Query psy3828
Match_columns 365
No_of_seqs 308 out of 788
Neff 4.5
Searched_HMMs 46136
Date Fri Aug 16 18:23:13 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3828.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3828hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00158 histone H2B; Provisio 100.0 6.5E-51 1.4E-55 345.7 10.3 114 245-364 3-116 (116)
2 PTZ00463 histone H2B; Provisio 100.0 9.8E-50 2.1E-54 338.4 9.3 98 266-363 19-116 (117)
3 smart00427 H2B Histone H2B. 100.0 1.3E-47 2.8E-52 313.3 9.0 89 275-363 1-89 (89)
4 PLN00153 histone H2A; Provisio 100.0 2.2E-45 4.9E-50 317.8 9.7 116 36-151 1-116 (129)
5 PLN00157 histone H2A; Provisio 100.0 1.1E-44 2.3E-49 314.7 9.9 116 36-151 1-118 (132)
6 PTZ00017 histone H2A; Provisio 100.0 5E-43 1.1E-47 305.1 10.4 116 36-151 1-119 (134)
7 PLN00156 histone H2AX; Provisi 100.0 3.7E-43 8.1E-48 307.0 9.3 112 40-151 10-121 (139)
8 KOG1744|consensus 100.0 8.2E-43 1.8E-47 300.3 8.7 99 267-365 29-127 (127)
9 PTZ00252 histone H2A; Provisio 100.0 4.7E-42 1E-46 298.1 9.3 104 48-151 13-119 (134)
10 KOG1756|consensus 100.0 6.8E-42 1.5E-46 293.9 8.4 116 36-151 1-119 (131)
11 PLN00154 histone H2A; Provisio 100.0 7.4E-41 1.6E-45 291.4 9.4 106 45-151 24-130 (136)
12 smart00414 H2A Histone 2A. 100.0 9.8E-41 2.1E-45 281.2 8.6 101 51-151 1-101 (106)
13 cd00074 H2A Histone 2A; H2A is 100.0 2.1E-40 4.5E-45 282.8 9.3 109 43-151 4-112 (115)
14 COG5262 HTA1 Histone H2A [Chro 100.0 2.1E-40 4.6E-45 281.6 8.1 114 39-152 4-119 (132)
15 KOG1757|consensus 100.0 2.6E-34 5.6E-39 242.9 4.7 105 47-152 18-123 (131)
16 PLN00155 histone H2A; Provisio 99.8 6.6E-22 1.4E-26 150.3 4.3 58 36-93 1-58 (58)
17 PF00125 Histone: Core histone 99.4 3.7E-13 7.9E-18 105.0 4.7 69 272-340 2-74 (75)
18 PF00125 Histone: Core histone 99.3 3E-12 6.5E-17 99.8 3.6 73 53-125 2-75 (75)
19 COG5247 BUR6 Class 2 transcrip 99.1 1.8E-10 3.9E-15 96.9 5.0 79 55-133 19-97 (113)
20 KOG1659|consensus 98.7 2.3E-08 5.1E-13 93.7 5.0 78 55-132 9-86 (224)
21 PF00808 CBFD_NFYB_HMF: Histon 98.3 7.2E-07 1.6E-11 68.3 4.8 64 59-122 2-65 (65)
22 PLN00035 histone H4; Provision 98.2 1.2E-06 2.6E-11 74.3 3.8 85 36-123 1-92 (103)
23 cd07981 TAF12 TATA Binding Pro 97.8 9.6E-05 2.1E-09 58.4 6.9 60 281-340 7-66 (72)
24 PF00808 CBFD_NFYB_HMF: Histon 97.6 0.00015 3.3E-09 55.5 6.3 57 281-338 8-65 (65)
25 PTZ00015 histone H4; Provision 97.6 0.00012 2.7E-09 62.1 5.7 69 52-123 25-93 (102)
26 COG2036 HHT1 Histones H3 and H 97.4 0.00033 7.2E-09 58.4 5.4 63 281-344 25-87 (91)
27 smart00803 TAF TATA box bindin 97.3 0.0004 8.6E-09 54.2 5.1 64 59-123 2-65 (65)
28 COG2036 HHT1 Histones H3 and H 96.9 0.0009 2E-08 55.8 3.7 67 56-123 16-82 (91)
29 COG5208 HAP5 CCAAT-binding fac 96.7 0.0023 4.9E-08 61.1 5.3 77 57-133 107-183 (286)
30 KOG1657|consensus 96.7 0.0013 2.9E-08 63.1 3.2 83 52-134 67-149 (236)
31 PF03847 TFIID_20kDa: Transcri 96.7 0.0055 1.2E-07 48.4 6.1 59 281-339 5-63 (68)
32 cd00074 H2A Histone 2A; H2A is 96.5 0.0093 2E-07 51.7 7.2 60 280-339 25-84 (115)
33 cd00076 H4 Histone H4, one of 96.5 0.0046 9.9E-08 51.0 4.7 70 52-124 8-77 (85)
34 smart00803 TAF TATA box bindin 96.4 0.009 2E-07 46.6 5.8 59 280-339 7-65 (65)
35 PLN00035 histone H4; Provision 96.3 0.014 3E-07 49.8 6.7 59 281-340 35-93 (103)
36 cd00076 H4 Histone H4, one of 96.1 0.015 3.2E-07 48.0 5.6 60 280-340 18-77 (85)
37 PTZ00015 histone H4; Provision 96.0 0.015 3.2E-07 49.6 5.6 61 279-340 34-94 (102)
38 smart00428 H3 Histone H3. 95.9 0.029 6.2E-07 48.0 6.9 68 273-340 31-100 (105)
39 smart00417 H4 Histone H4. 95.9 0.013 2.8E-07 47.2 4.5 67 52-121 8-74 (74)
40 cd07981 TAF12 TATA Binding Pro 95.8 0.019 4.1E-07 45.4 4.9 65 61-125 3-67 (72)
41 cd08048 TAF11 TATA Binding Pro 95.3 0.042 9.1E-07 45.2 5.5 63 60-123 17-82 (85)
42 cd07979 TAF9 TATA Binding Prot 94.9 0.096 2.1E-06 45.3 6.9 64 279-343 5-68 (117)
43 smart00417 H4 Histone H4. 94.5 0.062 1.3E-06 43.3 4.5 54 281-335 19-72 (74)
44 KOG0869|consensus 94.5 0.089 1.9E-06 48.1 6.0 78 281-358 38-124 (168)
45 PLN00156 histone H2AX; Provisi 93.6 0.19 4E-06 45.1 6.2 64 276-339 29-93 (139)
46 KOG0871|consensus 93.6 0.18 3.9E-06 45.7 6.1 66 280-345 17-83 (156)
47 KOG1142|consensus 93.0 0.11 2.3E-06 50.8 3.8 62 278-339 157-218 (258)
48 PLN00153 histone H2A; Provisio 92.8 0.27 5.8E-06 43.6 5.9 66 274-339 22-88 (129)
49 PF02969 TAF: TATA box binding 92.7 0.22 4.7E-06 39.3 4.7 64 59-123 3-66 (66)
50 KOG3219|consensus 92.5 0.11 2.4E-06 48.9 3.2 66 57-123 110-176 (195)
51 cd07979 TAF9 TATA Binding Prot 92.3 0.24 5.3E-06 42.8 4.8 61 64-125 6-66 (117)
52 smart00414 H2A Histone 2A. 92.2 0.27 5.9E-06 42.1 4.9 61 279-339 13-73 (106)
53 PF04719 TAFII28: hTAFII28-lik 92.0 0.17 3.6E-06 42.3 3.4 63 60-123 24-88 (90)
54 PTZ00017 histone H2A; Provisio 91.7 0.44 9.5E-06 42.5 5.9 60 280-339 32-91 (134)
55 smart00427 H2B Histone H2B. 91.7 0.31 6.6E-06 40.8 4.6 60 64-123 6-65 (89)
56 PLN00157 histone H2A; Provisio 91.5 0.4 8.7E-06 42.7 5.4 66 274-339 24-90 (132)
57 PLN00158 histone H2B; Provisio 91.2 0.37 7.9E-06 42.1 4.8 61 63-123 31-91 (116)
58 PTZ00252 histone H2A; Provisio 91.1 0.67 1.4E-05 41.4 6.4 66 274-339 23-91 (134)
59 PLN00154 histone H2A; Provisio 91.0 0.67 1.4E-05 41.5 6.3 60 280-339 43-103 (136)
60 PF02969 TAF: TATA box binding 90.5 0.76 1.6E-05 36.3 5.5 47 293-339 20-66 (66)
61 cd08050 TAF6 TATA Binding Prot 90.5 0.33 7.1E-06 48.8 4.4 58 74-131 13-72 (343)
62 cd08050 TAF6 TATA Binding Prot 90.2 0.58 1.3E-05 47.0 5.9 49 293-341 16-64 (343)
63 PF15510 CENP-W: Centromere ki 89.9 0.33 7.2E-06 40.9 3.3 64 278-343 19-98 (102)
64 COG5262 HTA1 Histone H2A [Chro 89.7 0.6 1.3E-05 41.1 4.8 60 280-339 31-90 (132)
65 PTZ00463 histone H2B; Provisio 89.2 0.69 1.5E-05 40.5 4.8 60 64-123 33-92 (117)
66 smart00576 BTP Bromodomain tra 87.8 1.7 3.6E-05 34.6 5.9 48 293-340 23-70 (77)
67 KOG0870|consensus 87.0 2 4.4E-05 39.7 6.6 62 280-341 15-78 (172)
68 smart00428 H3 Histone H3. 86.5 1 2.2E-05 38.7 4.1 67 57-123 27-99 (105)
69 PLN00121 histone H3; Provision 86.0 2.2 4.7E-05 38.3 6.1 67 274-340 65-131 (136)
70 PF15630 CENP-S: Kinetochore c 84.9 2.1 4.5E-05 34.7 5.0 59 281-339 11-71 (76)
71 PTZ00018 histone H3; Provision 84.5 2.8 6E-05 37.6 6.1 67 274-340 65-131 (136)
72 PF09415 CENP-X: CENP-S associ 84.4 2.8 6E-05 33.6 5.5 61 61-121 1-64 (72)
73 KOG1756|consensus 84.4 2.5 5.5E-05 37.6 5.7 60 280-339 32-91 (131)
74 smart00576 BTP Bromodomain tra 82.0 2.9 6.3E-05 33.2 4.7 58 66-124 13-70 (77)
75 PF15630 CENP-S: Kinetochore c 79.9 4.4 9.4E-05 32.8 5.1 70 55-128 4-76 (76)
76 KOG1744|consensus 76.4 10 0.00022 33.7 6.8 64 57-123 38-101 (127)
77 KOG3467|consensus 76.2 5 0.00011 33.8 4.5 84 36-122 1-91 (103)
78 PLN00161 histone H3; Provision 75.6 9.8 0.00021 34.2 6.5 66 275-340 59-125 (135)
79 PLN00160 histone H3; Provision 71.9 14 0.0003 31.5 6.2 67 274-340 24-91 (97)
80 KOG2549|consensus 69.7 11 0.00024 40.8 6.4 59 283-341 18-76 (576)
81 PF03847 TFIID_20kDa: Transcri 69.2 7.3 0.00016 30.8 3.8 61 64-124 4-64 (68)
82 PF07524 Bromo_TP: Bromodomain 67.7 18 0.00039 28.4 5.8 48 292-339 22-69 (77)
83 PF15511 CENP-T: Centromere ki 66.4 8.5 0.00019 39.9 4.7 54 280-333 356-414 (414)
84 KOG0871|consensus 64.8 12 0.00026 34.2 4.7 69 55-124 8-78 (156)
85 PF02269 TFIID-18kDa: Transcri 59.6 12 0.00025 31.2 3.5 47 294-340 20-66 (93)
86 KOG0869|consensus 57.4 18 0.0004 33.4 4.6 65 59-123 32-97 (168)
87 cd08048 TAF11 TATA Binding Pro 57.3 43 0.00093 27.6 6.4 60 281-341 22-84 (85)
88 cd07978 TAF13 The TATA Binding 54.9 21 0.00045 29.8 4.2 39 89-127 29-69 (92)
89 PF02291 TFIID-31kDa: Transcri 52.2 27 0.00058 31.0 4.7 60 279-342 16-78 (129)
90 PF02861 Clp_N: Clp amino term 50.6 8.7 0.00019 27.1 1.2 34 101-134 1-36 (53)
91 KOG0870|consensus 50.0 27 0.00058 32.5 4.5 67 56-123 7-76 (172)
92 PF02269 TFIID-18kDa: Transcri 49.7 18 0.00038 30.1 3.0 42 86-127 25-69 (93)
93 cd07978 TAF13 The TATA Binding 48.6 51 0.0011 27.5 5.6 46 294-340 21-66 (92)
94 PF15511 CENP-T: Centromere ki 44.5 25 0.00053 36.5 3.8 72 46-117 338-414 (414)
95 KOG1658|consensus 43.7 23 0.0005 32.6 3.0 75 58-133 58-133 (162)
96 PF02291 TFIID-31kDa: Transcri 42.7 54 0.0012 29.1 5.1 59 63-125 16-77 (129)
97 PF04719 TAFII28: hTAFII28-lik 40.9 92 0.002 26.1 6.0 62 280-341 28-90 (90)
98 KOG1142|consensus 40.9 39 0.00085 33.4 4.3 67 60-126 155-221 (258)
99 KOG3334|consensus 38.6 66 0.0014 29.4 5.1 59 283-341 17-78 (148)
100 COG5251 TAF40 Transcription in 34.9 37 0.00079 32.0 2.9 64 60-124 116-180 (199)
101 PF14687 DUF4460: Domain of un 34.5 39 0.00085 29.1 2.9 37 276-312 10-54 (112)
102 PLN00160 histone H3; Provision 33.5 50 0.0011 28.1 3.3 67 57-123 19-90 (97)
103 COG5095 TAF6 Transcription ini 31.3 51 0.0011 34.0 3.5 63 279-341 5-70 (450)
104 PLN00121 histone H3; Provision 31.2 71 0.0015 28.8 4.0 66 57-122 60-129 (136)
105 TIGR02442 Cob-chelat-sub cobal 31.0 1.2E+02 0.0025 33.2 6.4 61 286-346 242-309 (633)
106 PLN00161 histone H3; Provision 30.2 73 0.0016 28.7 4.0 67 57-123 53-124 (135)
107 PTZ00018 histone H3; Provision 29.6 67 0.0014 28.9 3.6 66 57-122 60-129 (136)
108 COG5208 HAP5 CCAAT-binding fac 29.4 67 0.0015 31.4 3.8 58 281-339 115-173 (286)
109 COG5150 Class 2 transcription 29.4 63 0.0014 29.1 3.3 67 57-125 9-78 (148)
110 COG2238 RPS19A Ribosomal prote 28.2 75 0.0016 29.0 3.7 38 278-315 95-141 (147)
111 PHA02669 hypothetical protein; 28.0 49 0.0011 31.1 2.6 37 82-121 12-48 (210)
112 KOG1745|consensus 27.9 50 0.0011 29.8 2.5 63 61-123 68-131 (137)
113 PRK09522 bifunctional glutamin 27.5 78 0.0017 34.0 4.3 60 287-346 168-230 (531)
114 KOG0568|consensus 26.7 91 0.002 30.9 4.2 51 280-333 67-117 (342)
115 PF07524 Bromo_TP: Bromodomain 26.2 1E+02 0.0022 24.1 3.8 48 76-123 22-69 (77)
116 TIGR01128 holA DNA polymerase 26.0 1.7E+02 0.0036 27.6 5.9 66 274-341 113-178 (302)
117 PLN00163 histone H4; Provision 25.9 25 0.00053 27.5 0.2 42 36-80 1-49 (59)
118 COG1466 HolA DNA polymerase II 24.4 1.3E+02 0.0028 29.9 5.0 68 274-343 142-209 (334)
119 smart00350 MCM minichromosome 24.4 1.8E+02 0.0039 30.8 6.3 66 275-342 421-505 (509)
120 smart00271 DnaJ DnaJ molecular 24.2 1.4E+02 0.0029 21.5 3.9 15 281-295 22-36 (60)
121 PRK07452 DNA polymerase III su 21.9 1.4E+02 0.003 29.0 4.6 61 277-339 135-197 (326)
122 PRK05574 holA DNA polymerase I 21.6 2.2E+02 0.0047 27.5 5.8 67 274-342 148-214 (340)
123 cd06257 DnaJ DnaJ domain or J- 21.5 1.5E+02 0.0033 20.7 3.7 15 281-295 21-35 (55)
124 PF12218 End_N_terminal: N ter 21.1 38 0.00081 27.0 0.4 30 173-202 2-34 (67)
125 PRK09333 30S ribosomal protein 20.7 1.8E+02 0.004 26.6 4.7 53 271-323 91-149 (150)
126 PF08221 HTH_9: RNA polymerase 20.3 2.1E+02 0.0045 21.8 4.4 45 304-352 5-49 (62)
127 COG5150 Class 2 transcription 20.0 2.2E+02 0.0049 25.7 5.0 59 283-341 19-78 (148)
128 PF15214 PXT1: Peroxisomal tes 20.0 40 0.00087 25.5 0.3 17 172-188 5-21 (51)
No 1
>PLN00158 histone H2B; Provisional
Probab=100.00 E-value=6.5e-51 Score=345.66 Aligned_cols=114 Identities=72% Similarity=1.016 Sum_probs=103.8
Q ss_pred CCCChhhHHhhcccccccccccccccccCccchhhhhhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcC
Q psy3828 245 GKSSGKAVKKAGKAQKNIAKSDKKKKHRRKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYN 324 (365)
Q Consensus 245 ~~~~~k~~~~~~~~~~~~~~~~~k~~~kr~esy~~YIykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~n 324 (365)
..|++|++++..+.+ ++|++++|+|+|++||||||||||||+|||++||+||||||||||||||.||++|++||
T Consensus 3 ~~~~~k~~~~~~~~~------~kk~~~kr~esy~~YI~kVLKQVhPd~gIS~kaM~ImnSfvnDiferIA~EAs~La~~n 76 (116)
T PLN00158 3 KTPSKKPAKKAAKGA------KKKGSKSKTETYKIYIYKVLKQVHPDTGISSKAMSIMNSFINDIFEKIATEAGKLARYN 76 (116)
T ss_pred CCcchhhhhhccccc------cccccccccccHHHHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 345677666655543 34567778999999999999999999999999999999999999999999999999999
Q ss_pred CCcccChhHHHHHHHHhCcHHHHhhHHhhhhhhhhccccC
Q psy3828 325 KRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSS 364 (365)
Q Consensus 325 kr~TitsreIqtAvrllLPgeLakhAvseGtkAV~ky~~~ 364 (365)
+|+|||+||||+||||+|||||+||||+||||||++|+++
T Consensus 77 kr~TltsrEIqtAvrLvLpgELaKhAvsEGtkAv~k~~~~ 116 (116)
T PLN00158 77 KKPTVTSREIQTAVRLILPGELAKHAVSEGTKAVTKFTSA 116 (116)
T ss_pred CCCcCCHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhhcC
Confidence 9999999999999999999999999999999999999985
No 2
>PTZ00463 histone H2B; Provisional
Probab=100.00 E-value=9.8e-50 Score=338.36 Aligned_cols=98 Identities=70% Similarity=1.067 Sum_probs=94.8
Q ss_pred cccccccCccchhhhhhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHHhCcHH
Q psy3828 266 DKKKKHRRKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGE 345 (365)
Q Consensus 266 ~~k~~~kr~esy~~YIykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrllLPge 345 (365)
+++++++|+|+|++||||||||||||+|||++||+||||||||||||||.||++|++||+++|||+|||||||||+||||
T Consensus 19 ~kk~~~kr~esy~~YI~KVLKqVhPd~gIS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAvrLlLpGE 98 (117)
T PTZ00463 19 KKKRKKSRYDSYGLYIFKVLKQVHPDTGISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAIRLVLPGE 98 (117)
T ss_pred cccccccccchHHHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHhhcccHH
Confidence 45677778999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhHHhhhhhhhhcccc
Q psy3828 346 LAKHAVSEGTKAVTKYTS 363 (365)
Q Consensus 346 LakhAvseGtkAV~ky~~ 363 (365)
|+||||+||||||+||++
T Consensus 99 LaKhAvsEGtkAv~k~~~ 116 (117)
T PTZ00463 99 LAKHAVSEGTKAVTKFTS 116 (117)
T ss_pred HHHhhhhHHHHHHHHhhc
Confidence 999999999999999986
No 3
>smart00427 H2B Histone H2B.
