Query psy13072
Match_columns 257
No_of_seqs 254 out of 524
Neff 4.8
Searched_HMMs 46136
Date Fri Aug 16 18:44:02 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy13072.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/13072hhsearch_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 2.3E-51 4.9E-56 332.9 10.7 112 139-256 5-116 (116)
2 PTZ00463 histone H2B; Provisio 100.0 1.9E-50 4.1E-55 327.4 9.9 98 158-255 19-116 (117)
3 PLN00158 histone H2B; Provisio 100.0 3.4E-50 7.5E-55 326.0 10.9 114 4-125 3-116 (116)
4 PTZ00463 histone H2B; Provisio 100.0 5.3E-50 1.1E-54 324.9 10.0 113 12-124 4-116 (117)
5 smart00427 H2B Histone H2B. 100.0 1.7E-48 3.6E-53 304.2 9.8 89 167-255 1-89 (89)
6 smart00427 H2B Histone H2B. 100.0 4.4E-47 9.6E-52 296.2 10.0 89 36-124 1-89 (89)
7 KOG1744|consensus 100.0 5E-44 1.1E-48 294.0 8.4 101 157-257 27-127 (127)
8 KOG1744|consensus 100.0 7.5E-43 1.6E-47 287.0 8.4 126 1-126 1-127 (127)
9 PF00125 Histone: Core histone 99.5 2.3E-14 5.1E-19 106.4 5.4 68 165-232 3-74 (75)
10 PF00125 Histone: Core histone 99.4 3.2E-13 7E-18 100.3 5.3 69 33-101 2-74 (75)
11 cd07981 TAF12 TATA Binding Pro 98.1 1.6E-05 3.5E-10 59.7 7.6 60 173-232 7-66 (72)
12 cd07981 TAF12 TATA Binding Pro 97.9 5.6E-05 1.2E-09 56.8 7.5 60 42-101 7-66 (72)
13 COG2036 HHT1 Histones H3 and H 97.9 2.9E-05 6.2E-10 61.5 6.1 63 173-236 25-87 (91)
14 cd00074 H2A Histone 2A; H2A is 97.9 3.5E-05 7.5E-10 63.3 6.4 65 168-232 20-85 (115)
15 PF00808 CBFD_NFYB_HMF: Histon 97.8 7.2E-05 1.6E-09 54.4 6.7 58 172-230 7-65 (65)
16 PF00808 CBFD_NFYB_HMF: Histon 97.7 0.00013 2.8E-09 53.1 6.6 58 41-99 7-65 (65)
17 COG2036 HHT1 Histones H3 and H 97.7 0.00011 2.4E-09 58.2 6.1 64 41-105 24-87 (91)
18 smart00803 TAF TATA box bindin 97.3 0.001 2.2E-08 49.3 6.5 59 172-231 7-65 (65)
19 PLN00157 histone H2A; Provisio 97.2 0.00043 9.3E-09 58.3 4.8 66 166-231 24-90 (132)
20 PTZ00017 histone H2A; Provisio 97.2 0.00064 1.4E-08 57.4 5.0 65 167-231 26-91 (134)
21 PLN00153 histone H2A; Provisio 97.2 0.00066 1.4E-08 57.0 5.0 66 166-231 22-88 (129)
22 PF03847 TFIID_20kDa: Transcri 97.2 0.0017 3.6E-08 48.8 6.7 59 173-231 5-63 (68)
23 PLN00156 histone H2AX; Provisi 97.1 0.0011 2.4E-08 56.3 6.3 65 167-231 28-93 (139)
24 smart00428 H3 Histone H3. 97.1 0.0023 5E-08 52.0 7.8 69 165-233 31-101 (105)
25 smart00414 H2A Histone 2A. 97.1 0.00093 2E-08 54.2 5.5 60 172-231 14-73 (106)
26 PLN00035 histone H4; Provision 97.0 0.003 6.5E-08 51.2 7.2 60 172-232 34-93 (103)
27 PF03847 TFIID_20kDa: Transcri 97.0 0.0026 5.7E-08 47.7 6.3 59 42-100 5-63 (68)
28 COG5262 HTA1 Histone H2A [Chro 96.9 0.0016 3.5E-08 54.1 5.2 60 172-231 31-90 (132)
29 cd00076 H4 Histone H4, one of 96.9 0.0038 8.3E-08 48.9 7.0 60 172-232 18-77 (85)
30 PTZ00252 histone H2A; Provisio 96.9 0.0019 4.1E-08 54.6 5.6 66 166-231 23-91 (134)
31 smart00803 TAF TATA box bindin 96.9 0.0038 8.3E-08 46.3 6.3 59 41-100 7-65 (65)
32 PTZ00015 histone H4; Provision 96.8 0.003 6.5E-08 51.1 6.0 61 171-232 34-94 (102)
33 PLN00035 histone H4; Provision 96.8 0.0048 1E-07 50.0 7.2 61 40-101 33-93 (103)
34 cd00074 H2A Histone 2A; H2A is 96.8 0.003 6.4E-08 52.0 6.1 65 36-100 19-84 (115)
35 cd00076 H4 Histone H4, one of 96.8 0.006 1.3E-07 47.8 7.0 61 40-101 17-77 (85)
36 PLN00154 histone H2A; Provisio 96.7 0.0055 1.2E-07 51.9 6.5 64 168-231 38-103 (136)
37 PTZ00015 histone H4; Provision 96.6 0.0055 1.2E-07 49.6 5.9 61 40-101 34-94 (102)
38 cd07979 TAF9 TATA Binding Prot 96.5 0.013 2.7E-07 48.2 7.6 64 171-235 5-68 (117)
39 smart00428 H3 Histone H3. 96.5 0.014 3E-07 47.4 7.7 69 34-102 31-101 (105)
40 cd07979 TAF9 TATA Binding Prot 96.0 0.032 6.9E-07 45.8 7.4 65 39-104 4-68 (117)
41 KOG1756|consensus 96.0 0.016 3.5E-07 48.7 5.5 60 172-231 32-91 (131)
42 smart00417 H4 Histone H4. 95.9 0.015 3.3E-07 44.5 4.8 55 173-228 19-73 (74)
43 KOG0869|consensus 95.6 0.043 9.4E-07 47.7 6.7 61 173-233 38-99 (168)
44 smart00417 H4 Histone H4. 95.5 0.018 3.9E-07 44.1 3.9 55 41-96 18-72 (74)
45 KOG0871|consensus 94.9 0.094 2E-06 45.2 6.8 65 173-237 18-83 (156)
46 KOG0869|consensus 94.9 0.09 1.9E-06 45.8 6.6 62 41-102 37-99 (168)
47 KOG1142|consensus 94.9 0.035 7.6E-07 51.5 4.4 68 172-239 159-230 (258)
48 PLN00121 histone H3; Provision 94.7 0.12 2.7E-06 43.8 6.9 67 166-232 65-131 (136)
49 KOG0871|consensus 94.6 0.13 2.8E-06 44.4 6.8 78 41-122 17-95 (156)
50 PF02969 TAF: TATA box binding 94.5 0.13 2.8E-06 38.5 6.0 47 185-231 20-66 (66)
51 PTZ00018 histone H3; Provision 94.5 0.15 3.2E-06 43.3 6.9 67 166-232 65-131 (136)
52 KOG1142|consensus 94.4 0.052 1.1E-06 50.4 4.4 67 39-105 157-227 (258)
53 COG5262 HTA1 Histone H2A [Chro 94.1 0.12 2.6E-06 43.1 5.5 90 14-109 7-97 (132)
54 PLN00154 histone H2A; Provisio 94.1 0.21 4.5E-06 42.5 6.9 71 37-109 38-110 (136)
55 smart00414 H2A Histone 2A. 93.9 0.13 2.8E-06 41.8 5.3 70 37-108 9-79 (106)
56 cd08050 TAF6 TATA Binding Prot 93.9 0.15 3.2E-06 48.7 6.5 48 185-232 16-63 (343)
57 PLN00156 histone H2AX; Provisi 93.8 0.16 3.5E-06 43.3 5.8 71 35-107 27-98 (139)
58 PLN00157 histone H2A; Provisio 93.8 0.1 2.2E-06 44.1 4.6 72 35-108 24-96 (132)
59 PTZ00017 histone H2A; Provisio 93.8 0.11 2.5E-06 43.9 4.8 72 35-108 25-97 (134)
60 PLN00153 histone H2A; Provisio 93.1 0.17 3.8E-06 42.6 4.9 71 35-107 22-93 (129)
61 PLN00161 histone H3; Provision 92.9 0.51 1.1E-05 40.1 7.4 67 166-232 58-125 (135)
62 smart00576 BTP Bromodomain tra 92.8 0.59 1.3E-05 35.2 7.0 59 173-232 12-70 (77)
63 PF15510 CENP-W: Centromere ki 92.5 0.21 4.5E-06 40.1 4.3 64 170-235 19-98 (102)
64 PF02969 TAF: TATA box binding 92.5 0.45 9.7E-06 35.7 5.8 47 54-100 20-66 (66)
65 cd08050 TAF6 TATA Binding Prot 91.7 0.42 9.1E-06 45.6 6.2 48 54-101 16-63 (343)
66 KOG0870|consensus 91.6 0.78 1.7E-05 40.3 7.2 68 40-107 14-83 (172)
67 PF15510 CENP-W: Centromere ki 91.5 0.4 8.6E-06 38.5 4.9 63 40-104 20-98 (102)
68 PLN00160 histone H3; Provision 91.5 0.95 2.1E-05 36.4 7.1 65 168-232 26-91 (97)
69 smart00576 BTP Bromodomain tra 91.4 1 2.2E-05 33.9 6.9 48 54-101 23-70 (77)
70 PTZ00252 histone H2A; Provisio 91.4 0.46 1E-05 40.3 5.4 71 35-107 23-96 (134)
71 PLN00121 histone H3; Provision 91.1 0.89 1.9E-05 38.6 6.9 66 36-101 66-131 (136)
72 PF15630 CENP-S: Kinetochore c 91.0 0.7 1.5E-05 35.4 5.6 59 173-231 11-71 (76)
73 PTZ00018 histone H3; Provision 90.4 1.1 2.4E-05 38.1 6.8 65 37-101 67-131 (136)
74 KOG0870|consensus 90.3 1.3 2.7E-05 39.0 7.2 63 171-233 14-78 (172)
75 PF15630 CENP-S: Kinetochore c 88.8 1.3 2.7E-05 34.0 5.5 59 42-100 11-71 (76)
76 KOG1756|consensus 88.5 1.1 2.4E-05 37.8 5.4 67 41-109 32-98 (131)
77 KOG1757|consensus 87.1 0.74 1.6E-05 38.3 3.5 64 168-231 30-95 (131)
78 PLN00161 histone H3; Provision 86.4 3.5 7.7E-05 35.1 7.3 66 37-102 60-126 (135)
79 PF07524 Bromo_TP: Bromodomain 84.1 6.2 0.00013 29.4 7.0 48 184-231 22-69 (77)
80 cd08048 TAF11 TATA Binding Pro 83.9 6.1 0.00013 30.8 7.1 60 173-233 22-84 (85)
81 PLN00160 histone H3; Provision 82.9 6.5 0.00014 31.7 7.0 67 35-101 24-91 (97)
82 PF07524 Bromo_TP: Bromodomain 81.7 8.2 0.00018 28.7 6.9 49 53-101 22-70 (77)
83 PF15511 CENP-T: Centromere ki 80.1 3.4 7.4E-05 40.6 5.5 55 40-94 355-414 (414)
84 KOG1745|consensus 79.8 2.2 4.7E-05 36.4 3.5 56 178-233 78-133 (137)
85 PF15511 CENP-T: Centromere ki 78.8 4.4 9.6E-05 39.8 5.8 54 172-225 356-414 (414)
86 PF02291 TFIID-31kDa: Transcri 78.3 5.2 0.00011 33.6 5.3 60 171-234 16-78 (129)
87 PF04719 TAFII28: hTAFII28-lik 77.4 11 0.00025 29.8 6.7 62 172-233 28-90 (90)
88 KOG2549|consensus 76.3 6.1 0.00013 40.6 6.0 50 184-233 27-76 (576)
89 cd07978 TAF13 The TATA Binding 73.8 27 0.00058 27.6 8.0 46 185-231 20-65 (92)
90 PF02269 TFIID-18kDa: Transcri 73.5 4.6 0.0001 31.8 3.6 47 185-231 19-65 (93)
91 PF02291 TFIID-31kDa: Transcri 73.3 8.2 0.00018 32.4 5.2 61 40-104 16-79 (129)
92 PF02269 TFIID-18kDa: Transcri 72.6 4.8 0.0001 31.7 3.5 48 54-101 19-66 (93)
93 cd08048 TAF11 TATA Binding Pro 71.9 23 0.00049 27.7 7.0 61 41-102 21-84 (85)
94 KOG2549|consensus 69.0 14 0.00031 38.0 6.7 50 53-102 27-76 (576)
95 cd07978 TAF13 The TATA Binding 65.5 21 0.00045 28.2 5.7 46 54-100 20-65 (92)
96 KOG3334|consensus 64.4 20 0.00043 31.0 5.8 60 175-234 17-79 (148)
97 PF04719 TAFII28: hTAFII28-lik 63.7 35 0.00075 27.0 6.6 63 40-102 27-90 (90)
98 KOG3334|consensus 62.4 22 0.00048 30.7 5.7 58 45-102 18-78 (148)
99 COG5095 TAF6 Transcription ini 57.5 11 0.00023 36.9 3.3 60 174-233 8-70 (450)
100 TIGR02442 Cob-chelat-sub cobal 56.5 34 0.00074 35.3 7.0 61 178-238 242-309 (633)
101 COG5208 HAP5 CCAAT-binding fac 53.3 21 0.00045 33.1 4.3 58 173-231 115-173 (286)
102 PRK09333 30S ribosomal protein 53.0 31 0.00068 29.8 5.1 49 167-215 95-149 (150)
103 KOG1745|consensus 49.2 21 0.00045 30.6 3.4 51 48-102 79-133 (137)
104 PF14687 DUF4460: Domain of un 49.0 24 0.00052 28.8 3.7 36 169-204 11-54 (112)
105 TIGR02442 Cob-chelat-sub cobal 45.6 62 0.0013 33.4 6.9 61 47-107 242-309 (633)
106 PF09415 CENP-X: CENP-S associ 45.0 40 0.00088 25.5 4.1 56 173-228 5-63 (72)
107 PF14687 DUF4460: Domain of un 44.5 26 0.00056 28.6 3.2 37 37-73 10-54 (112)
108 smart00350 MCM minichromosome 42.8 86 0.0019 31.4 7.2 63 169-234 423-505 (509)
109 COG5208 HAP5 CCAAT-binding fac 42.8 35 0.00077 31.6 4.1 58 42-100 115-173 (286)
110 COG5095 TAF6 Transcription ini 42.6 26 0.00056 34.3 3.3 60 43-102 8-70 (450)
111 PRK09522 bifunctional glutamin 41.1 42 0.0009 34.2 4.7 61 179-239 168-231 (531)
112 PRK09522 bifunctional glutamin 39.7 41 0.00088 34.3 4.4 62 48-109 168-232 (531)
113 TIGR01128 holA DNA polymerase 39.3 1.1E+02 0.0023 27.4 6.7 66 167-234 114-179 (302)
114 COG1466 HolA DNA polymerase II 38.5 83 0.0018 29.5 6.0 67 167-235 143-209 (334)
115 smart00350 MCM minichromosome 37.3 1.2E+02 0.0026 30.4 7.2 66 36-103 421-505 (509)
116 PF09415 CENP-X: CENP-S associ 35.7 63 0.0014 24.4 3.9 52 42-97 5-63 (72)
117 TIGR01128 holA DNA polymerase 35.6 1.3E+02 0.0028 26.8 6.6 67 36-104 114-180 (302)
118 PRK07452 DNA polymerase III su 35.3 69 0.0015 29.4 4.9 61 169-231 135-197 (326)
119 TIGR02030 BchI-ChlI magnesium 35.1 71 0.0015 30.6 5.1 61 178-238 247-314 (337)
120 COG2238 RPS19A Ribosomal prote 34.5 56 0.0012 28.3 3.8 37 171-207 96-141 (147)
121 KOG0568|consensus 34.5 70 0.0015 30.2 4.7 52 171-225 66-117 (342)
122 smart00271 DnaJ DnaJ molecular 34.3 93 0.002 21.1 4.3 15 173-187 22-36 (60)
123 KOG1757|consensus 34.3 53 0.0012 27.5 3.5 66 36-107 29-100 (131)
124 PF05674 DUF816: Baculovirus p 34.1 1.2E+02 0.0027 26.8 5.9 47 176-222 105-169 (171)
125 PRK05574 holA DNA polymerase I 33.1 1.6E+02 0.0034 26.9 6.8 66 167-234 149-214 (340)
126 PRK14607 bifunctional glutamin 32.9 51 0.0011 33.4 3.9 59 179-238 167-225 (534)
127 TIGR03015 pepcterm_ATPase puta 32.0 1.7E+02 0.0037 25.6 6.7 67 167-233 195-266 (269)
128 COG5150 Class 2 transcription 31.9 1.2E+02 0.0026 25.9 5.3 71 52-126 28-98 (148)
129 PRK08487 DNA polymerase III su 31.3 1.4E+02 0.003 27.9 6.2 63 169-235 140-202 (328)
130 PF00725 3HCDH: 3-hydroxyacyl- 30.9 83 0.0018 23.7 3.9 35 197-234 3-37 (97)
131 COG1466 HolA DNA polymerase II 30.5 1.3E+02 0.0028 28.3 5.9 66 37-104 144-209 (334)
132 cd06257 DnaJ DnaJ domain or J- 30.5 1.1E+02 0.0024 20.2 4.1 15 173-187 21-35 (55)
133 PRK07452 DNA polymerase III su 30.2 88 0.0019 28.7 4.7 61 38-100 135-197 (326)
134 PRK05574 holA DNA polymerase I 29.7 1.8E+02 0.0038 26.6 6.6 67 35-103 148-214 (340)
135 COG5150 Class 2 transcription 29.0 1.5E+02 0.0033 25.3 5.4 51 183-233 28-78 (148)
136 COG2511 GatE Archaeal Glu-tRNA 27.0 1.9E+02 0.0041 30.3 6.7 72 183-254 466-553 (631)
137 PF08221 HTH_9: RNA polymerase 26.9 1.7E+02 0.0036 21.1 4.8 45 196-244 5-49 (62)
138 PRK08487 DNA polymerase III su 26.8 1.8E+02 0.0038 27.2 6.1 78 38-119 140-219 (328)
139 cd07353 harmonin_N N-terminal 26.4 50 0.0011 25.5 1.9 49 35-104 18-66 (79)
140 PF13335 Mg_chelatase_2: Magne 26.1 1.1E+02 0.0024 23.9 4.0 48 173-231 47-94 (96)
141 PRK14607 bifunctional glutamin 25.6 79 0.0017 32.0 3.8 60 48-108 167-226 (534)
142 TIGR03015 pepcterm_ATPase puta 25.4 2.5E+02 0.0054 24.6 6.5 67 36-102 195-266 (269)
143 PF05674 DUF816: Baculovirus p 24.7 2.3E+02 0.0049 25.2 5.9 55 37-91 94-169 (171)
144 TIGR02031 BchD-ChlD magnesium 24.6 1.2E+02 0.0026 31.2 4.9 62 177-238 195-263 (589)
145 COG2511 GatE Archaeal Glu-tRNA 24.1 2.5E+02 0.0053 29.5 6.9 71 53-123 467-553 (631)
146 PF11945 WASH_WAHD: WAHD domai 23.2 96 0.0021 29.5 3.6 24 188-211 24-47 (297)
147 CHL00081 chlI Mg-protoporyphyr 22.4 1.9E+02 0.0042 28.0 5.6 61 178-238 260-327 (350)
148 TIGR00764 lon_rel lon-related 22.3 3.7E+02 0.0081 27.8 7.9 63 169-231 314-389 (608)
149 PRK05907 hypothetical protein; 22.0 1.3E+02 0.0027 28.5 4.2 61 169-231 139-201 (311)
150 PRK09333 30S ribosomal protein 22.0 2E+02 0.0043 25.0 5.0 49 36-84 95-149 (150)
151 TIGR02030 BchI-ChlI magnesium 21.8 1.6E+02 0.0035 28.2 4.9 61 47-107 247-314 (337)
152 PF14606 Lipase_GDSL_3: GDSL-l 21.6 77 0.0017 28.0 2.5 78 171-248 81-174 (178)
153 PF00226 DnaJ: DnaJ domain; I 21.5 2.5E+02 0.0054 19.3 4.7 15 40-54 19-33 (64)
154 PRK13407 bchI magnesium chelat 21.4 2.8E+02 0.0061 26.6 6.4 59 178-238 244-311 (334)
155 TIGR01241 FtsH_fam ATP-depende 21.2 3.8E+02 0.0083 26.5 7.6 126 71-232 264-400 (495)
156 PRK00411 cdc6 cell division co 20.4 6.1E+02 0.013 23.6 8.4 64 172-235 215-284 (394)
157 PRK13406 bchD magnesium chelat 20.1 1.9E+02 0.0041 29.9 5.3 57 182-238 192-255 (584)
No 1
>PLN00158 histone H2B; Provisional
Probab=100.00 E-value=2.3e-51 Score=332.89 Aligned_cols=112 Identities=73% Similarity=1.036 Sum_probs=102.1
Q ss_pred CcchhhhhhcccccccccccccccccCCchhHHHHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCC
Q psy13072 139 SSGKAVKKAGKAQKNIAKSDKKKKHRRKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKR 218 (257)
Q Consensus 139 ~~~k~~~k~~~~~~~~~~~~kk~~~~~~esy~~YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr 218 (257)
+++|+.+++++ .++++++++|+|+|++||||||||||||+|||++||+||||||||||||||.||++|++||++
T Consensus 5 ~~~k~~~~~~~------~~~kk~~~kr~esy~~YI~kVLKQVhPd~gIS~kaM~ImnSfvnDiferIA~EAs~La~~nkr 78 (116)
T PLN00158 5 PSKKPAKKAAK------GAKKKGSKSKTETYKIYIYKVLKQVHPDTGISSKAMSIMNSFINDIFEKIATEAGKLARYNKK 78 (116)
T ss_pred cchhhhhhccc------cccccccccccccHHHHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence 44555555554 234667778899999999999999999999999999999999999999999999999999999
Q ss_pred cccChhHHHHHHHHhcchHHHhhHHhhhhhhhhcccCC
Q psy13072 219 STITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSS 256 (257)
Q Consensus 219 ~Tit~reIqtAvrllLpgeLakhAv~eG~kAV~ky~ss 256 (257)
+|||+||||+||||||||||+||||+|||+||++|+++
T Consensus 79 ~TltsrEIqtAvrLvLpgELaKhAvsEGtkAv~k~~~~ 116 (116)
T PLN00158 79 PTVTSREIQTAVRLILPGELAKHAVSEGTKAVTKFTSA 116 (116)
T ss_pred CcCCHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhhcC
Confidence 99999999999999999999999999999999999986
No 2
>PTZ00463 histone H2B; Provisional
Probab=100.00 E-value=1.9e-50 Score=327.44 Aligned_cols=98 Identities=70% Similarity=1.067 Sum_probs=94.8
Q ss_pred cccccccCCchhHHHHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHHhcchH
Q psy13072 158 DKKKKHRRKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGE 237 (257)
Q Consensus 158 ~kk~~~~~~esy~~YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrllLpge 237 (257)
++++++++.|+|++||||||||||||+|||++||+||||||||||||||.||++|++||+++|||+|||||||||+||||
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 45667778999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhHHhhhhhhhhcccC
Q psy13072 238 LAKHAVSEGTKAVTKYTS 255 (257)
Q Consensus 238 LakhAv~eG~kAV~ky~s 255 (257)
|+||||+|||+||++|++
T Consensus 99 LaKhAvsEGtkAv~k~~~ 116 (117)
T PTZ00463 99 LAKHAVSEGTKAVTKFTS 116 (117)
T ss_pred HHHhhhhHHHHHHHHhhc
Confidence 999999999999999986
No 3
>PLN00158 histone H2B; Provisional
Probab=100.00 E-value=3.4e-50 Score=326.01 Aligned_cols=114 Identities=73% Similarity=1.024 Sum_probs=104.3
Q ss_pred CCCCcchhhhhhcccccccccchhhcccccccchhHHHHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhh
Q psy13072 4 GKSSGKAVKKAGKAQKNIAKSDKKKKKKHRRKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAH 83 (257)
Q Consensus 4 ~~~~~~~~~k~~k~~~~~~~~~~~kk~~~k~~esy~~yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~ 83 (257)
+-+++++++|+++++ .+++++++.|+|++||||||||||||+|||++||+||||||||||||||.||++|++
T Consensus 3 ~~~~~k~~~~~~~~~--------~kk~~~kr~esy~~YI~kVLKQVhPd~gIS~kaM~ImnSfvnDiferIA~EAs~La~ 74 (116)
T PLN00158 3 KTPSKKPAKKAAKGA--------KKKGSKSKTETYKIYIYKVLKQVHPDTGISSKAMSIMNSFINDIFEKIATEAGKLAR 74 (116)
T ss_pred CCcchhhhhhccccc--------cccccccccccHHHHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 445666777766665 245677789999999999999999999999999999999999999999999999999
Q ss_pred hcCCCCCChhHHHHHHHHhCChhHHHhHHHhhhhhhhhccCC
Q psy13072 84 YNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSS 125 (257)
Q Consensus 84 ~~kk~TltsreIqtAvrllLpGeLaKhAv~eG~kAV~ky~s~ 125 (257)
||+++|||+||||+||||||||||+||||+||++||++|+++
T Consensus 75 ~nkr~TltsrEIqtAvrLvLpgELaKhAvsEGtkAv~k~~~~ 116 (116)
T PLN00158 75 YNKKPTVTSREIQTAVRLILPGELAKHAVSEGTKAVTKFTSA 116 (116)
T ss_pred ccCCCcCCHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhhcC
Confidence 999999999999999999999999999999999999999874
No 4
>PTZ00463 histone H2B; Provisional
Probab=100.00 E-value=5.3e-50 Score=324.86 Aligned_cols=113 Identities=67% Similarity=0.992 Sum_probs=101.7
Q ss_pred hhhhcccccccccchhhcccccccchhHHHHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCC
Q psy13072 12 KKAGKAQKNIAKSDKKKKKKHRRKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTIT 91 (257)
Q Consensus 12 ~k~~k~~~~~~~~~~~kk~~~k~~esy~~yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~Tlt 91 (257)
+|+|+++......+.++++++++.|+|++||||||||||||+|||++||+||||||||||||||.||++|++||+++|||
T Consensus 4 ~~~~~~~~~~~~~~~~kk~~~kr~esy~~YI~KVLKqVhPd~gIS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~Tlt 83 (117)
T PTZ00463 4 KKPAKAKKAATGPDGKKKRKKSRYDSYGLYIFKVLKQVHPDTGISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLS 83 (117)
T ss_pred ccccccccCCCCCCccccccccccchHHHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCC
Confidence 45566665543222235667778999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHhCChhHHHhHHHhhhhhhhhccC
Q psy13072 92 SREIQTAVRLLLPGELAKHAVSEGTKAVTKYTS 124 (257)
Q Consensus 92 sreIqtAvrllLpGeLaKhAv~eG~kAV~ky~s 124 (257)
+|||||||||+|||||+||||+||++||++|++
T Consensus 84 srEIQtAvrLlLpGELaKhAvsEGtkAv~k~~~ 116 (117)
T PTZ00463 84 SREIQTAIRLVLPGELAKHAVSEGTKAVTKFTS 116 (117)
T ss_pred HHHHHHHHhhcccHHHHHhhhhHHHHHHHHhhc
Confidence 999999999999999999999999999999985
No 5
>smart00427 H2B Histone H2B.
