Query 016189
Match_columns 393
No_of_seqs 154 out of 326
Neff 6.5
Searched_HMMs 46136
Date Fri Mar 29 04:36:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016189.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016189hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2549 Transcription initiati 100.0 4E-110 8E-115 843.2 34.1 381 2-383 9-418 (576)
2 COG5095 TAF6 Transcription ini 100.0 1E-105 3E-110 760.6 24.9 378 2-382 4-403 (450)
3 cd08050 TAF6 TATA Binding Prot 100.0 2.4E-98 5E-103 747.0 33.1 333 5-338 1-343 (343)
4 PF07571 DUF1546: Protein of u 100.0 9.9E-32 2.1E-36 219.9 5.9 91 259-349 1-92 (92)
5 PF02969 TAF: TATA box binding 99.9 5.4E-26 1.2E-30 173.7 8.3 66 1-66 1-66 (66)
6 smart00803 TAF TATA box bindin 99.8 5.1E-21 1.1E-25 146.6 8.9 65 2-66 1-65 (65)
7 cd00076 H4 Histone H4, one of 99.6 6.1E-16 1.3E-20 124.2 9.3 74 2-76 12-85 (85)
8 PLN00035 histone H4; Provision 99.6 1.3E-15 2.8E-20 125.9 9.5 75 2-77 28-102 (103)
9 PTZ00015 histone H4; Provision 99.6 3.4E-15 7.4E-20 123.4 9.3 73 3-76 30-102 (102)
10 smart00417 H4 Histone H4. 99.2 1.7E-11 3.7E-16 95.9 6.7 62 3-64 13-74 (74)
11 COG2036 HHT1 Histones H3 and H 99.1 1.1E-10 2.4E-15 94.8 7.0 70 2-71 18-87 (91)
12 cd07979 TAF9 TATA Binding Prot 99.0 4E-09 8.7E-14 90.1 9.5 96 6-119 4-100 (117)
13 KOG3467 Histone H4 [Chromatin 98.9 1.1E-08 2.4E-13 81.1 8.0 74 3-77 29-102 (103)
14 smart00576 BTP Bromodomain tra 98.6 1.7E-07 3.8E-12 74.2 8.6 66 6-71 9-74 (77)
15 PF00808 CBFD_NFYB_HMF: Histon 98.5 9.1E-07 2E-11 67.6 7.9 63 3-65 2-65 (65)
16 PF00125 Histone: Core histone 98.4 5E-07 1.1E-11 70.7 6.3 65 3-67 5-74 (75)
17 cd07981 TAF12 TATA Binding Pro 98.4 2.4E-06 5.3E-11 66.8 8.9 65 4-68 2-67 (72)
18 PF07524 Bromo_TP: Bromodomain 98.1 2.3E-05 5E-10 61.8 8.9 65 7-71 10-74 (77)
19 cd00074 H2A Histone 2A; H2A is 97.9 5.3E-05 1.1E-09 64.6 7.3 65 3-67 20-85 (115)
20 smart00428 H3 Histone H3. 97.7 0.00018 3.8E-09 60.3 7.9 63 8-70 38-103 (105)
21 PF02291 TFIID-31kDa: Transcri 97.5 0.00034 7.4E-09 60.8 7.8 62 7-68 16-77 (129)
22 PF15630 CENP-S: Kinetochore c 97.5 0.00045 9.7E-09 54.7 7.7 59 8-66 10-71 (76)
23 PF12755 Vac14_Fab1_bd: Vacuol 97.1 0.0019 4E-08 53.5 7.3 77 230-319 7-83 (97)
24 KOG3334 Transcription initiati 96.9 0.0041 8.8E-08 54.4 7.6 62 8-69 18-79 (148)
25 KOG0869 CCAAT-binding factor, 96.7 0.0078 1.7E-07 53.4 7.9 69 3-71 32-102 (168)
26 PLN00160 histone H3; Provision 96.6 0.0075 1.6E-07 49.8 7.0 62 8-69 30-93 (97)
27 PTZ00018 histone H3; Provision 96.6 0.0074 1.6E-07 52.8 7.0 62 9-71 72-135 (136)
28 PLN00121 histone H3; Provision 96.6 0.0076 1.7E-07 52.7 7.1 62 9-70 72-134 (136)
29 cd08048 TAF11 TATA Binding Pro 96.5 0.016 3.4E-07 46.9 8.1 66 3-68 16-84 (85)
30 PLN00161 histone H3; Provision 96.5 0.014 3.1E-07 50.9 8.0 66 8-73 64-131 (135)
31 PF15511 CENP-T: Centromere ki 96.4 0.0075 1.6E-07 62.3 7.1 57 4-60 352-414 (414)
32 PF03847 TFIID_20kDa: Transcri 96.3 0.021 4.7E-07 44.2 7.5 62 6-67 2-64 (68)
33 KOG1142 Transcription initiati 95.9 0.023 4.9E-07 54.5 6.9 82 5-87 156-239 (258)
34 KOG0870 DNA polymerase epsilon 95.5 0.061 1.3E-06 48.3 7.6 73 3-75 10-85 (172)
35 COG5094 TAF9 Transcription ini 95.4 0.04 8.6E-07 47.1 6.0 60 9-68 20-82 (145)
36 KOG4336 TBP-associated transcr 95.3 0.057 1.2E-06 52.9 7.3 68 9-76 11-80 (323)
37 PF12348 CLASP_N: CLASP N term 95.0 0.26 5.6E-06 45.9 10.8 174 190-384 22-210 (228)
38 PF04719 TAFII28: hTAFII28-lik 95.0 0.12 2.5E-06 42.3 7.2 66 2-67 22-89 (90)
39 KOG2023 Nuclear transport rece 94.9 0.48 1E-05 51.3 13.4 120 233-358 276-444 (885)
40 smart00427 H2B Histone H2B. 94.6 0.19 4E-06 41.0 7.5 60 9-68 7-67 (89)
41 smart00414 H2A Histone 2A. 94.6 0.12 2.5E-06 43.6 6.6 65 3-67 9-74 (106)
42 PF02985 HEAT: HEAT repeat; I 93.9 0.12 2.6E-06 33.3 4.2 30 255-293 1-30 (31)
43 KOG2389 Predicted bromodomain 93.9 0.16 3.4E-06 50.7 6.8 66 6-71 32-97 (353)
44 PLN00154 histone H2A; Provisio 93.9 0.22 4.8E-06 43.5 6.9 65 3-67 38-104 (136)
45 PTZ00463 histone H2B; Provisio 93.3 0.48 1E-05 40.3 7.8 60 9-68 34-94 (117)
46 COG5262 HTA1 Histone H2A [Chro 93.1 0.22 4.7E-06 42.3 5.4 65 2-66 25-90 (132)
47 PF13513 HEAT_EZ: HEAT-like re 93.0 0.066 1.4E-06 38.8 2.0 55 277-333 1-55 (55)
48 PLN00158 histone H2B; Provisio 93.0 0.54 1.2E-05 40.0 7.7 60 9-68 33-93 (116)
49 KOG1756 Histone 2A [Chromatin 92.5 0.34 7.4E-06 41.8 5.9 64 3-66 27-91 (131)
50 PTZ00017 histone H2A; Provisio 92.5 0.33 7.1E-06 42.5 5.9 64 3-66 27-91 (134)
51 PF12460 MMS19_C: RNAPII trans 92.2 7.9 0.00017 39.9 16.7 175 194-380 24-219 (415)
52 KOG1242 Protein containing ada 91.6 9.3 0.0002 41.1 16.5 204 168-387 168-451 (569)
53 KOG0212 Uncharacterized conser 91.1 2.5 5.5E-05 45.1 11.6 177 177-390 25-206 (675)
54 PLN00157 histone H2A; Provisio 90.9 0.54 1.2E-05 41.0 5.5 63 4-66 27-90 (132)
55 PF02269 TFIID-18kDa: Transcri 90.4 0.35 7.5E-06 39.7 3.8 49 19-67 18-66 (93)
56 PLN00156 histone H2AX; Provisi 89.9 0.89 1.9E-05 40.0 6.1 63 4-66 30-93 (139)
57 PLN00153 histone H2A; Provisio 89.9 0.79 1.7E-05 39.9 5.7 63 4-66 25-88 (129)
58 KOG0871 Class 2 transcription 89.0 2.4 5.2E-05 37.6 8.0 67 4-70 13-81 (156)
59 KOG1745 Histones H3 and H4 [Ch 88.9 0.26 5.6E-06 43.2 2.0 50 20-69 85-134 (137)
60 PF09415 CENP-X: CENP-S associ 88.9 0.6 1.3E-05 36.5 3.9 60 5-65 1-65 (72)
61 cd08045 TAF4 TATA Binding Prot 88.6 1.7 3.6E-05 40.9 7.4 46 7-52 52-97 (212)
62 KOG3423 Transcription initiati 88.4 2.8 6E-05 37.9 8.2 69 3-71 86-168 (176)
63 cd07978 TAF13 The TATA Binding 88.3 2.1 4.5E-05 35.1 6.9 58 9-67 8-66 (92)
64 KOG1242 Protein containing ada 88.2 25 0.00055 37.8 16.5 127 195-335 157-283 (569)
65 PF05236 TAF4: Transcription i 87.9 0.49 1.1E-05 45.9 3.5 63 7-69 51-119 (264)
66 PRK07452 DNA polymerase III su 87.5 1.6 3.5E-05 43.1 7.0 60 6-66 136-197 (326)
67 KOG1824 TATA-binding protein-i 87.4 12 0.00026 42.5 13.8 137 205-352 514-655 (1233)
68 PF14911 MMS22L_C: S-phase gen 87.2 9.6 0.00021 39.0 12.3 138 211-356 203-352 (373)
69 PTZ00252 histone H2A; Provisio 86.6 2.3 5.1E-05 37.1 6.4 63 4-66 26-91 (134)
70 PF03540 TFIID_30kDa: Transcri 86.5 4.7 0.0001 29.5 7.0 48 3-50 2-49 (51)
71 PRK06585 holA DNA polymerase I 85.5 2.1 4.7E-05 42.6 6.7 59 7-66 149-208 (343)
72 KOG3219 Transcription initiati 85.3 1.2 2.6E-05 41.2 4.3 70 2-71 111-181 (195)
73 TIGR01128 holA DNA polymerase 84.7 3.4 7.3E-05 39.9 7.5 59 7-66 118-176 (302)
74 cd00020 ARM Armadillo/beta-cat 84.5 4.8 0.0001 32.4 7.3 108 208-332 8-117 (120)
75 KOG2171 Karyopherin (importin) 84.5 65 0.0014 37.3 18.0 196 167-380 71-278 (1075)
76 PRK05574 holA DNA polymerase I 84.5 2.8 6.1E-05 41.3 6.9 60 7-67 153-212 (340)
77 PF11864 DUF3384: Domain of un 83.9 30 0.00065 36.3 14.6 159 168-333 64-283 (464)
78 COG1466 HolA DNA polymerase II 83.7 3.1 6.8E-05 41.6 6.9 58 7-65 147-204 (334)
79 PRK07914 hypothetical protein; 83.3 2.7 5.9E-05 41.6 6.3 59 6-66 134-192 (320)
80 PRK05907 hypothetical protein; 83.2 2.9 6.2E-05 41.7 6.4 59 6-65 140-200 (311)
81 PRK05629 hypothetical protein; 82.5 3.7 7.9E-05 40.7 6.8 57 7-65 133-189 (318)
82 cd00020 ARM Armadillo/beta-cat 82.1 9.2 0.0002 30.7 8.1 68 255-333 8-76 (120)
83 PRK08487 DNA polymerase III su 81.6 4.5 9.8E-05 40.3 7.1 57 6-65 141-197 (328)
84 PF13251 DUF4042: Domain of un 79.6 14 0.00031 34.0 9.2 139 233-383 6-177 (182)
85 KOG1744 Histone H2B [Chromatin 79.3 5.8 0.00013 34.4 6.0 48 21-68 56-103 (127)
86 KOG2171 Karyopherin (importin) 79.2 33 0.00073 39.6 13.4 149 194-357 331-483 (1075)
87 PF13654 AAA_32: AAA domain; P 78.7 7.7 0.00017 41.4 8.0 61 8-68 435-506 (509)
88 KOG2023 Nuclear transport rece 78.5 14 0.0003 40.6 9.7 164 194-371 377-540 (885)
89 COG5247 BUR6 Class 2 transcrip 78.0 7.5 0.00016 32.4 6.0 63 2-66 22-87 (113)
90 PF08506 Cse1: Cse1; InterPro 77.3 16 0.00035 37.3 9.7 103 275-377 223-334 (370)
91 TIGR02902 spore_lonB ATP-depen 75.0 11 0.00023 40.4 8.0 61 9-70 272-334 (531)
92 PF10508 Proteasom_PSMB: Prote 74.9 41 0.00088 35.7 12.2 137 194-342 60-199 (503)
93 PF01602 Adaptin_N: Adaptin N 74.5 62 0.0013 33.7 13.5 69 251-333 111-179 (526)
94 KOG0212 Uncharacterized conser 73.7 38 0.00082 36.6 11.3 158 206-379 162-320 (675)
95 PF03224 V-ATPase_H_N: V-ATPas 72.1 78 0.0017 31.1 12.8 158 166-344 24-189 (312)
