Query psy8542
Match_columns 182
No_of_seqs 227 out of 423
Neff 5.1
Searched_HMMs 46136
Date Fri Aug 16 21:33:17 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8542.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8542hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3334|consensus 100.0 2E-50 4.3E-55 320.2 9.5 120 8-181 7-129 (148)
2 PF02291 TFIID-31kDa: Transcri 100.0 1E-50 2.2E-55 318.7 5.4 122 6-181 4-128 (129)
3 COG5094 TAF9 Transcription ini 100.0 1.2E-45 2.6E-50 287.7 7.1 114 14-181 14-133 (145)
4 cd07979 TAF9 TATA Binding Prot 100.0 1.9E-41 4E-46 262.0 11.5 114 62-181 1-117 (117)
5 cd07979 TAF9 TATA Binding Prot 99.8 9.2E-19 2E-23 135.4 6.9 78 14-91 1-83 (117)
6 PLN00035 histone H4; Provision 99.6 1.8E-14 3.8E-19 109.7 8.9 68 66-133 33-102 (103)
7 cd00076 H4 Histone H4, one of 99.6 1.7E-14 3.8E-19 106.4 8.5 64 66-129 17-80 (85)
8 PTZ00015 histone H4; Provision 99.5 3E-14 6.5E-19 108.3 8.6 64 66-129 34-97 (102)
9 smart00417 H4 Histone H4. 99.4 1.7E-13 3.6E-18 98.8 6.0 58 66-123 17-74 (74)
10 smart00803 TAF TATA box bindin 99.4 9.6E-13 2.1E-17 92.4 7.3 60 66-125 6-65 (65)
11 COG2036 HHT1 Histones H3 and H 99.4 1.4E-12 3.1E-17 97.4 7.0 64 66-129 23-86 (91)
12 PF02291 TFIID-31kDa: Transcri 99.3 1.9E-12 4.1E-17 102.1 5.6 93 58-173 8-100 (129)
13 KOG3334|consensus 99.3 2.5E-12 5.4E-17 102.8 5.6 92 59-173 10-101 (148)
14 smart00576 BTP Bromodomain tra 99.2 9.7E-11 2.1E-15 84.1 8.6 62 66-127 10-71 (77)
15 COG5094 TAF9 Transcription ini 99.1 1.5E-10 3.3E-15 91.0 4.3 95 61-177 13-111 (145)
16 KOG3467|consensus 98.9 3.3E-09 7.1E-14 79.1 7.5 67 67-133 34-102 (103)
17 cd07981 TAF12 TATA Binding Pro 98.9 1.4E-08 3E-13 72.3 9.3 62 69-130 8-70 (72)
18 PF07524 Bromo_TP: Bromodomain 98.7 7.6E-08 1.6E-12 68.6 8.6 63 66-128 10-72 (77)
19 PF15630 CENP-S: Kinetochore c 98.7 3.9E-08 8.4E-13 71.2 5.9 58 68-125 11-71 (76)
20 cd08050 TAF6 TATA Binding Prot 98.7 9.3E-08 2E-12 85.5 9.3 69 66-134 3-74 (343)
21 PF00125 Histone: Core histone 98.6 3.2E-07 7E-12 64.4 7.2 61 66-126 13-74 (75)
22 PF02969 TAF: TATA box binding 98.4 2.3E-06 4.9E-11 60.5 8.0 60 66-125 7-66 (66)
23 smart00428 H3 Histone H3. 98.3 2.8E-06 6E-11 65.1 8.3 65 65-129 36-103 (105)
24 cd00074 H2A Histone 2A; H2A is 98.3 2.7E-06 5.8E-11 66.1 6.5 61 66-126 24-85 (115)
25 PF00808 CBFD_NFYB_HMF: Histon 98.2 4.8E-06 1E-10 57.4 6.9 58 67-124 7-65 (65)
26 PLN00161 histone H3; Provision 97.6 0.0003 6.5E-09 56.2 7.8 65 65-129 62-128 (135)
27 PLN00160 histone H3; Provision 97.6 0.00033 7E-09 53.1 7.5 65 65-129 28-94 (97)
28 PTZ00018 histone H3; Provision 97.6 0.00031 6.8E-09 56.1 7.5 65 65-129 69-134 (136)
29 PLN00121 histone H3; Provision 97.5 0.00046 9.9E-09 55.2 7.4 65 65-129 69-134 (136)
30 PF15511 CENP-T: Centromere ki 97.5 0.0002 4.4E-09 65.9 6.0 42 78-119 373-414 (414)
31 PF03847 TFIID_20kDa: Transcri 97.3 0.00073 1.6E-08 47.9 5.7 59 69-127 6-65 (68)
32 PF07524 Bromo_TP: Bromodomain 97.2 0.00062 1.3E-08 48.4 4.6 60 18-77 10-73 (77)
33 KOG4336|consensus 97.1 0.0021 4.5E-08 57.5 7.5 63 63-125 6-68 (323)
34 smart00576 BTP Bromodomain tra 97.0 0.0018 3.9E-08 46.3 5.4 61 18-78 10-74 (77)
35 KOG1142|consensus 97.0 0.0013 2.9E-08 57.4 5.4 59 75-133 168-226 (258)
36 KOG2549|consensus 96.7 0.0073 1.6E-07 57.8 8.3 70 65-134 14-86 (576)
37 KOG2389|consensus 96.5 0.011 2.3E-07 53.8 7.9 63 66-128 33-95 (353)
38 smart00414 H2A Histone 2A. 96.0 0.022 4.7E-07 43.7 5.8 60 67-126 14-74 (106)
39 PF02269 TFIID-18kDa: Transcri 95.7 0.014 3E-07 43.5 3.8 58 69-126 8-66 (93)
40 KOG3423|consensus 95.6 0.061 1.3E-06 44.6 7.4 62 67-128 91-166 (176)
41 PLN00154 histone H2A; Provisio 95.5 0.042 9.1E-07 44.1 6.0 60 67-126 43-104 (136)
42 PF03540 TFIID_30kDa: Transcri 95.3 0.092 2E-06 35.5 6.2 44 66-109 6-49 (51)
43 PF13654 AAA_32: AAA domain; P 95.0 0.11 2.3E-06 49.4 8.2 64 65-128 433-507 (509)
44 KOG0869|consensus 95.0 0.12 2.7E-06 42.5 7.3 76 68-144 38-115 (168)
45 PTZ00017 histone H2A; Provisio 94.6 0.081 1.8E-06 42.3 5.3 60 67-126 32-92 (134)
46 KOG1745|consensus 93.8 0.034 7.4E-07 44.6 1.7 64 66-129 71-135 (137)
47 PLN00157 histone H2A; Provisio 93.2 0.2 4.4E-06 40.0 5.1 60 67-126 31-91 (132)
48 cd07978 TAF13 The TATA Binding 93.0 0.86 1.9E-05 34.0 8.0 57 68-125 8-65 (92)
49 KOG0870|consensus 92.9 0.49 1.1E-05 39.2 7.1 62 79-141 30-91 (172)
50 COG5095 TAF6 Transcription ini 92.9 0.58 1.3E-05 42.9 8.2 75 66-140 9-86 (450)
51 PLN00156 histone H2AX; Provisi 92.5 0.36 7.7E-06 38.9 5.7 60 67-126 34-94 (139)
52 KOG1756|consensus 92.3 0.42 9E-06 38.1 5.7 59 67-125 32-91 (131)
53 PLN00153 histone H2A; Provisio 92.0 0.39 8.5E-06 38.2 5.3 60 67-126 29-89 (129)
54 PTZ00252 histone H2A; Provisio 91.3 0.64 1.4E-05 37.2 5.9 60 67-126 30-92 (134)
55 PF03540 TFIID_30kDa: Transcri 91.2 0.35 7.5E-06 32.7 3.7 44 18-61 6-49 (51)
56 PF15630 CENP-S: Kinetochore c 91.2 0.28 6.1E-06 35.5 3.5 46 20-65 11-59 (76)
57 smart00427 H2B Histone H2B. 91.2 2 4.4E-05 32.1 8.1 49 80-128 20-68 (89)
58 COG5262 HTA1 Histone H2A [Chro 91.0 0.62 1.3E-05 36.8 5.4 61 65-125 29-90 (132)
59 COG5208 HAP5 CCAAT-binding fac 90.4 0.58 1.3E-05 40.7 5.2 92 41-132 87-180 (286)
60 PLN00158 histone H2B; Provisio 89.5 1.8 4E-05 33.9 6.9 58 68-128 33-94 (116)
61 TIGR00764 lon_rel lon-related 89.2 2 4.3E-05 41.7 8.4 62 66-127 316-391 (608)
62 PTZ00463 histone H2B; Provisio 89.1 1.9 4.2E-05 33.8 6.7 58 68-128 34-95 (117)
63 PRK00411 cdc6 cell division co 89.0 2.7 5.8E-05 37.2 8.5 66 62-127 206-282 (394)
64 cd08048 TAF11 TATA Binding Pro 86.5 6.8 0.00015 28.8 8.0 61 66-126 20-83 (85)
65 cd08045 TAF4 TATA Binding Prot 85.6 4.6 0.0001 33.8 7.7 62 64-125 50-117 (212)
66 smart00803 TAF TATA box bindin 84.6 1.4 3E-05 30.8 3.4 47 19-65 7-53 (65)
67 PF02969 TAF: TATA box binding 83.5 0.85 1.8E-05 32.2 2.0 48 18-66 7-55 (66)
68 KOG1744|consensus 83.5 4.4 9.6E-05 32.2 6.2 49 80-128 56-104 (127)
69 PRK13406 bchD magnesium chelat 82.9 4.5 9.8E-05 39.2 7.3 95 31-126 147-249 (584)
70 cd00076 H4 Histone H4, one of 82.7 3.6 7.9E-05 30.4 5.1 65 13-79 14-82 (85)
71 TIGR03015 pepcterm_ATPase puta 80.2 8.9 0.00019 31.8 7.3 60 67-126 200-265 (269)
72 PF05236 TAF4: Transcription i 80.0 3 6.6E-05 35.9 4.6 60 66-125 51-116 (264)
73 KOG1657|consensus 79.6 3.2 6.9E-05 36.0 4.5 105 37-142 50-156 (236)
74 COG1067 LonB Predicted ATP-dep 79.5 8.8 0.00019 37.8 8.0 61 67-127 326-399 (647)
75 PLN00035 histone H4; Provision 79.3 5.3 0.00012 30.6 5.2 62 19-80 34-99 (103)
76 TIGR02902 spore_lonB ATP-depen 78.7 8 0.00017 36.8 7.3 59 66-125 270-330 (531)
77 KOG1659|consensus 76.9 6.5 0.00014 33.9 5.5 65 68-132 19-84 (224)
78 PRK05574 holA DNA polymerase I 76.4 16 0.00034 31.5 7.9 63 65-128 152-214 (340)
79 COG5162 Transcription initiati 76.1 8.4 0.00018 32.2 5.8 40 69-108 95-134 (197)
80 PTZ00015 histone H4; Provision 76.1 7.9 0.00017 29.6 5.3 66 12-79 30-99 (102)
81 TIGR02928 orc1/cdc6 family rep 75.4 15 0.00033 32.0 7.7 66 62-127 198-274 (365)
82 COG2036 HHT1 Histones H3 and H 75.4 4.8 0.0001 30.2 3.9 62 19-80 24-89 (91)
83 PRK07452 DNA polymerase III su 75.3 12 0.00025 32.5 6.9 60 65-125 136-197 (326)
84 cd07981 TAF12 TATA Binding Pro 74.4 10 0.00022 26.7 5.1 46 18-63 5-51 (72)
85 TIGR00635 ruvB Holliday juncti 73.7 27 0.00058 29.7 8.7 77 67-145 167-248 (305)
86 TIGR01128 holA DNA polymerase 73.1 23 0.0005 29.8 8.0 63 66-129 118-180 (302)
87 PRK13765 ATP-dependent proteas 72.3 17 0.00037 35.7 7.8 50 76-125 336-398 (637)
88 PRK07914 hypothetical protein; 72.1 12 0.00027 32.7 6.3 62 65-128 134-195 (320)
89 PF09415 CENP-X: CENP-S associ 70.8 13 0.00027 26.6 5.0 57 66-122 3-63 (72)
90 PRK06585 holA DNA polymerase I 70.6 13 0.00028 32.6 6.1 61 66-127 149-210 (343)
91 COG1466 HolA DNA polymerase II 70.3 17 0.00036 32.2 6.8 61 66-127 147-207 (334)
92 cd08050 TAF6 TATA Binding Prot 70.3 10 0.00022 34.1 5.5 62 18-79 3-68 (343)
93 COG1224 TIP49 DNA helicase TIP 70.0 6.8 0.00015 36.8 4.3 72 55-126 353-431 (450)
94 PF04719 TAFII28: hTAFII28-lik 67.2 44 0.00095 24.9 7.4 59 67-125 28-88 (90)
95 PRK08487 DNA polymerase III su 65.0 27 0.00059 30.7 7.0 60 65-127 141-200 (328)
96 KOG4336|consensus 64.5 24 0.00053 32.0 6.6 78 15-98 6-87 (323)
97 PRK05629 hypothetical protein; 63.2 28 0.0006 30.4 6.7 60 65-126 132-191 (318)
98 COG5247 BUR6 Class 2 transcrip 63.2 21 0.00047 27.6 5.2 65 68-132 29-94 (113)
99 PRK12402 replication factor C 62.4 24 0.00053 30.1 6.1 56 67-125 192-247 (337)
100 KOG3423|consensus 62.3 9.9 0.00021 31.7 3.4 44 19-62 91-134 (176)
101 KOG0871|consensus 60.6 26 0.00057 28.7 5.5 64 68-131 18-83 (156)
102 PLN00163 histone H4; Provision 60.1 5.8 0.00013 27.6 1.5 25 67-91 34-58 (59)
103 TIGR02442 Cob-chelat-sub cobal 57.4 25 0.00053 34.2 5.8 49 79-127 249-304 (633)
104 TIGR02397 dnaX_nterm DNA polym 57.1 34 0.00073 29.6 6.1 57 67-125 184-240 (355)
105 COG5162 Transcription initiati 56.4 25 0.00055 29.5 4.9 43 19-61 93-135 (197)
106 PRK14970 DNA polymerase III su 55.6 36 0.00078 30.1 6.2 57 67-125 175-231 (367)
107 PF13335 Mg_chelatase_2: Magne 55.5 57 0.0012 24.1 6.3 33 94-126 63-95 (96)
108 PRK05907 hypothetical protein; 55.4 34 0.00074 30.4 5.9 61 65-126 140-202 (311)
109 PF07231 Hs1pro-1_N: Hs1pro-1 54.9 11 0.00025 31.4 2.6 27 37-63 84-110 (182)
110 COG1474 CDC6 Cdc6-related prot 54.7 74 0.0016 29.0 8.1 65 61-125 188-263 (366)
111 PRK09862 putative ATP-dependen 53.6 44 0.00095 32.0 6.7 34 94-127 459-492 (506)
112 KOG3901|consensus 52.5 52 0.0011 25.5 5.7 45 79-126 27-71 (109)
113 PF15127 DUF4565: Protein of u 52.0 5.4 0.00012 30.0 0.3 27 31-57 45-71 (91)
114 PF03847 TFIID_20kDa: Transcri 51.9 41 0.0009 23.6 4.8 45 19-63 4-49 (68)
115 TIGR02031 BchD-ChlD magnesium 51.4 60 0.0013 31.4 7.3 49 79-127 203-258 (589)
116 PRK00080 ruvB Holliday junctio 51.2 91 0.002 27.2 7.9 79 66-145 187-269 (328)
117 PF15127 DUF4565: Protein of u 50.1 17 0.00037 27.4 2.7 29 79-107 45-73 (91)
118 KOG2389|consensus 49.8 24 0.00051 32.6 4.0 82 19-107 34-123 (353)
119 TIGR03420 DnaA_homol_Hda DnaA 49.1 92 0.002 24.9 7.1 57 66-124 166-225 (226)
120 PF07766 LETM1: LETM1-like pro 48.7 68 0.0015 27.9 6.7 70 67-141 175-244 (268)
121 TIGR02030 BchI-ChlI magnesium 48.6 55 0.0012 29.5 6.2 53 80-132 255-314 (337)
122 PF00125 Histone: Core histone 48.4 46 0.001 22.6 4.6 46 18-63 13-59 (75)
123 PRK00440 rfc replication facto 48.3 61 0.0013 27.4 6.2 57 66-125 168-224 (319)
124 PF14178 YppF: YppF-like prote 47.1 14 0.0003 25.8 1.7 21 26-46 10-30 (60)
125 PRK09111 DNA polymerase III su 44.5 64 0.0014 31.5 6.4 57 67-125 199-255 (598)
126 PLN00161 histone H3; Provision 44.2 55 0.0012 26.3 4.9 56 17-72 62-126 (135)
127 COG5248 TAF19 Transcription in 43.8 83 0.0018 24.8 5.7 48 76-125 24-71 (126)
128 cd08045 TAF4 TATA Binding Prot 42.4 78 0.0017 26.4 5.9 49 17-65 51-99 (212)
129 PRK04195 replication factor C 41.9 72 0.0016 29.7 6.1 56 66-124 167-222 (482)
130 smart00417 H4 Histone H4. 40.2 36 0.00078 24.5 3.0 46 19-64 18-63 (74)
131 smart00350 MCM minichromosome 39.8 46 0.001 31.4 4.5 30 97-126 474-503 (509)
132 PLN00160 histone H3; Provision 37.7 99 0.0021 23.4 5.2 55 17-71 28-91 (97)
133 PRK08727 hypothetical protein; 36.7 1.4E+02 0.003 25.0 6.5 56 68-125 171-229 (233)
134 KOG3219|consensus 34.9 76 0.0017 27.0 4.6 61 66-126 116-177 (195)
135 PRK13407 bchI magnesium chelat 34.8 1.5E+02 0.0032 26.8 6.8 50 78-127 250-306 (334)
136 PRK09087 hypothetical protein; 34.6 2.7E+02 0.0058 23.3 7.9 60 66-127 160-222 (226)
137 CHL00081 chlI Mg-protoporyphyr 34.2 1.7E+02 0.0037 26.7 7.1 49 79-127 267-322 (350)
138 PRK14955 DNA polymerase III su 34.2 1.2E+02 0.0026 27.5 6.2 57 67-124 194-254 (397)
139 KOG3902|consensus 34.0 2.4E+02 0.0052 25.9 7.8 64 61-124 24-87 (352)
140 PRK14964 DNA polymerase III su 34.0 1.2E+02 0.0025 29.1 6.2 53 67-124 183-238 (491)
141 KOG3467|consensus 33.4 1.1E+02 0.0025 23.1 4.8 37 44-80 59-99 (103)
142 PF09123 DUF1931: Domain of un 33.1 19 0.00041 29.1 0.7 51 69-119 2-52 (138)
143 KOG1942|consensus 32.0 58 0.0013 30.3 3.7 65 62-126 366-437 (456)
144 PRK14950 DNA polymerase III su 31.8 1.3E+02 0.0029 28.9 6.3 56 67-124 187-242 (585)
145 PRK14971 DNA polymerase III su 30.6 1.4E+02 0.0031 29.1 6.3 56 67-124 188-243 (614)
146 PRK14962 DNA polymerase III su 30.4 1.7E+02 0.0036 27.7 6.6 54 67-125 184-240 (472)
147 COG1378 Predicted transcriptio 29.6 40 0.00086 29.1 2.2 26 19-44 4-29 (247)
148 smart00428 H3 Histone H3. 29.4 1.3E+02 0.0028 23.1 4.7 48 17-64 36-86 (105)
149 PF12767 SAGA-Tad1: Transcript 28.6 1.5E+02 0.0033 25.2 5.6 41 67-107 211-251 (252)
150 PRK08691 DNA polymerase III su 28.5 2.3E+02 0.005 28.6 7.4 54 67-125 186-242 (709)
151 PRK00149 dnaA chromosomal repl 28.2 2.7E+02 0.0059 25.5 7.5 59 67-127 288-349 (450)
152 PTZ00361 26 proteosome regulat 28.0 98 0.0021 29.0 4.6 37 91-127 388-424 (438)
153 COG1239 ChlI Mg-chelatase subu 27.7 1.7E+02 0.0037 27.7 6.1 53 73-125 259-320 (423)
154 PRK14958 DNA polymerase III su 27.4 2.6E+02 0.0057 26.6 7.4 53 67-124 186-241 (509)
155 PRK06645 DNA polymerase III su 27.2 1.8E+02 0.0039 27.8 6.3 57 66-124 194-253 (507)
156 PRK13610 photosystem II reacti 26.1 67 0.0015 25.1 2.6 22 80-101 91-112 (113)
157 KOG2081|consensus 25.5 2.7E+02 0.0059 27.3 7.1 91 15-107 288-383 (559)
158 COG5624 TAF61 Transcription in 25.4 11 0.00023 35.8 -2.2 53 77-129 400-452 (505)
159 PRK14961 DNA polymerase III su 25.4 2.3E+02 0.0049 25.3 6.3 53 67-124 186-241 (363)
160 PRK14957 DNA polymerase III su 25.2 2E+02 0.0044 27.8 6.3 54 67-125 186-242 (546)
161 PRK13531 regulatory ATPase Rav 25.1 3.3E+02 0.0071 26.3 7.6 28 98-125 255-282 (498)
162 TIGR00153 conserved hypothetic 24.8 88 0.0019 25.8 3.3 30 116-145 58-87 (216)
163 TIGR01242 26Sp45 26S proteasom 24.6 2.5E+02 0.0054 24.9 6.4 33 94-126 330-362 (364)
164 PTZ00018 histone H3; Provision 24.5 2E+02 0.0042 23.1 5.1 55 17-71 69-131 (136)
165 KOG3871|consensus 24.4 85 0.0018 29.5 3.4 45 39-92 383-427 (449)
166 PF08369 PCP_red: Proto-chloro 24.2 93 0.002 20.0 2.7 23 101-123 22-44 (45)
167 PF09413 DUF2007: Domain of un 23.7 55 0.0012 21.8 1.6 20 14-33 9-28 (67)
168 PLN00121 histone H3; Provision 22.8 2.2E+02 0.0047 22.9 5.0 55 17-71 69-131 (136)
169 PF04037 DUF382: Domain of unk 22.7 68 0.0015 25.6 2.1 23 135-163 14-36 (129)
170 PF13702 Lysozyme_like: Lysozy 22.6 2.1E+02 0.0046 23.4 5.1 23 19-41 11-33 (160)
171 PRK06893 DNA replication initi 22.5 4.5E+02 0.0096 21.7 7.3 57 67-125 169-228 (229)
172 KOG1038|consensus 22.5 86 0.0019 32.7 3.3 65 30-94 975-1047(1088)
173 cd00684 Terpene_cyclase_plant_ 22.4 2.8E+02 0.006 26.5 6.6 64 22-89 61-124 (542)
174 KOG3341|consensus 22.3 5.2E+02 0.011 22.8 7.6 81 40-127 45-149 (249)
175 PRK14959 DNA polymerase III su 22.2 4E+02 0.0086 26.4 7.7 53 67-124 186-241 (624)
176 PF00585 Thr_dehydrat_C: C-ter 22.1 14 0.0003 27.0 -1.8 37 40-78 37-77 (91)
177 PTZ00112 origin recognition co 21.8 4.1E+02 0.0089 28.3 7.9 64 61-127 934-1006(1164)
178 PRK14087 dnaA chromosomal repl 21.5 4.2E+02 0.009 24.7 7.4 62 66-127 282-348 (450)
179 PRK14954 DNA polymerase III su 21.2 3E+02 0.0065 27.1 6.7 57 67-124 194-254 (620)
180 PRK06305 DNA polymerase III su 20.9 3E+02 0.0064 25.7 6.3 53 67-124 188-243 (451)
181 PF07261 DnaB_2: Replication i 20.7 2.7E+02 0.0059 18.5 5.2 44 71-114 4-49 (77)
182 TIGR02903 spore_lon_C ATP-depe 20.7 2E+02 0.0044 27.9 5.4 60 67-127 361-430 (615)
183 PRK03992 proteasome-activating 20.4 3.3E+02 0.0071 24.7 6.4 36 92-127 337-372 (389)
184 PRK14953 DNA polymerase III su 20.4 3E+02 0.0065 26.1 6.3 53 67-124 186-241 (486)
No 1
>KOG3334|consensus
Probab=100.00 E-value=2e-50 Score=320.18 Aligned_cols=120 Identities=42% Similarity=0.693 Sum_probs=114.9
Q ss_pred CCCCCCCchHHHHHHHHHHcCCCccChHHHHHHHHHHHhhhcccccccHhhhhhhhhHHHHHHHHHhcCCcccChHHHHH
Q psy8542 8 SSTSKLPRDAQVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHARDAQVIVNMFQEAGIKNYDPRCVQQ 87 (182)
Q Consensus 8 ~~~~~~prda~~i~~il~~~gi~~yep~v~~qll~f~yryt~~vL~DA~vys~hardaqlI~rIlk~~Gv~r~sp~v~~q 87 (182)
++++..||||++|++||+||||+|||||||+||||||||||++||+||.+|
T Consensus 7 ~~~~~~pkDa~~i~~iL~s~GI~eyEprVi~qlLefa~rYtt~vL~DA~vy----------------------------- 57 (148)
T KOG3334|consen 7 SGTKGVPKDARVIASILKSLGIQEYEPRVINQLLEFAYRYTTTVLDDAKVY----------------------------- 57 (148)
T ss_pred CcccCCcHHHHHHHHHHHHcCccccChHHHHHHHHHHHHHHHHHHHHHHHH-----------------------------
Confidence 577899999999999999999999999999999999999999999998888
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhcCCCCCCCCChhhhhccccccCCcccccCCCCC---CCCC
Q psy8542 88 MLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQLSGSFAKPPPRESKGSGQAGAMGSNAHNKAPLT---KGAM 164 (182)
Q Consensus 88 Lle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~~~~F~~pppke~Ll~lA~~~~~~~~~N~~pLP---~~~g 164 (182)
|+||++++|++|||+|||+++++++|++|||||+|+++| ++||+.||| +.||
T Consensus 58 -------------------s~HA~ka~i~~eDVrlA~~~~~~~sf~~pPpRe~lL~lA------~~rN~~pLp~i~~~~g 112 (148)
T KOG3334|consen 58 -------------------SSHAKKATIDAEDVRLAIQMRVDHSFTPPPPREFLLELA------AERNSKPLPQIRAGPG 112 (148)
T ss_pred -------------------HHhccCCCCcHHHHHHHHHHHhccccCCCCchHHHHHHH------HhhccCCCCcccCCCC
Confidence 667889999999999999999999999999999999999 899999999 5899
Q ss_pred ccCCccccccccccccc
Q psy8542 165 KTVPQARNQNAQSNVQV 181 (182)
Q Consensus 165 irlP~e~~~~~~~n~~~ 181 (182)
+||||++.|++|+||++
T Consensus 113 ~rLPpdryclt~~n~~l 129 (148)
T KOG3334|consen 113 LRLPPDRYCLTQPNYVL 129 (148)
T ss_pred ccCChhHHHhcCcccee
Confidence 99999999999999986
No 2
>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=100.00 E-value=1e-50 Score=318.71 Aligned_cols=122 Identities=39% Similarity=0.649 Sum_probs=55.7
Q ss_pred CCCCCCCCCchHHHHHHHHHHcCCCccChHHHHHHHHHHHhhhcccccccHhhhhhhhhHHHHHHHHHhcCCcccChHHH
Q psy8542 6 SQSSTSKLPRDAQVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHARDAQVIVNMFQEAGIKNYDPRCV 85 (182)
Q Consensus 6 ~~~~~~~~prda~~i~~il~~~gi~~yep~v~~qll~f~yryt~~vL~DA~vys~hardaqlI~rIlk~~Gv~r~sp~v~ 85 (182)
..++.+.+||||++|++||+||||++|||||++|||||+||||++||+||.+|
T Consensus 4 ~~~~~~~~PrDa~~i~~iL~~~Gv~~yeprVv~qLLEfayRYt~~vL~DA~~y--------------------------- 56 (129)
T PF02291_consen 4 IDSQSKSLPRDARVIHLILKSMGVTEYEPRVVNQLLEFAYRYTSDVLEDAQVY--------------------------- 56 (129)
T ss_dssp ---------HHHHHHHHHHHHTT---B-THHHHHHHHHHHHHHHHHHHHHHHH---------------------------
T ss_pred cCCCCccCChHHHHHHHHHHHcCCcccCHHHHHHHHHHHHHHHHHHHHHHHHH---------------------------
Confidence 34566789999999999999999999999999999999999988888777776
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhcCCCCCCCCChhhhhccccccCCcccccCCCCC---CC
Q psy8542 86 QQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQLSGSFAKPPPRESKGSGQAGAMGSNAHNKAPLT---KG 162 (182)
Q Consensus 86 ~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~~~~F~~pppke~Ll~lA~~~~~~~~~N~~pLP---~~ 162 (182)
|+||||++|+++||||||++|.+++|++|||||+|+++| +++|++||| +.