Probab=100.00 E-value=1.7e-48 Score=304.18 Aligned_cols=89 Identities=89% Similarity=1.240 Sum_probs=87.8
Q ss_pred chhHHHHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHHhcchHHHhhHHhhh
Q psy13072 167 ESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEG 246 (257)
Q Consensus 167 esy~~YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrllLpgeLakhAv~eG 246 (257)
|+|++||||||||||||+|||++||+||||||||||||||.||++|++||+|+|||+||||+||||+|||||+||||+||
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 psy13072 247 TKAVTKYTS 255 (257)
Q Consensus 247 ~kAV~ky~s 255 (257)
||||++|++
T Consensus 81 tkAv~k~~~ 89 (89)
T smart00427 81 TKAVTKYSS 89 (89)
T ss_pred HHHHHhhcC
Confidence 999999985
No 6
>smart00427 H2B Histone H2B.
Probab=100.00 E-value=4.4e-47 Score=296.20 Aligned_cols=89 Identities=89% Similarity=1.240 Sum_probs=87.7
Q ss_pred chhHHHHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHHhCChhHHHhHHHhh
Q psy13072 36 ESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEG 115 (257)
Q Consensus 36 esy~~yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrllLpGeLaKhAv~eG 115 (257)
|+|++||||||||||||+|||++||+||||||||||||||.||++|++||+++|||+||||+||||+|||||+||||+||
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 hhhhhhccC
Q psy13072 116 TKAVTKYTS 124 (257)
Q Consensus 116 ~kAV~ky~s 124 (257)
+|||++|++
T Consensus 81 tkAv~k~~~ 89 (89)
T smart00427 81 TKAVTKYSS 89 (89)
T ss_pred HHHHHhhcC
Confidence 999999974
No 7
>KOG1744|consensus
Probab=100.00 E-value=5e-44 Score=294.01 Aligned_cols=101 Identities=84% Similarity=1.169 Sum_probs=97.9
Q ss_pred ccccccccCCchhHHHHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHHhcch
Q psy13072 157 SDKKKKHRRKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPG 236 (257)
Q Consensus 157 ~~kk~~~~~~esy~~YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrllLpg 236 (257)
++|++..++.|+|+.||||||||||||+|||++||+|||||+|||||+||.||++|++||+|+||++||||+||||+|||
T Consensus 27 ~gk~~~~~~~e~~s~yv~kvlk~Vhpd~gis~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta~rLllPg 106 (127)
T KOG1744|consen 27 AGKKRSTRRKESYSEYVYKVLKQVHPDLGISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTAVRLLLPG 106 (127)
T ss_pred ccccCcccccCceeeehhhhhhcccCCCCcCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHHHHHhCch
Confidence 34777899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhHHhhhhhhhhcccCCC
Q psy13072 237 ELAKHAVSEGTKAVTKYTSSK 257 (257)
Q Consensus 237 eLakhAv~eG~kAV~ky~ssk 257 (257)
||++||++|||+||++|++++
T Consensus 107 el~khA~seGtkav~ky~~sk 127 (127)
T KOG1744|consen 107 ELAKHAVSEGTKAVTKYTSSK 127 (127)
T ss_pred HHhhhhhcccchhheeeccCC
Confidence 999999999999999999985
No 8
>KOG1744|consensus
Probab=100.00 E-value=7.5e-43 Score=287.04 Aligned_cols=126 Identities=71% Similarity=0.928 Sum_probs=109.1
Q ss_pred CCCCCCCcchhhhhhccccc-ccccchhhcccccccchhHHHHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHh
Q psy13072 1 MAAGKSSGKAVKKAGKAQKN-IAKSDKKKKKKHRRKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESS 79 (257)
Q Consensus 1 ~~~~~~~~~~~~k~~k~~~~-~~~~~~~kk~~~k~~esy~~yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs 79 (257)
|+..-+...++.+.+..+.. +.+++.+|++..++.|+|+.||||||||||||+|||++||+|||||+|||||+||.||+
T Consensus 1 m~~~~~~~~~~~~~~~~~~~~k~~kk~gk~~~~~~~e~~s~yv~kvlk~Vhpd~gis~~a~~vmnsf~ndife~iA~ea~ 80 (127)
T KOG1744|consen 1 MASPATKKAPGSKKFLPKAFKKAQKKAGKKRSTRRKESYSEYVYKVLKQVHPDLGISSKAMGVMNSFVNDIFERIASEAG 80 (127)
T ss_pred CCCcccccCCcccccccchhccccccccccCcccccCceeeehhhhhhcccCCCCcCHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44444455555554333333 34445557788999999999999999999999999999999999999999999999999
Q ss_pred hhhhhcCCCCCChhHHHHHHHHhCChhHHHhHHHhhhhhhhhccCCC
Q psy13072 80 RLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSSK 126 (257)
Q Consensus 80 ~L~~~~kk~TltsreIqtAvrllLpGeLaKhAv~eG~kAV~ky~s~~ 126 (257)
+|++||+++||++||||+||||+|||||++||++||++||++|++++
T Consensus 81 rla~y~krstisSreiqta~rLllPgel~khA~seGtkav~ky~~sk 127 (127)
T KOG1744|consen 81 RLAHYNKRSTISSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSSK 127 (127)
T ss_pred hhhhhcCCCcccHHHHHHHHHHhCchHHhhhhhcccchhheeeccCC
Confidence 99999999999999999999999999999999999999999999864
No 9
>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=99.50 E-value=2.3e-14 Score=106.42 Aligned_cols=68 Identities=31% Similarity=0.430 Sum_probs=65.0
Q ss_pred CCchhHHHHHHHhhhcCCC----CCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHH
Q psy13072 165 RKESYAIYIYKVLKQVHPD----TGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 232 (257)
Q Consensus 165 ~~esy~~YI~kVLKQVhpd----~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrl 232 (257)
+...+..||.|++++++++ ..||+.||.+|+++++|++++|.++|..++.+++|.||+++|||.|+|+
T Consensus 3 ~~~~~~~~~~r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r~ 74 (75)
T PF00125_consen 3 RRLIPKFPFSRLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLAVRI 74 (75)
T ss_dssp SHSSSHHHHHHHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHHH
T ss_pred ccccCceEEeeeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHHHhc
Confidence 4567889999999999999 8999999999999999999999999999999999999999999999986
No 10
>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=99.40 E-value=3.2e-13 Score=100.29 Aligned_cols=69 Identities=30% Similarity=0.423 Sum_probs=65.6
Q ss_pred cccchhHHHHHHHhhhhCCC----CCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHH
Q psy13072 33 RRKESYAIYIYKVLKQVHPD----TGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 101 (257)
Q Consensus 33 k~~esy~~yI~KVLKqVhpd----~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrl 101 (257)
++...+..||+|++++++++ ..||++||.+|++++.|++.+|.++|..++.+++|.||+++|||.|+++
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 34677899999999999999 8999999999999999999999999999999999999999999999986
No 11
>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=98.09 E-value=1.6e-05 Score=59.74 Aligned_cols=60 Identities=17% Similarity=0.402 Sum_probs=57.5
Q ss_pred HHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHH
Q psy13072 173 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 232 (257)
Q Consensus 173 I~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrl 232 (257)
+...++++.|+..++..|...|-.+.+|+.+.|+++|..||.+.++.||..+|||.+++-
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 668899999999999999999999999999999999999999999999999999999864
No 12
>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=97.91 E-value=5.6e-05 Score=56.80 Aligned_cols=60 Identities=17% Similarity=0.402 Sum_probs=57.1
Q ss_pred HHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHH
Q psy13072 42 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 101 (257)
Q Consensus 42 I~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrl 101 (257)
+...++++.|...++..|...|-.+..|+.+.++.+|..||.+.++.||..+|||-+++-
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 567899999999999999999999999999999999999999999999999999998874
No 13
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=97.90 E-value=2.9e-05 Score=61.51 Aligned_cols=63 Identities=25% Similarity=0.407 Sum_probs=59.2
Q ss_pred HHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHHhcch
Q psy13072 173 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPG 236 (257)
Q Consensus 173 I~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrllLpg 236 (257)
|-|++|++.++ .||..|...|+..+..+++.|+++|..+|...+|.||+..||+.|.+.+.+.
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 67888888888 9999999999999999999999999999999999999999999999987654
No 14
>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=97.88 E-value=3.5e-05 Score=63.33 Aligned_cols=65 Identities=23% Similarity=0.267 Sum_probs=59.4
Q ss_pred hhHH-HHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHH
Q psy13072 168 SYAI-YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 232 (257)
Q Consensus 168 sy~~-YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrl 232 (257)
.|.. =|+|.|++-..-..||..|..+|...+.++...|.+.|.+.++.+++.+||+|+|+.|++-
T Consensus 20 ~fPV~ri~R~Lk~~~~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi~n 85 (115)
T cd00074 20 QFPVGRIHRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAVRN 85 (115)
T ss_pred cCcHHHHHHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHHhc
Confidence 3443 4999999877779999999999999999999999999999999999999999999999983
No 15
>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=97.82 E-value=7.2e-05 Score=54.44 Aligned_cols=58 Identities=28% Similarity=0.458 Sum_probs=52.3
Q ss_pred HHHHHhhhcCCC-CCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHH
Q psy13072 172 YIYKVLKQVHPD-TGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAV 230 (257)
Q Consensus 172 YI~kVLKQVhpd-~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAv 230 (257)
=|.|++|+. || ..||..|...|+-....+.+.|+.+|...+..++|+||+.+||..||
T Consensus 7 ~vkri~k~~-~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~~rkti~~~Dv~~Av 65 (65)
T PF00808_consen 7 RVKRIMKSD-PDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTITYEDVAKAV 65 (65)
T ss_dssp HHHHHHHHT-STTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE-HHHHHHHH
T ss_pred HHHHHhccC-CCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHC
Confidence 388999998 77 56999999999999999999999999999999999999999999986
No 16
>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=97.72 E-value=0.00013 Score=53.08 Aligned_cols=58 Identities=28% Similarity=0.458 Sum_probs=52.2
Q ss_pred HHHHHhhhhCCC-CCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHH
Q psy13072 41 YIYKVLKQVHPD-TGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAV 99 (257)
Q Consensus 41 yI~KVLKqVhpd-~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAv 99 (257)
=|.|++|+. || ..||.+|...|.-....+.+.|+.+|...+..++++||+.+||..|+
T Consensus 7 ~vkri~k~~-~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~~rkti~~~Dv~~Av 65 (65)
T PF00808_consen 7 RVKRIMKSD-PDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTITYEDVAKAV 65 (65)
T ss_dssp HHHHHHHHT-STTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE-HHHHHHHH
T ss_pred HHHHHhccC-CCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHC
Confidence 488999999 66 56999999999999999999999999999999999999999999886
No 17
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=97.67 E-value=0.00011 Score=58.18 Aligned_cols=64 Identities=25% Similarity=0.385 Sum_probs=59.6
Q ss_pred HHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHHhCCh
Q psy13072 41 YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPG 105 (257)
Q Consensus 41 yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrllLpG 105 (257)
=|-|++|++.++ .+|..|...|+-.+..+++-|+.+|..++.+.+|+||+..||+.|.+.+.+.
T Consensus 24 pv~Ri~r~~~~~-Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~~~~~~ 87 (91)
T COG2036 24 PVRRILRKAGAE-RVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALKRLGRR 87 (91)
T ss_pred HHHHHHHHHhHH-HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHHHhccc
Confidence 367888998888 9999999999999999999999999999999999999999999999987764
No 18
>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=97.27 E-value=0.001 Score=49.32 Aligned_cols=59 Identities=24% Similarity=0.334 Sum_probs=52.5
Q ss_pred HHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHH
Q psy13072 172 YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 231 (257)
Q Consensus 172 YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvr 231 (257)
.|.++.+...-+ .||..+..-|-..+.+..+.|+.+|..++++.+|.|||..||..|++
T Consensus 7 ~i~ria~~~Gi~-ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk 65 (65)
T smart00803 7 TIKDVAESLGIG-NLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR 65 (65)
T ss_pred HHHHHHHHCCCc-cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence 477778876543 69999999999999999999999999999999999999999988864
No 19
>PLN00157 histone H2A; Provisional
Probab=97.25 E-value=0.00043 Score=58.28 Aligned_cols=66 Identities=26% Similarity=0.266 Sum_probs=60.8
Q ss_pred CchhHH-HHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHH
Q psy13072 166 KESYAI-YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 231 (257)
Q Consensus 166 ~esy~~-YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvr 231 (257)
.-.|.. =|+|.|++-+....|+..|.-+|-..+.++..+|.+.|.+-++.+++..|++|+||.|++
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 334554 599999998888999999999999999999999999999999999999999999999998
No 20
>PTZ00017 histone H2A; Provisional
Probab=97.17 E-value=0.00064 Score=57.38 Aligned_cols=65 Identities=22% Similarity=0.269 Sum_probs=60.0
Q ss_pred chhHH-HHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHH
Q psy13072 167 ESYAI-YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 231 (257)
Q Consensus 167 esy~~-YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvr 231 (257)
-.|.. =|+|.|+.-+.-..|+.-|.-+|-..+.++...|.+.|.+-++.+++..||+|+||.|++
T Consensus 26 L~FPVgRi~R~Lk~g~~a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~RItPrHi~lAI~ 91 (134)
T PTZ00017 26 LQFPVGRVHRYLKKGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLAIR 91 (134)
T ss_pred cccchHHHHHHHhccchhccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHhhcc
Confidence 34544 599999998888899999999999999999999999999999999999999999999998
No 21
>PLN00153 histone H2A; Provisional
Probab=97.17 E-value=0.00066 Score=56.99 Aligned_cols=66 Identities=20% Similarity=0.253 Sum_probs=60.7
Q ss_pred CchhHH-HHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHH
Q psy13072 166 KESYAI-YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 231 (257)
Q Consensus 166 ~esy~~-YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvr 231 (257)
.-.|.. =|+|.|++-+.-..|+.-|..+|-..+.++..+|.+.|.+-++.+++..|++|+||.||+
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 344554 599999998888899999999999999999999999999999999999999999999998
No 22
>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=97.16 E-value=0.0017 Score=48.80 Aligned_cols=59 Identities=19% Similarity=0.412 Sum_probs=48.9
Q ss_pred HHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHH
Q psy13072 173 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 231 (257)
Q Consensus 173 I~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvr 231 (257)
+...++||-|+..+...+..+|-.+.+|+.+.+.+.|++||.+.+..||..+|||....
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 66789999999999999999999999999999999999999999999999999998654
No 23
>PLN00156 histone H2AX; Provisional
Probab=97.15 E-value=0.0011 Score=56.25 Aligned_cols=65 Identities=23% Similarity=0.268 Sum_probs=60.5
Q ss_pred chhHH-HHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHH
Q psy13072 167 ESYAI-YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 231 (257)
Q Consensus 167 esy~~-YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvr 231 (257)
-.|.. =|+|.|+.-+....|+..|.-+|-..+.++..+|.+.|.+-++.+++..|++|+||.||+
T Consensus 28 L~FPVgRi~R~Lk~g~ya~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi~lAIr 93 (139)
T PLN00156 28 LQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
T ss_pred cccchHHHHHHHhcCChhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHhhcc
Confidence 35655 599999998888899999999999999999999999999999999999999999999998
No 24
>smart00428 H3 Histone H3.
Probab=97.14 E-value=0.0023 Score=51.98 Aligned_cols=69 Identities=22% Similarity=0.297 Sum_probs=62.7
Q ss_pred CCchhHHHHHHHhhhcCC--CCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHHh
Q psy13072 165 RKESYAIYIYKVLKQVHP--DTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLL 233 (257)
Q Consensus 165 ~~esy~~YI~kVLKQVhp--d~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrll 233 (257)
++-.|+.-+..+..+..+ |..+++.|+..|.....+....+.++|..++.+.+|.||+++|||.|.||-
T Consensus 31 ~k~pF~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi~La~rir 101 (105)
T smart00428 31 RKAPFQRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQLARRIR 101 (105)
T ss_pred ccccHHHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhHHHHHHHh
Confidence 345688888888888888 899999999999999999999999999999999999999999999999863
No 25
>smart00414 H2A Histone 2A.
