||-.|-+..|.||+|.+...
T Consensus 75 ~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~ 108 (114)
T KOG2930|consen 75 TVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWV 108 (114)
T ss_pred EEEeeecchHHHHHHHHHHHhhcCcCCCcCccee
Confidence 4555 899999999999999999999998865
No 70
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=68.04 E-value=2.4 Score=34.87 Aligned_cols=32 Identities=19% Similarity=0.341 Sum_probs=27.4
Q ss_pred CCCcccCcCcccccccccCCCCccccCCCcce
Q 003406 328 TAPQAVRDQSFRPFISQTGNMPNVHQPLQGTN 359 (823)
Q Consensus 328 a~~Q~~hd~CIrpWSk~SNsCPiCRq~F~gI~ 359 (823)
..+|++.-.||..|-+..+.||.|++.+..-+
T Consensus 18 ~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~ 49 (63)
T smart00504 18 PSGQTYERRAIEKWLLSHGTDPVTGQPLTHED 49 (63)
T ss_pred CCCCEEeHHHHHHHHHHCCCCCCCcCCCChhh
Confidence 34799999999999988899999999986444
No 71
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=65.63 E-value=9.1 Score=48.38 Aligned_cols=58 Identities=22% Similarity=0.365 Sum_probs=47.5
Q ss_pred eeeEEEEEECCEEEeecCEEEEecCCCCC--------------------C---h-hhhhhhhccCCCCceEEEeeeeccC
Q 003406 684 KKFYQSCRIGGVTYKVKDHVLLHSSNNKL--------------------M---P-SKLQTMWEDTGTGSKWVMVNRCFFP 739 (823)
Q Consensus 684 k~~Y~~~~~~GetyrvgDcVLl~S~~~~~--------------------~---P-akI~~lWE~~~sG~~~v~v~WYYrP 739 (823)
-.-|.+++++++.|.+||-|||-=.+... + - |||+++++..++...-..||-||--
T Consensus 440 g~iye~~~in~~~ys~g~dv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~l~kg~is~fy~~~~~~~~~~e~c~y~d~ 519 (1164)
T PTZ00112 440 GVIYESIQINDVEYSIGDDVLIFCTGNGNTYNGKSGTKKNQNNKNIKENIYQLRKGKISSFYKNTNSNQVEAEVCIYYDQ 519 (1164)
T ss_pred ceEEEEEEEcceeeccCCcEEEEEcCCCCccccccCccccccccchhhhhheecccccchhhhcCCCceeeEEEEEEEcc
Confidence 45699999999999999999985432210 0 1 9999999999999999999999987
Q ss_pred CC
Q 003406 740 GD 741 (823)
Q Consensus 740 E~ 741 (823)
-|
T Consensus 520 ~d 521 (1164)
T PTZ00112 520 HD 521 (1164)
T ss_pred cc
Confidence 65
No 72
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=62.42 E-value=3.5 Score=47.52 Aligned_cols=29 Identities=17% Similarity=0.185 Sum_probs=26.1
Q ss_pred CCcCCCcccCcCcccccccccCCCCccccCCCcceee
Q 003406 325 MSRTAPQAVRDQSFRPFISQTGNMPNVHQPLQGTNIV 361 (823)
Q Consensus 325 mtRa~~Q~~hd~CIrpWSk~SNsCPiCRq~F~gI~~V 361 (823)
|.||.++.||-.|+ +|=+|++-+.+|.+.
T Consensus 348 iLrA~GkayHp~CF--------~Cv~C~r~ldgipFt 376 (468)
T KOG1701|consen 348 ILRALGKAYHPGCF--------TCVVCARCLDGIPFT 376 (468)
T ss_pred HHHhcccccCCCce--------EEEEeccccCCcccc
Confidence 89999999999998 588999999999865
No 73
>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=59.53 E-value=6.6 Score=45.59 Aligned_cols=66 Identities=27% Similarity=0.504 Sum_probs=45.0
Q ss_pred cccccccccccCCCCC--CceEecCCCCCcccccccccCcC-------CC---CCCCCCccccccccccCCCCCCCCccc
Q 003406 400 SKAFTCQICKLTANEV--ETVVLCDACEKGFHLKCLQMNNQ-------KG---IPRGGEWHCMSCLKLSNGKPLPPKYGR 467 (823)
Q Consensus 400 ~~~~~C~VC~~g~~e~--~~MLlCDgCd~gYHl~CL~PppL-------~~---VPeG~dWyCp~Cl~~~~gkp~pP~yGf 467 (823)
-....|.+|.+-+++. -..|.||.|..|-|+.|---..+ .. ..++ .+||..|-... ..|||
T Consensus 126 C~~C~C~iC~kfD~~~n~~~Wi~Cd~CgH~cH~dCALr~~~i~~G~s~~g~~g~~d~-~f~C~~C~~~s------eLlG~ 198 (446)
T PF07227_consen 126 CRRCMCCICSKFDDNKNTCSWIGCDVCGHWCHLDCALRHELIGTGPSVKGSIGTLDM-QFHCRACGKTS------ELLGF 198 (446)
T ss_pred cccCCccccCCcccCCCCeeEEeccCCCceehhhhhcccccccCCccCCCCCccCce-EEEccCCCChh------hHHHH
Confidence 3457799998865432 57899999999999999532111 11 1344 79999998653 36888
Q ss_pred ccccc
Q 003406 468 VMRSI 472 (823)
Q Consensus 468 vqrs~ 472 (823)
+..-.
T Consensus 199 vk~vf 203 (446)
T PF07227_consen 199 VKKVF 203 (446)
T ss_pred HHHHH
Confidence 86543
No 74
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=56.60 E-value=7 Score=44.90 Aligned_cols=33 Identities=12% Similarity=0.110 Sum_probs=28.4
Q ss_pred CcCCCcccCcCcccccccccCCCCccccCCCcc
Q 003406 326 SRTAPQAVRDQSFRPFISQTGNMPNVHQPLQGT 358 (823)
Q Consensus 326 tRa~~Q~~hd~CIrpWSk~SNsCPiCRq~F~gI 358 (823)
+-..+|.++..||..|-.....||+||..+...
T Consensus 41 itpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 41 LTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQES 73 (397)
T ss_pred CCCCCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence 345789999999999998888999999998754
No 75
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=55.06 E-value=6.4 Score=34.54 Aligned_cols=52 Identities=27% Similarity=0.455 Sum_probs=19.8
Q ss_pred ccccccccCCCCC--CceEecC--CCCCcccccccccCcCCCCCCC------CCccccccccc
Q 003406 403 FTCQICKLTANEV--ETVVLCD--ACEKGFHLKCLQMNNQKGIPRG------GEWHCMSCLKL 455 (823)
Q Consensus 403 ~~C~VC~~g~~e~--~~MLlCD--gCd~gYHl~CL~PppL~~VPeG------~dWyCp~Cl~~ 455 (823)
..|.||.....+. ...+.|+ .|...||+.||--. +...+.+ ..+-||.|...
T Consensus 3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~w-f~~~~~~~~~~~~~~G~CP~C~~~ 64 (70)
T PF11793_consen 3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEW-FLSLEKSRQSFIPIFGECPYCSSP 64 (70)
T ss_dssp -S-SSS--SS-TT-----B--S-TT----B-SGGGHHH-HHHHHSSS-TTT--EEE-TTT-SE
T ss_pred CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHH-HHHcccCCeeecccccCCcCCCCe
Confidence 3599998754321 3458898 89999999999532 2211111 02668888753
No 76
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=54.71 E-value=3 Score=43.24 Aligned_cols=28 Identities=11% Similarity=0.250 Sum_probs=25.2
Q ss_pred CCcccCcCcccccccccCCCCccccCCC
Q 003406 329 APQAVRDQSFRPFISQTGNMPNVHQPLQ 356 (823)
Q Consensus 329 ~~Q~~hd~CIrpWSk~SNsCPiCRq~F~ 356 (823)
.||+|+..||+.--++++.||+||++..
T Consensus 151 CGHvFC~~Cik~alk~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 151 CGHVFCSQCIKDALKNTNKCPTCRKKIT 178 (187)
T ss_pred cchhHHHHHHHHHHHhCCCCCCcccccc
Confidence 5899999999999999999999998533
No 77
>COG5475 Uncharacterized small protein [Function unknown]
Probab=53.07 E-value=25 Score=30.60 Aligned_cols=39 Identities=15% Similarity=0.010 Sum_probs=27.5
Q ss_pred CEEEeecCEEEEecCCCCCChhhhhhhhccCCCCceEEEeeeeccCC
Q 003406 694 GVTYKVKDHVLLHSSNNKLMPSKLQTMWEDTGTGSKWVMVNRCFFPG 740 (823)
Q Consensus 694 GetyrvgDcVLl~S~~~~~~PakI~~lWE~~~sG~~~v~v~WYYrPE 740 (823)
+.++.+||-|-|+|+++ +|-=.--+-+-|+..+||=+-.