T Consensus 57 ---------------------a~hA~~~~i~~~DVrLAi~~r~~~~f~~pppre~llelA------~e~N~~PLP~i~~~ 109 (129)
T PF02291_consen 57 ---------------------ADHAGRSTIDADDVRLAIQSRLDHSFTQPPPREFLLELA------REKNSIPLPPIPPK 109 (129)
T ss_dssp ---------------------HHHTT-SSB-HHHHHHHHHHT--------------------------------------
T ss_pred ---------------------HHhcccccCChHHHHHHHHHHHhhhccCCCChHHHHHHH------HHhcCCCCCCCCCC
Confidence 778999999999999999999999999999999999999 899999999 47
Q ss_pred CCccCCccccccccccccc
Q psy8542 163 AMKTVPQARNQNAQSNVQV 181 (182)
Q Consensus 163 ~girlP~e~~~~~~~n~~~ 181 (182)
||+|||||++||+++||++
T Consensus 110 ~GirLPpe~~cLt~~Ny~l 128 (129)
T PF02291_consen 110 FGIRLPPERYCLTAPNYQL 128 (129)
T ss_dssp -------------------
T ss_pred CCCCCCchhccccCCCCcC
Confidence 9999999999999999987
No 3
>COG5094 TAF9 Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=100.00 E-value=1.2e-45 Score=287.73 Aligned_cols=114 Identities=32% Similarity=0.579 Sum_probs=107.1
Q ss_pred CchHHHHHHHHHHcCCCccChHHHHHHHHHHHhhhcccccccHhhhhhhhhHHHHHHHHHhcCCcccChHHHHHHHHHHH
Q psy8542 14 PRDAQVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHARDAQVIVNMFQEAGIKNYDPRCVQQMLEFVN 93 (182)
Q Consensus 14 prda~~i~~il~~~gi~~yep~v~~qll~f~yryt~~vL~DA~vys~hardaqlI~rIlk~~Gv~r~sp~v~~qLle~~~ 93 (182)
|||+|+||+||+|+||++|||.||.||||||||||++||+||.+|
T Consensus 14 PrDvrlihliL~Slgi~~ye~~VplQLl~FAhRYTq~vl~Dalvy----------------------------------- 58 (145)
T COG5094 14 PRDVRLIHLILRSLGIEEYEPKVPLQLLEFAHRYTQDVLEDALVY----------------------------------- 58 (145)
T ss_pred CcchhHHHHHHHhcCchhhCccchHHHHHHHHHHHHHHHHHHHHH-----------------------------------
Confidence 999999999999999999999999999999999999999888888
Q ss_pred HHHHHHHHHHHHHhhhcCC---CCCCHHHHHHHHHHhcCCCCCCCCChhhhhccccccCCcccccCCCCC---CCCCccC
Q psy8542 94 NYTTTILEDSRVYANHAKK---KTVDVEDIKLAITNQLSGSFAKPPPRESKGSGQAGAMGSNAHNKAPLT---KGAMKTV 167 (182)
Q Consensus 94 ry~~~Vl~dA~~yA~HAgR---ktI~~eDVrLAI~~r~~~~F~~pppke~Ll~lA~~~~~~~~~N~~pLP---~~~girl 167 (182)
|+|+|| .++.++|||||++++.+++|.+|||||+|+|+| .|||++||| ++||+||
T Consensus 59 -------------a~htgrg~~a~l~veDvrLA~at~v~~~F~pppPke~llela------~erN~KpLpq~~g~~g~Rl 119 (145)
T COG5094 59 -------------AKHTGRGHIATLGVEDVRLALATKVGRHFVPPPPKEYLLELA------TERNSKPLPQPDGENGIRL 119 (145)
T ss_pred -------------HHhcCCCccCcccHHHHHHHHHHHhcCCcCCCChHHHHHHHH------HHhcCCCCCccCCccceec
Confidence 455555 467889999999999999999999999999999 799999999 6999999
Q ss_pred Cccccccccccccc
Q psy8542 168 PQARNQNAQSNVQV 181 (182)
Q Consensus 168 P~e~~~~~~~n~~~ 181 (182)
|||.+||+|.||-|
T Consensus 120 PPekycLt~~~w~v 133 (145)
T COG5094 120 PPEKYCLTNLDWEV 133 (145)
T ss_pred CcHHhhhcccchhh
Confidence 99999999999976
No 4
>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=100.00 E-value=1.9e-41 Score=261.98 Aligned_cols=114 Identities=37% Similarity=0.649 Sum_probs=111.6
Q ss_pred hhhHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhcCCCCCCCCChhhh
Q psy8542 62 ARDAQVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQLSGSFAKPPPRESK 141 (182)
Q Consensus 62 ardaqlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~~~~F~~pppke~L 141 (182)
|+|+++|.+||+++|+++|+|+|+++|+||+|||+.+|++||..||+||||+||+++||+|||++|++|+|++|||||+|
T Consensus 1 p~d~~~v~~iLk~~Gv~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~r~~~~f~~~p~~~~l 80 (117)
T cd07979 1 PRDARVIAAILKSMGITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQSRVDYSFTSPPPRDFL 80 (117)
T ss_pred ChHHHHHHHHHHHCCCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhccCCCCCCcHHHH
Confidence 78999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hccccccCCcccccCCCCC---CCCCccCCccccccccccccc
Q psy8542 142 GSGQAGAMGSNAHNKAPLT---KGAMKTVPQARNQNAQSNVQV 181 (182)
Q Consensus 142 l~lA~~~~~~~~~N~~pLP---~~~girlP~e~~~~~~~n~~~ 181 (182)
+++| .++|++||| +.||+|||||++||++.||++
T Consensus 81 ~~~a------~~~N~~pLP~~~~~~g~~LPp~~~~l~~~n~~~ 117 (117)
T cd07979 81 LELA------REKNSIPLPPIPPSCGLRLPPERYCLTAPNYRL 117 (117)
T ss_pred HHHH------HHhccCCCCCCCCCCCccCCCHHHcccccCccC
Confidence 9999 899999999 489999999999999999985
No 5
>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=99.76 E-value=9.2e-19 Score=135.44 Aligned_cols=78 Identities=37% Similarity=0.621 Sum_probs=60.6
Q ss_pred CchHHHHHHHHHHcCCCccChHHHHHHHHHHHhhhcccccccHhhhhhhhh----HHHHHHHHHhcCC-cccChHHHHHH
Q psy8542 14 PRDAQVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHARD----AQVIVNMFQEAGI-KNYDPRCVQQM 88 (182)
Q Consensus 14 prda~~i~~il~~~gi~~yep~v~~qll~f~yryt~~vL~DA~vys~hard----aqlI~rIlk~~Gv-~r~sp~v~~qL 88 (182)
|||+++|+.||++|||++|||+|++|||||+|||+.+||+||..|++|+++ +.-|+..++..+- ...++.-.+.|
T Consensus 1 p~d~~~v~~iLk~~Gv~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~r~~~~f~~~p~~~~l 80 (117)
T cd07979 1 PRDARVIAAILKSMGITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQSRVDYSFTSPPPRDFL 80 (117)
T ss_pred ChHHHHHHHHHHHCCCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhccCCCCCCcHHHH
Confidence 899999999999999999999999999999999999999999999999973 2333333333332 33334444555
Q ss_pred HHH
Q psy8542 89 LEF 91 (182)
Q Consensus 89 le~ 91 (182)
++.
T Consensus 81 ~~~ 83 (117)
T cd07979 81 LEL 83 (117)
T ss_pred HHH
Confidence 554
No 6
>PLN00035 histone H4; Provisional
Probab=99.56 E-value=1.8e-14 Score=109.73 Aligned_cols=68 Identities=21% Similarity=0.351 Sum_probs=63.7
Q ss_pred HHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHh--cCCCCC
Q psy8542 66 QVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQ--LSGSFA 133 (182)
Q Consensus 66 qlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r--~~~~F~ 133 (182)
..|+||++++|++|+|.+++.++.++++.|..+|++||+.||+||+||||+++||.+|++.+ .-|.|.
T Consensus 33 ~~IrRLARr~GvkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~Alkr~g~~lyGf~ 102 (103)
T PLN00035 33 PAIRRLARRGGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGRTLYGFG 102 (103)
T ss_pred HHHHHHHHHcCcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHcCCcCCCCC
Confidence 47999999999999999999999999999999999999999999999999999999999875 446664
No 7
>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=99.56 E-value=1.7e-14 Score=106.37 Aligned_cols=64 Identities=23% Similarity=0.407 Sum_probs=61.3
Q ss_pred HHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhcC
Q psy8542 66 QVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQLS 129 (182)
Q Consensus 66 qlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~~ 129 (182)
..|+||++++|++++|.+++.++.+.++.|..+|++||+.||+|||||||+++||.+|++.++.
T Consensus 17 ~~I~RLarr~GvkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr~g~ 80 (85)
T cd00076 17 PAIRRLARRGGVKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKRQGR 80 (85)
T ss_pred HHHHHHHHHcCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHCCC
Confidence 4799999999999999999999999999999999999999999999999999999999987654
No 8
>PTZ00015 histone H4; Provisional
Probab=99.54 E-value=3e-14 Score=108.32 Aligned_cols=64 Identities=20% Similarity=0.344 Sum_probs=61.2
Q ss_pred HHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhcC
Q psy8542 66 QVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQLS 129 (182)
Q Consensus 66 qlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~~ 129 (182)
..|+||+++.|++|+|.+++.++.++++.|..+|++||+.||+||+||||+++||.+|++.+..
T Consensus 34 ~~IrRLarr~GvkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~AlKr~g~ 97 (102)
T PTZ00015 34 GAIRRLARRGGVKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVYALKRQGR 97 (102)
T ss_pred HHHHHHHHHcCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHhcCC
Confidence 4799999999999999999999999999999999999999999999999999999999987644
No 9
>smart00417 H4 Histone H4.
Probab=99.44 E-value=1.7e-13 Score=98.82 Aligned_cols=58 Identities=21% Similarity=0.395 Sum_probs=55.7
Q ss_pred HHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHH
Q psy8542 66 QVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLA 123 (182)
Q Consensus 66 qlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLA 123 (182)
..|+||++++|++|+|.+++.++.++++.|..+|+.||+.|++|||||||+++||..|
T Consensus 17 ~~IrRLaRr~GvkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~~a 74 (74)
T smart00417 17 PAIRRLARRGGVKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVVYA 74 (74)
T ss_pred HHHHHHHHHcCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHheeC
Confidence 3799999999999999999999999999999999999999999999999999999764
No 10
>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=99.40 E-value=9.6e-13 Score=92.42 Aligned_cols=60 Identities=22% Similarity=0.352 Sum_probs=57.7
Q ss_pred HHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHH
Q psy8542 66 QVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAIT 125 (182)
Q Consensus 66 qlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~ 125 (182)
..|++|+++.|++++|+++...|.+.++.+..+|+++|+.|++|+||+|++.+||.+|++
T Consensus 6 ~~i~ria~~~Gi~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk 65 (65)
T smart00803 6 ETIKDVAESLGIGNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR 65 (65)
T ss_pred HHHHHHHHHCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence 468999999999999999999999999999999999999999999999999999999974
No 11
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=99.37 E-value=1.4e-12 Score=97.36 Aligned_cols=64 Identities=31% Similarity=0.469 Sum_probs=61.1
Q ss_pred HHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhcC
Q psy8542 66 QVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQLS 129 (182)
Q Consensus 66 qlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~~ 129 (182)
..+.||+++.|.+++|..+...|.+.++.|+.+|.++|..+|.|||||||+.+||++|++.+.-
T Consensus 23 apv~Ri~r~~~~~Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~~~~~ 86 (91)
T COG2036 23 APVRRILRKAGAERVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALKRLGR 86 (91)
T ss_pred hHHHHHHHHHhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHHHhcc
Confidence 3799999999999999999999999999999999999999999999999999999999987754
No 12
>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=99.33 E-value=1.9e-12 Score=102.12 Aligned_cols=93 Identities=26% Similarity=0.388 Sum_probs=42.0
Q ss_pred hhhhhhhHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhcCCCCCCCCC
Q psy8542 58 YANHARDAQVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQLSGSFAKPPP 137 (182)
Q Consensus 58 ys~hardaqlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~~~~F~~ppp 137 (182)
-+..|+|+++|+.||+++||++|+|+|++|||||+|||+++||+|| ..+| .-.+... ...
T Consensus 8 ~~~~PrDa~~i~~iL~~~Gv~~yeprVv~qLLEfayRYt~~vL~DA---~~ya---------------~hA~~~~--i~~ 67 (129)
T PF02291_consen 8 SKSLPRDARVIHLILKSMGVTEYEPRVVNQLLEFAYRYTSDVLEDA---QVYA---------------DHAGRST--IDA 67 (129)
T ss_dssp -----HHHHHHHHHHHHTT---B-THHHHHHHHHHHHHHHHHHHHH---HHHH---------------HHTT-SS--B-H
T ss_pred CccCChHHHHHHHHHHHcCCcccCHHHHHHHHHHHHHHHHHHHHHH---HHHH---------------Hhccccc--CCh
Confidence 3467999999999999999999999999999999999999999999 2222 1111111 112
Q ss_pred hhhhhccccccCCcccccCCCCCCCCCccCCccccc
Q psy8542 138 RESKGSGQAGAMGSNAHNKAPLTKGAMKTVPQARNQ 173 (182)
Q Consensus 138 ke~Ll~lA~~~~~~~~~N~~pLP~~~girlP~e~~~ 173 (182)
-|.-+..+ +........|.|.++.+.+-.|+|.
T Consensus 68 ~DVrLAi~---~r~~~~f~~pppre~llelA~e~N~ 100 (129)
T PF02291_consen 68 DDVRLAIQ---SRLDHSFTQPPPREFLLELAREKNS 100 (129)
T ss_dssp HHHHHHHH---HT-----------------------
T ss_pred HHHHHHHH---HHHhhhccCCCChHHHHHHHHHhcC
Confidence 23333332 1123445567778999999888887
No 13
>KOG3334|consensus
Probab=99.31 E-value=2.5e-12 Score=102.84 Aligned_cols=92 Identities=27% Similarity=0.399 Sum_probs=70.1
Q ss_pred hhhhhhHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhcCCCCCCCCCh
Q psy8542 59 ANHARDAQVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQLSGSFAKPPPR 138 (182)
Q Consensus 59 s~hardaqlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~~~~F~~pppk 138 (182)
..+|+|+++|..||+++||++|+|+|++|||||+||||+.||+|| +--..|.-..+-.-
T Consensus 10 ~~~pkDa~~i~~iL~s~GI~eyEprVi~qlLefa~rYtt~vL~DA---------------------~vys~HA~ka~i~~ 68 (148)
T KOG3334|consen 10 KGVPKDARVIASILKSLGIQEYEPRVINQLLEFAYRYTTTVLDDA---------------------KVYSSHAKKATIDA 68 (148)
T ss_pred cCCcHHHHHHHHHHHHcCccccChHHHHHHHHHHHHHHHHHHHHH---------------------HHHHHhccCCCCcH
Confidence 478999999999999999999999999999999999999999998 22222233444555
Q ss_pred hhhhccccccCCcccccCCCCCCCCCccCCccccc
Q psy8542 139 ESKGSGQAGAMGSNAHNKAPLTKGAMKTVPQARNQ 173 (182)
Q Consensus 139 e~Ll~lA~~~~~~~~~N~~pLP~~~girlP~e~~~ 173 (182)
|.+. +| -+|..+.....|.|.++...|-.|||+
T Consensus 69 eDVr-lA-~~~~~~~sf~~pPpRe~lL~lA~~rN~ 101 (148)
T KOG3334|consen 69 EDVR-LA-IQMRVDHSFTPPPPREFLLELAAERNS 101 (148)
T ss_pred HHHH-HH-HHHHhccccCCCCchHHHHHHHHhhcc
Confidence 5442 22 234455566667778888888888886
No 14
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=99.20 E-value=9.7e-11 Score=84.05 Aligned_cols=62 Identities=16% Similarity=0.412 Sum_probs=59.5
Q ss_pred HHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHh
Q psy8542 66 QVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQ 127 (182)
Q Consensus 66 qlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r 127 (182)
..|.+|++..|+++++|.+.+.|.|.+++|..++++.+..||+|+||++++..||++|++..
T Consensus 10 ~~Vaqil~~~Gf~~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~~ 71 (77)
T smart00576 10 IAVAQILESAGFDSFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALENL 71 (77)
T ss_pred HHHHHHHHHcCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHh
Confidence 57899999999999999999999999999999999999999999999999999999999754
No 15
>COG5094 TAF9 Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=99.05 E-value=1.5e-10 Score=91.02 Aligned_cols=95 Identities=25% Similarity=0.375 Sum_probs=68.5
Q ss_pred hhhhHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHH-hcCCCCCCCCC-h
Q psy8542 61 HARDAQVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITN-QLSGSFAKPPP-R 138 (182)
Q Consensus 61 hardaqlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~-r~~~~F~~ppp-k 138 (182)
-|+|+++|+.||++.|++.|++.|+.|||||+||||.+|++|| ...|=-+ |++ .. +.. -
T Consensus 13 gPrDvrlihliL~Slgi~~ye~~VplQLl~FAhRYTq~vl~Da----------------lvya~htgrg~--~a-~l~ve 73 (145)
T COG5094 13 GPRDVRLIHLILRSLGIEEYEPKVPLQLLEFAHRYTQDVLEDA----------------LVYAKHTGRGH--IA-TLGVE 73 (145)
T ss_pred CCcchhHHHHHHHhcCchhhCccchHHHHHHHHHHHHHHHHHH----------------HHHHHhcCCCc--cC-cccHH
Confidence 4999999999999999999999999999999999999999998 1111111 222 22 222 4
Q ss_pred hhhhccccccCCcccccCCCCCCCCCccCCccccc--cccc
Q psy8542 139 ESKGSGQAGAMGSNAHNKAPLTKGAMKTVPQARNQ--NAQS 177 (182)
Q Consensus 139 e~Ll~lA~~~~~~~~~N~~pLP~~~girlP~e~~~--~~~~ 177 (182)
|.=+.+|+ ..+....-|-|+++...|..|||. |-|+
T Consensus 74 DvrLA~at---~v~~~F~pppPke~llela~erN~KpLpq~ 111 (145)
T COG5094 74 DVRLALAT---KVGRHFVPPPPKEYLLELATERNSKPLPQP 111 (145)
T ss_pred HHHHHHHH---HhcCCcCCCChHHHHHHHHHHhcCCCCCcc
Confidence 45556651 224445556667899999999987 5443
No 16
>KOG3467|consensus
Probab=98.95 E-value=3.3e-09 Score=79.08 Aligned_cols=67 Identities=22% Similarity=0.347 Sum_probs=61.8
Q ss_pred HHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhc--CCCCC
Q psy8542 67 VIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQL--SGSFA 133 (182)
Q Consensus 67 lI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~--~~~F~ 133 (182)
.|++|.+..||+|++.-++++....+..|..+++.+|..|++||+||||++.||..+++... -|.|.
T Consensus 34 aIRRlARr~GVkRi~G~~yeE~~~~~k~fl~n~i~~A~~yt~HAKRKTvT~~dvv~~LKR~G~~~~g~~ 102 (103)
T KOG3467|consen 34 AIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLYGFG 102 (103)
T ss_pred HHHHHHHhcCcchhchhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhceeeHHHHHHHHHHcCceeeccC
Confidence 69999999999999999999999999999999999999999999999999999999998653 34553
No 17
>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=98.91 E-value=1.4e-08 Score=72.30 Aligned_cols=62 Identities=23% Similarity=0.450 Sum_probs=54.0
Q ss_pred HHHHHhc-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhcCC
Q psy8542 69 VNMFQEA-GIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQLSG 130 (182)
Q Consensus 69 ~rIlk~~-Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~~~ 130 (182)
..++++. +-.++++++...|.++++.|+.+|+++|..+|.|+||+||+++||+++++..-+.
T Consensus 8 ~~lv~~id~~~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r~~~~ 70 (72)
T cd07981 8 QELLKEIDPREQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLERNWNI 70 (72)
T ss_pred HHHHHhhCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhcCC
Confidence 3444432 4589999999999999999999999999999999999999999999999875443
No 18
>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=98.74 E-value=7.6e-08 Score=68.61 Aligned_cols=63 Identities=16% Similarity=0.420 Sum_probs=59.8
Q ss_pred HHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhc
Q psy8542 66 QVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQL 128 (182)
Q Consensus 66 qlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~ 128 (182)
++|..|++..|++..++.+.+.|.|++.+|..++.+.+..||+|+||...+..||.+|++.-+
T Consensus 10 ~~va~il~~~GF~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~~~g 72 (77)
T PF07524_consen 10 RSVAQILKHAGFDSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQALEEMG 72 (77)
T ss_pred HHHHHHHHHcCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhC
Confidence 678999999999999999999999999999999999999999999999999999999997543
No 19
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=98.69 E-value=3.9e-08 Score=71.24 Aligned_cols=58 Identities=21% Similarity=0.437 Sum_probs=48.3
Q ss_pred HHHHHHhcCCc---ccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHH
Q psy8542 68 IVNMFQEAGIK---NYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAIT 125 (182)
Q Consensus 68 I~rIlk~~Gv~---r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~ 125 (182)
+.+|..+.+-+ .++|.++..|.|.+|+++..+.+|-..||.||||+||+.+||+|..+
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 56666665433 49999999999999999999999999999999999999999999864
No 20
>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=98.68 E-value=9.3e-08 Score=85.55 Aligned_cols=69 Identities=17% Similarity=0.279 Sum_probs=63.2
Q ss_pred HHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHh---cCCCCCC
Q psy8542 66 QVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQ---LSGSFAK 134 (182)
Q Consensus 66 qlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r---~~~~F~~ 134 (182)
..|+.|+++.|++++++++...|.+.++.++.+|+++|..++.|+||+|++.+||.+|++.+ ..|.|..
T Consensus 3 ~~i~~ia~~~Gi~~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~~~n~eplyG~~~ 74 (343)
T cd08050 3 ESIKLIAESLGIDSLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALRLRNVEPLYGFSS 74 (343)
T ss_pred hHHHHHHHHcCCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHHhCCCcccCCCC
Confidence 45788999999999999999999999999999999999999999999999999999999987 3356543
No 21
>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=98.55 E-value=3.2e-07 Score=64.35 Aligned_cols=61 Identities=25% Similarity=0.329 Sum_probs=53.5
Q ss_pred HHHHHHHHhcCCc-ccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHH
Q psy8542 66 QVIVNMFQEAGIK-NYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITN 126 (182)
Q Consensus 66 qlI~rIlk~~Gv~-r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~ 126 (182)
++.+.|..+.+.. +++..+...|..+++-|+.+++++|..+|.|++|+||+..||++|++.
T Consensus 13 r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r~ 74 (75)
T PF00125_consen 13 RLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLAVRI 74 (75)
T ss_dssp HHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHHH
T ss_pred eeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHHHhc
Confidence 3445555555554 999999999999999999999999999999999999999999999974
No 22
>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=98.39 E-value=2.3e-06 Score=60.55 Aligned_cols=60 Identities=18% Similarity=0.364 Sum_probs=50.9
Q ss_pred HHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHH
Q psy8542 66 QVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAIT 125 (182)
Q Consensus 66 qlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~ 125 (182)
..|+.+..+.|+...++++...|.+-++.-..+|+++|..+..|++|++++.+||..|++
T Consensus 7 esvk~iAes~Gi~~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di~~ALr 66 (66)
T PF02969_consen 7 ESVKDIAESLGISNLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLTTDDINSALR 66 (66)
T ss_dssp HHHHHHHHHTT---B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHH-
T ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHhC
Confidence 468889999999999999999999999999999999999999999999999999999984
No 23
>smart00428 H3 Histone H3.
Probab=98.35 E-value=2.8e-06 Score=65.11 Aligned_cols=65 Identities=22% Similarity=0.293 Sum_probs=58.0
Q ss_pred HHHHHHHHHhcC---CcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhcC
Q psy8542 65 AQVIVNMFQEAG---IKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQLS 129 (182)
Q Consensus 65 aqlI~rIlk~~G---v~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~~ 129 (182)
.++++.|..+.. -=++++++...|-|.++.|..++.+||...|.||+|.||...|++||..-|+.
T Consensus 36 ~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi~La~rir~~ 103 (105)
T smart00428 36 QRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQLARRIRGE 103 (105)
T ss_pred HHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhHHHHHHHhcc
Confidence 478888888753 23899999999999999999999999999999999999999999999876653
No 24
>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=98.26 E-value=2.7e-06 Score=66.07 Aligned_cols=61 Identities=18% Similarity=0.187 Sum_probs=57.9
Q ss_pred HHHHHHHHh-cCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHH
Q psy8542 66 QVIVNMFQE-AGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITN 126 (182)
Q Consensus 66 qlI~rIlk~-~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~ 126 (182)
.-|+++|++ .++.|++..+...|...+|.++.||++-|..+|.|+++++|+.+||.+||..
T Consensus 24 ~ri~R~Lk~~~~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi~n 85 (115)
T cd00074 24 GRIHRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAVRN 85 (115)
T ss_pred HHHHHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHHhc
Confidence 468899997 7999999999999999999999999999999999999999999999999975
No 25
>PF00808 CBFD_NFYB_HMF: Histone-like transcription factor (CBF/NF-Y) and archaeal histone; InterPro: IPR003958 The CCAAT-binding factor (CBF) is a mammalian transcription factor that binds to a CCAAT motif in the promoters of a wide variety of genes, including type I collagen and albumin. The factor is a heteromeric complex of A and B subunits, both of which are required for DNA-binding [, ]. The subunits can interact in the absence of DNA-binding, conserved regions in each being important in mediating this interaction. The A subunit can be split into 3 domains on the basis of sequence similarity, a non-conserved N-terminal 'A domain'; a highly-conserved central 'B domain' involved in DNA-binding; and a C-terminal 'C domain', which contains a number of glutamine and acidic residues involved in protein-protein interactions []. The A subunit shows striking similarity to the HAP3 subunit of the yeast CCAAT-binding heterotrimeric transcription factor [, ]. The Kluyveromyces lactis HAP3 protein has been predicted to contain a 4-cysteine zinc finger, which is thought to be present in similar HAP3 and CBF subunit A proteins, in which the third cysteine is replaced by a serine []. This domain is found in the CCAAT transcription factor and archaeal histones.; GO: 0043565 sequence-specific DNA binding, 0005622 intracellular; PDB: 1F1E_A 2BYM_D 2BYK_D 1HTA_A 1B67_A 1JFI_B 1KU5_B 1N1J_A 1BFM_A 1B6W_A ....
Probab=98.24 E-value=4.8e-06 Score=57.38 Aligned_cols=58 Identities=14% Similarity=0.302 Sum_probs=52.8
Q ss_pred HHHHHHHhc-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHH
Q psy8542 67 VIVNMFQEA-GIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAI 124 (182)
Q Consensus 67 lI~rIlk~~-Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI 124 (182)
.|.+|++.. ++.+++.++...+-..++.|+..++++|...|.+.||+||+.+||..|+
T Consensus 7 ~vkri~k~~~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~~rkti~~~Dv~~Av 65 (65)
T PF00808_consen 7 RVKRIMKSDPDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTITYEDVAKAV 65 (65)
T ss_dssp HHHHHHHHTSTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE-HHHHHHHH
T ss_pred HHHHHhccCCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHC
Confidence 478899876 8889999999999999999999999999999999999999999999886
No 26
>PLN00161 histone H3; Provisional
Probab=97.62 E-value=0.0003 Score=56.19 Aligned_cols=65 Identities=20% Similarity=0.266 Sum_probs=58.6
Q ss_pred HHHHHHHHHhcC--CcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhcC
Q psy8542 65 AQVIVNMFQEAG--IKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQLS 129 (182)
Q Consensus 65 aqlI~rIlk~~G--v~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~~ 129 (182)
.++|+.|..+.. -=++.+.++..|-|.+|.|..++.+||...|-||+|.||...|++||..-|..
T Consensus 62 ~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm~La~rirg~ 128 (135)
T PLN00161 62 ARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDMQLARRIRGP 128 (135)
T ss_pred HHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhHHHHHHhccc
Confidence 478999988753 35899999999999999999999999999999999999999999999877655
No 27
>PLN00160 histone H3; Provisional
Probab=97.60 E-value=0.00033 Score=53.12 Aligned_cols=65 Identities=20% Similarity=0.237 Sum_probs=57.8
Q ss_pred HHHHHHHHHhc--CCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhcC
Q psy8542 65 AQVIVNMFQEA--GIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQLS 129 (182)
Q Consensus 65 aqlI~rIlk~~--Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~~ 129 (182)
.++++.|..+. +--++.+.+...|-|.+|.|..++.+|+...|-||+|.||...|++||-.-|+.