Probab=97.13 E-value=0.00093 Score=54.19 Aligned_cols=60 Identities=22% Similarity=0.263 Sum_probs=57.5
Q ss_pred HHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHH
Q psy13072 172 YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 231 (257)
Q Consensus 172 YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvr 231 (257)
.|+|.|+.-..-..|++-|.-+|-..+.++...|.+.|.+-++.+++..||+|+||.|++
T Consensus 14 Ri~r~Lk~~~~~~Rv~~~A~VyLaAvLEYLtaEILeLagn~a~~~k~~rItp~hi~lAi~ 73 (106)
T smart00414 14 RIHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIR 73 (106)
T ss_pred HHHHHHHcCccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchHHHhhhcc
Confidence 599999998888899999999999999999999999999999999999999999999998
No 26
>PLN00035 histone H4; Provisional
Probab=97.00 E-value=0.003 Score=51.19 Aligned_cols=60 Identities=12% Similarity=0.168 Sum_probs=54.0
Q ss_pred HHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHH
Q psy13072 172 YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 232 (257)
Q Consensus 172 YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrl 232 (257)
-|.|+++.-. --.||..+..-+...++++++.|+.+|..++.+.+|.||+..||-.|++.
T Consensus 34 ~IrRLARr~G-vkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~Alkr 93 (103)
T PLN00035 34 AIRRLARRGG-VKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKR 93 (103)
T ss_pred HHHHHHHHcC-cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHH
Confidence 4777777654 46799999999999999999999999999999999999999999999874
No 27
>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=96.98 E-value=0.0026 Score=47.72 Aligned_cols=59 Identities=19% Similarity=0.412 Sum_probs=48.6
Q ss_pred HHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHH
Q psy13072 42 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 100 (257)
Q Consensus 42 I~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvr 100 (257)
+...++||-|+..+...+-.+|-.+.+|+.+.+...|++||.+.+..||..+|||...+
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 56689999999999999999999999999999999999999999999999999998764
No 28
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]
Probab=96.93 E-value=0.0016 Score=54.08 Aligned_cols=60 Identities=20% Similarity=0.253 Sum_probs=57.5
Q ss_pred HHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHH
Q psy13072 172 YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 231 (257)
Q Consensus 172 YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvr 231 (257)
-|.|+||.-...+.|++.|.-.+...+.++..+|.+-|.+-|+-+++..|++|.||.|+|
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 489999977888999999999999999999999999999999999999999999999998
No 29
>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=96.93 E-value=0.0038 Score=48.88 Aligned_cols=60 Identities=13% Similarity=0.209 Sum_probs=53.0
Q ss_pred HHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHH
Q psy13072 172 YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 232 (257)
Q Consensus 172 YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrl 232 (257)
-|.|+++.-. -..||..+..-+...++.+++.|+.+|..++.+.+|.||+..||-.|++.
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 4777777543 46799999999999999999999999999999999999999999998874
No 30
>PTZ00252 histone H2A; Provisional
Probab=96.92 E-value=0.0019 Score=54.57 Aligned_cols=66 Identities=15% Similarity=0.201 Sum_probs=59.5
Q ss_pred CchhHH-HHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhh--cCCcccChhHHHHHHH
Q psy13072 166 KESYAI-YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHY--NKRSTITSREIQTAVR 231 (257)
Q Consensus 166 ~esy~~-YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~--~kr~Tit~reIqtAvr 231 (257)
.-.|.. -|+|.|++-+....|++-|.-+|-.++.++..+|.+.|.+-++. +++..|++|+||.||+
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 345554 59999999998899999999999999999999999999999954 8999999999999998
No 31
>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=96.86 E-value=0.0038 Score=46.29 Aligned_cols=59 Identities=24% Similarity=0.327 Sum_probs=51.6
Q ss_pred HHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHH
Q psy13072 41 YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 100 (257)
Q Consensus 41 yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvr 100 (257)
.|.++.+...- ..||..+...|-..+.+..+.|+.+|..++++.+|+|||..||-.|++
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 46777777643 368999999999999999999999999999999999999999988764
No 32
>PTZ00015 histone H4; Provisional
Probab=96.85 E-value=0.003 Score=51.10 Aligned_cols=61 Identities=15% Similarity=0.262 Sum_probs=53.6
Q ss_pred HHHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHH
Q psy13072 171 IYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 232 (257)
Q Consensus 171 ~YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrl 232 (257)
.-|.|+++.- -=-.||..+..-+..+++++++.|+.+|..++.+.+|.|++..||-.|++.
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 4577777754 235699999999999999999999999999999999999999999998864
No 33
>PLN00035 histone H4; Provisional
Probab=96.85 E-value=0.0048 Score=50.03 Aligned_cols=61 Identities=11% Similarity=0.151 Sum_probs=54.9
Q ss_pred HHHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHH
Q psy13072 40 IYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 101 (257)
Q Consensus 40 ~yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrl 101 (257)
.-|.|+++.-- --.||..+...+...+.++++.|+.+|..++.+.+|+||+..||..|++.
T Consensus 33 ~~IrRLARr~G-vkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~Alkr 93 (103)
T PLN00035 33 PAIRRLARRGG-VKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKR 93 (103)
T ss_pred HHHHHHHHHcC-cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHH
Confidence 35778888764 46899999999999999999999999999999999999999999999875
No 34
>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=96.84 E-value=0.003 Score=51.99 Aligned_cols=65 Identities=23% Similarity=0.229 Sum_probs=58.1
Q ss_pred chhH-HHHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHH
Q psy13072 36 ESYA-IYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 100 (257)
Q Consensus 36 esy~-~yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvr 100 (257)
-.|. .=|+|.|++-.-..-||..|..-|-..+.++...|.+.|.+.++.+++.+||+++|+.|++
T Consensus 19 L~fPV~ri~R~Lk~~~~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi~ 84 (115)
T cd00074 19 LQFPVGRIHRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAVR 84 (115)
T ss_pred ccCcHHHHHHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHHh
Confidence 3454 3699999986666899999999999999999999999999999999999999999999998
No 35
>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=96.77 E-value=0.006 Score=47.76 Aligned_cols=61 Identities=13% Similarity=0.191 Sum_probs=53.5
Q ss_pred HHHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHH
Q psy13072 40 IYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 101 (257)
Q Consensus 40 ~yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrl 101 (257)
.-|.|+++.-- -..||..+..-+...+..+++.|+.+|..++.+.+++|++..||..|++.
T Consensus 17 ~~I~RLarr~G-vkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr 77 (85)
T cd00076 17 PAIRRLARRGG-VKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKR 77 (85)
T ss_pred HHHHHHHHHcC-cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHH
Confidence 35777777653 46789999999999999999999999999999999999999999988874
No 36
>PLN00154 histone H2A; Provisional
Probab=96.67 E-value=0.0055 Score=51.92 Aligned_cols=64 Identities=20% Similarity=0.234 Sum_probs=58.4
Q ss_pred hhHH-HHHHHhhhcC-CCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHH
Q psy13072 168 SYAI-YIYKVLKQVH-PDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 231 (257)
Q Consensus 168 sy~~-YI~kVLKQVh-pd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvr 231 (257)
.|-. =|.|.||+-. ....|++.|..+|-..+.++.-+|.+.|.+-++.+++..||+|+||.|++
T Consensus 38 ~FPVgRi~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lAIr 103 (136)
T PLN00154 38 QFPVGRIHRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 103 (136)
T ss_pred cCchHHHHHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhhcc
Confidence 4544 5899999975 46799999999999999999999999999999999999999999999998
No 37
>PTZ00015 histone H4; Provisional
Probab=96.60 E-value=0.0055 Score=49.56 Aligned_cols=61 Identities=15% Similarity=0.262 Sum_probs=54.0
Q ss_pred HHHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHH
Q psy13072 40 IYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 101 (257)
Q Consensus 40 ~yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrl 101 (257)
.-|.|+++.- ---.||..+...+...+.++++.|+.+|..++.+.+++|++..||..|++.
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 4678888764 336789999999999999999999999999999999999999999888764
No 38
>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=96.52 E-value=0.013 Score=48.16 Aligned_cols=64 Identities=11% Similarity=0.172 Sum_probs=57.4
Q ss_pred HHHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHHhcc
Q psy13072 171 IYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLP 235 (257)
Q Consensus 171 ~YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrllLp 235 (257)
..|.++||..+ ....+..+...|.-|+....+.|+.+|..++.+.+|.||+..||..|+...+.
T Consensus 5 ~~v~~iLk~~G-v~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~r~~ 68 (117)
T cd07979 5 RVIAAILKSMG-ITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQSRVD 68 (117)
T ss_pred HHHHHHHHHCC-CCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhc
Confidence 46888898652 34689999999999999999999999999999999999999999999998774
No 39
>smart00428 H3 Histone H3.
Probab=96.51 E-value=0.014 Score=47.44 Aligned_cols=69 Identities=22% Similarity=0.297 Sum_probs=62.7
Q ss_pred ccchhHHHHHHHhhhhCC--CCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHHh
Q psy13072 34 RKESYAIYIYKVLKQVHP--DTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLL 102 (257)
Q Consensus 34 ~~esy~~yI~KVLKqVhp--d~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrll 102 (257)
++-.|+..+..+..+..+ |.-+++.|+..|....-++...+.++|..++.+.++.||..+|||-|.+|-
T Consensus 31 ~k~pF~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi~La~rir 101 (105)
T smart00428 31 RKAPFQRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQLARRIR 101 (105)
T ss_pred ccccHHHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhHHHHHHHh
Confidence 455788888888888888 899999999999999999999999999999999999999999999998864
No 40
>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=96.01 E-value=0.032 Score=45.80 Aligned_cols=65 Identities=12% Similarity=0.182 Sum_probs=57.1
Q ss_pred HHHHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHHhCC
Q psy13072 39 AIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLP 104 (257)
Q Consensus 39 ~~yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrllLp 104 (257)
...|.++|+.-. ....+..+...|--|+..+.+.|+.+|..++.+.+|+||+..||..|+...+.
T Consensus 4 ~~~v~~iLk~~G-v~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~r~~ 68 (117)
T cd07979 4 ARVIAAILKSMG-ITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQSRVD 68 (117)
T ss_pred HHHHHHHHHHCC-CCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhc
Confidence 346888888752 24678999999999999999999999999999999999999999999987765
No 41
>KOG1756|consensus
Probab=95.96 E-value=0.016 Score=48.66 Aligned_cols=60 Identities=23% Similarity=0.282 Sum_probs=57.8
Q ss_pred HHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHH
Q psy13072 172 YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 231 (257)
Q Consensus 172 YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvr 231 (257)
-|.|.|+.-..-..|+.-|-.+|...+.++--.|.+-|.+-|+-|++..|++|.||.|++
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 699999998888999999999999999999999999999999999999999999999998
No 42
>smart00417 H4 Histone H4.
Probab=95.93 E-value=0.015 Score=44.48 Aligned_cols=55 Identities=11% Similarity=0.204 Sum_probs=47.7
Q ss_pred HHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHH
Q psy13072 173 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQT 228 (257)
Q Consensus 173 I~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqt 228 (257)
|.|+++.-. =-.||..+..-+..+++++++.|+.+|..++.+.+|.|++..||-.
T Consensus 19 IrRLaRr~G-vkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~~ 73 (74)
T smart00417 19 IRRLARRGG-VKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVVY 73 (74)
T ss_pred HHHHHHHcC-cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHhee
Confidence 677777532 3468999999999999999999999999999999999999999853
No 43
>KOG0869|consensus
Probab=95.56 E-value=0.043 Score=47.68 Aligned_cols=61 Identities=21% Similarity=0.361 Sum_probs=55.5
Q ss_pred HHHHhhhcCCC-CCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHHh
Q psy13072 173 IYKVLKQVHPD-TGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLL 233 (257)
Q Consensus 173 I~kVLKQVhpd-~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrll 233 (257)
|-|+.|+.-|. ..||..|-..|.-.|..+..=|..||+.-|+..+|+||+..||..|+--|
T Consensus 38 V~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~tL 99 (168)
T KOG0869|consen 38 VSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMSTL 99 (168)
T ss_pred HHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHHHc
Confidence 66888888776 56999999999999999999999999999999999999999999998643
No 44
>smart00417 H4 Histone H4.
Probab=95.53 E-value=0.018 Score=44.06 Aligned_cols=55 Identities=11% Similarity=0.201 Sum_probs=47.4
Q ss_pred HHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHH
Q psy13072 41 YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQ 96 (257)
Q Consensus 41 yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIq 96 (257)
-|.|+++.- ---.||..+..-+..++.++++.|+.+|..++.+.+++|++..||.
T Consensus 18 ~IrRLaRr~-GvkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~ 72 (74)
T smart00417 18 AIRRLARRG-GVKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVV 72 (74)
T ss_pred HHHHHHHHc-CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHhe
Confidence 467777754 2356898999999999999999999999999999999999999985
No 45
>KOG0871|consensus
Probab=94.93 E-value=0.094 Score=45.22 Aligned_cols=65 Identities=22% Similarity=0.364 Sum_probs=59.3
Q ss_pred HHHHhhhcCC-CCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHHhcchH
Q psy13072 173 IYKVLKQVHP-DTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGE 237 (257)
Q Consensus 173 I~kVLKQVhp-d~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrllLpge 237 (257)
|.|++|.+-| |..+...|-++++..--.+..-|+.||...|....+.||.+..|+.|..-|==||
T Consensus 18 v~KmIke~lP~d~rvakeareliincCvEFI~liSsEAneic~~e~KKTIa~EHV~KALe~LgF~e 83 (156)
T KOG0871|consen 18 VNKMIKEMLPKDVRVAKEARELIINCCVEFINLISSEANEICNKEAKKTIAPEHVIKALENLGFGE 83 (156)
T ss_pred HHHHHHHhCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcccCCHHHHHHHHHHcchHH
Confidence 7899999999 9999999999999988889999999999999999999999999999987654343
No 46
>KOG0869|consensus
Probab=94.87 E-value=0.09 Score=45.77 Aligned_cols=62 Identities=21% Similarity=0.348 Sum_probs=56.2
Q ss_pred HHHHHhhhhCCC-CCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHHh
Q psy13072 41 YIYKVLKQVHPD-TGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLL 102 (257)
Q Consensus 41 yI~KVLKqVhpd-~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrll 102 (257)
-|-|+.|..-|. ..||..|-..|--.|..+.-=|..||+.-|+..+|+||+..||..|+--|
T Consensus 37 NV~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~tL 99 (168)
T KOG0869|consen 37 NVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMSTL 99 (168)
T ss_pred HHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHHHc
Confidence 467888888665 68999999999999999999999999999999999999999999998754
No 47
>KOG1142|consensus
Probab=94.87 E-value=0.035 Score=51.46 Aligned_cols=68 Identities=21% Similarity=0.323 Sum_probs=60.9
Q ss_pred HHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHH----hcchHHH
Q psy13072 172 YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL----LLPGELA 239 (257)
Q Consensus 172 YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrl----lLpgeLa 239 (257)
-+...|+||.+++.|....-++|--+..|+.|.|..-|+.||.+.|..||-.|||+..+.- -|||.=+
T Consensus 159 kl~dLvqqId~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhLEr~~Nm~iPgf~s 230 (258)
T KOG1142|consen 159 KLDDLVQQIDGTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHLERNFNMEIPGFSS 230 (258)
T ss_pred chhHHHHhhcCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeeeeccccccCCCccc
Confidence 3778999999999999999999999999999999999999999999999999999988753 4566533
No 48
>PLN00121 histone H3; Provisional
Probab=94.71 E-value=0.12 Score=43.80 Aligned_cols=67 Identities=19% Similarity=0.245 Sum_probs=58.2
Q ss_pred CchhHHHHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHH
Q psy13072 166 KESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 232 (257)
Q Consensus 166 ~esy~~YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrl 232 (257)
+-.|...+..+.....+++.+.+.|+.-|.--..+.+-.+-+++.-.+.+.+|.||.++|||.|.||
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 3467777777777778889999999999988888888888889999999999999999999999885
No 49
>KOG0871|consensus
Probab=94.57 E-value=0.13 Score=44.36 Aligned_cols=78 Identities=19% Similarity=0.341 Sum_probs=65.9
Q ss_pred HHHHHhhhhCC-CCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHHhCChhHHHhHHHhhhhhh
Q psy13072 41 YIYKVLKQVHP-DTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAV 119 (257)
Q Consensus 41 yI~KVLKqVhp-d~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrllLpGeLaKhAv~eG~kAV 119 (257)
-|.|+++.+-| |+.+..+|-++++..--.+..-|+.||.++|....++||....|+.|..-|-=||. |.|...+.
T Consensus 17 tv~KmIke~lP~d~rvakeareliincCvEFI~liSsEAneic~~e~KKTIa~EHV~KALe~LgF~eY----iee~~~vl 92 (156)
T KOG0871|consen 17 TVNKMIKEMLPKDVRVAKEARELIINCCVEFINLISSEANEICNKEAKKTIAPEHVIKALENLGFGEY----IEEAEEVL 92 (156)
T ss_pred HHHHHHHHhCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcccCCHHHHHHHHHHcchHHH----HHHHHHHH
Confidence 47899999999 99999999998888888899999999999999999999999999999997766654 34444444
Q ss_pred hhc
Q psy13072 120 TKY 122 (257)
Q Consensus 120 ~ky 122 (257)
..|
T Consensus 93 ~~~ 95 (156)
T KOG0871|consen 93 ENC 95 (156)
T ss_pred HHH
Confidence 444
No 50
>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=94.54 E-value=0.13 Score=38.54 Aligned_cols=47 Identities=23% Similarity=0.355 Sum_probs=38.9
Q ss_pred CcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHH
Q psy13072 185 GVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 231 (257)
Q Consensus 185 ~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvr 231 (257)
.++..+-..|-.=+++-+..|..||.++++..+|.+||+.||..|.|
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 46778888888888889999999999999999999999999999976
No 51
>PTZ00018 histone H3; Provisional
Probab=94.48 E-value=0.15 Score=43.33 Aligned_cols=67 Identities=19% Similarity=0.245 Sum_probs=57.8
Q ss_pred CchhHHHHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHH
Q psy13072 166 KESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 232 (257)
Q Consensus 166 ~esy~~YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrl 232 (257)
+-.|...+..+..+..+++.+.+.|+.-|.--..+.+-.+-+++.-.+.+.+|.||.++|||.|.||
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 3457777777777777889999999999988888888888889999999999999999999999885
No 52
>KOG1142|consensus
Probab=94.42 E-value=0.052 Score=50.38 Aligned_cols=67 Identities=21% Similarity=0.338 Sum_probs=60.0
Q ss_pred HHHHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHH----hCCh
Q psy13072 39 AIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL----LLPG 105 (257)
Q Consensus 39 ~~yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrl----lLpG 105 (257)
..-+...++||.++..|..+.-++|--+..|+.+.|..-|+.||.+.+..||-+|||+..++- -+||
T Consensus 157 k~kl~dLvqqId~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhLEr~~Nm~iPg 227 (258)
T KOG1142|consen 157 KRKLDDLVQQIDGTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHLERNFNMEIPG 227 (258)
T ss_pred ccchhHHHHhhcCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeeeeccccccCCC
Confidence 345778999999999999999999999999999999999999999999999999999987653 4565
No 53
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]
Probab=94.13 E-value=0.12 Score=43.09 Aligned_cols=90 Identities=20% Similarity=0.231 Sum_probs=68.4
Q ss_pred hhcccccccccchhhcccccccchhH-HHHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCCh
Q psy13072 14 AGKAQKNIAKSDKKKKKKHRRKESYA-IYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITS 92 (257)
Q Consensus 14 ~~k~~~~~~~~~~~kk~~~k~~esy~-~yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~Tlts 92 (257)
+||+..++.+++ +.-+..-.|- .-|.|+||.-.-.+.|++.|.--+...+..+.-.|.+-|.+-++-++++-|++
T Consensus 7 GgK~a~~r~~~s----~sa~agl~fpvgrvkr~lk~~~~~~Rig~~A~Vyl~AvleYL~aEilelAgNaA~d~kkkri~P 82 (132)
T COG5262 7 GGKAADARVSQS----RSAKAGLIFPVGRVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIP 82 (132)
T ss_pred Ccccccchhccc----hhhhcCccccHHHHHHHHHcCccceeecCCcHHHHHHHHHHHHHHHHHHhhhhhhhcCcceech
Confidence 566555444332 2222233444 36999999777779999999998888888888899999999999999999999
Q ss_pred hHHHHHHHHhCChhHHH
Q psy13072 93 REIQTAVRLLLPGELAK 109 (257)
Q Consensus 93 reIqtAvrllLpGeLaK 109 (257)
|.||-|+| =..||-+
T Consensus 83 rHlqlAIr--nD~EL~~ 97 (132)
T COG5262 83 RHLQLAIR--NDEELNK 97 (132)
T ss_pred HHHHHHhc--CcHHHHH
Confidence 99999998 5556633
No 54
>PLN00154 histone H2A; Provisional
Probab=94.06 E-value=0.21 Score=42.49 Aligned_cols=71 Identities=21% Similarity=0.183 Sum_probs=55.8
Q ss_pred hhH-HHHHHHhhhhC-CCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHHhCChhHHH
Q psy13072 37 SYA-IYIYKVLKQVH-PDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAK 109 (257)
Q Consensus 37 sy~-~yI~KVLKqVh-pd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrllLpGeLaK 109 (257)
.|- .-|+|.|++.. -..-|++.|.--|-..+.++.-.|-+-|.+-++.+++.-||+|.||.|++ =..||..
T Consensus 38 ~FPVgRi~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lAIr--nDeEL~~ 110 (136)
T PLN00154 38 QFPVGRIHRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR--GDEELDT 110 (136)
T ss_pred cCchHHHHHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhhcc--CcHHHHH
Confidence 454 47999999975 45688888888777777777777777788888999999999999999998 4455543
No 55
>smart00414 H2A Histone 2A.