Probab=100.00 E-value=1.3e-47 Score=313.26 Aligned_cols=89 Identities=89% Similarity=1.240 Sum_probs=87.8
Q ss_pred cchhhhhhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHHhCcHHHHhhHHhhh
Q psy3828 275 ESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEG 354 (365)
Q Consensus 275 esy~~YIykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrllLPgeLakhAvseG 354 (365)
|+|++||||||||||||+|||++||+||||||||||||||.||++|++||+|+|||+||||+||||+|||||+||||+||
T Consensus 1 esy~~Yi~kvLKqVhpd~giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~TltsreIqtAvrl~LpgeLakhAvsEg 80 (89)
T smart00427 1 ETYAIYIYKVLKQVHPDTGISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLSSREIQTAVRLILPGELAKHAVSEG 80 (89)
T ss_pred CcHHHHHHHHHHHhCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHHHccHHHHHHHHHHH
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhcccc
Q psy3828 355 TKAVTKYTS 363 (365)
Q Consensus 355 tkAV~ky~~ 363 (365)
||||+||++
T Consensus 81 tkAv~k~~~ 89 (89)
T smart00427 81 TKAVTKYSS 89 (89)
T ss_pred HHHHHhhcC
Confidence 999999985
No 4
>PLN00153 histone H2A; Provisional
Probab=100.00 E-value=2.2e-45 Score=317.84 Aligned_cols=116 Identities=75% Similarity=1.127 Sum_probs=112.4
Q ss_pred cCCCCCCCCCCCCCCCcccccccccchhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccc
Q psy3828 36 MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIP 115 (365)
Q Consensus 36 mSg~gkggk~~~k~~SrSsRAgLqFPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP 115 (365)
|||+|||++.+++..|||+|||||||||||+|||++++|+.||+++||||||||||||++||||||+|+|++++++||+|
T Consensus 1 m~g~~~~~~~~~k~~srS~ragL~FpVgRi~R~Lr~g~~a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItP 80 (129)
T PLN00153 1 MAGRGKGKTSGKKAVSRSAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVP 80 (129)
T ss_pred CCCCCCCCccccCccCcccccCcccchHHHHHHHhcCchhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCh
Confidence 89999876666788999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhhcCcHHHHhhhcCCeecCCcccCCcccccc
Q psy3828 116 RHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAGAA 151 (365)
Q Consensus 116 ~hI~lAI~nDeEL~~Lf~~vtIa~GGV~P~i~~gl~ 151 (365)
+||++||+||+|||+||+++||++|||+|+||+.+.
T Consensus 81 rHi~lAI~nDeEL~~Ll~~vTIa~GGV~P~i~~~l~ 116 (129)
T PLN00153 81 RHIQLAIRNDEELGKLLGEVTIASGGVLPNIHAVLL 116 (129)
T ss_pred HHHHhhccCcHHHHHHHCCCccCCCccCCCcchhhc
Confidence 999999999999999999999999999999999986
No 5
>PLN00157 histone H2A; Provisional
Probab=100.00 E-value=1.1e-44 Score=314.72 Aligned_cols=116 Identities=76% Similarity=1.156 Sum_probs=112.0
Q ss_pred cCCCCC--CCCCCCCCCCcccccccccchhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccc
Q psy3828 36 MSGRGK--GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRI 113 (365)
Q Consensus 36 mSg~gk--ggk~~~k~~SrSsRAgLqFPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrI 113 (365)
|||+|+ +++++++..|+|+|||||||||||+|||++++|+.||+++||||||||||||++||||||+|+|++++++||
T Consensus 1 ms~~g~~~~~~~~~k~~srS~ragL~FPVgRi~R~Lk~g~~a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RI 80 (132)
T PLN00157 1 MSGRGKRKGGGGGKKATSRSAKAGLQFPVGRIARYLKAGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRI 80 (132)
T ss_pred CCCCCCCCCCccCcCCcCcccccCcccchHHHHHHHhcCchhhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccc
Confidence 899987 556677889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cchhhhhhhcCcHHHHhhhcCCeecCCcccCCcccccc
Q psy3828 114 IPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAGAA 151 (365)
Q Consensus 114 tP~hI~lAI~nDeEL~~Lf~~vtIa~GGV~P~i~~gl~ 151 (365)
+|+||++||+||+||++||+++||++|||+|+||+.+.
T Consensus 81 tPrHi~lAI~nDeEL~~Ll~~vtIa~GGV~P~i~~~ll 118 (132)
T PLN00157 81 VPRHIQLAVRNDEELSKLLGGVTIAAGGVLPNIHSVLL 118 (132)
T ss_pred cHHHHhhcccCcHHHHHHHcCceecCCccCCCcchhhc
Confidence 99999999999999999999999999999999999986
No 6
>PTZ00017 histone H2A; Provisional
Probab=100.00 E-value=5e-43 Score=305.08 Aligned_cols=116 Identities=74% Similarity=1.123 Sum_probs=107.8
Q ss_pred cCCCCCC-CCC--CCCCCCcccccccccchhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCcc
Q psy3828 36 MSGRGKG-GKA--KAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTR 112 (365)
Q Consensus 36 mSg~gkg-gk~--~~k~~SrSsRAgLqFPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkr 112 (365)
|||+|+. +++ +++..|+|+||||||||+||+|||++++|+.||+++|||||+||||||++||||||+|+|++++++|
T Consensus 1 ~~~~~~~~~~~~~~~k~~srS~ragL~FPVgRi~R~Lk~g~~a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~R 80 (134)
T PTZ00017 1 KGGKGKTGGGKAGKKKPVSRSAKAGLQFPVGRVHRYLKKGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKR 80 (134)
T ss_pred CCCCCcCCCCcccCcCcccccccCCcccchHHHHHHHhccchhccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCe
Confidence 4566542 222 5567899999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccchhhhhhhcCcHHHHhhhcCCeecCCcccCCcccccc
Q psy3828 113 IIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAGAA 151 (365)
Q Consensus 113 ItP~hI~lAI~nDeEL~~Lf~~vtIa~GGV~P~i~~gl~ 151 (365)
|+|+||++||+||+|||+||+++||++|||+|+||+.+.
T Consensus 81 ItPrHi~lAI~nDeEL~~Ll~~vtIa~GGV~P~i~~~l~ 119 (134)
T PTZ00017 81 ITPRHIQLAIRNDEELNKLLAGVTIASGGVLPNIHKVLL 119 (134)
T ss_pred ecHHHHHhhccCcHHHHHHHcCCcccCCccCCCccHhhc
Confidence 999999999999999999999999999999999999986
No 7
>PLN00156 histone H2AX; Provisional
Probab=100.00 E-value=3.7e-43 Score=306.98 Aligned_cols=112 Identities=74% Similarity=1.119 Sum_probs=107.3
Q ss_pred CCCCCCCCCCCCcccccccccchhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhh
Q psy3828 40 GKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQ 119 (365)
Q Consensus 40 gkggk~~~k~~SrSsRAgLqFPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~ 119 (365)
|+|++++++..|||+||||||||+||+|||++++|+.||+++|||||+||||||++||||||+|+|++++++||+|+||+
T Consensus 10 ~~g~~~~~k~~srS~rAgL~FPVgRi~R~Lk~g~ya~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi~ 89 (139)
T PLN00156 10 GRGKPKATKSVSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQ 89 (139)
T ss_pred CCCcccccCCcCcccccCcccchHHHHHHHhcCChhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHH
Confidence 34456677889999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhcCcHHHHhhhcCCeecCCcccCCcccccc
Q psy3828 120 LAIRNDEELNKLLSGVTIAQGGVLPNIQAGAA 151 (365)
Q Consensus 120 lAI~nDeEL~~Lf~~vtIa~GGV~P~i~~gl~ 151 (365)
+||+||+|||+||+++||++|||+|+||+.+.
T Consensus 90 lAIrnDeEL~~Ll~~vTIa~GGV~P~i~~~l~ 121 (139)
T PLN00156 90 LAVRNDEELSKLLGSVTIAAGGVLPNIHQTLL 121 (139)
T ss_pred hhccCcHHHHHHHCCCccCCCccCCCccHhhc
Confidence 99999999999999999999999999999986
No 8
>KOG1744|consensus
Probab=100.00 E-value=8.2e-43 Score=300.25 Aligned_cols=99 Identities=86% Similarity=1.188 Sum_probs=96.6
Q ss_pred ccccccCccchhhhhhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHHhCcHHH
Q psy3828 267 KKKKHRRKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGEL 346 (365)
Q Consensus 267 ~k~~~kr~esy~~YIykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrllLPgeL 346 (365)
|++..++.|+|+.||||||||||||+|||++||+||||||||||||||.||++|++||+|+||++||||+||||+|||||
T Consensus 29 k~~~~~~~e~~s~yv~kvlk~Vhpd~gis~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta~rLllPgel 108 (127)
T KOG1744|consen 29 KKRSTRRKESYSEYVYKVLKQVHPDLGISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTAVRLLLPGEL 108 (127)
T ss_pred ccCcccccCceeeehhhhhhcccCCCCcCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHHHHHhCchHH
Confidence 56778899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhHHhhhhhhhhccccCC
Q psy3828 347 AKHAVSEGTKAVTKYTSSK 365 (365)
Q Consensus 347 akhAvseGtkAV~ky~~~k 365 (365)
+|||++||||||++|+++|
T Consensus 109 ~khA~seGtkav~ky~~sk 127 (127)
T KOG1744|consen 109 AKHAVSEGTKAVTKYTSSK 127 (127)
T ss_pred hhhhhcccchhheeeccCC
Confidence 9999999999999999986
No 9
>PTZ00252 histone H2A; Provisional
Probab=100.00 E-value=4.7e-42 Score=298.11 Aligned_cols=104 Identities=52% Similarity=0.899 Sum_probs=99.7
Q ss_pred CCCC-cccccccccchhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhh--cCCccccchhhhhhhcC
Q psy3828 48 KSKT-RSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARD--NKKTRIIPRHLQLAIRN 124 (365)
Q Consensus 48 k~~S-rSsRAgLqFPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~--~kkkrItP~hI~lAI~n 124 (365)
+..+ ||+|||||||||||+|||++++|+.||+++||||||||||||++||||||||+|++ ++++||+|+||++||+|
T Consensus 13 ~~~~~rS~rAGL~FPVgRi~R~Lr~g~ya~RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~kk~RItPrHi~lAIrN 92 (134)
T PTZ00252 13 KSGSGRSAKAGLIFPVGRVGSLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPKRLTPRTVTLAVRH 92 (134)
T ss_pred ccccccccccCccCchHHHHHHHHcCCcccccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccccHHHHHhhccC
Confidence 3455 99999999999999999999999999999999999999999999999999999976 78899999999999999
Q ss_pred cHHHHhhhcCCeecCCcccCCcccccc
Q psy3828 125 DEELNKLLSGVTIAQGGVLPNIQAGAA 151 (365)
Q Consensus 125 DeEL~~Lf~~vtIa~GGV~P~i~~gl~ 151 (365)
|+|||+||+++||++|||+|+||+.+.
T Consensus 93 DeEL~~Ll~~vTIa~GGVlP~i~~~l~ 119 (134)
T PTZ00252 93 DDDLGSLLKNVTLSRGGVMPSLNKALA 119 (134)
T ss_pred hHHHHHHHcCCccCCCccCCCccHhhc
Confidence 999999999999999999999999986
No 10
>KOG1756|consensus
Probab=100.00 E-value=6.8e-42 Score=293.92 Aligned_cols=116 Identities=86% Similarity=1.224 Sum_probs=110.2
Q ss_pred cCCCCCCCCCC---CCCCCcccccccccchhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCcc
Q psy3828 36 MSGRGKGGKAK---AKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTR 112 (365)
Q Consensus 36 mSg~gkggk~~---~k~~SrSsRAgLqFPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkr 112 (365)
|||+|++||.+ +++.++|.|+|||||||||+|+|++++|++||+.+|||||+||||||++||||+|+|+|+++++.|
T Consensus 1 ~s~~~k~gk~~~~~~~~~srs~~agl~fPvgri~r~Lr~~~~~~ri~~gapV~laavLeYL~Aeile~agnaardnkk~r 80 (131)
T KOG1756|consen 1 MSGRGKGGKAKPRAKAKSSRSSRAGLQFPVGRIHRLLRKGRYAQRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTR 80 (131)
T ss_pred CCccCCCCcccchhhhhcchhhhcccccCHHHHHHHHHccchhhhccCCChHHHHHHHHHHHHHHHHHhHHHhhhcCccc
Confidence 68888877653 446788999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccchhhhhhhcCcHHHHhhhcCCeecCCcccCCcccccc
Q psy3828 113 IIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAGAA 151 (365)
Q Consensus 113 ItP~hI~lAI~nDeEL~~Lf~~vtIa~GGV~P~i~~gl~ 151 (365)
|+|+||++||+||+||++|+++|||++|||+|+||+.+.
T Consensus 81 i~PrH~~lAI~NDeEL~~lL~~vtIa~GGvlPnI~~~lL 119 (131)
T KOG1756|consen 81 ITPRHLQLAIRNDEELNKLLGKVTIAQGGVLPNIQAILL 119 (131)
T ss_pred cChHHHHHHHhCcHHHHHHhccceeccCCcccccchhhc
Confidence 999999999999999999999999999999999999986
No 11
>PLN00154 histone H2A; Provisional
Probab=100.00 E-value=7.4e-41 Score=291.44 Aligned_cols=106 Identities=63% Similarity=0.909 Sum_probs=101.3
Q ss_pred CCCCCCCcccccccccchhhhhhhhhcCC-cccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhc
Q psy3828 45 AKAKSKTRSSRAGLQFPVGRIHRLLRKGN-YAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 123 (365)
Q Consensus 45 ~~~k~~SrSsRAgLqFPVsRI~RlLke~~-ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~ 123 (365)
.+++..|||+||||||||+||||+|++++ |.+||+++|||||+||||||++||||||||+|++++++||+|+||++||+
T Consensus 24 ~~~k~~srS~rAgL~FPVgRi~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lAIr 103 (136)
T PLN00154 24 DKKKPTSRSSRAGLQFPVGRIHRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 103 (136)
T ss_pred CCcCCcCcccccCccCchHHHHHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhhcc
Confidence 34578999999999999999999999997 57899999999999999999999999999999999999999999999999
Q ss_pred CcHHHHhhhcCCeecCCcccCCcccccc
Q psy3828 124 NDEELNKLLSGVTIAQGGVLPNIQAGAA 151 (365)
Q Consensus 124 nDeEL~~Lf~~vtIa~GGV~P~i~~gl~ 151 (365)
||+||++||+ +||++|||+|+||+.+.
T Consensus 104 nDeEL~~Ll~-~TIa~GGVlP~i~~~l~ 130 (136)
T PLN00154 104 GDEELDTLIK-GTIAGGGVIPHIHKSLI 130 (136)
T ss_pred CcHHHHHHhc-CCccCCccCCCcchhhc
Confidence 9999999998 69999999999999986
No 12
>smart00414 H2A Histone 2A.
Probab=100.00 E-value=9.8e-41 Score=281.19 Aligned_cols=101 Identities=86% Similarity=1.245 Sum_probs=99.2
Q ss_pred CcccccccccchhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhcCcHHHHh
Q psy3828 51 TRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNK 130 (365)
Q Consensus 51 SrSsRAgLqFPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~nDeEL~~ 130 (365)
|||+|||||||||||+|||++++|++||+++|+|||+||||||++||||||+|+|++++++||+|+||++||+||+|||+
T Consensus 1 srS~ragL~fPVgRi~r~Lk~~~~~~Rv~~~A~VyLaAvLEYLtaEILeLagn~a~~~k~~rItp~hi~lAi~nD~EL~~ 80 (106)
T smart00414 1 SRSARAGLQFPVGRIHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIRNDEELNK 80 (106)
T ss_pred CccccCCccCchHHHHHHHHcCccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchHHHhhhccCCHHHHH
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhcCCeecCCcccCCcccccc
Q psy3828 131 LLSGVTIAQGGVLPNIQAGAA 151 (365)
Q Consensus 131 Lf~~vtIa~GGV~P~i~~gl~ 151 (365)
||+++||++|||+|+||+.+.
T Consensus 81 L~~~vti~~ggv~p~i~~~l~ 101 (106)
T smart00414 81 LLKGVTIAQGGVLPNIHKVLL 101 (106)
T ss_pred HHcCcccCCCccCCCcchhhc
Confidence 999999999999999999875
No 13
>cd00074 H2A Histone 2A; H2A is a subunit of the nucleosome. The nucleosome is an octamer containing two H2A, H2B, H3, and H4 subunits. The H2A subunit performs essential roles in maintaining structural integrity of the nucleosome, chromatin condensation, and binding of specific chromatin-associated proteins.
Probab=100.00 E-value=2.1e-40 Score=282.77 Aligned_cols=109 Identities=81% Similarity=1.193 Sum_probs=105.7
Q ss_pred CCCCCCCCCcccccccccchhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhh
Q psy3828 43 GKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAI 122 (365)
Q Consensus 43 gk~~~k~~SrSsRAgLqFPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI 122 (365)
||++++.+|+|+||||||||+||+|||++++|+.||+++|+|||+||||||++||||+|+|.|+++++++|+|+||++||
T Consensus 4 ~k~~~~~~s~s~ragL~fPV~ri~R~Lk~~~~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi 83 (115)
T cd00074 4 GKKKSKKRSRSARAGLQFPVGRIHRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAV 83 (115)
T ss_pred CccCcCccccccccCccCcHHHHHHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHH
Confidence 46777889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCcHHHHhhhcCCeecCCcccCCcccccc
Q psy3828 123 RNDEELNKLLSGVTIAQGGVLPNIQAGAA 151 (365)
Q Consensus 123 ~nDeEL~~Lf~~vtIa~GGV~P~i~~gl~ 151 (365)
+||+|||+||+++||++|||+|+||+.+.
T Consensus 84 ~nD~EL~~L~~~vtI~~ggv~p~i~~~l~ 112 (115)
T cd00074 84 RNDEELNKLLKGVTIASGGVLPNIHKVLL 112 (115)
T ss_pred hccHHHHHHHcCCcccCCccCCCcchhhc
Confidence 99999999999999999999999999875
No 14
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]
Probab=100.00 E-value=2.1e-40 Score=281.56 Aligned_cols=114 Identities=79% Similarity=1.182 Sum_probs=107.3
Q ss_pred CCCCCC-CCCC-CCCcccccccccchhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccch
Q psy3828 39 RGKGGK-AKAK-SKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPR 116 (365)
Q Consensus 39 ~gkggk-~~~k-~~SrSsRAgLqFPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~ 116 (365)
.||||| ...+ ..++|.++||+||||||+|+|++++|.+||++.|+||++||||||++||||+|+|+|++++++||+|+
T Consensus 4 ~GKGgK~a~~r~~~s~sa~agl~fpvgrvkr~lk~~~~~~Rig~~A~Vyl~AvleYL~aEilelAgNaA~d~kkkri~Pr 83 (132)
T COG5262 4 GGKGGKAADARVSQSRSAKAGLIFPVGRVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIPR 83 (132)
T ss_pred CCcCcccccchhccchhhhcCccccHHHHHHHHHcCccceeecCCcHHHHHHHHHHHHHHHHHHhhhhhhhcCcceechH
Confidence 377787 3333 47999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhcCcHHHHhhhcCCeecCCcccCCccccccc
Q psy3828 117 HLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAGAAL 152 (365)
Q Consensus 117 hI~lAI~nDeEL~~Lf~~vtIa~GGV~P~i~~gl~l 152 (365)
||++||+||+||++|+++|||++|||+|||++++.+
T Consensus 84 HlqlAIrnD~EL~~l~~~~tIa~GGvlp~I~~~ll~ 119 (132)
T COG5262 84 HLQLAIRNDEELNKLLGDVTIAQGGVLPNINPGLLP 119 (132)
T ss_pred HHHHHhcCcHHHHHHhhhheeecCCcccccChhhhh
Confidence 999999999999999999999999999999999864
No 15
>KOG1757|consensus
Probab=100.00 E-value=2.6e-34 Score=242.94 Aligned_cols=105 Identities=63% Similarity=0.913 Sum_probs=99.1
Q ss_pred CCCCCcccccccccchhhhhhhhhcCCc-ccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhcCc
Q psy3828 47 AKSKTRSSRAGLQFPVGRIHRLLRKGNY-AERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRND 125 (365)
Q Consensus 47 ~k~~SrSsRAgLqFPVsRI~RlLke~~y-a~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~nD 125 (365)
.+.+++|.|+||||||+||||+|+.... ..||++.+.||.+|+||||++|+||||||++++.+.+||||+|+|+||+.|
T Consensus 18 ~k~vs~s~raGlqFpVgRihr~LK~r~t~h~rVGataavy~aaileYLTaEVLeLAgNasKdLKvKRitprHlqLAiRGD 97 (131)
T KOG1757|consen 18 AKAVSRSARAGLQFPVGRIHRHLKTRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGD 97 (131)
T ss_pred hhhhhHHHhcccccchHHHHHHHHHhcccccccchHHHHHHHHHHHHHHHHHHHHcccccccceeeeccchhheeeecCc
Confidence 5678999999999999999999998654 589999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhhcCCeecCCcccCCccccccc
Q psy3828 126 EELNKLLSGVTIAQGGVLPNIQAGAAL 152 (365)
Q Consensus 126 eEL~~Lf~~vtIa~GGV~P~i~~gl~l 152 (365)
|||+.|++ .||+.|||+||||+.+..