T Consensus 2 ~~~FstgdvV~lKsGGP--------~Mtvs~~ss~Gmy~C~Wf~g~g 40 (60)
T COG5475 2 EMSFSTGDVVTLKSGGP--------RMTVSGYSSDGMYECRWFDGYG 40 (60)
T ss_pred CceeecCcEEEeecCCc--------eEEEeccccCCeEEEEEecCCC
Confidence 46889999999999998 4533211223489999996544
No 78
>KOG1844 consensus PHD Zn-finger proteins [General function prediction only]
Probab=52.32 E-value=8.7 Score=44.23 Aligned_cols=48 Identities=23% Similarity=0.482 Sum_probs=38.1
Q ss_pred ccccCCC-CCCceEecCCCCCcccccccccCcCCCCCCCCCccccccccccCC
Q 003406 407 ICKLTAN-EVETVVLCDACEKGFHLKCLQMNNQKGIPRGGEWHCMSCLKLSNG 458 (823)
Q Consensus 407 VC~~g~~-e~~~MLlCDgCd~gYHl~CL~PppL~~VPeG~dWyCp~Cl~~~~g 458 (823)
+|+..++ + +.|+.|+.|..|=|.+|+....+.. |+ ...|..|......
T Consensus 90 ~c~~~~~~~-g~~i~c~~c~~Wqh~~C~g~~~~~~-p~--~y~c~~c~~~~~~ 138 (508)
T KOG1844|consen 90 DCGLEDDME-GLMIQCDWCGRWQHKICCGSFKSTK-PD--KYVCEICTPRNKE 138 (508)
T ss_pred ccccccCCC-ceeeCCcccCcccCceeeeecCCCC-ch--hceeeeecccccc
Confidence 6777766 5 8999999999999999998754444 44 5899999876533
No 79
>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=50.58 E-value=3.4 Score=33.98 Aligned_cols=23 Identities=9% Similarity=0.186 Sum_probs=19.7
Q ss_pred CcccCcCccccccccc--CCCCccc
Q 003406 330 PQAVRDQSFRPFISQT--GNMPNVH 352 (823)
Q Consensus 330 ~Q~~hd~CIrpWSk~S--NsCPiCR 352 (823)
-|++|..|+..|-..+ .+||+|+
T Consensus 25 ~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 25 LKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred hhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4899999999999666 4999985
No 80
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=48.99 E-value=6 Score=41.46 Aligned_cols=33 Identities=6% Similarity=0.061 Sum_probs=26.5
Q ss_pred CCcccCcCcccccccc----------------cCCCCccccCCCcceee
Q 003406 329 APQAVRDQSFRPFISQ----------------TGNMPNVHQPLQGTNIV 361 (823)
Q Consensus 329 ~~Q~~hd~CIrpWSk~----------------SNsCPiCRq~F~gI~~V 361 (823)
.+|.++-.||..|... ...||.||..+..-.++
T Consensus 36 CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~Lv 84 (193)
T PLN03208 36 CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLV 84 (193)
T ss_pred CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEE
Confidence 6899999999999532 35899999998765544
No 81
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=48.89 E-value=14 Score=39.71 Aligned_cols=74 Identities=27% Similarity=0.454 Sum_probs=45.4
Q ss_pred ccccccccccCCCCCCceEecCCCCCccccccc---ccCcCCCCCCCCCccccccccccCCCCCCCCcccccccccc--c
Q 003406 401 KAFTCQICKLTANEVETVVLCDACEKGFHLKCL---QMNNQKGIPRGGEWHCMSCLKLSNGKPLPPKYGRVMRSINT--T 475 (823)
Q Consensus 401 ~~~~C~VC~~g~~e~~~MLlCDgCd~gYHl~CL---~PppL~~VPeG~dWyCp~Cl~~~~gkp~pP~yGfvqrs~yS--f 475 (823)
....|.||-....+ -.+-+| + |+||. --. |..-+ . .=.||-|...-..+.+-|.||+-....-. .
T Consensus 46 ~~FdCNICLd~akd-PVvTlC---G---HLFCWpClyqW-l~~~~-~-~~~cPVCK~~Vs~~~vvPlYGrG~~~~~~~~~ 115 (230)
T KOG0823|consen 46 GFFDCNICLDLAKD-PVVTLC---G---HLFCWPCLYQW-LQTRP-N-SKECPVCKAEVSIDTVVPLYGRGSKKPSDPRK 115 (230)
T ss_pred CceeeeeeccccCC-CEEeec---c---cceehHHHHHH-HhhcC-C-CeeCCccccccccceEEeeeccCCCCCCCccc
Confidence 34569999987555 334444 3 66665 210 22222 2 46899999988777788899988633222 2
Q ss_pred C-CCCCCCCC
Q 003406 476 K-MPSNTSVI 484 (823)
Q Consensus 476 K-~p~~~~g~ 484 (823)
| .|.++.+.
T Consensus 116 ~~vP~RP~~~ 125 (230)
T KOG0823|consen 116 KDVPPRPAGQ 125 (230)
T ss_pred ccCCCCCCCc
Confidence 3 66666654
No 82
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=47.76 E-value=9.2 Score=46.54 Aligned_cols=52 Identities=25% Similarity=0.514 Sum_probs=35.8
Q ss_pred ccccccccCCCCC----CceEecC--CCCCcccccccccCcCCCCCCC----CCcccccccc
Q 003406 403 FTCQICKLTANEV----ETVVLCD--ACEKGFHLKCLQMNNQKGIPRG----GEWHCMSCLK 454 (823)
Q Consensus 403 ~~C~VC~~g~~e~----~~MLlCD--gCd~gYHl~CL~PppL~~VPeG----~dWyCp~Cl~ 454 (823)
..|+||.+..++. +.-+-|. +|.+.||..|-+--+|--..+| +--||-.|.-
T Consensus 118 KtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~ 179 (900)
T KOG0956|consen 118 KTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKY 179 (900)
T ss_pred ceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceeccccccccceechhHHH
Confidence 6799999876652 4455675 6889999999876455333332 1378999954
No 83
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=47.58 E-value=20 Score=44.09 Aligned_cols=50 Identities=18% Similarity=0.220 Sum_probs=44.2
Q ss_pred ccccccccccCCCCCCceEecCCCCCcccccccccCcCCCCCCCCCccccccccc
Q 003406 401 KAFTCQICKLTANEVETVVLCDACEKGFHLKCLQMNNQKGIPRGGEWHCMSCLKL 455 (823)
Q Consensus 401 ~~~~C~VC~~g~~e~~~MLlCDgCd~gYHl~CL~PppL~~VPeG~dWyCp~Cl~~ 455 (823)
.+..|..|.+. ...++|+.|-+.||..||+|-|++..+.+ -|-|+.|...
T Consensus 505 ~d~~~~~~~~~----l~~l~~p~~lrr~k~d~l~~~P~Kte~i~-~~~~~~~Q~~ 554 (696)
T KOG0383|consen 505 HDISCEEQIKK----LHLLLCPHMLRRLKLDVLKPMPLKTELIG-RVELSPCQKK 554 (696)
T ss_pred chhhHHHHHHh----hccccCchhhhhhhhhhccCCCccceeEE-EEecCHHHHH
Confidence 45779999987 56789999999999999999679999999 9999999754
No 84
>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=47.34 E-value=9 Score=28.27 Aligned_cols=28 Identities=21% Similarity=0.641 Sum_probs=12.4
Q ss_pred cccccccCCCCCCceEecCCCCCcccccc
Q 003406 404 TCQICKLTANEVETVVLCDACEKGFHLKC 432 (823)
Q Consensus 404 ~C~VC~~g~~e~~~MLlCDgCd~gYHl~C 432 (823)
.|.+|++.... +..-.|..|+-..|..|
T Consensus 2 ~C~~C~~~~~~-~~~Y~C~~Cdf~lH~~C 29 (30)
T PF07649_consen 2 RCDACGKPIDG-GWFYRCSECDFDLHEEC 29 (30)
T ss_dssp --TTTS----S---EEE-TTT-----HHH
T ss_pred cCCcCCCcCCC-CceEECccCCCccChhc
Confidence 48999987655 57888999999999988
No 85
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=46.97 E-value=11 Score=34.76 Aligned_cols=31 Identities=26% Similarity=0.787 Sum_probs=25.9
Q ss_pred cccccccccCCCCCCceEecCC--CCCccccccccc
Q 003406 402 AFTCQICKLTANEVETVVLCDA--CEKGFHLKCLQM 435 (823)
Q Consensus 402 ~~~C~VC~~g~~e~~~MLlCDg--Cd~gYHl~CL~P 435 (823)
...|.+|+... +..+-|.. |...||..|..-
T Consensus 55 ~~~C~iC~~~~---G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 55 KLKCSICGKSG---GACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred CCcCcCCCCCC---ceeEEcCCCCCCcCCCHHHHHH
Confidence 35799999862 78899997 999999999854
No 86
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=44.83 E-value=28 Score=40.65 Aligned_cols=79 Identities=19% Similarity=0.492 Sum_probs=44.3
Q ss_pred CCcCCCcccCcCcccccccccCCCCccccCCCcceeecCCCC--CCCchhhhHHHHHhcCCCCCCCCCCCCCCccccccc
Q 003406 325 MSRTAPQAVRDQSFRPFISQTGNMPNVHQPLQGTNIVQAPQF--GSNHGEIAKIVQKLLHPKLPQHPTWTPPSREYMSKA 402 (823)
Q Consensus 325 mtRa~~Q~~hd~CIrpWSk~SNsCPiCRq~F~gI~~Vq~P~~--~s~hkeIaKiVqkll~pkl~~~psw~p~s~ey~~~~ 402 (823)
+.-++.-+..+.|| +||.|++.+- .....+ +..+..+.-.+.+....+ ...