T Consensus 28 ~RLVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~~L~~rirg~ 94 (97)
T PLN00160 28 ARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDMQLARRIRGQ 94 (97)
T ss_pred HHHHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhHHHHHHhhcc
Confidence 46888888765 235899999999999999999999999999999999999999999999876654
No 28
>PTZ00018 histone H3; Provisional
Probab=97.58 E-value=0.00031 Score=56.14 Aligned_cols=65 Identities=23% Similarity=0.296 Sum_probs=57.4
Q ss_pred HHHHHHHHHhcC-CcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhcC
Q psy8542 65 AQVIVNMFQEAG-IKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQLS 129 (182)
Q Consensus 65 aqlI~rIlk~~G-v~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~~ 129 (182)
.++|+.|..+.+ -=++.+.++..|-|.+|.|...+.+|+...|-||+|-||...|++||-.-|+.
T Consensus 69 ~RLVREI~~~~~~~~rf~~~al~aLQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~rirg~ 134 (136)
T PTZ00018 69 QRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGE 134 (136)
T ss_pred HHHHHHHHHHcCCcceeeHHHHHHHHHHHHHHHHHHhhhhHHHHHhhcceecchhhHHHHHHhccc
Confidence 468888887642 23899999999999999999999999999999999999999999999876654
No 29
>PLN00121 histone H3; Provisional
Probab=97.50 E-value=0.00046 Score=55.20 Aligned_cols=65 Identities=23% Similarity=0.296 Sum_probs=57.4
Q ss_pred HHHHHHHHHhcC-CcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhcC
Q psy8542 65 AQVIVNMFQEAG-IKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQLS 129 (182)
Q Consensus 65 aqlI~rIlk~~G-v~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~~ 129 (182)
.++|+.|..+.+ -=++.+.++..|-|.+|.|..++.+|+...|-||+|-||...|++||-.-|+.
T Consensus 69 ~RLVREI~~~~~~~~Rf~~~Al~ALQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~rirg~ 134 (136)
T PLN00121 69 QRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGE 134 (136)
T ss_pred HHHHHHHHHHhCccceeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcceecchhhHHHHHHhccc
Confidence 478888887642 23899999999999999999999999999999999999999999999866654
No 30
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T.
Probab=97.48 E-value=0.0002 Score=65.87 Aligned_cols=42 Identities=21% Similarity=0.347 Sum_probs=36.9
Q ss_pred cccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHH
Q psy8542 78 KNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVED 119 (182)
Q Consensus 78 ~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eD 119 (182)
..++.++...|......|-..+..|-.+||+|||||||+.+|
T Consensus 373 ~kiskdal~aleqasdwfFeQl~dDL~aYA~HAgRKTIdesD 414 (414)
T PF15511_consen 373 MKISKDALEALEQASDWFFEQLGDDLEAYAKHAGRKTIDESD 414 (414)
T ss_dssp S-B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHH
T ss_pred CccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCCCC
Confidence 479999999999999999999999999999999999999987
No 31
>PF03847 TFIID_20kDa: Transcription initiation factor TFIID subunit A; InterPro: IPR003228 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription [].; GO: 0006352 transcription initiation, DNA-dependent, 0005669 transcription factor TFIID complex; PDB: 1H3O_B.
Probab=97.29 E-value=0.00073 Score=47.92 Aligned_cols=59 Identities=19% Similarity=0.407 Sum_probs=45.8
Q ss_pred HHHHHhc-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHh
Q psy8542 69 VNMFQEA-GIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQ 127 (182)
Q Consensus 69 ~rIlk~~-Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r 127 (182)
..++++. .-...+|+|-..|++++..|+.+|+..|..+|.|.|..||+..||++.++..
T Consensus 6 ~~Lv~~iDp~~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~tle~~Dv~~~Ler~ 65 (68)
T PF03847_consen 6 QELVKQIDPNEKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSSTLEVKDVQLHLERN 65 (68)
T ss_dssp HHHHHCC-SS----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHHHHH
T ss_pred HHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHHhh
Confidence 3444443 3346899999999999999999999999999999999999999999998753
No 32
>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=97.21 E-value=0.00062 Score=48.36 Aligned_cols=60 Identities=20% Similarity=0.463 Sum_probs=55.0
Q ss_pred HHHHHHHHHcCCCccChHHHHHHHHHHHhhhcccccccHhhhhhhhhH----HHHHHHHHhcCC
Q psy8542 18 QVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHARDA----QVIVNMFQEAGI 77 (182)
Q Consensus 18 ~~i~~il~~~gi~~yep~v~~qll~f~yryt~~vL~DA~vys~harda----qlI~rIlk~~Gv 77 (182)
+++..||++.|.+..+|.++..|-|...+|...+...+..|++|+++. .-+...+.++|+
T Consensus 10 ~~va~il~~~GF~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~~~gi 73 (77)
T PF07524_consen 10 RSVAQILKHAGFDSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQALEEMGI 73 (77)
T ss_pred HHHHHHHHHcCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhCC
Confidence 678999999999999999999999999999999999999999999855 456688888988
No 33
>KOG4336|consensus
Probab=97.07 E-value=0.0021 Score=57.50 Aligned_cols=63 Identities=19% Similarity=0.344 Sum_probs=60.0
Q ss_pred hhHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHH
Q psy8542 63 RDAQVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAIT 125 (182)
Q Consensus 63 rdaqlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~ 125 (182)
-.+.+|..|+++.|+..++.-+.+.|++....|..+|.+.+.-|++|+||...+..||.+.+-
T Consensus 6 vl~~VV~~Ll~~~gfd~is~~aletlvell~~yi~eigrq~~n~celagRT~pT~~Dv~l~Li 68 (323)
T KOG4336|consen 6 VLAPVVSNLLKTKGFDSISNAALETLVELLQSYIREIGRQLHNYCELAGRTIPTQGDVKLTLI 68 (323)
T ss_pred HHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHH
Confidence 356899999999999999999999999999999999999999999999999999999999885
No 34
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=97.01 E-value=0.0018 Score=46.31 Aligned_cols=61 Identities=15% Similarity=0.375 Sum_probs=53.9
Q ss_pred HHHHHHHHHcCCCccChHHHHHHHHHHHhhhcccccccHhhhhhhhhH----HHHHHHHHhcCCc
Q psy8542 18 QVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHARDA----QVIVNMFQEAGIK 78 (182)
Q Consensus 18 ~~i~~il~~~gi~~yep~v~~qll~f~yryt~~vL~DA~vys~harda----qlI~rIlk~~Gv~ 78 (182)
+.|..||+..|.+..+|.++.-|.|...||-..+.+.+..|++|+++. .-|..-+.++|+.
T Consensus 10 ~~Vaqil~~~Gf~~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~~gi~ 74 (77)
T smart00576 10 IAVAQILESAGFDSFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALENLGIS 74 (77)
T ss_pred HHHHHHHHHcCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhCcc
Confidence 468899999999999999999999999999999999999999998744 4566777778873
No 35
>KOG1142|consensus
Probab=96.98 E-value=0.0013 Score=57.41 Aligned_cols=59 Identities=25% Similarity=0.451 Sum_probs=53.8
Q ss_pred cCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhcCCCCC
Q psy8542 75 AGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQLSGSFA 133 (182)
Q Consensus 75 ~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~~~~F~ 133 (182)
-|=+-.+++|.+.|+|+|..|+.+|..-|..+|+|.+.+||++-||+|.++..-+..|-
T Consensus 168 d~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhLEr~~Nm~iP 226 (258)
T KOG1142|consen 168 DGTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHLERNFNMEIP 226 (258)
T ss_pred cCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeeeeccccccCC
Confidence 46667899999999999999999999999999999999999999999999987776653
No 36
>KOG2549|consensus
Probab=96.70 E-value=0.0073 Score=57.79 Aligned_cols=70 Identities=19% Similarity=0.290 Sum_probs=62.5
Q ss_pred HHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHh---cCCCCCC
Q psy8542 65 AQVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQ---LSGSFAK 134 (182)
Q Consensus 65 aqlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r---~~~~F~~ 134 (182)
...++-++.+.|++..++++...|-+-.+.-+.||.+||..+-.|++|.+.+.+||..|++.+ ..|.|..
T Consensus 14 ~Es~k~vAEslGi~nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~ALr~~nVep~yg~~s 86 (576)
T KOG2549|consen 14 KESVKVVAESLGITNLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYALRSLNVEPLYGFGA 86 (576)
T ss_pred HHHHHHHHHHhCccccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHHHhhcccccccCccc
Confidence 345777889999999999999999999999999999999999999999999999999999986 3456643
No 37
>KOG2389|consensus
Probab=96.54 E-value=0.011 Score=53.78 Aligned_cols=63 Identities=16% Similarity=0.316 Sum_probs=59.6
Q ss_pred HHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhc
Q psy8542 66 QVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQL 128 (182)
Q Consensus 66 qlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~ 128 (182)
..+.+|..+.|...+..-+.+-|-+++-+|+.++.+.|..|+++|||....+-||.+|++...
T Consensus 33 ~avaQIcqslg~~~~~~sale~Ltd~~~qyvQ~lgk~a~~~~n~anR~epnl~Div~Al~dls 95 (353)
T KOG2389|consen 33 VAVAQICQSLGYSSTQNSALETLTDVLQQYVQNLGKTAHRYSNLANRTEPNLFDIVLALQDLS 95 (353)
T ss_pred HHHHHHHHhcCCcccccHHHHHHHHHHHHHHHHHHhhhhhhhhhcCCCCccHHHHHHHHHHhh
Confidence 367889999999999999999999999999999999999999999999999999999999763
No 38
>smart00414 H2A Histone 2A.
Probab=95.96 E-value=0.022 Score=43.72 Aligned_cols=60 Identities=20% Similarity=0.247 Sum_probs=54.8
Q ss_pred HHHHHHHhcC-CcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHH
Q psy8542 67 VIVNMFQEAG-IKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITN 126 (182)
Q Consensus 67 lI~rIlk~~G-v~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~ 126 (182)
-|+++|++.. ..|++..+..-|...+|..+.||++-|...|...+++.|+..++.+||..
T Consensus 14 Ri~r~Lk~~~~~~Rv~~~A~VyLaAvLEYLtaEILeLagn~a~~~k~~rItp~hi~lAi~n 74 (106)
T smart00414 14 RIHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIRN 74 (106)
T ss_pred HHHHHHHcCccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchHHHhhhccC
Confidence 4788888763 77999999999999999999999999999999999999999999999974
No 39
>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=95.73 E-value=0.014 Score=43.52 Aligned_cols=58 Identities=17% Similarity=0.286 Sum_probs=28.3
Q ss_pred HHHHHhc-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHH
Q psy8542 69 VNMFQEA-GIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITN 126 (182)
Q Consensus 69 ~rIlk~~-Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~ 126 (182)
..|+-.. .+....++.+..+-|++..|+.+++..|...|...|++.|+.+|+..+++.
T Consensus 8 ~~mMy~fGD~~~P~~eTv~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR~ 66 (93)
T PF02269_consen 8 RQMMYGFGDVEEPLPETVDLVEDIVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLRK 66 (93)
T ss_dssp HHHHHCTTS-SS--HHHHHHHHHHHHHHHHHHHHHHHC---------------------
T ss_pred HHHHHHcCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHhc
Confidence 3444444 446788999999999999999999999999999999999999999999973
No 40
>KOG3423|consensus
Probab=95.58 E-value=0.061 Score=44.63 Aligned_cols=62 Identities=21% Similarity=0.285 Sum_probs=53.1
Q ss_pred HHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcC--------------CCCCCHHHHHHHHHHhc
Q psy8542 67 VIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAK--------------KKTVDVEDIKLAITNQL 128 (182)
Q Consensus 67 lI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAg--------------RktI~~eDVrLAI~~r~ 128 (182)
++.-.|+.+|+...++|++..+-=.+.+|+++|+.||..|++-.+ |-|++++|+.-|++.-+
T Consensus 91 vt~~yL~~aGf~~~D~rv~RLvsLaAQKfvSDIa~DA~Q~~k~r~~~~~~~~k~~~kdkK~tLtmeDL~~AL~EyG 166 (176)
T KOG3423|consen 91 VTDHYLKKAGFQTSDPRVKRLVSLAAQKFVSDIANDALQHSKIRTKTAIGKDKKQAKDKKYTLTMEDLSPALAEYG 166 (176)
T ss_pred HHHHHHHhcCCCcCcHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccccccccccceeeeHHHHHHHHHHhC
Confidence 345579999999999999999999999999999999999998443 22789999999997544
No 41
>PLN00154 histone H2A; Provisional
Probab=95.50 E-value=0.042 Score=44.05 Aligned_cols=60 Identities=15% Similarity=0.128 Sum_probs=55.9
Q ss_pred HHHHHHHhcC--CcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHH
Q psy8542 67 VIVNMFQEAG--IKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITN 126 (182)
Q Consensus 67 lI~rIlk~~G--v~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~ 126 (182)
-|+++|++.. ..|++..++.-|-.++|..+.|||+-|-..|...+++.|+-..|.+||..
T Consensus 43 Ri~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lAIrn 104 (136)
T PLN00154 43 RIHRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 104 (136)
T ss_pred HHHHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhhccC
Confidence 5889999875 67999999999999999999999999999999999999999999999963
No 42
>PF03540 TFIID_30kDa: Transcription initiation factor TFIID 23-30kDa subunit; InterPro: IPR003923 Transcription initiation factor TFIID is a multimeric protein complex that plays a central role in mediating promoter responses to various activators and repressors. The complex includes TATA binding protein (TBP) and various TBP-associated factors (TAFS). TFIID a bona fide RNA polymerase II-specific TATA-binding protein-associated factor (TAF) and is essential for viability []. TFIID acts to nucleate the transcription complex, recruiting the rest of the factors through a direct interaction with TFIIB. The TBP subunit of TFIID is sufficient for TATA-element binding and TFIIB interaction, and can support basal transcription. The protein belongs to the TAF2H family.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus
Probab=95.26 E-value=0.092 Score=35.53 Aligned_cols=44 Identities=18% Similarity=0.329 Sum_probs=40.6
Q ss_pred HHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy8542 66 QVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANH 109 (182)
Q Consensus 66 qlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~H 109 (182)
.++.-+|++.|++.-++++...+-=.+.+|.++|+.||..|++.
T Consensus 6 ~v~~~yL~~~G~~~~D~rv~RLvSLaaQKFisdI~~dA~q~~k~ 49 (51)
T PF03540_consen 6 EVTDYYLERSGFQTSDPRVKRLVSLAAQKFISDIANDAMQYCKI 49 (51)
T ss_pred HHHHHHHHHCCCCCCCHhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 36778999999999999999999999999999999999999874
No 43
>PF13654 AAA_32: AAA domain; PDB: 3K1J_B.
Probab=95.02 E-value=0.11 Score=49.38 Aligned_cols=64 Identities=20% Similarity=0.463 Sum_probs=53.8
Q ss_pred HHHHHHHHHhcCCcccChHHHHHHHHHHHH-----------HHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhc
Q psy8542 65 AQVIVNMFQEAGIKNYDPRCVQQMLEFVNN-----------YTTTILEDSRVYANHAKKKTVDVEDIKLAITNQL 128 (182)
Q Consensus 65 aqlI~rIlk~~Gv~r~sp~v~~qLle~~~r-----------y~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~ 128 (182)
++.|..+.++.|...++..++..|++++-| ...+++.+|-.+|...|++.|+.+||+.||+.|.
T Consensus 433 ~~~i~~~~~~~~L~~~~~~Av~~li~~~~R~~q~kLsl~~~~l~~ll~EA~~~A~~~~~~~I~~~~V~~Ai~~r~ 507 (509)
T PF13654_consen 433 ARFIASICQKEGLPPFDRSAVARLIEYSARLDQDKLSLRFSWLADLLREANYWARKEGAKVITAEHVEQAIEERR 507 (509)
T ss_dssp HHHHHHHHHHHSS--BBHHHHHHHHHHHHHCC-SEEE--HHHHHHHHHHHHHHHHHCT-SSB-HHHHHHHHHH--
T ss_pred HHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHhCCEeCCCHHHHHHHHHHHHHHHHHhCCCccCHHHHHHHHHccc
Confidence 457888889999999999999999999988 5789999999999999999999999999999874
No 44
>KOG0869|consensus
Probab=94.98 E-value=0.12 Score=42.48 Aligned_cols=76 Identities=12% Similarity=0.135 Sum_probs=58.6
Q ss_pred HHHHHHhc--CCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhcCCCCCCCCChhhhhcc
Q psy8542 68 IVNMFQEA--GIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQLSGSFAKPPPRESKGSG 144 (182)
Q Consensus 68 I~rIlk~~--Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~~~~F~~pppke~Ll~l 144 (182)
|.||+|+. .---++.++.+.+-|-+-.|++=|..+|..-+..-+||||+.|||.+|+...+ +.-..-|-|-||..+
T Consensus 38 V~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~tLG-Fe~Y~eplkiyL~kY 115 (168)
T KOG0869|consen 38 VSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMSTLG-FENYAEPLKIYLQKY 115 (168)
T ss_pred HHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHHHcC-cHhHHHHHHHHHHHH
Confidence 45555542 11238899999999999999999999999999999999999999999996544 333334566677665
No 45
>PTZ00017 histone H2A; Provisional
Probab=94.59 E-value=0.081 Score=42.31 Aligned_cols=60 Identities=22% Similarity=0.222 Sum_probs=54.6
Q ss_pred HHHHHHHhc-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHH
Q psy8542 67 VIVNMFQEA-GIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITN 126 (182)
Q Consensus 67 lI~rIlk~~-Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~ 126 (182)
-|+++|++. -..|++..++.-|-..+|..+.|||+-|...|...+++.|+..+|.+||..
T Consensus 32 Ri~R~Lk~g~~a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~RItPrHi~lAI~n 92 (134)
T PTZ00017 32 RVHRYLKKGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLAIRN 92 (134)
T ss_pred HHHHHHhccchhccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHhhccC
Confidence 578888764 567999999999999999999999999999999999999999999999973
No 46
>KOG1745|consensus
Probab=93.80 E-value=0.034 Score=44.61 Aligned_cols=64 Identities=22% Similarity=0.308 Sum_probs=53.4
Q ss_pred HHHHHHHHhc-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhcC
Q psy8542 66 QVIVNMFQEA-GIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQLS 129 (182)
Q Consensus 66 qlI~rIlk~~-Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~~ 129 (182)
++++.|..+. -.=++...++..|-|.++.|..++.+|+...|-||+|-||.-.||.||.+.++.
T Consensus 71 Rlvrei~q~f~~dLrfqs~Ai~ALQeA~EayLv~LfEdtnlcAihAkRVTimpkdiQlArrirg~ 135 (137)
T KOG1745|consen 71 RLVREIAQDFKTDLRFQSSAIAALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGE 135 (137)
T ss_pred HHhHHHHhcccccceehHHHHHHHHHHHHHHHHHhccccchhhhccceeEecccceehhhhcccC
Confidence 4555444432 223688999999999999999999999999999999999999999999987764
No 47
>PLN00157 histone H2A; Provisional
Probab=93.16 E-value=0.2 Score=39.95 Aligned_cols=60 Identities=17% Similarity=0.163 Sum_probs=54.4
Q ss_pred HHHHHHHhc-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHH
Q psy8542 67 VIVNMFQEA-GIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITN 126 (182)
Q Consensus 67 lI~rIlk~~-Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~ 126 (182)
-|++.|++. -..|++..++.-|-..+|.-+.|||+-|...|...+++.|+...|.+||..
T Consensus 31 Ri~R~Lk~g~~a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~n 91 (132)
T PLN00157 31 RIARYLKAGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRIVPRHIQLAVRN 91 (132)
T ss_pred HHHHHHhcCchhhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHhhcccC
Confidence 578888773 467899999999999999999999999999999999999999999999974
No 48
>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=93.03 E-value=0.86 Score=33.98 Aligned_cols=57 Identities=23% Similarity=0.355 Sum_probs=48.1
Q ss_pred HHHHHHhcC-CcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHH
Q psy8542 68 IVNMFQEAG-IKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAIT 125 (182)
Q Consensus 68 I~rIlk~~G-v~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~ 125 (182)
|..|+-..| +....++.+..+=|....|..+++..|...|. .++..|+.||+..+|+
T Consensus 8 i~~mmy~~GD~~~P~~eTv~llE~iv~~~i~~l~~~a~~~A~-~r~~k~~~eD~~FliR 65 (92)
T cd07978 8 IRQMMYGFGDVQNPLPETVDLLEDIVVEYIIELCHKAAEVAQ-RRRGKVKVEDLIFLLR 65 (92)
T ss_pred HHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHHHh
Confidence 445555444 45788899999999999999999999999998 7777889999999996
No 49
>KOG0870|consensus
Probab=92.90 E-value=0.49 Score=39.24 Aligned_cols=62 Identities=16% Similarity=0.202 Sum_probs=52.6
Q ss_pred ccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhcCCCCCCCCChhhh
Q psy8542 79 NYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQLSGSFAKPPPRESK 141 (182)
Q Consensus 79 r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~~~~F~~pppke~L 141 (182)
.++-++...+-.-|-=|+.-+..-|..+|...+|||++++||.-|+.-...-.|.+| -|+-|
T Consensus 30 sisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~Eiefs~f~~p-lk~~L 91 (172)
T KOG0870|consen 30 SISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALDEIEFSSFVNP-LKSAL 91 (172)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHHHhchHHHhhH-HHHHH
Confidence 477888888888888899999999999999999999999999999998887778755 34444
No 50
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=92.90 E-value=0.58 Score=42.88 Aligned_cols=75 Identities=13% Similarity=0.274 Sum_probs=63.5
Q ss_pred HHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHh---cCCCCCCCCChhh
Q psy8542 66 QVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQ---LSGSFAKPPPRES 140 (182)
Q Consensus 66 qlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r---~~~~F~~pppke~ 140 (182)
..++-...+.|+....+++...|.--++--+.+|.++|..+-.|.+|..++.+||-.|+.++ .-|.|.+.-|-+|
T Consensus 9 et~KdvAeslGi~Ni~Dd~l~alamDlEYRI~ev~qea~KFmvhSKRtvLt~dDis~ALr~lNVePLyGyd~~r~l~f 86 (450)
T COG5095 9 ETLKDVAESLGISNIDDDALRALAMDLEYRIKEVCQEASKFMVHSKRTVLTIDDISYALRSLNVEPLYGYDPSRPLQF 86 (450)
T ss_pred HHHHHHHHHcCCcccccHHHHHHHHhHHHHHHHHHHHHHHHhhcccceeeeHHhHHHHHHhcCCCcccCCCCCcchhH
Confidence 34666778899999999999999888888899999999999999999999999999999986 3467776544444
No 51
>PLN00156 histone H2AX; Provisional
Probab=92.51 E-value=0.36 Score=38.91 Aligned_cols=60 Identities=17% Similarity=0.178 Sum_probs=54.3
Q ss_pred HHHHHHHhc-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHH
Q psy8542 67 VIVNMFQEA-GIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITN 126 (182)
Q Consensus 67 lI~rIlk~~-Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~ 126 (182)
-|+|.|++. -..|++..++.-|-..+|.-+.|||+-|...|...+++.|+...|.+||..
T Consensus 34 Ri~R~Lk~g~ya~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi~lAIrn 94 (139)
T PLN00156 34 RIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRN 94 (139)
T ss_pred HHHHHHhcCChhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHhhccC
Confidence 578888774 467999999999999999999999999999999999999999999999974
No 52
>KOG1756|consensus
Probab=92.29 E-value=0.42 Score=38.09 Aligned_cols=59 Identities=19% Similarity=0.188 Sum_probs=55.4
Q ss_pred HHHHHHHh-cCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHH
Q psy8542 67 VIVNMFQE-AGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAIT 125 (182)
Q Consensus 67 lI~rIlk~-~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~ 125 (182)
-|+++|++ ..+.|++..++..|-..++.-+.+|++-|-..|...+++.|+-.-|++||.
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 57888887 688899999999999999999999999999999999999999999999997
No 53
>PLN00153 histone H2A; Provisional
Probab=92.02 E-value=0.39 Score=38.20 Aligned_cols=60 Identities=20% Similarity=0.192 Sum_probs=54.0
Q ss_pred HHHHHHHh-cCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHH
Q psy8542 67 VIVNMFQE-AGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITN 126 (182)
Q Consensus 67 lI~rIlk~-~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~ 126 (182)
-|++.|++ .-..|++..++.-|-..++.-+.|||+-|...|...+++.|+...|.+||..
T Consensus 29 Ri~R~Lr~g~~a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~n 89 (129)
T PLN00153 29 RIARYLKKGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVPRHIQLAIRN 89 (129)
T ss_pred HHHHHHhcCchhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccChHHHHhhccC
Confidence 57788876 4567899999999999999999999999999999999999999999999974
No 54
>PTZ00252 histone H2A; Provisional
Probab=91.34 E-value=0.64 Score=37.24 Aligned_cols=60 Identities=17% Similarity=0.192 Sum_probs=52.0
Q ss_pred HHHHHHHhcC-CcccChHHHHHHHHHHHHHHHHHHHHHHHHhhh--cCCCCCCHHHHHHHHHH
Q psy8542 67 VIVNMFQEAG-IKNYDPRCVQQMLEFVNNYTTTILEDSRVYANH--AKKKTVDVEDIKLAITN 126 (182)
Q Consensus 67 lI~rIlk~~G-v~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~H--AgRktI~~eDVrLAI~~ 126 (182)
-|++.|++.. ..|++..++.-|-.++|.-+.|||+-|...|.. .+++.|+-..|.|||..
T Consensus 30 Ri~R~Lr~g~ya~RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~kk~RItPrHi~lAIrN 92 (134)
T PTZ00252 30 RVGSLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPKRLTPRTVTLAVRH 92 (134)
T ss_pred HHHHHHHcCCcccccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccccHHHHHhhccC
Confidence 5778888765 679999999999999999999999999998864 45679999999999974
No 55
>PF03540 TFIID_30kDa: Transcription initiation factor TFIID 23-30kDa subunit; InterPro: IPR003923 Transcription initiation factor TFIID is a multimeric protein complex that plays a central role in mediating promoter responses to various activators and repressors. The complex includes TATA binding protein (TBP) and various TBP-associated factors (TAFS). TFIID a bona fide RNA polymerase II-specific TATA-binding protein-associated factor (TAF) and is essential for viability []. TFIID acts to nucleate the transcription complex, recruiting the rest of the factors through a direct interaction with TFIIB. The TBP subunit of TFIID is sufficient for TATA-element binding and TFIIB interaction, and can support basal transcription. The protein belongs to the TAF2H family.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus
Probab=91.25 E-value=0.35 Score=32.72 Aligned_cols=44 Identities=18% Similarity=0.329 Sum_probs=40.7
Q ss_pred HHHHHHHHHcCCCccChHHHHHHHHHHHhhhcccccccHhhhhh
Q psy8542 18 QVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANH 61 (182)
Q Consensus 18 ~~i~~il~~~gi~~yep~v~~qll~f~yryt~~vL~DA~vys~h 61 (182)
.++.-+|+..|++.=+|||...+==.+.+|.++|+.||..|+..
T Consensus 6 ~v~~~yL~~~G~~~~D~rv~RLvSLaaQKFisdI~~dA~q~~k~ 49 (51)
T PF03540_consen 6 EVTDYYLERSGFQTSDPRVKRLVSLAAQKFISDIANDAMQYCKI 49 (51)
T ss_pred HHHHHHHHHCCCCCCCHhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 47888999999999999999999999999999999999999753
No 56
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=91.23 E-value=0.28 Score=35.48 Aligned_cols=46 Identities=17% Similarity=0.357 Sum_probs=36.3
Q ss_pred HHHHHHHcCCC---ccChHHHHHHHHHHHhhhcccccccHhhhhhhhhH
Q psy8542 20 IVNMFQEAGIK---NYDPRCVQQMLEFVNNYTTTILEDSRVYANHARDA 65 (182)
Q Consensus 20 i~~il~~~gi~---~yep~v~~qll~f~yryt~~vL~DA~vys~harda 65 (182)
+..|..+.+.. ++.|.+|..|.|+.|+|...+=.|-..|+.||+..