T Consensus 98 eELDtLIk-~TiagGgViPhihk~l~~ 123 (131)
T KOG1757|consen 98 EELDTLIK-ATIAGGGVIPHIHKSLIN 123 (131)
T ss_pred HHHHHHHH-HhhccCccccchHHHHhc
Confidence 99999997 589999999999999864
No 16
>PLN00155 histone H2A; Provisional
Probab=99.85 E-value=6.6e-22 Score=150.26 Aligned_cols=58 Identities=71% Similarity=1.180 Sum_probs=54.5
Q ss_pred cCCCCCCCCCCCCCCCcccccccccchhhhhhhhhcCCcccccCCChhHHHHHHHHHH
Q psy3828 36 MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYL 93 (365)
Q Consensus 36 mSg~gkggk~~~k~~SrSsRAgLqFPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYL 93 (365)
|||+|||++..++.+++|+||||||||+||+|+|++++|+.||+++||||||||||||
T Consensus 1 msg~g~g~~~~~k~~srS~rAgL~FPVgri~r~Lr~g~~a~Rvga~apVYlAAVLEYL 58 (58)
T PLN00155 1 MAGRGKGKTSGKKAVSRSAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYL 58 (58)
T ss_pred CCCCCCCCccccCccCcccccccccchHHHHHHHhcCChhhcccCCcHHHHHHHHHhC
Confidence 8999887666667899999999999999999999999999999999999999999997
No 17
>PF00125 Histone: Core histone H2A/H2B/H3/H4 histone h2a signature histone h2b signature histone h3 signature histone h4 signature; InterPro: IPR007125 The core histones together with some other DNA binding proteins appear to form a superfamily defined by a common fold and distant sequence similarities [, ]. Some proteins contain local homology domains related to the histone fold [].; GO: 0003677 DNA binding; PDB: 2YFW_D 2YFV_B 1U35_H 2F8N_D 2PYO_D 2NQB_D 3AN2_C 3AZJ_C 3AV1_G 3AZM_G ....
Probab=99.38 E-value=3.7e-13 Score=104.97 Aligned_cols=69 Identities=30% Similarity=0.423 Sum_probs=65.9
Q ss_pred cCccchhhhhhhhhhhcCCC----CCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHH
Q psy3828 272 RRKESYAIYIYKVLKQVHPD----TGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 340 (365)
Q Consensus 272 kr~esy~~YIykVLKQVhpd----~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrl 340 (365)
++...++.||+|++|+++++ ..||++||.+|+++++|++++|.++|..++.++||.||+++|||.|+|+
T Consensus 2 ~~~~~~~~~~~r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r~ 74 (75)
T PF00125_consen 2 TRRLIPKFPFSRLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLAVRI 74 (75)
T ss_dssp HSHSSSHHHHHHHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHHH
T ss_pred cccccCceEEeeeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHHHhc
Confidence 35678999999999999999 8999999999999999999999999999999999999999999999986
No 18
>PF00125 Histone: Core histone H2A/H2B/H3/H4 histone h2a signature histone h2b signature histone h3 signature histone h4 signature; InterPro: IPR007125 The core histones together with some other DNA binding proteins appear to form a superfamily defined by a common fold and distant sequence similarities [, ]. Some proteins contain local homology domains related to the histone fold [].; GO: 0003677 DNA binding; PDB: 2YFW_D 2YFV_B 1U35_H 2F8N_D 2PYO_D 2NQB_D 3AN2_C 3AZJ_C 3AV1_G 3AZM_G ....
Probab=99.26 E-value=3e-12 Score=99.82 Aligned_cols=73 Identities=41% Similarity=0.607 Sum_probs=68.5
Q ss_pred ccccccccchhhhhhhhhcCCccc-ccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhcCc
Q psy3828 53 SSRAGLQFPVGRIHRLLRKGNYAE-RVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRND 125 (365)
Q Consensus 53 SsRAgLqFPVsRI~RlLke~~ya~-RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~nD 125 (365)
+.+..+.||+.|+.+-+.++.+.. ||+..|.+||.+++||++.+|+|.|++.|..+++++|+|+||+.|+++|
T Consensus 2 ~~~~~~~~~~~r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r~~ 75 (75)
T PF00125_consen 2 TRRLIPKFPFSRLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLAVRID 75 (75)
T ss_dssp HSHSSSHHHHHHHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHHHT
T ss_pred cccccCceEEeeeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHHHhcC
Confidence 456789999999999999987774 9999999999999999999999999999999999999999999999876
No 19
>COG5247 BUR6 Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]
Probab=99.06 E-value=1.8e-10 Score=96.91 Aligned_cols=79 Identities=23% Similarity=0.456 Sum_probs=75.3
Q ss_pred ccccccchhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhcCcHHHHhhhc
Q psy3828 55 RAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLS 133 (365)
Q Consensus 55 RAgLqFPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~nDeEL~~Lf~ 133 (365)
+-.-.||++|++++||-++...+|++.+||...-.||+++.+|+.+++.+|+..+.+|||.+||..|+.+|+.+++|-.
T Consensus 19 ~~ktrFP~ar~KkIMQ~deDiGKV~q~tPVIaskalE~Fl~~iv~~s~k~aR~~~skR~t~e~lk~a~~sdekFdFL~~ 97 (113)
T COG5247 19 KKKTRFPIARLKKIMQLDEDIGKVGQSTPVIASKALEMFLTEIVGLSLKEARKKSSKRMTSEFLKRATESDEKFDFLKN 97 (113)
T ss_pred hhhhcCCHHHHHHHHHhhhhhhhhhhcchHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHhhhHHHHHHHH
Confidence 4566899999999999999999999999999999999999999999999999999999999999999999999999854
No 20
>KOG1659|consensus
Probab=98.66 E-value=2.3e-08 Score=93.67 Aligned_cols=78 Identities=19% Similarity=0.383 Sum_probs=73.9
Q ss_pred ccccccchhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhcCcHHHHhhh
Q psy3828 55 RAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLL 132 (365)
Q Consensus 55 RAgLqFPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~nDeEL~~Lf 132 (365)
+-.-.||++||+++||-+....+|...+||.+.-.||.|+.+|+..++.+++..+.+++++.||..||.||+.|++|-
T Consensus 9 ~~~trfp~aRiKKIMQ~dEdIGKvaqavPViisralElFl~~l~~~t~~~t~~~~aKt~s~~hlkq~v~~~~~FdFLk 86 (224)
T KOG1659|consen 9 KYKTRFPPARIKKIMQSDEDIGKVAQAVPVIISRALELFLESLLQKTLEITRSRGAKTVSSSHLKQAVESDPKFDFLK 86 (224)
T ss_pred hhhccCCHHHHHHHHhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCccccCHHHHHHHHhccchhHHHH
Confidence 334579999999999999999999999999999999999999999999999999999999999999999999999883
No 21
>PF00808 CBFD_NFYB_HMF: Histone-like transcription factor (CBF/NF-Y) and archaeal histone; InterPro: IPR003958 The CCAAT-binding factor (CBF) is a mammalian transcription factor that binds to a CCAAT motif in the promoters of a wide variety of genes, including type I collagen and albumin. The factor is a heteromeric complex of A and B subunits, both of which are required for DNA-binding [, ]. The subunits can interact in the absence of DNA-binding, conserved regions in each being important in mediating this interaction. The A subunit can be split into 3 domains on the basis of sequence similarity, a non-conserved N-terminal 'A domain'; a highly-conserved central 'B domain' involved in DNA-binding; and a C-terminal 'C domain', which contains a number of glutamine and acidic residues involved in protein-protein interactions []. The A subunit shows striking similarity to the HAP3 subunit of the yeast CCAAT-binding heterotrimeric transcription factor [, ]. The Kluyveromyces lactis HAP3 protein has been predicted to contain a 4-cysteine zinc finger, which is thought to be present in similar HAP3 and CBF subunit A proteins, in which the third cysteine is replaced by a serine []. This domain is found in the CCAAT transcription factor and archaeal histones.; GO: 0043565 sequence-specific DNA binding, 0005622 intracellular; PDB: 1F1E_A 2BYM_D 2BYK_D 1HTA_A 1B67_A 1JFI_B 1KU5_B 1N1J_A 1BFM_A 1B6W_A ....
Probab=98.33 E-value=7.2e-07 Score=68.35 Aligned_cols=64 Identities=20% Similarity=0.288 Sum_probs=57.8
Q ss_pred ccchhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhh
Q psy3828 59 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAI 122 (365)
Q Consensus 59 qFPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI 122 (365)
.||+++|+|+|+......+|+..|...++-+.|.++.+|...|...|...+++.|+++||..||
T Consensus 2 ~lP~a~vkri~k~~~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~~rkti~~~Dv~~Av 65 (65)
T PF00808_consen 2 SLPLARVKRIMKSDPDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTITYEDVAKAV 65 (65)
T ss_dssp SS-HHHHHHHHHHTSTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE-HHHHHHHH
T ss_pred CCChHHHHHHhccCCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHC
Confidence 5999999999999867789999999999999999999999999999999999999999999875
No 22
>PLN00035 histone H4; Provisional
Probab=98.20 E-value=1.2e-06 Score=74.32 Aligned_cols=85 Identities=27% Similarity=0.393 Sum_probs=70.4
Q ss_pred cCCCCCCCCC----CCCC---CCcccccccccchhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhc
Q psy3828 36 MSGRGKGGKA----KAKS---KTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDN 108 (365)
Q Consensus 36 mSg~gkggk~----~~k~---~SrSsRAgLqFPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~ 108 (365)
|||+|||||. ..++ ..+.+-+| +|..-|.|+.+.+. +.||+.++-..|..+||.+..+|+.-|...|...
T Consensus 1 m~~~~k~~~g~g~~g~kr~~k~~~d~i~~--ipk~~IrRLARr~G-vkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA 77 (103)
T PLN00035 1 MSGRGKGGKGLGKGGAKRHRKVLRDNIQG--ITKPAIRRLARRGG-VKRISGLIYEETRGVLKIFLENVIRDAVTYTEHA 77 (103)
T ss_pred CCCCCCCCCCCCCCcchHHHHHHHhhhcc--CCHHHHHHHHHHcC-cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 8899886543 2222 23334455 77778999999974 8999999999999999999999999999999999
Q ss_pred CCccccchhhhhhhc
Q psy3828 109 KKTRIIPRHLQLAIR 123 (365)
Q Consensus 109 kkkrItP~hI~lAI~ 123 (365)
+++.|+.+||.+|+.
T Consensus 78 ~RKTV~~~DV~~Alk 92 (103)
T PLN00035 78 RRKTVTAMDVVYALK 92 (103)
T ss_pred CCCcCcHHHHHHHHH
Confidence 999999999999875
No 23
>cd07981 TAF12 TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of the seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs function such as serving as activator-bind
Probab=97.76 E-value=9.6e-05 Score=58.41 Aligned_cols=60 Identities=17% Similarity=0.402 Sum_probs=57.2
Q ss_pred hhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHH
Q psy3828 281 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 340 (365)
Q Consensus 281 IykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrl 340 (365)
+...+|++.|...++..|...|-.+..|+.+.++.+|.+||.+.++.||..+|||-+++-
T Consensus 7 l~~lv~~id~~~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r 66 (72)
T cd07981 7 LQELLKEIDPREQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLER 66 (72)
T ss_pred HHHHHHhhCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 667899999999999999999999999999999999999999999999999999999864
No 24
>PF00808 CBFD_NFYB_HMF: Histone-like transcription factor (CBF/NF-Y) and archaeal histone; InterPro: IPR003958 The CCAAT-binding factor (CBF) is a mammalian transcription factor that binds to a CCAAT motif in the promoters of a wide variety of genes, including type I collagen and albumin. The factor is a heteromeric complex of A and B subunits, both of which are required for DNA-binding [, ]. The subunits can interact in the absence of DNA-binding, conserved regions in each being important in mediating this interaction. The A subunit can be split into 3 domains on the basis of sequence similarity, a non-conserved N-terminal 'A domain'; a highly-conserved central 'B domain' involved in DNA-binding; and a C-terminal 'C domain', which contains a number of glutamine and acidic residues involved in protein-protein interactions []. The A subunit shows striking similarity to the HAP3 subunit of the yeast CCAAT-binding heterotrimeric transcription factor [, ]. The Kluyveromyces lactis HAP3 protein has been predicted to contain a 4-cysteine zinc finger, which is thought to be present in similar HAP3 and CBF subunit A proteins, in which the third cysteine is replaced by a serine []. This domain is found in the CCAAT transcription factor and archaeal histones.; GO: 0043565 sequence-specific DNA binding, 0005622 intracellular; PDB: 1F1E_A 2BYM_D 2BYK_D 1HTA_A 1B67_A 1JFI_B 1KU5_B 1N1J_A 1BFM_A 1B6W_A ....
Probab=97.64 E-value=0.00015 Score=55.49 Aligned_cols=57 Identities=28% Similarity=0.480 Sum_probs=51.9
Q ss_pred hhhhhhhcCCCC-CcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHH
Q psy3828 281 IYKVLKQVHPDT-GVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAV 338 (365)
Q Consensus 281 IykVLKQVhpd~-gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAv 338 (365)
|.|++|+. |+. .||.+|...|+.....+.+.|+.+|...+..++|+||+.+||..||
T Consensus 8 vkri~k~~-~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~~rkti~~~Dv~~Av 65 (65)
T PF00808_consen 8 VKRIMKSD-PDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTITYEDVAKAV 65 (65)
T ss_dssp HHHHHHHT-STTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE-HHHHHHHH
T ss_pred HHHHhccC-CCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHC
Confidence 78999998 775 5999999999999999999999999999999999999999999986
No 25
>PTZ00015 histone H4; Provisional
Probab=97.59 E-value=0.00012 Score=62.05 Aligned_cols=69 Identities=17% Similarity=0.289 Sum_probs=60.0
Q ss_pred cccccccccchhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhc
Q psy3828 52 RSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 123 (365)
Q Consensus 52 rSsRAgLqFPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~ 123 (365)
+.+-.| +|..-|.|+.+.+ =+.||+.++-..+..+||.++.+|+.-|...|...+++.|+.+||.+|+.
T Consensus 25 r~~i~g--I~k~~IrRLarr~-GvkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~AlK 93 (102)
T PTZ00015 25 RDNIRG--ITKGAIRRLARRG-GVKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVYALK 93 (102)
T ss_pred hhcccC--CCHHHHHHHHHHc-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHH
Confidence 344445 4555699999986 67899999999999999999999999999999999999999999999874
No 26
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=97.38 E-value=0.00033 Score=58.37 Aligned_cols=63 Identities=25% Similarity=0.407 Sum_probs=59.1
Q ss_pred hhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHHhCcH
Q psy3828 281 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPG 344 (365)
Q Consensus 281 IykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrllLPg 344 (365)
|-|++|++-++ .+|..|...|+..+..+++-|+.+|..+|.+.+|+||+..||+.|.+.+.+.
T Consensus 25 v~Ri~r~~~~~-Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~~~~~~ 87 (91)
T COG2036 25 VRRILRKAGAE-RVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALKRLGRR 87 (91)
T ss_pred HHHHHHHHhHH-HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHHHhccc
Confidence 77888888888 9999999999999999999999999999999999999999999999987654
No 27
>smart00803 TAF TATA box binding protein associated factor. TAFs (TATA box binding protein associated factors) are part of the transcription initiation factor TFIID multimeric protein complex. TFIID is composed of the TATA box binding protein (TBP) and a number of TAFs. The TAFs provide binding sites for many different transcriptional activators and co-activators that modulate transcription initiation by Pol II. TAF proteins adopt a histone-like fold.
Probab=97.33 E-value=0.0004 Score=54.22 Aligned_cols=64 Identities=22% Similarity=0.267 Sum_probs=58.4
Q ss_pred ccchhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhc
Q psy3828 59 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 123 (365)
Q Consensus 59 qFPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~ 123 (365)
.+|..-|.|+.+... ..||+..+...|+-.+||.+.||++-|.+.++..+++.++++||..|++
T Consensus 2 ~~p~~~i~ria~~~G-i~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk 65 (65)
T smart00803 2 WLPKETIKDVAESLG-IGNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR 65 (65)
T ss_pred CCCHHHHHHHHHHCC-CccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence 478888999999864 4599999999999999999999999999999999999999999998863
No 28
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=96.93 E-value=0.0009 Score=55.79 Aligned_cols=67 Identities=30% Similarity=0.393 Sum_probs=59.9
Q ss_pred cccccchhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhc
Q psy3828 56 AGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 123 (365)
Q Consensus 56 AgLqFPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~ 123 (365)
..+-+|+.=|.|+|++. -..||+.+|-..|.-++|-++.+|.|.|...|...|++.|++++|++|+.
T Consensus 16 ~~~~Lp~apv~Ri~r~~-~~~Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~ 82 (91)
T COG2036 16 TDLLLPKAPVRRILRKA-GAERVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALK 82 (91)
T ss_pred hhhhcCchHHHHHHHHH-hHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHH
Confidence 34567777799999984 44599999999999999999999999999999999999999999999975
No 29
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]
Probab=96.74 E-value=0.0023 Score=61.10 Aligned_cols=77 Identities=22% Similarity=0.383 Sum_probs=71.6
Q ss_pred ccccchhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhcCcHHHHhhhc
Q psy3828 57 GLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLS 133 (365)
Q Consensus 57 gLqFPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~nDeEL~~Lf~ 133 (365)
-+.+|..||+++|+.+....-|++.|||.++.+-|-+++|+--.|.-.|..|++..+.-.+|..|+...+-+++|+-
T Consensus 107 ~h~LPlARIkkvMKtdedVkMisaEaPvlFak~~EiFI~ELTmRAW~~ae~NkRRtLQksDia~Av~kSeMfDFLid 183 (286)
T COG5208 107 DHNLPLARIKKVMKTDEDVKMISAEAPVLFAKITEIFIEELTMRAWINAEENKRRTLQKSDIAAAVKKSEMFDFLID 183 (286)
T ss_pred hccCcHHHHHHHHhcccchhheecccchHHHHHHHHHHHHHHHHHHHHHhHhhhhHHHHHHHHHHHHHHHHHhHHhh
Confidence 34599999999999998889999999999999999999999999998899999988999999999999999999974
No 30
>KOG1657|consensus
Probab=96.66 E-value=0.0013 Score=63.12 Aligned_cols=83 Identities=18% Similarity=0.260 Sum_probs=74.8
Q ss_pred cccccccccchhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhcCcHHHHhh
Q psy3828 52 RSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKL 131 (365)
Q Consensus 52 rSsRAgLqFPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~nDeEL~~L 131 (365)
...-....||.+||+++||......-|+..|||.++-++|+++.|+-..++..+..++++.+.-.||..++.+.+-+++|
T Consensus 67 ~~d~~~~~lPlaRiKkimK~dedv~mI~~Eapvl~aka~E~Fi~elt~~sw~~Tee~~rrtl~~sdia~av~~s~~fdFL 146 (236)
T KOG1657|consen 67 QLDFKNHILPLARIKKIMKSDEDVSMITAEAPVLFAKACELFITELTLRSWVHTEENKRRTLQKSDIAAAVTQSETFDFL 146 (236)
T ss_pred ccchhhccCcHhhccccccccccccccchhHHHHHHHHHHHHHHHHHHHhhhhhcccccccchHHHHHHHhccCCCccce
Confidence 33344678999999999999999999999999999999999999999999999999999888889999999999999999
Q ss_pred hcC
Q psy3828 132 LSG 134 (365)
Q Consensus 132 f~~ 134 (365)
...
T Consensus 147 ~Di 149 (236)
T KOG1657|consen 147 RDI 149 (236)
T ss_pred ecc
Confidence 753
No 31
>PF03847 TFIID_20kDa: Transcription initiation factor TFIID subunit A; InterPro: IPR003228 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription [].; GO: 0006352 transcription initiation, DNA-dependent, 0005669 transcription factor TFIID complex; PDB: 1H3O_B.