T Consensus 110 l~~~lap~~~~~~i--------~c~~c~rs~~----~dd~~l~~~p~n~~le~vi~ryq~s~---------------~aa 162 (699)
T KOG4367|consen 110 LSPALAPVPRNSCI--------TCPQCHRSLI----LDDRGLRGFPKNRVLEGVIDRYQQSK---------------AAA 162 (699)
T ss_pred ccccccCCCCCceE--------EcchhhhheE----ecccccccCchhhHHHHHHHHHhhhh---------------HHh
Confidence 33444455566676 6888887532 222222 233444444444432221 123
Q ss_pred ccccccccCCCCCCceEecCCCCCcccccc
Q 003406 403 FTCQICKLTANEVETVVLCDACEKGFHLKC 432 (823)
Q Consensus 403 ~~C~VC~~g~~e~~~MLlCDgCd~gYHl~C 432 (823)
..|+.|.+...+ .-++|+.||--|-..|
T Consensus 163 ~kcqlce~a~k~--a~v~ceqcdv~yc~pc 190 (699)
T KOG4367|consen 163 LKCQLCEKAPKE--ATVMCEQCDVFYCDPC 190 (699)
T ss_pred hhhhhhcCChhh--hhhhHhhCceEEechH
Confidence 569999987644 5678999987765555
No 87
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=44.62 E-value=9.5 Score=42.58 Aligned_cols=56 Identities=18% Similarity=0.304 Sum_probs=39.8
Q ss_pred CCCcccCcCcccc-cccccCCCCccccCCCcceeecCCC----CCCCchhhhHHHHHhcCCC
Q 003406 328 TAPQAVRDQSFRP-FISQTGNMPNVHQPLQGTNIVQAPQ----FGSNHGEIAKIVQKLLHPK 384 (823)
Q Consensus 328 a~~Q~~hd~CIrp-WSk~SNsCPiCRq~F~gI~~Vq~P~----~~s~hkeIaKiVqkll~pk 384 (823)
..+|.++..||.. |......||.|+..+..-.+. +.. ......+|++.|.++..-.
T Consensus 25 ~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr-~q~F~D~~vekEV~iRkrv~~i~Nk~ 85 (309)
T TIGR00570 25 VCGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFR-VQLFEDPTVEKEVDIRKRVLKIYNKR 85 (309)
T ss_pred CCCCcccHHHHHHHhcCCCCCCCCCCCccchhhcc-ccccccHHHHHHHHHHHHHHHHHccc
Confidence 5799999999996 888888999999998876632 111 1223456677777776544
No 88
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=42.67 E-value=20 Score=37.38 Aligned_cols=43 Identities=30% Similarity=0.800 Sum_probs=31.8
Q ss_pred cccccccccCCC----CCCceEecCCCCCcccccccccCcCCCCCCCCCccccccccc
Q 003406 402 AFTCQICKLTAN----EVETVVLCDACEKGFHLKCLQMNNQKGIPRGGEWHCMSCLKL 455 (823)
Q Consensus 402 ~~~C~VC~~g~~----e~~~MLlCDgCd~gYHl~CL~PppL~~VPeG~dWyCp~Cl~~ 455 (823)
..+|++|...+- +.+...-|+.|...||..|... =.||+|...
T Consensus 152 GfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~-----------~~CpkC~R~ 198 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK-----------KSCPKCARR 198 (202)
T ss_pred CCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC-----------CCCCCcHhH
Confidence 367999986521 1147788999999999999942 239999754
No 89
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=40.95 E-value=8 Score=43.71 Aligned_cols=27 Identities=22% Similarity=0.264 Sum_probs=21.9
Q ss_pred cCcCcccccccccCCCCccccCCCcce
Q 003406 333 VRDQSFRPFISQTGNMPNVHQPLQGTN 359 (823)
Q Consensus 333 ~hd~CIrpWSk~SNsCPiCRq~F~gI~ 359 (823)
+++.|-+..-=++|+||+|||.+....
T Consensus 313 LCs~Ca~~Lr~q~n~CPICRqpi~~ll 339 (349)
T KOG4265|consen 313 LCSGCAKSLRYQTNNCPICRQPIEELL 339 (349)
T ss_pred hhHhHHHHHHHhhcCCCccccchHhhh
Confidence 566788877778899999999988554
No 90
>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=40.87 E-value=6.4 Score=28.01 Aligned_cols=24 Identities=8% Similarity=0.204 Sum_probs=19.9
Q ss_pred CCCcccCcCccccccc-ccCCCCcc
Q 003406 328 TAPQAVRDQSFRPFIS-QTGNMPNV 351 (823)
Q Consensus 328 a~~Q~~hd~CIrpWSk-~SNsCPiC 351 (823)
.-+|.++..|+..|.+ ....||.|
T Consensus 15 ~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 15 PCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred cCCChHHHHHHHHHHHhCcCCCCCC
Confidence 3589999999999987 55779986
No 91
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=40.23 E-value=5 Score=36.74 Aligned_cols=46 Identities=26% Similarity=0.600 Sum_probs=29.6
Q ss_pred ccccccCCCCCCceEecCCCCCcccccccccCcCCCCCCCCCccccccccc
Q 003406 405 CQICKLTANEVETVVLCDACEKGFHLKCLQMNNQKGIPRGGEWHCMSCLKL 455 (823)
Q Consensus 405 C~VC~~g~~e~~~MLlCDgCd~gYHl~CL~PppL~~VPeG~dWyCp~Cl~~ 455 (823)
|..|+..+++ =.||+ ..|...||..|+.-. -..|.. .=.||.|+..
T Consensus 34 Cp~Ck~PgDd-CPLv~-G~C~h~fh~hCI~~w--l~~~ts-q~~CPmcRq~ 79 (84)
T KOG1493|consen 34 CPDCKLPGDD-CPLVW-GYCLHAFHAHCILKW--LNTPTS-QGQCPMCRQT 79 (84)
T ss_pred CCCCcCCCCC-CccHH-HHHHHHHHHHHHHHH--hcCccc-cccCCcchhe
Confidence 6666665444 23332 267788999998652 345555 7899999853
No 92
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=39.96 E-value=11 Score=42.20 Aligned_cols=30 Identities=3% Similarity=0.079 Sum_probs=25.9
Q ss_pred CcCCCcccCcCccccccc-ccCCCCccccCC
Q 003406 326 SRTAPQAVRDQSFRPFIS-QTGNMPNVHQPL 355 (823)
Q Consensus 326 tRa~~Q~~hd~CIrpWSk-~SNsCPiCRq~F 355 (823)
+=..+|.+|-.||..|-. -.+.||.||...
T Consensus 341 vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~i 371 (374)
T COG5540 341 VLPCDHRFHVGCVDKWLLGYSNKCPVCRTAI 371 (374)
T ss_pred EeccCceechhHHHHHHhhhcccCCccCCCC
Confidence 334599999999999998 889999999874
No 93
>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=39.66 E-value=9.1 Score=29.97 Aligned_cols=43 Identities=30% Similarity=0.544 Sum_probs=28.9
Q ss_pred cccccccCCCCCCceEecCCCCCcccccccccCcCCCCCCCCCccccccc
Q 003406 404 TCQICKLTANEVETVVLCDACEKGFHLKCLQMNNQKGIPRGGEWHCMSCL 453 (823)
Q Consensus 404 ~C~VC~~g~~e~~~MLlCDgCd~gYHl~CL~PppL~~VPeG~dWyCp~Cl 453 (823)
.|.||.......+.++... |+..||..|+... +.. .-.||.|+
T Consensus 2 ~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~-~~~-----~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEW-LKR-----NNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHH-HHH-----SSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHH-HHh-----CCcCCccC
Confidence 5999998765435555555 9999999999762 322 23687774
No 94
>PHA02862 5L protein; Provisional
Probab=39.42 E-value=7.1 Score=39.51 Aligned_cols=28 Identities=7% Similarity=0.063 Sum_probs=25.0
Q ss_pred CCcccCcCccccccccc--CCCCccccCCC
Q 003406 329 APQAVRDQSFRPFISQT--GNMPNVHQPLQ 356 (823)
Q Consensus 329 ~~Q~~hd~CIrpWSk~S--NsCPiCRq~F~ 356 (823)
..+..|..|+..|-+.+ ..|++|+.+|+
T Consensus 24 S~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 24 EYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred cchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 46789999999999877 88999999997
No 95
>KOG1632 consensus Uncharacterized PHD Zn-finger protein [General function prediction only]
Probab=38.43 E-value=4.1 Score=45.80 Aligned_cols=56 Identities=27% Similarity=0.559 Sum_probs=38.2
Q ss_pred cccccccccccCCCCCCceEecCCCCCcccccccccCcC-CC-CCC-CCCccccccccc
Q 003406 400 SKAFTCQICKLTANEVETVVLCDACEKGFHLKCLQMNNQ-KG-IPR-GGEWHCMSCLKL 455 (823)
Q Consensus 400 ~~~~~C~VC~~g~~e~~~MLlCDgCd~gYHl~CL~PppL-~~-VPe-G~dWyCp~Cl~~ 455 (823)
.....|..|+..+.....+++||.|..|||..|+.+.+- +. ... +...+|+.|...