Probab=93.95 E-value=0.13 Score=41.80 Aligned_cols=70 Identities=21% Similarity=0.245 Sum_probs=54.9
Q ss_pred hhH-HHHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHHhCChhHH
Q psy13072 37 SYA-IYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELA 108 (257)
Q Consensus 37 sy~-~yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrllLpGeLa 108 (257)
.|. ..|+|.|+.-.....|+.-|.--|-..+..+...|-+-|..-++.+++..||+|+|+.|++ -..||.
T Consensus 9 ~fPVgRi~r~Lk~~~~~~Rv~~~A~VyLaAvLEYLtaEILeLagn~a~~~k~~rItp~hi~lAi~--nD~EL~ 79 (106)
T smart00414 9 QFPVGRIHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIR--NDEELN 79 (106)
T ss_pred cCchHHHHHHHHcCccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchHHHhhhcc--CCHHHH
Confidence 344 4799999987766788888887777777777777777777778888999999999999998 455553
No 56
>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=93.93 E-value=0.15 Score=48.67 Aligned_cols=48 Identities=21% Similarity=0.378 Sum_probs=46.2
Q ss_pred CcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHH
Q psy13072 185 GVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 232 (257)
Q Consensus 185 ~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrl 232 (257)
.+|..|...|..-+.+....|+.||.++++..+|.||+..||..|++.
T Consensus 16 ~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~~ 63 (343)
T cd08050 16 SLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALRL 63 (343)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHH
Confidence 678999999999999999999999999999999999999999999997
No 57
>PLN00156 histone H2AX; Provisional
Probab=93.81 E-value=0.16 Score=43.28 Aligned_cols=71 Identities=24% Similarity=0.255 Sum_probs=60.3
Q ss_pred cchhHH-HHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHHhCChhH
Q psy13072 35 KESYAI-YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGEL 107 (257)
Q Consensus 35 ~esy~~-yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrllLpGeL 107 (257)
.-.|.. -|+|.|+.-+-..-|+.-|.--|-..+.++...|-+-|.+-++.+++.-|++|.||.|++ -..||
T Consensus 27 gL~FPVgRi~R~Lk~g~ya~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi~lAIr--nDeEL 98 (139)
T PLN00156 27 GLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR--NDEEL 98 (139)
T ss_pred CcccchHHHHHHHhcCChhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHhhcc--CcHHH
Confidence 345663 799999998777899999998888888888888888889999999999999999999998 44555
No 58
>PLN00157 histone H2A; Provisional
Probab=93.81 E-value=0.1 Score=44.09 Aligned_cols=72 Identities=26% Similarity=0.229 Sum_probs=60.5
Q ss_pred cchhH-HHHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHHhCChhHH
Q psy13072 35 KESYA-IYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELA 108 (257)
Q Consensus 35 ~esy~-~yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrllLpGeLa 108 (257)
.-.|. .-|+|.|++-+...-|+..|.--|-..+.++...|-+-|.+-++.+++.-|++|.||.|++ -..||.
T Consensus 24 gL~FPVgRi~R~Lk~g~~a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~--nDeEL~ 96 (132)
T PLN00157 24 GLQFPVGRIARYLKAGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRIVPRHIQLAVR--NDEELS 96 (132)
T ss_pred CcccchHHHHHHHhcCchhhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHhhccc--CcHHHH
Confidence 34565 4799999998777899999998888888888888888888999999999999999999998 445553
No 59
>PTZ00017 histone H2A; Provisional
Probab=93.77 E-value=0.11 Score=43.90 Aligned_cols=72 Identities=22% Similarity=0.216 Sum_probs=57.9
Q ss_pred cchhH-HHHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHHhCChhHH
Q psy13072 35 KESYA-IYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELA 108 (257)
Q Consensus 35 ~esy~-~yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrllLpGeLa 108 (257)
--.|. .=|+|.|+.-....-|+.-|.--|-..+..++..|-+-|.+-++.+++.-||+|+||.|++ -..||.
T Consensus 25 gL~FPVgRi~R~Lk~g~~a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~RItPrHi~lAI~--nDeEL~ 97 (134)
T PTZ00017 25 GLQFPVGRVHRYLKKGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLAIR--NDEELN 97 (134)
T ss_pred CcccchHHHHHHHhccchhccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHhhcc--CcHHHH
Confidence 34555 3799999987777788888888777777777777888888889999999999999999998 444553
No 60
>PLN00153 histone H2A; Provisional
Probab=93.14 E-value=0.17 Score=42.59 Aligned_cols=71 Identities=21% Similarity=0.214 Sum_probs=59.7
Q ss_pred cchhH-HHHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHHhCChhH
Q psy13072 35 KESYA-IYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGEL 107 (257)
Q Consensus 35 ~esy~-~yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrllLpGeL 107 (257)
.-.|. .=|+|.|++-+...-|+.-|.--|-..+..+...|-+-|.+-++.+++.-|++|.||.|++ -..||
T Consensus 22 gL~FpVgRi~R~Lr~g~~a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~--nDeEL 93 (129)
T PLN00153 22 GLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVPRHIQLAIR--NDEEL 93 (129)
T ss_pred CcccchHHHHHHHhcCchhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccChHHHHhhcc--CcHHH
Confidence 44565 3799999998777899999998888888888888888888899999999999999999998 44455
No 61
>PLN00161 histone H3; Provisional
Probab=92.87 E-value=0.51 Score=40.08 Aligned_cols=67 Identities=18% Similarity=0.239 Sum_probs=54.7
Q ss_pred CchhHHHHHHHhhhcCC-CCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHH
Q psy13072 166 KESYAIYIYKVLKQVHP-DTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 232 (257)
Q Consensus 166 ~esy~~YI~kVLKQVhp-d~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrl 232 (257)
+-.|+.-+..+..+..+ |+.+.+.|+.-|..-..+.+-.+-+++.-.+.+.+|.||.++|||.|.||
T Consensus 58 klPF~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm~La~ri 125 (135)
T PLN00161 58 KLPFARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDMQLARRI 125 (135)
T ss_pred cccHHHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhHHHHHHh
Confidence 34566666666655544 68899999999988888887788888988999999999999999999886
No 62
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=92.82 E-value=0.59 Score=35.22 Aligned_cols=59 Identities=8% Similarity=0.179 Sum_probs=48.6
Q ss_pred HHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHH
Q psy13072 173 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 232 (257)
Q Consensus 173 I~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrl 232 (257)
|-++|+... --.++..|++.|-.++.+.+..|+.++..++...+|.+.+..||..|+.-
T Consensus 12 Vaqil~~~G-f~~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~ 70 (77)
T smart00576 12 VAQILESAG-FDSFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALEN 70 (77)
T ss_pred HHHHHHHcC-ccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 444444331 24578899999999999999999999999999999999999999988763
No 63
>PF15510 CENP-W: Centromere kinetochore component W
Probab=92.52 E-value=0.21 Score=40.05 Aligned_cols=64 Identities=22% Similarity=0.367 Sum_probs=50.5
Q ss_pred HHHHHHHhhhcCCCCCcch--HHH--------------HHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHHh
Q psy13072 170 AIYIYKVLKQVHPDTGVSS--KAM--------------SIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLL 233 (257)
Q Consensus 170 ~~YI~kVLKQVhpd~~ISs--kAM--------------~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrll 233 (257)
..++.+|+|+--|.+.+.. ..| --||.++ +..|+|+||---|..||..+|-...|+.|.+.+
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 3678899998888877743 333 2234433 457999999999999999999999999999988
Q ss_pred cc
Q psy13072 234 LP 235 (257)
Q Consensus 234 Lp 235 (257)
|.
T Consensus 97 LK 98 (102)
T PF15510_consen 97 LK 98 (102)
T ss_pred HH
Confidence 74
No 64
>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=92.48 E-value=0.45 Score=35.65 Aligned_cols=47 Identities=23% Similarity=0.355 Sum_probs=36.5
Q ss_pred CcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHH
Q psy13072 54 GVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 100 (257)
Q Consensus 54 ~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvr 100 (257)
.++..+-..|-.=+..-...|..||.++++..+|.+||..||..|.|
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 44666667777777777888999999999999999999999999875
No 65
>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=91.73 E-value=0.42 Score=45.58 Aligned_cols=48 Identities=21% Similarity=0.378 Sum_probs=45.6
Q ss_pred CcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHH
Q psy13072 54 GVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 101 (257)
Q Consensus 54 ~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrl 101 (257)
.+|..|...|..-+.+....|+.||..+++..+|+||+..||..|++.
T Consensus 16 ~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~~ 63 (343)
T cd08050 16 SLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALRL 63 (343)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHH
Confidence 668899999999999999999999999999999999999999999997
No 66
>KOG0870|consensus
Probab=91.59 E-value=0.78 Score=40.28 Aligned_cols=68 Identities=19% Similarity=0.256 Sum_probs=52.9
Q ss_pred HHHHHHhhhhCCC--CCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHHhCChhH
Q psy13072 40 IYIYKVLKQVHPD--TGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGEL 107 (257)
Q Consensus 40 ~yI~KVLKqVhpd--~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrllLpGeL 107 (257)
.-|-|+.|.+-|+ .+||..|...|-.-..=+.--+..-|..+|+-++|+||+..||..|.+-+==.++
T Consensus 14 AiI~rlvke~l~E~~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~Eiefs~f 83 (172)
T KOG0870|consen 14 AIITRLVKEVLPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALDEIEFSSF 83 (172)
T ss_pred HHHHHHHHHhCccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHHHhchHHH
Confidence 3577788888776 5899999987766555555566777888999999999999999999986543333
No 67
>PF15510 CENP-W: Centromere kinetochore component W
Probab=91.53 E-value=0.4 Score=38.48 Aligned_cols=63 Identities=24% Similarity=0.381 Sum_probs=51.9
Q ss_pred HHHHHHhhhhCCCCCc--chHHH--------------HHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHHhC
Q psy13072 40 IYIYKVLKQVHPDTGV--SSKAM--------------SIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLL 103 (257)
Q Consensus 40 ~yI~KVLKqVhpd~~I--Sskam--------------~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrllL 103 (257)
.++.+|+|+--|.+.+ +...| --||.++ +..|+|+||-.-+.-|++.||....|+.|...+|
T Consensus 20 gfLkrv~Kr~KphlRl~~~~Dllv~~~~f~~~~~~~~vhLncLL--FvhrLAEEaRtnA~EnK~~~Ik~~Hv~AaaKviL 97 (102)
T PF15510_consen 20 GFLKRVFKRQKPHLRLETSGDLLVRFCPFSGWQWGGEVHLNCLL--FVHRLAEEARTNACENKCGTIKKEHVLAAAKVIL 97 (102)
T ss_pred HHHHHHHHhcCCceeecccccHHHhhcccccccccceeehhHHH--HHHHHHHHHHHHHHHHhhccccHHHHHHHHHHHH
Confidence 5688899988888665 45555 3456555 6789999999999999999999999999999887
Q ss_pred C
Q psy13072 104 P 104 (257)
Q Consensus 104 p 104 (257)
.
T Consensus 98 K 98 (102)
T PF15510_consen 98 K 98 (102)
T ss_pred H
Confidence 5
No 68
>PLN00160 histone H3; Provisional
Probab=91.51 E-value=0.95 Score=36.41 Aligned_cols=65 Identities=17% Similarity=0.197 Sum_probs=51.1
Q ss_pred hhHHHHHHHhhhcC-CCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHH
Q psy13072 168 SYAIYIYKVLKQVH-PDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 232 (257)
Q Consensus 168 sy~~YI~kVLKQVh-pd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrl 232 (257)
.|..-+..+.-... .+..+.+.|+.-|---..+.+-.+-+++.-.+.+.||-||.++|||.|.|+
T Consensus 26 pF~RLVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~~L~~ri 91 (97)
T PLN00160 26 PFARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDMQLARRI 91 (97)
T ss_pred cHHHHHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhHHHHHHh
Confidence 35555555444433 348899999999988888877777788888999999999999999999874
No 69
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=91.40 E-value=1 Score=33.90 Aligned_cols=48 Identities=8% Similarity=0.184 Sum_probs=43.2
Q ss_pred CcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHH
Q psy13072 54 GVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 101 (257)
Q Consensus 54 ~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrl 101 (257)
.++..|++.|-.++.+++..|+.++..++...+|.+.+..||..|+.-
T Consensus 23 ~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~ 70 (77)
T smart00576 23 SFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALEN 70 (77)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 467788888888999999999999999999999999999999988764
No 70
>PTZ00252 histone H2A; Provisional
Probab=91.39 E-value=0.46 Score=40.30 Aligned_cols=71 Identities=15% Similarity=0.169 Sum_probs=55.4
Q ss_pred cchhH-HHHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhh--hcCCCCCChhHHHHHHHHhCChhH
Q psy13072 35 KESYA-IYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAH--YNKRSTITSREIQTAVRLLLPGEL 107 (257)
Q Consensus 35 ~esy~-~yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~--~~kk~TltsreIqtAvrllLpGeL 107 (257)
.-.|. .-|+|.|++-+...-|+.-|.--|-..+.+++..|-+-|.+-++ .+++.-|++|.||.||+ =..||
T Consensus 23 GL~FPVgRi~R~Lr~g~ya~RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~kk~RItPrHi~lAIr--NDeEL 96 (134)
T PTZ00252 23 GLIFPVGRVGSLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPKRLTPRTVTLAVR--HDDDL 96 (134)
T ss_pred CccCchHHHHHHHHcCCcccccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccccHHHHHhhcc--ChHHH
Confidence 44566 37999999988888999989887777777777777777777664 37889999999999998 44455
No 71
>PLN00121 histone H3; Provisional
Probab=91.08 E-value=0.89 Score=38.64 Aligned_cols=66 Identities=18% Similarity=0.233 Sum_probs=53.4
Q ss_pred chhHHHHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHH
Q psy13072 36 ESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 101 (257)
Q Consensus 36 esy~~yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrl 101 (257)
-.|+..+..+.....+++-+.+.|+.-|---..+++-.+-+++.-.+.+.+|-||..+|||-|.||
T Consensus 66 ~pF~RLVREI~~~~~~~~Rf~~~Al~ALQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~ri 131 (136)
T PLN00121 66 LPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRI 131 (136)
T ss_pred ccHHHHHHHHHHHhCccceeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcceecchhhHHHHHHh
Confidence 347777777777778889999999987766666666666667888889999999999999999875
No 72
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=90.99 E-value=0.7 Score=35.44 Aligned_cols=59 Identities=20% Similarity=0.315 Sum_probs=47.9
Q ss_pred HHHHhhhc--CCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHH
Q psy13072 173 IYKVLKQV--HPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 231 (257)
Q Consensus 173 I~kVLKQV--hpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvr 231 (257)
+-++..++ ..+..+|.+.+.-|.-++.+..+.++.+---.|+..+|+||+..|+...+|
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 44555665 466789999999999999999999999999999999999999999876554
No 73
>PTZ00018 histone H3; Provisional
Probab=90.42 E-value=1.1 Score=38.13 Aligned_cols=65 Identities=18% Similarity=0.251 Sum_probs=52.6
Q ss_pred hhHHHHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHH
Q psy13072 37 SYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 101 (257)
Q Consensus 37 sy~~yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrl 101 (257)
.|+..+..+..+..+++-+.+.|+..|---..+++-.+-+++.-.+.+.++-||..+|||-|.||
T Consensus 67 pF~RLVREI~~~~~~~~rf~~~al~aLQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~ri 131 (136)
T PTZ00018 67 PFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRI 131 (136)
T ss_pred cHHHHHHHHHHHcCCcceeeHHHHHHHHHHHHHHHHHHhhhhHHHHHhhcceecchhhHHHHHHh
Confidence 46777777777777889999999987776666666666667888889999999999999999875
No 74
>KOG0870|consensus
Probab=90.28 E-value=1.3 Score=39.04 Aligned_cols=63 Identities=21% Similarity=0.297 Sum_probs=50.3
Q ss_pred HHHHHHhhhcCCC--CCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHHh
Q psy13072 171 IYIYKVLKQVHPD--TGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLL 233 (257)
Q Consensus 171 ~YI~kVLKQVhpd--~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrll 233 (257)
.-|-|+.|.+-|+ ..||..|...|-.-..=+.--+..-|..+|.-++|+||+..||..|.+-+
T Consensus 14 AiI~rlvke~l~E~~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~Ei 78 (172)
T KOG0870|consen 14 AIITRLVKEVLPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALDEI 78 (172)
T ss_pred HHHHHHHHHhCccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHHHh
Confidence 4577888888887 58999998888765444445566778889999999999999999999864
No 75
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=88.80 E-value=1.3 Score=34.04 Aligned_cols=59 Identities=20% Similarity=0.315 Sum_probs=47.2
Q ss_pred HHHHhhhh--CCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHH
Q psy13072 42 IYKVLKQV--HPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 100 (257)
Q Consensus 42 I~KVLKqV--hpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvr 100 (257)
+-++..++ ..++.+|.+.+..|.-++.+..+.++.+---.+++.+|+||+..|+.-.+|
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 34555555 467889999999999999999999999999999999999999999865443
No 76
>KOG1756|consensus
Probab=88.53 E-value=1.1 Score=37.83 Aligned_cols=67 Identities=25% Similarity=0.283 Sum_probs=55.3
Q ss_pred HHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHHhCChhHHH
Q psy13072 41 YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAK 109 (257)
Q Consensus 41 yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrllLpGeLaK 109 (257)
-|.|.|+.-....-|+.-|-.-|-..+..+.-.|.+-|..-++-|++.-|++|.||-|++ =..||.+
T Consensus 32 ri~r~Lr~~~~~~ri~~gapV~laavLeYL~Aeile~agnaardnkk~ri~PrH~~lAI~--NDeEL~~ 98 (131)
T KOG1756|consen 32 RIHRLLRKGRYAQRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRITPRHLQLAIR--NDEELNK 98 (131)
T ss_pred HHHHHHHccchhhhccCCChHHHHHHHHHHHHHHHHHhHHHhhhcCccccChHHHHHHHh--CcHHHHH
Confidence 799999998888899999888777777666677777777778899999999999999998 4555544
No 77
>KOG1757|consensus
Probab=87.09 E-value=0.74 Score=38.26 Aligned_cols=64 Identities=19% Similarity=0.222 Sum_probs=53.5
Q ss_pred hhHH-HHHHHhhhcCCC-CCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHH
Q psy13072 168 SYAI-YIYKVLKQVHPD-TGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 231 (257)
Q Consensus 168 sy~~-YI~kVLKQVhpd-~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvr 231 (257)
.|-. -|+|-||+-... ..+-..|.-++.+++.++.-.+.+-|.+-+.--+-..||+|.+|.|+|
T Consensus 30 qFpVgRihr~LK~r~t~h~rVGataavy~aaileYLTaEVLeLAgNasKdLKvKRitprHlqLAiR 95 (131)
T KOG1757|consen 30 QFPVGRIHRHLKTRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 95 (131)
T ss_pred ccchHHHHHHHHHhcccccccchHHHHHHHHHHHHHHHHHHHHcccccccceeeeccchhheeeec
Confidence 3443 488999986443 557788999999999999999988888888888899999999999998
No 78
>PLN00161 histone H3; Provisional
Probab=86.39 E-value=3.5 Score=35.06 Aligned_cols=66 Identities=17% Similarity=0.229 Sum_probs=49.8
Q ss_pred hhHHHHHHHhhhhCC-CCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHHh
Q psy13072 37 SYAIYIYKVLKQVHP-DTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLL 102 (257)
Q Consensus 37 sy~~yI~KVLKqVhp-d~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrll 102 (257)
.|+.-+..+..+..+ |+-+.+.|+..|--...+.+-.+-+++.-.+.+.++-||..+|||-|.||-
T Consensus 60 PF~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm~La~rir 126 (135)
T PLN00161 60 PFARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDMQLARRIR 126 (135)
T ss_pred cHHHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhHHHHHHhc
Confidence 466666666655544 688899999877666655555555677778889999999999999998863
No 79
>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=84.11 E-value=6.2 Score=29.38 Aligned_cols=48 Identities=13% Similarity=0.293 Sum_probs=44.8
Q ss_pred CCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHH
Q psy13072 184 TGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 231 (257)
Q Consensus 184 ~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvr 231 (257)
.+++..|++.|..++.+.+..|+..+...+...+|...+..||..|..
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 568899999999999999999999999999999999999999998875
No 80
>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=83.91 E-value=6.1 Score=30.84 Aligned_cols=60 Identities=17% Similarity=0.256 Sum_probs=50.0
Q ss_pred HHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCC---cccChhHHHHHHHHh
Q psy13072 173 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKR---STITSREIQTAVRLL 233 (257)
Q Consensus 173 I~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr---~Tit~reIqtAvrll 233 (257)
|.|++.++- +..++.....+|..+-.-+.-.|.++|..+...... ..|.+++|..|.|.+
T Consensus 22 iKr~~~~~~-~~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~HireA~rrl 84 (85)
T cd08048 22 IKRLIQSVT-GQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHLREAYRRL 84 (85)
T ss_pred HHHHHHHHc-CCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHHHHHHHHh
Confidence 566677665 478888888888888888888999999999887665 899999999999976
No 81
>PLN00160 histone H3; Provisional
Probab=82.89 E-value=6.5 Score=31.66 Aligned_cols=67 Identities=16% Similarity=0.188 Sum_probs=48.6
Q ss_pred cchhHHHHHHHhhhhCC-CCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHH
Q psy13072 35 KESYAIYIYKVLKQVHP-DTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 101 (257)
Q Consensus 35 ~esy~~yI~KVLKqVhp-d~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrl 101 (257)
+-.|+.-+..+.....+ +.-+.+.|+..|---.-+.+-.+-+++.-.+.+.+|-||.++|||-|.|+
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 34566656555554433 47889999887766555555555567777888999999999999999874
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=81.70 E-value=8.2 Score=28.71 Aligned_cols=49 Identities=12% Similarity=0.268 Sum_probs=44.4
Q ss_pred CCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHH
Q psy13072 53 TGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 101 (257)
Q Consensus 53 ~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrl 101 (257)
-+++..|+++|-.++.+.+..|+..+...+...+|...+..||..|..-
T Consensus 22 ~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~~ 70 (77)
T PF07524_consen 22 DSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQALEE 70 (77)
T ss_pred cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 3678899999999999999999999999999999999999999888763
No 83
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T.