Probab=96.65 E-value=0.0055 Score=48.41 Aligned_cols=59 Identities=19% Similarity=0.412 Sum_probs=48.5
Q ss_pred hhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHH
Q psy3828 281 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 339 (365)
Q Consensus 281 IykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvr 339 (365)
+-..++||-|...+...+..+|-.+.+|+.+.+..-|++||++.+..||..+|||....
T Consensus 5 l~~Lv~~iDp~~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~tle~~Dv~~~Le 63 (68)
T PF03847_consen 5 LQELVKQIDPNEKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSSTLEVKDVQLHLE 63 (68)
T ss_dssp HHHHHHCC-SS----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHHH
T ss_pred HHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHH
Confidence 56789999999999999999999999999999999999999999999999999997654
No 32
>cd00074 H2A Histone 2A; H2A is a subunit of the nucleosome. The nucleosome is an octamer containing two H2A, H2B, H3, and H4 subunits. The H2A subunit performs essential roles in maintaining structural integrity of the nucleosome, chromatin condensation, and binding of specific chromatin-associated proteins.
Probab=96.52 E-value=0.0093 Score=51.66 Aligned_cols=60 Identities=25% Similarity=0.257 Sum_probs=55.3
Q ss_pred hhhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHH
Q psy3828 280 YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 339 (365)
Q Consensus 280 YIykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvr 339 (365)
=|+|.||+-.--.-||..|.--|-..+.++...|.+.|.+.++.+++++||+|+|+.|++
T Consensus 25 ri~R~Lk~~~~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi~ 84 (115)
T cd00074 25 RIHRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAVR 84 (115)
T ss_pred HHHHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHHh
Confidence 389999986556889999999999999999999999999999999999999999999998
No 33
>cd00076 H4 Histone H4, one of the four histones, along with H2A, H2B and H3, which forms the eukaryotic nucleosome core; along with H3, it plays a central role in nucleosome formation; histones bind to DNA and wrap the genetic material into "beads on a string" in which DNA (the string) is wrapped around small blobs of histones (the beads) at regular intervals; play a role in the inheritance of specialized chromosome structures and the control of gene activity; defects in the establishment of proper chromosome structure by histones may activate or silence genes aberrantly and thus lead to disease; the sequence of histone H4 has remained almost invariant in more than 2 billion years of evolution
Probab=96.46 E-value=0.0046 Score=50.96 Aligned_cols=70 Identities=20% Similarity=0.318 Sum_probs=61.3
Q ss_pred cccccccccchhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhcC
Q psy3828 52 RSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRN 124 (365)
Q Consensus 52 rSsRAgLqFPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~n 124 (365)
+.+-+| +|..-|.|+.+.+. ..|||.++-.-+..+||.+..+|+..|...+...+++.|++++|.+|+..
T Consensus 8 ~~~~~g--i~k~~I~RLarr~G-vkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr 77 (85)
T cd00076 8 RDNIKG--ITKPAIRRLARRGG-VKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKR 77 (85)
T ss_pred HHhhcc--CCHHHHHHHHHHcC-cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHH
Confidence 344456 56667999999975 89999999999999999999999999999999999999999999998763
No 34
>smart00803 TAF TATA box binding protein associated factor. TAFs (TATA box binding protein associated factors) are part of the transcription initiation factor TFIID multimeric protein complex. TFIID is composed of the TATA box binding protein (TBP) and a number of TAFs. The TAFs provide binding sites for many different transcriptional activators and co-activators that modulate transcription initiation by Pol II. TAF proteins adopt a histone-like fold.
Probab=96.40 E-value=0.009 Score=46.65 Aligned_cols=59 Identities=24% Similarity=0.327 Sum_probs=51.5
Q ss_pred hhhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHH
Q psy3828 280 YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 339 (365)
Q Consensus 280 YIykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvr 339 (365)
.|.++.+..-= ..||..+..-|-..+.+..+.|+.||..++++.+|+|+|..||-.|.|
T Consensus 7 ~i~ria~~~Gi-~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk 65 (65)
T smart00803 7 TIKDVAESLGI-GNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR 65 (65)
T ss_pred HHHHHHHHCCC-ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence 36777777643 368999999999999999999999999999999999999999988864
No 35
>PLN00035 histone H4; Provisional
Probab=96.27 E-value=0.014 Score=49.83 Aligned_cols=59 Identities=12% Similarity=0.183 Sum_probs=53.4
Q ss_pred hhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHH
Q psy3828 281 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 340 (365)
Q Consensus 281 IykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrl 340 (365)
|.|+++.-- --.||..+..-+...+.+++|.|+.+|..++.+.+|+|++..||-.|++.
T Consensus 35 IrRLARr~G-vkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~Alkr 93 (103)
T PLN00035 35 IRRLARRGG-VKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKR 93 (103)
T ss_pred HHHHHHHcC-cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHH
Confidence 778887754 46799999999999999999999999999999999999999999999874
No 36
>cd00076 H4 Histone H4, one of the four histones, along with H2A, H2B and H3, which forms the eukaryotic nucleosome core; along with H3, it plays a central role in nucleosome formation; histones bind to DNA and wrap the genetic material into "beads on a string" in which DNA (the string) is wrapped around small blobs of histones (the beads) at regular intervals; play a role in the inheritance of specialized chromosome structures and the control of gene activity; defects in the establishment of proper chromosome structure by histones may activate or silence genes aberrantly and thus lead to disease; the sequence of histone H4 has remained almost invariant in more than 2 billion years of evolution
Probab=96.06 E-value=0.015 Score=48.01 Aligned_cols=60 Identities=13% Similarity=0.209 Sum_probs=52.4
Q ss_pred hhhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHH
Q psy3828 280 YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 340 (365)
Q Consensus 280 YIykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrl 340 (365)
-|.|+.+.-- -..||..++.-+...+...+|.|+.+|..++.+.+|+|++..||-.|++.
T Consensus 18 ~I~RLarr~G-vkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr 77 (85)
T cd00076 18 AIRRLARRGG-VKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKR 77 (85)
T ss_pred HHHHHHHHcC-cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHH
Confidence 3677777643 45689999999999999999999999999999999999999999988863
No 37
>PTZ00015 histone H4; Provisional
Probab=96.01 E-value=0.015 Score=49.59 Aligned_cols=61 Identities=15% Similarity=0.262 Sum_probs=53.1
Q ss_pred hhhhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHH
Q psy3828 279 IYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 340 (365)
Q Consensus 279 ~YIykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrl 340 (365)
.-|.|+++.- ---.||..+..-+...++++++.|+.+|..++.+.+|+|+|..||--|++.
T Consensus 34 ~~IrRLarr~-GvkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~AlKr 94 (102)
T PTZ00015 34 GAIRRLARRG-GVKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVYALKR 94 (102)
T ss_pred HHHHHHHHHc-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHh
Confidence 3477777764 335699999999999999999999999999999999999999999988764
No 38
>smart00428 H3 Histone H3.
Probab=95.90 E-value=0.029 Score=48.04 Aligned_cols=68 Identities=22% Similarity=0.312 Sum_probs=62.4
Q ss_pred CccchhhhhhhhhhhcCC--CCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHH
Q psy3828 273 RKESYAIYIYKVLKQVHP--DTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 340 (365)
Q Consensus 273 r~esy~~YIykVLKQVhp--d~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrl 340 (365)
++-.|+..+..+..+..+ +.-+++.|+..|.....+....+.++|..++.+.||.||..+|||-|.|+
T Consensus 31 ~k~pF~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi~La~ri 100 (105)
T smart00428 31 RKAPFQRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQLARRI 100 (105)
T ss_pred ccccHHHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhHHHHHHH
Confidence 456788888888888888 88999999999999999999999999999999999999999999999886
No 39
>smart00417 H4 Histone H4.
Probab=95.90 E-value=0.013 Score=47.24 Aligned_cols=67 Identities=18% Similarity=0.201 Sum_probs=57.3
Q ss_pred cccccccccchhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhh
Q psy3828 52 RSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLA 121 (365)
Q Consensus 52 rSsRAgLqFPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lA 121 (365)
+.+-.| +|..-|.|+++.+ =+.|||..+-..+..+||.+..+|+..|...|...+++.|+.+++..|
T Consensus 8 ~d~i~g--I~k~~IrRLaRr~-GvkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~~a 74 (74)
T smart00417 8 RDNIQG--ITKPAIRRLARRG-GVKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVVYA 74 (74)
T ss_pred HhhhcC--CCHHHHHHHHHHc-CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHheeC
Confidence 334456 4555699999996 578999999999999999999999999999999999999999998654
No 40
>cd07981 TAF12 TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of the seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs function such as serving as activator-bind
Probab=95.75 E-value=0.019 Score=45.41 Aligned_cols=65 Identities=17% Similarity=0.274 Sum_probs=58.2
Q ss_pred chhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhcCc
Q psy3828 61 PVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRND 125 (365)
Q Consensus 61 PVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~nD 125 (365)
+-..+..++++..-..|++.+|...|..+.|-++.+|++.|...|+..+++.|.+++|++++..+
T Consensus 3 ~k~~l~~lv~~id~~~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r~ 67 (72)
T cd07981 3 TKRKLQELLKEIDPREQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLERN 67 (72)
T ss_pred cHHHHHHHHHhhCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHh
Confidence 34567778888666689999999999999999999999999999999999999999999998765
No 41
>cd08048 TAF11 TATA Binding Protein (TBP) Associated Factor 11 (TAF11) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 11 (TAF11) is one of several TAFs that bind TBP and are involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAF orthologs and paralogs. Several hypothes
Probab=95.27 E-value=0.042 Score=45.22 Aligned_cols=63 Identities=25% Similarity=0.419 Sum_probs=54.3
Q ss_pred cchhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcC---Cccccchhhhhhhc
Q psy3828 60 FPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNK---KTRIIPRHLQLAIR 123 (365)
Q Consensus 60 FPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~k---kkrItP~hI~lAI~ 123 (365)
||-..++|++.. ...+.++....+.++++---++.||+|.|...-...+ ...|.|+||+.|.+
T Consensus 17 f~k~~iKr~~~~-~~~~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~HireA~r 82 (85)
T cd08048 17 FPKAAIKRLIQS-VTGQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHLREAYR 82 (85)
T ss_pred ccHHHHHHHHHH-HcCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHHHHHHH
Confidence 777779999987 3558999999999999999999999999998765544 47899999998865
No 42
>cd07979 TAF9 TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. The TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAFs orthologs and paralogs. Human TAF9 has a paralogue gene (TAF9L) whi
Probab=94.88 E-value=0.096 Score=45.27 Aligned_cols=64 Identities=11% Similarity=0.171 Sum_probs=56.8
Q ss_pred hhhhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHHhCc
Q psy3828 279 IYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLP 343 (365)
Q Consensus 279 ~YIykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrllLP 343 (365)
..|.++||.- -....+.++...|--|+....+.|+.+|..++++.+|+||+..||..|+...+.
T Consensus 5 ~~v~~iLk~~-Gv~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~r~~ 68 (117)
T cd07979 5 RVIAAILKSM-GITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQSRVD 68 (117)
T ss_pred HHHHHHHHHC-CCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhc
Confidence 4678888875 234679999999999999999999999999999999999999999999988774
No 43
>smart00417 H4 Histone H4.
Probab=94.53 E-value=0.062 Score=43.32 Aligned_cols=54 Identities=11% Similarity=0.218 Sum_probs=46.8
Q ss_pred hhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHH
Q psy3828 281 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQ 335 (365)
Q Consensus 281 IykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIq 335 (365)
|.|+++.- ---.||..+..-+..+++++++.|+.+|..++.+.+|+|++..||-
T Consensus 19 IrRLaRr~-GvkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~ 72 (74)
T smart00417 19 IRRLARRG-GVKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVV 72 (74)
T ss_pred HHHHHHHc-CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHhe
Confidence 67777753 2345899999999999999999999999999999999999999985
No 44
>KOG0869|consensus
Probab=94.52 E-value=0.089 Score=48.09 Aligned_cols=78 Identities=23% Similarity=0.316 Sum_probs=63.9
Q ss_pred hhhhhhhcCCC-CCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHHh--------CcHHHHhhHH
Q psy3828 281 IYKVLKQVHPD-TGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLL--------LPGELAKHAV 351 (365)
Q Consensus 281 IykVLKQVhpd-~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrll--------LPgeLakhAv 351 (365)
|-|+.|+.-|. ..||..|-..|.-.|..+.-=|+.||+.-++..||+||+..||..|+--| |---|.|+=.
T Consensus 38 V~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~tLGFe~Y~eplkiyL~kYRe 117 (168)
T KOG0869|consen 38 VSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMSTLGFENYAEPLKIYLQKYRE 117 (168)
T ss_pred HHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHHHcCcHhHHHHHHHHHHHHHH
Confidence 77889988776 56999999999999999999999999999999999999999999998643 2334555555
Q ss_pred hhhhhhh
Q psy3828 352 SEGTKAV 358 (365)
Q Consensus 352 seGtkAV 358 (365)
.||-+..
T Consensus 118 ~e~e~~~ 124 (168)
T KOG0869|consen 118 LEGERGR 124 (168)
T ss_pred Hhhhccc
Confidence 5555443
No 45
>PLN00156 histone H2AX; Provisional
Probab=93.65 E-value=0.19 Score=45.15 Aligned_cols=64 Identities=23% Similarity=0.287 Sum_probs=55.0
Q ss_pred chhh-hhhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHH
Q psy3828 276 SYAI-YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 339 (365)
Q Consensus 276 sy~~-YIykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvr 339 (365)
.|.. -|+|.||.-+-..-|+.-|.--|-..+.++...|-+-|..-++.+++.-|++|.||.|+|
T Consensus 29 ~FPVgRi~R~Lk~g~ya~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi~lAIr 93 (139)
T PLN00156 29 QFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
T ss_pred ccchHHHHHHHhcCChhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHhhcc
Confidence 4543 489999998777789999988888888888888888888889999999999999999998
No 46
>KOG0871|consensus
Probab=93.63 E-value=0.18 Score=45.71 Aligned_cols=66 Identities=21% Similarity=0.349 Sum_probs=59.2
Q ss_pred hhhhhhhhcCC-CCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHHhCcHH
Q psy3828 280 YIYKVLKQVHP-DTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGE 345 (365)
Q Consensus 280 YIykVLKQVhp-d~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrllLPge 345 (365)
-|.|++|.+-| |..+..+|-.+++..-..+..-|+.||.+.+....|+||....|+.|..-|==||
T Consensus 17 tv~KmIke~lP~d~rvakeareliincCvEFI~liSsEAneic~~e~KKTIa~EHV~KALe~LgF~e 83 (156)
T KOG0871|consen 17 TVNKMIKEMLPKDVRVAKEARELIINCCVEFINLISSEANEICNKEAKKTIAPEHVIKALENLGFGE 83 (156)
T ss_pred HHHHHHHHhCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcccCCHHHHHHHHHHcchHH
Confidence 38899999999 9999999999988888888899999999999999999999999999987554343
No 47
>KOG1142|consensus
Probab=92.95 E-value=0.11 Score=50.84 Aligned_cols=62 Identities=19% Similarity=0.300 Sum_probs=57.1
Q ss_pred hhhhhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHH
Q psy3828 278 AIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 339 (365)
Q Consensus 278 ~~YIykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvr 339 (365)
+.-+...++||.+++.|-.+.-++|--+..|+.|-|..-|++||++.|..||-.||||..+.
T Consensus 157 k~kl~dLvqqId~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhLE 218 (258)
T KOG1142|consen 157 KRKLDDLVQQIDGTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHLE 218 (258)
T ss_pred ccchhHHHHhhcCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeeee
Confidence 33478899999999999999999999999999999999999999999999999999998764
No 48
>PLN00153 histone H2A; Provisional
Probab=92.82 E-value=0.27 Score=43.63 Aligned_cols=66 Identities=20% Similarity=0.253 Sum_probs=55.0
Q ss_pred ccchhh-hhhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHH
Q psy3828 274 KESYAI-YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 339 (365)
Q Consensus 274 ~esy~~-YIykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvr 339 (365)
.-.|.. =|.|.||+-+.-.-|+.-|.--|-..+..+...|-+-|..-++.+++.-|++|.||.|++
T Consensus 22 gL~FpVgRi~R~Lr~g~~a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~ 88 (129)
T PLN00153 22 GLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVPRHIQLAIR 88 (129)
T ss_pred CcccchHHHHHHHhcCchhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccChHHHHhhcc
Confidence 344543 489999987777789998988888888888888888888889999999999999999998
No 49
>PF02969 TAF: TATA box binding protein associated factor (TAF); InterPro: IPR004823 The TATA box binding protein associated factor (TAF) is part of the transcription initiation factor TFIID multimeric protein complex. TFIID plays a central role in mediating promoter responses to various activators and repressors. It binds tightly to TAFII-250 and directly interacts with TAFII-40. TFIID is composed of TATA binding protein (TBP)and a number of TBP-associated factors (TAFS). TAF proteins adopt a histone-like fold.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus; PDB: 1TAF_B.
Probab=92.73 E-value=0.22 Score=39.33 Aligned_cols=64 Identities=20% Similarity=0.273 Sum_probs=46.1
Q ss_pred ccchhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhc
Q psy3828 59 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 123 (365)
Q Consensus 59 qFPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~ 123 (365)
.||..-|+.+-..-.. .-++..+.-.|+-=+||-+.||++-|.+.++..+++++|+.||+.|++
T Consensus 3 ~~~~esvk~iAes~Gi-~~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di~~ALr 66 (66)
T PF02969_consen 3 VFSQESVKDIAESLGI-SNLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLTTDDINSALR 66 (66)
T ss_dssp ---HHHHHHHHHHTT----B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHH-
T ss_pred cCCHHHHHHHHHHcCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHhC
Confidence 3555555554444222 357888999999999999999999999999999999999999999874
No 50
>KOG3219|consensus
Probab=92.50 E-value=0.11 Score=48.85 Aligned_cols=66 Identities=21% Similarity=0.347 Sum_probs=55.0
Q ss_pred ccccchhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcC-Cccccchhhhhhhc
Q psy3828 57 GLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNK-KTRIIPRHLQLAIR 123 (365)
Q Consensus 57 gLqFPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~k-kkrItP~hI~lAI~ 123 (365)
..-||=+.|+++|..- ..+-|+..+.|+++++=.-|+.||+|.|.......+ ...+.|.||..|.+
T Consensus 110 rs~f~Ka~iKkL~~~i-tg~~v~~nv~Ia~~GiaKvFVGEvVEeAl~V~~~~~e~~PLqP~HIREA~r 176 (195)
T KOG3219|consen 110 RSAFPKAQIKKLMSSI-TGQSVSENVAIAMAGIAKVFVGEVVEEALDVREEWGESGPLQPKHIREAYR 176 (195)
T ss_pred HhcCCHHHHHHHHHHH-hCCccCcceeeeecchhhHhHHHHHHHHHHHHHHhccCCCCCcHHHHHHHH
Confidence 3459999999999984 334499999999999999999999999998755443 56799999998865
No 51
>cd07979 TAF9 TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. The TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAFs orthologs and paralogs. Human TAF9 has a paralogue gene (TAF9L) whi
Probab=92.26 E-value=0.24 Score=42.78 Aligned_cols=61 Identities=18% Similarity=0.105 Sum_probs=54.2
Q ss_pred hhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhcCc
Q psy3828 64 RIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRND 125 (365)
Q Consensus 64 RI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~nD 125 (365)
-|+++|++. -..+++..++..|.-.++-.+.+|+.-|...|+..+++.|+.++|++||..=
T Consensus 6 ~v~~iLk~~-Gv~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~r 66 (117)
T cd07979 6 VIAAILKSM-GITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQSR 66 (117)
T ss_pred HHHHHHHHC-CCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence 478888884 4468899999999999999999999999999999999999999999999753
No 52
>smart00414 H2A Histone 2A.
Probab=92.17 E-value=0.27 Score=42.06 Aligned_cols=61 Identities=21% Similarity=0.234 Sum_probs=47.7
Q ss_pred hhhhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHH
Q psy3828 279 IYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 339 (365)
Q Consensus 279 ~YIykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvr 339 (365)
..|+|.||.-..-..|++-|.--|-..+..+...|-+-|..-++.+++..||+|+||.|++
T Consensus 13 gRi~r~Lk~~~~~~Rv~~~A~VyLaAvLEYLtaEILeLagn~a~~~k~~rItp~hi~lAi~ 73 (106)
T smart00414 13 GRIHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIR 73 (106)
T ss_pred HHHHHHHHcCccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchHHHhhhcc
Confidence 3588999887666688888876666666666666666677777888999999999999998
No 53
>PF04719 TAFII28: hTAFII28-like protein conserved region; InterPro: IPR006809 The general transcription factor, TFIID, consists of the TATA-binding protein (TBP) associated with a series of TBP-associated factors (TAFs) that together participate in the assembly of the transcription preinitiation complex. The conserved region is found at the C terminus of most member proteins. The crystal structure of hTAFII28 with hTAFII18 shows that this region is involved in the binding of these two subunits. The conserved region contains four alpha helices and three loops arranged as in histone H3 [, ].; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005634 nucleus; PDB: 1BH9_B 1BH8_B.