T Consensus 11 v~ki~ee~~~~~~~~~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~ 59 (76)
T PF15630_consen 11 VGKIVEEEAKEKGVEVSPQFIAALTELVYKQLENLAKDLEAFAKHAGRS 59 (76)
T ss_dssp HHHHHHHCCCCTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-S
T ss_pred HHHHHHHHHhccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 34455555433 49999999999999999999999999999999843
No 57
>smart00427 H2B Histone H2B.
Probab=91.17 E-value=2 Score=32.15 Aligned_cols=49 Identities=24% Similarity=0.307 Sum_probs=43.4
Q ss_pred cChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhc
Q psy8542 80 YDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQL 128 (182)
Q Consensus 80 ~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~ 128 (182)
++.++..-+.-|.......|+.+|..++.+.+|+||+..+|+.|++-.+
T Consensus 20 iS~kam~imnSfvnDiferIa~EAs~L~~~nkr~TltsreIqtAvrl~L 68 (89)
T smart00427 20 ISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLSSREIQTAVRLIL 68 (89)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHHHc
Confidence 5667777788888889999999999999999999999999999997655
No 58
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]
Probab=90.97 E-value=0.62 Score=36.83 Aligned_cols=61 Identities=16% Similarity=0.128 Sum_probs=56.4
Q ss_pred HHHHHHHHH-hcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHH
Q psy8542 65 AQVIVNMFQ-EAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAIT 125 (182)
Q Consensus 65 aqlI~rIlk-~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~ 125 (182)
+--|+++|+ ..+..|++..+..-+-..++..+.||++-|...|...+++.|.---+.+||.
T Consensus 29 vgrvkr~lk~~~~~~Rig~~A~Vyl~AvleYL~aEilelAgNaA~d~kkkri~PrHlqlAIr 90 (132)
T COG5262 29 VGRVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIPRHLQLAIR 90 (132)
T ss_pred HHHHHHHHHcCccceeecCCcHHHHHHHHHHHHHHHHHHhhhhhhhcCcceechHHHHHHhc
Confidence 346889998 6788899999999999999999999999999999999999999999999996
No 59
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]
Probab=90.43 E-value=0.58 Score=40.67 Aligned_cols=92 Identities=12% Similarity=0.173 Sum_probs=71.9
Q ss_pred HHHHHhhhccccccc-HhhhhhhhhHHHHHHHHH-hcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHH
Q psy8542 41 LEFVNNYTTTILEDS-RVYANHARDAQVIVNMFQ-EAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVE 118 (182)
Q Consensus 41 l~f~yryt~~vL~DA-~vys~hardaqlI~rIlk-~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~e 118 (182)
.+||+.-...+-.+. ..+..|----.-|++++| +-||+-++.+++..+...++.|+.++.-.|-..|+..+|.|+...
T Consensus 87 ~ryWq~ti~~~e~~~q~~~k~h~LPlARIkkvMKtdedVkMisaEaPvlFak~~EiFI~ELTmRAW~~ae~NkRRtLQks 166 (286)
T COG5208 87 SRYWQQTIKAAEEERQILLKDHNLPLARIKKVMKTDEDVKMISAEAPVLFAKITEIFIEELTMRAWINAEENKRRTLQKS 166 (286)
T ss_pred HHHHHHHHHHHHHhHHHHHHhccCcHHHHHHHHhcccchhheecccchHHHHHHHHHHHHHHHHHHHHHhHhhhhHHHHH
Confidence 345544433333333 445555433445777777 789999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhcCCCC
Q psy8542 119 DIKLAITNQLSGSF 132 (182)
Q Consensus 119 DVrLAI~~r~~~~F 132 (182)
||-.|+++--.|.|
T Consensus 167 Dia~Av~kSeMfDF 180 (286)
T COG5208 167 DIAAAVKKSEMFDF 180 (286)
T ss_pred HHHHHHHHHHHHhH
Confidence 99999998776655
No 60
>PLN00158 histone H2B; Provisional
Probab=89.51 E-value=1.8 Score=33.87 Aligned_cols=58 Identities=26% Similarity=0.385 Sum_probs=48.2
Q ss_pred HHHHHHh----cCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhc
Q psy8542 68 IVNMFQE----AGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQL 128 (182)
Q Consensus 68 I~rIlk~----~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~ 128 (182)
|.++|+. .|+ +..+..-+.-|.......|+.+|..++.+.+|+||+..+|+.|+.-.+
T Consensus 33 I~kVLKQVhPd~gI---S~kaM~ImnSfvnDiferIA~EAs~La~~nkr~TltsrEIqtAvrLvL 94 (116)
T PLN00158 33 IYKVLKQVHPDTGI---SSKAMSIMNSFINDIFEKIATEAGKLARYNKKPTVTSREIQTAVRLIL 94 (116)
T ss_pred HHHHHHHhCCCCCc---cHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHHhc
Confidence 4455553 554 677777788899999999999999999999999999999999997654
No 61
>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=89.18 E-value=2 Score=41.65 Aligned_cols=62 Identities=13% Similarity=0.137 Sum_probs=50.8
Q ss_pred HHHHHHHHhc-CCcccChHHHHHHHHHHH-------------HHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHh
Q psy8542 66 QVIVNMFQEA-GIKNYDPRCVQQMLEFVN-------------NYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQ 127 (182)
Q Consensus 66 qlI~rIlk~~-Gv~r~sp~v~~qLle~~~-------------ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r 127 (182)
+.+.+.+++. ....++++++..|.+++. |-..++++.|..+|...|+..|+.+||+.|++.+
T Consensus 316 ~~i~~~~~r~G~l~~~s~~Av~~Li~~~~R~ag~r~~lsl~~R~L~~llR~A~~iA~~~~~~~I~~ehV~~Ai~~~ 391 (608)
T TIGR00764 316 QFVAQEVKKDGRIPHFTRDAVEEIVREAQRRAGRKDHLTLRLRELGGLVRAAGDIAKSSGKVYVTAEHVLKAKKLA 391 (608)
T ss_pred HHHHHHHHHhCCCCcCCHHHHHHHHHHHHHHHhcccccCCCHHHHHHHHHHHHHHHHhcCCceecHHHHHHHHHHH
Confidence 4555555556 477899999999998776 5677899999888988899999999999999865
No 62
>PTZ00463 histone H2B; Provisional
Probab=89.07 E-value=1.9 Score=33.80 Aligned_cols=58 Identities=19% Similarity=0.344 Sum_probs=48.5
Q ss_pred HHHHHH----hcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhc
Q psy8542 68 IVNMFQ----EAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQL 128 (182)
Q Consensus 68 I~rIlk----~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~ 128 (182)
|.++|+ +.|+ |..+..-+.-|.......|+.+|..++.+.+|.||+..+|+.|+.-.+
T Consensus 34 I~KVLKqVhPd~gI---S~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAvrLlL 95 (117)
T PTZ00463 34 IFKVLKQVHPDTGI---SRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAIRLVL 95 (117)
T ss_pred HHHHHHhhCCCCCc---cHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHhhcc
Confidence 445554 3554 777888888899999999999999999999999999999999997655
No 63
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=88.99 E-value=2.7 Score=37.19 Aligned_cols=66 Identities=15% Similarity=0.296 Sum_probs=50.8
Q ss_pred hhhHHHHHHHHHh---cCC--cccChHHHHHHHHHH------HHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHh
Q psy8542 62 ARDAQVIVNMFQE---AGI--KNYDPRCVQQMLEFV------NNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQ 127 (182)
Q Consensus 62 ardaqlI~rIlk~---~Gv--~r~sp~v~~qLle~~------~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r 127 (182)
|.+..-+..|++. .|. ..+++++...+.+.+ .|++-+++..|..+|...|+.+|+.+||+.|++..
T Consensus 206 py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~~~I~~~~v~~a~~~~ 282 (394)
T PRK00411 206 PYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRKVTEEDVRKAYEKS 282 (394)
T ss_pred CCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHH
Confidence 4455545555442 232 358899999998888 67778889999999999999999999999999864
No 64
>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=86.47 E-value=6.8 Score=28.79 Aligned_cols=61 Identities=11% Similarity=0.149 Sum_probs=52.0
Q ss_pred HHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCC---CCCCHHHHHHHHHH
Q psy8542 66 QVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKK---KTVDVEDIKLAITN 126 (182)
Q Consensus 66 qlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgR---ktI~~eDVrLAI~~ 126 (182)
..+++|+...--..+++.++.-+--+++-|++++.+.|...-+.-|. ..|.-+.|+.|...
T Consensus 20 ~~iKr~~~~~~~~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~HireA~rr 83 (85)
T cd08048 20 AAIKRLIQSVTGQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHLREAYRR 83 (85)
T ss_pred HHHHHHHHHHcCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHHHHHHHH
Confidence 45777777654489999999999999999999999999999887665 78999999998754
No 65
>cd08045 TAF4 TATA Binding Protein (TBP) Associated Factor 4 (TAF4) 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 4 (TAF4) 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 eukaryote. 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 hypotheses are
Probab=85.61 E-value=4.6 Score=33.81 Aligned_cols=62 Identities=15% Similarity=0.176 Sum_probs=51.6
Q ss_pred hHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCC------CCCCHHHHHHHHH
Q psy8542 64 DAQVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKK------KTVDVEDIKLAIT 125 (182)
Q Consensus 64 daqlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgR------ktI~~eDVrLAI~ 125 (182)
=.+-|.+|++..|++.++++++..|...++.|...++.+....|+|.-. ..+-..||+--+.
T Consensus 50 l~~~~~~i~~~~g~~~~~~d~~~lis~a~e~rlr~li~k~~~~s~hR~~~~~~~~r~~~~sdvr~qL~ 117 (212)
T cd08045 50 LAKKIRKIAKKHGLKEVDEDVLDLISLALEERLRNLLEKLIEVSEHRVDSEKEDERYEITSDVRKQLR 117 (212)
T ss_pred HHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCceeecchHHHHHH
Confidence 3457899999999999999999999999999999999999999999732 2344566665554
No 66
>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=84.59 E-value=1.4 Score=30.79 Aligned_cols=47 Identities=17% Similarity=0.299 Sum_probs=40.0
Q ss_pred HHHHHHHHcCCCccChHHHHHHHHHHHhhhcccccccHhhhhhhhhH
Q psy8542 19 VIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHARDA 65 (182)
Q Consensus 19 ~i~~il~~~gi~~yep~v~~qll~f~yryt~~vL~DA~vys~harda 65 (182)
.|..|.++.||+.-.+.+...|-+..=-|-.+|++||..|..|++..
T Consensus 7 ~i~ria~~~Gi~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRk 53 (65)
T smart00803 7 TIKDVAESLGIGNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRT 53 (65)
T ss_pred HHHHHHHHCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 47889999999999999988887765555688999999999999853
No 67
>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=83.52 E-value=0.85 Score=32.19 Aligned_cols=48 Identities=10% Similarity=0.332 Sum_probs=37.0
Q ss_pred HHHHHHHHHcCCCccChHHHHHHH-HHHHhhhcccccccHhhhhhhhhHH
Q psy8542 18 QVIVNMFQEAGIKNYDPRCVQQML-EFVNNYTTTILEDSRVYANHARDAQ 66 (182)
Q Consensus 18 ~~i~~il~~~gi~~yep~v~~qll-~f~yryt~~vL~DA~vys~hardaq 66 (182)
..|..+-.|+||+.-.+.+...|- |..||- .+|++||..|..|.++.+
T Consensus 7 esvk~iAes~Gi~~l~de~a~~La~dveyrl-reiiq~a~kfm~hskR~~ 55 (66)
T PF02969_consen 7 ESVKDIAESLGISNLSDEAAKALAEDVEYRL-REIIQEALKFMRHSKRTK 55 (66)
T ss_dssp HHHHHHHHHTT---B-HHHHHHHHHHHHHHH-HHHHHHHHHHHHHTT-SS
T ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHHHHH-HHHHHHHHHHHHHhCCCC
Confidence 468889999999999999988874 678887 899999999999998654
No 68
>KOG1744|consensus
Probab=83.49 E-value=4.4 Score=32.22 Aligned_cols=49 Identities=22% Similarity=0.309 Sum_probs=41.4
Q ss_pred cChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhc
Q psy8542 80 YDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQL 128 (182)
Q Consensus 80 ~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~ 128 (182)
++..+..-+.-|.+.....|+.+|-.+|.+.||.||+-.+|+.|+.-.+
T Consensus 56 is~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta~rLll 104 (127)
T KOG1744|consen 56 ISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTAVRLLL 104 (127)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHHHHHhC
Confidence 5566666677777888888999999999999999999999999997544
No 69
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=82.92 E-value=4.5 Score=39.18 Aligned_cols=95 Identities=17% Similarity=0.105 Sum_probs=60.6
Q ss_pred ccChHHHHHHHH-HHHhhhcccccccHhhhhhhhhHHHHHHHHHhcCCcccChHHHHHHHHHHHHHH-------HHHHHH
Q psy8542 31 NYDPRCVQQMLE-FVNNYTTTILEDSRVYANHARDAQVIVNMFQEAGIKNYDPRCVQQMLEFVNNYT-------TTILED 102 (182)
Q Consensus 31 ~yep~v~~qll~-f~yryt~~vL~DA~vys~hardaqlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~-------~~Vl~d 102 (182)
+|+.+...+||| |.....-.-+.+...-. -..+..-|....+..+--.+++.++..+++.+.++. .-+++-
T Consensus 147 ~~~~~L~~~lLDRf~l~v~v~~~~~~~~~~-~~~~~~~I~~AR~rl~~v~v~~~~l~~i~~~~~~~gv~S~Ra~i~llra 225 (584)
T PRK13406 147 EEDERAPAALADRLAFHLDLDGLALRDARE-IPIDADDIAAARARLPAVGPPPEAIAALCAAAAALGIASLRAPLLALRA 225 (584)
T ss_pred hcccCCCHHhHhheEEEEEcCCCChHHhcc-cCCCHHHHHHHHHHHccCCCCHHHHHHHHHHHHHhCCCCcCHHHHHHHH
Confidence 677778888887 33333332222221111 111112222222233445688888888888777765 478899
Q ss_pred HHHHhhhcCCCCCCHHHHHHHHHH
Q psy8542 103 SRVYANHAKKKTVDVEDIKLAITN 126 (182)
Q Consensus 103 A~~yA~HAgRktI~~eDVrLAI~~ 126 (182)
|..+|.-.||..|+.+||+.|+.-
T Consensus 226 ARa~AaL~Gr~~V~~~dv~~Aa~l 249 (584)
T PRK13406 226 ARAAAALAGRTAVEEEDLALAARL 249 (584)
T ss_pred HHHHHHHcCCCCCCHHHHHHHHHH
Confidence 999999999999999999999884
No 70
>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=82.73 E-value=3.6 Score=30.37 Aligned_cols=65 Identities=17% Similarity=0.364 Sum_probs=53.1
Q ss_pred CCchHHHHHHHHHHcCCCccChHHHHHHHHHHHhhhcccccccHhhhhhhh----hHHHHHHHHHhcCCcc
Q psy8542 13 LPRDAQVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAR----DAQVIVNMFQEAGIKN 79 (182)
Q Consensus 13 ~prda~~i~~il~~~gi~~yep~v~~qll~f~yryt~~vL~DA~vys~har----daqlI~rIlk~~Gv~r 79 (182)
+|+- .|.-|.+.-|+.--...+-.-+.+..=-|-.+|+.|+..|++|++ ++.-|...++..|-+-
T Consensus 14 i~k~--~I~RLarr~GvkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr~g~~~ 82 (85)
T cd00076 14 ITKP--AIRRLARRGGVKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTL 82 (85)
T ss_pred CCHH--HHHHHHHHcCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHCCCCc
Confidence 4543 588899999999888888888888777888999999999999998 4467788888888543
No 71
>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=80.16 E-value=8.9 Score=31.80 Aligned_cols=60 Identities=13% Similarity=0.218 Sum_probs=46.5
Q ss_pred HHHHHHHhcCC---cccChHHHHHHHHHHHH---HHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHH
Q psy8542 67 VIVNMFQEAGI---KNYDPRCVQQMLEFVNN---YTTTILEDSRVYANHAKKKTVDVEDIKLAITN 126 (182)
Q Consensus 67 lI~rIlk~~Gv---~r~sp~v~~qLle~~~r---y~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~ 126 (182)
.+...++..|. ..+++++...+.+.+.- ++..++..+...|--.|.++|+.++|+.++..
T Consensus 200 ~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~~~~a~~~~~~~i~~~~v~~~~~~ 265 (269)
T TIGR03015 200 YIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRLLLSAFLEEKREIGGEEVREVIAE 265 (269)
T ss_pred HHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 44455556664 35889999988888774 67777888877777778899999999999975
No 72
>PF05236 TAF4: Transcription initiation factor TFIID component TAF4 family; InterPro: IPR007900 Accurate transcription initiation at protein-coding genes by RNA polymerase II requires the assembly of a multiprotein complex around the mRNA start site. Transcription factor TFIID is one of the general factors involved in this process. Yeast TFIID comprises the TATA binding protein and 14 TBP-associated factors (TAFIIs), nine of which contain histone-fold domains (IPR007124 from INTERPRO). The C-terminal region of the TFIID-specific yeast TAF4 (yTAF4) containing the HFD shares strong sequence similarity with Drosophila (d)TAF4 and human TAF4. A structure/function analysis of yTAF4 demonstrates that the HFD, a short conserved C-terminal domain (CCTD), and the region separating them are all required for yTAF4 function. This region of similarity is found in Transcription initiation factor TFIID component TAF4 []. ; GO: 0006352 transcription initiation, DNA-dependent, 0005669 transcription factor TFIID complex; PDB: 1H3O_C.
Probab=80.03 E-value=3 Score=35.95 Aligned_cols=60 Identities=13% Similarity=0.230 Sum_probs=33.6
Q ss_pred HHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCC------CCCHHHHHHHHH
Q psy8542 66 QVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKK------TVDVEDIKLAIT 125 (182)
Q Consensus 66 qlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRk------tI~~eDVrLAI~ 125 (182)
+-|.+|.+..|...++++++..|--.++.|..+|+++++.+|.|.-.. .....||+..+.
T Consensus 51 ~~i~~i~~~~g~~~~~~d~l~llS~A~e~rLr~lie~~~~~s~hR~~~~~~~~~~~~~sdv~~qlr 116 (264)
T PF05236_consen 51 KRIQKIAKKHGLKSVDEDVLELLSLATEERLRNLIEKAIVLSRHRRDSSKSDPRYEIRSDVRKQLR 116 (264)
T ss_dssp HHHHHHHHCTT--EE-TCHHHHHHHHHHHHHHHHHHHHH---------------------------
T ss_pred HHHHHHHHHcCCcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCCCcccccchHHHHHHH
Confidence 457788889999999999999999999999999999999999986432 223556665554
No 73
>KOG1657|consensus
Probab=79.58 E-value=3.2 Score=36.02 Aligned_cols=105 Identities=18% Similarity=0.197 Sum_probs=75.3
Q ss_pred HHHHHHHHHhhhcccccccHhhhhhhhhHHHHHHHHH-hcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCC
Q psy8542 37 VQQMLEFVNNYTTTILEDSRVYANHARDAQVIVNMFQ-EAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTV 115 (182)
Q Consensus 37 ~~qll~f~yryt~~vL~DA~vys~hardaqlI~rIlk-~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI 115 (182)
..+|-.|+---.-.. .+..-+.+|-=--.-|+.|+| +..+.-++++++.++-..++-+..++-.-|-.+++-.+|+|+
T Consensus 50 ~~~l~~fw~~~~~e~-e~~~d~~~~~lPlaRiKkimK~dedv~mI~~Eapvl~aka~E~Fi~elt~~sw~~Tee~~rrtl 128 (236)
T KOG1657|consen 50 RQQLQSFWSKQAIEK-EGQLDFKNHILPLARIKKIMKSDEDVSMITAEAPVLFAKACELFITELTLRSWVHTEENKRRTL 128 (236)
T ss_pred hHHHHhhhhcccccc-ccccchhhccCcHhhccccccccccccccchhHHHHHHHHHHHHHHHHHHHhhhhhcccccccc
Confidence 457777776554111 122222222111123677777 578889999999999999999999999999999999999999
Q ss_pred CHHHHHHHHHHhcCCCCC-CCCChhhhh
Q psy8542 116 DVEDIKLAITNQLSGSFA-KPPPRESKG 142 (182)
Q Consensus 116 ~~eDVrLAI~~r~~~~F~-~pppke~Ll 142 (182)
...|+--|+..-..|.|- .-.|++.+.
T Consensus 129 ~~sdia~av~~s~~fdFL~DivP~~~~~ 156 (236)
T KOG1657|consen 129 QKSDIAAAVTQSETFDFLRDIVPRKILA 156 (236)
T ss_pred hHHHHHHHhccCCCccceeccccchhcc
Confidence 999999999887878874 334555444
No 74
>COG1067 LonB Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]
Probab=79.47 E-value=8.8 Score=37.84 Aligned_cols=61 Identities=13% Similarity=0.282 Sum_probs=52.7
Q ss_pred HHHHHHHhcCCcccChHHHHHHHHHHHHHH-------------HHHHHHHHHHhhhcCCCCCCHHHHHHHHHHh
Q psy8542 67 VIVNMFQEAGIKNYDPRCVQQMLEFVNNYT-------------TTILEDSRVYANHAKKKTVDVEDIKLAITNQ 127 (182)
Q Consensus 67 lI~rIlk~~Gv~r~sp~v~~qLle~~~ry~-------------~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r 127 (182)
.+..+.++.+....+..++..|...+.|++ ..+++.|-.+|.-.|++-|+++||+.|++.+
T Consensus 326 ~~q~v~~d~~ip~~~~~Av~~li~~a~R~Ag~~~~Ltl~~rdl~~lv~~A~~ia~~~~~~~I~ae~Ve~a~~~~ 399 (647)
T COG1067 326 YVQELARDGNIPHLDKDAVEELIREAARRAGDQNKLTLRLRDLGNLVREAGDIAVSEGRKLITAEDVEEALQKR 399 (647)
T ss_pred HHHHHHhcCCCCCCCHHHHHHHHHHHHHhccccceeccCHHHHHHHHHHhhHHHhcCCcccCcHHHHHHHHHhh
Confidence 455566667999999999999999999876 4688899999999999999999999999974
No 75
>PLN00035 histone H4; Provisional
Probab=79.31 E-value=5.3 Score=30.63 Aligned_cols=62 Identities=19% Similarity=0.348 Sum_probs=51.5
Q ss_pred HHHHHHHHcCCCccChHHHHHHHHHHHhhhcccccccHhhhhhhh----hHHHHHHHHHhcCCccc
Q psy8542 19 VIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAR----DAQVIVNMFQEAGIKNY 80 (182)
Q Consensus 19 ~i~~il~~~gi~~yep~v~~qll~f~yryt~~vL~DA~vys~har----daqlI~rIlk~~Gv~r~ 80 (182)
.|.-|++.-|+.--...+-..|-+..=-|-.+|+.|+..|++|++ ++.-|...++..|-.-|
T Consensus 34 ~IrRLARr~GvkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~Alkr~g~~ly 99 (103)
T PLN00035 34 AIRRLARRGGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGRTLY 99 (103)
T ss_pred HHHHHHHHcCcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHcCCcCC
Confidence 578889999999988888888888888888999999999999998 44667777777776433
No 76
>TIGR02902 spore_lonB ATP-dependent protease LonB. Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.
Probab=78.66 E-value=8 Score=36.78 Aligned_cols=59 Identities=17% Similarity=0.277 Sum_probs=45.3
Q ss_pred HHHHHHHHhcCCcccChHHHHHHHHHHH--HHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHH
Q psy8542 66 QVIVNMFQEAGIKNYDPRCVQQMLEFVN--NYTTTILEDSRVYANHAKKKTVDVEDIKLAIT 125 (182)
Q Consensus 66 qlI~rIlk~~Gv~r~sp~v~~qLle~~~--ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~ 125 (182)
.++...+++.|+ .+++++...+..... |.+..+++.|..+|...++++|+.+||..++.
T Consensus 270 ~Il~~~a~k~~i-~is~~al~~I~~y~~n~Rel~nll~~Aa~~A~~~~~~~It~~dI~~vl~ 330 (531)
T TIGR02902 270 EIAKNAAEKIGI-NLEKHALELIVKYASNGREAVNIVQLAAGIALGEGRKRILAEDIEWVAE 330 (531)
T ss_pred HHHHHHHHHcCC-CcCHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCcEEcHHHHHHHhC
Confidence 355566666775 488888886655443 66778888888888877889999999999986
No 77
>KOG1659|consensus
Probab=76.89 E-value=6.5 Score=33.94 Aligned_cols=65 Identities=15% Similarity=0.195 Sum_probs=55.3
Q ss_pred HHHHHH-hcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhcCCCC
Q psy8542 68 IVNMFQ-EAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQLSGSF 132 (182)
Q Consensus 68 I~rIlk-~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~~~~F 132 (182)
|++|+. +--|..+..-|+.-.-..++-|+.++++.+...+.-.|-|||+.+-++.||++-..|.|
T Consensus 19 iKKIMQ~dEdIGKvaqavPViisralElFl~~l~~~t~~~t~~~~aKt~s~~hlkq~v~~~~~FdF 84 (224)
T KOG1659|consen 19 IKKIMQSDEDIGKVAQAVPVIISRALELFLESLLQKTLEITRSRGAKTVSSSHLKQAVESDPKFDF 84 (224)
T ss_pred HHHHHhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCccccCHHHHHHHHhccchhHH
Confidence 455554 66777788888888888999999999999999999999999999999999987666554
No 78
>PRK05574 holA DNA polymerase III subunit delta; Reviewed
Probab=76.40 E-value=16 Score=31.50 Aligned_cols=63 Identities=17% Similarity=0.248 Sum_probs=52.4
Q ss_pred HHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhc
Q psy8542 65 AQVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQL 128 (182)
Q Consensus 65 aqlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~ 128 (182)
...|...+++.|++ +++++...|.+....-...+..+.-.++-.+|.+.||.+||+..+....
T Consensus 152 ~~~i~~~~~~~g~~-i~~~a~~~L~~~~~~d~~~l~~El~KL~l~~~~~~It~~~I~~~i~~~~ 214 (340)
T PRK05574 152 PQWIQQRLKQQGLQ-IDAAALQLLAERVEGNLLALAQELEKLALLYPDGKITLEDVEEAVPDSA 214 (340)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHhCchHHHHHHHHHHHHhhcCCCCCCHHHHHHHHhhhh
Confidence 35788889999996 9999999999999888888888888888887655599999998876543
No 79
>COG5162 Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=76.14 E-value=8.4 Score=32.24 Aligned_cols=40 Identities=18% Similarity=0.297 Sum_probs=36.4
Q ss_pred HHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy8542 69 VNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYAN 108 (182)
Q Consensus 69 ~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~ 108 (182)
.--|...|+...+++|...|-=.+++|+++|+.||-.|+.
T Consensus 95 DYyl~k~Gf~~~D~rvKkLl~L~aqKFvsDiA~dayqYsr 134 (197)
T COG5162 95 DYYLEKAGFVTSDQRVKKLLSLLAQKFVSDIAVDAYQYSR 134 (197)
T ss_pred HHHHHhcCceeccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3357789999999999999999999999999999999986
No 80
>PTZ00015 histone H4; Provisional
Probab=76.06 E-value=7.9 Score=29.60 Aligned_cols=66 Identities=17% Similarity=0.307 Sum_probs=52.8
Q ss_pred CCCchHHHHHHHHHHcCCCccChHHHHHHHHHHHhhhcccccccHhhhhhhh----hHHHHHHHHHhcCCcc
Q psy8542 12 KLPRDAQVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAR----DAQVIVNMFQEAGIKN 79 (182)
Q Consensus 12 ~~prda~~i~~il~~~gi~~yep~v~~qll~f~yryt~~vL~DA~vys~har----daqlI~rIlk~~Gv~r 79 (182)
.+|+ -.|.-|++.-|+.--...+-..+-+..--|-.+|+.||..|++|++ .+.-|...++..|-.-
T Consensus 30 gI~k--~~IrRLarr~GvkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~AlKr~g~~~ 99 (102)
T PTZ00015 30 GITK--GAIRRLARRGGVKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVYALKRQGRTL 99 (102)
T ss_pred CCCH--HHHHHHHHHcCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHhcCCCC
Confidence 3565 3688899999999888888888888777888899999999999998 3456677777777643
No 81
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=75.44 E-value=15 Score=32.01 Aligned_cols=66 Identities=11% Similarity=0.136 Sum_probs=47.1
Q ss_pred hhhHHHHHHHHHhc---CC--cccChHHHHHHHHHHH------HHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHh
Q psy8542 62 ARDAQVIVNMFQEA---GI--KNYDPRCVQQMLEFVN------NYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQ 127 (182)
Q Consensus 62 ardaqlI~rIlk~~---Gv--~r~sp~v~~qLle~~~------ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r 127 (182)
|.+..-+..|++.. +. ..+++++...+.+++. |++.++++.|..+|.-.|+.+|+.+||+.|+...