T Consensus 237 ~~~~~~~~cg~~~~~~~~~~~~~~~e~w~~~~~v~~~~a~~~~~~~~~~~~~c~~~~~~ 295 (345)
T KOG1632|consen 237 YSKLICDPCGLSDANKKFEICCDLCESWFHGDCVQIFEARKRLNEIRNEVYKCPHCTVL 295 (345)
T ss_pred cccccccccCcchHHHHHHHHHHHHHHHhcccccccccchhhhhhhhccceecCceeec
Confidence 345779999975544368899999999999999976321 00 111 013789999864
No 96
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=37.27 E-value=23 Score=31.85 Aligned_cols=33 Identities=21% Similarity=0.596 Sum_probs=22.3
Q ss_pred cccccccccccCCCCCCceEecCCCCCcccccccc
Q 003406 400 SKAFTCQICKLTANEVETVVLCDACEKGFHLKCLQ 434 (823)
Q Consensus 400 ~~~~~C~VC~~g~~e~~~MLlCDgCd~gYHl~CL~ 434 (823)
.+...|.+|++.-......++ -|+..||..|+.
T Consensus 76 ~~~~~C~vC~k~l~~~~f~~~--p~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGNSVFVVF--PCGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCCceEEEe--CCCeEEeccccc
Confidence 345779999987554123333 455899999974
No 97
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=35.38 E-value=11 Score=41.64 Aligned_cols=28 Identities=7% Similarity=0.159 Sum_probs=24.1
Q ss_pred CCcccCcCccccccccc--CCCCccccCCC
Q 003406 329 APQAVRDQSFRPFISQT--GNMPNVHQPLQ 356 (823)
Q Consensus 329 ~~Q~~hd~CIrpWSk~S--NsCPiCRq~F~ 356 (823)
.+|++|+.||+-|.-.- .+||-|+.+-+
T Consensus 252 CnHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 252 CNHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred cccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 58999999999998655 89999998855
No 98
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=35.36 E-value=13 Score=32.46 Aligned_cols=43 Identities=14% Similarity=0.379 Sum_probs=30.0
Q ss_pred CcccCcCcccccccc-cCCCCccccCCCcceeecCCCCCCCchhhhHHHHH
Q 003406 330 PQAVRDQSFRPFISQ-TGNMPNVHQPLQGTNIVQAPQFGSNHGEIAKIVQK 379 (823)
Q Consensus 330 ~Q~~hd~CIrpWSk~-SNsCPiCRq~F~gI~~Vq~P~~~s~hkeIaKiVqk 379 (823)
||.|.-.||..|-.. ...||+|++++..-.++ .+..++..++.
T Consensus 23 G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~-------pn~~Lk~~I~~ 66 (73)
T PF04564_consen 23 GHTYERSAIERWLEQNGGTDPFTRQPLSESDLI-------PNRALKSAIEE 66 (73)
T ss_dssp SEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSE-------E-HHHHHHHHH
T ss_pred CCEEcHHHHHHHHHcCCCCCCCCCCcCCcccce-------ECHHHHHHHHH
Confidence 699999999999999 89999999998865544 23455555543
No 99
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=35.01 E-value=11 Score=29.75 Aligned_cols=25 Identities=4% Similarity=0.167 Sum_probs=22.3
Q ss_pred CCcccCcCcccccccccCCCCcccc
Q 003406 329 APQAVRDQSFRPFISQTGNMPNVHQ 353 (823)
Q Consensus 329 ~~Q~~hd~CIrpWSk~SNsCPiCRq 353 (823)
-+|.+...||..+....-.||+||+
T Consensus 20 CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 20 CGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred cCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 3899999999999977799999985
No 100
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=34.65 E-value=11 Score=41.68 Aligned_cols=53 Identities=26% Similarity=0.621 Sum_probs=39.1
Q ss_pred cccccccccCCCC------CCceEecCCCCCcccccccccCc--CCCCCCCCCccccccccc
Q 003406 402 AFTCQICKLTANE------VETVVLCDACEKGFHLKCLQMNN--QKGIPRGGEWHCMSCLKL 455 (823)
Q Consensus 402 ~~~C~VC~~g~~e------~~~MLlCDgCd~gYHl~CL~Ppp--L~~VPeG~dWyCp~Cl~~ 455 (823)
.-+|..|..+..+ .+.|+-|..|++.=|..||+-.+ +..|-.. .|.|-.|..-
T Consensus 224 n~YCDFclgdsr~nkkt~~peelvscsdcgrsghpsclqft~nm~~avk~y-rwqcieck~c 284 (336)
T KOG1244|consen 224 NPYCDFCLGDSRENKKTGMPEELVSCSDCGRSGHPSCLQFTANMIAAVKTY-RWQCIECKYC 284 (336)
T ss_pred CcccceeccccccccccCCchhhcchhhcCCCCCcchhhhhHHHHHHHHhh-eeeeeeccee
Confidence 3568888754422 27899999999999999998622 3456666 8999999643
No 101
>PF09926 DUF2158: Uncharacterized small protein (DUF2158); InterPro: IPR019226 This entry represents a family of predominantly prokaryotic proteins with no known function.
Probab=33.63 E-value=28 Score=29.57 Aligned_cols=38 Identities=21% Similarity=0.378 Sum_probs=24.5
Q ss_pred EeecCEEEEecCCCCCChhhhhhhhccCCCCceEEEeeeec
Q 003406 697 YKVKDHVLLHSSNNKLMPSKLQTMWEDTGTGSKWVMVNRCF 737 (823)
Q Consensus 697 yrvgDcVLl~S~~~~~~PakI~~lWE~~~sG~~~v~v~WYY 737 (823)
|++||-|.|||+.+.-.=..|..- .....-|+...||=
T Consensus 1 f~~GDvV~LKSGGp~MTV~~v~~~---~~~~~~~v~C~WFd 38 (53)
T PF09926_consen 1 FKIGDVVQLKSGGPRMTVTEVGPN---AGASGGWVECQWFD 38 (53)
T ss_pred CCCCCEEEEccCCCCeEEEEcccc---ccCCCCeEEEEeCC
Confidence 579999999999883332222111 12344599999984
No 102
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=33.00 E-value=13 Score=46.26 Aligned_cols=55 Identities=27% Similarity=0.721 Sum_probs=40.9
Q ss_pred ccccccccccCCCCCCceEecCCCCCcccccccccCcCC---CCCCCCCccccccccccC
Q 003406 401 KAFTCQICKLTANEVETVVLCDACEKGFHLKCLQMNNQK---GIPRGGEWHCMSCLKLSN 457 (823)
Q Consensus 401 ~~~~C~VC~~g~~e~~~MLlCDgCd~gYHl~CL~PppL~---~VPeG~dWyCp~Cl~~~~ 457 (823)
..+.|.||-...+....+--|-.|...||+.|+.-.... +.+.+ |.||.|...+.
T Consensus 190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~--WrCP~Cqsv~~ 247 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDG--WRCPACQSVSK 247 (950)
T ss_pred CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCcc--ccCCcccchhc
Confidence 335699999876665778889999999999998654332 33333 99999986543
No 103
>KOG3612 consensus PHD Zn-finger protein [General function prediction only]
Probab=31.85 E-value=32 Score=41.15 Aligned_cols=48 Identities=19% Similarity=0.288 Sum_probs=37.9
Q ss_pred ccccccccccCCCCCCceEecCCCCCcccccccccCcCCCCCCCC-Ccccccccc
Q 003406 401 KAFTCQICKLTANEVETVVLCDACEKGFHLKCLQMNNQKGIPRGG-EWHCMSCLK 454 (823)
Q Consensus 401 ~~~~C~VC~~g~~e~~~MLlCDgCd~gYHl~CL~PppL~~VPeG~-dWyCp~Cl~ 454 (823)
.+.+|.-|... +..|.|+-|-+.||..|+.|. .+++... -|-|+.|..
T Consensus 59 ~d~~cfechlp----g~vl~c~vc~Rs~h~~c~sp~--~q~r~~s~p~~~p~p~s 107 (588)
T KOG3612|consen 59 IDPFCFECHLP----GAVLKCIVCHRSFHENCQSPD--PQKRNYSVPSDKPQPYS 107 (588)
T ss_pred CCcccccccCC----cceeeeehhhccccccccCcc--hhhccccccccCCcccc
Confidence 45779999987 678999999999999999883 3444432 499999975
No 104
>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=30.83 E-value=9.3 Score=29.36 Aligned_cols=23 Identities=4% Similarity=0.234 Sum_probs=20.1
Q ss_pred CCcccCcCcccccccccCCCCcc
Q 003406 329 APQAVRDQSFRPFISQTGNMPNV 351 (823)
Q Consensus 329 ~~Q~~hd~CIrpWSk~SNsCPiC 351 (823)
-+|.+...||..|-+....||+|
T Consensus 17 CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 17 CGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCchhHHHHHHHHHCcCCCcCC
Confidence 58999999999999988999987
No 105
>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=30.76 E-value=43 Score=26.99 Aligned_cols=35 Identities=26% Similarity=0.395 Sum_probs=25.5
Q ss_pred ccccccccccCCCC-CCceEecCCCCCccccccccc
Q 003406 401 KAFTCQICKLTANE-VETVVLCDACEKGFHLKCLQM 435 (823)
Q Consensus 401 ~~~~C~VC~~g~~e-~~~MLlCDgCd~gYHl~CL~P 435 (823)
....|.+|++.-.. ...-+.|..|...+|..|+.-
T Consensus 10 ~~~~C~~C~~~i~g~~~~g~~C~~C~~~~H~~C~~~ 45 (53)
T PF00130_consen 10 KPTYCDVCGKFIWGLGKQGYRCSWCGLVCHKKCLSK 45 (53)
T ss_dssp STEB-TTSSSBECSSSSCEEEETTTT-EEETTGGCT
T ss_pred CCCCCcccCcccCCCCCCeEEECCCCChHhhhhhhh
Confidence 34679999986522 167889999999999999953
No 106
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=28.83 E-value=44 Score=40.79 Aligned_cols=48 Identities=25% Similarity=0.629 Sum_probs=34.7
Q ss_pred ccccccccCCCCCCceEecCCCCCcc-cccccccCcCCCCCCCCCccccccccc
Q 003406 403 FTCQICKLTANEVETVVLCDACEKGF-HLKCLQMNNQKGIPRGGEWHCMSCLKL 455 (823)
Q Consensus 403 ~~C~VC~~g~~e~~~MLlCDgCd~gY-Hl~CL~PppL~~VPeG~dWyCp~Cl~~ 455 (823)
.+|..|+... . +...+|..|+... |..|-.- -..+|.+ .=||+.|-..