Probab=80.14 E-value=3.4 Score=40.58 Aligned_cols=55 Identities=16% Similarity=0.230 Sum_probs=41.5
Q ss_pred HHHHHHhhhh-----CCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhH
Q psy13072 40 IYIYKVLKQV-----HPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSRE 94 (257)
Q Consensus 40 ~yI~KVLKqV-----hpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~Tltsre 94 (257)
..|.+++... +-.+.|+..||..+......+||.|+..=..++.+.+|+||...|
T Consensus 355 ~~vK~la~~~ak~s~~sK~kiskdal~aleqasdwfFeQl~dDL~aYA~HAgRKTIdesD 414 (414)
T PF15511_consen 355 GVVKKLAQHFAKSSGGSKMKISKDALEALEQASDWFFEQLGDDLEAYAKHAGRKTIDESD 414 (414)
T ss_dssp HHHHHHHHHHH-------S-B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHH
T ss_pred cHHHHHHHHHHHhhcccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCCCC
Confidence 3555555544 346899999999999999999999999999999999999998654
No 84
>KOG1745|consensus
Probab=79.84 E-value=2.2 Score=36.44 Aligned_cols=56 Identities=21% Similarity=0.259 Sum_probs=39.8
Q ss_pred hhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHHh
Q psy13072 178 KQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLL 233 (257)
Q Consensus 178 KQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrll 233 (257)
...-||+.+.+-|+.-|---....+--+-+.+.-.|...+|.||.+.|||.|.|+-
T Consensus 78 q~f~~dLrfqs~Ai~ALQeA~EayLv~LfEdtnlcAihAkRVTimpkdiQlArrir 133 (137)
T KOG1745|consen 78 QDFKTDLRFQSSAIAALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIR 133 (137)
T ss_pred hcccccceehHHHHHHHHHHHHHHHHHhccccchhhhccceeEecccceehhhhcc
Confidence 34467888888887766544444444444455566778899999999999999953
No 85
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T.
Probab=78.76 E-value=4.4 Score=39.81 Aligned_cols=54 Identities=17% Similarity=0.262 Sum_probs=40.8
Q ss_pred HHHHHhhhc-----CCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhH
Q psy13072 172 YIYKVLKQV-----HPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSRE 225 (257)
Q Consensus 172 YI~kVLKQV-----hpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~re 225 (257)
+|.+++... +-.+.|+..||..+....+.+||.|+..=.-.|.+.+|+||...|
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 555555544 245889999999999999999999999999999999999998764
No 86
>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=78.30 E-value=5.2 Score=33.60 Aligned_cols=60 Identities=22% Similarity=0.293 Sum_probs=45.9
Q ss_pred HHHHHHhhhcCCCCCc---chHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHHhc
Q psy13072 171 IYIYKVLKQVHPDTGV---SSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLL 234 (257)
Q Consensus 171 ~YI~kVLKQVhpd~~I---SskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrllL 234 (257)
..|.-+|+. +|| .......|--|+.--...|.++|...+.+.++.+|+..||+.|+..-+
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 446666664 465 467778888888888889999999999999999999999999998654
No 87
>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=77.42 E-value=11 Score=29.76 Aligned_cols=62 Identities=18% Similarity=0.212 Sum_probs=46.1
Q ss_pred HHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcC-CcccChhHHHHHHHHh
Q psy13072 172 YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNK-RSTITSREIQTAVRLL 233 (257)
Q Consensus 172 YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~k-r~Tit~reIqtAvrll 233 (257)
-|.|+..++-.+.++|....-+|..+-.-+.-.|.++|..+..-.. -..|.+.+|..|.|-|
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 4888899988778999999999999988888999999988876543 3489999999998854
No 88
>KOG2549|consensus
Probab=76.30 E-value=6.1 Score=40.63 Aligned_cols=50 Identities=20% Similarity=0.323 Sum_probs=45.9
Q ss_pred CCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHHh
Q psy13072 184 TGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLL 233 (257)
Q Consensus 184 ~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrll 233 (257)
..|+.++-..|.--+.+=.++|+.+|+++++..+|.++|..||.-|.|.+
T Consensus 27 ~nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~ALr~~ 76 (576)
T KOG2549|consen 27 TNLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYALRSL 76 (576)
T ss_pred cccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHHHhhc
Confidence 34678999999999999999999999999999999999999999999974
No 89
>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=73.83 E-value=27 Score=27.56 Aligned_cols=46 Identities=9% Similarity=0.291 Sum_probs=40.6
Q ss_pred CcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHH
Q psy13072 185 GVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 231 (257)
Q Consensus 185 ~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvr 231 (257)
.-..++..+|..+|.+..-.|..+|..+|. .++.-++..||-.++|
T Consensus 20 ~P~~eTv~llE~iv~~~i~~l~~~a~~~A~-~r~~k~~~eD~~FliR 65 (92)
T cd07978 20 NPLPETVDLLEDIVVEYIIELCHKAAEVAQ-RRRGKVKVEDLIFLLR 65 (92)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHHHh
Confidence 346789999999999999999999999998 5666679999999887
No 90
>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=73.55 E-value=4.6 Score=31.77 Aligned_cols=47 Identities=11% Similarity=0.221 Sum_probs=23.5
Q ss_pred CcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHH
Q psy13072 185 GVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 231 (257)
Q Consensus 185 ~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvr 231 (257)
.-..++..+|..+|.+-.-.+..+|..+|...++..|+..||-.++|
T Consensus 19 ~P~~eTv~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR 65 (93)
T PF02269_consen 19 EPLPETVDLVEDIVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLR 65 (93)
T ss_dssp S--HHHHHHHHHHHHHHHHHHHHHHHC--------------------
T ss_pred CCcHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHh
Confidence 34678999999999999999999999999999999999999999887
No 91
>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=73.35 E-value=8.2 Score=32.44 Aligned_cols=61 Identities=21% Similarity=0.292 Sum_probs=43.5
Q ss_pred HHHHHHhhhhCCCCCcc---hHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHHhCC
Q psy13072 40 IYIYKVLKQVHPDTGVS---SKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLP 104 (257)
Q Consensus 40 ~yI~KVLKqVhpd~~IS---skam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrllLp 104 (257)
..|.-+|+. +||+ ......|--|+.-..-.|-.+|..++.+.++.+|+..||+.|+..-+-
T Consensus 16 ~~i~~iL~~----~Gv~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~~~DVrLAi~~r~~ 79 (129)
T PF02291_consen 16 RVIHLILKS----MGVTEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTIDADDVRLAIQSRLD 79 (129)
T ss_dssp HHHHHHHHH----TT---B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHHHHT--
T ss_pred HHHHHHHHH----cCCcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHh
Confidence 345556655 5663 456666777777788888899999999999999999999999986543
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=72.61 E-value=4.8 Score=31.67 Aligned_cols=48 Identities=10% Similarity=0.202 Sum_probs=23.3
Q ss_pred CcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHH
Q psy13072 54 GVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 101 (257)
Q Consensus 54 ~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrl 101 (257)
--..++..+|..+|.+..-.+..+|..++...++..|+..||-.++|-
T Consensus 19 ~P~~eTv~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR~ 66 (93)
T PF02269_consen 19 EPLPETVDLVEDIVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLRK 66 (93)
T ss_dssp S--HHHHHHHHHHHHHHHHHHHHHHHC---------------------
T ss_pred CCcHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHhc
Confidence 446788899999999999999999999999999999999999888873
No 93
>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=71.85 E-value=23 Score=27.67 Aligned_cols=61 Identities=16% Similarity=0.230 Sum_probs=49.0
Q ss_pred HHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCC---CCCChhHHHHHHHHh
Q psy13072 41 YIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKR---STITSREIQTAVRLL 102 (257)
Q Consensus 41 yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk---~TltsreIqtAvrll 102 (257)
-|.|++.++-. .+++.....+|..+-.-+.-.|.++|..+..-... ..|.++.|..|.|.+
T Consensus 21 ~iKr~~~~~~~-~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~HireA~rrl 84 (85)
T cd08048 21 AIKRLIQSVTG-QSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHLREAYRRL 84 (85)
T ss_pred HHHHHHHHHcC-CCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHHHHHHHHh
Confidence 36677777654 77787777788887777888899999999877665 899999999999976
No 94
>KOG2549|consensus
Probab=69.00 E-value=14 Score=38.02 Aligned_cols=50 Identities=20% Similarity=0.323 Sum_probs=44.6
Q ss_pred CCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHHh
Q psy13072 53 TGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLL 102 (257)
Q Consensus 53 ~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrll 102 (257)
..|+.++-.+|---+..=.+.|+.+|+++++..+|.+||..||.-|.|.+
T Consensus 27 ~nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~ALr~~ 76 (576)
T KOG2549|consen 27 TNLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYALRSL 76 (576)
T ss_pred cccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHHHhhc
Confidence 34677888888888888899999999999999999999999999999974
No 95
>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=65.53 E-value=21 Score=28.17 Aligned_cols=46 Identities=9% Similarity=0.291 Sum_probs=39.5
Q ss_pred CcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHH
Q psy13072 54 GVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 100 (257)
Q Consensus 54 ~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvr 100 (257)
.-..+...+|..+|.+..-.|..+|..++. .++.-++..|+..++|
T Consensus 20 ~P~~eTv~llE~iv~~~i~~l~~~a~~~A~-~r~~k~~~eD~~FliR 65 (92)
T cd07978 20 NPLPETVDLLEDIVVEYIIELCHKAAEVAQ-RRRGKVKVEDLIFLLR 65 (92)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHHHh
Confidence 346688999999999999999999999998 5555669999998887
No 96
>KOG3334|consensus
Probab=64.42 E-value=20 Score=31.00 Aligned_cols=60 Identities=12% Similarity=0.321 Sum_probs=45.3
Q ss_pred HHhhhcCCCCCcc---hHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHHhc
Q psy13072 175 KVLKQVHPDTGVS---SKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLL 234 (257)
Q Consensus 175 kVLKQVhpd~~IS---skAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrllL 234 (257)
+|+.++-.++||. .+-+..|--|-.--.-.|...|.-.+.+.++.||+..||+.|+....
T Consensus 17 ~~i~~iL~s~GI~eyEprVi~qlLefa~rYtt~vL~DA~vys~HA~ka~i~~eDVrlA~~~~~ 79 (148)
T KOG3334|consen 17 RVIASILKSLGIQEYEPRVINQLLEFAYRYTTTVLDDAKVYSSHAKKATIDAEDVRLAIQMRV 79 (148)
T ss_pred HHHHHHHHHcCccccChHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHh
Confidence 3444444466774 45555555666666678999999999999999999999999998753
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=63.65 E-value=35 Score=27.05 Aligned_cols=63 Identities=17% Similarity=0.205 Sum_probs=43.8
Q ss_pred HHHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcC-CCCCChhHHHHHHHHh
Q psy13072 40 IYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNK-RSTITSREIQTAVRLL 102 (257)
Q Consensus 40 ~yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~k-k~TltsreIqtAvrll 102 (257)
.-|.|+..++-.+.++|....-+|..+-.-+.-.|.++|..+..-.. -.+|.+..|..|.|-|
T Consensus 27 ~~ikkli~~~~~~qsv~~~v~i~v~g~aKvFVGEiVE~A~~Vq~~~~~~~pl~P~hlreA~rrL 90 (90)
T PF04719_consen 27 AAIKKLINQVLGNQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGETGPLQPDHLREAYRRL 90 (90)
T ss_dssp HHHHHHHHHHHS-S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SS--HHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHHhC
Confidence 46889999988778898888878888777777778888887776433 4489999999998754
No 98
>KOG3334|consensus
Probab=62.37 E-value=22 Score=30.71 Aligned_cols=58 Identities=12% Similarity=0.305 Sum_probs=43.0
Q ss_pred HhhhhCCCCCcch---HHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHHh
Q psy13072 45 VLKQVHPDTGVSS---KAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLL 102 (257)
Q Consensus 45 VLKqVhpd~~ISs---kam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrll 102 (257)
|+.++-.++||.. .-...|=-|..-..-.|-..|.-++.+.++.||+..||+.|+...
T Consensus 18 ~i~~iL~s~GI~eyEprVi~qlLefa~rYtt~vL~DA~vys~HA~ka~i~~eDVrlA~~~~ 78 (148)
T KOG3334|consen 18 VIASILKSLGIQEYEPRVINQLLEFAYRYTTTVLDDAKVYSSHAKKATIDAEDVRLAIQMR 78 (148)
T ss_pred HHHHHHHHcCccccChHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCcHHHHHHHHHHH
Confidence 3344444467744 444445556666667899999999999999999999999999854
No 99
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=57.50 E-value=11 Score=36.88 Aligned_cols=60 Identities=25% Similarity=0.386 Sum_probs=47.8
Q ss_pred HHHhhhcCCCCCcchHHHHHHHHHHHHH---HHHHHHHHhhhhhhcCCcccChhHHHHHHHHh
Q psy13072 174 YKVLKQVHPDTGVSSKAMSIMNSFVNDI---FERIAAESSRLAHYNKRSTITSREIQTAVRLL 233 (257)
Q Consensus 174 ~kVLKQVhpd~~ISskAM~imnSfvnDi---ferIa~EAs~La~~~kr~Tit~reIqtAvrll 233 (257)
.--||.|-.-.||+.-+=+.+..+.-|+ ...|.+||++....+||.-||..||..|.|-+
T Consensus 8 ~et~KdvAeslGi~Ni~Dd~l~alamDlEYRI~ev~qea~KFmvhSKRtvLt~dDis~ALr~l 70 (450)
T COG5095 8 KETLKDVAESLGISNIDDDALRALAMDLEYRIKEVCQEASKFMVHSKRTVLTIDDISYALRSL 70 (450)
T ss_pred HHHHHHHHHHcCCcccccHHHHHHHHhHHHHHHHHHHHHHHHhhcccceeeeHHhHHHHHHhc
Confidence 3457777777888876666666665555 45578899999999999999999999999975
No 100
>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=56.49 E-value=34 Score=35.30 Aligned_cols=61 Identities=18% Similarity=0.341 Sum_probs=49.8
Q ss_pred hhcCCCCCcchHHHHHHHHHHHHH-------HHHHHHHHhhhhhhcCCcccChhHHHHHHHHhcchHH
Q psy13072 178 KQVHPDTGVSSKAMSIMNSFVNDI-------FERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGEL 238 (257)
Q Consensus 178 KQVhpd~~ISskAM~imnSfvnDi-------ferIa~EAs~La~~~kr~Tit~reIqtAvrllLpgeL 238 (257)
++..|+..|+...+.++..+...+ ...+..-|--+|..+.+.+++..||+.|++|+|+.-+
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 456788889999998888877664 2456666778889999999999999999999997655
No 101
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]
Probab=53.30 E-value=21 Score=33.07 Aligned_cols=58 Identities=28% Similarity=0.337 Sum_probs=42.7
Q ss_pred HHHHhhhcCCCC-CcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHH
Q psy13072 173 IYKVLKQVHPDT-GVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 231 (257)
Q Consensus 173 I~kVLKQVhpd~-~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvr 231 (257)
|.||.|- --|. -||.+|=-+..-.-.-+.+.+...|...+..|+|.||.-.||-.||.
T Consensus 115 IkkvMKt-dedVkMisaEaPvlFak~~EiFI~ELTmRAW~~ae~NkRRtLQksDia~Av~ 173 (286)
T COG5208 115 IKKVMKT-DEDVKMISAEAPVLFAKITEIFIEELTMRAWINAEENKRRTLQKSDIAAAVK 173 (286)
T ss_pred HHHHHhc-ccchhheecccchHHHHHHHHHHHHHHHHHHHHHhHhhhhHHHHHHHHHHHH
Confidence 6666663 2232 36777655444444444578999999999999999999999999986
No 102
>PRK09333 30S ribosomal protein S19e; Provisional
Probab=53.03 E-value=31 Score=29.82 Aligned_cols=49 Identities=18% Similarity=0.317 Sum_probs=37.4
Q ss_pred chhHHHHHHHhhhcC-----C-CCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q psy13072 167 ESYAIYIYKVLKQVH-----P-DTGVSSKAMSIMNSFVNDIFERIAAESSRLAHY 215 (257)
Q Consensus 167 esy~~YI~kVLKQVh-----p-d~~ISskAM~imnSfvnDiferIa~EAs~La~~ 215 (257)
.+--.|+.+.|-+.. | +--||+++.+.||.+-.+|+..+.+|--.|..|
T Consensus 95 g~iiR~~LqqLE~~glVek~~~GR~lT~~G~~~LD~iA~~i~~~~~~~~p~l~~y 149 (150)
T PRK09333 95 GSIIRKILQQLEKAGLVEKTKKGRVITPKGRSLLDNLAAEVKKELAEERPELEKY 149 (150)
T ss_pred cHHHHHHHHHHHHCCCeeeCCCCCEeCHHHHHHHHHHHHHHHHHHHhhCcccccc
Confidence 344677777776553 2 455999999999999999999998876666655
No 103
>KOG1745|consensus
Probab=49.23 E-value=21 Score=30.58 Aligned_cols=51 Identities=27% Similarity=0.383 Sum_probs=35.8
Q ss_pred hhCCCCCcchHHHHHHH----HHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHHh
Q psy13072 48 QVHPDTGVSSKAMSIMN----SFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLL 102 (257)
Q Consensus 48 qVhpd~~ISskam~imn----Sfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrll 102 (257)
.-.||+-+.+-|+.-|- .|+.++||.- .-.+...++-||-+.|||-|.++-
T Consensus 79 ~f~~dLrfqs~Ai~ALQeA~EayLv~LfEdt----nlcAihAkRVTimpkdiQlArrir 133 (137)
T KOG1745|consen 79 DFKTDLRFQSSAIAALQEAAEAYLVGLFEDT----NLCAIHAKRVTIMPKDIQLARRIR 133 (137)
T ss_pred cccccceehHHHHHHHHHHHHHHHHHhcccc----chhhhccceeEecccceehhhhcc
Confidence 33677888777775432 3555566543 345667899999999999999954
No 104
>PF14687 DUF4460: Domain of unknown function (DUF4460)
Probab=49.02 E-value=24 Score=28.80 Aligned_cols=36 Identities=22% Similarity=0.446 Sum_probs=30.3
Q ss_pred hHHHHHHHhhhcCCCC--------CcchHHHHHHHHHHHHHHHH
Q psy13072 169 YAIYIYKVLKQVHPDT--------GVSSKAMSIMNSFVNDIFER 204 (257)
Q Consensus 169 y~~YI~kVLKQVhpd~--------~ISskAM~imnSfvnDifer 204 (257)
....+......||||+ .+-.+++.+||++++.+..+
T Consensus 11 l~~aLr~Fy~~VHPDlF~~~P~~k~~Ne~SLk~Ln~~Ld~l~~~ 54 (112)
T PF14687_consen 11 LRSALRPFYFAVHPDLFGQHPEEKQVNEESLKLLNSYLDSLKKR 54 (112)
T ss_pred HHHHHHHHHHHhCCcccccChHHHHhhHHHHHHHHHHHHHHhcc
Confidence 4567888889999993 26789999999999999885
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=45.61 E-value=62 Score=33.41 Aligned_cols=61 Identities=18% Similarity=0.341 Sum_probs=47.7
Q ss_pred hhhCCCCCcchHHHHHHHHHHHHH-------HHHHHHHHhhhhhhcCCCCCChhHHHHHHHHhCChhH
Q psy13072 47 KQVHPDTGVSSKAMSIMNSFVNDI-------FERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGEL 107 (257)
Q Consensus 47 KqVhpd~~ISskam~imnSfv~Di-------ferIa~EAs~L~~~~kk~TltsreIqtAvrllLpGeL 107 (257)
++..|+..|+...+..+..+...+ ...+..-|-.++..+.+.+++..||..|++|+|+.-+
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 355678888988888777766553 2345556667889999999999999999999998655
No 106
>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=45.03 E-value=40 Score=25.49 Aligned_cols=56 Identities=13% Similarity=0.236 Sum_probs=34.4
Q ss_pred HHHHhhhc--CCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcc-cChhHHHH
Q psy13072 173 IYKVLKQV--HPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRST-ITSREIQT 228 (257)
Q Consensus 173 I~kVLKQV--hpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~T-it~reIqt 228 (257)
|-|+|..- ++.+.||..|+..+.-+++=+...-...|...+...+... |...+++-
T Consensus 5 i~rll~~~f~~~~tkIs~dal~l~~eyl~iFV~EAv~Ra~~~a~~e~~~~~le~e~LEk 63 (72)
T PF09415_consen 5 IARLLHEHFKDDKTKISKDALKLSAEYLRIFVREAVARAAEQAEAEGDEGFLEVEHLEK 63 (72)
T ss_dssp HHHHHCTTSSSTT-EE-CCCHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSEE-HHHHHH
T ss_pred HHHHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCHHHHHH
Confidence 56777753 4779999999886665555544445555555566666666 88888876
No 107
>PF14687 DUF4460: Domain of unknown function (DUF4460)
Probab=44.48 E-value=26 Score=28.63 Aligned_cols=37 Identities=22% Similarity=0.439 Sum_probs=28.9
Q ss_pred hhHHHHHHHhhhhCCCC--------CcchHHHHHHHHHHHHHHHH
Q psy13072 37 SYAIYIYKVLKQVHPDT--------GVSSKAMSIMNSFVNDIFER 73 (257)
Q Consensus 37 sy~~yI~KVLKqVhpd~--------~ISskam~imnSfv~Difer 73 (257)
....++......||||+ .+-.+++.+||+++..+..+
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 34567888889999994 45678899999999777654
No 108
>smart00350 MCM minichromosome maintenance proteins.