Probab=92.05 E-value=0.17 Score=42.29 Aligned_cols=63 Identities=21% Similarity=0.355 Sum_probs=45.9
Q ss_pred cchhhhhhhhhcCCcc-cccCCChhHHHHHHHHHHHHHHHHHHhHHHhhc-CCccccchhhhhhhc
Q psy3828 60 FPVGRIHRLLRKGNYA-ERVGAGAPVYLAAVMEYLAAEVLELAGNAARDN-KKTRIIPRHLQLAIR 123 (365)
Q Consensus 60 FPVsRI~RlLke~~ya-~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~-kkkrItP~hI~lAI~ 123 (365)
||=+-|++++..- .. +-|+....+.++++--.++.||+|.|....... ....|.|.||..|.+
T Consensus 24 ~~k~~ikkli~~~-~~~qsv~~~v~i~v~g~aKvFVGEiVE~A~~Vq~~~~~~~pl~P~hlreA~r 88 (90)
T PF04719_consen 24 FNKAAIKKLINQV-LGNQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGETGPLQPDHLREAYR 88 (90)
T ss_dssp --HHHHHHHHHHH-HS-S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SS--HHHHHHHHH
T ss_pred CCHHHHHHHHHHH-cCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHH
Confidence 7777899999983 44 799999999999999999999999999875544 345899999998754
No 54
>PTZ00017 histone H2A; Provisional
Probab=91.74 E-value=0.44 Score=42.54 Aligned_cols=60 Identities=23% Similarity=0.258 Sum_probs=49.5
Q ss_pred hhhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHH
Q psy3828 280 YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 339 (365)
Q Consensus 280 YIykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvr 339 (365)
=|.|.||+-+.-.-|+.-|.--|-..+..+...|-+-|..-++.+++.-||+|.||.|++
T Consensus 32 Ri~R~Lk~g~~a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~RItPrHi~lAI~ 91 (134)
T PTZ00017 32 RVHRYLKKGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLAIR 91 (134)
T ss_pred HHHHHHhccchhccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHhhcc
Confidence 388999987666688888877677777777777777778888999999999999999998
No 55
>smart00427 H2B Histone H2B.
Probab=91.68 E-value=0.31 Score=40.76 Aligned_cols=60 Identities=22% Similarity=0.282 Sum_probs=51.9
Q ss_pred hhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhc
Q psy3828 64 RIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 123 (365)
Q Consensus 64 RI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~ 123 (365)
.|+|.|++-....-|+..|.-.+...+..++..|-..|...++-+++..|++++|+.|++
T Consensus 6 Yi~kvLKqVhpd~giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~TltsreIqtAvr 65 (89)
T smart00427 6 YIYKVLKQVHPDTGISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLSSREIQTAVR 65 (89)
T ss_pred HHHHHHHHhCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHH
Confidence 588999987666678888887788888888888888888889999999999999999987
No 56
>PLN00157 histone H2A; Provisional
Probab=91.47 E-value=0.4 Score=42.72 Aligned_cols=66 Identities=26% Similarity=0.266 Sum_probs=55.3
Q ss_pred ccchhh-hhhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHH
Q psy3828 274 KESYAI-YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 339 (365)
Q Consensus 274 ~esy~~-YIykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvr 339 (365)
.-.|.. -|+|.||+-+...-|++.|.--|-..+.++...|-+-|..-++.+++.-|++|.||.|++
T Consensus 24 gL~FPVgRi~R~Lk~g~~a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~ 90 (132)
T PLN00157 24 GLQFPVGRIARYLKAGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRIVPRHIQLAVR 90 (132)
T ss_pred CcccchHHHHHHHhcCchhhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHhhccc
Confidence 334543 499999998777789999988888888888888888888888999999999999999998
No 57
>PLN00158 histone H2B; Provisional
Probab=91.25 E-value=0.37 Score=42.09 Aligned_cols=61 Identities=23% Similarity=0.295 Sum_probs=52.7
Q ss_pred hhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhc
Q psy3828 63 GRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 123 (365)
Q Consensus 63 sRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~ 123 (365)
..|+|.|++-....-|+..|.-.+...+..++..|...|...++-+++..|++++|+.|++
T Consensus 31 ~YI~kVLKQVhPd~gIS~kaM~ImnSfvnDiferIA~EAs~La~~nkr~TltsrEIqtAvr 91 (116)
T PLN00158 31 IYIYKVLKQVHPDTGISSKAMSIMNSFINDIFEKIATEAGKLARYNKKPTVTSREIQTAVR 91 (116)
T ss_pred HHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHH
Confidence 3699999997666778888887888888888888888888889999999999999999987
No 58
>PTZ00252 histone H2A; Provisional
Probab=91.14 E-value=0.67 Score=41.43 Aligned_cols=66 Identities=15% Similarity=0.198 Sum_probs=50.1
Q ss_pred ccchhh-hhhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhh--cCCCcccChhHHHHHHH
Q psy3828 274 KESYAI-YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAH--YNKRSTITSREIQTAVR 339 (365)
Q Consensus 274 ~esy~~-YIykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~--~nkr~TitsreIqtAvr 339 (365)
.-.|.. -|+|.|++-+-.--|++-|.--|-..+.++...|-+-|..-++ .|++.-|++|.||.|||
T Consensus 23 GL~FPVgRi~R~Lr~g~ya~RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~kk~RItPrHi~lAIr 91 (134)
T PTZ00252 23 GLIFPVGRVGSLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPKRLTPRTVTLAVR 91 (134)
T ss_pred CccCchHHHHHHHHcCCcccccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccccHHHHHhhcc
Confidence 445553 4889999888778898888876666666666666666666663 48889999999999998
No 59
>PLN00154 histone H2A; Provisional
Probab=91.03 E-value=0.67 Score=41.53 Aligned_cols=60 Identities=22% Similarity=0.201 Sum_probs=45.3
Q ss_pred hhhhhhhhcC-CCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHH
Q psy3828 280 YIYKVLKQVH-PDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 339 (365)
Q Consensus 280 YIykVLKQVh-pd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvr 339 (365)
-|.|.||+-. -..-|++.|.--|-..+.++--.|-+-|.+-++.+++.-||+|.||.|+|
T Consensus 43 Ri~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lAIr 103 (136)
T PLN00154 43 RIHRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 103 (136)
T ss_pred HHHHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhhcc
Confidence 4889999974 34578887776555555555555555566777889999999999999998
No 60
>PF02969 TAF: TATA box binding protein associated factor (TAF); InterPro: IPR004823 The TATA box binding protein associated factor (TAF) is part of the transcription initiation factor TFIID multimeric protein complex. TFIID plays a central role in mediating promoter responses to various activators and repressors. It binds tightly to TAFII-250 and directly interacts with TAFII-40. TFIID is composed of TATA binding protein (TBP)and a number of TBP-associated factors (TAFS). TAF proteins adopt a histone-like fold.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus; PDB: 1TAF_B.
Probab=90.50 E-value=0.76 Score=36.28 Aligned_cols=47 Identities=23% Similarity=0.355 Sum_probs=37.5
Q ss_pred CcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHH
Q psy3828 293 GVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 339 (365)
Q Consensus 293 gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvr 339 (365)
.++.++-..+-.=|..-...|..||.++++..||.+||..||..|.|
T Consensus 20 ~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di~~ALr 66 (66)
T PF02969_consen 20 NLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLTTDDINSALR 66 (66)
T ss_dssp -B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHH-
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHhC
Confidence 45677777777778888889999999999999999999999999976
No 61
>cd08050 TAF6 TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and are involved in forming Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs functions such as serving as
Probab=90.47 E-value=0.33 Score=48.78 Aligned_cols=58 Identities=22% Similarity=0.313 Sum_probs=51.2
Q ss_pred cccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhc--CcHHHHhh
Q psy3828 74 YAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR--NDEELNKL 131 (365)
Q Consensus 74 ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~--nDeEL~~L 131 (365)
-..|++..|...|+..+||...+|++.|.+.++..++++++++||+.|++ |.+.|.+.
T Consensus 13 Gi~~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~~~n~eplyG~ 72 (343)
T cd08050 13 GIDSLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALRLRNVEPLYGF 72 (343)
T ss_pred CCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHHhCCCcccCC
Confidence 45699999999999999999999999999999999999999999999987 45544443
No 62
>cd08050 TAF6 TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and are involved in forming Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs functions such as serving as
Probab=90.17 E-value=0.58 Score=47.01 Aligned_cols=49 Identities=20% Similarity=0.355 Sum_probs=46.0
Q ss_pred CcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHHh
Q psy3828 293 GVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLL 341 (365)
Q Consensus 293 gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrll 341 (365)
.+|.+|...+..-+.+....|+.||.++++..||+||+..||..|+|..
T Consensus 16 ~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~~~ 64 (343)
T cd08050 16 SLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALRLR 64 (343)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHHh
Confidence 5789999999999999999999999999999999999999999999863
No 63
>PF15510 CENP-W: Centromere kinetochore component W
Probab=89.94 E-value=0.33 Score=40.91 Aligned_cols=64 Identities=22% Similarity=0.362 Sum_probs=51.7
Q ss_pred hhhhhhhhhhcCCCCCcc--hhHH--------------HHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHHh
Q psy3828 278 AIYIYKVLKQVHPDTGVS--SKAM--------------SIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLL 341 (365)
Q Consensus 278 ~~YIykVLKQVhpd~gIS--skam--------------~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrll 341 (365)
..++.||+|+--|.+.+- ...| -=+|.++ +..|+|+||---|.-||..||....|+.|.+.+
T Consensus 19 rgfLkrv~Kr~KphlRl~~~~Dllv~~~~f~~~~~~~~vhLncLL--FvhrLAEEaRtnA~EnK~~~Ik~~Hv~AaaKvi 96 (102)
T PF15510_consen 19 RGFLKRVFKRQKPHLRLETSGDLLVRFCPFSGWQWGGEVHLNCLL--FVHRLAEEARTNACENKCGTIKKEHVLAAAKVI 96 (102)
T ss_pred hHHHHHHHHhcCCceeecccccHHHhhcccccccccceeehhHHH--HHHHHHHHHHHHHHHHhhccccHHHHHHHHHHH
Confidence 356888999888887663 3334 4456665 678999999999999999999999999999988
Q ss_pred Cc
Q psy3828 342 LP 343 (365)
Q Consensus 342 LP 343 (365)
|.
T Consensus 97 LK 98 (102)
T PF15510_consen 97 LK 98 (102)
T ss_pred HH
Confidence 75
No 64
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]
Probab=89.73 E-value=0.6 Score=41.07 Aligned_cols=60 Identities=20% Similarity=0.253 Sum_probs=52.7
Q ss_pred hhhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHH
Q psy3828 280 YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 339 (365)
Q Consensus 280 YIykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvr 339 (365)
-|.|.||.-.-.+.|+++|.--+...+..+--.|-+-|.+-|+-++++-|++|.||-|+|
T Consensus 31 rvkr~lk~~~~~~Rig~~A~Vyl~AvleYL~aEilelAgNaA~d~kkkri~PrHlqlAIr 90 (132)
T COG5262 31 RVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIPRHLQLAIR 90 (132)
T ss_pred HHHHHHHcCccceeecCCcHHHHHHHHHHHHHHHHHHhhhhhhhcCcceechHHHHHHhc
Confidence 388999977777889999988778888777788888888889999999999999999998
No 65
>PTZ00463 histone H2B; Provisional
Probab=89.22 E-value=0.69 Score=40.46 Aligned_cols=60 Identities=13% Similarity=0.191 Sum_probs=50.1
Q ss_pred hhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhc
Q psy3828 64 RIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 123 (365)
Q Consensus 64 RI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~ 123 (365)
.|++.|++-....-|+..|.-.|...+.=++..|-..|...|+-+++..|++++||.|++
T Consensus 33 YI~KVLKqVhPd~gIS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAvr 92 (117)
T PTZ00463 33 YIFKVLKQVHPDTGISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAIR 92 (117)
T ss_pred HHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHh
Confidence 699999997666677777777777777777777777788888889999999999999987
No 66
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=87.84 E-value=1.7 Score=34.56 Aligned_cols=48 Identities=8% Similarity=0.184 Sum_probs=42.9
Q ss_pred CcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHH
Q psy3828 293 GVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 340 (365)
Q Consensus 293 gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrl 340 (365)
.++..|++.|-.++.+.++.|+.++.+++...+|.+.+..||..|..-
T Consensus 23 ~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~ 70 (77)
T smart00576 23 SFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALEN 70 (77)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 467888888888888999999999999999999999999999988763
No 67
>KOG0870|consensus
Probab=86.97 E-value=2 Score=39.70 Aligned_cols=62 Identities=21% Similarity=0.306 Sum_probs=48.3
Q ss_pred hhhhhhhhcCCC--CCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHHh
Q psy3828 280 YIYKVLKQVHPD--TGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLL 341 (365)
Q Consensus 280 YIykVLKQVhpd--~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrll 341 (365)
-|-|+.|.+-|+ .+||.+|...|-.-..=+.--+..=|..+|+.++|+||+..||-.|.+-+
T Consensus 15 iI~rlvke~l~E~~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~Ei 78 (172)
T KOG0870|consen 15 IITRLVKEVLPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALDEI 78 (172)
T ss_pred HHHHHHHHhCccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHHHh
Confidence 477788888776 58999998777654433334566677789999999999999999999865
No 68
>smart00428 H3 Histone H3.
Probab=86.49 E-value=1 Score=38.66 Aligned_cols=67 Identities=25% Similarity=0.310 Sum_probs=56.2
Q ss_pred ccccchhhhhhhhhcC--Cc----ccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhc
Q psy3828 57 GLQFPVGRIHRLLRKG--NY----AERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 123 (365)
Q Consensus 57 gLqFPVsRI~RlLke~--~y----a~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~ 123 (365)
+|-+|-.-|.|+.++- .+ ..|+..+|-..|-.+.|..+.++.|-|..-|...++..|+|+++++|.+
T Consensus 27 ~lLI~k~pF~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi~La~r 99 (105)
T smart00428 27 DLLIRKAPFQRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQLARR 99 (105)
T ss_pred ccccccccHHHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhHHHHHH
Confidence 5667777777777661 12 3599999999999999999999999999889999999999999998853
No 69
>PLN00121 histone H3; Provisional
Probab=85.96 E-value=2.2 Score=38.29 Aligned_cols=67 Identities=19% Similarity=0.245 Sum_probs=53.4
Q ss_pred ccchhhhhhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHH
Q psy3828 274 KESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 340 (365)
Q Consensus 274 ~esy~~YIykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrl 340 (365)
+-.|...+..+.....++.-+.+.|+.-|.--..+..-.+-+++...+.+.||-||..+|||-|.||
T Consensus 65 k~pF~RLVREI~~~~~~~~Rf~~~Al~ALQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~ri 131 (136)
T PLN00121 65 KLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRI 131 (136)
T ss_pred cccHHHHHHHHHHHhCccceeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcceecchhhHHHHHHh
Confidence 3467777777777777888999999888766555555555558888899999999999999999875
No 70
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=84.89 E-value=2.1 Score=34.67 Aligned_cols=59 Identities=20% Similarity=0.315 Sum_probs=47.5
Q ss_pred hhhhhhhc--CCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHH
Q psy3828 281 IYKVLKQV--HPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 339 (365)
Q Consensus 281 IykVLKQV--hpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvr 339 (365)
+-|+..++ ..+..+|++.+.-|--++.+..+.+|.+---.|++.+|+||+..|+.-.+|
T Consensus 11 v~ki~ee~~~~~~~~~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~~dDV~Ll~R 71 (76)
T PF15630_consen 11 VGKIVEEEAKEKGVEVSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTINMDDVKLLAR 71 (76)
T ss_dssp HHHHHHHCCCCTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHTT
T ss_pred HHHHHHHHHhccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHHHhh
Confidence 44555555 466779999999999999999999999999999999999999999875544
No 71
>PTZ00018 histone H3; Provisional
Probab=84.53 E-value=2.8 Score=37.62 Aligned_cols=67 Identities=19% Similarity=0.245 Sum_probs=53.0
Q ss_pred ccchhhhhhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHH
Q psy3828 274 KESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 340 (365)
Q Consensus 274 ~esy~~YIykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrl 340 (365)
+-.|...+..+..+..++.-+.+.|+.-|.--..+..-.+-+++...+.+.||-||..+|||-|.||
T Consensus 65 k~pF~RLVREI~~~~~~~~rf~~~al~aLQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~ri 131 (136)
T PTZ00018 65 KLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRI 131 (136)
T ss_pred cccHHHHHHHHHHHcCCcceeeHHHHHHHHHHHHHHHHHHhhhhHHHHHhhcceecchhhHHHHHHh
Confidence 3467777777777777888999999888866555555555557888889999999999999999875
No 72
>PF09415 CENP-X: CENP-S associating Centromere protein X; InterPro: IPR018552 Centromere protein X (CENP-X) is a component of the CENP-S complex. The CENP-S complex is composed of at least of CENP-S and CENP-X and is essential for the stable assembly of the outer kinetchore []. CENP-X is also a DNA-binding component of the Fanconi anemia (FA) core complex involved in DNA damage repair and genome maintenance. The FA complex is composed of CENPS, FANCA, FANCB, FANCC, FANCE, FANCF, FANCG, FANCL/PHF9, FANCM, FAAP24 and CENPX. Interacts with CENPS, FANCM and FAAP24 [, ].; PDB: 4DRB_L 4DRA_H 3V9R_D.
Probab=84.44 E-value=2.8 Score=33.57 Aligned_cols=61 Identities=20% Similarity=0.229 Sum_probs=47.2
Q ss_pred chhhhhhhhhcC--CcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCcc-ccchhhhhh
Q psy3828 61 PVGRIHRLLRKG--NYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTR-IIPRHLQLA 121 (365)
Q Consensus 61 PVsRI~RlLke~--~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkr-ItP~hI~lA 121 (365)
|..-|.|+|+.. .-.-||+..|---++..|+-|+.|-+-.|...|++.+... |..+||+..