T Consensus 2 ~~Cp~Cg~~n-~-~~akFC~~CG~~l~~~~Cp~C--G~~~~~~-~~fC~~CG~~ 50 (645)
T PRK14559 2 LICPQCQFEN-P-NNNRFCQKCGTSLTHKPCPQC--GTEVPVD-EAHCPNCGAE 50 (645)
T ss_pred CcCCCCCCcC-C-CCCccccccCCCCCCCcCCCC--CCCCCcc-cccccccCCc
Confidence 4699998653 3 4567899998764 4678765 3578888 8899999543
No 107
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=28.17 E-value=12 Score=39.98 Aligned_cols=53 Identities=19% Similarity=0.418 Sum_probs=38.9
Q ss_pred ccccccccccccccCCCCCCceEecCCCCCcccccccccCcCCCCCCCCCccccccccc
Q 003406 397 EYMSKAFTCQICKLTANEVETVVLCDACEKGFHLKCLQMNNQKGIPRGGEWHCMSCLKL 455 (823)
Q Consensus 397 ey~~~~~~C~VC~~g~~e~~~MLlCDgCd~gYHl~CL~PppL~~VPeG~dWyCp~Cl~~ 455 (823)
.|.++...|..|+.-. =.-+-|..|+--||..|..- -+.+.|.- |+|..|...
T Consensus 176 ~y~dnlk~Cn~Ch~Lv---Iqg~rCg~c~i~~h~~c~qt-y~q~~~~c--phc~d~w~h 228 (235)
T KOG4718|consen 176 NYADNLKNCNLCHCLV---IQGIRCGSCNIQYHRGCIQT-YLQRRDIC--PHCGDLWTH 228 (235)
T ss_pred hhHHHHHHHhHhHHHh---heeeccCcccchhhhHHHHH-HhcccCcC--CchhcccCc
Confidence 4545567899999642 12356999999999999987 36676654 888888753
No 108
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=27.93 E-value=36 Score=30.18 Aligned_cols=30 Identities=30% Similarity=0.904 Sum_probs=24.5
Q ss_pred ccccccccCCCCCCceEecC--CCCCccccccccc
Q 003406 403 FTCQICKLTANEVETVVLCD--ACEKGFHLKCLQM 435 (823)
Q Consensus 403 ~~C~VC~~g~~e~~~MLlCD--gCd~gYHl~CL~P 435 (823)
..|.+|++.. +..+-|. .|...||..|..-
T Consensus 37 ~~C~~C~~~~---Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 37 LKCSICKKKG---GACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred CCCcCCCCCC---CeEEEEeCCCCCcEEChHHHcc
Confidence 4699999772 5788887 5999999999854
No 109
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=27.72 E-value=15 Score=37.67 Aligned_cols=30 Identities=10% Similarity=0.206 Sum_probs=25.6
Q ss_pred CcccCcCccccccccc--CCCCccccCCCcce
Q 003406 330 PQAVRDQSFRPFISQT--GNMPNVHQPLQGTN 359 (823)
Q Consensus 330 ~Q~~hd~CIrpWSk~S--NsCPiCRq~F~gI~ 359 (823)
.+..|..|+..|...+ ..|++|+++|+-..
T Consensus 31 ~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~~ 62 (162)
T PHA02825 31 NKIVHKECLEEWINTSKNKSCKICNGPYNIKK 62 (162)
T ss_pred chHHHHHHHHHHHhcCCCCcccccCCeEEEEE
Confidence 5678999999998876 78999999998443
No 110
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=27.60 E-value=34 Score=36.10 Aligned_cols=63 Identities=27% Similarity=0.483 Sum_probs=41.1
Q ss_pred cccccccccCCCCCCceEecCCCCCcccccccccCcCCC------------CCCCCCccccccccccCCCCCCCCccccc
Q 003406 402 AFTCQICKLTANEVETVVLCDACEKGFHLKCLQMNNQKG------------IPRGGEWHCMSCLKLSNGKPLPPKYGRVM 469 (823)
Q Consensus 402 ~~~C~VC~~g~~e~~~MLlCDgCd~gYHl~CL~PppL~~------------VPeG~dWyCp~Cl~~~~gkp~pP~yGfvq 469 (823)
...|.||.....+ ..+ -.|...|+..|+... +.. -..+ ...||.|........+-|.||+.+
T Consensus 18 ~~~CpICld~~~d--PVv--T~CGH~FC~~CI~~w-l~~s~~s~~~~~~~~~~k~-~~~CPvCR~~Is~~~LvPiygrg~ 91 (193)
T PLN03208 18 DFDCNICLDQVRD--PVV--TLCGHLFCWPCIHKW-TYASNNSRQRVDQYDHKRE-PPKCPVCKSDVSEATLVPIYGRGQ 91 (193)
T ss_pred ccCCccCCCcCCC--cEE--cCCCchhHHHHHHHH-HHhccccccccccccccCC-CCcCCCCCCcCChhcEEEeeccCC
Confidence 3569999976433 222 468989999998541 210 0123 578999998765555677888776
Q ss_pred c
Q 003406 470 R 470 (823)
Q Consensus 470 r 470 (823)
.
T Consensus 92 ~ 92 (193)
T PLN03208 92 K 92 (193)
T ss_pred C
Confidence 3
No 111
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=27.30 E-value=18 Score=45.63 Aligned_cols=27 Identities=7% Similarity=0.248 Sum_probs=22.5
Q ss_pred CcccCcCccccccccc--CCCCccccCCC
Q 003406 330 PQAVRDQSFRPFISQT--GNMPNVHQPLQ 356 (823)
Q Consensus 330 ~Q~~hd~CIrpWSk~S--NsCPiCRq~F~ 356 (823)
-|-+|..|+-.|.+-+ ++||.||..|.
T Consensus 1495 knKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1495 KNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred hhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 5788999999998766 89999997654
No 112
>COG1773 Rubredoxin [Energy production and conversion]
Probab=26.78 E-value=42 Score=29.01 Aligned_cols=41 Identities=17% Similarity=0.516 Sum_probs=25.3
Q ss_pred ccccccccCCCCCCceEecCCCCCcccccccccCcCCCCCCCCCcccccccc
Q 003406 403 FTCQICKLTANEVETVVLCDACEKGFHLKCLQMNNQKGIPRGGEWHCMSCLK 454 (823)
Q Consensus 403 ~~C~VC~~g~~e~~~MLlCDgCd~gYHl~CL~PppL~~VPeG~dWyCp~Cl~ 454 (823)
..|.+|+--+++..----|+.|.- - +-+.+|.. |+||.|-.
T Consensus 4 ~~C~~CG~vYd~e~Gdp~~gi~pg--------T-~fedlPd~--w~CP~Cg~ 44 (55)
T COG1773 4 WRCSVCGYVYDPEKGDPRCGIAPG--------T-PFEDLPDD--WVCPECGV 44 (55)
T ss_pred eEecCCceEeccccCCccCCCCCC--------C-chhhCCCc--cCCCCCCC
Confidence 458899877665321222443322 1 25678885 99999985
No 113
>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=26.25 E-value=39 Score=39.79 Aligned_cols=44 Identities=25% Similarity=0.637 Sum_probs=26.4
Q ss_pred ccccccccccCCCCCCceEecCCCC--Cccc-----ccccccCcCCCCCCCCCccccccccc
Q 003406 401 KAFTCQICKLTANEVETVVLCDACE--KGFH-----LKCLQMNNQKGIPRGGEWHCMSCLKL 455 (823)
Q Consensus 401 ~~~~C~VC~~g~~e~~~MLlCDgCd--~gYH-----l~CL~PppL~~VPeG~dWyCp~Cl~~ 455 (823)
....|..|+. .+.|..|+ ..|| +.|.-= + ...+. .|.||.|-..
T Consensus 212 ~~~~C~~Cg~-------~~~C~~C~~~l~~h~~~~~l~Ch~C-g-~~~~~--~~~Cp~C~s~ 262 (505)
T TIGR00595 212 KNLLCRSCGY-------ILCCPNCDVSLTYHKKEGKLRCHYC-G-YQEPI--PKTCPQCGSE 262 (505)
T ss_pred CeeEhhhCcC-------ccCCCCCCCceEEecCCCeEEcCCC-c-CcCCC--CCCCCCCCCC
Confidence 3467888863 46788888 3566 345422 1 12222 5999999653
No 114
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=25.52 E-value=21 Score=41.20 Aligned_cols=27 Identities=7% Similarity=0.143 Sum_probs=22.0
Q ss_pred CCCcccCcCccccccccc--C-CCCccccC
Q 003406 328 TAPQAVRDQSFRPFISQT--G-NMPNVHQP 354 (823)
Q Consensus 328 a~~Q~~hd~CIrpWSk~S--N-sCPiCRq~ 354 (823)
+.||.+|..|+.+|-.-. | +||+|+-.