Probab=42.82 E-value=86 Score=31.40 Aligned_cols=63 Identities=22% Similarity=0.291 Sum_probs=47.2
Q ss_pred hHHHHHHHhhh-cCCCCCcchHHHHHHHHHHHHHH-------------------HHHHHHHhhhhhhcCCcccChhHHHH
Q psy13072 169 YAIYIYKVLKQ-VHPDTGVSSKAMSIMNSFVNDIF-------------------ERIAAESSRLAHYNKRSTITSREIQT 228 (257)
Q Consensus 169 y~~YI~kVLKQ-Vhpd~~ISskAM~imnSfvnDif-------------------erIa~EAs~La~~~kr~Tit~reIqt 228 (257)
...||.- .++ ++|. ||..++.++..+..++= |-|..-|--+|+...+.+++..|+..
T Consensus 423 l~~yi~~-ar~~~~P~--ls~~~~~~i~~~y~~~R~~~~~~~~~~~~~~t~R~l~sliRla~A~A~l~~r~~V~~~Dv~~ 499 (509)
T smart00350 423 LRKYIAY-AREKIKPK--LSEEAAEKLVKAYVDLRKEDSQSEARSSIPITVRQLESIIRLSEAHAKMRLSDVVEEADVEE 499 (509)
T ss_pred HHHHHHH-HHhcCCCC--CCHHHHHHHHHHHHHhcccccccccccccCcCHHHHHHHHHHHHHHHHHcCCCccCHHHHHH
Confidence 3456633 344 7776 79999998888877653 45556666788889999999999999
Q ss_pred HHHHhc
Q psy13072 229 AVRLLL 234 (257)
Q Consensus 229 AvrllL 234 (257)
|++|+.
T Consensus 500 ai~l~~ 505 (509)
T smart00350 500 AIRLLR 505 (509)
T ss_pred HHHHHH
Confidence 999874
No 109
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]
Probab=42.80 E-value=35 Score=31.61 Aligned_cols=58 Identities=28% Similarity=0.302 Sum_probs=41.1
Q ss_pred HHHHhhhhCCCCCcchHHHHHHHHHHHHH-HHHHHHHHhhhhhhcCCCCCChhHHHHHHH
Q psy13072 42 IYKVLKQVHPDTGVSSKAMSIMNSFVNDI-FERIAAESSRLAHYNKRSTITSREIQTAVR 100 (257)
Q Consensus 42 I~KVLKqVhpd~~ISskam~imnSfv~Di-ferIa~EAs~L~~~~kk~TltsreIqtAvr 100 (257)
|.||.|-------||.+|--+ =+.+..| .+.+.-.|...+..|+|.||.--||-.||.
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 556665432223567766543 3444444 477888999999999999999999999886
No 110
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=42.55 E-value=26 Score=34.30 Aligned_cols=60 Identities=25% Similarity=0.337 Sum_probs=48.1
Q ss_pred HHHhhhhCCCCCcchHHHHHHHHHHHHHHH---HHHHHHhhhhhhcCCCCCChhHHHHHHHHh
Q psy13072 43 YKVLKQVHPDTGVSSKAMSIMNSFVNDIFE---RIAAESSRLAHYNKRSTITSREIQTAVRLL 102 (257)
Q Consensus 43 ~KVLKqVhpd~~ISskam~imnSfv~Dife---rIa~EAs~L~~~~kk~TltsreIqtAvrll 102 (257)
..-||.|-.-+||+.=+=+.+..+..|+=- .|..||+..+..++|..||..||..|.|-+
T Consensus 8 ~et~KdvAeslGi~Ni~Dd~l~alamDlEYRI~ev~qea~KFmvhSKRtvLt~dDis~ALr~l 70 (450)
T COG5095 8 KETLKDVAESLGISNIDDDALRALAMDLEYRIKEVCQEASKFMVHSKRTVLTIDDISYALRSL 70 (450)
T ss_pred HHHHHHHHHHcCCcccccHHHHHHHHhHHHHHHHHHHHHHHHhhcccceeeeHHhHHHHHHhc
Confidence 345777777788887666666666666644 467899999999999999999999999975
No 111
>PRK09522 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional
Probab=41.10 E-value=42 Score=34.19 Aligned_cols=61 Identities=15% Similarity=0.301 Sum_probs=42.1
Q ss_pred hcCCCCCcchHHHHHHHHHHHHHHHHHHHH---HhhhhhhcCCcccChhHHHHHHHHhcchHHH
Q psy13072 179 QVHPDTGVSSKAMSIMNSFVNDIFERIAAE---SSRLAHYNKRSTITSREIQTAVRLLLPGELA 239 (257)
Q Consensus 179 QVhpd~~ISskAM~imnSfvnDiferIa~E---As~La~~~kr~Tit~reIqtAvrllLpgeLa 239 (257)
|-||+.-.|...+.+|..|++-.+...-.| ..-|-+......||..|...++..+|-|+..
T Consensus 168 QFHPEs~~T~~G~~il~NFl~~~~~~~~~~~~~~~~l~~~~~~~~Lt~eea~~~~~~il~g~~~ 231 (531)
T PRK09522 168 QFHPESILTTQGARLLEQTLAWAQQKLEPTNTLQPILEKLYQAQTLSQQESHQLFSAVVRGELK 231 (531)
T ss_pred EecCccccCcchHHHHHHHHHHHhhcCCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHHcCCCC
Confidence 889999999999999999996543210000 0011111245689999999999999988743
No 112
>PRK09522 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional
Probab=39.75 E-value=41 Score=34.26 Aligned_cols=62 Identities=15% Similarity=0.293 Sum_probs=43.0
Q ss_pred hhCCCCCcchHHHHHHHHHHHHHHHHHHHH---HhhhhhhcCCCCCChhHHHHHHHHhCChhHHH
Q psy13072 48 QVHPDTGVSSKAMSIMNSFVNDIFERIAAE---SSRLAHYNKRSTITSREIQTAVRLLLPGELAK 109 (257)
Q Consensus 48 qVhpd~~ISskam~imnSfv~DiferIa~E---As~L~~~~kk~TltsreIqtAvrllLpGeLaK 109 (257)
|-||+.-.|...+.+|.+|++-.+...-.| ..-|-+......||..|...++..+|-|+..-
T Consensus 168 QFHPEs~~T~~G~~il~NFl~~~~~~~~~~~~~~~~l~~~~~~~~Lt~eea~~~~~~il~g~~~~ 232 (531)
T PRK09522 168 QFHPESILTTQGARLLEQTLAWAQQKLEPTNTLQPILEKLYQAQTLSQQESHQLFSAVVRGELKP 232 (531)
T ss_pred EecCccccCcchHHHHHHHHHHHhhcCCCCCCHHHHHHHhhcCCCCCHHHHHHHHHHHHcCCCCH
Confidence 789999999999999999985433211000 01111222456899999999999999987543
No 113
>TIGR01128 holA DNA polymerase III, delta subunit. subunit around DNA forming a DNA sliding clamp.
Probab=39.31 E-value=1.1e+02 Score=27.35 Aligned_cols=66 Identities=23% Similarity=0.311 Sum_probs=52.4
Q ss_pred chhHHHHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHHhc
Q psy13072 167 ESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLL 234 (257)
Q Consensus 167 esy~~YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrllL 234 (257)
.....||...++.. +..|+..|...|.+.+..=...+..|.-+|+.|.+..+||..+|+..+.-..
T Consensus 114 ~~~~~~i~~~~~~~--g~~i~~~a~~~l~~~~~~d~~~l~~el~KL~~~~~~~~It~e~I~~~~~~~~ 179 (302)
T TIGR01128 114 QELPRWIQARLKKL--GLRIDPDAVQLLAELVEGNLLAIAQELEKLALYAPDGKITLEDVEEAVSDSA 179 (302)
T ss_pred HHHHHHHHHHHHHc--CCCCCHHHHHHHHHHhCcHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHhhhh
Confidence 34556787777764 6789999999998888766668899999999997666899999987765433
No 114
>COG1466 HolA DNA polymerase III, delta subunit [DNA replication, recombination, and repair]
Probab=38.49 E-value=83 Score=29.53 Aligned_cols=67 Identities=19% Similarity=0.254 Sum_probs=58.2
Q ss_pred chhHHHHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHHhcc
Q psy13072 167 ESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLP 235 (257)
Q Consensus 167 esy~~YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrllLp 235 (257)
+....+|-+.+++. +..|+..|+..|..-++.=+--|+.|--.|+.|..-.+||..+|+..|--...
T Consensus 143 ~~l~~~i~~~~~~~--~l~i~~~a~~~L~~~~~~nl~~i~~Ei~KL~l~~~~~~I~~~~V~~~v~~~~~ 209 (334)
T COG1466 143 AELPQWIKKRAKEL--GLKIDQEAIQLLLEALGGNLLAIAQEIEKLALYAGDKEITLEDVEEVVSDVAE 209 (334)
T ss_pred HHHHHHHHHHHHHc--CCCCCHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCCcCCHHHHHHHHhcccc
Confidence 34667888888876 58899999999999999999999999999999998889999999999876554
No 115
>smart00350 MCM minichromosome maintenance proteins.
Probab=37.26 E-value=1.2e+02 Score=30.41 Aligned_cols=66 Identities=23% Similarity=0.269 Sum_probs=46.2
Q ss_pred chhHHHHHHHhhhhCCCCCcchHHHHHHHHHHHHHH-------------------HHHHHHHhhhhhhcCCCCCChhHHH
Q psy13072 36 ESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIF-------------------ERIAAESSRLAHYNKRSTITSREIQ 96 (257)
Q Consensus 36 esy~~yI~KVLKqVhpd~~ISskam~imnSfv~Dif-------------------erIa~EAs~L~~~~kk~TltsreIq 96 (257)
+....||.-+=..++|. +|..+...+..+..++= |-+..-|-.+|+...+.+++..|+.
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 34456665544347786 68888887777665543 3444555667888888999999999
Q ss_pred HHHHHhC
Q psy13072 97 TAVRLLL 103 (257)
Q Consensus 97 tAvrllL 103 (257)
.|++|+.
T Consensus 499 ~ai~l~~ 505 (509)
T smart00350 499 EAIRLLR 505 (509)
T ss_pred HHHHHHH
Confidence 9998874
No 116
>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=35.67 E-value=63 Score=24.43 Aligned_cols=52 Identities=19% Similarity=0.330 Sum_probs=29.9
Q ss_pred HHHHhhhh--CCCCCcchHHHHH----HHHHHHHHHHHHHHHHhhhhhhcCCCC-CChhHHHH
Q psy13072 42 IYKVLKQV--HPDTGVSSKAMSI----MNSFVNDIFERIAAESSRLAHYNKRST-ITSREIQT 97 (257)
Q Consensus 42 I~KVLKqV--hpd~~ISskam~i----mnSfv~DiferIa~EAs~L~~~~kk~T-ltsreIqt 97 (257)
|-|+|..- ++.+.||..|+.. |+-||+.-+.|-+. .+.-.+... |...+++-
T Consensus 5 i~rll~~~f~~~~tkIs~dal~l~~eyl~iFV~EAv~Ra~~----~a~~e~~~~~le~e~LEk 63 (72)
T PF09415_consen 5 IARLLHEHFKDDKTKISKDALKLSAEYLRIFVREAVARAAE----QAEAEGDEGFLEVEHLEK 63 (72)
T ss_dssp HHHHHCTTSSSTT-EE-CCCHHHHHHHHHHHHHHHHHHHHH----HHHHTT-SSEE-HHHHHH
T ss_pred HHHHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHH----HHHHcCCCCCCCHHHHHH
Confidence 56777753 4679999999965 45555555544444 444455555 77777765
No 117
>TIGR01128 holA DNA polymerase III, delta subunit. subunit around DNA forming a DNA sliding clamp.
Probab=35.59 E-value=1.3e+02 Score=26.84 Aligned_cols=67 Identities=22% Similarity=0.302 Sum_probs=51.8
Q ss_pred chhHHHHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHHhCC
Q psy13072 36 ESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLP 104 (257)
Q Consensus 36 esy~~yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrllLp 104 (257)
.....||...++.. +..|+.+|...|.+.+..=...+..|.-.|+.|....+||..+|+..+.-...
T Consensus 114 ~~~~~~i~~~~~~~--g~~i~~~a~~~l~~~~~~d~~~l~~el~KL~~~~~~~~It~e~I~~~~~~~~~ 180 (302)
T TIGR01128 114 QELPRWIQARLKKL--GLRIDPDAVQLLAELVEGNLLAIAQELEKLALYAPDGKITLEDVEEAVSDSAR 180 (302)
T ss_pred HHHHHHHHHHHHHc--CCCCCHHHHHHHHHHhCcHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHhhhhc
Confidence 34455777777764 57899999998888887666688999999999976668999999877764443
No 118
>PRK07452 DNA polymerase III subunit delta; Validated
Probab=35.32 E-value=69 Score=29.42 Aligned_cols=61 Identities=18% Similarity=0.312 Sum_probs=51.2
Q ss_pred hHHHHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhh--cCCcccChhHHHHHHH
Q psy13072 169 YAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHY--NKRSTITSREIQTAVR 231 (257)
Q Consensus 169 y~~YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~--~kr~Tit~reIqtAvr 231 (257)
...||...+++- +..|+..|...|-..+..=+-.+..|--+|+.| .+..+||..+|+..|.
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 556777766654 578999999999999988888999999999999 5688999999998764
No 119
>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.
Probab=35.11 E-value=71 Score=30.60 Aligned_cols=61 Identities=16% Similarity=0.312 Sum_probs=44.9
Q ss_pred hhcCCCCCcchHHHHHHHHHHHHHHH---H----HHHHHhhhhhhcCCcccChhHHHHHHHHhcchHH
Q psy13072 178 KQVHPDTGVSSKAMSIMNSFVNDIFE---R----IAAESSRLAHYNKRSTITSREIQTAVRLLLPGEL 238 (257)
Q Consensus 178 KQVhpd~~ISskAM~imnSfvnDife---r----Ia~EAs~La~~~kr~Tit~reIqtAvrllLpgeL 238 (257)
++.-|+..|+...+..+..++..+=. | +..-|--+|-.++|..+++.||+.+++++|+.-+
T Consensus 247 ~~~~~~V~v~d~~~~~i~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~~dDv~~~a~~vL~HR~ 314 (337)
T TIGR02030 247 QNLLPQVTIPYDVLVKVAELCAELDVDGLRGELTLNRAAKALAAFEGRTEVTVDDIRRVAVLALRHRL 314 (337)
T ss_pred HHHhccCcCCHHHHHHHHHHHHHHCCCCCcHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHhC
Confidence 45567777888877777776665432 1 2344555778899999999999999999997544
No 120
>COG2238 RPS19A Ribosomal protein S19E (S16A) [Translation, ribosomal structure and biogenesis]
Probab=34.51 E-value=56 Score=28.27 Aligned_cols=37 Identities=27% Similarity=0.429 Sum_probs=29.6
Q ss_pred HHHHHHhhhc--------CC-CCCcchHHHHHHHHHHHHHHHHHHH
Q psy13072 171 IYIYKVLKQV--------HP-DTGVSSKAMSIMNSFVNDIFERIAA 207 (257)
Q Consensus 171 ~YI~kVLKQV--------hp-d~~ISskAM~imnSfvnDiferIa~ 207 (257)
.-+.++|.|. +| +-.||.+.+++|+.+..+|++.+++
T Consensus 96 sI~RkilqqLE~~G~V~k~~~GR~ltp~GrsllD~~a~ei~eel~~ 141 (147)
T COG2238 96 SIIRKVLQQLEKAGLVEKTPKGRVLTPKGRSLLDRIATEIKEELEE 141 (147)
T ss_pred hHHHHHHHHHHHCCceeecCCCceeCccchhHHHHHHHHHHHHhcc
Confidence 4456666543 55 6779999999999999999999886
No 121
>KOG0568|consensus
Probab=34.45 E-value=70 Score=30.16 Aligned_cols=52 Identities=29% Similarity=0.396 Sum_probs=29.3
Q ss_pred HHHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhH
Q psy13072 171 IYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSRE 225 (257)
Q Consensus 171 ~YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~re 225 (257)
.-++.+.||||||.|-.. |-.--=--|..-|.++..|- ++..|.+..|...|
T Consensus 66 ~af~~lakq~hpdsgs~~-adaa~f~qideafrkvlq~~--~~ktn~~qn~~ede 117 (342)
T KOG0568|consen 66 EAFHDLAKQVHPDSGSEE-ADAARFIQIDEAFRKVLQEK--FAKTNARQNIGEDE 117 (342)
T ss_pred HHHHHHHHHcCCCCCCcc-ccHHHHHHHHHHHHHHHHHH--HHHhhhccccccch
Confidence 346789999999988532 11111112334444444443 45667777776655
No 122
>smart00271 DnaJ DnaJ molecular chaperone homology domain.
Probab=34.30 E-value=93 Score=21.07 Aligned_cols=15 Identities=27% Similarity=0.379 Sum_probs=12.2
Q ss_pred HHHHhhhcCCCCCcc
Q psy13072 173 IYKVLKQVHPDTGVS 187 (257)
Q Consensus 173 I~kVLKQVhpd~~IS 187 (257)
.+++.++.|||..-.
T Consensus 22 y~~l~~~~HPD~~~~ 36 (60)
T smart00271 22 YRKLALKYHPDKNPG 36 (60)
T ss_pred HHHHHHHHCcCCCCC
Confidence 567889999998874
No 123
>KOG1757|consensus
Probab=34.27 E-value=53 Score=27.49 Aligned_cols=66 Identities=30% Similarity=0.291 Sum_probs=41.6
Q ss_pred chhHH-HHHHHhhhhCCC-CCcchHHHHHHHHHHHHHHHHHHHHHhhhhhh----cCCCCCChhHHHHHHHHhCChhH
Q psy13072 36 ESYAI-YIYKVLKQVHPD-TGVSSKAMSIMNSFVNDIFERIAAESSRLAHY----NKRSTITSREIQTAVRLLLPGEL 107 (257)
Q Consensus 36 esy~~-yI~KVLKqVhpd-~~ISskam~imnSfv~DiferIa~EAs~L~~~----~kk~TltsreIqtAvrllLpGeL 107 (257)
..|.. -|+|-||+-... ..+-..|.--+- .|+|-+..|..+|+-. -+-+-||+|.+|-|+| -..||
T Consensus 29 lqFpVgRihr~LK~r~t~h~rVGataavy~a----aileYLTaEVLeLAgNasKdLKvKRitprHlqLAiR--GDeEL 100 (131)
T KOG1757|consen 29 LQFPVGRIHRHLKTRTTSHGRVGATAAVYSA----AILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR--GDEEL 100 (131)
T ss_pred cccchHHHHHHHHHhcccccccchHHHHHHH----HHHHHHHHHHHHHcccccccceeeeccchhheeeec--CcHHH
Confidence 44553 688999986444 334444444333 4566666666666644 4557799999999998 44444
No 124
>PF05674 DUF816: Baculovirus protein of unknown function (DUF816); InterPro: IPR008534 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf106. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family includes proteins that are about 200 amino acids in length. The proteins are all from baculoviruses. This family includes ORF107 from Orgyia pseudotsugata multicapsid polyhedrosis virus (OpMNPV) and a variety of other numbered ORF proteins, such as ORF52 Q91F03 from SWISSPROT, ORF140 Q9YMI8 from SWISSPROT from other baculoviruses. The function of these proteins is unknown.
Probab=34.08 E-value=1.2e+02 Score=26.77 Aligned_cols=47 Identities=30% Similarity=0.435 Sum_probs=41.4
Q ss_pred HhhhcCCCCCcchHHHH------------------HHHHHHHHHHHHHHHHHhhhhhhcCCcccC
Q psy13072 176 VLKQVHPDTGVSSKAMS------------------IMNSFVNDIFERIAAESSRLAHYNKRSTIT 222 (257)
Q Consensus 176 VLKQVhpd~~ISskAM~------------------imnSfvnDiferIa~EAs~La~~~kr~Tit 222 (257)
-|..+.||+.=|.+||- -|-+|+..|.-+|--|+..+..+++++++.
T Consensus 105 rL~~inpdlksSP~amLqhYnecle~ld~p~~deHhlitfaKei~tKifietv~~~s~~n~s~i~ 169 (171)
T PF05674_consen 105 RLDKINPDLKSSPRAMLQHYNECLENLDNPKNDEHHLITFAKEIATKIFIETVDLMSNNNKSPIE 169 (171)
T ss_pred HHhcCCCccccCHHHHHHHHHHHHHhccCCCCCcchhHHHHHHHHHHHHHHHHHHHhcCCCCCcc
Confidence 35567999999999995 478999999999999999999999999874
No 125
>PRK05574 holA DNA polymerase III subunit delta; Reviewed
Probab=33.11 E-value=1.6e+02 Score=26.86 Aligned_cols=66 Identities=21% Similarity=0.228 Sum_probs=52.1
Q ss_pred chhHHHHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHHhc
Q psy13072 167 ESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLL 234 (257)
Q Consensus 167 esy~~YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrllL 234 (257)
.....||...+++. +..|+..|+..|-..+..=...+..|.-+|+.|.....||..+|+..+.-.-
T Consensus 149 ~~~~~~i~~~~~~~--g~~i~~~a~~~L~~~~~~d~~~l~~El~KL~l~~~~~~It~~~I~~~i~~~~ 214 (340)
T PRK05574 149 AELPQWIQQRLKQQ--GLQIDAAALQLLAERVEGNLLALAQELEKLALLYPDGKITLEDVEEAVPDSA 214 (340)
T ss_pred HHHHHHHHHHHHHc--CCCCCHHHHHHHHHHhCchHHHHHHHHHHHHhhcCCCCCCHHHHHHHHhhhh
Confidence 34667788878763 5679999999999999877789999999999997434499999987665433
No 126
>PRK14607 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional
Probab=32.91 E-value=51 Score=33.36 Aligned_cols=59 Identities=20% Similarity=0.308 Sum_probs=41.6
Q ss_pred hcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHHhcchHH
Q psy13072 179 QVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGEL 238 (257)
Q Consensus 179 QVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrllLpgeL 238 (257)
|-||+...+.....|++.|++-..+.+-- ..-|-.......||..|...++..+|-|+.