96 TIGR02397 dnaX_nterm DNA polym 69.7 11 0.00023 37.4 6.1 57 7-65 183-239 (355)
97 PRK12402 replication factor C 68.1 12 0.00026 36.6 6.1 57 8-67 192-248 (337)
98 KOG1659 Class 2 transcription 67.0 21 0.00045 33.6 6.9 66 3-68 13-79 (224)
99 PRK09687 putative lyase; Provi 65.6 9.1 0.0002 37.5 4.6 57 274-336 102-158 (280)
100 KOG1824 TATA-binding protein-i 64.9 94 0.002 35.7 12.4 112 200-314 247-402 (1233)
101 COG5150 Class 2 transcription 64.0 37 0.00081 29.4 7.3 68 4-71 12-81 (148)
102 KOG1823 DRIM (Down-regulated i 63.8 26 0.00057 41.3 8.3 119 231-361 542-663 (1364)
103 COG5208 HAP5 CCAAT-binding fac 63.7 13 0.00029 35.0 5.0 67 4-70 110-177 (286)
104 PRK14964 DNA polymerase III su 63.5 16 0.00035 38.8 6.2 60 7-68 182-241 (491)
105 TIGR00764 lon_rel lon-related 62.8 28 0.0006 38.0 8.0 60 9-68 318-391 (608)
106 KOG3901 Transcription initiati 60.3 24 0.00052 29.6 5.4 42 23-67 30-71 (109)
107 PF08623 TIP120: TATA-binding 60.2 46 0.001 30.3 7.8 103 248-357 3-115 (169)
108 KOG1991 Nuclear transport rece 60.2 2E+02 0.0043 33.2 13.9 139 205-353 408-552 (1010)
109 KOG1967 DNA repair/transcripti 59.7 55 0.0012 37.2 9.6 140 173-318 862-1009(1030)
110 COG5248 TAF19 Transcription in 58.0 30 0.00064 29.3 5.6 43 23-67 30-72 (126)
111 PF13646 HEAT_2: HEAT repeats; 57.5 48 0.001 25.3 6.6 51 274-336 11-61 (88)
112 KOG1658 DNA polymerase epsilon 57.4 9.4 0.0002 34.2 2.7 68 1-68 57-125 (162)
113 PRK14970 DNA polymerase III su 57.4 24 0.00052 35.5 6.1 57 8-66 175-231 (367)
114 TIGR03015 pepcterm_ATPase puta 56.9 40 0.00087 31.8 7.3 58 12-69 204-267 (269)
115 PF06371 Drf_GBD: Diaphanous G 56.6 11 0.00025 33.6 3.3 78 203-291 107-186 (187)
116 PRK09087 hypothetical protein; 55.8 62 0.0013 30.5 8.2 60 8-68 161-222 (226)
117 PF12348 CLASP_N: CLASP N term 54.1 76 0.0017 29.2 8.5 105 273-383 17-126 (228)
118 PF13513 HEAT_EZ: HEAT-like re 53.6 14 0.00031 26.2 2.7 42 240-290 14-55 (55)
119 PRK09687 putative lyase; Provi 52.5 38 0.00083 33.1 6.4 64 254-336 159-222 (280)
120 PRK09111 DNA polymerase III su 51.1 34 0.00073 37.3 6.3 58 7-66 198-255 (598)
121 PRK00411 cdc6 cell division co 51.0 86 0.0019 31.5 8.9 49 20-68 228-282 (394)
122 COG5162 Transcription initiati 50.9 93 0.002 28.2 7.9 47 3-49 88-134 (197)
123 PRK14961 DNA polymerase III su 50.7 26 0.00056 35.5 5.1 59 8-68 186-244 (363)
124 PF05004 IFRD: Interferon-rela 50.6 1.6E+02 0.0034 29.3 10.5 70 247-325 79-150 (309)
125 PF12717 Cnd1: non-SMC mitotic 50.5 53 0.0012 29.5 6.6 53 276-334 1-53 (178)
126 PRK00440 rfc replication facto 49.5 42 0.0009 32.5 6.2 55 8-65 169-223 (319)
127 PRK14955 DNA polymerase III su 48.7 41 0.00089 34.5 6.2 57 8-65 194-254 (397)
128 KOG1851 Uncharacterized conser 47.4 94 0.002 37.5 9.2 114 206-333 1521-1636(1710)
129 PRK08727 hypothetical protein; 46.5 60 0.0013 30.6 6.6 57 9-67 171-230 (233)
130 PRK14953 DNA polymerase III su 46.3 46 0.00099 35.3 6.2 57 7-65 185-241 (486)
131 PTZ00429 beta-adaptin; Provisi 45.2 4.3E+02 0.0094 29.8 13.8 76 246-334 132-207 (746)
132 PF01602 Adaptin_N: Adaptin N 44.6 2.9E+02 0.0062 28.7 11.9 87 169-263 108-201 (526)
133 KOG1967 DNA repair/transcripti 44.4 1.5E+02 0.0033 33.9 9.9 115 247-377 902-1021(1030)
134 PF12074 DUF3554: Domain of un 44.1 1.2E+02 0.0025 30.2 8.5 91 215-315 164-255 (339)
135 PRK06645 DNA polymerase III su 43.5 55 0.0012 35.0 6.3 61 7-68 194-256 (507)
136 PRK14962 DNA polymerase III su 43.5 61 0.0013 34.3 6.7 58 8-67 184-241 (472)
137 PF10274 ParcG: Parkin co-regu 43.4 1.2E+02 0.0025 28.1 7.7 91 203-296 72-168 (183)
138 PF08369 PCP_red: Proto-chloro 43.2 38 0.00082 23.9 3.5 40 24-64 4-44 (45)
139 TIGR03420 DnaA_homol_Hda DnaA 42.9 1.1E+02 0.0023 28.0 7.6 55 10-66 169-226 (226)
140 PRK06620 hypothetical protein; 42.5 65 0.0014 30.1 6.1 57 8-66 155-214 (214)
141 COG1067 LonB Predicted ATP-dep 41.8 80 0.0017 34.8 7.4 60 9-68 327-399 (647)
142 PLN00163 histone H4; Provision 41.8 24 0.00052 26.5 2.4 26 4-29 30-55 (59)
143 PRK14954 DNA polymerase III su 41.8 47 0.001 36.4 5.6 57 8-65 194-254 (620)
144 KOG0915 Uncharacterized conser 40.4 82 0.0018 37.9 7.4 79 200-293 991-1069(1702)
145 COG1737 RpiR Transcriptional r 39.9 87 0.0019 30.5 6.7 76 4-81 48-143 (281)
146 KOG1241 Karyopherin (importin) 38.8 4.1E+02 0.0088 30.0 11.9 137 207-354 360-504 (859)
147 PRK14963 DNA polymerase III su 38.5 69 0.0015 34.2 6.2 58 7-67 182-239 (504)
148 COG5593 Nucleic-acid-binding p 38.4 54 0.0012 35.2 5.1 120 200-333 162-294 (821)
149 PRK14971 DNA polymerase III su 37.6 51 0.0011 36.1 5.1 56 8-65 188-243 (614)
150 PRK06305 DNA polymerase III su 37.5 75 0.0016 33.3 6.2 56 8-65 188-243 (451)
151 COG1938 Archaeal enzymes of AT 36.5 1E+02 0.0022 29.9 6.3 45 9-54 193-237 (244)
152 PF12719 Cnd3: Nuclear condens 36.5 1.2E+02 0.0025 29.7 7.1 57 275-333 76-141 (298)
153 KOG2213 Apoptosis inhibitor 5/ 36.4 65 0.0014 33.4 5.2 114 257-388 56-169 (460)
154 PRK14958 DNA polymerase III su 36.0 87 0.0019 33.4 6.5 64 8-73 186-249 (509)
155 PRK04195 replication factor C 36.0 77 0.0017 33.3 6.1 55 8-65 168-222 (482)
156 PF13335 Mg_chelatase_2: Magne 35.4 2.4E+02 0.0052 23.0 7.6 59 3-67 31-95 (96)
157 PF12460 MMS19_C: RNAPII trans 35.4 94 0.002 32.0 6.5 89 172-262 317-414 (415)
158 PRK08084 DNA replication initi 34.9 1.3E+02 0.0029 28.2 7.0 57 9-66 176-234 (235)
159 PRK00034 gatC aspartyl/glutamy 34.7 1.1E+02 0.0024 24.5 5.6 35 1-37 1-35 (95)
160 PF07766 LETM1: LETM1-like pro 34.5 1.4E+02 0.003 29.1 7.1 67 4-73 171-237 (268)
161 COG4996 Predicted phosphatase 34.1 14 0.00031 32.6 0.1 74 34-107 39-133 (164)
162 TIGR02928 orc1/cdc6 family rep 34.1 2E+02 0.0043 28.5 8.4 49 20-68 220-274 (365)
163 PRK08451 DNA polymerase III su 34.0 1E+02 0.0022 33.3 6.5 57 8-66 184-240 (535)
164 TIGR00362 DnaA chromosomal rep 33.6 1.1E+02 0.0024 31.2 6.6 58 8-67 276-336 (405)
165 cd03571 ENTH_epsin ENTH domain 33.6 1.9E+02 0.0042 24.8 7.1 96 283-380 18-118 (123)
166 KOG1657 CCAAT-binding factor, 33.5 68 0.0015 30.8 4.7 64 4-67 75-139 (236)
167 PF10363 DUF2435: Protein of u 33.5 1.6E+02 0.0034 24.0 6.2 66 277-346 17-82 (92)
168 PF14500 MMS19_N: Dos2-interac 33.2 2.2E+02 0.0048 27.6 8.3 64 268-333 4-67 (262)
169 TIGR00635 ruvB Holliday juncti 33.2 1.9E+02 0.004 27.9 7.9 60 8-68 167-229 (305)
170 PRK14950 DNA polymerase III su 33.0 96 0.0021 33.6 6.3 56 8-65 187-242 (585)
171 KOG0211 Protein phosphatase 2A 33.0 1.7E+02 0.0036 33.0 8.2 75 275-351 530-606 (759)
172 PTZ00361 26 proteosome regulat 32.5 47 0.001 34.8 3.7 38 31-68 387-424 (438)
173 PF12755 Vac14_Fab1_bd: Vacuol 32.4 2.8E+02 0.006 22.7 9.0 84 285-374 8-91 (97)
174 PRK08691 DNA polymerase III su 32.2 1.2E+02 0.0026 33.9 6.8 60 7-68 185-244 (709)
175 PRK09862 putative ATP-dependen 32.2 1.4E+02 0.0031 31.9 7.3 56 21-76 439-500 (506)
176 PRK14959 DNA polymerase III su 32.2 1.1E+02 0.0023 33.8 6.4 56 8-65 186-241 (624)
177 PF12231 Rif1_N: Rap1-interact 31.8 5.6E+02 0.012 26.0 18.7 202 165-383 80-306 (372)
178 cd00155 RasGEF Guanine nucleot 31.7 1.9E+02 0.0041 26.9 7.5 73 167-242 118-200 (237)
179 PRK05563 DNA polymerase III su 31.6 1.1E+02 0.0023 33.1 6.4 57 8-66 186-242 (559)
180 PF14500 MMS19_N: Dos2-interac 31.6 4.6E+02 0.0099 25.4 10.2 118 187-316 11-135 (262)
181 KOG3547 Bestrophin (Best vitel 31.3 66 0.0014 33.9 4.5 68 165-245 51-118 (450)
182 COG5096 Vesicle coat complex, 31.2 8.2E+02 0.018 27.7 13.8 145 169-336 50-196 (757)
183 PF09862 DUF2089: Protein of u 31.0 58 0.0013 27.8 3.3 26 287-312 52-77 (113)
184 KOG0213 Splicing factor 3b, su 30.6 2E+02 0.0043 32.5 8.0 98 275-383 488-585 (1172)
185 COG5181 HSH155 U2 snRNP splice 30.3 4.6E+02 0.0099 29.2 10.4 121 250-383 600-762 (975)
186 smart00147 RasGEF Guanine nucl 30.2 2E+02 0.0043 26.9 7.3 71 167-241 118-198 (242)
187 PRK14960 DNA polymerase III su 30.1 77 0.0017 35.2 4.9 61 8-70 185-245 (702)
188 PF04695 Pex14_N: Peroxisomal 30.1 30 0.00065 30.2 1.5 35 38-72 3-51 (136)
189 PRK13765 ATP-dependent proteas 30.1 2E+02 0.0044 31.7 8.2 58 9-66 324-398 (637)
190 PRK08903 DnaA regulatory inact 29.7 1.7E+02 0.0036 27.0 6.6 57 8-66 165-224 (227)
191 KOG0567 HEAT repeat-containing 28.7 55 0.0012 32.2 3.1 73 305-379 4-97 (289)
192 PRK00080 ruvB Holliday junctio 28.6 1.7E+02 0.0037 28.9 6.8 63 8-71 188-253 (328)