T Consensus 198 p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~~a~~~~~~~it~~~v~~a~~~~ 274 (365)
T TIGR02928 198 PYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVAGEIAEREGAERVTEDHVEKAQEKI 274 (365)
T ss_pred CCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence 34444455555421 11 2377888877777664 6778889999998888888999999999988754
No 82
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=75.43 E-value=4.8 Score=30.18 Aligned_cols=62 Identities=23% Similarity=0.394 Sum_probs=52.4
Q ss_pred HHHHHHHHcCCCccChHHHHHHHHHHHhhhcccccccHhhhhhhh----hHHHHHHHHHhcCCccc
Q psy8542 19 VIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAR----DAQVIVNMFQEAGIKNY 80 (182)
Q Consensus 19 ~i~~il~~~gi~~yep~v~~qll~f~yryt~~vL~DA~vys~har----daqlI~rIlk~~Gv~r~ 80 (182)
-+.-|+++.|..-+...++--|-+..=.|..++.+||..++.|++ ++.-|...++..|..-+
T Consensus 24 pv~Ri~r~~~~~Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~~~~~~~~ 89 (91)
T COG2036 24 PVRRILRKAGAERVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALKRLGRRIY 89 (91)
T ss_pred HHHHHHHHHhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHHHhccccc
Confidence 367788888988888999999999999999999999999999998 44667777777776544
No 83
>PRK07452 DNA polymerase III subunit delta; Validated
Probab=75.35 E-value=12 Score=32.48 Aligned_cols=60 Identities=23% Similarity=0.350 Sum_probs=51.2
Q ss_pred HHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhc--CCCCCCHHHHHHHHH
Q psy8542 65 AQVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHA--KKKTVDVEDIKLAIT 125 (182)
Q Consensus 65 aqlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HA--gRktI~~eDVrLAI~ 125 (182)
.+.|...+++.|.+ +++++...|.+.+..-...+..+-..++-++ ++.+|+.+||+..+.
T Consensus 136 ~~~i~~~~~~~g~~-i~~~a~~~L~~~~g~dl~~l~~EleKL~ly~~~~~~~It~~~V~~~v~ 197 (326)
T PRK07452 136 KQLVERTAQELGVK-LTPEAAELLAEAVGNDSRRLYNELEKLALYAENSTKPISAEEVKALVS 197 (326)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHhCccHHHHHHHHHHHHHhccCCCCccCHHHHHHHhc
Confidence 35677888889987 9999999999999988888888888888885 467899999998774
No 84
>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=74.40 E-value=10 Score=26.68 Aligned_cols=46 Identities=20% Similarity=0.447 Sum_probs=39.6
Q ss_pred HHHHHHHHHc-CCCccChHHHHHHHHHHHhhhcccccccHhhhhhhh
Q psy8542 18 QVIVNMFQEA-GIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAR 63 (182)
Q Consensus 18 ~~i~~il~~~-gi~~yep~v~~qll~f~yryt~~vL~DA~vys~har 63 (182)
+-|..++++. +=...+|.+...|.+++=-|..+|+.+|..++.|++
T Consensus 5 ~~l~~lv~~id~~~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~ 51 (72)
T cd07981 5 RKLQELLKEIDPREQLDPDVEELLLEIADDFVDDVVEDACRLAKHRK 51 (72)
T ss_pred HHHHHHHHhhCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 3456677776 446799999999999999999999999999999987
No 85
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=73.70 E-value=27 Score=29.73 Aligned_cols=77 Identities=9% Similarity=0.018 Sum_probs=54.1
Q ss_pred HHHHHHHhcCCcccChHHHHHHHHHHHHH---HHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhcCCCCCCCCChh--hh
Q psy8542 67 VIVNMFQEAGIKNYDPRCVQQMLEFVNNY---TTTILEDSRVYANHAKKKTVDVEDIKLAITNQLSGSFAKPPPRE--SK 141 (182)
Q Consensus 67 lI~rIlk~~Gv~r~sp~v~~qLle~~~ry---~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~~~~F~~pppke--~L 141 (182)
++.+.+...|+ .+++++...+.+.+..+ +..++..+..+|...+...|+.++|+.++.. ....+.+-++.| +|
T Consensus 167 il~~~~~~~~~-~~~~~al~~ia~~~~G~pR~~~~ll~~~~~~a~~~~~~~it~~~v~~~l~~-l~~~~~~l~~~~~~~L 244 (305)
T TIGR00635 167 IVSRSAGLLNV-EIEPEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRDIALKALEM-LMIDELGLDEIDRKLL 244 (305)
T ss_pred HHHHHHHHhCC-CcCHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHH-hCCCCCCCCHHHHHHH
Confidence 44555555565 58899999988887654 4556666656666666778999999999987 565666777777 66
Q ss_pred hccc
Q psy8542 142 GSGQ 145 (182)
Q Consensus 142 l~lA 145 (182)
..++
T Consensus 245 ~al~ 248 (305)
T TIGR00635 245 SVLI 248 (305)
T ss_pred HHHH
Confidence 5453
No 86
>TIGR01128 holA DNA polymerase III, delta subunit. subunit around DNA forming a DNA sliding clamp.
Probab=73.06 E-value=23 Score=29.84 Aligned_cols=63 Identities=22% Similarity=0.344 Sum_probs=50.6
Q ss_pred HHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhcC
Q psy8542 66 QVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQLS 129 (182)
Q Consensus 66 qlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~~ 129 (182)
+.+...+++.|++ +++++...|.+.+..-...+..+--.++-.+|.++|+.+||+..+.....
T Consensus 118 ~~i~~~~~~~g~~-i~~~a~~~l~~~~~~d~~~l~~el~KL~~~~~~~~It~e~I~~~~~~~~~ 180 (302)
T TIGR01128 118 RWIQARLKKLGLR-IDPDAVQLLAELVEGNLLAIAQELEKLALYAPDGKITLEDVEEAVSDSAR 180 (302)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHhCcHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHhhhhc
Confidence 4788888888886 99999999999887777777777777777777778999999988765443
No 87
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=72.33 E-value=17 Score=35.73 Aligned_cols=50 Identities=12% Similarity=0.143 Sum_probs=43.8
Q ss_pred CCcccChHHHHHHHHHHHHHHH-------------HHHHHHHHHhhhcCCCCCCHHHHHHHHH
Q psy8542 76 GIKNYDPRCVQQMLEFVNNYTT-------------TILEDSRVYANHAKKKTVDVEDIKLAIT 125 (182)
Q Consensus 76 Gv~r~sp~v~~qLle~~~ry~~-------------~Vl~dA~~yA~HAgRktI~~eDVrLAI~ 125 (182)
+...++++++..|.+...|-+. ++++.|..+|...+++.|+.+||..|+.
T Consensus 336 ~l~~f~~eAVa~LI~~~~R~ag~r~~lsl~~~~l~~l~r~a~~~a~~~~~~~i~~~~v~~a~~ 398 (637)
T PRK13765 336 KIPHFDRDAVEEIIREAKRRAGRKGHLTLKLRDLGGLVRVAGDIARSEGAELTTAEHVLEAKK 398 (637)
T ss_pred CCCCCCHHHHHHHHHHHHHHhCCccccccCHHHHHHHHHHHHHHHHhhccceecHHHHHHHHH
Confidence 4678999999999998887654 4999999999999999999999998874
No 88
>PRK07914 hypothetical protein; Reviewed
Probab=72.07 E-value=12 Score=32.70 Aligned_cols=62 Identities=15% Similarity=0.202 Sum_probs=50.2
Q ss_pred HHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhc
Q psy8542 65 AQVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQL 128 (182)
Q Consensus 65 aqlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~ 128 (182)
.+.|...+++.|.+ .++++...|.+....-...+..+-..++-+.| ++||.+||+..+....
T Consensus 134 ~~wi~~~a~~~g~~-i~~~A~~~L~~~~g~dl~~l~~EleKL~~~~~-~~It~e~V~~~v~~~~ 195 (320)
T PRK07914 134 ADFVRKEFRSLRVK-VDDDTVTALLDAVGSDLRELASACSQLVADTG-GAVDAAAVRRYHSGKA 195 (320)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHHCccHHHHHHHHHHHhcCCC-CCcCHHHHHHHcCCCe
Confidence 56788999999998 99999999999987777777777767665555 5799999998876433
No 89
>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=70.83 E-value=13 Score=26.60 Aligned_cols=57 Identities=11% Similarity=0.240 Sum_probs=45.0
Q ss_pred HHHHHHHHh---cCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCC-CCHHHHHH
Q psy8542 66 QVIVNMFQE---AGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKT-VDVEDIKL 122 (182)
Q Consensus 66 qlI~rIlk~---~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRkt-I~~eDVrL 122 (182)
.+|.+|++. .--+++++++...+-+++.-|+.|...-|..-++--|... |+.+|++-
T Consensus 3 ~li~rll~~~f~~~~tkIs~dal~l~~eyl~iFV~EAv~Ra~~~a~~e~~~~~le~e~LEk 63 (72)
T PF09415_consen 3 ELIARLLHEHFKDDKTKISKDALKLSAEYLRIFVREAVARAAEQAEAEGDEGFLEVEHLEK 63 (72)
T ss_dssp HHHHHHHCTTSSSTT-EE-CCCHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSEE-HHHHHH
T ss_pred HHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCHHHHHH
Confidence 357788872 1334789999999999999999999999999999999888 99999875
No 90
>PRK06585 holA DNA polymerase III subunit delta; Reviewed
Probab=70.64 E-value=13 Score=32.55 Aligned_cols=61 Identities=15% Similarity=0.291 Sum_probs=50.8
Q ss_pred HHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcC-CCCCCHHHHHHHHHHh
Q psy8542 66 QVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAK-KKTVDVEDIKLAITNQ 127 (182)
Q Consensus 66 qlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAg-RktI~~eDVrLAI~~r 127 (182)
+.|...+++.|.+ +++++...|++.+..-...+..+-..++-++| +++|+.+||+..+...
T Consensus 149 ~~i~~~~~~~g~~-i~~~a~~~L~~~~g~dl~~l~~EleKL~ly~~~~~~It~edV~~lv~~~ 210 (343)
T PRK06585 149 RLIDDELAEAGLR-ITPDARALLVALLGGDRLASRNEIEKLALYAHGKGEITLDDVRAVVGDA 210 (343)
T ss_pred HHHHHHHHHCCCC-CCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHhCCc
Confidence 5688888999997 89999999999999877778787778777765 4689999998876544
No 91
>COG1466 HolA DNA polymerase III, delta subunit [DNA replication, recombination, and repair]
Probab=70.32 E-value=17 Score=32.24 Aligned_cols=61 Identities=25% Similarity=0.320 Sum_probs=54.0
Q ss_pred HHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHh
Q psy8542 66 QVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQ 127 (182)
Q Consensus 66 qlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r 127 (182)
+.|...+++.|++ +++++...|++....-+..+..+-..++-.++.+.|+.+||+.++..-
T Consensus 147 ~~i~~~~~~~~l~-i~~~a~~~L~~~~~~nl~~i~~Ei~KL~l~~~~~~I~~~~V~~~v~~~ 207 (334)
T COG1466 147 QWIKKRAKELGLK-IDQEAIQLLLEALGGNLLAIAQEIEKLALYAGDKEITLEDVEEVVSDV 207 (334)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCCcCCHHHHHHHHhcc
Confidence 4777888889985 899999999999999999999999999999888899999999999643
No 92
>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=70.31 E-value=10 Score=34.11 Aligned_cols=62 Identities=13% Similarity=0.221 Sum_probs=51.9
Q ss_pred HHHHHHHHHcCCCccChHHHHHHHHHHHhhhcccccccHhhhhhhhhH----HHHHHHHHhcCCcc
Q psy8542 18 QVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHARDA----QVIVNMFQEAGIKN 79 (182)
Q Consensus 18 ~~i~~il~~~gi~~yep~v~~qll~f~yryt~~vL~DA~vys~harda----qlI~rIlk~~Gv~r 79 (182)
..|..|+++.||+.-.+.+..-|-+-.=-+..+|+++|..++.|+++. .-|...++..+++.
T Consensus 3 ~~i~~ia~~~Gi~~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~~~n~ep 68 (343)
T cd08050 3 ESIKLIAESLGIDSLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALRLRNVEP 68 (343)
T ss_pred hHHHHHHHHcCCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHHhCCCc
Confidence 468899999999999999999998888777899999999999999843 45667777666653
No 93
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=70.01 E-value=6.8 Score=36.76 Aligned_cols=72 Identities=15% Similarity=0.237 Sum_probs=55.9
Q ss_pred cHhhhhhhhhHHHHHHHHH-hcCCc--ccChHHHHHHHHH----HHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHH
Q psy8542 55 SRVYANHARDAQVIVNMFQ-EAGIK--NYDPRCVQQMLEF----VNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITN 126 (182)
Q Consensus 55 A~vys~hardaqlI~rIlk-~~Gv~--r~sp~v~~qLle~----~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~ 126 (182)
...-+..|+...-|+.|++ ++-.+ ..++++.+.|.+. .-||+.++|.-|...|...|+++|.++||+.|-.-
T Consensus 353 llII~t~py~~~EireIi~iRa~ee~i~l~~~Ale~L~~ig~etSLRYa~qLL~pa~iiA~~rg~~~V~~~dVe~a~~l 431 (450)
T COG1224 353 LLIISTRPYSREEIREIIRIRAKEEDIELSDDALEYLTDIGEETSLRYAVQLLTPASIIAKRRGSKRVEVEDVERAKEL 431 (450)
T ss_pred eeEEecCCCCHHHHHHHHHHhhhhhccccCHHHHHHHHhhchhhhHHHHHHhccHHHHHHHHhCCCeeehhHHHHHHHH
Confidence 3344455777777777776 33333 3789999988765 45899999999999999999999999999998763
No 94
>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=67.24 E-value=44 Score=24.91 Aligned_cols=59 Identities=12% Similarity=0.218 Sum_probs=42.7
Q ss_pred HHHHHHHh-cCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCC-CCCHHHHHHHHH
Q psy8542 67 VIVNMFQE-AGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKK-TVDVEDIKLAIT 125 (182)
Q Consensus 67 lI~rIlk~-~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRk-tI~~eDVrLAI~ 125 (182)
.|++|+.. .|-..+++.+...+.-+++-|+.|+.+.|....+.-+.. .|.-..++.|.+
T Consensus 28 ~ikkli~~~~~~qsv~~~v~i~v~g~aKvFVGEiVE~A~~Vq~~~~~~~pl~P~hlreA~r 88 (90)
T PF04719_consen 28 AIKKLINQVLGNQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGETGPLQPDHLREAYR 88 (90)
T ss_dssp HHHHHHHHHHS-S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SS--HHHHHHHHH
T ss_pred HHHHHHHHHcCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHH
Confidence 56666665 354789999999999999999999999999998855543 788888888875
No 95
>PRK08487 DNA polymerase III subunit delta; Validated
Probab=65.00 E-value=27 Score=30.67 Aligned_cols=60 Identities=12% Similarity=0.165 Sum_probs=49.9
Q ss_pred HHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHh
Q psy8542 65 AQVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQ 127 (182)
Q Consensus 65 aqlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r 127 (182)
.+.|...+++.|.+ +++++...|++.+..-...+-.+-..++-+.| +||.+||...+...
T Consensus 141 ~~~i~~~~~~~g~~-i~~~a~~~L~~~~g~dl~~l~~ELeKL~ly~~--~It~edV~~~v~~~ 200 (328)
T PRK08487 141 LELLQERAKELGLD-IDQNALNHLYFIHNEDLALAANELEKLAILNE--PITLKDIQELVFGL 200 (328)
T ss_pred HHHHHHHHHHhCCC-CCHHHHHHHHHHhCcHHHHHHHHHHHHHHhcC--CCCHHHHHHHhccc
Confidence 35788999999998 99999999999988887777777777777755 79999999987543
No 96
>KOG4336|consensus
Probab=64.48 E-value=24 Score=32.04 Aligned_cols=78 Identities=17% Similarity=0.274 Sum_probs=66.7
Q ss_pred chHHHHHHHHHHcCCCccChHHHHHHHHHHHhhhcccccccHhhhhhhhhHH----HHHHHHHhcCCcccChHHHHHHHH
Q psy8542 15 RDAQVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHARDAQ----VIVNMFQEAGIKNYDPRCVQQMLE 90 (182)
Q Consensus 15 rda~~i~~il~~~gi~~yep~v~~qll~f~yryt~~vL~DA~vys~hardaq----lI~rIlk~~Gv~r~sp~v~~qLle 90 (182)
=++.|+..||++.|....+..-..-|++.-.-|...+-..+..|.+|++..+ -+...|..||++ +.+|-.
T Consensus 6 vl~~VV~~Ll~~~gfd~is~~aletlvell~~yi~eigrq~~n~celagRT~pT~~Dv~l~Li~mnI~------v~sL~~ 79 (323)
T KOG4336|consen 6 VLAPVVSNLLKTKGFDSISNAALETLVELLQSYIREIGRQLHNYCELAGRTIPTQGDVKLTLIEMNIK------VSSLYA 79 (323)
T ss_pred HHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHHHhCCC------hhhhHH
Confidence 3688999999999999999999999999999999999999999999998654 688889999997 455666
Q ss_pred HHHHHHHH
Q psy8542 91 FVNNYTTT 98 (182)
Q Consensus 91 ~~~ry~~~ 98 (182)
+.+++...
T Consensus 80 ~~q~~~~s 87 (323)
T KOG4336|consen 80 YFQKQEFS 87 (323)
T ss_pred HHHhccch
Confidence 65555544
No 97
>PRK05629 hypothetical protein; Validated
Probab=63.19 E-value=28 Score=30.40 Aligned_cols=60 Identities=17% Similarity=0.266 Sum_probs=47.5
Q ss_pred HHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHH
Q psy8542 65 AQVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITN 126 (182)
Q Consensus 65 aqlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~ 126 (182)
.+.|...+++.|.+ .++++...|++.+..-...+-.+-..++-+.| ++||.+||+.-+..
T Consensus 132 ~~wi~~~~~~~g~~-i~~~A~~~L~~~~g~dl~~l~~EleKL~~~~~-~~It~e~V~~~v~~ 191 (318)
T PRK05629 132 PGWVTQEFKNHGVR-PTPDVVHALLEGVGSDLRELASAISQLVEDTQ-GNVTVEKVRAYYVG 191 (318)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHHCccHHHHHHHHHHHHhcCC-CCcCHHHHHHHhCC
Confidence 35788889999998 99999999999887777777666666665654 57999999877653
No 98
>COG5247 BUR6 Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]
Probab=63.18 E-value=21 Score=27.61 Aligned_cols=65 Identities=17% Similarity=0.106 Sum_probs=47.9
Q ss_pred HHHHHH-hcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhcCCCC
Q psy8542 68 IVNMFQ-EAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQLSGSF 132 (182)
Q Consensus 68 I~rIlk-~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~~~~F 132 (182)
+++|+. +..+.-++.-++.-.-..++-|..+|.+.+..-|.--+-+.|+.+=++.|+++--.|.|
T Consensus 29 ~KkIMQ~deDiGKV~q~tPVIaskalE~Fl~~iv~~s~k~aR~~~skR~t~e~lk~a~~sdekFdF 94 (113)
T COG5247 29 LKKIMQLDEDIGKVGQSTPVIASKALEMFLTEIVGLSLKEARKKSSKRMTSEFLKRATESDEKFDF 94 (113)
T ss_pred HHHHHHhhhhhhhhhhcchHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHhhhHHHHH
Confidence 334443 44455555555555566677799999999999999888999999999999987654433
No 99
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=62.39 E-value=24 Score=30.12 Aligned_cols=56 Identities=13% Similarity=0.187 Sum_probs=39.9
Q ss_pred HHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHH
Q psy8542 67 VIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAIT 125 (182)
Q Consensus 67 lI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~ 125 (182)
.+.+++++.|++ +++++...|.+....-..+++.....++ .+.+.|+.+||+.++.
T Consensus 192 ~l~~~~~~~~~~-~~~~al~~l~~~~~gdlr~l~~~l~~~~--~~~~~It~~~v~~~~~ 247 (337)
T PRK12402 192 VLESIAEAEGVD-YDDDGLELIAYYAGGDLRKAILTLQTAA--LAAGEITMEAAYEALG 247 (337)
T ss_pred HHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHH--HcCCCCCHHHHHHHhC
Confidence 566667778886 8999999998887655555555554444 2345799999998774
No 100
>KOG3423|consensus
Probab=62.25 E-value=9.9 Score=31.75 Aligned_cols=44 Identities=18% Similarity=0.276 Sum_probs=39.4
Q ss_pred HHHHHHHHcCCCccChHHHHHHHHHHHhhhcccccccHhhhhhh
Q psy8542 19 VIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHA 62 (182)
Q Consensus 19 ~i~~il~~~gi~~yep~v~~qll~f~yryt~~vL~DA~vys~ha 62 (182)
|+.-.|+.-|+.--+|||+..+==-+.+|.++|-.||..|+..-
T Consensus 91 vt~~yL~~aGf~~~D~rv~RLvsLaAQKfvSDIa~DA~Q~~k~r 134 (176)
T KOG3423|consen 91 VTDHYLKKAGFQTSDPRVKRLVSLAAQKFVSDIANDALQHSKIR 134 (176)
T ss_pred HHHHHHHhcCCCcCcHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 45567899999999999999999999999999999999998753
No 101
>KOG0871|consensus
Probab=60.62 E-value=26 Score=28.75 Aligned_cols=64 Identities=17% Similarity=0.187 Sum_probs=49.7
Q ss_pred HHHHHHhcCC--cccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhcCCC
Q psy8542 68 IVNMFQEAGI--KNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQLSGS 131 (182)
Q Consensus 68 I~rIlk~~Gv--~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~~~~ 131 (182)
|-.|++++== -++.-++.+.+.+-+-.|+.-|..+|...++.-.||||..|-|.-|++..+-..
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 4445554321 256667778888888889999999999999999999999999999998665433
No 102
>PLN00163 histone H4; Provisional
Probab=60.15 E-value=5.8 Score=27.64 Aligned_cols=25 Identities=12% Similarity=0.174 Sum_probs=22.0
Q ss_pred HHHHHHHhcCCcccChHHHHHHHHH
Q psy8542 67 VIVNMFQEAGIKNYDPRCVQQMLEF 91 (182)
Q Consensus 67 lI~rIlk~~Gv~r~sp~v~~qLle~ 91 (182)
.|+++.+..||+++|..++++..++
T Consensus 34 aIrRLARRgGVKRIs~~iY~e~R~v 58 (59)
T PLN00163 34 AIRRLARRGGVKRISGLIYEETRTV 58 (59)
T ss_pred HHHHHHHhcCceeecchhhHhHhcc
Confidence 5999999999999999998877654
No 103
>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=57.38 E-value=25 Score=34.22 Aligned_cols=49 Identities=14% Similarity=0.208 Sum_probs=40.0
Q ss_pred ccChHHHHHHHHHHHHHH-------HHHHHHHHHHhhhcCCCCCCHHHHHHHHHHh
Q psy8542 79 NYDPRCVQQMLEFVNNYT-------TTILEDSRVYANHAKKKTVDVEDIKLAITNQ 127 (182)
Q Consensus 79 r~sp~v~~qLle~~~ry~-------~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r 127 (182)
.+++.+...|.+++.++. .-+++-|.++|.-.||..|+.+||+.|+.-.
T Consensus 249 ~is~~~~~~l~~~~~~~~i~s~Ra~i~~~r~Ara~AaL~gr~~V~~~Dv~~A~~lv 304 (633)
T TIGR02442 249 RISDSLIRFISELCIEFGVDGHRADIVMARAARALAALDGRRRVTAEDVREAAELV 304 (633)
T ss_pred CCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHHH
Confidence 467788888888776653 4577889999999999999999999998853
No 104
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.
Probab=57.06 E-value=34 Score=29.62 Aligned_cols=57 Identities=9% Similarity=0.170 Sum_probs=36.8
Q ss_pred HHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHH
Q psy8542 67 VIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAIT 125 (182)
Q Consensus 67 lI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~ 125 (182)
.+..++++.|+ .+++.+...|.+.+..-...+.......+.+.+ +.|+.+||+.++.
T Consensus 184 ~l~~~~~~~g~-~i~~~a~~~l~~~~~g~~~~a~~~lekl~~~~~-~~it~~~v~~~~~ 240 (355)
T TIGR02397 184 RLKKILDKEGI-KIEDEALELIARAADGSLRDALSLLDQLISFGN-GNITYEDVNELLG 240 (355)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHcCCChHHHHHHHHHHHhhcC-CCCCHHHHHHHhC
Confidence 55666667887 488899998888876544444444333333444 4599998877653
No 105
>COG5162 Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=56.42 E-value=25 Score=29.45 Aligned_cols=43 Identities=19% Similarity=0.281 Sum_probs=36.4
Q ss_pred HHHHHHHHcCCCccChHHHHHHHHHHHhhhcccccccHhhhhh
Q psy8542 19 VIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANH 61 (182)
Q Consensus 19 ~i~~il~~~gi~~yep~v~~qll~f~yryt~~vL~DA~vys~h 61 (182)
++.-.|.--|+.--++||-..|--.+++|+++|-+||-.|+..
T Consensus 93 v~DYyl~k~Gf~~~D~rvKkLl~L~aqKFvsDiA~dayqYsrI 135 (197)
T COG5162 93 VTDYYLEKAGFVTSDQRVKKLLSLLAQKFVSDIAVDAYQYSRI 135 (197)
T ss_pred HHHHHHHhcCceeccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555666778888899998888889999999999999999865
No 106
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=55.64 E-value=36 Score=30.08 Aligned_cols=57 Identities=9% Similarity=0.150 Sum_probs=39.4
Q ss_pred HHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHH
Q psy8542 67 VIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAIT 125 (182)
Q Consensus 67 lI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~ 125 (182)
.+.+++++.|++ +++++...|.+.+..-...++..-..++.++|+. |+.+||+..+.
T Consensus 175 ~l~~~~~~~g~~-i~~~al~~l~~~~~gdlr~~~~~lekl~~y~~~~-it~~~v~~~~~ 231 (367)
T PRK14970 175 HLAGIAVKEGIK-FEDDALHIIAQKADGALRDALSIFDRVVTFCGKN-ITRQAVTENLN 231 (367)
T ss_pred HHHHHHHHcCCC-CCHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCC-CCHHHHHHHhC
Confidence 556666788885 8999999999887744444444444445555655 99999887763
No 107
>PF13335 Mg_chelatase_2: Magnesium chelatase, subunit ChlI
Probab=55.47 E-value=57 Score=24.07 Aligned_cols=33 Identities=21% Similarity=0.188 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHH
Q psy8542 94 NYTTTILEDSRVYANHAKKKTVDVEDIKLAITN 126 (182)
Q Consensus 94 ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~ 126 (182)
|=...||+=|...|+-+|...|+.++|..|+.-
T Consensus 63 R~~~rilrvARTIADL~~~~~I~~~hi~EAl~y 95 (96)
T PF13335_consen 63 RGYHRILRVARTIADLEGSERITREHIAEALSY 95 (96)
T ss_pred HHHHHHHHHHHHHHhHcCCCCCCHHHHHHHHhC
Confidence 445677888999999999999999999999963
No 108
>PRK05907 hypothetical protein; Provisional
Probab=55.35 E-value=34 Score=30.45 Aligned_cols=61 Identities=16% Similarity=0.202 Sum_probs=50.3
Q ss_pred HHHHHHHHHhcCCcccChHHHHHHHHHH-HHHHHHHHHHHHHHhhhcC-CCCCCHHHHHHHHHH
Q psy8542 65 AQVIVNMFQEAGIKNYDPRCVQQMLEFV-NNYTTTILEDSRVYANHAK-KKTVDVEDIKLAITN 126 (182)
Q Consensus 65 aqlI~rIlk~~Gv~r~sp~v~~qLle~~-~ry~~~Vl~dA~~yA~HAg-RktI~~eDVrLAI~~ 126 (182)
.+.|...+++.|.+ .++++...|++.. +.-...+..+-..++-++| +++|+.+||...+..
T Consensus 140 ~~Wi~~~~~~~g~~-i~~~a~~~L~~~~~~~nL~~l~~EleKL~ly~g~~~~It~e~V~~lv~~ 202 (311)
T PRK05907 140 AQLLIQRAKELGIS-CSLGLASLFVSKFPQTGLFEILSEFQKLLCQMGKKESLEASDIQSFVVK 202 (311)
T ss_pred HHHHHHHHHHcCCC-cCHHHHHHHHHHccCCCHHHHHHHHHHHHHhcCCCCeECHHHHHHHhcC
Confidence 45788888888875 8899999999877 5777788888888888866 778999999988754
No 109
>PF07231 Hs1pro-1_N: Hs1pro-1 N-terminus; InterPro: IPR009869 This entry represents the N terminus (approximately 180 residues) of plant Hs1pro-1, which is believed to confer resistance to nematodes [].