T Consensus 25 ~cGhifh~~cl~qwfe~~Ps~R~cpic~ik 54 (465)
T KOG0827|consen 25 TCGHIFHTTCLTQWFEGDPSNRGCPICQIK 54 (465)
T ss_pred chhhHHHHHHHHHHHccCCccCCCCceeec
Confidence 468999999999997654 3 89999933
No 115
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=25.27 E-value=19 Score=47.32 Aligned_cols=30 Identities=10% Similarity=0.113 Sum_probs=23.2
Q ss_pred CcccCcCccc-----cccccc-----CCCCccccCCCcce
Q 003406 330 PQAVRDQSFR-----PFISQT-----GNMPNVHQPLQGTN 359 (823)
Q Consensus 330 ~Q~~hd~CIr-----pWSk~S-----NsCPiCRq~F~gI~ 359 (823)
.|.+|-+|++ .|--.. -+||+|+++.+.|-
T Consensus 3508 ~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~~ 3547 (3738)
T KOG1428|consen 3508 SHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHIV 3547 (3738)
T ss_pred ccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhHH
Confidence 8999999998 454322 58999999988664
No 116
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=24.49 E-value=48 Score=39.11 Aligned_cols=50 Identities=16% Similarity=0.295 Sum_probs=37.2
Q ss_pred ccccccccCCCCC-CceEecCCCCCcccccccccCcCCCCCCCCCcccccccccc
Q 003406 403 FTCQICKLTANEV-ETVVLCDACEKGFHLKCLQMNNQKGIPRGGEWHCMSCLKLS 456 (823)
Q Consensus 403 ~~C~VC~~g~~e~-~~MLlCDgCd~gYHl~CL~PppL~~VPeG~dWyCp~Cl~~~ 456 (823)
..|.+|....... +.++.|+.|..+||..|..| .++.-..|.|..|+...
T Consensus 84 ~~~nv~~s~~~~p~~e~~~~~r~~~~~~q~~~i~----~~~~~~~~~~~~c~~~~ 134 (464)
T KOG4323|consen 84 LNPNVLTSETVLPENEKVICGRCKSGYHQGCNIP----RFPSLDIGESTECVFPI 134 (464)
T ss_pred cCCcccccccccCchhhhhhhhhccCcccccCcc----CcCcCCccccccccccc
Confidence 4588888654332 67889999999999999977 33433379999997654
No 117
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=24.08 E-value=7.5 Score=44.99 Aligned_cols=71 Identities=20% Similarity=0.362 Sum_probs=42.4
Q ss_pred CcCCCcccCcCcccccccccCCCCccccCCCcceeecCCCCCCCchhhhHHHHHhcCCCCCCCCCCCCCCcccccccccc
Q 003406 326 SRTAPQAVRDQSFRPFISQTGNMPNVHQPLQGTNIVQAPQFGSNHGEIAKIVQKLLHPKLPQHPTWTPPSREYMSKAFTC 405 (823)
Q Consensus 326 tRa~~Q~~hd~CIrpWSk~SNsCPiCRq~F~gI~~Vq~P~~~s~hkeIaKiVqkll~pkl~~~psw~p~s~ey~~~~~~C 405 (823)
.+|.+|.||.+|+ +|=+|++.+.+-.+.+ ++..+ + .+ .-|.+..+.|
T Consensus 291 c~Am~~~fHv~CF--------tC~~C~r~L~Gq~FY~----------------------v~~k~-~-CE-~cyq~tlekC 337 (468)
T KOG1701|consen 291 VEAMDQLFHVQCF--------TCRTCRRQLAGQSFYQ----------------------VDGKP-Y-CE-GCYQDTLEKC 337 (468)
T ss_pred HHHhhhhhcccce--------ehHhhhhhhccccccc----------------------cCCcc-c-ch-HHHHHHHHHH
Confidence 4566788888887 4667777766555331 11111 0 00 1344455779
Q ss_pred cccccCCCCCCceEecCCCCCccccccc
Q 003406 406 QICKLTANEVETVVLCDACEKGFHLKCL 433 (823)
Q Consensus 406 ~VC~~g~~e~~~MLlCDgCd~gYHl~CL 433 (823)
.+|++...+ .|| -.|+++||-.|.
T Consensus 338 ~~Cg~~I~d--~iL--rA~GkayHp~CF 361 (468)
T KOG1701|consen 338 NKCGEPIMD--RIL--RALGKAYHPGCF 361 (468)
T ss_pred hhhhhHHHH--HHH--HhcccccCCCce
Confidence 999876433 333 468899998887
No 118
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=23.85 E-value=42 Score=40.67 Aligned_cols=50 Identities=22% Similarity=0.438 Sum_probs=26.6
Q ss_pred ccccccccCCCCCCceEecCCCC-CcccccccccCcCCCCCCCCCccccccccc
Q 003406 403 FTCQICKLTANEVETVVLCDACE-KGFHLKCLQMNNQKGIPRGGEWHCMSCLKL 455 (823)
Q Consensus 403 ~~C~VC~~g~~e~~~MLlCDgCd-~gYHl~CL~PppL~~VPeG~dWyCp~Cl~~ 455 (823)
..|..|+....- ..+..|+.|+ .++-+.|-.- +-.-.+.. +..|+.|...
T Consensus 54 ~pc~~c~gkG~V-~v~~~c~~c~G~gkv~~c~~c-G~~~~~~~-~~lc~~c~~~ 104 (715)
T COG1107 54 IPCPKCRGKGTV-TVYDTCPECGGTGKVLTCDIC-GDIIVPWE-EGLCPECRRK 104 (715)
T ss_pred CCCCeeccceeE-EEEeecccCCCceeEEeeccc-cceecCcc-cccChhHhhC
Confidence 457777655333 4555666666 4555555432 21122222 3469999864
No 119
>KOG1080 consensus Histone H3 (Lys4) methyltransferase complex, subunit SET1 and related methyltransferases [Chromatin structure and dynamics; Transcription]
Probab=23.62 E-value=65 Score=41.34 Aligned_cols=50 Identities=26% Similarity=0.691 Sum_probs=39.0
Q ss_pred cccccccccCCC-CCCceEecCCCCCcccccccccCcCCCCCCCCCcccccccc
Q 003406 402 AFTCQICKLTAN-EVETVVLCDACEKGFHLKCLQMNNQKGIPRGGEWHCMSCLK 454 (823)
Q Consensus 402 ~~~C~VC~~g~~-e~~~MLlCDgCd~gYHl~CL~PppL~~VPeG~dWyCp~Cl~ 454 (823)
...|.+|..... +.+.++.||.|...-|..|+.. ...+.+..|.|..|..
T Consensus 573 t~~c~~~~~~~~~~~n~~~~~~~~~~~~~s~~~g~---~~~~~~~~~~~~~~~~ 623 (1005)
T KOG1080|consen 573 TERCAVCRDDEDWEKNVSIICDRCTRSVHSECYGN---LKSYDGTSWVCDSCET 623 (1005)
T ss_pred cccccccccccccccceeeeeccccccCCCccccc---CCCCCCCcchhhcccc
Confidence 367999996543 2378999999999999999954 4455555899999975
No 120
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=23.55 E-value=56 Score=27.98 Aligned_cols=44 Identities=23% Similarity=0.591 Sum_probs=32.4
Q ss_pred cccccccCC----CCCCceEecCCCCCcccccccccCcCCCCCCC-CCc
Q 003406 404 TCQICKLTA----NEVETVVLCDACEKGFHLKCLQMNNQKGIPRG-GEW 447 (823)
Q Consensus 404 ~C~VC~~g~----~e~~~MLlCDgCd~gYHl~CL~PppL~~VPeG-~dW 447 (823)
.|..|+..- ...+.++-|..|..-|-...++|.-|...|.- .||
T Consensus 4 ~CP~CG~~iev~~~~~GeiV~Cp~CGaeleVv~~~p~~L~~ap~~~eDw 52 (54)
T TIGR01206 4 ECPDCGAEIELENPELGELVICDECGAELEVVSLDPLRLEAAPEEAEDW 52 (54)
T ss_pred CCCCCCCEEecCCCccCCEEeCCCCCCEEEEEeCCCCEEEeCccccccc
Confidence 588998642 11278999999999999999998557766652 246
No 121
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=23.51 E-value=63 Score=33.67 Aligned_cols=20 Identities=20% Similarity=0.687 Sum_probs=17.1
Q ss_pred CceEecCCCCCccccccccc
Q 003406 416 ETVVLCDACEKGFHLKCLQM 435 (823)
Q Consensus 416 ~~MLlCDgCd~gYHl~CL~P 435 (823)
+.|.-|..|.++||+.-|-+
T Consensus 122 nVLFRC~~C~RawH~~HLP~ 141 (175)
T PF15446_consen 122 NVLFRCTSCHRAWHFEHLPP 141 (175)
T ss_pred heEEecCCccceeehhhCCC
Confidence 56666999999999999955
No 122
>KOG4217 consensus Nuclear receptors of the nerve growth factor-induced protein B type [Transcription]
Probab=23.23 E-value=3.7e+02 Score=32.40 Aligned_cols=97 Identities=19% Similarity=0.226 Sum_probs=48.1
Q ss_pred ccccccCCCCCCccccccccccCCCCCCCCCCcccee--cccCCCCCCCCccCCCCcccCCCCc--ccccCCCCCccccc
Q 003406 151 MEEPKKFSTQPTAYTSNSLQTSFGTAPENRGTSHTVR--MFPLDKVGSSPTLSSGGFSTSSPPV--HVHATTSASLPYQL 226 (823)
Q Consensus 151 mee~k~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~--~f~~~~~~~~~~~~~~~~~~~~p~~--~~~~~~~~~~~~q~ 226 (823)
|+..+-.+-.+.+.|.+..|+--+++-+---|.|.-. |...+.. .++.+|... ....|+. ..+++++++.-||-
T Consensus 134 ~~s~~~~~ss~~sPttpafqpp~~~~wd~~a~~~~~p~~a~~~~~~-~~~~~p~fs-~~~~p~~~~~~sP~s~~~~~~~~ 211 (605)
T KOG4217|consen 134 GNSSYYKPSSPPSPTTPAFQPPHSDLWDATAPGHFNPSQALENDFM-PNPRLPLFS-GPPSPPHFFSFSPVSGSSRGYDA 211 (605)
T ss_pred cccccccCCCCCCCCCCCCCCCCCccccccCccccCchhhhhcCCC-CcccCcccc-CCCCCCCCCCCCCCCCccccccc
Confidence 3333333444445556677776667666556666655 3334443 344454322 2233322 23467777777775
Q ss_pred cCCCCCCCCccCCCCCCCCCCCCCccccC
Q 003406 227 LNNDARPPTVSTGLPSSHLGRDSSSLALP 255 (823)
Q Consensus 227 ~~~e~~~~~~s~~~~~~~~~~~~s~~~~p 255 (823)
..+-.-+.. +-|-.-+.-+.+||
T Consensus 212 ~~~~~~~~~------a~~~~~~g~syslP 234 (605)
T KOG4217|consen 212 LTLPLNPTQ------ATHQLPEGESYSLP 234 (605)
T ss_pred ccCccCccc------ccccCCCCccccCC
Confidence 444333322 22434444455555
No 123
>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=23.00 E-value=53 Score=25.83 Aligned_cols=28 Identities=25% Similarity=0.610 Sum_probs=20.0
Q ss_pred EecCCCCCcccccccccCcCCCCCCCCCcccccccc
Q 003406 419 VLCDACEKGFHLKCLQMNNQKGIPRGGEWHCMSCLK 454 (823)
Q Consensus 419 LlCDgCd~gYHl~CL~PppL~~VPeG~dWyCp~Cl~ 454 (823)
..|-.|.+.||+.=.. |+- +..|..|-.