193 COG5064 SRP1 Karyopherin (impo 28.2 2.6E+02 0.0057 28.7 7.9 168 168-357 63-259 (526)
194 PRK06647 DNA polymerase III su 28.0 1.4E+02 0.003 32.4 6.4 59 8-68 186-244 (563)
195 PRK05896 DNA polymerase III su 27.4 1.5E+02 0.0033 32.5 6.6 55 8-64 186-240 (605)
196 PRK14965 DNA polymerase III su 27.2 1.3E+02 0.0029 32.6 6.1 56 8-65 186-241 (576)
197 PRK14957 DNA polymerase III su 27.1 1.4E+02 0.0031 32.2 6.3 58 8-67 186-243 (546)
198 PF14837 INTS5_N: Integrator c 27.1 5.5E+02 0.012 24.4 9.8 133 167-314 3-141 (213)
199 PRK06893 DNA replication initi 27.0 2E+02 0.0044 26.8 6.7 56 9-66 170-228 (229)
200 PF04826 Arm_2: Armadillo-like 27.0 4.9E+02 0.011 25.1 9.5 140 183-334 62-204 (254)
201 KOG0567 HEAT repeat-containing 27.0 90 0.0019 30.7 4.2 36 306-341 156-192 (289)
202 PF03378 CAS_CSE1: CAS/CSE pro 26.9 3.8E+02 0.0083 28.0 9.3 96 247-351 19-127 (435)
203 smart00544 MA3 Domain in DAP-5 26.8 3E+02 0.0066 22.3 7.0 44 250-302 32-75 (113)
204 KOG1248 Uncharacterized conser 26.6 6.6E+02 0.014 29.7 11.5 117 169-297 780-903 (1176)
205 PF08064 UME: UME (NUC010) dom 26.6 1.8E+02 0.0039 24.1 5.6 70 306-384 13-87 (107)
206 cd08780 Death_TRADD Death Doma 26.3 2E+02 0.0043 23.6 5.5 62 10-71 17-81 (90)
207 TIGR01242 26Sp45 26S proteasom 26.2 71 0.0015 32.1 3.7 33 35-67 330-362 (364)
208 COG1224 TIP49 DNA helicase TIP 26.0 1.5E+02 0.0032 30.7 5.7 63 5-68 362-432 (450)
209 PF08454 RIH_assoc: RyR and IP 25.8 2.2E+02 0.0048 23.9 6.0 78 225-317 5-85 (109)
210 PRK14952 DNA polymerase III su 25.8 1.5E+02 0.0032 32.4 6.1 58 8-66 185-242 (584)
211 KOG1991 Nuclear transport rece 25.8 1.1E+03 0.024 27.5 15.1 109 214-333 501-619 (1010)
212 smart00567 EZ_HEAT E-Z type HE 25.3 1.1E+02 0.0023 18.9 3.1 14 277-290 1-14 (30)
213 PRK00149 dnaA chromosomal repl 25.1 1.4E+02 0.003 31.1 5.7 59 8-68 288-349 (450)
214 PRK14951 DNA polymerase III su 25.0 1.6E+02 0.0034 32.4 6.2 58 8-67 191-248 (618)
215 PF03810 IBN_N: Importin-beta 24.9 2.5E+02 0.0055 20.8 5.8 38 276-313 29-75 (77)
216 PF12231 Rif1_N: Rap1-interact 24.2 7.6E+02 0.016 25.0 12.8 142 204-357 32-184 (372)
217 PTZ00373 60S Acidic ribosomal 24.1 1.7E+02 0.0036 24.9 4.9 43 4-47 20-63 (112)
218 smart00323 RasGAP GTPase-activ 23.7 4E+02 0.0086 26.6 8.5 102 206-314 69-186 (344)
219 PRK03992 proteasome-activating 23.5 85 0.0018 32.1 3.7 35 34-68 338-372 (389)
220 cd05833 Ribosomal_P2 Ribosomal 23.3 1.7E+02 0.0037 24.7 4.8 45 3-48 17-62 (109)
221 COG5251 TAF40 Transcription in 23.2 1.1E+02 0.0024 27.9 3.8 67 2-68 114-181 (199)
222 KOG1241 Karyopherin (importin) 23.2 1.1E+03 0.025 26.7 14.9 134 197-335 481-630 (859)
223 PRK07133 DNA polymerase III su 23.1 1.8E+02 0.0039 32.6 6.2 55 9-65 186-240 (725)
224 PF01603 B56: Protein phosphat 22.8 2.6E+02 0.0055 28.9 7.0 98 169-292 269-370 (409)
225 PRK14969 DNA polymerase III su 22.7 1.8E+02 0.004 31.1 6.1 59 9-69 187-245 (527)
226 PRK14087 dnaA chromosomal repl 22.5 2.1E+02 0.0045 30.0 6.4 61 8-68 283-348 (450)
227 PF00356 LacI: Bacterial regul 22.3 1.4E+02 0.0029 21.1 3.4 12 8-19 1-12 (46)
228 PF04648 MF_alpha: Yeast matin 22.2 42 0.00091 17.7 0.6 11 123-133 2-12 (13)
229 cd08313 Death_TNFR1 Death doma 22.2 4E+02 0.0087 21.1 6.6 65 3-71 8-73 (80)
230 PF12167 DUF3596: Domain of un 21.9 69 0.0015 24.2 2.0 26 368-393 35-60 (64)
231 KOG0166 Karyopherin (importin) 21.4 4.7E+02 0.01 28.2 8.6 132 206-356 108-252 (514)
232 PRK11302 DNA-binding transcrip 21.2 2.9E+02 0.0062 26.3 6.7 75 3-79 45-139 (284)
233 KOG0392 SNF2 family DNA-depend 21.0 5.9E+02 0.013 30.6 9.8 171 195-383 756-928 (1549)
234 cd08319 Death_RAIDD Death doma 21.0 3.7E+02 0.008 21.4 6.1 59 11-72 18-76 (83)
235 PLN03025 replication factor C 21.0 2.3E+02 0.005 27.9 6.1 54 8-64 166-219 (319)
236 PRK13407 bchI magnesium chelat 20.8 3.6E+02 0.0077 27.2 7.4 59 6-65 237-303 (334)
237 COG2058 RPP1A Ribosomal protei 20.6 1.9E+02 0.0041 24.5 4.5 42 3-45 16-58 (109)
238 PF11865 DUF3385: Domain of un 20.2 4.2E+02 0.0092 23.5 7.1 49 230-291 108-156 (160)
239 PRK14086 dnaA chromosomal repl 20.2 2.6E+02 0.0057 30.8 6.7 60 7-67 453-514 (617)
No 1
>KOG2549 consensus Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=100.00 E-value=3.7e-110 Score=843.21 Aligned_cols=381 Identities=50% Similarity=0.813 Sum_probs=357.0
Q ss_pred CCCC-hHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCCCCcccCCCCC
Q 016189 2 SIVP-KETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRNVEPIYGFASGD 80 (393)
Q Consensus 2 s~~~-~~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~nieplyGy~s~~ 80 (393)
++++ +|+++.+|||+|+++|+||++..||+|||||++||+|+|.|||+|+||++||++||++||+++|+||+|||.+.+
T Consensus 9 ~v~s~~Es~k~vAEslGi~nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~ALr~~nVep~yg~~s~~ 88 (576)
T KOG2549|consen 9 TVVSPKESVKVVAESLGITNLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYALRSLNVEPLYGFGAQE 88 (576)
T ss_pred cccCcHHHHHHHHHHhCccccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHHHhhcccccccCcccCc
Confidence 5676 999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcceeecCCC-CceeeecCcccchHHhhcCCCCCCCCCCceeEEEEEecCccCCCCCCCCCcCC--------C------c
Q 016189 81 SLRFKRASGL-KDLYYIDDKDVELRNVIETPLPKAPLDTSVAVHWLAIEGVQPAIPENAPVDAV--------S------D 145 (393)
Q Consensus 81 ~l~f~~~~g~-~~l~~~~D~evdl~~ii~~~lpk~P~~~~~~~hWLaveGvqP~ipeN~~~~~~--------~------~ 145 (393)
+++|+++.|+ +++||.+|+||||++++++|+||+|+++++++|||+||||||+|||||++..- . .
T Consensus 89 ~i~fr~a~~~~r~ly~~~d~EVD~d~~i~~plpkvP~d~~i~sHWL~iEGVQP~iPeNp~p~~~~~~~~~~~~~~~~~~~ 168 (576)
T KOG2549|consen 89 IIPFRKASGGGRELYYPEDEEVDLDEIINAPLPKVPLDVSIKSHWLAIEGVQPAIPENPPPLEKNVQKKEVIEPAIKAPE 168 (576)
T ss_pred eeeccccCCCCceeecCchhhcchhhhhcCCCCCCCccceeeeeeeeeccccccCCCCCCccccchhhhcccchhhhccC
Confidence 9999998654 89999999999999999999999999999999999999999999999975220 0 0
Q ss_pred ccccc----------ccCCCccccccCCccccCcHHHHHHHHHHHHHhhcCCchHHHHHHHHhhhhcCCcccchhhHHHH
Q 016189 146 GRRSE----------YREDGISVDIRLPVKHVLSKELQLYFDKIRELTVSRSNSTVFKQALLSLAMDSGLHPLVPYFTYF 215 (393)
Q Consensus 146 ~k~~~----------~k~~~~~~~ik~~~~h~LS~Elq~yf~~It~a~~~~~~~~~~~~aL~sL~tD~gL~~LlPy~~~f 215 (393)
+.++. .-..+.++++||+++|+||+|||+||++||++|++ +++.+|++||++|+||+|||||+|||++|
T Consensus 169 ~~~~~~~~~~~~~~~~~k~~e~~~~Kp~~~h~LS~ElQlYy~~It~a~~g-~~~~~r~eAL~sL~TDsGL~~LlPyFv~f 247 (576)
T KOG2549|consen 169 GNNPGASTKSSDAVKTLKIGEPVELKPSSKHVLSVELQLYYKEITEACTG-SDEPLRQEALQSLETDSGLQQLLPYFVTF 247 (576)
T ss_pred CCCCCccccccccccccccCCcccccccchhhccHHHHHHHHHHHHHHhc-CCHHHHHHHHHhhccCccHHHHHHHHHHH
Confidence 00000 01233578899999999999999999999999998 66678999999999999999999999999
Q ss_pred HHHHHhhc--cCChHHHHHHHHHHHHhhcCCCcccccchhhhHHHHHHHHhccccCCCC-CCcchHHHHHHHHHHHHHHH
Q 016189 216 ISEEVTRS--LKNFSLLFALMRVARSLLRNPHIHIEPYLHQMMPSVITCLVSKRLGNRF-SDNHWDLRNFVADLIASICT 292 (393)
Q Consensus 216 i~e~v~~n--l~nl~~L~~ll~~v~ALl~N~~l~ie~YlHqLlpslltcll~k~l~~~~-~~~h~~LR~~AA~lL~~I~~ 292 (393)
|+|+|+.| ++|+..|+++|+|++||++||+|++|||||+||||+|||+|+|++|.++ .||||+|||+||++|+.||+
T Consensus 248 Iae~vs~ni~~~nL~lL~~lm~m~rSLl~Np~i~lepYlh~L~PSvlTCvVsk~l~~~p~~dnhwaLRDfAA~ll~~i~k 327 (576)
T KOG2549|consen 248 IAEGVSVNIVQNNLELLIYLMRMVRSLLDNPNIFLEPYLHQLVPSVLTCVVSKNLCLRPELDNHWALRDFAARLLAQICK 327 (576)
T ss_pred HhhheeeccccccHHHHHHHHHHHHHHhcCCccchhhHHHHHhhHHHHhhhhhhccCCccccchHHHHHHHHHHHHHHHH
Confidence 99999999 8999999999999999999999999999999999999999999999985 79999999999999999999
Q ss_pred HcCCCchhhHHHHHHHHHHHhcCCCCCchhHhHHHHHHHhhCHHhHHHhcccchHHHHHhhhHhHhhhhhhhhhHHHHHH
Q 016189 293 RFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAALGPSVVHLLILPNLELYLKFLEPEMLLEKQKNEMKRHEAW 372 (393)
Q Consensus 293 ~~~~~y~~L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~lG~~~vr~~ilP~l~~~~~~l~~~l~~~~~~~~~~~~~a~ 372 (393)
+|++.|.+|++||++||.|+|+|+++++++|||||+||++||.++|+.+|+|+|..|+.+|++++..++.+|.+.+.||+
T Consensus 328 ~f~~~y~~L~~Rit~tl~k~l~D~~~~~st~YGai~gL~~lg~~~I~~~ilp~L~~~~~~l~~~l~~~~~~n~~~i~ea~ 407 (576)
T KOG2549|consen 328 NFSTLYNNLQPRITRTLSKALLDNKKPLSTHYGAIAGLSELGHEVIRTVILPNLKEYNERLQSVLDVESLSNQLDIYEAN 407 (576)
T ss_pred hhhhHHHHHHHHHHHHHHHHhcCCCCCchhhhhHHHHHHHhhhhhhhheeccchHHHHHHhhhhcccchhhhhhhhhhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhHhhhhhh
Q 016189 373 RVYGALQVDFF 383 (393)
Q Consensus 373 ~v~~~l~~a~~ 383 (393)
+|+++|+.|..