T Consensus 1 p~~li~rll~~~f~~~~tkIs~dal~l~~eyl~iFV~EAv~Ra~~~a~~e~~~~~le~e~LEki 64 (72)
T PF09415_consen 1 PPELIARLLHEHFKDDKTKISKDALKLSAEYLRIFVREAVARAAEQAEAEGDEGFLEVEHLEKI 64 (72)
T ss_dssp -CHHHHHHHCTTSSSTT-EE-CCCHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSEE-HHHHHHH
T ss_pred ChHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCHHHHHHH
Confidence 344567777752 3457999999999999999999999999999999999888 999999863
No 73
>KOG1756|consensus
Probab=84.43 E-value=2.5 Score=37.59 Aligned_cols=60 Identities=23% Similarity=0.282 Sum_probs=45.5
Q ss_pred hhhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHH
Q psy3828 280 YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 339 (365)
Q Consensus 280 YIykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvr 339 (365)
-|.|.||.-..-..|+.-|---|--.+..+--.|-+-|..-++-|++.-|++|.||-|++
T Consensus 32 ri~r~Lr~~~~~~ri~~gapV~laavLeYL~Aeile~agnaardnkk~ri~PrH~~lAI~ 91 (131)
T KOG1756|consen 32 RIHRLLRKGRYAQRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRITPRHLQLAIR 91 (131)
T ss_pred HHHHHHHccchhhhccCCChHHHHHHHHHHHHHHHHHhHHHhhhcCccccChHHHHHHHh
Confidence 488999997777888888876555544444444444556667889999999999999998
No 74
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=81.96 E-value=2.9 Score=33.22 Aligned_cols=58 Identities=17% Similarity=0.104 Sum_probs=49.1
Q ss_pred hhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhcC
Q psy3828 66 HRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRN 124 (365)
Q Consensus 66 ~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~n 124 (365)
-++|+.. =..+++.+|.-.|+-++|-.+.+|.+.+-+.|...|++..++.+|.+|+.+
T Consensus 13 aqil~~~-Gf~~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~ 70 (77)
T smart00576 13 AQILESA-GFDSFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALEN 70 (77)
T ss_pred HHHHHHc-CccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 3455552 346899999999999999999999999999999999999999999988754
No 75
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=79.91 E-value=4.4 Score=32.81 Aligned_cols=70 Identities=24% Similarity=0.360 Sum_probs=46.8
Q ss_pred ccccccchhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhH---HHhhcCCccccchhhhhhhcCcHHH
Q psy3828 55 RAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGN---AARDNKKTRIIPRHLQLAIRNDEEL 128 (365)
Q Consensus 55 RAgLqFPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn---~A~~~kkkrItP~hI~lAI~nDeEL 128 (365)
|+.|.+-|++|-. +. -...=-.-+|-|++|+.|-....+-.++.. .|+.-|++.|++.++.+..+.++.|
T Consensus 4 Kaal~~~v~ki~e---e~-~~~~~~~~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~~dDV~Ll~Rrn~~L 76 (76)
T PF15630_consen 4 KAALWYTVGKIVE---EE-AKEKGVEVSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTINMDDVKLLARRNPSL 76 (76)
T ss_dssp HHHHHHHHHHHHH---HC-CCCTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHTTT-HHH
T ss_pred HHHHHHHHHHHHH---HH-HhccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHHHhhcCCCC
Confidence 3456666666543 21 111111357899999999998888888764 3778899999999999999999876
No 76
>KOG1744|consensus
Probab=76.44 E-value=10 Score=33.74 Aligned_cols=64 Identities=20% Similarity=0.213 Sum_probs=45.6
Q ss_pred ccccchhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhc
Q psy3828 57 GLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 123 (365)
Q Consensus 57 gLqFPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~ 123 (365)
+..++|-| .|++-...-=|+..|.-.+-+.+--++..|...|+..|+-+++..|+.++|+.|++
T Consensus 38 ~~s~yv~k---vlk~Vhpd~gis~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta~r 101 (127)
T KOG1744|consen 38 SYSEYVYK---VLKQVHPDLGISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTAVR 101 (127)
T ss_pred ceeeehhh---hhhcccCCCCcCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHHHH
Confidence 44455544 66663322335666666666666666777888888889999999999999999875
No 77
>KOG3467|consensus
Probab=76.15 E-value=5 Score=33.80 Aligned_cols=84 Identities=29% Similarity=0.399 Sum_probs=54.7
Q ss_pred cCCCCCCCCCCCC-------CCCcccccccccchhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhc
Q psy3828 36 MSGRGKGGKAKAK-------SKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDN 108 (365)
Q Consensus 36 mSg~gkggk~~~k-------~~SrSsRAgLqFPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~ 108 (365)
||++|+++|.-.+ +.-+.+-.|++-|. |.|+-+.+ -..||+..----.-.++.-++.+++-.|...+...
T Consensus 1 Ms~r~~g~KG~~KG~AKrHRK~LsDnIqgitKpa--IRRlARr~-GVkRi~G~~yeE~~~~~k~fl~n~i~~A~~yt~HA 77 (103)
T KOG3467|consen 1 MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPA--IRRLARRG-GVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHA 77 (103)
T ss_pred CCCcCccccccccchHHHHHHHHHhhccccchHH--HHHHHHhc-CcchhchhhHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 7888776655333 22333445666776 77887775 34677654433355555556677788887777778
Q ss_pred CCccccchhhhhhh
Q psy3828 109 KKTRIIPRHLQLAI 122 (365)
Q Consensus 109 kkkrItP~hI~lAI 122 (365)
+++.||..++-.++
T Consensus 78 KRKTvT~~dvv~~L 91 (103)
T KOG3467|consen 78 KRKTVTAMDVVYAL 91 (103)
T ss_pred hhceeeHHHHHHHH
Confidence 88899988887654
No 78
>PLN00161 histone H3; Provisional
Probab=75.60 E-value=9.8 Score=34.17 Aligned_cols=66 Identities=17% Similarity=0.226 Sum_probs=47.7
Q ss_pred cchhhhhhhhhhhcCC-CCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHH
Q psy3828 275 ESYAIYIYKVLKQVHP-DTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 340 (365)
Q Consensus 275 esy~~YIykVLKQVhp-d~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrl 340 (365)
-.|+.-+..+..+..+ +.-+.+.|+.-|.--..+..-.+-+++.-.+.+.||-||..+|||-|.||
T Consensus 59 lPF~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm~La~ri 125 (135)
T PLN00161 59 LPFARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDMQLARRI 125 (135)
T ss_pred ccHHHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhHHHHHHh
Confidence 3455555555555444 57888999877765555444445557778889999999999999999885
No 79
>PLN00160 histone H3; Provisional
Probab=71.92 E-value=14 Score=31.46 Aligned_cols=67 Identities=16% Similarity=0.188 Sum_probs=47.5
Q ss_pred ccchhhhhhhhhhhcCC-CCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHH
Q psy3828 274 KESYAIYIYKVLKQVHP-DTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 340 (365)
Q Consensus 274 ~esy~~YIykVLKQVhp-d~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrl 340 (365)
+-.|+.-+..+.....+ +.-+.+.|+.-+.--..+..-.+=+++...+.+.||-||.++|||-|.|+
T Consensus 24 k~pF~RLVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~~L~~ri 91 (97)
T PLN00160 24 RLPFARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDMQLARRI 91 (97)
T ss_pred cccHHHHHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhHHHHHHh
Confidence 44566666665544433 37788888877765555444444557777888999999999999999874
No 80
>KOG2549|consensus
Probab=69.70 E-value=11 Score=40.77 Aligned_cols=59 Identities=20% Similarity=0.282 Sum_probs=48.6
Q ss_pred hhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHHh
Q psy3828 283 KVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLL 341 (365)
Q Consensus 283 kVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrll 341 (365)
|++-|----..|+.++-.++---|..=.+.|+.||+++.+..||.++|..||.-|.|..
T Consensus 18 k~vAEslGi~nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~ALr~~ 76 (576)
T KOG2549|consen 18 KVVAESLGITNLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYALRSL 76 (576)
T ss_pred HHHHHHhCccccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHHHhhc
Confidence 34444333344678888888888888899999999999999999999999999999864
No 81
>PF03847 TFIID_20kDa: Transcription initiation factor TFIID subunit A; InterPro: IPR003228 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription [].; GO: 0006352 transcription initiation, DNA-dependent, 0005669 transcription factor TFIID complex; PDB: 1H3O_B.
Probab=69.17 E-value=7.3 Score=30.80 Aligned_cols=61 Identities=15% Similarity=0.307 Sum_probs=47.5
Q ss_pred hhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhcC
Q psy3828 64 RIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRN 124 (365)
Q Consensus 64 RI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~n 124 (365)
++..++++-.-...+...+.-.|.-+-+=|+..|++.|...|+..+...+.+++|++.+..
T Consensus 4 ~l~~Lv~~iDp~~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~tle~~Dv~~~Ler 64 (68)
T PF03847_consen 4 KLQELVKQIDPNEKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSSTLEVKDVQLHLER 64 (68)
T ss_dssp HHHHHHHCC-SS----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHHHH
T ss_pred HHHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHHh
Confidence 4667777766677888999999999999999999999999999999999999999987654
No 82
>PF07524 Bromo_TP: Bromodomain associated; InterPro: IPR006565 This bromodomain is found in eukaryotic transcription factors and PHD domain containing proteins (IPR001965 from INTERPRO). The tandem PHD finger-bromodomain is found in many chromatin-associated proteins. It is involved in gene silencing by the human co-repressor KRAB-associated protein 1 (KAP1). The tandem PHD finger-bromodomain of KAP1 has a distinct structure that joins the two protein modules. The first helix, alpha(Z), of an atypical bromodomain forms the central hydrophobic core that anchors the other three helices of the bromodomain on one side and the zinc binding PHD finger on the other []. The Rap1 GTPase-activating protein, Sipa1, is modulated by the cellular bromodomain protein, Brd4. Brd4 belongs to the BET family and is a multifunctional protein involved in transcription, replication, the signal transduction pathway, and cell cycle progression. All of these functions are linked to its association with acetylated chromatin. It has tandem bromodomains []. The dysregulation of the Brd4-associated pathways may play an important role in breast cancer progression []. Bovine papillomavirus type 1 E2 also binds to chromosomes in a complex with Brd4. Interaction with Brd4 is additionally important for E2-mediated transcriptional regulation [, ].
Probab=67.69 E-value=18 Score=28.38 Aligned_cols=48 Identities=13% Similarity=0.293 Sum_probs=43.8
Q ss_pred CCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHH
Q psy3828 292 TGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 339 (365)
Q Consensus 292 ~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvr 339 (365)
.+++..|++.+..++.+.++.|+..+.+.+...+|...+..||..|..
T Consensus 22 ~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~ 69 (77)
T PF07524_consen 22 DSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQALE 69 (77)
T ss_pred cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 357899999999999999999999999999999999999999998875
No 83
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T.
Probab=66.42 E-value=8.5 Score=39.88 Aligned_cols=54 Identities=17% Similarity=0.262 Sum_probs=40.1
Q ss_pred hhhhhhhhc-----CCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhH
Q psy3828 280 YIYKVLKQV-----HPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSRE 333 (365)
Q Consensus 280 YIykVLKQV-----hpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~Titsre 333 (365)
+|.|++... +-.+.|+++||..+.......||.|+..=.-.|.+.+|+||...|
T Consensus 356 ~vK~la~~~ak~s~~sK~kiskdal~aleqasdwfFeQl~dDL~aYA~HAgRKTIdesD 414 (414)
T PF15511_consen 356 VVKKLAQHFAKSSGGSKMKISKDALEALEQASDWFFEQLGDDLEAYAKHAGRKTIDESD 414 (414)
T ss_dssp HHHHHHHHHH-------S-B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHH
T ss_pred HHHHHHHHHHHhhcccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCCCC
Confidence 444444443 356889999999999999999999999999999999999998654
No 84
>KOG0871|consensus
Probab=64.80 E-value=12 Score=34.23 Aligned_cols=69 Identities=19% Similarity=0.336 Sum_probs=50.4
Q ss_pred ccccccchhhhhhhhhcCCc-ccccCCChh-HHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhcC
Q psy3828 55 RAGLQFPVGRIHRLLRKGNY-AERVGAGAP-VYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRN 124 (365)
Q Consensus 55 RAgLqFPVsRI~RlLke~~y-a~RVs~~Ap-VYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~n 124 (365)
.-.+.+|=.-|.+++++.-. ..||...|- +++..++||+ --|---|...|....++.|.|+|+..|+.|
T Consensus 8 dde~sLPkAtv~KmIke~lP~d~rvakeareliincCvEFI-~liSsEAneic~~e~KKTIa~EHV~KALe~ 78 (156)
T KOG0871|consen 8 DDELSLPKATVNKMIKEMLPKDVRVAKEARELIINCCVEFI-NLISSEANEICNKEAKKTIAPEHVIKALEN 78 (156)
T ss_pred cccccCcHHHHHHHHHHhCCcccccchHHHHHHHHHHHHHH-HHHHHHHHHHHhHHhcccCCHHHHHHHHHH
Confidence 34778898889999998655 578886655 5566666664 334444555677778889999999999875
No 85
>PF02269 TFIID-18kDa: Transcription initiation factor IID, 18kD subunit; InterPro: IPR003195 This family includes the Spt3 yeast transcription factors and the 18 kDa subunit from human transcription initiation factor IID (TFIID-18). Determination of the crystal structure reveals an atypical histone fold [].; GO: 0006366 transcription from RNA polymerase II promoter; PDB: 1BH9_A 1BH8_A.
Probab=59.57 E-value=12 Score=31.16 Aligned_cols=47 Identities=11% Similarity=0.212 Sum_probs=23.2
Q ss_pred cchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHH
Q psy3828 294 VSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 340 (365)
Q Consensus 294 ISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrl 340 (365)
-..++..+|..+|.+-.--+..+|.++|...++..|+..||-.++|-
T Consensus 20 P~~eTv~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR~ 66 (93)
T PF02269_consen 20 PLPETVDLVEDIVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLRK 66 (93)
T ss_dssp --HHHHHHHHHHHHHHHHHHHHHHHC---------------------
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHhc
Confidence 46789999999999999999999999999999999999999998873
No 86
>KOG0869|consensus
Probab=57.39 E-value=18 Score=33.39 Aligned_cols=65 Identities=15% Similarity=0.224 Sum_probs=46.9
Q ss_pred ccchhhhhhhhhcCCc-ccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhc
Q psy3828 59 QFPVGRIHRLLRKGNY-AERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 123 (365)
Q Consensus 59 qFPVsRI~RlLke~~y-a~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~ 123 (365)
-+|+.-|-|+||+.-. ..+|+.+|--.+--++--|++=|---|...+...++|.|+-.+|-+|+.
T Consensus 32 ~LPIANV~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~ 97 (168)
T KOG0869|consen 32 FLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMS 97 (168)
T ss_pred hccHHHHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHH
Confidence 4899999999999643 4799998887655444333344444444455666888999999999886
No 87
>cd08048 TAF11 TATA Binding Protein (TBP) Associated Factor 11 (TAF11) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 11 (TAF11) is one of several TAFs that bind TBP and are involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAF orthologs and paralogs. Several hypothes
Probab=57.29 E-value=43 Score=27.58 Aligned_cols=60 Identities=17% Similarity=0.246 Sum_probs=48.6
Q ss_pred hhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCC---cccChhHHHHHHHHh
Q psy3828 281 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKR---STITSREIQTAVRLL 341 (365)
Q Consensus 281 IykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr---~TitsreIqtAvrll 341 (365)
|.|+..++-. ..++.....+|..+-.-+.-.|.++|..+...... ..|.++.|..|.|.+
T Consensus 22 iKr~~~~~~~-~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~HireA~rrl 84 (85)
T cd08048 22 IKRLIQSVTG-QSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHLREAYRRL 84 (85)
T ss_pred HHHHHHHHcC-CCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHHHHHHHHh
Confidence 6666777654 77888888888877777778899999998877555 899999999999975
No 88
>cd07978 TAF13 The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAFs orthologs and paralogs. Several hy
Probab=54.88 E-value=21 Score=29.77 Aligned_cols=39 Identities=18% Similarity=0.348 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHhHHHhh--cCCccccchhhhhhhcCcHH
Q psy3828 89 VMEYLAAEVLELAGNAARD--NKKTRIIPRHLQLAIRNDEE 127 (365)
Q Consensus 89 VLEYLtaEILELAgn~A~~--~kkkrItP~hI~lAI~nDeE 127 (365)
+=|.++..|.+++-+++.. .++.+|+++++..+|++|+.
T Consensus 29 lE~iv~~~i~~l~~~a~~~A~~r~~k~~~eD~~FliR~D~~ 69 (92)
T cd07978 29 LEDIVVEYIIELCHKAAEVAQRRRGKVKVEDLIFLLRKDPK 69 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHhcCHH
Confidence 3344445566665444322 46777899999999999975
No 89
>PF02291 TFIID-31kDa: Transcription initiation factor IID, 31kD subunit; InterPro: IPR003162 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription []. TAFII-31 protein is a transcriptional coactivator of the p53 protein [].; GO: 0006352 transcription initiation, DNA-dependent; PDB: 1TAF_A.
Probab=52.19 E-value=27 Score=31.01 Aligned_cols=60 Identities=22% Similarity=0.300 Sum_probs=41.3
Q ss_pred hhhhhhhhhcCCCCCcc---hhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHHhC
Q psy3828 279 IYIYKVLKQVHPDTGVS---SKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLL 342 (365)
Q Consensus 279 ~YIykVLKQVhpd~gIS---skam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrllL 342 (365)
..|..+||. .||+ .+....|--|+.--.-.|-.+|...+.+.++.+|+..||+.|+..-+
T Consensus 16 ~~i~~iL~~----~Gv~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~~~DVrLAi~~r~ 78 (129)
T PF02291_consen 16 RVIHLILKS----MGVTEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTIDADDVRLAIQSRL 78 (129)
T ss_dssp HHHHHHHHH----TT---B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHHHHT-
T ss_pred HHHHHHHHH----cCCcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHH
Confidence 345555554 4663 55566666666666667778899999999999999999999998654
No 90
>PF02861 Clp_N: Clp amino terminal domain; InterPro: IPR004176 This short domain is found in one or two copies at the amino terminus of ClpA and ClpB proteins from bacteria and eukaryotes. The function of these domains is uncertain but they may form a protein binding site []. The proteins are thought to be subunits of ATP-dependent proteases which act as chaperones to target the proteases to substrates.; GO: 0019538 protein metabolic process; PDB: 3FH2_A 3ZRJ_A 3ZRI_A 1QVR_C 3FES_C 2Y1R_F 3PXG_D 2Y1Q_A 3PXI_C 2K77_A ....
Probab=50.64 E-value=8.7 Score=27.14 Aligned_cols=34 Identities=32% Similarity=0.431 Sum_probs=26.0
Q ss_pred HhHHHhhcCCccccchhhhhhhcCcH--HHHhhhcC
Q psy3828 101 AGNAARDNKKTRIIPRHLQLAIRNDE--ELNKLLSG 134 (365)
Q Consensus 101 Agn~A~~~kkkrItP~hI~lAI~nDe--EL~~Lf~~ 134 (365)
|-+.|+..+...|+|+||-+|+-.++ ....+|+.
T Consensus 1 A~~~A~~~~~~~i~~eHlL~all~~~~~~~~~il~~ 36 (53)
T PF02861_consen 1 AQELARERGHQYISPEHLLLALLEDPDSIAARILKK 36 (53)
T ss_dssp HHHHHHHTTBSSE-HHHHHHHHHHHTTSHHHHHHHH
T ss_pred CHHHHHHcCCCcccHHHHHHHHHhhhhHHHHHHHHH
Confidence 34668888999999999999987765 77777753
No 91
>KOG0870|consensus
Probab=50.03 E-value=27 Score=32.54 Aligned_cols=67 Identities=18% Similarity=0.265 Sum_probs=50.3
Q ss_pred cccccchhhhhhhhhcCCcc---cccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhc
Q psy3828 56 AGLQFPVGRIHRLLRKGNYA---ERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 123 (365)
Q Consensus 56 AgLqFPVsRI~RlLke~~ya---~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~ 123 (365)
.-|-||-+-|-|+.++- +. --|+..|...++-.-=-|+..+..-|.+.|++++++.|++.++-.|+.
T Consensus 7 ~dl~lP~AiI~rlvke~-l~E~~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~ 76 (172)
T KOG0870|consen 7 EDLNLPNAIITRLVKEV-LPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALD 76 (172)
T ss_pred HHhhccHHHHHHHHHHh-CccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHH
Confidence 35779999999887773 33 235666666665555556677778888999999999999999988875
No 92
>PF02269 TFIID-18kDa: Transcription initiation factor IID, 18kD subunit; InterPro: IPR003195 This family includes the Spt3 yeast transcription factors and the 18 kDa subunit from human transcription initiation factor IID (TFIID-18). Determination of the crystal structure reveals an atypical histone fold [].; GO: 0006366 transcription from RNA polymerase II promoter; PDB: 1BH9_A 1BH8_A.
Probab=49.70 E-value=18 Score=30.08 Aligned_cols=42 Identities=19% Similarity=0.317 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHHHHHHh---HHHhhcCCccccchhhhhhhcCcHH
Q psy3828 86 LAAVMEYLAAEVLELAG---NAARDNKKTRIIPRHLQLAIRNDEE 127 (365)
Q Consensus 86 LaAVLEYLtaEILELAg---n~A~~~kkkrItP~hI~lAI~nDeE 127 (365)
...+-|+++.+|.++.- +.|...|+++|+++|+..++++|+.
T Consensus 25 v~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR~D~~ 69 (93)
T PF02269_consen 25 VDLVEDIVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLRKDPK 69 (93)
T ss_dssp HHHHHHHHHHHHHHHHHHHHC------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHhcCHH
Confidence 34455666666666654 4466667789999999999999975
No 93
>cd07978 TAF13 The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAFs orthologs and paralogs. Several hy
Probab=48.59 E-value=51 Score=27.49 Aligned_cols=46 Identities=9% Similarity=0.273 Sum_probs=40.0
Q ss_pred cchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHH
Q psy3828 294 VSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 340 (365)
Q Consensus 294 ISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrl 340 (365)
-..++..+|..+|.+-.-.|..+|..+|. .++.-++..|+-.++|-
T Consensus 21 P~~eTv~llE~iv~~~i~~l~~~a~~~A~-~r~~k~~~eD~~FliR~ 66 (92)
T cd07978 21 PLPETVDLLEDIVVEYIIELCHKAAEVAQ-RRRGKVKVEDLIFLLRK 66 (92)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHHHhc
Confidence 46789999999999999999999999998 55556699999999873
No 94
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T.