T Consensus 167 QFHPE~~~t~~g~~i~~nFl~~~~~~~~~-~~~i~~l~~g~~Lt~~ea~~~~~~il~g~~ 225 (534)
T PRK14607 167 QFHPESILTEEGKRILKNFLNYQREEIDI-KSYLKKLVEGEDLSFEEAEDVMEDITDGNA 225 (534)
T ss_pred EeCCCCCCChhHHHHHHHHHHHhhccCCH-HHHHHHhccCCCCCHHHHHHHHHHHHcCCC
Confidence 88999877888889999998755433311 111222234458999999999999998764
No 127
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=31.97 E-value=1.7e+02 Score=25.57 Aligned_cols=67 Identities=15% Similarity=0.204 Sum_probs=50.0
Q ss_pred chhHHHHHHHhhhcCC--CCCcchHHHHHHHHHHHH---HHHHHHHHHhhhhhhcCCcccChhHHHHHHHHh
Q psy13072 167 ESYAIYIYKVLKQVHP--DTGVSSKAMSIMNSFVND---IFERIAAESSRLAHYNKRSTITSREIQTAVRLL 233 (257)
Q Consensus 167 esy~~YI~kVLKQVhp--d~~ISskAM~imnSfvnD---iferIa~EAs~La~~~kr~Tit~reIqtAvrll 233 (257)
+....|+...|.+... +..++.+++..+-....- ....++.++...+..++..+|+..+|..+++-+
T Consensus 195 ~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~~~~a~~~~~~~i~~~~v~~~~~~~ 266 (269)
T TIGR03015 195 EETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRLLLSAFLEEKREIGGEEVREVIAEI 266 (269)
T ss_pred HHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHh
Confidence 4567788888887643 356899998888776554 455666777666777888999999999998753
No 128
>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=31.86 E-value=1.2e+02 Score=25.95 Aligned_cols=71 Identities=15% Similarity=0.177 Sum_probs=54.6
Q ss_pred CCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHHhCChhHHHhHHHhhhhhhhhccCCC
Q psy13072 52 DTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSSK 126 (257)
Q Consensus 52 d~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrllLpGeLaKhAv~eG~kAV~ky~s~~ 126 (257)
|+....+|-.|+...--.+..-+..||...|.--.++||....|..|..-|-=.|. |.+.++-..+|.++.
T Consensus 28 dl~ftKearei~in~cieFi~~lsseAne~ce~EaKKTIa~EHviKALenLef~ey----i~~~~e~~~n~k~~q 98 (148)
T COG5150 28 DLVFTKEAREIFINACIEFINMLSSEANEACEEEAKKTIAYEHVIKALENLEFEEY----IESCMEEHENYKSYQ 98 (148)
T ss_pred cccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHhccHHHH----HHHHHHHHHHHHHHH
Confidence 57888999987666656677789999999999999999999999999885543332 455566666776653
No 129
>PRK08487 DNA polymerase III subunit delta; Validated
Probab=31.30 E-value=1.4e+02 Score=27.90 Aligned_cols=63 Identities=22% Similarity=0.178 Sum_probs=52.9
Q ss_pred hHHHHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHHhcc
Q psy13072 169 YAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLP 235 (257)
Q Consensus 169 y~~YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrllLp 235 (257)
...+|...+++- +..|+..|+..+...+..=+..|..|--+|+-|.+ +||..+|+..|--...
T Consensus 140 l~~~i~~~~~~~--g~~i~~~a~~~L~~~~g~dl~~l~~ELeKL~ly~~--~It~edV~~~v~~~~e 202 (328)
T PRK08487 140 ALELLQERAKEL--GLDIDQNALNHLYFIHNEDLALAANELEKLAILNE--PITLKDIQELVFGLGS 202 (328)
T ss_pred HHHHHHHHHHHh--CCCCCHHHHHHHHHHhCcHHHHHHHHHHHHHHhcC--CCCHHHHHHHhccccc
Confidence 456788888874 57899999999999998888899999999999965 7999999998754443
No 130
>PF00725 3HCDH: 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; InterPro: IPR006108 3-hydroxyacyl-CoA dehydrogenase (1.1.1.35 from EC) (HCDH) [] is an enzyme involved in fatty acid metabolism, it catalyzes the reduction of 3-hydroxyacyl-CoA to 3-oxoacyl-CoA. Most eukaryotic cells have 2 fatty-acid beta-oxidation systems, one located in mitochondria and the other in peroxisomes. In peroxisomes 3-hydroxyacyl-CoA dehydrogenase forms, with enoyl-CoA hydratase (ECH) and 3,2-trans-enoyl-CoA isomerase (ECI) a multifunctional enzyme where the N-terminal domain bears the hydratase/isomerase activities and the C-terminal domain the dehydrogenase activity. There are two mitochondrial enzymes: one which is monofunctional and the other which is, like its peroxisomal counterpart, multifunctional. In Escherichia coli (gene fadB) and Pseudomonas fragi (gene faoA) HCDH is part of a multifunctional enzyme which also contains an ECH/ECI domain as well as a 3-hydroxybutyryl-CoA epimerase domain []. There are two major region of similarities in the sequences of proteins of the HCDH family, the first one located in the N-terminal, corresponds to the NAD-binding site, the second one is located in the centre of the sequence. This represents the C-terminal domain which is also found in lambda crystallin. Some proteins include two copies of this domain.; GO: 0003857 3-hydroxyacyl-CoA dehydrogenase activity, 0016491 oxidoreductase activity, 0006631 fatty acid metabolic process, 0055114 oxidation-reduction process; PDB: 3MOG_A 2WTB_A 3ADP_A 3ADO_A 1WDL_B 2D3T_B 1WDK_A 1WDM_B 3K6J_A 1ZCJ_A ....
Probab=30.87 E-value=83 Score=23.66 Aligned_cols=35 Identities=26% Similarity=0.414 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHHhc
Q psy13072 197 FVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLL 234 (257)
Q Consensus 197 fvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrllL 234 (257)
++|-|+--+..||.+|+... -.|+.||-.|++.-|
T Consensus 3 i~nRl~~~~~~ea~~l~~eg---vas~~~ID~~~~~~~ 37 (97)
T PF00725_consen 3 IVNRLLAALLNEAARLVEEG---VASPEDIDRAMRYGL 37 (97)
T ss_dssp THHHHHHHHHHHHHHHHHTT---SSSHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHc---CCCHHHHHHHHHHhC
Confidence 57889999999999999864 468999999999833
No 131
>COG1466 HolA DNA polymerase III, delta subunit [DNA replication, recombination, and repair]
Probab=30.47 E-value=1.3e+02 Score=28.25 Aligned_cols=66 Identities=20% Similarity=0.258 Sum_probs=56.3
Q ss_pred hhHHHHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHHhCC
Q psy13072 37 SYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLP 104 (257)
Q Consensus 37 sy~~yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrllLp 104 (257)
..-.+|-+.+++. .+.|+.+|+..|...+..=+--|+.|-..|+.|..-.+||..+|+.+|--...
T Consensus 144 ~l~~~i~~~~~~~--~l~i~~~a~~~L~~~~~~nl~~i~~Ei~KL~l~~~~~~I~~~~V~~~v~~~~~ 209 (334)
T COG1466 144 ELPQWIKKRAKEL--GLKIDQEAIQLLLEALGGNLLAIAQEIEKLALYAGDKEITLEDVEEVVSDVAE 209 (334)
T ss_pred HHHHHHHHHHHHc--CCCCCHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCCcCCHHHHHHHHhcccc
Confidence 4556777777775 47899999999999998888899999999999999889999999998876554
No 132
>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=30.45 E-value=1.1e+02 Score=20.24 Aligned_cols=15 Identities=27% Similarity=0.381 Sum_probs=12.6
Q ss_pred HHHHhhhcCCCCCcc
Q psy13072 173 IYKVLKQVHPDTGVS 187 (257)
Q Consensus 173 I~kVLKQVhpd~~IS 187 (257)
.+++.++.|||..-+
T Consensus 21 y~~l~~~~HPD~~~~ 35 (55)
T cd06257 21 YRKLALKYHPDKNPD 35 (55)
T ss_pred HHHHHHHHCcCCCCC
Confidence 568889999998876
No 133
>PRK07452 DNA polymerase III subunit delta; Validated
Probab=30.22 E-value=88 Score=28.72 Aligned_cols=61 Identities=18% Similarity=0.312 Sum_probs=49.3
Q ss_pred hHHHHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhh--cCCCCCChhHHHHHHH
Q psy13072 38 YAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHY--NKRSTITSREIQTAVR 100 (257)
Q Consensus 38 y~~yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~--~kk~TltsreIqtAvr 100 (257)
...||...+++- +..|+..|...|...+..=+..+..|--+|+.| ....+||..+|+..|-
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 345666665544 478999999998888887788999999999999 5678999999988664
No 134
>PRK05574 holA DNA polymerase III subunit delta; Reviewed
Probab=29.73 E-value=1.8e+02 Score=26.56 Aligned_cols=67 Identities=21% Similarity=0.231 Sum_probs=51.5
Q ss_pred cchhHHHHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHHhC
Q psy13072 35 KESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLL 103 (257)
Q Consensus 35 ~esy~~yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrllL 103 (257)
...+..||...+++. +..|+..|+..|-..++.=...+..|.-.|+.|.....||..+|+..+--..
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 334566777777764 4689999999888888777779999999999987444499999987766443
No 135
>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=29.00 E-value=1.5e+02 Score=25.33 Aligned_cols=51 Identities=16% Similarity=0.202 Sum_probs=43.3
Q ss_pred CCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHHh
Q psy13072 183 DTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLL 233 (257)
Q Consensus 183 d~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrll 233 (257)
|+-....|-.|+-..--.+..-+..||...|.-..+.||....|-.|..-|
T Consensus 28 dl~ftKearei~in~cieFi~~lsseAne~ce~EaKKTIa~EHviKALenL 78 (148)
T COG5150 28 DLVFTKEAREIFINACIEFINMLSSEANEACEEEAKKTIAYEHVIKALENL 78 (148)
T ss_pred cccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHhc
Confidence 577888998887666666677889999999999999999999999998754
No 136
>COG2511 GatE Archaeal Glu-tRNAGln amidotransferase subunit E (contains GAD domain) [Translation, ribosomal structure and biogenesis]
Probab=26.99 E-value=1.9e+02 Score=30.29 Aligned_cols=72 Identities=25% Similarity=0.362 Sum_probs=55.9
Q ss_pred CCCcchH-HHHHHHHHHHHHHHHHHH-------HHhhhhhh--------cCCcccChhHHHHHHHHhcchHHHhhHHhhh
Q psy13072 183 DTGVSSK-AMSIMNSFVNDIFERIAA-------ESSRLAHY--------NKRSTITSREIQTAVRLLLPGELAKHAVSEG 246 (257)
Q Consensus 183 d~~ISsk-AM~imnSfvnDiferIa~-------EAs~La~~--------~kr~Tit~reIqtAvrllLpgeLakhAv~eG 246 (257)
++|+|.. |-.+..+..-|.||.+++ -|+-|... ..-..|+.++|...++++.-|+++|.|+.|-
T Consensus 466 eygLs~~LA~~~~~~~~~~~FEel~e~~v~p~~~A~~L~~~~~~L~reg~~i~~l~~~~i~~~~~~~~~g~iake~iee~ 545 (631)
T COG2511 466 EYGLSKELAEQLASDPRVDLFEELVEKGVDPTLIASTLVNTLPELRREGVEIDNLDDEHIEELLRLVSEGKIAKEAIEEI 545 (631)
T ss_pred HhCCCHHHHHHHHhhhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcCCccccCCHHHHHHHHHHHhcccchHHHHHHH
Confidence 4677754 667888999999999998 23333322 2223479999999999999999999999999
Q ss_pred hhhhhccc
Q psy13072 247 TKAVTKYT 254 (257)
Q Consensus 247 ~kAV~ky~ 254 (257)
.+++....
T Consensus 546 l~~l~~~p 553 (631)
T COG2511 546 LKALAENP 553 (631)
T ss_pred HHHHHhCC
Confidence 99988654
No 137
>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=26.93 E-value=1.7e+02 Score=21.10 Aligned_cols=45 Identities=24% Similarity=0.261 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHHhcchHHHhhHHh
Q psy13072 196 SFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVS 244 (257)
Q Consensus 196 SfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrllLpgeLakhAv~ 244 (257)
.+++|.|-.+++......-..++. |-++|...++ ||..--|+|..
T Consensus 5 ~ii~~~fG~~~~~V~~~Ll~~G~l--tl~~i~~~t~--l~~~~Vk~~L~ 49 (62)
T PF08221_consen 5 LIIEEHFGEIVAKVGEVLLSRGRL--TLREIVRRTG--LSPKQVKKALV 49 (62)
T ss_dssp HHHHHHHHHHHHHHHHHHHHC-SE--EHHHHHHHHT----HHHHHHHHH
T ss_pred HHHHHHcChHHHHHHHHHHHcCCc--CHHHHHHHhC--CCHHHHHHHHH
Confidence 478888998888877766555554 4688888888 77766666653
No 138
>PRK08487 DNA polymerase III subunit delta; Validated
Probab=26.76 E-value=1.8e+02 Score=27.17 Aligned_cols=78 Identities=18% Similarity=0.105 Sum_probs=57.7
Q ss_pred hHHHHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHHhCChhH--HHhHHHhh
Q psy13072 38 YAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGEL--AKHAVSEG 115 (257)
Q Consensus 38 y~~yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrllLpGeL--aKhAv~eG 115 (257)
...+|...+++- +..|+..|+..+...+..=+..+..|--+|+-|.+ +||..+|+..|--.....+ --.|+.+|
T Consensus 140 l~~~i~~~~~~~--g~~i~~~a~~~L~~~~g~dl~~l~~ELeKL~ly~~--~It~edV~~~v~~~~e~~vF~l~dai~~g 215 (328)
T PRK08487 140 ALELLQERAKEL--GLDIDQNALNHLYFIHNEDLALAANELEKLAILNE--PITLKDIQELVFGLGSVSFEDFFEKLLNK 215 (328)
T ss_pred HHHHHHHHHHHh--CCCCCHHHHHHHHHHhCcHHHHHHHHHHHHHHhcC--CCCHHHHHHHhcccccccHHHHHHHHHCC
Confidence 355777777775 47899999999998888888899999999999965 7999999988755444322 23344444
Q ss_pred hhhh
Q psy13072 116 TKAV 119 (257)
Q Consensus 116 ~kAV 119 (257)
-.|+
T Consensus 216 ~~a~ 219 (328)
T PRK08487 216 KDIK 219 (328)
T ss_pred CcHH
Confidence 4443
No 139
>cd07353 harmonin_N N-terminal protein-binding module of harmonin. Harmonin is a postsynaptic density-95/discs-large/ZO-1 (PDZ) domain-containing scaffold protein, which organizes the Usher protein network of the inner ear and the retina. Harmonin contains a single copy of this domain, which is found at the N-terminus of all three harmonin isoform classes (a, b and c), and which preceeds the first PDZ protein-binding domain, PDZ1. This harmonin_N domain binds specifically to a short internal peptide fragment of the cadherin 23 cytoplasmic domain; cadherin 23 is a component of the Usher protein network.
Probab=26.36 E-value=50 Score=25.50 Aligned_cols=49 Identities=33% Similarity=0.547 Sum_probs=33.4
Q ss_pred cchhHHHHHHHhhhhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHHhCC
Q psy13072 35 KESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLP 104 (257)
Q Consensus 35 ~esy~~yI~KVLKqVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrllLp 104 (257)
.|.-..|+|-||++-|.-+++. -||+|+= .+..|..+|- +-.|+|-++|
T Consensus 18 ~EaEkd~lY~~Lr~YHqSm~lp--------~li~Dlk-~VIN~P~R~p------------Lfd~IR~lip 66 (79)
T cd07353 18 NEAEKDYLYDVLRMYHQSMNLP--------VLVGDLK-LVINEPSRLP------------LFDAIRPLIP 66 (79)
T ss_pred cHHHHHHHHHHHHHHHhccCHH--------HHHHHHH-HHhCCccccc------------hHHHHHhhcc
Confidence 4677899999999999755544 4788863 3334444443 3467888877
No 140
>PF13335 Mg_chelatase_2: Magnesium chelatase, subunit ChlI
Probab=26.08 E-value=1.1e+02 Score=23.94 Aligned_cols=48 Identities=23% Similarity=0.297 Sum_probs=38.3
Q ss_pred HHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHH
Q psy13072 173 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 231 (257)
Q Consensus 173 I~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvr 231 (257)
-.++|.+.....++|..+. .+|..-|--+|.......|+..+|..|+.
T Consensus 47 ~~~~l~~~~~~~~lS~R~~-----------~rilrvARTIADL~~~~~I~~~hi~EAl~ 94 (96)
T PF13335_consen 47 AKKLLEQAAEKLNLSARGY-----------HRILRVARTIADLEGSERITREHIAEALS 94 (96)
T ss_pred HHHHHHHHHHHcCcCHHHH-----------HHHHHHHHHHHhHcCCCCCCHHHHHHHHh
Confidence 3455666666666666655 49999999999999999999999999975
No 141
>PRK14607 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional
Probab=25.57 E-value=79 Score=32.04 Aligned_cols=60 Identities=20% Similarity=0.296 Sum_probs=41.5
Q ss_pred hhCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCChhHHHHHHHHhCChhHH
Q psy13072 48 QVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELA 108 (257)
Q Consensus 48 qVhpd~~ISskam~imnSfv~DiferIa~EAs~L~~~~kk~TltsreIqtAvrllLpGeLa 108 (257)
|=||+...+.....|+..|++-..+.+. -..-|-..-....||..|...++..+|-|+..
T Consensus 167 QFHPE~~~t~~g~~i~~nFl~~~~~~~~-~~~~i~~l~~g~~Lt~~ea~~~~~~il~g~~~ 226 (534)
T PRK14607 167 QFHPESILTEEGKRILKNFLNYQREEID-IKSYLKKLVEGEDLSFEEAEDVMEDITDGNAT 226 (534)
T ss_pred EeCCCCCCChhHHHHHHHHHHHhhccCC-HHHHHHHhccCCCCCHHHHHHHHHHHHcCCCC
Confidence 7799977788888899999874432221 01122223345699999999999999988643
No 142
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=25.36 E-value=2.5e+02 Score=24.56 Aligned_cols=67 Identities=15% Similarity=0.204 Sum_probs=47.6
Q ss_pred chhHHHHHHHhhhhCC--CCCcchHHHHHHHHHHHH---HHHHHHHHHhhhhhhcCCCCCChhHHHHHHHHh
Q psy13072 36 ESYAIYIYKVLKQVHP--DTGVSSKAMSIMNSFVND---IFERIAAESSRLAHYNKRSTITSREIQTAVRLL 102 (257)
Q Consensus 36 esy~~yI~KVLKqVhp--d~~ISskam~imnSfv~D---iferIa~EAs~L~~~~kk~TltsreIqtAvrll 102 (257)
+....|+...|.+... +..++.+++..+-....- ....++.++...+..++..+|+...|..+++-+
T Consensus 195 ~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~~~~a~~~~~~~i~~~~v~~~~~~~ 266 (269)
T TIGR03015 195 EETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRLLLSAFLEEKREIGGEEVREVIAEI 266 (269)
T ss_pred HHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHh
Confidence 4456788888887643 356888888776665543 345566666666667888999999999988753
No 143
>PF05674 DUF816: Baculovirus protein of unknown function (DUF816); InterPro: IPR008534 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf106. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family includes proteins that are about 200 amino acids in length. The proteins are all from baculoviruses. This family includes ORF107 from Orgyia pseudotsugata multicapsid polyhedrosis virus (OpMNPV) and a variety of other numbered ORF proteins, such as ORF52 Q91F03 from SWISSPROT, ORF140 Q9YMI8 from SWISSPROT from other baculoviruses. The function of these proteins is unknown.
Probab=24.70 E-value=2.3e+02 Score=25.16 Aligned_cols=55 Identities=29% Similarity=0.463 Sum_probs=44.1
Q ss_pred hhHHHHHHH---hhhhCCCCCcchHHHH------------------HHHHHHHHHHHHHHHHHhhhhhhcCCCCCC
Q psy13072 37 SYAIYIYKV---LKQVHPDTGVSSKAMS------------------IMNSFVNDIFERIAAESSRLAHYNKRSTIT 91 (257)
Q Consensus 37 sy~~yI~KV---LKqVhpd~~ISskam~------------------imnSfv~DiferIa~EAs~L~~~~kk~Tlt 91 (257)
+|...|--. |..+.||+.=|.+||- =|.+|+..|.-+|--|+..+..+++++++.
T Consensus 94 ~yk~~~e~alkrL~~inpdlksSP~amLqhYnecle~ld~p~~deHhlitfaKei~tKifietv~~~s~~n~s~i~ 169 (171)
T PF05674_consen 94 NYKSFIETALKRLDKINPDLKSSPRAMLQHYNECLENLDNPKNDEHHLITFAKEIATKIFIETVDLMSNNNKSPIE 169 (171)
T ss_pred hhHHHHHHHHHHHhcCCCccccCHHHHHHHHHHHHHhccCCCCCcchhHHHHHHHHHHHHHHHHHHHhcCCCCCcc
Confidence 444444433 5567999999999992 377899999999999999999999999874
No 144
>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea.