T Consensus 408 ~v~~~llk~~~ 418 (576)
T KOG2549|consen 408 KVYGALLKAEN 418 (576)
T ss_pred hHHHHHHHHhh
Confidence 99999998764
No 2
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=100.00 E-value=1.4e-105 Score=760.60 Aligned_cols=378 Identities=43% Similarity=0.701 Sum_probs=344.4
Q ss_pred CCCChHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCCCCcccCCCCCC
Q 016189 2 SIVPKETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRNVEPIYGFASGDS 81 (393)
Q Consensus 2 s~~~~~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~nieplyGy~s~~~ 81 (393)
.+|++|++|++||++||++++||++++||.|+||||+||+|+|.|||+||||+.||++||+.||+.+|+||+|||...+|
T Consensus 4 t~ws~et~KdvAeslGi~Ni~Dd~l~alamDlEYRI~ev~qea~KFmvhSKRtvLt~dDis~ALr~lNVePLyGyd~~r~ 83 (450)
T COG5095 4 TLWSKETLKDVAESLGISNIDDDALRALAMDLEYRIKEVCQEASKFMVHSKRTVLTIDDISYALRSLNVEPLYGYDPSRP 83 (450)
T ss_pred eeecHHHHHHHHHHcCCcccccHHHHHHHHhHHHHHHHHHHHHHHHhhcccceeeeHHhHHHHHHhcCCCcccCCCCCcc
Confidence 37999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cceeec--CCCCceeeecCcccchHHhhcCCCCCCCCCCceeEEEEEecCccCCCCCCCCCcC-C-Ccc--ccc------
Q 016189 82 LRFKRA--SGLKDLYYIDDKDVELRNVIETPLPKAPLDTSVAVHWLAIEGVQPAIPENAPVDA-V-SDG--RRS------ 149 (393)
Q Consensus 82 l~f~~~--~g~~~l~~~~D~evdl~~ii~~~lpk~P~~~~~~~hWLaveGvqP~ipeN~~~~~-~-~~~--k~~------ 149 (393)
+.|..+ .+++.+||++|+||||+++||+||||+|+.+++++||||||||||+|||||.+.. + +++ +.+
T Consensus 84 l~fs~v~~g~gqsvYYlddEEvDfe~~in~PLPkVPr~~s~~sHWLAiEGVQPaIpqNP~l~d~~V~~~~~k~T~g~~~~ 163 (450)
T COG5095 84 LQFSLVFRGLGQSVYYLDDEEVDFEEYINRPLPKVPRRVSIQSHWLAIEGVQPAIPQNPILLDKPVAKWASKDTLGVMPG 163 (450)
T ss_pred hhHHHHHccCCcceEecChhhcCHHHHhcCcCccCCcCcchhhhhhhhcccCccCCCCCCccccccccccccCccccCcC
Confidence 999876 4568999999999999999999999999999999999999999999999997532 1 110 000
Q ss_pred ---c--c----cCCCccccccCCccccCcHHHHHHHHHHHHHhhcCCchHHHHHHHHhhhhcCCcccchhhHHHHHHHHH
Q 016189 150 ---E--Y----REDGISVDIRLPVKHVLSKELQLYFDKIRELTVSRSNSTVFKQALLSLAMDSGLHPLVPYFTYFISEEV 220 (393)
Q Consensus 150 ---~--~----k~~~~~~~ik~~~~h~LS~Elq~yf~~It~a~~~~~~~~~~~~aL~sL~tD~gL~~LlPy~~~fi~e~v 220 (393)
. + -..+.++++||.++|+||||+|+||++|+.+++++++.+.|++||+||++|+|||||+|||++|++|+|
T Consensus 164 a~t~a~q~~n~v~~~~n~E~KplvkHvLsKELq~YF~kvisal~dEs~~~~r~aAl~sLr~dsGlhQLvPYFi~f~~eqi 243 (450)
T COG5095 164 ASTAAYQARNGVTSMENAELKPLVKHVLSKELQMYFDKVISALLDESDEQTRDAALESLRNDSGLHQLVPYFIHFFNEQI 243 (450)
T ss_pred cchHHHHHhcCCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccHHHHHHHHHHHHHHHH
Confidence 0 0 112346889999999999999999999999999888888899999999999999999999999999999
Q ss_pred hhccCChHHHHHHHHHHHHhhcCCCcccccchhhhHHHHHHHHhccccCCCCCC-cchHHHHHHHHHHHHHHHHcCCCch
Q 016189 221 TRSLKNFSLLFALMRVARSLLRNPHIHIEPYLHQMMPSVITCLVSKRLGNRFSD-NHWDLRNFVADLIASICTRFGHVYQ 299 (393)
Q Consensus 221 ~~nl~nl~~L~~ll~~v~ALl~N~~l~ie~YlHqLlpslltcll~k~l~~~~~~-~h~~LR~~AA~lL~~I~~~~~~~y~ 299 (393)
+.|++|+..|..+|.|+.||++|++||++||+||||||+|||+++|++|+.+.+ +|++|||+||.+|..+|++|+++|.
T Consensus 244 t~Nl~nl~~LtTv~~m~~sLL~N~~iFvdPY~hqlmPSilTcliakklg~~p~dhe~~alRd~AA~ll~yV~~~F~~~Yk 323 (450)
T COG5095 244 TKNLKNLEKLTTVVMMYSSLLKNKYIFVDPYLHQLMPSILTCLIAKKLGNVPDDHEHYALRDVAADLLKYVFSNFSSSYK 323 (450)
T ss_pred HHhhhhHHHHHHHHHHHHHHhcCCceeecHHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHHHHHhhhhHhhh
Confidence 999999999999999999999999999999999999999999999999987744 7999999999999999999999999
Q ss_pred hhHHHHHHHHHHHhcCCCCCchhHhHHHHHHHhhCHHhHHHhcccchHHHHHhhhHhHhhhhhhhhhHHHHHHHHHhHhh
Q 016189 300 NLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAALGPSVVHLLILPNLELYLKFLEPEMLLEKQKNEMKRHEAWRVYGALQ 379 (393)
Q Consensus 300 ~L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~lG~~~vr~~ilP~l~~~~~~l~~~l~~~~~~~~~~~~~a~~v~~~l~ 379 (393)
+|+|||+||++|+|+|.+++.+|+|||+.||+.||.++||.+|-|++..|...+...+ ++ .|+-...|+.+|.|+|.
T Consensus 324 tLkPRvtrTllKafLD~~k~~sT~YGalkgls~l~ke~ir~~i~pn~~~y~rlv~ktl--e~-~~e~~~~e~n~~vd~l~ 400 (450)
T COG5095 324 TLKPRVTRTLLKAFLDREKTESTQYGALKGLSILSKEVIRTVIKPNADYYVRLVNKTL--EK-GNEEEIYENNRVVDLLK 400 (450)
T ss_pred hhchHHHHHHHHHHHhcccccchhhhhhhhhhhhchhheeeeeccchHHHHHHHHHHH--hc-cchhhcccchHHHHHHH
Confidence 9999999999999999999999999999999999999999999999988877666443 22 33344578899999888
Q ss_pred hhh
Q 016189 380 VDF 382 (393)
Q Consensus 380 ~a~ 382 (393)
.|.
T Consensus 401 dal 403 (450)
T COG5095 401 DAL 403 (450)
T ss_pred HHH
Confidence 775
No 3
>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=100.00 E-value=2.4e-98 Score=746.96 Aligned_cols=333 Identities=55% Similarity=0.932 Sum_probs=310.5
Q ss_pred ChHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCCCCcccCCCCCCcce
Q 016189 5 PKETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRNVEPIYGFASGDSLRF 84 (393)
Q Consensus 5 ~~~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~nieplyGy~s~~~l~f 84 (393)
|+++|+.+||++|+++++|||++.||+|+|||+++|+|+|+|||+|+||++||++||+.||+++|+||+|||.++++++|
T Consensus 1 ~~~~i~~ia~~~Gi~~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~~~n~eplyG~~~~~~~~~ 80 (343)
T cd08050 1 PQESIKLIAESLGIDSLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALRLRNVEPLYGFSSSEPLPF 80 (343)
T ss_pred ChhHHHHHHHHcCCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHHhCCCcccCCCCCccccc
Confidence 57999999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred eec-CCCCceeeecCcccchHHhhcCCCCCCCCCCceeEEEEEecCccCCCCCCCCCcCCCcccc-------ccccCCCc
Q 016189 85 KRA-SGLKDLYYIDDKDVELRNVIETPLPKAPLDTSVAVHWLAIEGVQPAIPENAPVDAVSDGRR-------SEYREDGI 156 (393)
Q Consensus 85 ~~~-~g~~~l~~~~D~evdl~~ii~~~lpk~P~~~~~~~hWLaveGvqP~ipeN~~~~~~~~~k~-------~~~k~~~~ 156 (393)
+.. .|++++||.+|+|+||++++++++|++|+++++++||||||||||.+||||++......+. ........
T Consensus 81 ~~~~~~~~~l~~~~D~eidl~~~i~~~lp~~p~~~~~~~hWLaieGvqP~ip~n~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (343)
T cd08050 81 RVSTGGGQELYYVEDKEIDLKDLINTPLPKVPLDVSVKAHWLAIEGVQPLIPENPPPSAIEVQKKESLANAAVKRLKKDE 160 (343)
T ss_pred eeccCCCceEeeCCCCcccHHHhhhcccCCCCCccccccccceecCccCCCCCCCCchhccccccccccccccccccccC
Confidence 554 4668999999999999999999999999999999999999999999999997654321111 01112234
Q ss_pred cccccCCccccCcHHHHHHHHHHHHHhhcCCchHHHHHHHHhhhhcCCcccchhhHHHHHHHHHhhccC-ChHHHHHHHH
Q 016189 157 SVDIRLPVKHVLSKELQLYFDKIRELTVSRSNSTVFKQALLSLAMDSGLHPLVPYFTYFISEEVTRSLK-NFSLLFALMR 235 (393)
Q Consensus 157 ~~~ik~~~~h~LS~Elq~yf~~It~a~~~~~~~~~~~~aL~sL~tD~gL~~LlPy~~~fi~e~v~~nl~-nl~~L~~ll~ 235 (393)
.+.+||.++|+||+|||+||++||++|++ +++..|++||++|++|||||||+|||++||++++++|++ |+..|.++|+
T Consensus 161 ~~~~k~~~~~~LS~Elq~yf~~It~a~~~-~~~~~r~~aL~sL~tD~gl~~LlPyf~~fI~~~v~~n~~~nl~~L~~lm~ 239 (343)
T cd08050 161 QVLLKPLVRHVLSKELQLYFEEITEALVG-SNEEKRREALQSLRTDPGLQQLLPYFVRFIAEGVTVNLDQNLALLIYLMR 239 (343)
T ss_pred cceeeeccccccCHHHHHHHHHHHHHHhC-CCHHHHHHHHHHhccCCCchhhhhHHHHHHHHHHHhhhcccHHHHHHHHH
Confidence 67899999999999999999999999997 455678999999999999999999999999999999998 9999999999
Q ss_pred HHHHhhcCCCcccccchhhhHHHHHHHHhccccCCCC-CCcchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhc
Q 016189 236 VARSLLRNPHIHIEPYLHQMMPSVITCLVSKRLGNRF-SDNHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFL 314 (393)
Q Consensus 236 ~v~ALl~N~~l~ie~YlHqLlpslltcll~k~l~~~~-~~~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~ 314 (393)
|++||++||+|+||+|+|||||++|||++++++|.++ .++||+|||+||++|+.||++|+++|++|++||+++|.++|+
T Consensus 240 ~v~ALl~N~~l~le~Ylh~Lip~vltclv~~~l~~~~~~~~h~~LRd~AA~ll~~i~~~f~~~y~~l~~ri~~tl~k~l~ 319 (343)
T cd08050 240 MVRALLDNPNLHLEPYLHQLIPSVLTCLVAKQLCSRPPDDNHWALRDYAARLLAQICRKFSTSYNTLQPRITRTLLKALL 319 (343)
T ss_pred HHHHHhcCCCCchHHhHHHHHHHHHHHhhhHhhcCCCCCchHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHHHHHc
Confidence 9999999999999999999999999999999999987 899999999999999999999999999999999999999999
Q ss_pred CCCCCchhHhHHHHHHHhhCHHhH
Q 016189 315 DPTKSLSQHYGAIQGLAALGPSVV 338 (393)
Q Consensus 315 d~~~~l~t~YGAi~GL~~lG~~~v 338 (393)
||++++++||||++||++||+++|
T Consensus 320 d~~~~~~~~YGAi~GL~~lG~~~v 343 (343)
T cd08050 320 DPKKPLTTHYGAIVGLSALGPEAV 343 (343)
T ss_pred CCCCCcchhhHHHHHHHHhCccCC
Confidence 999999999999999999999875
No 4
>PF07571 DUF1546: Protein of unknown function (DUF1546); InterPro: IPR011442 These proteins are associated with IPR004823 from INTERPRO in transcription initiation factor TFIID subunit 6 (TAF6).; GO: 0051090 regulation of sequence-specific DNA binding transcription factor activity, 0005634 nucleus
Probab=99.97 E-value=9.9e-32 Score=219.92 Aligned_cols=91 Identities=62% Similarity=1.077 Sum_probs=88.0
Q ss_pred HHHHHhccccCCCCC-CcchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcCCCCCchhHhHHHHHHHhhCHHh
Q 016189 259 VITCLVSKRLGNRFS-DNHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAALGPSV 337 (393)
Q Consensus 259 lltcll~k~l~~~~~-~~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~lG~~~ 337 (393)
||||+|+|++|.++. +|||+|||+||++|+.||++|+++|++|++||+++|.++|+||++|+++|||||+||++||+++
T Consensus 1 vltClv~k~l~~~~~~~~h~~LRd~AA~lL~~I~~~~~~~~~~L~~Ri~~tl~k~l~d~~~~~~t~YGAi~gL~~lG~~~ 80 (92)
T PF07571_consen 1 VLTCLVGKQLGSRPPVDNHWALRDFAASLLAQICRKFSSSYPTLQPRITRTLLKALLDPKKPLGTHYGAIVGLSALGPEA 80 (92)
T ss_pred CeEEEeeccccCCCCCcchHHHHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHH
Confidence 589999999998775 8999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhcccchHHH
Q 016189 338 VHLLILPNLELY 349 (393)
Q Consensus 338 vr~~ilP~l~~~ 349 (393)
||.+|+|+++.|
T Consensus 81 vr~~ilP~l~~~ 92 (92)
T PF07571_consen 81 VRALILPNLKAY 92 (92)
T ss_pred HHHhhccCcCCC
Confidence 999999999875
No 5
>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=99.93 E-value=5.4e-26 Score=173.74 Aligned_cols=66 Identities=56% Similarity=0.838 Sum_probs=53.9
Q ss_pred CCCCChHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhh
Q 016189 1 MSIVPKETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALN 66 (393)
Q Consensus 1 ms~~~~~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~ 66 (393)
||+||+|+||.+|||+|+++|+||+++.||+||||||++|+|+|.|||+||||++||++|||.|||
T Consensus 1 ~s~~~~esvk~iAes~Gi~~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di~~ALr 66 (66)
T PF02969_consen 1 MSVFSQESVKDIAESLGISNLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLTTDDINSALR 66 (66)
T ss_dssp -----HHHHHHHHHHTT---B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHH-
T ss_pred CCcCCHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHhC
Confidence 899999999999999999999999999999999999999999999999999999999999999996
No 6
>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=99.84 E-value=5.1e-21 Score=146.59 Aligned_cols=65 Identities=58% Similarity=0.841 Sum_probs=63.2
Q ss_pred CCCChHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhh
Q 016189 2 SIVPKETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALN 66 (393)
Q Consensus 2 s~~~~~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~ 66 (393)
+.+|+++|+++|++.|++++|++++..|++++|||+++|+|+|++||+||||+|||++||+.||+
T Consensus 1 ~~~p~~~i~ria~~~Gi~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk 65 (65)
T smart00803 1 SWLPKETIKDVAESLGIGNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR 65 (65)
T ss_pred CCCCHHHHHHHHHHCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence 46899999999999999999999999999999999999999999999999999999999999986
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=99.65 E-value=6.1e-16 Score=124.15 Aligned_cols=74 Identities=26% Similarity=0.384 Sum_probs=72.1
Q ss_pred CCCChHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCCCCcccC
Q 016189 2 SIVPKETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRNVEPIYGF 76 (393)
Q Consensus 2 s~~~~~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~nieplyGy 76 (393)
..+|+.+|+++|+..|++++|+++.+++.+.++.++.+|+++|++|+.|++|+|+|++||..||+..| .|+|||
T Consensus 12 ~gi~k~~I~RLarr~GvkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr~g-~~~ygf 85 (85)
T cd00076 12 KGITKPAIRRLARRGGVKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKRQG-RTLYGY 85 (85)
T ss_pred ccCCHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHCC-CCccCC
Confidence 35899999999999999999999999999999999999999999999999999999999999999999 999998
No 8
>PLN00035 histone H4; Provisional
Probab=99.63 E-value=1.3e-15 Score=125.90 Aligned_cols=75 Identities=25% Similarity=0.340 Sum_probs=72.8
Q ss_pred CCCChHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCCCCcccCC
Q 016189 2 SIVPKETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRNVEPIYGFA 77 (393)
Q Consensus 2 s~~~~~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~nieplyGy~ 77 (393)
..||+.+|+++|++.|++++|+++..++.+.+|.++.+|+++|++|++|++|+|+|++||..||+.+|- |+|||.