Probab=44.49 E-value=25 Score=36.55 Aligned_cols=72 Identities=13% Similarity=0.147 Sum_probs=41.5
Q ss_pred CCCCCCcccccccccchhhhhhhhhc----CCcc-cccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchh
Q psy3828 46 KAKSKTRSSRAGLQFPVGRIHRLLRK----GNYA-ERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 117 (365)
Q Consensus 46 ~~k~~SrSsRAgLqFPVsRI~RlLke----~~ya-~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~h 117 (365)
++++.+|-.-.+-.+|.+-|++++.. +.|+ .+|+..|---|.-++||++..+-+=-.-+|+..|+|.|.+.+
T Consensus 338 k~~k~Skhgi~~P~lP~~~vK~la~~~ak~s~~sK~kiskdal~aleqasdwfFeQl~dDL~aYA~HAgRKTIdesD 414 (414)
T PF15511_consen 338 KQKKVSKHGIPYPSLPPGVVKKLAQHFAKSSGGSKMKISKDALEALEQASDWFFEQLGDDLEAYAKHAGRKTIDESD 414 (414)
T ss_dssp --------------S-HHHHHHHHHHHH-------S-B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHH
T ss_pred cccCCCCCCCCCCCCCccHHHHHHHHHHHhhcccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCCCC
Confidence 44556666566677888888888765 2333 799999999999999999999887666778888999998754
No 95
>KOG1658|consensus
Probab=43.72 E-value=23 Score=32.65 Aligned_cols=75 Identities=19% Similarity=0.202 Sum_probs=61.0
Q ss_pred cccchhhhhhhhhcCCcccccCCChhHH-HHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhcCcHHHHhhhc
Q psy3828 58 LQFPVGRIHRLLRKGNYAERVGAGAPVY-LAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLS 133 (365)
Q Consensus 58 LqFPVsRI~RlLke~~ya~RVs~~ApVY-LaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~nDeEL~~Lf~ 133 (365)
+++|..||+.+++.. .-.++.....++ ++-.-|-++.++-..++..+...+++.+.-+++..||..-.|+.++-.
T Consensus 58 ~rLpL~rik~vvkl~-pdl~l~~dea~~l~a~aaelfi~~Ln~~~~~~~q~~k~kt~qr~d~D~ai~~~de~~fle~ 133 (162)
T KOG1658|consen 58 SRLPLARIKQVVKLD-PDLTLLNDEASQLIAKAAELFIQELNDVAYTTAQLRKRKTEQRRDYDTAIEAVDEFAFLEG 133 (162)
T ss_pred hhccHHHHHhhccCC-cchhhhhhHHHHHHHHHHHHHHHHHHhccchhHHHHHhhhhhhhcccccccchHHHHHHhh
Confidence 679999999999885 444555555554 677889899999998988888888888999999999999999888854
No 96
>PF02291 TFIID-31kDa: Transcription initiation factor IID, 31kD subunit; InterPro: IPR003162 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription []. TAFII-31 protein is a transcriptional coactivator of the p53 protein [].; GO: 0006352 transcription initiation, DNA-dependent; PDB: 1TAF_A.
Probab=42.72 E-value=54 Score=29.08 Aligned_cols=59 Identities=25% Similarity=0.326 Sum_probs=41.5
Q ss_pred hhhhhhhhcCCcccccCCChhHHHHHHHHHH---HHHHHHHHhHHHhhcCCccccchhhhhhhcCc
Q psy3828 63 GRIHRLLRKGNYAERVGAGAPVYLAAVMEYL---AAEVLELAGNAARDNKKTRIIPRHLQLAIRND 125 (365)
Q Consensus 63 sRI~RlLke~~ya~RVs~~ApVYLaAVLEYL---taEILELAgn~A~~~kkkrItP~hI~lAI~nD 125 (365)
--|+-+|++.. |.++-|-...-.|||. +.+||+-|-..|...++..|+..++++||..-
T Consensus 16 ~~i~~iL~~~G----v~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~~~DVrLAi~~r 77 (129)
T PF02291_consen 16 RVIHLILKSMG----VTEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTIDADDVRLAIQSR 77 (129)
T ss_dssp HHHHHHHHHTT-------B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHHHHT
T ss_pred HHHHHHHHHcC----CcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHH
Confidence 34777888853 3455666667777775 56788889888988999999999999999843
No 97
>PF04719 TAFII28: hTAFII28-like protein conserved region; InterPro: IPR006809 The general transcription factor, TFIID, consists of the TATA-binding protein (TBP) associated with a series of TBP-associated factors (TAFs) that together participate in the assembly of the transcription preinitiation complex. The conserved region is found at the C terminus of most member proteins. The crystal structure of hTAFII28 with hTAFII18 shows that this region is involved in the binding of these two subunits. The conserved region contains four alpha helices and three loops arranged as in histone H3 [, ].; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005634 nucleus; PDB: 1BH9_B 1BH8_B.
Probab=40.88 E-value=92 Score=26.06 Aligned_cols=62 Identities=18% Similarity=0.246 Sum_probs=41.6
Q ss_pred hhhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhc-CCCcccChhHHHHHHHHh
Q psy3828 280 YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHY-NKRSTITSREIQTAVRLL 341 (365)
Q Consensus 280 YIykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~-nkr~TitsreIqtAvrll 341 (365)
-|.|+..++-.+..+|....-+|..+-.=+.-.|.++|-.+..- +....|.+.+|..|.|-|
T Consensus 28 ~ikkli~~~~~~qsv~~~v~i~v~g~aKvFVGEiVE~A~~Vq~~~~~~~pl~P~hlreA~rrL 90 (90)
T PF04719_consen 28 AIKKLINQVLGNQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGETGPLQPDHLREAYRRL 90 (90)
T ss_dssp HHHHHHHHHHS-S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SS--HHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHHhC
Confidence 48888999887788888888788777766667777777777654 334589999999998853
No 98
>KOG1142|consensus
Probab=40.87 E-value=39 Score=33.41 Aligned_cols=67 Identities=10% Similarity=0.220 Sum_probs=59.3
Q ss_pred cchhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhcCcH
Q psy3828 60 FPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDE 126 (365)
Q Consensus 60 FPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~nDe 126 (365)
.-.-+++.+|++-.-...|...+--+|.-+-|=|+..|...++..|+..++..|..++|++.+.++-
T Consensus 155 l~k~kl~dLvqqId~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhLEr~~ 221 (258)
T KOG1142|consen 155 LSKRKLDDLVQQIDGTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHLERNF 221 (258)
T ss_pred ccccchhHHHHhhcCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeeeeccc
Confidence 4456788888886566788999999999999999999999999999999999999999999998873
No 99
>KOG3334|consensus
Probab=38.63 E-value=66 Score=29.40 Aligned_cols=59 Identities=12% Similarity=0.316 Sum_probs=41.5
Q ss_pred hhhhhcCCCCCcch---hHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHHh
Q psy3828 283 KVLKQVHPDTGVSS---KAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLL 341 (365)
Q Consensus 283 kVLKQVhpd~gISs---kam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrll 341 (365)
||+.++-.+.||.. +-...|=-|-.----.|-..|.-.+.+.++.||+..||+.|++..
T Consensus 17 ~~i~~iL~s~GI~eyEprVi~qlLefa~rYtt~vL~DA~vys~HA~ka~i~~eDVrlA~~~~ 78 (148)
T KOG3334|consen 17 RVIASILKSLGIQEYEPRVINQLLEFAYRYTTTVLDDAKVYSSHAKKATIDAEDVRLAIQMR 78 (148)
T ss_pred HHHHHHHHHcCccccChHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCcHHHHHHHHHHH
Confidence 34444444567754 333444444444445788899999999999999999999999865
No 100
>COG5251 TAF40 Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=34.88 E-value=37 Score=31.97 Aligned_cols=64 Identities=20% Similarity=0.270 Sum_probs=46.9
Q ss_pred cchhhhhhhhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhh-cCCccccchhhhhhhcC
Q psy3828 60 FPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARD-NKKTRIIPRHLQLAIRN 124 (365)
Q Consensus 60 FPVsRI~RlLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~-~kkkrItP~hI~lAI~n 124 (365)
||-..|+++.-. ...+-|+..-.|||.++---++.||+|||...-.. .-.....|.|++.|++-
T Consensus 116 lnKt~VKKlast-V~nQtVspNi~I~l~g~~KVfvGEiIElA~~Vq~~w~~sgpl~p~h~reayr~ 180 (199)
T COG5251 116 LNKTQVKKLAST-VANQTVSPNIRIFLQGVGKVFVGEIIELAMIVQNKWLTSGPLIPFHKREAYRY 180 (199)
T ss_pred CCHHHHHHHHHH-HhccccCCCeeeeeechhHHHHHHHHHHHHHHHHHhcccCCCChHHHHHHHHH
Confidence 444455554443 35578888999999999999999999999765322 23456889999988763
No 101
>PF14687 DUF4460: Domain of unknown function (DUF4460)
Probab=34.52 E-value=39 Score=29.14 Aligned_cols=37 Identities=22% Similarity=0.401 Sum_probs=30.2
Q ss_pred chhhhhhhhhhhcCCCCC--------cchhHHHHHHhHHHHHHHH
Q psy3828 276 SYAIYIYKVLKQVHPDTG--------VSSKAMSIMNSFVNDIFER 312 (365)
Q Consensus 276 sy~~YIykVLKQVhpd~g--------ISskam~ImnSfvnDifer 312 (365)
.....+....++||||+= +-.+++.++|+++..+..+
T Consensus 10 ~l~~aLr~Fy~~VHPDlF~~~P~~k~~Ne~SLk~Ln~~Ld~l~~~ 54 (112)
T PF14687_consen 10 DLRSALRPFYFAVHPDLFGQHPEEKQVNEESLKLLNSYLDSLKKR 54 (112)
T ss_pred HHHHHHHHHHHHhCCcccccChHHHHhhHHHHHHHHHHHHHHhcc
Confidence 346778888899999942 6688899999999888875
No 102
>PLN00160 histone H3; Provisional
Probab=33.55 E-value=50 Score=28.10 Aligned_cols=67 Identities=27% Similarity=0.252 Sum_probs=52.7
Q ss_pred ccccchhhhhhhhhcC--Cc---ccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhc
Q psy3828 57 GLQFPVGRIHRLLRKG--NY---AERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 123 (365)
Q Consensus 57 gLqFPVsRI~RlLke~--~y---a~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~ 123 (365)
+|-+|-.-|.|+.++- .+ ..|...+|-..|--+-|..+-.++|-+.--|...++..|.|+|++++.+
T Consensus 19 ~lLI~k~pF~RLVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~~L~~r 90 (97)
T PLN00160 19 DLLIRRLPFARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDMQLARR 90 (97)
T ss_pred hhhhccccHHHHHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhHHHHHH
Confidence 5666776677776662 12 3688888888888888999999999887778778888999999998843
No 103
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=31.28 E-value=51 Score=33.97 Aligned_cols=63 Identities=24% Similarity=0.368 Sum_probs=48.0
Q ss_pred hhhhhhhhhcCCCCCcchhHHHHHHhHHHHHH---HHHHHHHhhhhhcCCCcccChhHHHHHHHHh
Q psy3828 279 IYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIF---ERIAAESSRLAHYNKRSTITSREIQTAVRLL 341 (365)
Q Consensus 279 ~YIykVLKQVhpd~gISskam~ImnSfvnDif---erIa~EAs~La~~nkr~TitsreIqtAvrll 341 (365)
.+-..-+|.|-.-.||+.-+=+.+.-+..|+= ..|..||+++....||..||..||..|.|-+
T Consensus 5 ~ws~et~KdvAeslGi~Ni~Dd~l~alamDlEYRI~ev~qea~KFmvhSKRtvLt~dDis~ALr~l 70 (450)
T COG5095 5 LWSKETLKDVAESLGISNIDDDALRALAMDLEYRIKEVCQEASKFMVHSKRTVLTIDDISYALRSL 70 (450)
T ss_pred eecHHHHHHHHHHcCCcccccHHHHHHHHhHHHHHHHHHHHHHHHhhcccceeeeHHhHHHHHHhc
Confidence 33345677777778888665555555555554 4468899999999999999999999999965
No 104
>PLN00121 histone H3; Provisional
Probab=31.16 E-value=71 Score=28.78 Aligned_cols=66 Identities=24% Similarity=0.247 Sum_probs=53.9
Q ss_pred ccccchhhhhhhhhcC--C--cccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhh
Q psy3828 57 GLQFPVGRIHRLLRKG--N--YAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAI 122 (365)
Q Consensus 57 gLqFPVsRI~RlLke~--~--ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI 122 (365)
+|-||-.-|.|+.++- . ...|+...|-..|--+-|..+-.++|-+.--|...++..|.|+|++++.
T Consensus 60 ~lLI~k~pF~RLVREI~~~~~~~~Rf~~~Al~ALQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~ 129 (136)
T PLN00121 60 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAR 129 (136)
T ss_pred ccccccccHHHHHHHHHHHhCccceeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcceecchhhHHHHH
Confidence 6677777788887762 1 2368888999999999999999999999777877888899999999884
No 105
>TIGR02442 Cob-chelat-sub cobaltochelatase subunit. A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.
Probab=31.00 E-value=1.2e+02 Score=33.21 Aligned_cols=61 Identities=18% Similarity=0.341 Sum_probs=45.5
Q ss_pred hhcCCCCCcchhHHHHHHhHHHHH-------HHHHHHHHhhhhhcCCCcccChhHHHHHHHHhCcHHH
Q psy3828 286 KQVHPDTGVSSKAMSIMNSFVNDI-------FERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGEL 346 (365)
Q Consensus 286 KQVhpd~gISskam~ImnSfvnDi-------ferIa~EAs~La~~nkr~TitsreIqtAvrllLPgeL 346 (365)
++..|+..|+.+.+..+..+...+ ...+..=|--+|..+++.+++..||+.|++|+|+.-+
T Consensus 242 r~~~~~V~is~~~~~~l~~~~~~~~i~s~Ra~i~~~r~Ara~AaL~gr~~V~~~Dv~~A~~lvL~hR~ 309 (633)
T TIGR02442 242 RSLLPSVRISDSLIRFISELCIEFGVDGHRADIVMARAARALAALDGRRRVTAEDVREAAELVLPHRR 309 (633)
T ss_pred HHhCCCCCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHHHhhhhc
Confidence 345677788888777766666443 1334455557888999999999999999999998755
No 106
>PLN00161 histone H3; Provisional
Probab=30.17 E-value=73 Score=28.70 Aligned_cols=67 Identities=27% Similarity=0.253 Sum_probs=52.8
Q ss_pred ccccchhhhhhhhhcC--Cc---ccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhc
Q psy3828 57 GLQFPVGRIHRLLRKG--NY---AERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 123 (365)
Q Consensus 57 gLqFPVsRI~RlLke~--~y---a~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~ 123 (365)
+|-+|-.-|.|+.++- .+ ..|+...|-..|--+-|..+-.++|-+.--|...++..|.|+||+++.+
T Consensus 53 ~lLIpklPF~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm~La~r 124 (135)
T PLN00161 53 ELLIRKLPFARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDMQLARR 124 (135)
T ss_pred ccccccccHHHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhHHHHHH
Confidence 5667777777777662 12 3688888888888888988899999987777778888999999998843
No 107
>PTZ00018 histone H3; Provisional
Probab=29.57 E-value=67 Score=28.94 Aligned_cols=66 Identities=24% Similarity=0.240 Sum_probs=54.0
Q ss_pred ccccchhhhhhhhhcC----CcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhh
Q psy3828 57 GLQFPVGRIHRLLRKG----NYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAI 122 (365)
Q Consensus 57 gLqFPVsRI~RlLke~----~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI 122 (365)
+|-||-.-|.|+.++- ....|+...|-..|--+-|..+..++|-+.--|...++..|.|+|++++.
T Consensus 60 ~lLI~k~pF~RLVREI~~~~~~~~rf~~~al~aLQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~ 129 (136)
T PTZ00018 60 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAR 129 (136)
T ss_pred hhccccccHHHHHHHHHHHcCCcceeeHHHHHHHHHHHHHHHHHHhhhhHHHHHhhcceecchhhHHHHH
Confidence 6667777778887762 12358888999999999999999999999877888888899999999884
No 108
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]
Probab=29.45 E-value=67 Score=31.37 Aligned_cols=58 Identities=29% Similarity=0.336 Sum_probs=42.8
Q ss_pred hhhhhhhcCCCCCcchhHHHHHHhHHHHHH-HHHHHHHhhhhhcCCCcccChhHHHHHHH
Q psy3828 281 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIF-ERIAAESSRLAHYNKRSTITSREIQTAVR 339 (365)
Q Consensus 281 IykVLKQVhpd~gISskam~ImnSfvnDif-erIa~EAs~La~~nkr~TitsreIqtAvr 339 (365)
|.||.|-------||++|=-+ =+.+..|| +.+...|-.-+..|||.||-.-||-.||.
T Consensus 115 IkkvMKtdedVkMisaEaPvl-Fak~~EiFI~ELTmRAW~~ae~NkRRtLQksDia~Av~ 173 (286)
T COG5208 115 IKKVMKTDEDVKMISAEAPVL-FAKITEIFIEELTMRAWINAEENKRRTLQKSDIAAAVK 173 (286)
T ss_pred HHHHHhcccchhheecccchH-HHHHHHHHHHHHHHHHHHHHhHhhhhHHHHHHHHHHHH
Confidence 777777543334578776443 33444444 77888899999999999999999999986
No 109
>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=29.44 E-value=63 Score=29.12 Aligned_cols=67 Identities=16% Similarity=0.257 Sum_probs=39.7
Q ss_pred ccccchhhhhhhhhcCC--cccccCCChhHHHHHHHHHHHHHHHHH-HhHHHhhcCCccccchhhhhhhcCc
Q psy3828 57 GLQFPVGRIHRLLRKGN--YAERVGAGAPVYLAAVMEYLAAEVLEL-AGNAARDNKKTRIIPRHLQLAIRND 125 (365)
Q Consensus 57 gLqFPVsRI~RlLke~~--ya~RVs~~ApVYLaAVLEYLtaEILEL-Agn~A~~~kkkrItP~hI~lAI~nD 125 (365)
.+.+|-.-|.+++-+-- ....--..--+|+-+++||+. +|-. |..+|.+..++.|.|+|+-.|+.|=
T Consensus 9 e~sLPKATVqKMvS~iLp~dl~ftKearei~in~cieFi~--~lsseAne~ce~EaKKTIa~EHviKALenL 78 (148)
T COG5150 9 ENSLPKATVQKMVSSILPKDLVFTKEAREIFINACIEFIN--MLSSEANEACEEEAKKTIAYEHVIKALENL 78 (148)
T ss_pred cccCcHHHHHHHHHHhccccccccHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHhccccHHHHHHHHHhc
Confidence 44555555555444321 111122345688899999873 3333 3334455567889999999998763
No 110
>COG2238 RPS19A Ribosomal protein S19E (S16A) [Translation, ribosomal structure and biogenesis]
Probab=28.25 E-value=75 Score=28.99 Aligned_cols=38 Identities=26% Similarity=0.422 Sum_probs=29.8
Q ss_pred hhhhhhhhhhc--------CC-CCCcchhHHHHHHhHHHHHHHHHHH
Q psy3828 278 AIYIYKVLKQV--------HP-DTGVSSKAMSIMNSFVNDIFERIAA 315 (365)
Q Consensus 278 ~~YIykVLKQV--------hp-d~gISskam~ImnSfvnDiferIa~ 315 (365)
..-+.++|.|- +| ...||.+.+++|+.+..+|+|.++.