T Consensus 2 r~C~~Cg~~Yh~~~~p-------P~~-~~~Cd~cg~ 29 (36)
T PF05191_consen 2 RICPKCGRIYHIEFNP-------PKV-EGVCDNCGG 29 (36)
T ss_dssp EEETTTTEEEETTTB---------SS-TTBCTTTTE
T ss_pred cCcCCCCCccccccCC-------CCC-CCccCCCCC
Confidence 4699999999976552 344 788988864
No 124
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.91 E-value=22 Score=41.05 Aligned_cols=46 Identities=24% Similarity=0.420 Sum_probs=30.8
Q ss_pred ccccccccCCCCCCceEecCCCCCcccccccccCcCCCCCCCCCc--cccccc
Q 003406 403 FTCQICKLTANEVETVVLCDACEKGFHLKCLQMNNQKGIPRGGEW--HCMSCL 453 (823)
Q Consensus 403 ~~C~VC~~g~~e~~~MLlCDgCd~gYHl~CL~PppL~~VPeG~dW--yCp~Cl 453 (823)
..|.||..+-..+..+--=..|+..||+.||.- ..++..| -||.|.
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~q-----wfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQ-----WFEGDPSNRGCPICQ 52 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHH-----HHccCCccCCCCcee
Confidence 469999765444233333445999999999964 2333346 699998
No 125
>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=22.76 E-value=43 Score=39.47 Aligned_cols=32 Identities=25% Similarity=0.613 Sum_probs=17.1
Q ss_pred ceEecCCCCCcccccccccCcCCCCCCCCCccccccccc
Q 003406 417 TVVLCDACEKGFHLKCLQMNNQKGIPRGGEWHCMSCLKL 455 (823)
Q Consensus 417 ~MLlCDgCd~gYHl~CL~PppL~~VPeG~dWyCp~Cl~~ 455 (823)
.|.+|..|..--..+|+.. +| . -||||.|+..
T Consensus 4 ~L~fC~~C~~irc~~c~~~----Ei--~-~~yCp~CL~~ 35 (483)
T PF05502_consen 4 ELYFCEHCHKIRCPRCVSE----EI--D-SYYCPNCLFE 35 (483)
T ss_pred cceecccccccCChhhccc----cc--c-eeECcccccc
Confidence 4555655555444555532 22 1 4777777654
No 126
>PRK14873 primosome assembly protein PriA; Provisional
Probab=22.33 E-value=56 Score=40.02 Aligned_cols=43 Identities=23% Similarity=0.685 Sum_probs=27.7
Q ss_pred ccccccccccCCCCCCceEecCCCC--Ccccc-----cccccCcCCCCCCCCCccccccccc
Q 003406 401 KAFTCQICKLTANEVETVVLCDACE--KGFHL-----KCLQMNNQKGIPRGGEWHCMSCLKL 455 (823)
Q Consensus 401 ~~~~C~VC~~g~~e~~~MLlCDgCd--~gYHl-----~CL~PppL~~VPeG~dWyCp~Cl~~ 455 (823)
....|..|+ ..+-|..|+ ..||. .|.-= +... . .|.||.|-..
T Consensus 382 p~l~C~~Cg-------~~~~C~~C~~~L~~h~~~~~l~Ch~C-G~~~---~-p~~Cp~Cgs~ 431 (665)
T PRK14873 382 PSLACARCR-------TPARCRHCTGPLGLPSAGGTPRCRWC-GRAA---P-DWRCPRCGSD 431 (665)
T ss_pred CeeEhhhCc-------CeeECCCCCCceeEecCCCeeECCCC-cCCC---c-CccCCCCcCC
Confidence 446799996 446899998 35663 46532 2222 2 5999999653
No 127
>KOG1483 consensus Zn2+ transporter ZNT1 and related Cd2+/Zn2+ transporters (cation diffusion facilitator superfamily) [Inorganic ion transport and metabolism]
Probab=21.79 E-value=98 Score=35.98 Aligned_cols=61 Identities=21% Similarity=0.090 Sum_probs=52.2
Q ss_pred hhhHHHHHHHHHHhccCCCCCCcHHHHHHHHHHHHHHHHHhccCCCCCcchhhhhHHHHhhccCCcccc
Q 003406 59 VAEIVLVLSAMWRMRGGGGKGPTEVERRLMAEAREKLVDMCEGLAPKDIVARDAIVGLIEDLGLNGRVK 127 (823)
Q Consensus 59 vaeivlvlsa~~~~rg~~g~~pt~~e~~l~~ear~~l~~~~~~~~pkd~~~~~ai~~~iedlgln~~~~ 127 (823)
-|||+-.|++..-+ |+++...+.||++|+.+-=....|+|++--.++|-+++-|||-.-.+
T Consensus 75 rAEilGalvN~ifl--------~alc~~I~~EA~~R~I~p~~i~~P~~vL~vgi~gLi~Nvlg~~lfhd 135 (404)
T KOG1483|consen 75 RAEILGALVNAIFL--------TALCVSILIEAIERIIEPHHIENPILVLYVGIIGLISNVLGLFLFHD 135 (404)
T ss_pred HHHHHhhhhHHHHH--------HHHHHHHHHHHHHhhcCCccccCceeeehhhHHHHHHHHHHhheeec
Confidence 38888888874333 67999999999999999888899999999999999999999876544
No 128
>PF14444 S1-like: S1-like
Probab=21.78 E-value=87 Score=27.44 Aligned_cols=42 Identities=33% Similarity=0.506 Sum_probs=34.7
Q ss_pred EccceeEE------ecCeeeEEEEEECCEEEeecCEEEEecCCCCCCh
Q 003406 673 WIGDVLQI------VDGKKFYQSCRIGGVTYKVKDHVLLHSSNNKLMP 714 (823)
Q Consensus 673 W~G~~~qv------v~~k~~Y~~~~~~GetyrvgDcVLl~S~~~~~~P 714 (823)
|.|-++|+ +|+-.||+.=.+-|-.-++||-|+..-.-.+++|
T Consensus 4 ~~GvVTkl~~~yG~IDe~vFF~~~vv~G~~P~vGdrV~v~A~~n~~~~ 51 (58)
T PF14444_consen 4 FTGVVTKLCDDYGFIDEDVFFQTDVVKGNVPKVGDRVLVEAIYNPNMP 51 (58)
T ss_pred EEEEEEEEeCCcceEcccEEEEcccEecCCCccCCEEEEEEEeCCCCC
Confidence 56777776 4689999988888999999999999887776666
No 129
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=21.47 E-value=83 Score=35.48 Aligned_cols=33 Identities=6% Similarity=-0.077 Sum_probs=25.2
Q ss_pred cCCCcccCcCccccccccc-CCCCccccCCCcce
Q 003406 327 RTAPQAVRDQSFRPFISQT-GNMPNVHQPLQGTN 359 (823)
Q Consensus 327 Ra~~Q~~hd~CIrpWSk~S-NsCPiCRq~F~gI~ 359 (823)
-+.+|.++.-||+-=..+- .+|++||++|..--
T Consensus 23 l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i 56 (324)
T KOG0824|consen 23 LYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTI 56 (324)
T ss_pred ccccchhhhhhhcchhhcCCCCCceecCCCCcch
Confidence 3468999999999444444 67999999998554
No 130
>PF04641 Rtf2: Rtf2 RING-finger
Probab=21.07 E-value=62 Score=34.85 Aligned_cols=37 Identities=11% Similarity=0.303 Sum_probs=31.8
Q ss_pred CCcCCCcccCcCcccccccccCCCCccccCCCcceeec
Q 003406 325 MSRTAPQAVRDQSFRPFISQTGNMPNVHQPLQGTNIVQ 362 (823)
Q Consensus 325 mtRa~~Q~~hd~CIrpWSk~SNsCPiCRq~F~gI~~Vq 362 (823)
..|-.||++...+|++.. ....||+|.++|...++|.