Probab=54.86 E-value=11 Score=31.43 Aligned_cols=27 Identities=33% Similarity=0.511 Sum_probs=24.4
Q ss_pred HHHHHHHHHhhhcccccccHhhhhhhh
Q psy8542 37 VQQMLEFVNNYTTTILEDSRVYANHAR 63 (182)
Q Consensus 37 ~~qll~f~yryt~~vL~DA~vys~har 63 (182)
.+|-||..+|+.+.||+|.+-|.++-.
T Consensus 84 ALqaLEitFR~is~vLsDpRPYinrrE 110 (182)
T PF07231_consen 84 ALQALEITFRFISTVLSDPRPYINRRE 110 (182)
T ss_pred HHHHHHHHHHHHHHHhcCCcccccHHH
Confidence 578999999999999999999988744
No 110
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=54.73 E-value=74 Score=29.00 Aligned_cols=65 Identities=15% Similarity=0.240 Sum_probs=51.1
Q ss_pred hhhhHHHHHHHHHh---cCC--cccChHHHHHHHHHHH------HHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHH
Q psy8542 61 HARDAQVIVNMFQE---AGI--KNYDPRCVQQMLEFVN------NYTTTILEDSRVYANHAKKKTVDVEDIKLAIT 125 (182)
Q Consensus 61 hardaqlI~rIlk~---~Gv--~r~sp~v~~qLle~~~------ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~ 125 (182)
.|+++.-+..|+++ .|. ..+++++.....+++- |++-++++-|...|+..|+.+|+.++|+.|..
T Consensus 188 ~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A~eiAe~~~~~~v~~~~v~~a~~ 263 (366)
T COG1474 188 PPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAEREGSRKVSEDHVREAQE 263 (366)
T ss_pred CCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHH
Confidence 37788888888864 343 3477777776665542 67889999999999999999999999999944
No 111
>PRK09862 putative ATP-dependent protease; Provisional
Probab=53.61 E-value=44 Score=32.02 Aligned_cols=34 Identities=12% Similarity=0.198 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHh
Q psy8542 94 NYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQ 127 (182)
Q Consensus 94 ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r 127 (182)
|-...+++=|..+|+-+|+..|+.+||..|+.-|
T Consensus 459 Ra~~rlLrvARTiADL~g~~~V~~~hv~eAl~yR 492 (506)
T PRK09862 459 RAWQRLLKVARTIADIDQSDIITRQHLQEAVSYR 492 (506)
T ss_pred HHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHhh
Confidence 4455677779999999999999999999999866
No 112
>KOG3901|consensus
Probab=52.55 E-value=52 Score=25.52 Aligned_cols=45 Identities=27% Similarity=0.375 Sum_probs=34.9
Q ss_pred ccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHH
Q psy8542 79 NYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITN 126 (182)
Q Consensus 79 r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~ 126 (182)
..=++.+..|=++.-.|+.+++..|.... .|..+.+||++.+|+.
T Consensus 27 nP~~~tv~~Le~iV~~Yi~elt~~a~~~g---~rgk~~veD~~f~lRk 71 (109)
T KOG3901|consen 27 NPYPETVDLLEDIVLEYITELTHAAMEIG---KRGKVKVEDFKFLLRK 71 (109)
T ss_pred CccHhHHHHHHHHHHHHHHHHHHHHHHhc---ccCceeHHHHHHHHHh
Confidence 44567777788888888888877666655 5678999999999973
No 113
>PF15127 DUF4565: Protein of unknown function (DUF4565)
Probab=52.03 E-value=5.4 Score=30.04 Aligned_cols=27 Identities=22% Similarity=0.353 Sum_probs=21.3
Q ss_pred ccChHHHHHHHHHHHhhhcccccccHh
Q psy8542 31 NYDPRCVQQMLEFVNNYTTTILEDSRV 57 (182)
Q Consensus 31 ~yep~v~~qll~f~yryt~~vL~DA~v 57 (182)
.-.|..=.-+||||||-..+||.||..
T Consensus 45 ~~~~~a~~vvlEyA~rLSqEIl~dAlq 71 (91)
T PF15127_consen 45 PPSPGASPVVLEYAHRLSQEILSDALQ 71 (91)
T ss_pred CCCCCCCchhHHHHHHHHHHHHHHHHH
Confidence 344554467899999999999999864
No 114
>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=51.86 E-value=41 Score=23.62 Aligned_cols=45 Identities=13% Similarity=0.343 Sum_probs=34.7
Q ss_pred HHHHHHHHcC-CCccChHHHHHHHHHHHhhhcccccccHhhhhhhh
Q psy8542 19 VIVNMFQEAG-IKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAR 63 (182)
Q Consensus 19 ~i~~il~~~g-i~~yep~v~~qll~f~yryt~~vL~DA~vys~har 63 (182)
-|..++++.+ =...+|.|-..|++++--|..+|+..|-..+.|-+
T Consensus 4 ~l~~Lv~~iDp~~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~ 49 (68)
T PF03847_consen 4 KLQELVKQIDPNEKLDPDVEELLLELADDFVDDVVSFACRLAKHRK 49 (68)
T ss_dssp HHHHHHHCC-SS----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 3566777773 34589999999999999999999999999999865
No 115
>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=51.42 E-value=60 Score=31.39 Aligned_cols=49 Identities=16% Similarity=0.179 Sum_probs=38.1
Q ss_pred ccChHHHHHHHHHHHHHHH-------HHHHHHHHHhhhcCCCCCCHHHHHHHHHHh
Q psy8542 79 NYDPRCVQQMLEFVNNYTT-------TILEDSRVYANHAKKKTVDVEDIKLAITNQ 127 (182)
Q Consensus 79 r~sp~v~~qLle~~~ry~~-------~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r 127 (182)
.+++++...+++++.++.. -+++-|.++|.-.||..|+.+||+.|+.-.
T Consensus 203 ~i~~~~~~~l~~~~~~~gv~s~Ra~i~~~r~ArA~Aal~gr~~V~~~Dv~~a~~lv 258 (589)
T TIGR02031 203 TISAEQVKELVLTAASLGISGHRADLFAVRAAKAHAALHGRTEVTEEDLKLAVELV 258 (589)
T ss_pred cCCHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Confidence 4677777777777655433 367888889999999999999999999853
No 116
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=51.17 E-value=91 Score=27.23 Aligned_cols=79 Identities=10% Similarity=0.010 Sum_probs=53.6
Q ss_pred HHHHHHHHhcCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhcC-CCCCCCCChhhh
Q psy8542 66 QVIVNMFQEAGIKNYDPRCVQQMLEFVN---NYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQLS-GSFAKPPPRESK 141 (182)
Q Consensus 66 qlI~rIlk~~Gv~r~sp~v~~qLle~~~---ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~~-~~F~~pppke~L 141 (182)
+++.+.++..|+. +++++...+.+.+. |.+..+++.+..+|.-.+...|+.++|+.++..... +.--.+-.+++|
T Consensus 187 ~il~~~~~~~~~~-~~~~~~~~ia~~~~G~pR~a~~~l~~~~~~a~~~~~~~I~~~~v~~~l~~~~~~~~~l~~~~~~~l 265 (328)
T PRK00080 187 KIVKRSARILGVE-IDEEGALEIARRSRGTPRIANRLLRRVRDFAQVKGDGVITKEIADKALDMLGVDELGLDEMDRKYL 265 (328)
T ss_pred HHHHHHHHHcCCC-cCHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhCCCcCCCCHHHHHHH
Confidence 3555555566665 79999999888874 457778887777776667779999999999976322 222233455666
Q ss_pred hccc
Q psy8542 142 GSGQ 145 (182)
Q Consensus 142 l~lA 145 (182)
..++
T Consensus 266 ~~~~ 269 (328)
T PRK00080 266 RTII 269 (328)
T ss_pred HHHH
Confidence 5454
No 117
>PF15127 DUF4565: Protein of unknown function (DUF4565)
Probab=50.06 E-value=17 Score=27.38 Aligned_cols=29 Identities=21% Similarity=0.268 Sum_probs=23.3
Q ss_pred ccChHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8542 79 NYDPRCVQQMLEFVNNYTTTILEDSRVYA 107 (182)
Q Consensus 79 r~sp~v~~qLle~~~ry~~~Vl~dA~~yA 107 (182)
..++.+-.-++|||+|-..+|+.||+.--
T Consensus 45 ~~~~~a~~vvlEyA~rLSqEIl~dAlqQW 73 (91)
T PF15127_consen 45 PPSPGASPVVLEYAHRLSQEILSDALQQW 73 (91)
T ss_pred CCCCCCCchhHHHHHHHHHHHHHHHHHHH
Confidence 34555556789999999999999998654
No 118
>KOG2389|consensus
Probab=49.79 E-value=24 Score=32.55 Aligned_cols=82 Identities=15% Similarity=0.297 Sum_probs=59.4
Q ss_pred HHHHHHHHcCCCccChHHHHHHHHHHHhhhcccccccHhhhhhhhhHH----HHHHHHHhcCC----cccChHHHHHHHH
Q psy8542 19 VIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHARDAQ----VIVNMFQEAGI----KNYDPRCVQQMLE 90 (182)
Q Consensus 19 ~i~~il~~~gi~~yep~v~~qll~f~yryt~~vL~DA~vys~hardaq----lI~rIlk~~Gv----~r~sp~v~~qLle 90 (182)
.+..|..++|...|+.--.+-|-++.-+|..++=++|.-|++++++.. -|..-+.++|+ .-.+. .-++|++
T Consensus 34 avaQIcqslg~~~~~~sale~Ltd~~~qyvQ~lgk~a~~~~n~anR~epnl~Div~Al~dls~s~~~~~~~~-~s~~L~d 112 (353)
T KOG2389|consen 34 AVAQICQSLGYSSTQNSALETLTDVLQQYVQNLGKTAHRYSNLANRTEPNLFDIVLALQDLSASLGASGSSG-ESHCLLD 112 (353)
T ss_pred HHHHHHHhcCCcccccHHHHHHHHHHHHHHHHHHhhhhhhhhhcCCCCccHHHHHHHHHHhhhhcccccccc-hhHHHhh
Confidence 467899999999999999999999999999999999999999998553 34444444433 33333 4444444
Q ss_pred HHHHHHHHHHHHHHHHh
Q psy8542 91 FVNNYTTTILEDSRVYA 107 (182)
Q Consensus 91 ~~~ry~~~Vl~dA~~yA 107 (182)
+.|++|-+.|-
T Consensus 113 ------s~v~rdii~~~ 123 (353)
T KOG2389|consen 113 ------SKVLRDIIIFN 123 (353)
T ss_pred ------hhhHHHHHhhc
Confidence 24555555554
No 119
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=49.05 E-value=92 Score=24.94 Aligned_cols=57 Identities=11% Similarity=0.142 Sum_probs=41.8
Q ss_pred HHHHHHHHhcCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHhhhcCCCCCCHHHHHHHH
Q psy8542 66 QVIVNMFQEAGIKNYDPRCVQQMLEFVN---NYTTTILEDSRVYANHAKKKTVDVEDIKLAI 124 (182)
Q Consensus 66 qlI~rIlk~~Gv~r~sp~v~~qLle~~~---ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI 124 (182)
..+...++..|+ .+++++...|...+. +....+++++..++.-+| ++|+.+.|+-.+
T Consensus 166 ~~l~~~~~~~~~-~~~~~~l~~L~~~~~gn~r~L~~~l~~~~~~~~~~~-~~i~~~~~~~~~ 225 (226)
T TIGR03420 166 AALQSRAARRGL-QLPDEVADYLLRHGSRDMGSLMALLDALDRASLAAK-RKITIPFVKEVL 225 (226)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhC-CCCCHHHHHHHh
Confidence 445555556665 489999988888654 677888888887776655 579999888765
No 120
>PF07766 LETM1: LETM1-like protein; InterPro: IPR011685 This is a group of mainly hypothetical eukaryotic proteins. Putative features found in LETM1, such as a transmembrane domain and a CK2 and PKC phosphorylation site [], are relatively conserved throughout the family. Deletion of LETM1 is thought to be involved in the development of Wolf-Hirschhorn syndrome in humans []. A member of this family, P91927 from SWISSPROT, is known to be expressed in the mitochondria of Drosophila melanogaster [], suggesting that this may be a group of mitochondrial proteins.; PDB: 3SKQ_A.
Probab=48.72 E-value=68 Score=27.88 Aligned_cols=70 Identities=11% Similarity=0.153 Sum_probs=47.6
Q ss_pred HHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhcCCCCCCCCChhhh
Q psy8542 67 VIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQLSGSFAKPPPRESK 141 (182)
Q Consensus 67 lI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~~~~F~~pppke~L 141 (182)
.+..+.+-+|++.+.++.. +.--+.+....+..|=.....- |=..++.++++.|+..|+... .+-++|.|
T Consensus 175 ~L~~L~r~~~l~~~~~~~~--lr~rL~~~~~~l~~dD~~i~~e-Gv~~Ls~~EL~~Ac~~RGl~~--~~~s~~~l 244 (268)
T PF07766_consen 175 HLRALCRLLGLTPFGPSSL--LRRRLRKRLRYLKQDDRLIKRE-GVDSLSEEELQDACYERGLRS--TGLSEEEL 244 (268)
T ss_dssp HHHHHHHHTT----SSHHH--HHHHHHHHHHHHHHHHHHHHHH--GGGS-HHHHHHHHHHTT-----TT--HHHH
T ss_pred HHHHHHHHhccCcCCchHH--HHHHHHHHHHHHHHHHHHHHHh-ccccCCHHHHHHHHHHhCCCc--CCCCHHHH
Confidence 4777888899999988665 6777888888888888777777 888999999999999998632 24455555
No 121
>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=48.58 E-value=55 Score=29.51 Aligned_cols=53 Identities=15% Similarity=0.172 Sum_probs=36.0
Q ss_pred cChHHHHHHHHHHHH-------HHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhcCCCC
Q psy8542 80 YDPRCVQQMLEFVNN-------YTTTILEDSRVYANHAKKKTVDVEDIKLAITNQLSGSF 132 (182)
Q Consensus 80 ~sp~v~~qLle~~~r-------y~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~~~~F 132 (182)
+++.+...+.+.+.. -....++-|.++|--.||..|+.+||+.++.--+.|-.
T Consensus 255 v~d~~~~~i~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~~dDv~~~a~~vL~HR~ 314 (337)
T TIGR02030 255 IPYDVLVKVAELCAELDVDGLRGELTLNRAAKALAAFEGRTEVTVDDIRRVAVLALRHRL 314 (337)
T ss_pred CCHHHHHHHHHHHHHHCCCCCcHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHhC
Confidence 445554444444432 23346677899999999999999999988875444333
No 122
>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=48.38 E-value=46 Score=22.64 Aligned_cols=46 Identities=17% Similarity=0.239 Sum_probs=35.4
Q ss_pred HHHHHHHHHcCCC-ccChHHHHHHHHHHHhhhcccccccHhhhhhhh
Q psy8542 18 QVIVNMFQEAGIK-NYDPRCVQQMLEFVNNYTTTILEDSRVYANHAR 63 (182)
Q Consensus 18 ~~i~~il~~~gi~-~yep~v~~qll~f~yryt~~vL~DA~vys~har 63 (182)
|+...|-...+.. .+....+.-|-.+.-=|+.++|++|..++.|.+
T Consensus 13 r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~k 59 (75)
T PF00125_consen 13 RLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAK 59 (75)
T ss_dssp HHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred eeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcC
Confidence 3344444443443 778889999999999999999999999999975
No 123
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=48.33 E-value=61 Score=27.37 Aligned_cols=57 Identities=11% Similarity=0.104 Sum_probs=39.8
Q ss_pred HHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHH
Q psy8542 66 QVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAIT 125 (182)
Q Consensus 66 qlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~ 125 (182)
..+..+++..|++ +++++...|.+........++..-..++.. .++|+.++|+.++.
T Consensus 168 ~~l~~~~~~~~~~-i~~~al~~l~~~~~gd~r~~~~~l~~~~~~--~~~it~~~v~~~~~ 224 (319)
T PRK00440 168 ERLRYIAENEGIE-ITDDALEAIYYVSEGDMRKAINALQAAAAT--GKEVTEEAVYKITG 224 (319)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHc--CCCCCHHHHHHHhC
Confidence 3566667778875 889999999888765555554444444443 36899999988763
No 124
>PF14178 YppF: YppF-like protein
Probab=47.13 E-value=14 Score=25.84 Aligned_cols=21 Identities=24% Similarity=0.529 Sum_probs=17.6
Q ss_pred HcCCCccChHHHHHHHHHHHh
Q psy8542 26 EAGIKNYDPRCVQQMLEFVNN 46 (182)
Q Consensus 26 ~~gi~~yep~v~~qll~f~yr 46 (182)
=+-+..|+|.-.+.||||+=+
T Consensus 10 F~~~k~y~p~~~NeLLDFar~ 30 (60)
T PF14178_consen 10 FMQKKKYEPEDMNELLDFARK 30 (60)
T ss_pred HHHHhccCcccHHHHHHHHHH
Confidence 346778999999999999854
No 125
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=44.52 E-value=64 Score=31.45 Aligned_cols=57 Identities=9% Similarity=0.085 Sum_probs=38.6
Q ss_pred HHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHH
Q psy8542 67 VIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAIT 125 (182)
Q Consensus 67 lI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~ 125 (182)
.+.+++++.|++ +++++...+.+.+.-...+++........| |.+.|+.+||+..+.
T Consensus 199 ~L~~i~~kegi~-i~~eAl~lIa~~a~Gdlr~al~~Ldkli~~-g~g~It~e~V~~llg 255 (598)
T PRK09111 199 HLSRIAAKEGVE-VEDEALALIARAAEGSVRDGLSLLDQAIAH-GAGEVTAEAVRDMLG 255 (598)
T ss_pred HHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHhh-cCCCcCHHHHHHHhC
Confidence 456666777776 788998888888776555554444333334 345799999997653
No 126
>PLN00161 histone H3; Provisional
Probab=44.20 E-value=55 Score=26.31 Aligned_cols=56 Identities=18% Similarity=0.278 Sum_probs=45.7
Q ss_pred HHHHHHHHHHcCC--CccChHHHHHHHHHHHhhhcccccccHhhhhhhh-------hHHHHHHHH
Q psy8542 17 AQVIVNMFQEAGI--KNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAR-------DAQVIVNMF 72 (182)
Q Consensus 17 a~~i~~il~~~gi--~~yep~v~~qll~f~yryt~~vL~DA~vys~har-------daqlI~rIl 72 (182)
.|++..|..++.- --|.+..+.-|=|-+=-|-.+.++|+...+-|++ |.+++.+|-
T Consensus 62 ~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm~La~rir 126 (135)
T PLN00161 62 ARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDMQLARRIR 126 (135)
T ss_pred HHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhHHHHHHhc
Confidence 5788888888743 3589999999999999999999999999999976 555555543
No 127
>COG5248 TAF19 Transcription initiation factor TFIID, subunit TAF13 [Transcription]
Probab=43.77 E-value=83 Score=24.77 Aligned_cols=48 Identities=17% Similarity=0.304 Sum_probs=40.2
Q ss_pred CCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHH
Q psy8542 76 GIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAIT 125 (182)
Q Consensus 76 Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~ 125 (182)
.+-..-++.++.|=|+.-.|..++..+|...|. .|..+..||.+.|++
T Consensus 24 Dvv~P~~dt~~~L~e~V~dY~~~~ctna~~~Aq--~rnK~k~eDfkfaLr 71 (126)
T COG5248 24 DVVAPRYDTAEALHEYVLDYMSILCTNAHNMAQ--VRNKTKTEDFKFALR 71 (126)
T ss_pred CCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHH--hcccchHHHHHHHHh
Confidence 344556778888999999999999999998888 567789999999997
No 128
>cd08045 TAF4 TATA Binding Protein (TBP) Associated Factor 4 (TAF4) 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 4 (TAF4) 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 eukaryote. 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 hypotheses are
Probab=42.37 E-value=78 Score=26.40 Aligned_cols=49 Identities=18% Similarity=0.241 Sum_probs=45.2
Q ss_pred HHHHHHHHHHcCCCccChHHHHHHHHHHHhhhcccccccHhhhhhhhhH
Q psy8542 17 AQVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHARDA 65 (182)
Q Consensus 17 a~~i~~il~~~gi~~yep~v~~qll~f~yryt~~vL~DA~vys~harda 65 (182)
.+.|..|++..|+.+.++.++..|..-...|-.+++++....+.|=.+.
T Consensus 51 ~~~~~~i~~~~g~~~~~~d~~~lis~a~e~rlr~li~k~~~~s~hR~~~ 99 (212)
T cd08045 51 AKKIRKIAKKHGLKEVDEDVLDLISLALEERLRNLLEKLIEVSEHRVDS 99 (212)
T ss_pred HHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence 5678999999999999999999999999999999999999999997554
No 129
>PRK04195 replication factor C large subunit; Provisional
Probab=41.87 E-value=72 Score=29.68 Aligned_cols=56 Identities=18% Similarity=0.273 Sum_probs=44.7
Q ss_pred HHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHH
Q psy8542 66 QVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAI 124 (182)
Q Consensus 66 qlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI 124 (182)
..+..+++..|++ +++++...|.+.+..-...++.+...++. |+..|+.+||+..+
T Consensus 167 ~~L~~i~~~egi~-i~~eaL~~Ia~~s~GDlR~ain~Lq~~a~--~~~~it~~~v~~~~ 222 (482)
T PRK04195 167 PVLKRICRKEGIE-CDDEALKEIAERSGGDLRSAINDLQAIAE--GYGKLTLEDVKTLG 222 (482)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHhc--CCCCCcHHHHHHhh
Confidence 4667777788885 89999999999988888888888777664 56679999998655
No 130
>smart00417 H4 Histone H4.
Probab=40.18 E-value=36 Score=24.51 Aligned_cols=46 Identities=17% Similarity=0.378 Sum_probs=40.4
Q ss_pred HHHHHHHHcCCCccChHHHHHHHHHHHhhhcccccccHhhhhhhhh
Q psy8542 19 VIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHARD 64 (182)
Q Consensus 19 ~i~~il~~~gi~~yep~v~~qll~f~yryt~~vL~DA~vys~hard 64 (182)
-|.-|++.-|+.--...+-..+-++.=-|-.+|+.||..|++|++.
T Consensus 18 ~IrRLaRr~GvkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~R 63 (74)
T smart00417 18 AIRRLARRGGVKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARR 63 (74)
T ss_pred HHHHHHHHcCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 5888999999999888888888888888889999999999999874
No 131
>smart00350 MCM minichromosome maintenance proteins.
Probab=39.81 E-value=46 Score=31.38 Aligned_cols=30 Identities=23% Similarity=0.207 Sum_probs=25.2
Q ss_pred HHHHHHHHHHhhhcCCCCCCHHHHHHHHHH
Q psy8542 97 TTILEDSRVYANHAKKKTVDVEDIKLAITN 126 (182)
Q Consensus 97 ~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~ 126 (182)
..+++=|.++|.-.+|..|+.+||+.||+-
T Consensus 474 ~sliRla~A~A~l~~r~~V~~~Dv~~ai~l 503 (509)
T smart00350 474 ESIIRLSEAHAKMRLSDVVEEADVEEAIRL 503 (509)
T ss_pred HHHHHHHHHHHHHcCCCccCHHHHHHHHHH
Confidence 455566788899999999999999999973
No 132
>PLN00160 histone H3; Provisional
Probab=37.73 E-value=99 Score=23.43 Aligned_cols=55 Identities=18% Similarity=0.275 Sum_probs=44.7
Q ss_pred HHHHHHHHHHcC--CCccChHHHHHHHHHHHhhhcccccccHhhhhhhh-------hHHHHHHH
Q psy8542 17 AQVIVNMFQEAG--IKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAR-------DAQVIVNM 71 (182)
Q Consensus 17 a~~i~~il~~~g--i~~yep~v~~qll~f~yryt~~vL~DA~vys~har-------daqlI~rI 71 (182)
.|++..|..++. ---|.+.++.-|=|-+=-|-.+.++|+...+-|++ |-+++.+|
T Consensus 28 ~RLVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~~L~~ri 91 (97)
T PLN00160 28 ARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDMQLARRI 91 (97)
T ss_pred HHHHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhHHHHHHh
Confidence 577788877763 23699999999999999999999999999999976 55555554
No 133
>PRK08727 hypothetical protein; Validated
Probab=36.68 E-value=1.4e+02 Score=24.95 Aligned_cols=56 Identities=16% Similarity=0.181 Sum_probs=38.2
Q ss_pred HHHHHHhcCCcccChHHHHHHHHHHHHHHHHH---HHHHHHHhhhcCCCCCCHHHHHHHHH
Q psy8542 68 IVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTI---LEDSRVYANHAKKKTVDVEDIKLAIT 125 (182)
Q Consensus 68 I~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~V---l~dA~~yA~HAgRktI~~eDVrLAI~ 125 (182)
+.+..+..|+ .+++++...|.+.+.+-...+ ++....++...+| .||.+.|+..++
T Consensus 171 L~~~a~~~~l-~l~~e~~~~La~~~~rd~r~~l~~L~~l~~~~~~~~~-~it~~~~~~~l~ 229 (233)
T PRK08727 171 LRERAQRRGL-ALDEAAIDWLLTHGERELAGLVALLDRLDRESLAAKR-RVTVPFLRRVLE 229 (233)
T ss_pred HHHHHHHcCC-CCCHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCC-CCCHHHHHHHHh
Confidence 3333333465 589999999999988665555 7666555555454 699998887775
No 134
>KOG3219|consensus
Probab=34.86 E-value=76 Score=27.01 Aligned_cols=61 Identities=8% Similarity=0.095 Sum_probs=51.0
Q ss_pred HHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCC-CCCHHHHHHHHHH
Q psy8542 66 QVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKK-TVDVEDIKLAITN 126 (182)
Q Consensus 66 qlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRk-tI~~eDVrLAI~~ 126 (182)
..|++++.+.--..+++.+...+.-+++-|+.+|.+.|....+--|.. .+.-..|+.|...
T Consensus 116 a~iKkL~~~itg~~v~~nv~Ia~~GiaKvFVGEvVEeAl~V~~~~~e~~PLqP~HIREA~rr 177 (195)
T KOG3219|consen 116 AQIKKLMSSITGQSVSENVAIAMAGIAKVFVGEVVEEALDVREEWGESGPLQPKHIREAYRR 177 (195)
T ss_pred HHHHHHHHHHhCCccCcceeeeecchhhHhHHHHHHHHHHHHHHhccCCCCCcHHHHHHHHH
Confidence 457777776544449999999999999999999999999999877754 6888899999874
No 135
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=34.84 E-value=1.5e+02 Score=26.77 Aligned_cols=50 Identities=12% Similarity=0.126 Sum_probs=38.5
Q ss_pred cccChHHHHHHHHHHHHHHH-------HHHHHHHHHhhhcCCCCCCHHHHHHHHHHh
Q psy8542 78 KNYDPRCVQQMLEFVNNYTT-------TILEDSRVYANHAKKKTVDVEDIKLAITNQ 127 (182)
Q Consensus 78 ~r~sp~v~~qLle~~~ry~~-------~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r 127 (182)
-.+++.+...+.+.+...-. -+++-|.++|-..||..|+.+||+.+....
T Consensus 250 V~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~~aA~a~A~l~Gr~~V~~~Di~~~~~~v 306 (334)
T PRK13407 250 LKTPNTVLHDCAALCIALGSDGLRGELTLLRAARALAAFEGAEAVGRSHLRSVATMA 306 (334)
T ss_pred cccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHHcCCCeeCHHHHHHHHHHh
Confidence 34677777777777765432 278899999999999999999998777543
No 136
>PRK09087 hypothetical protein; Validated
Probab=34.64 E-value=2.7e+02 Score=23.30 Aligned_cols=60 Identities=15% Similarity=0.146 Sum_probs=43.3
Q ss_pred HHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHH---HHHHHhhhcCCCCCCHHHHHHHHHHh
Q psy8542 66 QVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILE---DSRVYANHAKKKTVDVEDIKLAITNQ 127 (182)
Q Consensus 66 qlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~---dA~~yA~HAgRktI~~eDVrLAI~~r 127 (182)
+++.+.++..|+ .+++++.+.|.+.+.+-..++.. .-..++...| +.||...+|.+++..