Probab=24.62 E-value=1.2e+02 Score=31.15 Aligned_cols=62 Identities=15% Similarity=0.182 Sum_probs=43.1
Q ss_pred hhhcCCCCCcchHHHHHHHHHHHHHH-------HHHHHHHhhhhhhcCCcccChhHHHHHHHHhcchHH
Q psy13072 177 LKQVHPDTGVSSKAMSIMNSFVNDIF-------ERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGEL 238 (257)
Q Consensus 177 LKQVhpd~~ISskAM~imnSfvnDif-------erIa~EAs~La~~~kr~Tit~reIqtAvrllLpgeL 238 (257)
.++..|+..|+...+..+..++-.+- ..+..-|--+|..+.|.+++..||+.|++|+|+.-+
T Consensus 195 ar~~~~~V~i~~~~~~~l~~~~~~~gv~s~Ra~i~~~r~ArA~Aal~gr~~V~~~Dv~~a~~lvl~hR~ 263 (589)
T TIGR02031 195 ARELLPQVTISAEQVKELVLTAASLGISGHRADLFAVRAAKAHAALHGRTEVTEEDLKLAVELVLLPRA 263 (589)
T ss_pred HHHhcCCccCCHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhhhhc
Confidence 34556777788877766555543321 123344555678899999999999999999997543
No 145
>COG2511 GatE Archaeal Glu-tRNAGln amidotransferase subunit E (contains GAD domain) [Translation, ribosomal structure and biogenesis]
Probab=24.10 E-value=2.5e+02 Score=29.49 Aligned_cols=71 Identities=25% Similarity=0.360 Sum_probs=54.9
Q ss_pred CCcchH-HHHHHHHHHHHHHHHHHH-------HHhhhhhh------cCC--CCCChhHHHHHHHHhCChhHHHhHHHhhh
Q psy13072 53 TGVSSK-AMSIMNSFVNDIFERIAA-------ESSRLAHY------NKR--STITSREIQTAVRLLLPGELAKHAVSEGT 116 (257)
Q Consensus 53 ~~ISsk-am~imnSfv~DiferIa~-------EAs~L~~~------~kk--~TltsreIqtAvrllLpGeLaKhAv~eG~ 116 (257)
.|+|.. |-.+..+..-|.||.+.+ -|+-|... ... .-|+.+.|...++++.-|+++|.|+.|..
T Consensus 467 ygLs~~LA~~~~~~~~~~~FEel~e~~v~p~~~A~~L~~~~~~L~reg~~i~~l~~~~i~~~~~~~~~g~iake~iee~l 546 (631)
T COG2511 467 YGLSKELAEQLASDPRVDLFEELVEKGVDPTLIASTLVNTLPELRREGVEIDNLDDEHIEELLRLVSEGKIAKEAIEEIL 546 (631)
T ss_pred hCCCHHHHHHHHhhhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcCCccccCCHHHHHHHHHHHhcccchHHHHHHHH
Confidence 677764 446888899999999988 23333321 222 33899999999999999999999999999
Q ss_pred hhhhhcc
Q psy13072 117 KAVTKYT 123 (257)
Q Consensus 117 kAV~ky~ 123 (257)
+++....
T Consensus 547 ~~l~~~p 553 (631)
T COG2511 547 KALAENP 553 (631)
T ss_pred HHHHhCC
Confidence 9998654
No 146
>PF11945 WASH_WAHD: WAHD domain of WASH complex; InterPro: IPR021854 This entry represents a component of the WASH complex. The WASH complex is present at the surface of endosomes and recruits and activates the Arp2/3 complex to induce actin polymerisation. The WASH complex plays a key role in the fission of tubules that serve as transport intermediates during endosome sorting []. The WASH complex's subunit structure: F-actin-capping protein subunit alpha (CAPZA1, CAPZA2 or CAPZA3), F-actin-capping protein subunit beta (CAPZB), WASH (WASH1, WASH2P, WASH3P, WASH4P, WASH5P or WASH6P), FAM21 (FAM21A, FAM21B or FAM21C), KIAA1033, KIAA0196 (strumpellin) and CCDC53. This entry represents the WASH subunit of the WASH complex. WASH genes duplicated to multiple chromosomal ends during primate evolution, with highest copy number reached in humans, whose WASH repertoires probably vary extensively among individuals []. It is therefore difficult to determine which gene is functional or not. The telomeric region of chromosome 9p is paralogous to the pericentromeric regions of chromosome 9 as well as to 2q. Paralogous regions contain 7 transcriptional units. Duplicated WASH genes are also present in the Xq/Yq pseudoautosomal region, as well as on chromosome 1 and 15. The chromosome 16 copy seems to be a pseudogene.
Probab=23.17 E-value=96 Score=29.50 Aligned_cols=24 Identities=38% Similarity=0.649 Sum_probs=19.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhh
Q psy13072 188 SKAMSIMNSFVNDIFERIAAESSR 211 (257)
Q Consensus 188 skAM~imnSfvnDiferIa~EAs~ 211 (257)
-.|+..|+..+||||+||.....+
T Consensus 24 ~~aL~~L~~v~~diF~rI~~Rv~~ 47 (297)
T PF11945_consen 24 ADALEYLDKVSNDIFSRISARVER 47 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 478899999999999998765543
No 147
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=22.40 E-value=1.9e+02 Score=27.99 Aligned_cols=61 Identities=15% Similarity=0.266 Sum_probs=45.2
Q ss_pred hhcCCCCCcchHHHHHHHHHHHHHHH-------HHHHHHhhhhhhcCCcccChhHHHHHHHHhcchHH
Q psy13072 178 KQVHPDTGVSSKAMSIMNSFVNDIFE-------RIAAESSRLAHYNKRSTITSREIQTAVRLLLPGEL 238 (257)
Q Consensus 178 KQVhpd~~ISskAM~imnSfvnDife-------rIa~EAs~La~~~kr~Tit~reIqtAvrllLpgeL 238 (257)
++.-++..||...+.++..++...=. -+..-|--+|-.++|..+++.||+.+++++|+.-+
T Consensus 260 r~~~~~V~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~pdDv~~~a~~vL~HR~ 327 (350)
T CHL00081 260 QNLLPKVEIDYDLRVKISQICSELDVDGLRGDIVTNRAAKALAAFEGRTEVTPKDIFKVITLCLRHRL 327 (350)
T ss_pred HHhcCCCccCHHHHHHHHHHHHHHCCCCChHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHhC
Confidence 44456777888877777777665421 13345556788899999999999999999997554
No 148
>TIGR00764 lon_rel lon-related putative ATP-dependent protease. Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.
Probab=22.30 E-value=3.7e+02 Score=27.84 Aligned_cols=63 Identities=8% Similarity=0.093 Sum_probs=30.6
Q ss_pred hHHHHHHHhhhcCCCCCcchHHHHHHHHHHH-------------HHHHHHHHHHhhhhhhcCCcccChhHHHHHHH
Q psy13072 169 YAIYIYKVLKQVHPDTGVSSKAMSIMNSFVN-------------DIFERIAAESSRLAHYNKRSTITSREIQTAVR 231 (257)
Q Consensus 169 y~~YI~kVLKQVhpd~~ISskAM~imnSfvn-------------DiferIa~EAs~La~~~kr~Tit~reIqtAvr 231 (257)
|..||.+.++.-..--.+|..|+.-+-.+.. --++.|..+|..+|...+..+|+..+|+.|+.
T Consensus 314 ~~~~i~~~~~r~G~l~~~s~~Av~~Li~~~~R~ag~r~~lsl~~R~L~~llR~A~~iA~~~~~~~I~~ehV~~Ai~ 389 (608)
T TIGR00764 314 LVQFVAQEVKKDGRIPHFTRDAVEEIVREAQRRAGRKDHLTLRLRELGGLVRAAGDIAKSSGKVYVTAEHVLKAKK 389 (608)
T ss_pred HHHHHHHHHHHhCCCCcCCHHHHHHHHHHHHHHHhcccccCCCHHHHHHHHHHHHHHHHhcCCceecHHHHHHHHH
Confidence 4455555444431122567776654432211 22344455555555555555566666665544
No 149
>PRK05907 hypothetical protein; Provisional
Probab=22.01 E-value=1.3e+02 Score=28.51 Aligned_cols=61 Identities=20% Similarity=0.171 Sum_probs=47.4
Q ss_pred hHHHHHHHhhhcCCCCCcchHHHHHHHHHH-HHHHHHHHHHHhhhhhh-cCCcccChhHHHHHHH
Q psy13072 169 YAIYIYKVLKQVHPDTGVSSKAMSIMNSFV-NDIFERIAAESSRLAHY-NKRSTITSREIQTAVR 231 (257)
Q Consensus 169 y~~YI~kVLKQVhpd~~ISskAM~imnSfv-nDiferIa~EAs~La~~-~kr~Tit~reIqtAvr 231 (257)
...||-+.+++- +..|+..|+..+..-+ ..=+..|..|--+|+.| ..+.+||..+|+..|-
T Consensus 139 L~~Wi~~~~~~~--g~~i~~~a~~~L~~~~~~~nL~~l~~EleKL~ly~g~~~~It~e~V~~lv~ 201 (311)
T PRK05907 139 IAQLLIQRAKEL--GISCSLGLASLFVSKFPQTGLFEILSEFQKLLCQMGKKESLEASDIQSFVV 201 (311)
T ss_pred HHHHHHHHHHHc--CCCcCHHHHHHHHHHccCCCHHHHHHHHHHHHHhcCCCCeECHHHHHHHhc
Confidence 456666666653 5789999998888866 34445899999999999 6688999999987753
No 150
>PRK09333 30S ribosomal protein S19e; Provisional
Probab=21.96 E-value=2e+02 Score=24.97 Aligned_cols=49 Identities=18% Similarity=0.325 Sum_probs=36.3
Q ss_pred chhHHHHHHHhhhh-----CC-CCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q psy13072 36 ESYAIYIYKVLKQV-----HP-DTGVSSKAMSIMNSFVNDIFERIAAESSRLAHY 84 (257)
Q Consensus 36 esy~~yI~KVLKqV-----hp-d~~ISskam~imnSfv~DiferIa~EAs~L~~~ 84 (257)
.+--.|+.+.|.+. +| ..-||+++...||.+..+++..+..|--.|..|
T Consensus 95 g~iiR~~LqqLE~~glVek~~~GR~lT~~G~~~LD~iA~~i~~~~~~~~p~l~~y 149 (150)
T PRK09333 95 GSIIRKILQQLEKAGLVEKTKKGRVITPKGRSLLDNLAAEVKKELAEERPELEKY 149 (150)
T ss_pred cHHHHHHHHHHHHCCCeeeCCCCCEeCHHHHHHHHHHHHHHHHHHHhhCcccccc
Confidence 34466777777654 22 456899999999999999999988776666554
No 151
>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.
Probab=21.83 E-value=1.6e+02 Score=28.18 Aligned_cols=61 Identities=15% Similarity=0.286 Sum_probs=41.0
Q ss_pred hhhCCCCCcchHHHHHHHHHHHHHHH-------HHHHHHhhhhhhcCCCCCChhHHHHHHHHhCChhH
Q psy13072 47 KQVHPDTGVSSKAMSIMNSFVNDIFE-------RIAAESSRLAHYNKRSTITSREIQTAVRLLLPGEL 107 (257)
Q Consensus 47 KqVhpd~~ISskam~imnSfv~Dife-------rIa~EAs~L~~~~kk~TltsreIqtAvrllLpGeL 107 (257)
++.-|+..|+...+.-+..++..+=. -+..-|-.+|-.++|..++..||+.+++++|+.-+
T Consensus 247 ~~~~~~V~v~d~~~~~i~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~~dDv~~~a~~vL~HR~ 314 (337)
T TIGR02030 247 QNLLPQVTIPYDVLVKVAELCAELDVDGLRGELTLNRAAKALAAFEGRTEVTVDDIRRVAVLALRHRL 314 (337)
T ss_pred HHHhccCcCCHHHHHHHHHHHHHHCCCCCcHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHhC
Confidence 34456677777666655554443321 12234456777899999999999999999998533
No 152
>PF14606 Lipase_GDSL_3: GDSL-like Lipase/Acylhydrolase family; PDB: 3SKV_B.
Probab=21.60 E-value=77 Score=27.98 Aligned_cols=78 Identities=15% Similarity=0.282 Sum_probs=35.5
Q ss_pred HHHHHHhhhcCCCCCc---c-------------hHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCcccChhHHHHHHHHhc
Q psy13072 171 IYIYKVLKQVHPDTGV---S-------------SKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLL 234 (257)
Q Consensus 171 ~YI~kVLKQVhpd~~I---S-------------skAM~imnSfvnDiferIa~EAs~La~~~kr~Tit~reIqtAvrllL 234 (257)
.++.+.|+..||++.| | ...+.-+|..+++.|+.+-.+--.-.+|-....|-..+-...|..+=
T Consensus 81 ~~fv~~iR~~hP~tPIllv~~~~~~~~~~~~~~~~~~~~~~~~~r~~v~~l~~~g~~nl~~l~g~~llg~d~e~tvDgvH 160 (178)
T PF14606_consen 81 DGFVKTIREAHPDTPILLVSPIPYPAGYFDNSRGETVEEFREALREAVEQLRKEGDKNLYYLDGEELLGDDHEATVDGVH 160 (178)
T ss_dssp HHHHHHHHTT-SSS-EEEEE----TTTTS--TTS--HHHHHHHHHHHHHHHHHTT-TTEEEE-HHHCS------------
T ss_pred HHHHHHHHHhCCCCCEEEEecCCccccccCchHHHHHHHHHHHHHHHHHHHHHcCCCcEEEeCchhhcCccccccccccc
Confidence 3577889999999885 2 45677889999999999877777777776666644445567888888
Q ss_pred chHHHhhHHhhhhh
Q psy13072 235 PGELAKHAVSEGTK 248 (257)
Q Consensus 235 pgeLakhAv~eG~k 248 (257)
|++|+-.-+.++..
T Consensus 161 P~DlG~~~~a~~l~ 174 (178)
T PF14606_consen 161 PNDLGMMRMADALE 174 (178)
T ss_dssp --------------
T ss_pred cccccccccccccc
Confidence 99888776666543
No 153
>PF00226 DnaJ: DnaJ domain; InterPro: IPR001623 The prokaryotic heat shock protein DnaJ interacts with the chaperone hsp70-like DnaK protein []. Structurally, the DnaJ protein consists of an N-terminal conserved domain (called 'J' domain) of about 70 amino acids, a glycine-rich region ('G' domain') of about 30 residues, a central domain containing four repeats of a CXXCXGXG motif ('CRR' domain) and a C-terminal region of 120 to 170 residues. Such a structure is shown in the following schematic representation: +------------+-+-------+-----+-----------+--------------------------------+ | N-terminal | | Gly-R | | CXXCXGXG | C-terminal | +------------+-+-------+-----+-----------+--------------------------------+ It is thought that the 'J' domain of DnaJ mediates the interaction with the dnaK protein and consists of four helices, the second of which has a charged surface that includes at least one pair of basic residues that are essential for interaction with the ATPase domain of Hsp70. The J- and CRR-domains are found in many prokaryotic and eukaryotic proteins [], either together or separately. In yeast, J-domains have been classified into 3 groups; the class III proteins are functionally distinct and do not appear to act as molecular chaperones []. ; GO: 0031072 heat shock protein binding; PDB: 2GUZ_C 2L6L_A 1HDJ_A 2EJ7_A 1FPO_C 2CUG_A 2QSA_A 2OCH_A 3BVO_B 3APQ_A ....
Probab=21.51 E-value=2.5e+02 Score=19.30 Aligned_cols=15 Identities=33% Similarity=0.428 Sum_probs=11.7
Q ss_pred HHHHHHhhhhCCCCC
Q psy13072 40 IYIYKVLKQVHPDTG 54 (257)
Q Consensus 40 ~yI~KVLKqVhpd~~ 54 (257)
.-..++.++.|||..
T Consensus 19 ~~y~~l~~~~HPD~~ 33 (64)
T PF00226_consen 19 KAYRRLSKQYHPDKN 33 (64)
T ss_dssp HHHHHHHHHTSTTTG
T ss_pred HHHHhhhhccccccc
Confidence 345778999999973
No 154
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=21.38 E-value=2.8e+02 Score=26.58 Aligned_cols=59 Identities=8% Similarity=0.189 Sum_probs=45.5
Q ss_pred hhcCCCCCcchHHHHHHHHHHHH---------HHHHHHHHHhhhhhhcCCcccChhHHHHHHHHhcchHH
Q psy13072 178 KQVHPDTGVSSKAMSIMNSFVND---------IFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGEL 238 (257)
Q Consensus 178 KQVhpd~~ISskAM~imnSfvnD---------iferIa~EAs~La~~~kr~Tit~reIqtAvrllLpgeL 238 (257)
++.-++..|+...+.++..++.. |+ +..-|.-+|..++|..++..||+.++.++|+.-+
T Consensus 244 ~~~~~~V~v~~~~~~yi~~l~~~~~~~s~Ra~i~--l~~aA~a~A~l~Gr~~V~~~Di~~~~~~vl~hR~ 311 (334)
T PRK13407 244 RARLPQLKTPNTVLHDCAALCIALGSDGLRGELT--LLRAARALAAFEGAEAVGRSHLRSVATMALSHRL 311 (334)
T ss_pred HHhcCCcccCHHHHHHHHHHHHHHCCCCchHHHH--HHHHHHHHHHHcCCCeeCHHHHHHHHHHhhhhhc
Confidence 34456666777777776666654 33 7778888899999999999999999999987655
No 155
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=21.21 E-value=3.8e+02 Score=26.52 Aligned_cols=126 Identities=15% Similarity=0.228 Sum_probs=0.0
Q ss_pred HHHHHHHHhhhhhhcCCCCCChhHHHHHHHHhCC-----------hhHHHhHHHhhhhhhhhccCCCCCcchhhhhccCC
Q psy13072 71 FERIAAESSRLAHYNKRSTITSREIQTAVRLLLP-----------GELAKHAVSEGTKAVTKYTSSKSNPLQFIMAAGKS 139 (257)
Q Consensus 71 ferIa~EAs~L~~~~kk~TltsreIqtAvrllLp-----------GeLaKhAv~eG~kAV~ky~s~~~~pa~~~~~~~~~ 139 (257)
.+.+..||..++...++..|+..+++.|+..+.+ .+.-..|+-|.-.||..+--....|.....-...+
T Consensus 264 l~~l~~eA~~~a~~~~~~~i~~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~A~hEaGhAlv~~~l~~~~~v~~vsi~prg 343 (495)
T TIGR01241 264 LANLLNEAALLAARKNKTEITMNDIEEAIDRVIAGPEKKSRVISEKEKKLVAYHEAGHALVGLLLKDADPVHKVTIIPRG 343 (495)
T ss_pred HHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHhHHHHHHhcCCCCceEEEEEeecC
Q ss_pred cchhhhhhcccccccccccccccccCCchhHHHHHHHhhhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCc
Q psy13072 140 SGKAVKKAGKAQKNIAKSDKKKKHRRKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRS 219 (257)
Q Consensus 140 ~~k~~~k~~~~~~~~~~~~kk~~~~~~esy~~YI~kVLKQVhpd~~ISskAM~imnSfvnDiferIa~EAs~La~~~kr~ 219 (257)
. ...|..+.... ...+.--..+.++|--.+|.-|+.-.-|...+
T Consensus 344 ~-------------------------~~G~~~~~~~~-----------~~~~~t~~~l~~~i~v~LaGraAE~~~~G~~s 387 (495)
T TIGR01241 344 Q-------------------------ALGYTQFLPEE-----------DKYLYTKSQLLAQIAVLLGGRAAEEIIFGEVT 387 (495)
T ss_pred C-------------------------ccceEEecCcc-----------ccccCCHHHHHHHHHHHhhHHHHHHHHhcCCC
Q ss_pred ccChhHHHHHHHH
Q psy13072 220 TITSREIQTAVRL 232 (257)
Q Consensus 220 Tit~reIqtAvrl 232 (257)
+-.+.|++.|.++
T Consensus 388 ~Ga~~Dl~~At~l 400 (495)
T TIGR01241 388 TGASNDIKQATNI 400 (495)
T ss_pred CCchHHHHHHHHH
No 156
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=20.39 E-value=6.1e+02 Score=23.63 Aligned_cols=64 Identities=6% Similarity=0.060 Sum_probs=41.9
Q ss_pred HHHHHhhhcCCCCCcchHHHHHHHHHHHH----H--HHHHHHHHhhhhhhcCCcccChhHHHHHHHHhcc
Q psy13072 172 YIYKVLKQVHPDTGVSSKAMSIMNSFVND----I--FERIAAESSRLAHYNKRSTITSREIQTAVRLLLP 235 (257)
Q Consensus 172 YI~kVLKQVhpd~~ISskAM~imnSfvnD----i--ferIa~EAs~La~~~kr~Tit~reIqtAvrllLp 235 (257)
++..-++....+..++..++..+-.++.- + .-.+...|..+|...+..+|+..+|..|+..+.+
T Consensus 215 il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~~~I~~~~v~~a~~~~~~ 284 (394)
T PRK00411 215 ILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRKVTEEDVRKAYEKSEI 284 (394)
T ss_pred HHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHHHH
Confidence 34344444333446788888877666521 1 1134567777777778889999999999987744
No 157
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=20.12 E-value=1.9e+02 Score=29.93 Aligned_cols=57 Identities=16% Similarity=0.219 Sum_probs=44.8
Q ss_pred CCCCcchHHHHHHHHHHHHHH-------HHHHHHHhhhhhhcCCcccChhHHHHHHHHhcchHH
Q psy13072 182 PDTGVSSKAMSIMNSFVNDIF-------ERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGEL 238 (257)
Q Consensus 182 pd~~ISskAM~imnSfvnDif-------erIa~EAs~La~~~kr~Tit~reIqtAvrllLpgeL 238 (257)
++..|+...+..+..++..+- ..|..-|--+|-.+.+..++..||+.|+.++|+.-+
T Consensus 192 ~~v~v~~~~l~~i~~~~~~~gv~S~Ra~i~llraARa~AaL~Gr~~V~~~dv~~Aa~lvL~hR~ 255 (584)
T PRK13406 192 PAVGPPPEAIAALCAAAAALGIASLRAPLLALRAARAAAALAGRTAVEEEDLALAARLVLAPRA 255 (584)
T ss_pred ccCCCCHHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHhhc
Confidence 567788877777666555542 356777788899999999999999999999997544
Done!