T Consensus 28 ~~ipk~~IrRLARr~GvkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~Alkr~g~-~lyGf~ 102 (103)
T PLN00035 28 QGITKPAIRRLARRGGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGR-TLYGFG 102 (103)
T ss_pred ccCCHHHHHHHHHHcCcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHcCC-cCCCCC
Confidence 358999999999999999999999999999999999999999999999999999999999999999999 999996
No 9
>PTZ00015 histone H4; Provisional
Probab=99.60 E-value=3.4e-15 Score=123.40 Aligned_cols=73 Identities=25% Similarity=0.325 Sum_probs=71.4
Q ss_pred CCChHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCCCCcccC
Q 016189 3 IVPKETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRNVEPIYGF 76 (393)
Q Consensus 3 ~~~~~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~nieplyGy 76 (393)
.||+.+|+++|++.|+.++|+++.+++.+.+|.++.+|+++|++|++|++|+|+|++||..||+..+- |+|||
T Consensus 30 gI~k~~IrRLarr~GvkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~AlKr~g~-~~ygf 102 (102)
T PTZ00015 30 GITKGAIRRLARRGGVKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVYALKRQGR-TLYGF 102 (102)
T ss_pred CCCHHHHHHHHHHcCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHhcCC-CCCCC
Confidence 48999999999999999999999999999999999999999999999999999999999999999998 89998
No 10
>smart00417 H4 Histone H4.
Probab=99.24 E-value=1.7e-11 Score=95.90 Aligned_cols=62 Identities=24% Similarity=0.249 Sum_probs=59.8
Q ss_pred CCChHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHH
Q 016189 3 IVPKETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSA 64 (393)
Q Consensus 3 ~~~~~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~A 64 (393)
-+|+.+|+++|+..|++++|+++..++.+-+|.++.+|+.+|++|+.|++|+|+|++||.+|
T Consensus 13 gI~k~~IrRLaRr~GvkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~~a 74 (74)
T smart00417 13 GITKPAIRRLARRGGVKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVVYA 74 (74)
T ss_pred CCCHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHheeC
Confidence 48999999999999999999999999999999999999999999999999999999999764
No 11
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=99.14 E-value=1.1e-10 Score=94.83 Aligned_cols=70 Identities=26% Similarity=0.359 Sum_probs=67.4
Q ss_pred CCCChHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCCC
Q 016189 2 SIVPKETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRNVE 71 (393)
Q Consensus 2 s~~~~~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~nie 71 (393)
-.+|..+|++++++.|.+++|.+|...|++.+|.++.+|.++|..++.|+||+|++++||..|++.++..
T Consensus 18 ~~Lp~apv~Ri~r~~~~~Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~~~~~~ 87 (91)
T COG2036 18 LLLPKAPVRRILRKAGAERVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALKRLGRR 87 (91)
T ss_pred hhcCchHHHHHHHHHhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHHHhccc
Confidence 4689999999999999999999999999999999999999999999999999999999999999998765
No 12
>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=98.95 E-value=4e-09 Score=90.10 Aligned_cols=96 Identities=25% Similarity=0.321 Sum_probs=76.6
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCCCCcccCCCCCCccee
Q 016189 6 KETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRNVEPIYGFASGDSLRFK 85 (393)
Q Consensus 6 ~~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~nieplyGy~s~~~l~f~ 85 (393)
.+.|.+|.++.|+++.++++...|.+.++-...+|+++|..|++|++|++++.+||..|++.+.- |.|.++.+
T Consensus 4 ~~~v~~iLk~~Gv~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~r~~---~~f~~~p~---- 76 (117)
T cd07979 4 ARVIAAILKSMGITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQSRVD---YSFTSPPP---- 76 (117)
T ss_pred HHHHHHHHHHCCCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhc---cCCCCCCc----
Confidence 36789999999999999999999999999999999999999999999999999999999998755 55554322
Q ss_pred ecCCCCceeeecCcccchHHhh-cCCCCCCCCCCc
Q 016189 86 RASGLKDLYYIDDKDVELRNVI-ETPLPKAPLDTS 119 (393)
Q Consensus 86 ~~~g~~~l~~~~D~evdl~~ii-~~~lpk~P~~~~ 119 (393)
+ |...++..-. ..|||+++....
T Consensus 77 -----~------~~l~~~a~~~N~~pLP~~~~~~g 100 (117)
T cd07979 77 -----R------DFLLELAREKNSIPLPPIPPSCG 100 (117)
T ss_pred -----H------HHHHHHHHHhccCCCCCCCCCCC
Confidence 1 2234444433 457777666553
No 13
>KOG3467 consensus Histone H4 [Chromatin structure and dynamics]
Probab=98.86 E-value=1.1e-08 Score=81.07 Aligned_cols=74 Identities=26% Similarity=0.341 Sum_probs=70.4
Q ss_pred CCChHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCCCCcccCC
Q 016189 3 IVPKETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRNVEPIYGFA 77 (393)
Q Consensus 3 ~~~~~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~nieplyGy~ 77 (393)
-+.+.+|+++|+..|+.+++.-+.++.......+|++++..|+.+..|+||+++|++||-++|+.++.. +|||.
T Consensus 29 gitKpaIRRlARr~GVkRi~G~~yeE~~~~~k~fl~n~i~~A~~yt~HAKRKTvT~~dvv~~LKR~G~~-~~g~~ 102 (103)
T KOG3467|consen 29 GITKPAIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRT-LYGFG 102 (103)
T ss_pred ccchHHHHHHHHhcCcchhchhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhceeeHHHHHHHHHHcCce-eeccC
Confidence 466899999999999999999999999999999999999999999999999999999999999999987 88885
No 14
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=98.63 E-value=1.7e-07 Score=74.17 Aligned_cols=66 Identities=20% Similarity=0.161 Sum_probs=62.5
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCCC
Q 016189 6 KETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRNVE 71 (393)
Q Consensus 6 ~~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~nie 71 (393)
.-+|..|.+..|+++.++++.+.|.+-++..+.++.+.+.++|.|++|++.+..||..||+.+|+.
T Consensus 9 ~~~Vaqil~~~Gf~~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~~gi~ 74 (77)
T smart00576 9 RIAVAQILESAGFDSFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALENLGIS 74 (77)
T ss_pred HHHHHHHHHHcCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhCcc
Confidence 346888999999999999999999999999999999999999999999999999999999998874
No 15
>PF00808 CBFD_NFYB_HMF: Histone-like transcription factor (CBF/NF-Y) and archaeal histone; InterPro: IPR003958 The CCAAT-binding factor (CBF) is a mammalian transcription factor that binds to a CCAAT motif in the promoters of a wide variety of genes, including type I collagen and albumin. The factor is a heteromeric complex of A and B subunits, both of which are required for DNA-binding [, ]. The subunits can interact in the absence of DNA-binding, conserved regions in each being important in mediating this interaction. The A subunit can be split into 3 domains on the basis of sequence similarity, a non-conserved N-terminal 'A domain'; a highly-conserved central 'B domain' involved in DNA-binding; and a C-terminal 'C domain', which contains a number of glutamine and acidic residues involved in protein-protein interactions []. The A subunit shows striking similarity to the HAP3 subunit of the yeast CCAAT-binding heterotrimeric transcription factor [, ]. The Kluyveromyces lactis HAP3 protein has been predicted to contain a 4-cysteine zinc finger, which is thought to be present in similar HAP3 and CBF subunit A proteins, in which the third cysteine is replaced by a serine []. This domain is found in the CCAAT transcription factor and archaeal histones.; GO: 0043565 sequence-specific DNA binding, 0005622 intracellular; PDB: 1F1E_A 2BYM_D 2BYK_D 1HTA_A 1B67_A 1JFI_B 1KU5_B 1N1J_A 1BFM_A 1B6W_A ....
Probab=98.45 E-value=9.1e-07 Score=67.57 Aligned_cols=63 Identities=24% Similarity=0.290 Sum_probs=57.4
Q ss_pred CCChHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHh
Q 016189 3 IVPKETIEVIAQSI-GVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSAL 65 (393)
Q Consensus 3 ~~~~~~i~~iaes~-G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al 65 (393)
.+|...|++|.+.. +..++|.|+...++...|.++..+.++|...+.+.+|++++.+||..|+
T Consensus 2 ~lP~a~vkri~k~~~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~~rkti~~~Dv~~Av 65 (65)
T PF00808_consen 2 SLPLARVKRIMKSDPDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTITYEDVAKAV 65 (65)
T ss_dssp SS-HHHHHHHHHHTSTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE-HHHHHHHH
T ss_pred CCChHHHHHHhccCCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHC
Confidence 38999999999999 7788999999999999999999999999999999999999999999986
No 16
>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=98.43 E-value=5e-07 Score=70.69 Aligned_cols=65 Identities=32% Similarity=0.500 Sum_probs=60.1
Q ss_pred CCChHHHHHHHHHcCCC-----CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhh
Q 016189 3 IVPKETIEVIAQSIGVY-----NLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNL 67 (393)
Q Consensus 3 ~~~~~~i~~iaes~G~~-----~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~ 67 (393)
.+|+.+|.+++++++-+ +++.++...|..-+||.+.+|+.+|..+|.|+||++|++.||+.|++.
T Consensus 5 ~~~~~~~~r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r~ 74 (75)
T PF00125_consen 5 LIPKFPFSRLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLAVRI 74 (75)
T ss_dssp SSSHHHHHHHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHHH
T ss_pred ccCceEEeeeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHHHhc
Confidence 36788888988888874 899999999999999999999999999999999999999999999874
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=98.38 E-value=2.4e-06 Score=66.81 Aligned_cols=65 Identities=20% Similarity=0.275 Sum_probs=58.5
Q ss_pred CChHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhc
Q 016189 4 VPKETIEVIAQSI-GVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLR 68 (393)
Q Consensus 4 ~~~~~i~~iaes~-G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~ 68 (393)
++++.+..+.+++ +-.+++++|...|.+-+|.++.+++.+|.++++|.||+|++..||..+|+..
T Consensus 2 ~~k~~l~~lv~~id~~~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r~ 67 (72)
T cd07981 2 LTKRKLQELLKEIDPREQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLERN 67 (72)
T ss_pred CcHHHHHHHHHhhCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHh
Confidence 5677777777777 3468999999999999999999999999999999999999999999999863
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=98.09 E-value=2.3e-05 Score=61.85 Aligned_cols=65 Identities=22% Similarity=0.239 Sum_probs=61.8
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCCC
Q 016189 7 ETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRNVE 71 (393)
Q Consensus 7 ~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~nie 71 (393)
.+|..++++.|++..++.+.+.|++-+..+++++.+.+.+|+.|++|+..+..||..||+.+|+.
T Consensus 10 ~~va~il~~~GF~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~~~gi~ 74 (77)
T PF07524_consen 10 RSVAQILKHAGFDSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQALEEMGIS 74 (77)
T ss_pred HHHHHHHHHcCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhCCC
Confidence 46778999999999999999999999999999999999999999999999999999999998874
No 19
>cd00074 H2A Histone 2A; H2A is a subunit of the nucleosome. The nucleosome is an octamer containing two H2A, H2B, H3, and H4 subunits. The H2A subunit performs essential roles in maintaining structural integrity of the nucleosome, chromatin condensation, and binding of specific chromatin-associated proteins.
Probab=97.85 E-value=5.3e-05 Score=64.56 Aligned_cols=65 Identities=17% Similarity=0.184 Sum_probs=61.4
Q ss_pred CCChHHHHHHHHH-cCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhh
Q 016189 3 IVPKETIEVIAQS-IGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNL 67 (393)
Q Consensus 3 ~~~~~~i~~iaes-~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~ 67 (393)
.||..-|.++.+. .+..+++++|...|+.-+||...||++.|.+.+++.||+++|++||+.|.+.
T Consensus 20 ~fPV~ri~R~Lk~~~~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi~n 85 (115)
T cd00074 20 QFPVGRIHRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAVRN 85 (115)
T ss_pred cCcHHHHHHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHHhc
Confidence 5788999999987 7889999999999999999999999999999999999999999999999864
No 20
>smart00428 H3 Histone H3.