T Consensus 131 ~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~DiI~ 167 (260)
T PF04641_consen 131 YLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEEDIIP 167 (260)
T ss_pred EEcCCCCEeeHHHHHhhc-ccccccccCCccccCCEEE
Confidence 456779999999999985 5688999999999998773
No 131
>TIGR00110 ilvD dihydroxy-acid dehydratase. This model generates scores of up to 150 bits vs. 6-phosphogluconate dehydratase, a homologous enzyme.
Probab=20.90 E-value=95 Score=37.37 Aligned_cols=57 Identities=19% Similarity=0.378 Sum_probs=39.0
Q ss_pred HHHHHHHHHHh-ccCCCCCCcHHH-HHHHHHHHHHHHHHhc-cCCCCCcchhhhhHHHHh
Q 003406 62 IVLVLSAMWRM-RGGGGKGPTEVE-RRLMAEAREKLVDMCE-GLAPKDIVARDAIVGLIE 118 (823)
Q Consensus 62 ivlvlsa~~~~-rg~~g~~pt~~e-~~l~~ear~~l~~~~~-~~~pkd~~~~~ai~~~ie 118 (823)
+-++.-|||=+ =|.+--+++..| .+++++|=.++++|++ +++|+||+-++|+.--|-
T Consensus 181 M~~l~EaLGl~LPGsa~ipA~~~~r~~~a~~ag~~iv~l~~~~i~p~dIlT~~a~~NAi~ 240 (535)
T TIGR00110 181 MACLTEALGLSLPGCSTMLATSAEKKRIAKNSGKRIVELVKKNIKPRDILTKEAFENAIT 240 (535)
T ss_pred HHHHHHHHhcCCCCCcCCCCCCHHHHHHHHHHHHHHHHHHHcCCCHHHhCCHHHHHHHHH
Confidence 33455555543 343344444444 4677778889999998 699999999999876554
No 132
>PF09345 DUF1987: Domain of unknown function (DUF1987); InterPro: IPR018530 This family of proteins are functionally uncharacterised.
Probab=20.88 E-value=51 Score=31.17 Aligned_cols=25 Identities=24% Similarity=0.258 Sum_probs=16.5
Q ss_pred hhhhhccCCCCceEEEeeeeccCCC
Q 003406 717 LQTMWEDTGTGSKWVMVNRCFFPGD 741 (823)
Q Consensus 717 I~~lWE~~~sG~~~v~v~WYYrPE~ 741 (823)
|+.+=|+....-.-|.|.|||.+++
T Consensus 65 i~~~Le~~~~~g~~V~v~Wyyd~dD 89 (99)
T PF09345_consen 65 IFDLLEDAAQKGGKVTVNWYYDEDD 89 (99)
T ss_pred HHHHHHHHHhcCCcEEEEEEECCCC
Confidence 3444443334445899999999887
No 133
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=20.71 E-value=28 Score=41.92 Aligned_cols=46 Identities=26% Similarity=0.619 Sum_probs=31.4
Q ss_pred cccccccccCCCC----CCceEecCCCCCcccccccccCcCCCCCCCCCcccccccccc
Q 003406 402 AFTCQICKLTANE----VETVVLCDACEKGFHLKCLQMNNQKGIPRGGEWHCMSCLKLS 456 (823)
Q Consensus 402 ~~~C~VC~~g~~e----~~~MLlCDgCd~gYHl~CL~PppL~~VPeG~dWyCp~Cl~~~ 456 (823)
..+|++|...+-- .+.-.-|+.|...||-.|+.-. .-.||+|.-..
T Consensus 511 gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r~---------s~~CPrC~R~q 560 (580)
T KOG1829|consen 511 GFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRRK---------SPCCPRCERRQ 560 (580)
T ss_pred eeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhcc---------CCCCCchHHHH
Confidence 3578888544211 2455679999999999999541 23399998654
No 134
>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=20.60 E-value=45 Score=25.76 Aligned_cols=34 Identities=21% Similarity=0.446 Sum_probs=26.0
Q ss_pred cccccccccCCCCCCceEecCCCCCccccccccc
Q 003406 402 AFTCQICKLTANEVETVVLCDACEKGFHLKCLQM 435 (823)
Q Consensus 402 ~~~C~VC~~g~~e~~~MLlCDgCd~gYHl~CL~P 435 (823)
...|.+|++.-......+.|..|....|..|..-
T Consensus 11 ~~~C~~C~~~i~~~~~~~~C~~C~~~~H~~C~~~ 44 (49)
T smart00109 11 PTKCCVCRKSIWGSFQGLRCSWCKVKCHKKCAEK 44 (49)
T ss_pred CCCccccccccCcCCCCcCCCCCCchHHHHHHhh
Confidence 4579999986543123688999999999999853
No 135
>PF02771 Acyl-CoA_dh_N: Acyl-CoA dehydrogenase, N-terminal domain; InterPro: IPR006092 Mammalian Co-A dehydrogenases (1.3.99.3 from EC) are enzymes that catalyse the first step in each cycle of beta-oxidation in mitochondion. Acyl-CoA dehydrogenases [, , ] catalyze the alpha,beta-dehydrogenation of acyl-CoA thioesters to the corresponding trans 2,3-enoyl CoA-products with concommitant reduction of enzyme-bound FAD. Reoxidation of the flavin involves transfer of electrons to ETF (electron transfering flavoprotein). These enzymes are homodimers containing one molecule of FAD. The monomeric enzyme is folded into three domains of approximately equal size. The N-terminal and the C-terminal are mainly alpha-helices packed together, and the middle domain consists of two orthogonal beta-sheets. The flavin ring is buried in the crevise between two alpha-helical domains and the beta-sheet of one subunit, and the adenosine pyrophosphate moiety is stretched into the subunit junction with one formed by two C-terminal domains []. The N-terminal domain of Acyl-CoA dehydrogenase is an all-alpha domain, on dimerisation, the N-terminal of one molecule extends into the other dimer and lies on the surface of the molecule.; GO: 0003995 acyl-CoA dehydrogenase activity, 0055114 oxidation-reduction process; PDB: 2WBI_B 1SIQ_A 1SIR_A 2R0N_A 2R0M_A 2DVL_A 1UKW_B 3MDD_B 1UDY_C 3MDE_B ....
Probab=20.33 E-value=91 Score=27.85 Aligned_cols=51 Identities=25% Similarity=0.247 Sum_probs=37.2
Q ss_pred cHHHHHHHHHHHHHHHHHh----ccCCCCCcchhhhhHHHHhhccCCccccccccc
Q 003406 81 TEVERRLMAEAREKLVDMC----EGLAPKDIVARDAIVGLIEDLGLNGRVKEQKLG 132 (823)
Q Consensus 81 t~~e~~l~~ear~~l~~~~----~~~~pkd~~~~~ai~~~iedlgln~~~~~~~~g 132 (823)
|+++++|.+++|+=+.+.+ ..+.-..-||++.++.+. |+||-+..-|..+|
T Consensus 1 t~~~~~l~~~~~~~~~~~~~~~~~~~d~~~~~p~~~~~~l~-~~G~~~~~~p~~~G 55 (113)
T PF02771_consen 1 TEEQQALREEAREFAEEEIAPHAAEWDEDGRFPREVWRALG-EAGLLGLAVPEEYG 55 (113)
T ss_dssp SHHHHHHHHHHHHHHHHHTHHHHHHHHHHTSCHHHHHHHHH-HTTTTSTTSCGGGT
T ss_pred CHHHHHHHHHHHHHHHHHchHHHHHHHHhCCCCHHHHHHHH-HHHHhhhhcccccc
Confidence 6888999999887554433 334333378989888884 79999887788777
No 136
>PHA02929 N1R/p28-like protein; Provisional
Probab=20.17 E-value=51 Score=35.66 Aligned_cols=48 Identities=21% Similarity=0.477 Sum_probs=31.3
Q ss_pred cccccccccCCCCCC----ceEecCCCCCcccccccccCcCCCCCCCCCccccccccc
Q 003406 402 AFTCQICKLTANEVE----TVVLCDACEKGFHLKCLQMNNQKGIPRGGEWHCMSCLKL 455 (823)
Q Consensus 402 ~~~C~VC~~g~~e~~----~MLlCDgCd~gYHl~CL~PppL~~VPeG~dWyCp~Cl~~ 455 (823)
...|.+|...-.+.. ....=..|...||..|+.. -+.. .=.||.|+..
T Consensus 174 ~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~-Wl~~-----~~tCPlCR~~ 225 (238)
T PHA02929 174 DKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDI-WKKE-----KNTCPVCRTP 225 (238)
T ss_pred CCCCccCCcccccCccccccceecCCCCCcccHHHHHH-HHhc-----CCCCCCCCCE
Confidence 467999997533211 1223347899999999976 2432 2369999864
Done!