T Consensus 160 ~iL~~~~~~~~~-~l~~ev~~~La~~~~r~~~~l~~~l~~L~~~~~~~~-~~it~~~~~~~l~~~ 222 (226)
T PRK09087 160 QVIFKLFADRQL-YVDPHVVYYLVSRMERSLFAAQTIVDRLDRLALERK-SRITRALAAEVLNEM 222 (226)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhC-CCCCHHHHHHHHHhh
Confidence 355566666676 59999999999999988888776 3223333334 569999999998753
No 137
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=34.23 E-value=1.7e+02 Score=26.70 Aligned_cols=49 Identities=14% Similarity=0.068 Sum_probs=36.3
Q ss_pred ccChHHHHHHHHHHHH-------HHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHh
Q psy8542 79 NYDPRCVQQMLEFVNN-------YTTTILEDSRVYANHAKKKTVDVEDIKLAITNQ 127 (182)
Q Consensus 79 r~sp~v~~qLle~~~r-------y~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r 127 (182)
.+++.+...+++.+.. -.--+++-|.++|--.||..|+.+||+.++..-
T Consensus 267 ~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~pdDv~~~a~~v 322 (350)
T CHL00081 267 EIDYDLRVKISQICSELDVDGLRGDIVTNRAAKALAAFEGRTEVTPKDIFKVITLC 322 (350)
T ss_pred ccCHHHHHHHHHHHHHHCCCCChHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence 3566666666665544 334566788899999999999999999988753
No 138
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=34.18 E-value=1.2e+02 Score=27.48 Aligned_cols=57 Identities=9% Similarity=0.173 Sum_probs=38.2
Q ss_pred HHHHHHHhcCCcccChHHHHHHHHHHHHHHHHH---HHHHHHHhh-hcCCCCCCHHHHHHHH
Q psy8542 67 VIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTI---LEDSRVYAN-HAKKKTVDVEDIKLAI 124 (182)
Q Consensus 67 lI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~V---l~dA~~yA~-HAgRktI~~eDVrLAI 124 (182)
.+..+++..|++ +++++...|.+.+.-....+ ++....|+. +.++++|+.+||+..+
T Consensus 194 ~l~~~~~~~g~~-i~~~al~~l~~~s~g~lr~a~~~L~kl~~~~~~~~~~~~It~~~v~~~v 254 (397)
T PRK14955 194 QLQGICEAEGIS-VDADALQLIGRKAQGSMRDAQSILDQVIAFSVESEGEGSIRYDKVAELL 254 (397)
T ss_pred HHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccccCCCCccCHHHHHHHH
Confidence 455555555654 88999999888887655544 444555553 3446799999997665
No 139
>KOG3902|consensus
Probab=34.02 E-value=2.4e+02 Score=25.90 Aligned_cols=64 Identities=17% Similarity=0.194 Sum_probs=54.2
Q ss_pred hhhhHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHH
Q psy8542 61 HARDAQVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAI 124 (182)
Q Consensus 61 hardaqlI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI 124 (182)
|+..+++-.-++.+.-+.+..|+-....=+..+--+.+++..|...|.-+|-..|+.+|+-.-|
T Consensus 24 ~ky~veiQqmmf~sGei~~P~pett~Lved~V~gqvie~l~qa~eia~lrgsr~Itpedlifli 87 (352)
T KOG3902|consen 24 KKYRVEIQQMMFQSGEIPDPLPETTNLVEDNVRGQVIESLVQANEIADLRGSRSITPEDLIFLI 87 (352)
T ss_pred hhHHHHHHHHHHHhCCCCCCcHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCccccChHHHHHHh
Confidence 4556666666778888999999999988899999999999999999999999999988876544
No 140
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=33.99 E-value=1.2e+02 Score=29.09 Aligned_cols=53 Identities=11% Similarity=0.246 Sum_probs=36.5
Q ss_pred HHHHHHHhcCCcccChHHHHHHHHHHHH---HHHHHHHHHHHHhhhcCCCCCCHHHHHHHH
Q psy8542 67 VIVNMFQEAGIKNYDPRCVQQMLEFVNN---YTTTILEDSRVYANHAKKKTVDVEDIKLAI 124 (182)
Q Consensus 67 lI~rIlk~~Gv~r~sp~v~~qLle~~~r---y~~~Vl~dA~~yA~HAgRktI~~eDVrLAI 124 (182)
.+.+++++.|+ .+++++...+.+.+.- .+...++.+.. |.+ ++|+.+||+..+
T Consensus 183 ~L~~ia~~Egi-~i~~eAL~lIa~~s~GslR~alslLdqli~---y~~-~~It~e~V~~ll 238 (491)
T PRK14964 183 HLVDIAKKENI-EHDEESLKLIAENSSGSMRNALFLLEQAAI---YSN-NKISEKSVRDLL 238 (491)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHH---hcC-CCCCHHHHHHHH
Confidence 45666667777 4899999998888854 44445555544 444 479999998754
No 141
>KOG3467|consensus
Probab=33.43 E-value=1.1e+02 Score=23.09 Aligned_cols=37 Identities=22% Similarity=0.456 Sum_probs=28.5
Q ss_pred HHhhhcccccccHhhhhhhhh----HHHHHHHHHhcCCccc
Q psy8542 44 VNNYTTTILEDSRVYANHARD----AQVIVNMFQEAGIKNY 80 (182)
Q Consensus 44 ~yryt~~vL~DA~vys~hard----aqlI~rIlk~~Gv~r~ 80 (182)
+--|-.++|.+|-.|.+||+. +..|.-.|+++|.+-|
T Consensus 59 ~k~fl~n~i~~A~~yt~HAKRKTvT~~dvv~~LKR~G~~~~ 99 (103)
T KOG3467|consen 59 LKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLY 99 (103)
T ss_pred HHHHHHHHHHHHHHHHhhhhhceeeHHHHHHHHHHcCceee
Confidence 344667889999999999984 3467777889998754
No 142
>PF09123 DUF1931: Domain of unknown function (DUF1931); InterPro: IPR015207 This entry represents a set of hypothetical bacterial proteins containing a core of six alpha-helices, where one central helix is surrounded by the other five. The exact function of this family has not, as yet, been determined []. ; PDB: 1WWS_A 1WWI_A 1R4V_A.
Probab=33.07 E-value=19 Score=29.09 Aligned_cols=51 Identities=16% Similarity=0.221 Sum_probs=37.8
Q ss_pred HHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHH
Q psy8542 69 VNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVED 119 (182)
Q Consensus 69 ~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eD 119 (182)
.++++.++-=.+...-...++||.++-..+++.-|..-|...||..|..-|
T Consensus 2 e~lFR~aa~LdvdK~d~~r~~d~V~~Kl~DLl~va~~~Ak~ngRdvI~~~D 52 (138)
T PF09123_consen 2 ERLFRKAAGLDVDKNDAKRYSDFVEKKLYDLLLVAQENAKANGRDVIEPRD 52 (138)
T ss_dssp HHHHHHHHS----HHHHHHHHHHHHHHHHHCCCCHHHHHHHTT-SEE-GGG
T ss_pred hHHHHHHhccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecccc
Confidence 456665544456788889999999999999999999999999998776554
No 143
>KOG1942|consensus
Probab=32.02 E-value=58 Score=30.26 Aligned_cols=65 Identities=17% Similarity=0.303 Sum_probs=49.3
Q ss_pred hhhHHHHHHHHH-hcCCc--ccChHHHHHHHH----HHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHH
Q psy8542 62 ARDAQVIVNMFQ-EAGIK--NYDPRCVQQMLE----FVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITN 126 (182)
Q Consensus 62 ardaqlI~rIlk-~~Gv~--r~sp~v~~qLle----~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~ 126 (182)
+++-.-++.|++ ++-++ .+++++...|.+ -.-||+-+++.-|-..|.-.||+.|..+||...-.-
T Consensus 366 ~y~~~e~r~Ii~~Ra~~E~l~~~e~a~~~l~~~gt~tsLRy~vqLl~p~~~~ak~~g~~~i~v~dvee~~~L 437 (456)
T KOG1942|consen 366 PYDEEEIRQIIKIRAQVEGLQVEEEALDLLAEIGTSTSLRYAVQLLTPASILAKTNGRKEISVEDVEEVTEL 437 (456)
T ss_pred cCCHHHHHHHHHHHHhhhcceecHHHHHHHHhhccchhHHHHHHhcCHHHHHHHHcCCceeecccHHHHHHH
Confidence 345555666665 33333 378888888877 356899999999999999999999999999877653
No 144
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=31.85 E-value=1.3e+02 Score=28.91 Aligned_cols=56 Identities=7% Similarity=0.132 Sum_probs=36.5
Q ss_pred HHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHH
Q psy8542 67 VIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAI 124 (182)
Q Consensus 67 lI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI 124 (182)
.+..+++..|++ +++++...|.+.+.--...++..-..++.+ +...|+.+||+..+
T Consensus 187 ~L~~~a~~egl~-i~~eal~~La~~s~Gdlr~al~~LekL~~y-~~~~It~e~V~~ll 242 (585)
T PRK14950 187 HLRKIAAAEGIN-LEPGALEAIARAATGSMRDAENLLQQLATT-YGGEISLSQVQSLL 242 (585)
T ss_pred HHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cCCCCCHHHHHHHh
Confidence 344555566765 788988888887765455554444444544 34579999987654
No 145
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=30.56 E-value=1.4e+02 Score=29.12 Aligned_cols=56 Identities=7% Similarity=0.093 Sum_probs=38.5
Q ss_pred HHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHH
Q psy8542 67 VIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAI 124 (182)
Q Consensus 67 lI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI 124 (182)
.+..+++..|++ +++++...|.+.+..-...++...-..+.++|++ |+.++|...+
T Consensus 188 ~L~~ia~~egi~-i~~~al~~La~~s~gdlr~al~~Lekl~~y~~~~-It~~~V~~~l 243 (614)
T PRK14971 188 HLQYVASKEGIT-AEPEALNVIAQKADGGMRDALSIFDQVVSFTGGN-ITYKSVIENL 243 (614)
T ss_pred HHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCC-ccHHHHHHHh
Confidence 456666778874 8888888888887665655555554545556655 8888876554
No 146
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=30.40 E-value=1.7e+02 Score=27.67 Aligned_cols=54 Identities=15% Similarity=0.263 Sum_probs=38.0
Q ss_pred HHHHHHHhcCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHH
Q psy8542 67 VIVNMFQEAGIKNYDPRCVQQMLEFVN---NYTTTILEDSRVYANHAKKKTVDVEDIKLAIT 125 (182)
Q Consensus 67 lI~rIlk~~Gv~r~sp~v~~qLle~~~---ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~ 125 (182)
.+.++++..|+ .+++++...|.+.+. |.+-..++.+..|+ ++ .|+.+||+.++.
T Consensus 184 ~L~~i~~~egi-~i~~eal~~Ia~~s~GdlR~aln~Le~l~~~~---~~-~It~e~V~~~l~ 240 (472)
T PRK14962 184 RLQEVAEAEGI-EIDREALSFIAKRASGGLRDALTMLEQVWKFS---EG-KITLETVHEALG 240 (472)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhc---CC-CCCHHHHHHHHc
Confidence 44555556676 589999999888765 56666666655553 33 499999998885
No 147
>COG1378 Predicted transcriptional regulators [Transcription]
Probab=29.56 E-value=40 Score=29.13 Aligned_cols=26 Identities=15% Similarity=0.333 Sum_probs=22.6
Q ss_pred HHHHHHHHcCCCccChHHHHHHHHHH
Q psy8542 19 VIVNMFQEAGIKNYDPRCVQQMLEFV 44 (182)
Q Consensus 19 ~i~~il~~~gi~~yep~v~~qll~f~ 44 (182)
-+...|+.+|.++||-+|-.-|+.+.
T Consensus 4 ~~~~~L~~lGlt~yEa~vY~aLl~~g 29 (247)
T COG1378 4 ELEENLQKLGLTEYEAKVYLALLCLG 29 (247)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHHhC
Confidence 46789999999999999999998653
No 148
>smart00428 H3 Histone H3.
Probab=29.41 E-value=1.3e+02 Score=23.06 Aligned_cols=48 Identities=17% Similarity=0.333 Sum_probs=40.8
Q ss_pred HHHHHHHHHHcCC---CccChHHHHHHHHHHHhhhcccccccHhhhhhhhh
Q psy8542 17 AQVIVNMFQEAGI---KNYDPRCVQQMLEFVNNYTTTILEDSRVYANHARD 64 (182)
Q Consensus 17 a~~i~~il~~~gi---~~yep~v~~qll~f~yryt~~vL~DA~vys~hard 64 (182)
.|++..|..+..- =-|.+..+.-|=|.+=-|-.++++|+...+.|++.
T Consensus 36 ~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkR 86 (105)
T smart00428 36 QRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKR 86 (105)
T ss_pred HHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 5778888877632 15899999999999999999999999999999863
No 149
>PF12767 SAGA-Tad1: Transcriptional regulator of RNA polII, SAGA, subunit; InterPro: IPR024738 The yeast Spt-Ada-Gcn5-Acetyl (SAGA) transferase complex is a multifunctional coactivator involved in multiple cellular processes [], including regulation of transcription by RNA polymerase II [, ]. It is formed of five major modular subunits and shows a high degree of structural conservation to human TFTC and STAGA []. This entry represents Ada1 (known as Tada1 in higher eukaryotes), one of the subunits that constitute the SAGA core. It also functions as a component of the SALSA and SLIK complexes. ; GO: 0070461 SAGA-type complex
Probab=28.62 E-value=1.5e+02 Score=25.23 Aligned_cols=41 Identities=7% Similarity=0.101 Sum_probs=35.7
Q ss_pred HHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8542 67 VIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYA 107 (182)
Q Consensus 67 lI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA 107 (182)
-+..|+.+.|..-++.++++.|.--++.|..+|++.++..+
T Consensus 211 Rm~~ia~e~GL~gvs~~~a~ll~~ale~~LK~lI~s~l~~~ 251 (252)
T PF12767_consen 211 RMEQIAWEHGLGGVSDDCANLLNLALEVHLKNLIKSCLDLV 251 (252)
T ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 35566678999999999999999999999999999887654
No 150
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=28.45 E-value=2.3e+02 Score=28.59 Aligned_cols=54 Identities=15% Similarity=0.279 Sum_probs=40.5
Q ss_pred HHHHHHHhcCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHH
Q psy8542 67 VIVNMFQEAGIKNYDPRCVQQMLEFVN---NYTTTILEDSRVYANHAKKKTVDVEDIKLAIT 125 (182)
Q Consensus 67 lI~rIlk~~Gv~r~sp~v~~qLle~~~---ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~ 125 (182)
.+.+|++..|++ +++.+...|.+.+. |++...++.++.| |...|+.+||+..+.
T Consensus 186 ~L~~Il~kEgi~-id~eAL~~Ia~~A~GslRdAlnLLDqaia~----g~g~It~e~V~~lLG 242 (709)
T PRK08691 186 HLAHVLDSEKIA-YEPPALQLLGRAAAGSMRDALSLLDQAIAL----GSGKVAENDVRQMIG 242 (709)
T ss_pred HHHHHHHHcCCC-cCHHHHHHHHHHhCCCHHHHHHHHHHHHHh----cCCCcCHHHHHHHHc
Confidence 466677788874 89999999988876 5666677777766 345799988887764
No 151
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=28.18 E-value=2.7e+02 Score=25.54 Aligned_cols=59 Identities=17% Similarity=0.221 Sum_probs=40.9
Q ss_pred HHHHHHHhcCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHh
Q psy8542 67 VIVNMFQEAGIKNYDPRCVQQMLEFVN---NYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQ 127 (182)
Q Consensus 67 lI~rIlk~~Gv~r~sp~v~~qLle~~~---ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r 127 (182)
++.+.++..|+ .++++++..+.+.+. |....++.....++...|+ .|+.+.++.+++..
T Consensus 288 il~~~~~~~~~-~l~~e~l~~ia~~~~~~~R~l~~~l~~l~~~~~~~~~-~it~~~~~~~l~~~ 349 (450)
T PRK00149 288 ILKKKAEEEGI-DLPDEVLEFIAKNITSNVRELEGALNRLIAYASLTGK-PITLELAKEALKDL 349 (450)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHcCcCCCHHHHHHHHHHHHHHHHhhCC-CCCHHHHHHHHHHh
Confidence 34444444454 488999888888766 4555677777777776665 48888888888754
No 152
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=27.98 E-value=98 Score=29.05 Aligned_cols=37 Identities=14% Similarity=0.157 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHh
Q psy8542 91 FVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQ 127 (182)
Q Consensus 91 ~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r 127 (182)
+.-.-...++.+|...|...++..|+.+|++.|+...
T Consensus 388 ~sgAdI~~i~~eA~~~Alr~~r~~Vt~~D~~~A~~~v 424 (438)
T PTZ00361 388 LSGADIKAICTEAGLLALRERRMKVTQADFRKAKEKV 424 (438)
T ss_pred CCHHHHHHHHHHHHHHHHHhcCCccCHHHHHHHHHHH
Confidence 3334455788889999999999999999999999764
No 153
>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]
Probab=27.72 E-value=1.7e+02 Score=27.73 Aligned_cols=53 Identities=15% Similarity=0.246 Sum_probs=34.8
Q ss_pred HhcCCccc--ChHHHHHHHHHHHHHHHH-------HHHHHHHHhhhcCCCCCCHHHHHHHHH
Q psy8542 73 QEAGIKNY--DPRCVQQMLEFVNNYTTT-------ILEDSRVYANHAKKKTVDVEDIKLAIT 125 (182)
Q Consensus 73 k~~Gv~r~--sp~v~~qLle~~~ry~~~-------Vl~dA~~yA~HAgRktI~~eDVrLAI~ 125 (182)
+..|...+ +++......+.+.+..-+ +.+-|.+.|...||.+|+.+||+-|+.
T Consensus 259 ar~~l~~V~l~~~~~~~ia~~~~~~~v~g~radi~~~r~a~a~aa~~Gr~~v~~~Di~~a~~ 320 (423)
T COG1239 259 ARSLLSEVELDDDAETKIAELCARLAVDGHRADIVVVRAAKALAALRGRTEVEEEDIREAAE 320 (423)
T ss_pred HHhccccccCcHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHhcCceeeehhhHHHHHh
Confidence 45555553 333444444444443332 556677888899999999999999987
No 154
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=27.42 E-value=2.6e+02 Score=26.60 Aligned_cols=53 Identities=15% Similarity=0.329 Sum_probs=37.3
Q ss_pred HHHHHHHhcCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHhhhcCCCCCCHHHHHHHH
Q psy8542 67 VIVNMFQEAGIKNYDPRCVQQMLEFVN---NYTTTILEDSRVYANHAKKKTVDVEDIKLAI 124 (182)
Q Consensus 67 lI~rIlk~~Gv~r~sp~v~~qLle~~~---ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI 124 (182)
.+..+++..|++ +++.+...+.+.+. |.+...++.++.| |...|+.+||+..+
T Consensus 186 ~l~~il~~egi~-~~~~al~~ia~~s~GslR~al~lLdq~ia~----~~~~It~~~V~~~l 241 (509)
T PRK14958 186 HCQHLLKEENVE-FENAALDLLARAANGSVRDALSLLDQSIAY----GNGKVLIADVKTML 241 (509)
T ss_pred HHHHHHHHcCCC-CCHHHHHHHHHHcCCcHHHHHHHHHHHHhc----CCCCcCHHHHHHHH
Confidence 456678888875 78888888777764 4555566666554 45679999988765
No 155
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=27.24 E-value=1.8e+02 Score=27.81 Aligned_cols=57 Identities=9% Similarity=0.172 Sum_probs=37.1
Q ss_pred HHHHHHHHhcCCcccChHHHHHHHHHHHH---HHHHHHHHHHHHhhhcCCCCCCHHHHHHHH
Q psy8542 66 QVIVNMFQEAGIKNYDPRCVQQMLEFVNN---YTTTILEDSRVYANHAKKKTVDVEDIKLAI 124 (182)
Q Consensus 66 qlI~rIlk~~Gv~r~sp~v~~qLle~~~r---y~~~Vl~dA~~yA~HAgRktI~~eDVrLAI 124 (182)
..+..+++..|++ +++++...+.+.+.- .+...++.+..|+.- .+..|+.+||+..+
T Consensus 194 ~~L~~i~~~egi~-ie~eAL~~Ia~~s~GslR~al~~Ldkai~~~~~-~~~~It~~~V~~ll 253 (507)
T PRK06645 194 KLLEYITKQENLK-TDIEALRIIAYKSEGSARDAVSILDQAASMSAK-SDNIISPQVINQML 253 (507)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhcc-CCCCcCHHHHHHHH
Confidence 3566777777864 788888888887654 444445555555431 13469999888665
No 156
>PRK13610 photosystem II reaction center protein Psb28; Provisional
Probab=26.15 E-value=67 Score=25.13 Aligned_cols=22 Identities=9% Similarity=0.428 Sum_probs=19.0
Q ss_pred cChHHHHHHHHHHHHHHHHHHH
Q psy8542 80 YDPRCVQQMLEFVNNYTTTILE 101 (182)
Q Consensus 80 ~sp~v~~qLle~~~ry~~~Vl~ 101 (182)
-+++.-+.+|.|++||+.++.+
T Consensus 91 ~s~~~WdRFMRFMeRYA~~~~~ 112 (113)
T PRK13610 91 NSEEAFERFMRFASRYANSLSK 112 (113)
T ss_pred CCHHHHHHHHHHHHHHHHHhcc
Confidence 3788999999999999998754
No 157
>KOG2081|consensus
Probab=25.48 E-value=2.7e+02 Score=27.34 Aligned_cols=91 Identities=8% Similarity=0.057 Sum_probs=65.4
Q ss_pred chHHHHHHHHHHcCCCccChHHHHHHHHHHHhhhcccccc-cHhhhh--hhhhHHHHHHHHHhcCCcccChHHHHHHHHH
Q psy8542 15 RDAQVIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILED-SRVYAN--HARDAQVIVNMFQEAGIKNYDPRCVQQMLEF 91 (182)
Q Consensus 15 rda~~i~~il~~~gi~~yep~v~~qll~f~yryt~~vL~D-A~vys~--hardaqlI~rIlk~~Gv~r~sp~v~~qLle~ 91 (182)
-..++++++|-=.|=++| +|+..-+-|||+.+..+... ...+-. .|.-.++|..+.+..--..+....++..-+|
T Consensus 288 ~~l~~vellLl~~~h~~~--evie~SF~fW~~lse~l~~~~~~~~~~~frpy~~rLvs~l~~h~qlp~~~~~l~Ee~~~f 365 (559)
T KOG2081|consen 288 EFLRIVELLLLVAGHNDT--EVIEASFNFWYSLSEELTLTDDDEALGIFRPYFLRLVSLLKRHVQLPPDQFDLPEEESEF 365 (559)
T ss_pred cchhHHHHHHHhccCCch--hhhhhhHHhhhhhHHHHhccccHHHHHHhHHHHHHHHHHHHHHccCCCccccCccchhHH
Confidence 457888999999999999 89999999999999887663 333323 5778889999988876666555555544444
Q ss_pred H--HHHHHHHHHHHHHHh
Q psy8542 92 V--NNYTTTILEDSRVYA 107 (182)
Q Consensus 92 ~--~ry~~~Vl~dA~~yA 107 (182)
- ..-..++++|..-.-
T Consensus 366 ~~fR~~v~dvl~Dv~~ii 383 (559)
T KOG2081|consen 366 FEFRLKVGDVLKDVAFII 383 (559)
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 2 234677888876553
No 158
>COG5624 TAF61 Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=25.44 E-value=11 Score=35.78 Aligned_cols=53 Identities=19% Similarity=0.263 Sum_probs=47.1
Q ss_pred CcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHhcC
Q psy8542 77 IKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQLS 129 (182)
Q Consensus 77 v~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r~~ 129 (182)
-+-++++|-+.|++.+-.+...|-.=|..||.|.+-+|+++-|+.|=++...+
T Consensus 400 eekie~eveelll~~ad~fve~vt~FsCrlakhrkSdtlevrD~qlhlErnwn 452 (505)
T COG5624 400 EEKIENEVEELLLSRADGFVEPVTEFSCRLAKHRKSDTLEVRDGQLHLERNWN 452 (505)
T ss_pred ceeccchHHHHHHhhhcccccccchheeEeeccCCCCceeeccceeeeccccc
Confidence 35588999999999999999999999999999999999999999988876543
No 159
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=25.43 E-value=2.3e+02 Score=25.35 Aligned_cols=53 Identities=9% Similarity=0.203 Sum_probs=33.5
Q ss_pred HHHHHHHhcCCcccChHHHHHHHHHHHH---HHHHHHHHHHHHhhhcCCCCCCHHHHHHHH
Q psy8542 67 VIVNMFQEAGIKNYDPRCVQQMLEFVNN---YTTTILEDSRVYANHAKKKTVDVEDIKLAI 124 (182)
Q Consensus 67 lI~rIlk~~Gv~r~sp~v~~qLle~~~r---y~~~Vl~dA~~yA~HAgRktI~~eDVrLAI 124 (182)
.+..+++..|+ .+++++...+.+.+.. .+...++.+..| |+..|+.+||+.++
T Consensus 186 ~L~~~~~~~g~-~i~~~al~~ia~~s~G~~R~al~~l~~~~~~----~~~~It~~~v~~~l 241 (363)
T PRK14961 186 FLKYILIKESI-DTDEYALKLIAYHAHGSMRDALNLLEHAINL----GKGNINIKNVTDML 241 (363)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh----cCCCCCHHHHHHHH
Confidence 45555666664 4788888777777643 333444444433 56789999998765
No 160
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=25.18 E-value=2e+02 Score=27.84 Aligned_cols=54 Identities=11% Similarity=0.210 Sum_probs=37.9
Q ss_pred HHHHHHHhcCCcccChHHHHHHHHHHHH---HHHHHHHHHHHHhhhcCCCCCCHHHHHHHHH
Q psy8542 67 VIVNMFQEAGIKNYDPRCVQQMLEFVNN---YTTTILEDSRVYANHAKKKTVDVEDIKLAIT 125 (182)
Q Consensus 67 lI~rIlk~~Gv~r~sp~v~~qLle~~~r---y~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~ 125 (182)
.+.++++..|+ .+++.+...+.+.+.- .+-..++.++.| .| +.|+.+||+.++.
T Consensus 186 ~L~~il~~egi-~~e~~Al~~Ia~~s~GdlR~alnlLek~i~~---~~-~~It~~~V~~~l~ 242 (546)
T PRK14957 186 QLKIILAKENI-NSDEQSLEYIAYHAKGSLRDALSLLDQAISF---CG-GELKQAQIKQMLG 242 (546)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh---cc-CCCCHHHHHHHHc
Confidence 45667777786 5889999988888764 444555555554 34 5799999987664
No 161
>PRK13531 regulatory ATPase RavA; Provisional
Probab=25.10 E-value=3.3e+02 Score=26.34 Aligned_cols=28 Identities=11% Similarity=0.044 Sum_probs=22.8
Q ss_pred HHHHHHHHHhhhcCCCCCCHHHHHHHHH
Q psy8542 98 TILEDSRVYANHAKKKTVDVEDIKLAIT 125 (182)
Q Consensus 98 ~Vl~dA~~yA~HAgRktI~~eDVrLAI~ 125 (182)
.+++-|.++|--.||..|+.+||+++.-
T Consensus 255 ~l~~~akA~A~l~GR~~V~p~Dv~ll~~ 282 (498)
T PRK13531 255 KAIRLLQASAFFSGRDAIAPIDLILLKD 282 (498)
T ss_pred HHHHHHHHHHHHCCCCCCCHHHHHHhHH
Confidence 4556678888899999999999996554
No 162
>TIGR00153 conserved hypothetical protein TIGR00153. An apparent homolog with a suggested function is Pit accessory protein from Sinorhizobium meliloti, which may be involved in phosphate (Pi) transport.
Probab=24.82 E-value=88 Score=25.85 Aligned_cols=30 Identities=20% Similarity=0.138 Sum_probs=27.1
Q ss_pred CHHHHHHHHHHhcCCCCCCCCChhhhhccc
Q psy8542 116 DVEDIKLAITNQLSGSFAKPPPRESKGSGQ 145 (182)
Q Consensus 116 ~~eDVrLAI~~r~~~~F~~pppke~Ll~lA 145 (182)
.+|+++.-|...+..+|..|-.||.++.++
T Consensus 58 eaD~i~~~i~~~L~~~fitP~dReDi~~L~ 87 (216)
T TIGR00153 58 EADEIKREIRLNLEKGAFLPNDRRDLLELA 87 (216)
T ss_pred HHHHHHHHHHHhCcccccCcCcHHHHHHHH
Confidence 368999999999999999999999999985
No 163
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=24.57 E-value=2.5e+02 Score=24.90 Aligned_cols=33 Identities=15% Similarity=0.267 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHH
Q psy8542 94 NYTTTILEDSRVYANHAKKKTVDVEDIKLAITN 126 (182)
Q Consensus 94 ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~ 126 (182)
+-...+..+|...|-..++..|+.+|+..|+..