Probab=97.69 E-value=0.00018 Score=60.31 Aligned_cols=63 Identities=21% Similarity=0.270 Sum_probs=55.2
Q ss_pred HHHHHHHHcCC---CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCC
Q 016189 8 TIEVIAQSIGV---YNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRNV 70 (393)
Q Consensus 8 ~i~~iaes~G~---~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~ni 70 (393)
-|+.|++...- -+++++|..+|.+.+|..+-++.++|..++.|+||.||++.|+..|.+.++.
T Consensus 38 LVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi~La~rir~~ 103 (105)
T smart00428 38 LVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQLARRIRGE 103 (105)
T ss_pred HHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhHHHHHHHhcc
Confidence 35667777531 2799999999999999999999999999999999999999999999987754
No 21
>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=97.54 E-value=0.00034 Score=60.79 Aligned_cols=62 Identities=26% Similarity=0.333 Sum_probs=52.5
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhc
Q 016189 7 ETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLR 68 (393)
Q Consensus 7 ~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~ 68 (393)
..|..|.+++|++...+.+...|.+-+--+..+|+++|.-|+.|++|+.++.+||..|.+.+
T Consensus 16 ~~i~~iL~~~Gv~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~~~DVrLAi~~r 77 (129)
T PF02291_consen 16 RVIHLILKSMGVTEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTIDADDVRLAIQSR 77 (129)
T ss_dssp HHHHHHHHHTT---B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHHHHT
T ss_pred HHHHHHHHHcCCcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHH
Confidence 46788999999999999999999999977899999999999999999999999999999876
No 22
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=97.53 E-value=0.00045 Score=54.65 Aligned_cols=59 Identities=19% Similarity=0.217 Sum_probs=49.6
Q ss_pred HHHHHHHHcCCC---CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhh
Q 016189 8 TIEVIAQSIGVY---NLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALN 66 (393)
Q Consensus 8 ~i~~iaes~G~~---~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~ 66 (393)
+|..|+|+.+.+ ++++.....|++-+=..+..+..|---|++|+||++++++||....+
T Consensus 10 ~v~ki~ee~~~~~~~~~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~~dDV~Ll~R 71 (76)
T PF15630_consen 10 TVGKIVEEEAKEKGVEVSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTINMDDVKLLAR 71 (76)
T ss_dssp HHHHHHHHCCCCTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHTT
T ss_pred HHHHHHHHHHhccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHHHhh
Confidence 467788887644 49999999999999999999999999999999999999999988765
No 23
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=97.12 E-value=0.0019 Score=53.47 Aligned_cols=77 Identities=22% Similarity=0.386 Sum_probs=61.1
Q ss_pred HHHHHHHHHHhhcCCCcccccchhhhHHHHHHHHhccccCCCCCCcchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHH
Q 016189 230 LFALMRVARSLLRNPHIHIEPYLHQMMPSVITCLVSKRLGNRFSDNHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTL 309 (393)
Q Consensus 230 L~~ll~~v~ALl~N~~l~ie~YlHqLlpslltcll~k~l~~~~~~~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l 309 (393)
|..+-.++.||-.. ++.|+..|+|+++.|+ .|++|++|.+|.+.|..|++-+....-.--..|...|
T Consensus 7 li~Laa~ai~l~~~----~~~~l~~Il~pVL~~~---------~D~d~rVRy~AcEaL~ni~k~~~~~~l~~f~~IF~~L 73 (97)
T PF12755_consen 7 LIGLAAVAIALGKD----ISKYLDEILPPVLKCF---------DDQDSRVRYYACEALYNISKVARGEILPYFNEIFDAL 73 (97)
T ss_pred HHHHHHHHHHchHh----HHHHHHHHHHHHHHHc---------CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555566666655 9999999999999995 6889999999999999999887754433346677888
Q ss_pred HHHhcCCCCC
Q 016189 310 LHAFLDPTKS 319 (393)
Q Consensus 310 ~k~l~d~~~~ 319 (393)
.|.+.|++.+
T Consensus 74 ~kl~~D~d~~ 83 (97)
T PF12755_consen 74 CKLSADPDEN 83 (97)
T ss_pred HHHHcCCchh
Confidence 8888887765
No 24
>KOG3334 consensus Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=96.89 E-value=0.0041 Score=54.44 Aligned_cols=62 Identities=23% Similarity=0.289 Sum_probs=56.3
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcC
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRN 69 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~n 69 (393)
-|..|.+++||+.-.+-+...|-+-.=-....|+++|.-|.+|+|+.++.++||..|+.++.
T Consensus 18 ~i~~iL~s~GI~eyEprVi~qlLefa~rYtt~vL~DA~vys~HA~ka~i~~eDVrlA~~~~~ 79 (148)
T KOG3334|consen 18 VIASILKSLGIQEYEPRVINQLLEFAYRYTTTVLDDAKVYSSHAKKATIDAEDVRLAIQMRV 79 (148)
T ss_pred HHHHHHHHcCccccChHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHh
Confidence 46678999999999999999888777666999999999999999999999999999998864
No 25
>KOG0869 consensus CCAAT-binding factor, subunit A (HAP3) [Transcription]
Probab=96.69 E-value=0.0078 Score=53.38 Aligned_cols=69 Identities=16% Similarity=0.152 Sum_probs=62.1
Q ss_pred CCChHHHHHHHHHcCC--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCCC
Q 016189 3 IVPKETIEVIAQSIGV--YNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRNVE 71 (393)
Q Consensus 3 ~~~~~~i~~iaes~G~--~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~nie 71 (393)
.+|.+.|-+|.+..== ..+++||.+.+-+.|..+|.-|--||..-+.+-||||++.+||--|+..++.|
T Consensus 32 ~LPIANV~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~tLGFe 102 (168)
T KOG0869|consen 32 FLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMSTLGFE 102 (168)
T ss_pred hccHHHHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHHHcCcH
Confidence 4788899998887522 25999999999999999999999999999999999999999999999998876
No 26
>PLN00160 histone H3; Provisional
Probab=96.63 E-value=0.0075 Score=49.82 Aligned_cols=62 Identities=19% Similarity=0.359 Sum_probs=54.0
Q ss_pred HHHHHHHHcC--CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcC
Q 016189 8 TIEVIAQSIG--VYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRN 69 (393)
Q Consensus 8 ~i~~iaes~G--~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~n 69 (393)
-|+.|++... --+...+|..+|-+..|..|-.+.++|...+.|+||-||++.|+..|.+.++
T Consensus 30 LVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~~L~~rirg 93 (97)
T PLN00160 30 LVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDMQLARRIRG 93 (97)
T ss_pred HHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhHHHHHHhhc
Confidence 3566777653 1378899999999999999999999999999999999999999999987764
No 27
>PTZ00018 histone H3; Provisional
Probab=96.58 E-value=0.0074 Score=52.80 Aligned_cols=62 Identities=24% Similarity=0.383 Sum_probs=54.5
Q ss_pred HHHHHHHc--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCCC
Q 016189 9 IEVIAQSI--GVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRNVE 71 (393)
Q Consensus 9 i~~iaes~--G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~nie 71 (393)
|+.|++.. ++ +...+|..+|-+..|.+|-.+.+++..++.|+||-||+..|+..|.+.++.+
T Consensus 72 VREI~~~~~~~~-rf~~~al~aLQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~rirg~~ 135 (136)
T PTZ00018 72 VREIAQDFKTDL-RFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGER 135 (136)
T ss_pred HHHHHHHcCCcc-eeeHHHHHHHHHHHHHHHHHHhhhhHHHHHhhcceecchhhHHHHHHhcccC
Confidence 55666654 33 7899999999999999999999999999999999999999999998877653
No 28
>PLN00121 histone H3; Provisional
Probab=96.58 E-value=0.0076 Score=52.71 Aligned_cols=62 Identities=24% Similarity=0.350 Sum_probs=54.3
Q ss_pred HHHHHHHcCCC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCC
Q 016189 9 IEVIAQSIGVY-NLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRNV 70 (393)
Q Consensus 9 i~~iaes~G~~-~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~ni 70 (393)
|+.|+...+-+ +...+|..+|-+..|.+|-.+.+++..++.|+||-||++.|+..|.+.++.
T Consensus 72 VREI~~~~~~~~Rf~~~Al~ALQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~rirg~ 134 (136)
T PLN00121 72 VREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGE 134 (136)
T ss_pred HHHHHHHhCccceeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcceecchhhHHHHHHhccc
Confidence 56677665322 789999999999999999999999999999999999999999999887754
No 29
>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=96.52 E-value=0.016 Score=46.87 Aligned_cols=66 Identities=24% Similarity=0.220 Sum_probs=60.1
Q ss_pred CCChHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC---CccCHhhHHHHhhhc
Q 016189 3 IVPKETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHR---TVLTANDVDSALNLR 68 (393)
Q Consensus 3 ~~~~~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR---~~Lt~~Di~~Al~~~ 68 (393)
-+++..||++..++-=..++++++..++.-...++-+|+++|.+.|...+. +-|.+.||..|.+.+
T Consensus 16 ~f~k~~iKr~~~~~~~~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~HireA~rrl 84 (85)
T cd08048 16 SFPKAAIKRLIQSVTGQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHLREAYRRL 84 (85)
T ss_pred hccHHHHHHHHHHHcCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHHHHHHHHh
Confidence 489999999888776689999999999999999999999999999999776 789999999998754
No 30
>PLN00161 histone H3; Provisional
Probab=96.47 E-value=0.014 Score=50.87 Aligned_cols=66 Identities=18% Similarity=0.253 Sum_probs=57.6
Q ss_pred HHHHHHHHcCC--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCCCCc
Q 016189 8 TIEVIAQSIGV--YNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRNVEPI 73 (393)
Q Consensus 8 ~i~~iaes~G~--~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~niepl 73 (393)
-|+.|+....- -+...+|..+|-+..|.+|-++.++|-.++.|+||-||.+.|+..|.+.++..+-
T Consensus 64 LVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm~La~rirg~~~~ 131 (135)
T PLN00161 64 LVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDMQLARRIRGPIYG 131 (135)
T ss_pred HHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhHHHHHHhcccccc
Confidence 36667776531 3788999999999999999999999999999999999999999999998877643
No 31
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T.
Probab=96.40 E-value=0.0075 Score=62.32 Aligned_cols=57 Identities=19% Similarity=0.326 Sum_probs=47.2
Q ss_pred CChHHHHHHHHHc------CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhh
Q 016189 4 VPKETIEVIAQSI------GVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTAND 60 (393)
Q Consensus 4 ~~~~~i~~iaes~------G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~D 60 (393)
+|...||.+|... +..+|+.++.++|-+..+++.+|+..+---|+.|+||||+..+|
T Consensus 352 lP~~~vK~la~~~ak~s~~sK~kiskdal~aleqasdwfFeQl~dDL~aYA~HAgRKTIdesD 414 (414)
T PF15511_consen 352 LPPGVVKKLAQHFAKSSGGSKMKISKDALEALEQASDWFFEQLGDDLEAYAKHAGRKTIDESD 414 (414)
T ss_dssp S-HHHHHHHHHHHH-------S-B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHH
T ss_pred CCccHHHHHHHHHHHhhcccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCCCC
Confidence 6888999988777 55789999999999999999999999999999999999999887
No 32
>PF03847 TFIID_20kDa: Transcription initiation factor TFIID subunit A; InterPro: IPR003228 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription [].; GO: 0006352 transcription initiation, DNA-dependent, 0005669 transcription factor TFIID complex; PDB: 1H3O_B.
Probab=96.34 E-value=0.021 Score=44.16 Aligned_cols=62 Identities=21% Similarity=0.265 Sum_probs=49.9
Q ss_pred hHHHHHHHHHcCCC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhh
Q 016189 6 KETIEVIAQSIGVY-NLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNL 67 (393)
Q Consensus 6 ~~~i~~iaes~G~~-~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~ 67 (393)
+..+..+.++++-. .+++++...|.+-++.++..++..|.+.++|.|-.+|...||...|+.
T Consensus 2 K~~l~~Lv~~iDp~~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~tle~~Dv~~~Ler 64 (68)
T PF03847_consen 2 KRKLQELVKQIDPNEKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSSTLEVKDVQLHLER 64 (68)
T ss_dssp HHHHHHHHHCC-SS----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHHHH
T ss_pred hHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHHh
Confidence 45666777777654 599999999999999999999999999999999999999999999875
No 33
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=95.88 E-value=0.023 Score=54.54 Aligned_cols=82 Identities=27% Similarity=0.351 Sum_probs=65.2
Q ss_pred ChHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhh-cCCCCcccCCCCCCc
Q 016189 5 PKETIEVIAQSI-GVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNL-RNVEPIYGFASGDSL 82 (393)
Q Consensus 5 ~~~~i~~iaes~-G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~-~nieplyGy~s~~~l 82 (393)
.+.-+...-+.+ |-+.|++|+.+.|.+..+.++..|+.-|.++++|.|..+|-+-||...|+. .|++ +-||++.+.-
T Consensus 156 ~k~kl~dLvqqId~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhLEr~~Nm~-iPgf~sd~~~ 234 (258)
T KOG1142|consen 156 SKRKLDDLVQQIDGTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHLERNFNME-IPGFSSDEKR 234 (258)
T ss_pred cccchhHHHHhhcCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeeeecccccc-CCCccccccc
Confidence 344444444444 445699999999999999999999999999999999999999999999987 5887 5577766544
Q ss_pred ceeec
Q 016189 83 RFKRA 87 (393)
Q Consensus 83 ~f~~~ 87 (393)
.+++.