T Consensus 95 gsI~RkilqqLE~~G~V~k~~~GR~ltp~GrsllD~~a~ei~eel~~ 141 (147)
T COG2238 95 GSIIRKVLQQLEKAGLVEKTPKGRVLTPKGRSLLDRIATEIKEELEE 141 (147)
T ss_pred chHHHHHHHHHHHCCceeecCCCceeCccchhHHHHHHHHHHHHhcc
Confidence 44466666543 66 5779999999999999999998876
No 111
>PHA02669 hypothetical protein; Provisional
Probab=27.99 E-value=49 Score=31.06 Aligned_cols=37 Identities=38% Similarity=0.529 Sum_probs=22.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhh
Q psy3828 82 APVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLA 121 (365)
Q Consensus 82 ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lA 121 (365)
|.+||++..-||+.||= ||. -+.+++.|+.....++|
T Consensus 12 avi~LTgAaiYlLiEiG-LAa--ERanKrsRvK~nMRkLa 48 (210)
T PHA02669 12 AVIYLTGAAIYLLIEIG-LAA--ERANKRSRVKANMRKLA 48 (210)
T ss_pred HHHHHHHHHHHHHHHHH-HHH--HHhhhHHHHHHHHHHHH
Confidence 67899999999987753 332 34455555444333333
No 112
>KOG1745|consensus
Probab=27.89 E-value=50 Score=29.84 Aligned_cols=63 Identities=25% Similarity=0.297 Sum_probs=47.0
Q ss_pred chhhhhh-hhhcCCcccccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhc
Q psy3828 61 PVGRIHR-LLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 123 (365)
Q Consensus 61 PVsRI~R-lLke~~ya~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~ 123 (365)
|-.|+-| ..++..-..|+.++|..-|--..|..+-.+.|-+.--|-..++..|.|.+|++|.+
T Consensus 68 PFqRlvrei~q~f~~dLrfqs~Ai~ALQeA~EayLv~LfEdtnlcAihAkRVTimpkdiQlArr 131 (137)
T KOG1745|consen 68 PFQRLVREIAQDFKTDLRFQSSAIAALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARR 131 (137)
T ss_pred cHHHHhHHHHhcccccceehHHHHHHHHHHHHHHHHHhccccchhhhccceeEecccceehhhh
Confidence 3344444 34445556788888888888888887778888887667777888999999999865
No 113
>PRK09522 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional
Probab=27.49 E-value=78 Score=34.03 Aligned_cols=60 Identities=15% Similarity=0.308 Sum_probs=41.4
Q ss_pred hcCCCCCcchhHHHHHHhHHHHHHHHHHHH---HhhhhhcCCCcccChhHHHHHHHHhCcHHH
Q psy3828 287 QVHPDTGVSSKAMSIMNSFVNDIFERIAAE---SSRLAHYNKRSTITSREIQTAVRLLLPGEL 346 (365)
Q Consensus 287 QVhpd~gISskam~ImnSfvnDiferIa~E---As~La~~nkr~TitsreIqtAvrllLPgeL 346 (365)
|=||+.-.|...+.|+.+|++-.+...-.| ..-|-+......||..|...|+..+|-|+.
T Consensus 168 QFHPEs~~T~~G~~il~NFl~~~~~~~~~~~~~~~~l~~~~~~~~Lt~eea~~~~~~il~g~~ 230 (531)
T PRK09522 168 QFHPESILTTQGARLLEQTLAWAQQKLEPTNTLQPILEKLYQAQTLSQQESHQLFSAVVRGEL 230 (531)
T ss_pred EecCccccCcchHHHHHHHHHHHhhcCCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHHcCCC
Confidence 789999999999999999985432210000 001112224568999999999999998874
No 114
>KOG0568|consensus
Probab=26.73 E-value=91 Score=30.94 Aligned_cols=51 Identities=29% Similarity=0.445 Sum_probs=28.7
Q ss_pred hhhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhH
Q psy3828 280 YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSRE 333 (365)
Q Consensus 280 YIykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~Titsre 333 (365)
-+.++.||||||.|-- +|-+--=--|..-|.++-.| .+++.|.+..+...|
T Consensus 67 af~~lakq~hpdsgs~-~adaa~f~qideafrkvlq~--~~~ktn~~qn~~ede 117 (342)
T KOG0568|consen 67 AFHDLAKQVHPDSGSE-EADAARFIQIDEAFRKVLQE--KFAKTNARQNIGEDE 117 (342)
T ss_pred HHHHHHHHcCCCCCCc-cccHHHHHHHHHHHHHHHHH--HHHHhhhccccccch
Confidence 4678899999998853 22111001123444444444 356667777776554
No 115
>PF07524 Bromo_TP: Bromodomain associated; InterPro: IPR006565 This bromodomain is found in eukaryotic transcription factors and PHD domain containing proteins (IPR001965 from INTERPRO). The tandem PHD finger-bromodomain is found in many chromatin-associated proteins. It is involved in gene silencing by the human co-repressor KRAB-associated protein 1 (KAP1). The tandem PHD finger-bromodomain of KAP1 has a distinct structure that joins the two protein modules. The first helix, alpha(Z), of an atypical bromodomain forms the central hydrophobic core that anchors the other three helices of the bromodomain on one side and the zinc binding PHD finger on the other []. The Rap1 GTPase-activating protein, Sipa1, is modulated by the cellular bromodomain protein, Brd4. Brd4 belongs to the BET family and is a multifunctional protein involved in transcription, replication, the signal transduction pathway, and cell cycle progression. All of these functions are linked to its association with acetylated chromatin. It has tandem bromodomains []. The dysregulation of the Brd4-associated pathways may play an important role in breast cancer progression []. Bovine papillomavirus type 1 E2 also binds to chromosomes in a complex with Brd4. Interaction with Brd4 is additionally important for E2-mediated transcriptional regulation [, ].
Probab=26.21 E-value=1e+02 Score=24.11 Aligned_cols=48 Identities=15% Similarity=0.115 Sum_probs=40.7
Q ss_pred cccCCChhHHHHHHHHHHHHHHHHHHhHHHhhcCCccccchhhhhhhc
Q psy3828 76 ERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 123 (365)
Q Consensus 76 ~RVs~~ApVYLaAVLEYLtaEILELAgn~A~~~kkkrItP~hI~lAI~ 123 (365)
..++..|---|+-+++..+.+|...+-..|...++...++.++..|+.
T Consensus 22 ~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~ 69 (77)
T PF07524_consen 22 DSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQALE 69 (77)
T ss_pred cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 467777888888888888888888888889888999999999998764
No 116
>TIGR01128 holA DNA polymerase III, delta subunit. subunit around DNA forming a DNA sliding clamp.
Probab=25.96 E-value=1.7e+02 Score=27.65 Aligned_cols=66 Identities=23% Similarity=0.323 Sum_probs=52.1
Q ss_pred ccchhhhhhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHHh
Q psy3828 274 KESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLL 341 (365)
Q Consensus 274 ~esy~~YIykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrll 341 (365)
......||.+.+++. +..|+.+|...+-+.+..=...+..|.-+|+.|.+..+||..+|+..+.-.
T Consensus 113 ~~~~~~~i~~~~~~~--g~~i~~~a~~~l~~~~~~d~~~l~~el~KL~~~~~~~~It~e~I~~~~~~~ 178 (302)
T TIGR01128 113 EQELPRWIQARLKKL--GLRIDPDAVQLLAELVEGNLLAIAQELEKLALYAPDGKITLEDVEEAVSDS 178 (302)
T ss_pred HHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHhCcHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHhhh
Confidence 345566788888775 578999999988888875566889999999999766689999998776543
No 117
>PLN00163 histone H4; Provisional
Probab=25.89 E-value=25 Score=27.54 Aligned_cols=42 Identities=48% Similarity=0.790 Sum_probs=23.6
Q ss_pred cCCCCCCCCC----CCCC---CCcccccccccchhhhhhhhhcCCcccccCC
Q psy3828 36 MSGRGKGGKA----KAKS---KTRSSRAGLQFPVGRIHRLLRKGNYAERVGA 80 (365)
Q Consensus 36 mSg~gkggk~----~~k~---~SrSsRAgLqFPVsRI~RlLke~~ya~RVs~ 80 (365)
|+|+|||||. ..++ +.+.+-.|++=|. |.|+-+.+. ..||+.
T Consensus 1 m~g~gkggkglGkggaKRhrk~lrd~i~gItKpa--IrRLARRgG-VKRIs~ 49 (59)
T PLN00163 1 MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPA--IRRLARRGG-VKRISG 49 (59)
T ss_pred CCCCCCCCCccCCccchhHHHHHHHhhcccchHH--HHHHHHhcC-ceeecc
Confidence 7888886553 1222 2233335666665 777777753 356654
No 118
>COG1466 HolA DNA polymerase III, delta subunit [DNA replication, recombination, and repair]
Probab=24.40 E-value=1.3e+02 Score=29.86 Aligned_cols=68 Identities=19% Similarity=0.257 Sum_probs=58.6
Q ss_pred ccchhhhhhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHHhCc
Q psy3828 274 KESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLP 343 (365)
Q Consensus 274 ~esy~~YIykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrllLP 343 (365)
.+....+|-+.+++. +..|+.+|+..+-.-++.=+--|+.|--+|+-|..-.+||..+|+.+|--...
T Consensus 142 ~~~l~~~i~~~~~~~--~l~i~~~a~~~L~~~~~~nl~~i~~Ei~KL~l~~~~~~I~~~~V~~~v~~~~~ 209 (334)
T COG1466 142 EAELPQWIKKRAKEL--GLKIDQEAIQLLLEALGGNLLAIAQEIEKLALYAGDKEITLEDVEEVVSDVAE 209 (334)
T ss_pred HHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCCcCCHHHHHHHHhcccc
Confidence 345677888888886 58899999999999998888899999999999999889999999999865544
No 119
>smart00350 MCM minichromosome maintenance proteins.
Probab=24.37 E-value=1.8e+02 Score=30.79 Aligned_cols=66 Identities=23% Similarity=0.269 Sum_probs=45.5
Q ss_pred cchhhhhhhhhhhcCCCCCcchhHHHHHHhHHHHHH-------------------HHHHHHHhhhhhcCCCcccChhHHH
Q psy3828 275 ESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIF-------------------ERIAAESSRLAHYNKRSTITSREIQ 335 (365)
Q Consensus 275 esy~~YIykVLKQVhpd~gISskam~ImnSfvnDif-------------------erIa~EAs~La~~nkr~TitsreIq 335 (365)
+....||.-+=..++|. +|.+++..+..+..++= |-+..=|--+|+...+.+++..|+.
T Consensus 421 ~~l~~yi~~ar~~~~P~--ls~~~~~~i~~~y~~~R~~~~~~~~~~~~~~t~R~l~sliRla~A~A~l~~r~~V~~~Dv~ 498 (509)
T smart00350 421 EFLRKYIAYAREKIKPK--LSEEAAEKLVKAYVDLRKEDSQSEARSSIPITVRQLESIIRLSEAHAKMRLSDVVEEADVE 498 (509)
T ss_pred HHHHHHHHHHHhcCCCC--CCHHHHHHHHHHHHHhcccccccccccccCcCHHHHHHHHHHHHHHHHHcCCCccCHHHHH
Confidence 34556665543347786 78888888777766543 2333334456777888999999999
Q ss_pred HHHHHhC
Q psy3828 336 TAVRLLL 342 (365)
Q Consensus 336 tAvrllL 342 (365)
.|++|+.
T Consensus 499 ~ai~l~~ 505 (509)
T smart00350 499 EAIRLLR 505 (509)
T ss_pred HHHHHHH
Confidence 9999874
No 120
>smart00271 DnaJ DnaJ molecular chaperone homology domain.
Probab=24.19 E-value=1.4e+02 Score=21.46 Aligned_cols=15 Identities=27% Similarity=0.379 Sum_probs=12.2
Q ss_pred hhhhhhhcCCCCCcc
Q psy3828 281 IYKVLKQVHPDTGVS 295 (365)
Q Consensus 281 IykVLKQVhpd~gIS 295 (365)
.++..++.|||..-.
T Consensus 22 y~~l~~~~HPD~~~~ 36 (60)
T smart00271 22 YRKLALKYHPDKNPG 36 (60)
T ss_pred HHHHHHHHCcCCCCC
Confidence 567788999998874
No 121
>PRK07452 DNA polymerase III subunit delta; Validated
Probab=21.88 E-value=1.4e+02 Score=29.00 Aligned_cols=61 Identities=18% Similarity=0.312 Sum_probs=50.5
Q ss_pred hhhhhhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhc--CCCcccChhHHHHHHH
Q psy3828 277 YAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHY--NKRSTITSREIQTAVR 339 (365)
Q Consensus 277 y~~YIykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~--nkr~TitsreIqtAvr 339 (365)
...||.+.+++- +..|+..|...+-..+..=+-++..|--+|+-| .+..+||..+|+..|-
T Consensus 135 l~~~i~~~~~~~--g~~i~~~a~~~L~~~~g~dl~~l~~EleKL~ly~~~~~~~It~~~V~~~v~ 197 (326)
T PRK07452 135 LKQLVERTAQEL--GVKLTPEAAELLAEAVGNDSRRLYNELEKLALYAENSTKPISAEEVKALVS 197 (326)
T ss_pred HHHHHHHHHHHc--CCCCCHHHHHHHHHHhCccHHHHHHHHHHHHHhccCCCCccCHHHHHHHhc
Confidence 456677766654 567999999999888887788999999999999 5688999999998765
No 122
>PRK05574 holA DNA polymerase III subunit delta; Reviewed
Probab=21.65 E-value=2.2e+02 Score=27.48 Aligned_cols=67 Identities=21% Similarity=0.231 Sum_probs=52.4
Q ss_pred ccchhhhhhhhhhhcCCCCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHHhC
Q psy3828 274 KESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLL 342 (365)
Q Consensus 274 ~esy~~YIykVLKQVhpd~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrllL 342 (365)
......||...+++. +..|+.+|...+-..+..=...+..|.-+|+.|.....||..+|+..+--.-
T Consensus 148 ~~~~~~~i~~~~~~~--g~~i~~~a~~~L~~~~~~d~~~l~~El~KL~l~~~~~~It~~~I~~~i~~~~ 214 (340)
T PRK05574 148 EAELPQWIQQRLKQQ--GLQIDAAALQLLAERVEGNLLALAQELEKLALLYPDGKITLEDVEEAVPDSA 214 (340)
T ss_pred HHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHhCchHHHHHHHHHHHHhhcCCCCCCHHHHHHHHhhhh
Confidence 445677888888774 4679999999988888777779999999999997444499999987765433
No 123
>cd06257 DnaJ DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s, an important chaperonine family. Hsp40 proteins are characterized by the presence of a J domain, which mediates the interaction with Hsp70. They may contain other domains as well, and the architectures provide a means of classification.
Probab=21.49 E-value=1.5e+02 Score=20.69 Aligned_cols=15 Identities=27% Similarity=0.381 Sum_probs=12.6
Q ss_pred hhhhhhhcCCCCCcc
Q psy3828 281 IYKVLKQVHPDTGVS 295 (365)
Q Consensus 281 IykVLKQVhpd~gIS 295 (365)
.++..|+.|||..-+
T Consensus 21 y~~l~~~~HPD~~~~ 35 (55)
T cd06257 21 YRKLALKYHPDKNPD 35 (55)
T ss_pred HHHHHHHHCcCCCCC
Confidence 567889999999876
No 124
>PF12218 End_N_terminal: N terminal extension of bacteriophage endosialidase; InterPro: IPR024429 This entry represents the N-terminal extension domain of endosialidases which is approximately 70 amino acids in length. The two N-terminal domains (this domain and the beta propeller) assemble in the compact 'cap' whereas the C-terminal domain forms an extended tail-like structure. The very N-terminal part of the 'cap' region (residues 246 to 312) holds the only alpha-helix of the protein and is presumably the residual part of the deleted N-terminal head-binding domain [].; PDB: 3JU4_A 3GVL_A 3GVK_B 3GVJ_A 1V0E_B 1V0F_E.
Probab=21.13 E-value=38 Score=27.02 Aligned_cols=30 Identities=37% Similarity=0.565 Sum_probs=13.0
Q ss_pred cCCCcCcch--hhhhhccc-ccccccCCCCccc
Q psy3828 173 VGDGVADHV--LEEHLENA-TGLLVDEPGDTLD 202 (365)
Q Consensus 173 ~~~~~~~~~--~~~~~~~~-~~~~~d~~~~~~~ 202 (365)
+||||+||- +-+-|+.+ -|-.||-.+-|.-
T Consensus 2 ~GDGvtdDt~A~~a~l~a~~~g~~IDg~GlTyk 34 (67)
T PF12218_consen 2 KGDGVTDDTAAITAALEASPVGRKIDGAGLTYK 34 (67)
T ss_dssp --CCCCE-HHHHHHHHHHS-TTS-EE-TT-EEE
T ss_pred CCccccCcHHHHHHHHhccCCCeEEecCCceEE
Confidence 799999984 22333332 2556666555543
No 125
>PRK09333 30S ribosomal protein S19e; Provisional
Probab=20.70 E-value=1.8e+02 Score=26.60 Aligned_cols=53 Identities=17% Similarity=0.299 Sum_probs=39.4
Q ss_pred ccCccchhhhhhhhhhhc-----CC-CCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhc
Q psy3828 271 HRRKESYAIYIYKVLKQV-----HP-DTGVSSKAMSIMNSFVNDIFERIAAESSRLAHY 323 (365)
Q Consensus 271 ~kr~esy~~YIykVLKQV-----hp-d~gISskam~ImnSfvnDiferIa~EAs~La~~ 323 (365)
.+-..+--.|+.+.|.+. +| +.-||+++.+.||.+-.+|++.+..|--.|.+|
T Consensus 91 ~~~sg~iiR~~LqqLE~~glVek~~~GR~lT~~G~~~LD~iA~~i~~~~~~~~p~l~~y 149 (150)
T PRK09333 91 VKGSGSIIRKILQQLEKAGLVEKTKKGRVITPKGRSLLDNLAAEVKKELAEERPELEKY 149 (150)
T ss_pred ccCccHHHHHHHHHHHHCCCeeeCCCCCEeCHHHHHHHHHHHHHHHHHHHhhCcccccc
Confidence 333455677777777654 33 344899999999999999999998876666665
No 126
>PF08221 HTH_9: RNA polymerase III subunit RPC82 helix-turn-helix domain; InterPro: IPR013197 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. This family consists of several DNA-directed RNA polymerase III polypeptides which are related to the Saccharomyces cerevisiae (Baker's yeast) RPC82 protein. RNA polymerase C (III) promotes the transcription of tRNA and 5S RNA genes. In S. cerevisiae, the enzyme is composed of 15 subunits, ranging from 10 kDa to about 160 kDa []. This region is probably a DNA-binding helix-turn-helix.; PDB: 2XV4_S 2XUB_A.
Probab=20.34 E-value=2.1e+02 Score=21.84 Aligned_cols=45 Identities=24% Similarity=0.261 Sum_probs=29.9
Q ss_pred hHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHHhCcHHHHhhHHh
Q psy3828 304 SFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVS 352 (365)
Q Consensus 304 SfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrllLPgeLakhAvs 352 (365)
.++.|.|-.+++......-..++.| -++|....+ ||..--|+|..
T Consensus 5 ~ii~~~fG~~~~~V~~~Ll~~G~lt--l~~i~~~t~--l~~~~Vk~~L~ 49 (62)
T PF08221_consen 5 LIIEEHFGEIVAKVGEVLLSRGRLT--LREIVRRTG--LSPKQVKKALV 49 (62)
T ss_dssp HHHHHHHHHHHHHHHHHHHHC-SEE--HHHHHHHHT----HHHHHHHHH
T ss_pred HHHHHHcChHHHHHHHHHHHcCCcC--HHHHHHHhC--CCHHHHHHHHH
Confidence 4677888888887766665555555 588888888 77777777653
No 127
>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=20.05 E-value=2.2e+02 Score=25.69 Aligned_cols=59 Identities=17% Similarity=0.263 Sum_probs=45.4
Q ss_pred hhhhhcCC-CCCcchhHHHHHHhHHHHHHHHHHHHHhhhhhcCCCcccChhHHHHHHHHh
Q psy3828 283 KVLKQVHP-DTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLL 341 (365)
Q Consensus 283 kVLKQVhp-d~gISskam~ImnSfvnDiferIa~EAs~La~~nkr~TitsreIqtAvrll 341 (365)
|+.-.+-| |+-...+|-.|+-.---.+..-+..||...+....++||....|..|..-|
T Consensus 19 KMvS~iLp~dl~ftKearei~in~cieFi~~lsseAne~ce~EaKKTIa~EHviKALenL 78 (148)
T COG5150 19 KMVSSILPKDLVFTKEAREIFINACIEFINMLSSEANEACEEEAKKTIAYEHVIKALENL 78 (148)
T ss_pred HHHHHhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHhc
Confidence 33333333 466788898886555556667889999999999999999999999998754
No 128
>PF15214 PXT1: Peroxisomal testis-specific protein 1
Probab=20.04 E-value=40 Score=25.51 Aligned_cols=17 Identities=24% Similarity=0.642 Sum_probs=15.0
Q ss_pred ccCCCcCcchhhhhhcc
Q psy3828 172 GVGDGVADHVLEEHLEN 188 (365)
Q Consensus 172 ~~~~~~~~~~~~~~~~~ 188 (365)
.+||||..-+.|||||.
T Consensus 5 ~iGDsinhR~vqE~lqq 21 (51)
T PF15214_consen 5 HIGDSINHRMVQEDLQQ 21 (51)
T ss_pred cccccccHHHHHHHHHH
Confidence 38999999999999984
Done!