T Consensus 330 ~dl~~l~~~A~~~a~~~~~~~i~~~d~~~a~~~ 362 (364)
T TIGR01242 330 ADLKAICTEAGMFAIREERDYVTMDDFIKAVEK 362 (364)
T ss_pred HHHHHHHHHHHHHHHHhCCCccCHHHHHHHHHH
Confidence 344577788888888889999999999999975
No 164
>PTZ00018 histone H3; Provisional
Probab=24.54 E-value=2e+02 Score=23.14 Aligned_cols=55 Identities=20% Similarity=0.363 Sum_probs=44.0
Q ss_pred HHHHHHHHHHcCCC-ccChHHHHHHHHHHHhhhcccccccHhhhhhhh-------hHHHHHHH
Q psy8542 17 AQVIVNMFQEAGIK-NYDPRCVQQMLEFVNNYTTTILEDSRVYANHAR-------DAQVIVNM 71 (182)
Q Consensus 17 a~~i~~il~~~gi~-~yep~v~~qll~f~yryt~~vL~DA~vys~har-------daqlI~rI 71 (182)
.|++..|..+.+-. -|.+.++.-|=|-+=-|-.+.++|+...+-|++ |.+++.+|
T Consensus 69 ~RLVREI~~~~~~~~rf~~~al~aLQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~ri 131 (136)
T PTZ00018 69 QRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRI 131 (136)
T ss_pred HHHHHHHHHHcCCcceeeHHHHHHHHHHHHHHHHHHhhhhHHHHHhhcceecchhhHHHHHHh
Confidence 46777777765211 589999999999999999999999999999976 55555554
No 165
>KOG3871|consensus
Probab=24.44 E-value=85 Score=29.52 Aligned_cols=45 Identities=16% Similarity=0.402 Sum_probs=35.7
Q ss_pred HHHHHHHhhhcccccccHhhhhhhhhHHHHHHHHHhcCCcccChHHHHHHHHHH
Q psy8542 39 QMLEFVNNYTTTILEDSRVYANHARDAQVIVNMFQEAGIKNYDPRCVQQMLEFV 92 (182)
Q Consensus 39 qll~f~yryt~~vL~DA~vys~hardaqlI~rIlk~~Gv~r~sp~v~~qLle~~ 92 (182)
-||.|+-||-.++.+|-. ..+..+++..|...++|++..+|+.-+
T Consensus 383 slLtf~QRYK~di~~eqk---------daLlellr~~~H~~i~PEIrREL~~~~ 427 (449)
T KOG3871|consen 383 SLLTFAQRYKNDITQEQK---------DALLELLRLQGHYLIGPEIRRELLASA 427 (449)
T ss_pred HHHHHHHHHhhhcCHHHH---------HHHHHHHHhcCCCcCCHHHHHHHHhcc
Confidence 378899999888876532 346788899999999999999887653
No 166
>PF08369 PCP_red: Proto-chlorophyllide reductase 57 kD subunit; InterPro: IPR013580 This domain is found in bacteria and plant chloroplast proteins. It often appears at the C-terminal of nitrogenase component 1 type oxidoreductases (IPR000510 from INTERPRO) and sometimes independently in bacterial proteins such as the proto-chlorophyllide reductase subunit B of the cyanobacterium Synechocystis. This domain is also associated with chlorophyllide reductase subunit Z, converts chlorophylls (Chl) into bacteriochlorophylls (BChl) by reducing ring B of the tetrapyrrole.; GO: 0016491 oxidoreductase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process, 0055114 oxidation-reduction process; PDB: 2KRU_A 2L09_A.
Probab=24.18 E-value=93 Score=20.05 Aligned_cols=23 Identities=22% Similarity=0.316 Sum_probs=15.7
Q ss_pred HHHHHHhhhcCCCCCCHHHHHHH
Q psy8542 101 EDSRVYANHAKKKTVDVEDIKLA 123 (182)
Q Consensus 101 ~dA~~yA~HAgRktI~~eDVrLA 123 (182)
+.+-.||...|...||.+.|.-|
T Consensus 22 ~~~E~~Ar~~G~~~IT~e~v~~A 44 (45)
T PF08369_consen 22 DAAEKYARERGYDEITVEVVDAA 44 (45)
T ss_dssp HHHHHHHHHCT-SEE-HHHHHHH
T ss_pred HHHHHHHHHcCCCeECHHHHHhh
Confidence 34556788889999999888654
No 167
>PF09413 DUF2007: Domain of unknown function (DUF2007); InterPro: IPR018551 This is a family of proteins with unknown function. ; PDB: 2HFV_A.
Probab=23.66 E-value=55 Score=21.79 Aligned_cols=20 Identities=30% Similarity=0.637 Sum_probs=14.8
Q ss_pred CchHHHHHHHHHHcCCCccC
Q psy8542 14 PRDAQVIVNMFQEAGIKNYD 33 (182)
Q Consensus 14 prda~~i~~il~~~gi~~ye 33 (182)
|=+|.+|..+|++-||..|-
T Consensus 9 ~~ea~~i~~~L~~~gI~~~v 28 (67)
T PF09413_consen 9 PIEAELIKGLLEENGIPAFV 28 (67)
T ss_dssp HHHHHHHHHHHHHTT--EE-
T ss_pred HHHHHHHHHHHHhCCCcEEE
Confidence 45789999999999998764
No 168
>PLN00121 histone H3; Provisional
Probab=22.80 E-value=2.2e+02 Score=22.91 Aligned_cols=55 Identities=20% Similarity=0.363 Sum_probs=44.5
Q ss_pred HHHHHHHHHHcCCC-ccChHHHHHHHHHHHhhhcccccccHhhhhhhh-------hHHHHHHH
Q psy8542 17 AQVIVNMFQEAGIK-NYDPRCVQQMLEFVNNYTTTILEDSRVYANHAR-------DAQVIVNM 71 (182)
Q Consensus 17 a~~i~~il~~~gi~-~yep~v~~qll~f~yryt~~vL~DA~vys~har-------daqlI~rI 71 (182)
.|++..|..+.+-. -|.+.++.-|=|-+=-|-.+.++|+..-+-|++ |.+++.+|
T Consensus 69 ~RLVREI~~~~~~~~Rf~~~Al~ALQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~ri 131 (136)
T PLN00121 69 QRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRI 131 (136)
T ss_pred HHHHHHHHHHhCccceeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcceecchhhHHHHHHh
Confidence 47778888776322 589999999999999999999999999999976 55555554
No 169
>PF04037 DUF382: Domain of unknown function (DUF382) ; InterPro: IPR007180 This domain is specific to the human splicing factor 3b subunit 2 and its orthologs.; GO: 0005634 nucleus
Probab=22.69 E-value=68 Score=25.63 Aligned_cols=23 Identities=13% Similarity=0.098 Sum_probs=18.3
Q ss_pred CCChhhhhccccccCCcccccCCCCCCCC
Q psy8542 135 PPPRESKGSGQAGAMGSNAHNKAPLTKGA 163 (182)
Q Consensus 135 pppke~Ll~lA~~~~~~~~~N~~pLP~~~ 163 (182)
.+.-.+|..+= ..+|.+|.|.+|
T Consensus 14 a~DP~lLv~lK------s~rNtVPVP~HW 36 (129)
T PF04037_consen 14 APDPRLLVHLK------SYRNTVPVPRHW 36 (129)
T ss_pred CCChHHHHHHH------hcCCCCCCCcch
Confidence 45566788875 699999999877
No 170
>PF13702 Lysozyme_like: Lysozyme-like
Probab=22.56 E-value=2.1e+02 Score=23.44 Aligned_cols=23 Identities=22% Similarity=0.326 Sum_probs=16.9
Q ss_pred HHHHHHHHcCCCccChHHHHHHH
Q psy8542 19 VIVNMFQEAGIKNYDPRCVQQML 41 (182)
Q Consensus 19 ~i~~il~~~gi~~yep~v~~qll 41 (182)
+|...+++-||.+|.+=+.-.++
T Consensus 11 ~V~k~a~e~gi~~yv~liLAim~ 33 (160)
T PF13702_consen 11 MVEKYAKEYGIPEYVNLILAIMM 33 (160)
T ss_pred HHHHHHHHcCChhhHHHHHHHHH
Confidence 56778888999998776555544
No 171
>PRK06893 DNA replication initiation factor; Validated
Probab=22.51 E-value=4.5e+02 Score=21.72 Aligned_cols=57 Identities=12% Similarity=0.116 Sum_probs=35.6
Q ss_pred HHHHHHHhcCCcccChHHHHHHHHHHHH---HHHHHHHHHHHHhhhcCCCCCCHHHHHHHHH
Q psy8542 67 VIVNMFQEAGIKNYDPRCVQQMLEFVNN---YTTTILEDSRVYANHAKKKTVDVEDIKLAIT 125 (182)
Q Consensus 67 lI~rIlk~~Gv~r~sp~v~~qLle~~~r---y~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~ 125 (182)
++.+.+...|+ ..+++++..|.+.+.+ ....+++.-...+-..+| .||.+.|+..+.
T Consensus 169 iL~~~a~~~~l-~l~~~v~~~L~~~~~~d~r~l~~~l~~l~~~~~~~~~-~it~~~v~~~L~ 228 (229)
T PRK06893 169 VLQRNAYQRGI-ELSDEVANFLLKRLDRDMHTLFDALDLLDKASLQAQR-KLTIPFVKEILG 228 (229)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhcCC-CCCHHHHHHHhc
Confidence 33444445564 5899999999998874 444555543222222244 699999987763
No 172
>KOG1038|consensus
Probab=22.47 E-value=86 Score=32.66 Aligned_cols=65 Identities=15% Similarity=0.244 Sum_probs=46.7
Q ss_pred CccChHHH------HHHHHHHHhhhcc--cccccHhhhhhhhhHHHHHHHHHhcCCcccChHHHHHHHHHHHH
Q psy8542 30 KNYDPRCV------QQMLEFVNNYTTT--ILEDSRVYANHARDAQVIVNMFQEAGIKNYDPRCVQQMLEFVNN 94 (182)
Q Consensus 30 ~~yep~v~------~qll~f~yryt~~--vL~DA~vys~hardaqlI~rIlk~~Gv~r~sp~v~~qLle~~~r 94 (182)
+.|.|.-| ||||.-.+=+-.. --..=.-|..||-|+..+-+|+++.=|+=+|....+.|+|+.+.
T Consensus 975 taFPPNFIHSLD~SHMmmTal~C~rqGl~FasVHDsyWTHAcDVd~MN~ilREqFV~Lhs~pIle~L~e~f~~ 1047 (1088)
T KOG1038|consen 975 TAFPPNFIHSLDGSHMMMTALACERQGLTFASVHDSYWTHACDVDVMNRILREQFVELHSQPILERLLESFEK 1047 (1088)
T ss_pred ccCCCchhhcccchHHHHHHHHHHhcCCceeeeecchhccccchHHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence 34555555 4666554433222 22334469999999999999999999999999999999987654
No 173
>cd00684 Terpene_cyclase_plant_C1 Plant Terpene Cyclases, Class 1. This CD includes a diverse group of monomeric plant terpene cyclases (Tspa-Tspf) that convert the acyclic isoprenoid diphosphates, geranyl diphosphate (GPP), farnesyl diphosphate (FPP), or geranylgeranyl diphosphate (GGPP) into cyclic monoterpenes, diterpenes, or sesquiterpenes, respectively; a few form acyclic species. Terpnoid cyclases are soluble enzymes localized to the cytosol (sesquiterpene synthases) or plastids (mono- and diterpene synthases). All monoterpene and diterpene synthases have restrict substrate specificity, however, some sesquiterpene synthases can accept both FPP and GPP. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions located on opposite walls. These residues mediate binding of prenyl diphosphates, via bridging Mg2+ ions (K+ preferred by gymnosperm cyclases), inducing conformational changes such that an N-terminal regi
Probab=22.36 E-value=2.8e+02 Score=26.47 Aligned_cols=64 Identities=13% Similarity=0.234 Sum_probs=44.1
Q ss_pred HHHHHcCCCccChHHHHHHHHHHHhhhcccccccHhhhhhhhhHHHHHHHHHhcCCcccChHHHHHHH
Q psy8542 22 NMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHARDAQVIVNMFQEAGIKNYDPRCVQQML 89 (182)
Q Consensus 22 ~il~~~gi~~yep~v~~qll~f~yryt~~vL~DA~vys~hardaqlI~rIlk~~Gv~r~sp~v~~qLl 89 (182)
-.|..+||.-|=..=|.+.|+-.||+-.+-- ++. ...-.++.+.=|+|+..|.. +|++|...+.
T Consensus 61 D~lqrLGi~~hF~~EI~~~L~~i~~~~~~~~-~~~--~~dl~~~al~FRlLR~~Gy~-vs~dvf~~F~ 124 (542)
T cd00684 61 DRLQRLGISYHFEDEIKEILDYIYRYWTERG-ESN--EDDLYTTALGFRLLRQHGYN-VSSDVFKKFK 124 (542)
T ss_pred HHHHHcCchhhhHHHHHHHHHHHHHhhcccc-ccc--CCCHHHHHHHHHHHHHcCCC-cCHHHHhhhc
Confidence 3478899999888999999999999743211 010 12334566777888888875 5677766554
No 174
>KOG3341|consensus
Probab=22.31 E-value=5.2e+02 Score=22.76 Aligned_cols=81 Identities=16% Similarity=0.208 Sum_probs=53.4
Q ss_pred HHHHHHhhhcccccccHhhhhhhhhHHHHHHHHHhcCCcccChH----H-HHHHHHHHHHHHHHHHHHHHHHhhhcC---
Q psy8542 40 MLEFVNNYTTTILEDSRVYANHARDAQVIVNMFQEAGIKNYDPR----C-VQQMLEFVNNYTTTILEDSRVYANHAK--- 111 (182)
Q Consensus 40 ll~f~yryt~~vL~DA~vys~hardaqlI~rIlk~~Gv~r~sp~----v-~~qLle~~~ry~~~Vl~dA~~yA~HAg--- 111 (182)
|-|||-++.+++=+++.--+ .-..|..+-|+...... + ..-+-||-|.-.-.|++-+..--.+.|
T Consensus 45 LeeFA~kH~~ei~knsqFR~-------~Fq~Mca~IGvDPlas~kgfw~~~lgvgdFYYelgVqviEvC~at~~~nGGli 117 (249)
T KOG3341|consen 45 LEEFARKHKTEIRKNSQFRN-------QFQEMCASIGVDPLASGKGFWAELLGVGDFYYELGVQVIEVCLATKHTNGGLI 117 (249)
T ss_pred HHHHHHHHHHHHhhCHHHHH-------HHHHHHHHcCCCccccCcchHHHHhhhHHHHHHHhhHHHHHHHHhhcccCCee
Confidence 55788887777665544321 23445666777653322 2 445668888888888887776655544
Q ss_pred ----------------CCCCCHHHHHHHHHHh
Q psy8542 112 ----------------KKTVDVEDIKLAITNQ 127 (182)
Q Consensus 112 ----------------RktI~~eDVrLAI~~r 127 (182)
+.+|+.+|+..||.+.
T Consensus 118 slqel~~~l~~~R~~~~e~vt~dD~lrAi~kL 149 (249)
T KOG3341|consen 118 SLQELCNHLLQRRKKDHEAVTEDDLLRAIDKL 149 (249)
T ss_pred eHHHHHHHHHHHhcccchhccHHHHHHHHHHh
Confidence 3469999999999875
No 175
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=22.16 E-value=4e+02 Score=26.45 Aligned_cols=53 Identities=11% Similarity=0.298 Sum_probs=34.9
Q ss_pred HHHHHHHhcCCcccChHHHHHHHHHHHH---HHHHHHHHHHHHhhhcCCCCCCHHHHHHHH
Q psy8542 67 VIVNMFQEAGIKNYDPRCVQQMLEFVNN---YTTTILEDSRVYANHAKKKTVDVEDIKLAI 124 (182)
Q Consensus 67 lI~rIlk~~Gv~r~sp~v~~qLle~~~r---y~~~Vl~dA~~yA~HAgRktI~~eDVrLAI 124 (182)
.+..+++..|++ +++++...+.+++.- ++-.+|+.+ + ..|.+.|+.++|+.++
T Consensus 186 ~L~~il~~egi~-id~eal~lIA~~s~GdlR~Al~lLeql---l-~~g~~~It~d~V~~~l 241 (624)
T PRK14959 186 HLTKVLGREGVD-YDPAAVRLIARRAAGSVRDSMSLLGQV---L-ALGESRLTIDGARGVL 241 (624)
T ss_pred HHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHH---H-HhcCCCcCHHHHHHHh
Confidence 344555566764 899999988888764 444455443 2 2366689999887665
No 176
>PF00585 Thr_dehydrat_C: C-terminal regulatory domain of Threonine dehydratase; InterPro: IPR001721 Threonine dehydratases including Serine/threonine dehydratase (see IPR001926 from INTERPRO) contain a common C-terminal region that may have a regulatory role. Some members contain two copies of this region [].; GO: 0004794 L-threonine ammonia-lyase activity, 0009097 isoleucine biosynthetic process; PDB: 1TDJ_A 3IAU_A.
Probab=22.06 E-value=14 Score=27.03 Aligned_cols=37 Identities=22% Similarity=0.374 Sum_probs=20.5
Q ss_pred HHHHHHhhhcccccccHhhhhh----hhhHHHHHHHHHhcCCc
Q psy8542 40 MLEFVNNYTTTILEDSRVYANH----ARDAQVIVNMFQEAGIK 78 (182)
Q Consensus 40 ll~f~yryt~~vL~DA~vys~h----ardaqlI~rIlk~~Gv~ 78 (182)
.-+|.|||++. .+|.++-.- +.+.+.+..-|++.|..
T Consensus 37 ITeF~YR~~~~--~~a~vlvgi~v~~~~~~~~l~~~L~~~gy~ 77 (91)
T PF00585_consen 37 ITEFHYRYSGD--DFARVLVGIEVPDAEDLEELIERLKALGYP 77 (91)
T ss_dssp EEEEEEE-TTT--SCSEEEEEEE-SSTHHHHHHHHHHTSSS-E
T ss_pred EEEEEEcCCCC--CeeeEEEEEEeCCHHHHHHHHHHHHHcCCC
Confidence 45799999988 555554221 23334555556666654
No 177
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=21.77 E-value=4.1e+02 Score=28.33 Aligned_cols=64 Identities=14% Similarity=0.069 Sum_probs=45.6
Q ss_pred hhhhHHHHHHHHHh-c--CCcccChHHHHHHHHHHH------HHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHh
Q psy8542 61 HARDAQVIVNMFQE-A--GIKNYDPRCVQQMLEFVN------NYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQ 127 (182)
Q Consensus 61 hardaqlI~rIlk~-~--Gv~r~sp~v~~qLle~~~------ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r 127 (182)
.|.+..-+..||+. + +-.-++++|+..+.+++- |.+-++++-|... ++...|+.+||+.|+...
T Consensus 934 ~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAgEi---kegskVT~eHVrkAleei 1006 (1164)
T PTZ00112 934 SPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAFEN---KRGQKIVPRDITEATNQL 1006 (1164)
T ss_pred CCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHHhh---cCCCccCHHHHHHHHHHH
Confidence 57777777777753 1 223588999888877544 5677778777764 455689999999998643
No 178
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=21.51 E-value=4.2e+02 Score=24.74 Aligned_cols=62 Identities=8% Similarity=0.182 Sum_probs=40.4
Q ss_pred HHHHHHHHhcCCc-ccChHHHHHHHHHHHHH---HHHHHHHHHHHhhhcC-CCCCCHHHHHHHHHHh
Q psy8542 66 QVIVNMFQEAGIK-NYDPRCVQQMLEFVNNY---TTTILEDSRVYANHAK-KKTVDVEDIKLAITNQ 127 (182)
Q Consensus 66 qlI~rIlk~~Gv~-r~sp~v~~qLle~~~ry---~~~Vl~dA~~yA~HAg-RktI~~eDVrLAI~~r 127 (182)
+++.+.++..|.. .++++++..|.+.+..- ...++.....++...+ ++.|+.+.|+.+++..
T Consensus 282 ~iL~~~~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL~~l~~~a~~~~~~~~it~~~v~~~l~~~ 348 (450)
T PRK14087 282 AIIKKEIKNQNIKQEVTEEAINFISNYYSDDVRKIKGSVSRLNFWSQQNPEEKIITIEIVSDLFRDI 348 (450)
T ss_pred HHHHHHHHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHHHHHHHHHhcccCCCCCCHHHHHHHHhhc
Confidence 3455555566763 68999999888887744 4444445444444332 3679999999888754
No 179
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=21.18 E-value=3e+02 Score=27.08 Aligned_cols=57 Identities=9% Similarity=0.100 Sum_probs=39.5
Q ss_pred HHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHhhhc---C-CCCCCHHHHHHHH
Q psy8542 67 VIVNMFQEAGIKNYDPRCVQQMLEFVNNYTTTILEDSRVYANHA---K-KKTVDVEDIKLAI 124 (182)
Q Consensus 67 lI~rIlk~~Gv~r~sp~v~~qLle~~~ry~~~Vl~dA~~yA~HA---g-RktI~~eDVrLAI 124 (182)
.+.++++..|++ +++++...|.+.+.-....++..-.....++ | ++.|+.+||...+
T Consensus 194 ~L~~i~~~egi~-I~~eal~~La~~s~Gdlr~al~eLeKL~~y~~~~~~~~~It~~~V~~lv 254 (620)
T PRK14954 194 QLQMICRAEGIQ-IDADALQLIARKAQGSMRDAQSILDQVIAFSVGSEAEKVIAYQGVAELL 254 (620)
T ss_pred HHHHHHHHcCCC-CCHHHHHHHHHHhCCCHHHHHHHHHHHHHhccccccCCccCHHHHHHHH
Confidence 455566666754 8999999998888776666666554444454 2 6789999886654
No 180
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=20.85 E-value=3e+02 Score=25.71 Aligned_cols=53 Identities=9% Similarity=0.151 Sum_probs=31.7
Q ss_pred HHHHHHHhcCCcccChHHHHHHHHHHHH---HHHHHHHHHHHHhhhcCCCCCCHHHHHHHH
Q psy8542 67 VIVNMFQEAGIKNYDPRCVQQMLEFVNN---YTTTILEDSRVYANHAKKKTVDVEDIKLAI 124 (182)
Q Consensus 67 lI~rIlk~~Gv~r~sp~v~~qLle~~~r---y~~~Vl~dA~~yA~HAgRktI~~eDVrLAI 124 (182)
.+..+++..|++ +++++...|.+.+.. .+...++....| .| +.|+.+||..++
T Consensus 188 ~L~~~~~~eg~~-i~~~al~~L~~~s~gdlr~a~~~Lekl~~~---~~-~~It~~~V~~l~ 243 (451)
T PRK06305 188 KLALIAKQEGIE-TSREALLPIARAAQGSLRDAESLYDYVVGL---FP-KSLDPDSVAKAL 243 (451)
T ss_pred HHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHh---cc-CCcCHHHHHHHH
Confidence 344455556665 688888888877743 333344443333 33 348988887655
No 181
>PF07261 DnaB_2: Replication initiation and membrane attachment; InterPro: IPR006343 This entry represents a domain found in several bacterial replication initiation and membrane attachment proteins, DnaB and DnaD. The DnaD protein is a component of the PriA primosome. The PriA primosome functions to recruit the replication fork helicase onto the DNA []. Members, both chromosomal or phage-associated, are found in the Bacillus/Clostridium group of Gram-positive bacteria []. The DnaB protein is essential for both replication initiation and membrane attachment of the origin region of the chromosome and Plasmid pUB110 in Bacillus subtilis. It is known that there are two different classes (DnaBI and DnaBII) in the DnaB mutants; DnaBI is essential for both chromosome and pUB110 replication, whereas DnaBII is necessary only for chromosome replication []. This domain tends to be found towards the C terminus of DnaB and DnaD proteins and is alpha helical in nature.; PDB: 2I5U_A 2ZC2_A.
Probab=20.72 E-value=2.7e+02 Score=18.55 Aligned_cols=44 Identities=9% Similarity=0.360 Sum_probs=32.6
Q ss_pred HHHhcCCcccChHHHHHHHHHHH--HHHHHHHHHHHHHhhhcCCCC
Q psy8542 71 MFQEAGIKNYDPRCVQQMLEFVN--NYTTTILEDSRVYANHAKKKT 114 (182)
Q Consensus 71 Ilk~~Gv~r~sp~v~~qLle~~~--ry~~~Vl~dA~~yA~HAgRkt 114 (182)
.++..+....+|.....|.++.. .+..+++..|+.||--.|+.+
T Consensus 4 ~~e~~~~~~~s~~e~~~l~~~~~~~~~~~~~v~~ai~~~~~~~~~~ 49 (77)
T PF07261_consen 4 FYEKNFGRPPSPSEIEKLEKWIDDYGFSPEVVNEAIEYALENNKRS 49 (77)
T ss_dssp HHHCCCTSS--HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCT--S
T ss_pred HHHHHcCCCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCC
Confidence 34455567789999999999999 999999999999998555544
No 182
>TIGR02903 spore_lon_C ATP-dependent protease, Lon family. Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.
Probab=20.66 E-value=2e+02 Score=27.95 Aligned_cols=60 Identities=17% Similarity=0.238 Sum_probs=40.6
Q ss_pred HHHHHHHhcCCcccChHHHHHHHHHHH--HHHHHHHHHHHHHhh--------hcCCCCCCHHHHHHHHHHh
Q psy8542 67 VIVNMFQEAGIKNYDPRCVQQMLEFVN--NYTTTILEDSRVYAN--------HAKKKTVDVEDIKLAITNQ 127 (182)
Q Consensus 67 lI~rIlk~~Gv~r~sp~v~~qLle~~~--ry~~~Vl~dA~~yA~--------HAgRktI~~eDVrLAI~~r 127 (182)
++.+++...|+. +++++...|.++.. |.+-.+|+++..++- ..++..|+.+||+.+++..
T Consensus 361 Il~~~a~~~~v~-ls~eal~~L~~ys~~gRraln~L~~~~~~~~~~~~~~~~~~~~~~I~~edv~~~l~~~ 430 (615)
T TIGR02903 361 IVLNAAEKINVH-LAAGVEELIARYTIEGRKAVNILADVYGYALYRAAEAGKENDKVTITQDDVYEVIQIS 430 (615)
T ss_pred HHHHHHHHcCCC-CCHHHHHHHHHCCCcHHHHHHHHHHHHHHHHHHHHHhccCCCCeeECHHHHHHHhCCC
Confidence 555555556653 78888777776542 556678888877752 1123479999999999854
No 183
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=20.42 E-value=3.3e+02 Score=24.69 Aligned_cols=36 Identities=19% Similarity=0.246 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHh
Q psy8542 92 VNNYTTTILEDSRVYANHAKKKTVDVEDIKLAITNQ 127 (182)
Q Consensus 92 ~~ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI~~r 127 (182)
.-.-...+..+|...|-..++..|+.+|+..|+...
T Consensus 337 sgadl~~l~~eA~~~a~~~~~~~i~~~d~~~A~~~~ 372 (389)
T PRK03992 337 SGADLKAICTEAGMFAIRDDRTEVTMEDFLKAIEKV 372 (389)
T ss_pred CHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHH
Confidence 335567788888888888889999999999999864
No 184
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=20.37 E-value=3e+02 Score=26.05 Aligned_cols=53 Identities=11% Similarity=0.319 Sum_probs=36.3
Q ss_pred HHHHHHHhcCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHhhhcCCCCCCHHHHHHHH
Q psy8542 67 VIVNMFQEAGIKNYDPRCVQQMLEFVN---NYTTTILEDSRVYANHAKKKTVDVEDIKLAI 124 (182)
Q Consensus 67 lI~rIlk~~Gv~r~sp~v~~qLle~~~---ry~~~Vl~dA~~yA~HAgRktI~~eDVrLAI 124 (182)
.+..+++..|+ .+++++...|.+.+. |.+...++.+..| +...|+.++|+..+
T Consensus 186 ~L~~i~k~egi-~id~~al~~La~~s~G~lr~al~~Ldkl~~~----~~~~It~~~V~~~l 241 (486)
T PRK14953 186 YLKRICNEEKI-EYEEKALDLLAQASEGGMRDAASLLDQASTY----GEGKVTIKVVEEFL 241 (486)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh----cCCCcCHHHHHHHh
Confidence 56667777887 478899888888764 4444555555544 24468888888765
Done!