T Consensus 235 ~~~k~ 239 (258)
T KOG1142|consen 235 SKKKA 239 (258)
T ss_pred ccccc
Confidence 45554
No 34
>KOG0870 consensus DNA polymerase epsilon, subunit D [Transcription]
Probab=95.48 E-value=0.061 Score=48.27 Aligned_cols=73 Identities=18% Similarity=0.202 Sum_probs=63.9
Q ss_pred CCChHHHHHHHHHcCCC---CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCCCCccc
Q 016189 3 IVPKETIEVIAQSIGVY---NLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRNVEPIYG 75 (393)
Q Consensus 3 ~~~~~~i~~iaes~G~~---~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~nieplyG 75 (393)
.+|...|.++++.+=-+ .++.||..+++.-..-++.-+.--|-.|++..+|++++++||-.||+.++.+-+.|
T Consensus 10 ~lP~AiI~rlvke~l~E~~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~Eiefs~f~~ 85 (172)
T KOG0870|consen 10 NLPNAIITRLVKEVLPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALDEIEFSSFVN 85 (172)
T ss_pred hccHHHHHHHHHHhCccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHHHhchHHHhh
Confidence 47899999888766433 48999999999999999999999999999999999999999999999887664443
No 35
>COG5094 TAF9 Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=95.43 E-value=0.04 Score=47.10 Aligned_cols=60 Identities=23% Similarity=0.396 Sum_probs=52.8
Q ss_pred HHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCH---hhHHHHhhhc
Q 016189 9 IEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTA---NDVDSALNLR 68 (393)
Q Consensus 9 i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~---~Di~~Al~~~ 68 (393)
|-.|..|+||..-++.+--.|-+..--.-.++++||.-|+.|++|+..++ +||..|+...
T Consensus 20 ihliL~Slgi~~ye~~VplQLl~FAhRYTq~vl~Dalvya~htgrg~~a~l~veDvrLA~at~ 82 (145)
T COG5094 20 IHLILRSLGIEEYEPKVPLQLLEFAHRYTQDVLEDALVYAKHTGRGHIATLGVEDVRLALATK 82 (145)
T ss_pred HHHHHHhcCchhhCccchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCcccHHHHHHHHHHH
Confidence 55689999999999999998988888888999999999999999985555 9999999664
No 36
>KOG4336 consensus TBP-associated transcription factor Prodos [Transcription]
Probab=95.28 E-value=0.057 Score=52.87 Aligned_cols=68 Identities=22% Similarity=0.295 Sum_probs=62.1
Q ss_pred HHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCCC--CcccC
Q 016189 9 IEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRNVE--PIYGF 76 (393)
Q Consensus 9 i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~nie--plyGy 76 (393)
|..+..+.|++.+++.+.+.|.+-+.-.+++|-+++..+..|+||+..|..||...|..+|+. -||-|
T Consensus 11 V~~Ll~~~gfd~is~~aletlvell~~yi~eigrq~~n~celagRT~pT~~Dv~l~Li~mnI~v~sL~~~ 80 (323)
T KOG4336|consen 11 VSNLLKTKGFDSISNAALETLVELLQSYIREIGRQLHNYCELAGRTIPTQGDVKLTLIEMNIKVSSLYAY 80 (323)
T ss_pred HHHHHHHhCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHHHhCCChhhhHHH
Confidence 556889999999999999999999999999999999999999999999999999999998875 45544
No 37
>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ]. The domain is also found in other proteins involved in microtubule binding, including STU1, MOR1 and spindle pole body component Alp14.; PDB: 2QK2_A.
Probab=94.98 E-value=0.26 Score=45.91 Aligned_cols=174 Identities=18% Similarity=0.184 Sum_probs=95.4
Q ss_pred HHHHHHHHhhhhcCCc---ccchhhHHHHHH---HHHhhccCCh--HHHHHHHHHHHHhhcCCCcccccchhhhHHHHHH
Q 016189 190 TVFKQALLSLAMDSGL---HPLVPYFTYFIS---EEVTRSLKNF--SLLFALMRVARSLLRNPHIHIEPYLHQMMPSVIT 261 (393)
Q Consensus 190 ~~~~~aL~sL~tD~gL---~~LlPy~~~fi~---e~v~~nl~nl--~~L~~ll~~v~ALl~N~~l~ie~YlHqLlpsllt 261 (393)
..|.+||..|+.--.- ....|-|+..+. ..+...+.++ ......+.++..|..+-.-.+++|+..++|+++.
T Consensus 22 ~~r~~al~~L~~l~~~~~~~~~~~~~~~~l~~~~~~i~~~l~d~Rs~v~~~A~~~l~~l~~~l~~~~~~~~~~~l~~Ll~ 101 (228)
T PF12348_consen 22 EERVEALQKLRSLIKGNAPEDFPPDFVECLRQLLDAIIKQLSDLRSKVSKTACQLLSDLARQLGSHFEPYADILLPPLLK 101 (228)
T ss_dssp HHHHHHHHHHHHHHHH-B-----HHHHHHHH---HHHHH-S-HH---HHHHHHHHHHHHHHHHGGGGHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCCccccHHHHHHHHHHhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence 4455666555543211 233344444443 4555555543 3334455556666655555699999999999988
Q ss_pred HHhccccCCCCCCcchHHHHHHHHHHHHHHHHcCCCchhhHHHH-HHHHHHHhcCCCCCchhHhHHHHHHHhh----C--
Q 016189 262 CLVSKRLGNRFSDNHWDLRNFVADLIASICTRFGHVYQNLQSRV-TRTLLHAFLDPTKSLSQHYGAIQGLAAL----G-- 334 (393)
Q Consensus 262 cll~k~l~~~~~~~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri-~~~l~k~l~d~~~~l~t~YGAi~GL~~l----G-- 334 (393)
++-.+ .=-+|+.|..+|..||..++ ..+++ ...+...+. +++...+.+++..|..+ |
T Consensus 102 ~~~~~---------~~~i~~~a~~~L~~i~~~~~-----~~~~~~~~~l~~~~~--~Kn~~vR~~~~~~l~~~l~~~~~~ 165 (228)
T PF12348_consen 102 KLGDS---------KKFIREAANNALDAIIESCS-----YSPKILLEILSQGLK--SKNPQVREECAEWLAIILEKWGSD 165 (228)
T ss_dssp GGG------------HHHHHHHHHHHHHHHTTS------H--HHHHHHHHHHTT---S-HHHHHHHHHHHHHHHTT----
T ss_pred HHccc---------cHHHHHHHHHHHHHHHHHCC-----cHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHHHHHccch
Confidence 86332 12699999999999999766 22356 444555443 67777777777665544 3
Q ss_pred HHhHHHhcccchHHHHHhhhHhHhhhhhhhhhHHHHHHHHHhHhhhhhhc
Q 016189 335 PSVVHLLILPNLELYLKFLEPEMLLEKQKNEMKRHEAWRVYGALQVDFFF 384 (393)
Q Consensus 335 ~~~vr~~ilP~l~~~~~~l~~~l~~~~~~~~~~~~~a~~v~~~l~~a~~~ 384 (393)
...+... ..++.+.+.|...+. +.+.-.|..|.+++..+...++-
T Consensus 166 ~~~l~~~--~~~~~l~~~l~~~l~---D~~~~VR~~Ar~~~~~l~~~~~~ 210 (228)
T PF12348_consen 166 SSVLQKS--AFLKQLVKALVKLLS---DADPEVREAARECLWALYSHFPE 210 (228)
T ss_dssp -GGG--H--HHHHHHHHHHHHHHT---SS-HHHHHHHHHHHHHHHHHH-H
T ss_pred Hhhhccc--chHHHHHHHHHHHCC---CCCHHHHHHHHHHHHHHHHHCCH
Confidence 1112111 012444445544443 35567899999999988776553
No 38
>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=94.98 E-value=0.12 Score=42.30 Aligned_cols=66 Identities=23% Similarity=0.192 Sum_probs=48.6
Q ss_pred CCCChHHHHHHHHHcCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC-ccCHhhHHHHhhh
Q 016189 2 SIVPKETIEVIAQSIGV-YNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRT-VLTANDVDSALNL 67 (393)
Q Consensus 2 s~~~~~~i~~iaes~G~-~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~-~Lt~~Di~~Al~~ 67 (393)
|-+++..||.+..++-- ..+++.++..++.-...++-|||++|...+..-+-+ -|++.++..|.+-
T Consensus 22 s~~~k~~ikkli~~~~~~qsv~~~v~i~v~g~aKvFVGEiVE~A~~Vq~~~~~~~pl~P~hlreA~rr 89 (90)
T PF04719_consen 22 SSFNKAAIKKLINQVLGNQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGETGPLQPDHLREAYRR 89 (90)
T ss_dssp ----HHHHHHHHHHHHS-S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SS--HHHHHHHHHH
T ss_pred ccCCHHHHHHHHHHHcCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHHh
Confidence 45889999998777544 689999999999999999999999999999865543 7999999999864
No 39
>KOG2023 consensus Nuclear transport receptor Karyopherin-beta2/Transportin (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=94.88 E-value=0.48 Score=51.25 Aligned_cols=120 Identities=19% Similarity=0.307 Sum_probs=83.0
Q ss_pred HHHHHHHhhcCCCc--ccccchhhhHHHHHHHHhcccc-----CCC--------------------------C------C
Q 016189 233 LMRVARSLLRNPHI--HIEPYLHQMMPSVITCLVSKRL-----GNR--------------------------F------S 273 (393)
Q Consensus 233 ll~~v~ALl~N~~l--~ie~YlHqLlpslltcll~k~l-----~~~--------------------------~------~ 273 (393)
--.+-.|+..+|-. -+.|||.+|+|.++.-++-... ++. . .
T Consensus 276 ACEFwla~aeqpi~~~~L~p~l~kliPvLl~~M~Ysd~D~~LL~~~eeD~~vpDreeDIkPRfhksk~~~~~~~~~~eDd 355 (885)
T KOG2023|consen 276 ACEFWLALAEQPICKEVLQPYLDKLIPVLLSGMVYSDDDIILLKNNEEDESVPDREEDIKPRFHKSKEHGNGEDADDEDD 355 (885)
T ss_pred HHHHHHHHhcCcCcHHHHHHHHHHHHHHHHccCccccccHHHhcCccccccCCchhhhccchhhhchhccCccccccccc
Confidence 34566789999933 6799999999999988765432 100 0 0
Q ss_pred C----------cchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcCCCCCchhHhHHHHHHHhhCHHhHHHhcc
Q 016189 274 D----------NHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAALGPSVVHLLIL 343 (393)
Q Consensus 274 ~----------~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~lG~~~vr~~il 343 (393)
+ ..|.||..+|..|.-+.+-|+ ..+-+-++-.+++.|.. .....+-.+|.+|.++-. ..-..++
T Consensus 356 ddDe~DDdD~~~dWNLRkCSAAaLDVLanvf~---~elL~~l~PlLk~~L~~--~~W~vrEagvLAlGAIAE-GcM~g~~ 429 (885)
T KOG2023|consen 356 DDDEDDDDDAFSDWNLRKCSAAALDVLANVFG---DELLPILLPLLKEHLSS--EEWKVREAGVLALGAIAE-GCMQGFV 429 (885)
T ss_pred cccccccccccccccHhhccHHHHHHHHHhhH---HHHHHHHHHHHHHHcCc--chhhhhhhhHHHHHHHHH-HHhhhcc
Confidence 1 249999999999999999999 56777777777777764 444455555555555532 3334568
Q ss_pred cchHHHHHhhhHhHh
Q 016189 344 PNLELYLKFLEPEML 358 (393)
Q Consensus 344 P~l~~~~~~l~~~l~ 358 (393)
|+|+.+...+-+-|.
T Consensus 430 p~LpeLip~l~~~L~ 444 (885)
T KOG2023|consen 430 PHLPELIPFLLSLLD 444 (885)
T ss_pred cchHHHHHHHHHHhc
Confidence 999888877766654
No 40
>smart00427 H2B Histone H2B.
Probab=94.64 E-value=0.19 Score=40.96 Aligned_cols=60 Identities=20% Similarity=0.223 Sum_probs=50.3
Q ss_pred HHHHHHHcCCC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhc
Q 016189 9 IEVIAQSIGVY-NLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLR 68 (393)
Q Consensus 9 i~~iaes~G~~-~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~ 68 (393)
|.++.+++-=+ .+|..+...+..-+......|..||.++++..||+|||..+|..|.+..
T Consensus 7 i~kvLKqVhpd~giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~TltsreIqtAvrl~ 67 (89)
T smart00427 7 IYKVLKQVHPDTGISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLSSREIQTAVRLI 67 (89)
T ss_pred HHHHHHHhCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHHH
Confidence 34444444332 4788999999999999999999999999999999999999999999874
No 41
>smart00414 H2A Histone 2A.
Probab=94.62 E-value=0.12 Score=43.59 Aligned_cols=65 Identities=17% Similarity=0.213 Sum_probs=56.6
Q ss_pred CCChHHHHHHHHHcC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhh
Q 016189 3 IVPKETIEVIAQSIG-VYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNL 67 (393)
Q Consensus 3 ~~~~~~i~~iaes~G-~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~ 67 (393)
.||-.-|.++.+... ..+++..++-.||.-+||-..||++-|...++..|++++|+.||+.|.+.
T Consensus 9 ~fPVgRi~r~Lk~~~~~~Rv~~~A~VyLaAvLEYLtaEILeLagn~a~~~k~~rItp~hi~lAi~n 74 (106)
T smart00414 9 QFPVGRIHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIRN 74 (106)
T ss_pred cCchHHHHHHHHcCccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchHHHhhhccC
Confidence 366667777776643 55899999999999999999999999999999999999999999999843
No 42
>PF02985 HEAT: HEAT repeat; InterPro: IPR000357 The HEAT repeat is a tandemly repeated, 37-47 amino acid long module occurring in a number of cytoplasmic proteins, including the four name-giving proteins huntingtin, elongation factor 3 (EF3), the 65 Kd alpha regulatory subunit of protein phosphatase 2A (PP2A) and the yeast PI3-kinase TOR1 []. Arrays of HEAT repeats consists of 3 to 36 units forming a rod-like helical structure and appear to function as protein-protein interaction surfaces. It has been noted that many HEAT repeat-containing proteins are involved in intracellular transport processes. In the crystal structure of PP2A PR65/A [], the HEAT repeats consist of pairs of antiparallel alpha helices [].; GO: 0005515 protein binding; PDB: 3FGA_A 2PF4_C 2IAE_A 2BKU_D 3EA5_B 3ND2_A 2BPT_A 2NYL_A 2NPP_D 2PKG_B ....
Probab=93.95 E-value=0.12 Score=33.31 Aligned_cols=30 Identities=20% Similarity=0.431 Sum_probs=24.7
Q ss_pred hHHHHHHHHhccccCCCCCCcchHHHHHHHHHHHHHHHH
Q 016189 255 MMPSVITCLVSKRLGNRFSDNHWDLRNFVADLIASICTR 293 (393)
Q Consensus 255 Llpslltcll~k~l~~~~~~~h~~LR~~AA~lL~~I~~~ 293 (393)
|+|.++.++ .|.+|.+|+.|+..|+.|++.
T Consensus 1 llp~l~~~l---------~D~~~~VR~~a~~~l~~i~~~ 30 (31)
T PF02985_consen 1 LLPILLQLL---------NDPSPEVRQAAAECLGAIAEH 30 (31)
T ss_dssp HHHHHHHHH---------T-SSHHHHHHHHHHHHHHHHT
T ss_pred CHHHHHHHc---------CCCCHHHHHHHHHHHHHHHhh
Confidence 578888775 478999999999999999874
No 43
>KOG2389 consensus Predicted bromodomain transcription factor [Transcription]
Probab=93.90 E-value=0.16 Score=50.72 Aligned_cols=66 Identities=20% Similarity=0.160 Sum_probs=61.9
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCCC
Q 016189 6 KETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRNVE 71 (393)
Q Consensus 6 ~~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~nie 71 (393)
...|.-|++++|.+...+.+.+.|...+..+|.++-+.|..|+.+++|.--..-||-.||+.+...
T Consensus 32 ~~avaQIcqslg~~~~~~sale~Ltd~~~qyvQ~lgk~a~~~~n~anR~epnl~Div~Al~dls~s 97 (353)
T KOG2389|consen 32 RVAVAQICQSLGYSSTQNSALETLTDVLQQYVQNLGKTAHRYSNLANRTEPNLFDIVLALQDLSAS 97 (353)
T ss_pred HHHHHHHHHhcCCcccccHHHHHHHHHHHHHHHHHHhhhhhhhhhcCCCCccHHHHHHHHHHhhhh
Confidence 467888999999999999999999999999999999999999999999999999999999998665
No 44
>PLN00154 histone H2A; Provisional
Probab=93.86 E-value=0.22 Score=43.54 Aligned_cols=65 Identities=15% Similarity=0.099 Sum_probs=58.5
Q ss_pred CCChHHHHHHHHHcC--CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhh
Q 016189 3 IVPKETIEVIAQSIG--VYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNL 67 (393)
Q Consensus 3 ~~~~~~i~~iaes~G--~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~ 67 (393)
.||-.-|.++.+... ..+++..+.-.||.-+||-.-||++-|...++..|++++|+.||..|.+.
T Consensus 38 ~FPVgRi~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lAIrn 104 (136)
T PLN00154 38 QFPVGRIHRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 104 (136)
T ss_pred cCchHHHHHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhhccC
Confidence 367777888888865 56999999999999999999999999999999999999999999999843
No 45
>PTZ00463 histone H2B; Provisional
Probab=93.29 E-value=0.48 Score=40.32 Aligned_cols=60 Identities=15% Similarity=0.186 Sum_probs=50.2
Q ss_pred HHHHHHHcCCC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhc
Q 016189 9 IEVIAQSIGVY-NLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLR 68 (393)
Q Consensus 9 i~~iaes~G~~-~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~ 68 (393)
|..+.+++--+ .+|..+...+...|......|..||.++++..+|.|||..||..|.+.+
T Consensus 34 I~KVLKqVhPd~gIS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAvrLl 94 (117)
T PTZ00463 34 IFKVLKQVHPDTGISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAIRLV 94 (117)
T ss_pred HHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHhhc
Confidence 44444444322 4688999999999999999999999999999999999999999999875
No 46
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]
Probab=93.10 E-value=0.22 Score=42.29 Aligned_cols=65 Identities=17% Similarity=0.238 Sum_probs=58.5
Q ss_pred CCCChHHHHHHHH-HcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhh
Q 016189 2 SIVPKETIEVIAQ-SIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALN 66 (393)
Q Consensus 2 s~~~~~~i~~iae-s~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~ 66 (393)
+.+|.--|+++.+ .-+-.+++.+++-.++..+||-..||++-|...++--|.+++++.+++.|++
T Consensus 25 l~fpvgrvkr~lk~~~~~~Rig~~A~Vyl~AvleYL~aEilelAgNaA~d~kkkri~PrHlqlAIr 90 (132)
T COG5262 25 LIFPVGRVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIPRHLQLAIR 90 (132)
T ss_pred ccccHHHHHHHHHcCccceeecCCcHHHHHHHHHHHHHHHHHHhhhhhhhcCcceechHHHHHHhc
Confidence 3578888999888 5556689999999999999999999999999999999999999999999983
No 47
>PF13513 HEAT_EZ: HEAT-like repeat; PDB: 2Z5J_A 2OT8_B 2Z5O_A 2H4M_A 2QMR_A 1QBK_B 2Z5M_A 2Z5K_A 2Z5N_A 1GCJ_B ....
Probab=93.02 E-value=0.066 Score=38.75 Aligned_cols=55 Identities=16% Similarity=0.113 Sum_probs=45.1
Q ss_pred hHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcCCCCCchhHhHHHHHHHhh
Q 016189 277 WDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAAL 333 (393)
Q Consensus 277 ~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~l 333 (393)
|.+|.-|+..|+.++...+.......+.++..|.+.|.|++. ..+-.|..+|..|
T Consensus 1 p~vR~~A~~aLg~l~~~~~~~~~~~~~~~~~~L~~~L~d~~~--~VR~~A~~aLg~l 55 (55)
T PF13513_consen 1 PRVRRAAAWALGRLAEGCPELLQPYLPELLPALIPLLQDDDD--SVRAAAAWALGNL 55 (55)
T ss_dssp HHHHHHHHHHHHCTTTTTHHHHHHHHHHHHHHHHHHTTSSSH--HHHHHHHHHHHCH
T ss_pred CHHHHHHHHHHhhHhcccHHHHHHHHHHHHHHHHHHHcCCCH--HHHHHHHHHHhcC
Confidence 899999999999987666666667888899999998887555 7788888888754
No 48
>PLN00158 histone H2B; Provisional
Probab=92.99 E-value=0.54 Score=40.03 Aligned_cols=60 Identities=18% Similarity=0.197 Sum_probs=50.2
Q ss_pred HHHHHHHcCCC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhc
Q 016189 9 IEVIAQSIGVY-NLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLR 68 (393)
Q Consensus 9 i~~iaes~G~~-~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~ 68 (393)
|..+.+++-=+ .+|..+...+...|......|..||.++++..+|.+||..||..|.+.+
T Consensus 33 I~kVLKQVhPd~gIS~kaM~ImnSfvnDiferIA~EAs~La~~nkr~TltsrEIqtAvrLv 93 (116)
T PLN00158 33 IYKVLKQVHPDTGISSKAMSIMNSFINDIFEKIATEAGKLARYNKKPTVTSREIQTAVRLI 93 (116)
T ss_pred HHHHHHHhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHHh
Confidence 44455554322 4688888999999999999999999999999999999999999999874
No 49
>KOG1756 consensus Histone 2A [Chromatin structure and dynamics]
Probab=92.53 E-value=0.34 Score=41.76 Aligned_cols=64 Identities=20% Similarity=0.249 Sum_probs=56.1
Q ss_pred CCChHHHHHHHHH-cCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhh
Q 016189 3 IVPKETIEVIAQS-IGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALN 66 (393)
Q Consensus 3 ~~~~~~i~~iaes-~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~ 66 (393)
.+|.--|.++.+. -...+++..+.-.||.-+||-.-||++-|-.+++-.|++++++.+|+.|++
T Consensus 27 ~fPvgri~r~Lr~~~~~~ri~~gapV~laavLeYL~Aeile~agnaardnkk~ri~PrH~~lAI~ 91 (131)
T KOG1756|consen 27 QFPVGRIHRLLRKGRYAQRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRITPRHLQLAIR 91 (131)
T ss_pred ccCHHHHHHHHHccchhhhccCCChHHHHHHHHHHHHHHHHHhHHHhhhcCccccChHHHHHHHh
Confidence 4566667776666 556688999999999999999999999999999999999999999999984
No 50
>PTZ00017 histone H2A; Provisional
Probab=92.50 E-value=0.33 Score=42.47 Aligned_cols=64 Identities=14% Similarity=0.192 Sum_probs=54.8
Q ss_pred CCChHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhh
Q 016189 3 IVPKETIEVIAQSI-GVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALN 66 (393)
Q Consensus 3 ~~~~~~i~~iaes~-G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~ 66 (393)
.||-.-|.++.+.. -..+++..+.-.||.-+||-..||++-|...++..|++++|+.||..|++
T Consensus 27 ~FPVgRi~R~Lk~g~~a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~RItPrHi~lAI~ 91 (134)
T PTZ00017 27 QFPVGRVHRYLKKGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLAIR 91 (134)
T ss_pred ccchHHHHHHHhccchhccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHhhcc
Confidence 35666666666543 34589999999999999999999999999999999999999999999984
No 51
>PF12460 MMS19_C: RNAPII transcription regulator C-terminal; InterPro: IPR024687 This domain, approximately 60 amino acids in length, is found in the N-terminal region of MMS19 proteins. MMS19 is required for both nucleotide excision repair (NER) and RNA polymerase II (RNAP II) transcription [].
Probab=92.15 E-value=7.9 Score=39.90 Aligned_cols=175 Identities=18% Similarity=0.179 Sum_probs=104.9
Q ss_pred HHHHhhhhcCCc-ccchhhHHHHHHHHHhhccCChHHHHHHHHHHHHh----hcCC-Ccccccchhh-hHHHHHHHHhcc
Q 016189 194 QALLSLAMDSGL-HPLVPYFTYFISEEVTRSLKNFSLLFALMRVARSL----LRNP-HIHIEPYLHQ-MMPSVITCLVSK 266 (393)
Q Consensus 194 ~aL~sL~tD~gL-~~LlPy~~~fi~e~v~~nl~nl~~L~~ll~~v~AL----l~N~-~l~ie~YlHq-Llpslltcll~k 266 (393)
++|..+.+++.+ ..++|+++.-+.......- +......+++.+..+ ..+. +...+-|.|. ++|.++..++..
T Consensus 24 ~~l~~ls~~~~i~~~~~~~ll~kl~~~~~~~~-~~~~~~~il~tl~~~~~~~~~~~~~~~~~~y~~~~lv~~l~~~~~~~ 102 (415)
T PF12460_consen 24 EALAALSTSPQILETLSIRLLNKLSIVCQSES-SSDYCHAILSTLQSLLEKKQEDKQFEDNSWYFHRILVPRLFELALQA 102 (415)
T ss_pred HHHHHHHCChhHHHHHHHHHHHHHHHHhcCCC-ChHHHHHHHHHHHHHHHhcccccccchHHHHHHhHHHHHHHHHHHhh
Confidence 467777777774 6667766666654443222 333333344444444 3334 6677899997 888888877776
Q ss_pred ccCCCCCCcchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhc----------CCCCC--chhHhHHHH--HHHh
Q 016189 267 RLGNRFSDNHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFL----------DPTKS--LSQHYGAIQ--GLAA 332 (393)
Q Consensus 267 ~l~~~~~~~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~----------d~~~~--l~t~YGAi~--GL~~ 332 (393)
...... .++.+=+.+++++..|++..+ ++-|..+...+.+.|+ +.... -.+.+-.+. .+.+
T Consensus 103 ~~~~~~--~~~~~L~~~~~l~~~iv~~l~---~~~q~~~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~~~~l~~~il~~ 177 (415)
T PF12460_consen 103 SDQSSD--LDDRVLELLSRLINLIVRSLS---PEKQQEILDELYSLFLSPKSFSPFQPSSSTISEQQSRLVILFSAILCS 177 (415)
T ss_pred cccccc--cchHHHHHHHHHHHHHHHhCC---HHHHHHHHHHHHHHHccccccCCCCccccccccccccHHHHHHHHHHc
Confidence 554322 567888999999999999877 6788888888888777 11100 111221111 1223
Q ss_pred hCHHhHHHhcccchHHHHHhhhHhHhhhhhhhhhHHHHHHHHHhHhhh
Q 016189 333 LGPSVVHLLILPNLELYLKFLEPEMLLEKQKNEMKRHEAWRVYGALQV 380 (393)
Q Consensus 333 lG~~~vr~~ilP~l~~~~~~l~~~l~~~~~~~~~~~~~a~~v~~~l~~ 380 (393)
+- +.+.+|....+.+.+...... ..+...|.-+.+...+|++
T Consensus 178 l~----~~~~~~~~~~ll~~l~~~~~~--~~~~~~~~~~~~~la~LvN 219 (415)
T PF12460_consen 178 LR----KDVSLPDLEELLQSLLNLALS--SEDEFSRLAALQLLASLVN 219 (415)
T ss_pred CC----cccCccCHHHHHHHHHHHHHc--CCChHHHHHHHHHHHHHHc
Confidence 32 334567777766665543221 2224566777777777765
No 52
>KOG1242 consensus Protein containing adaptin N-terminal region [Translation, ribosomal structure and biogenesis]
Probab=91.58 E-value=9.3 Score=41.08 Aligned_cols=204 Identities=15% Similarity=0.137 Sum_probs=119.6
Q ss_pred CcHHHHHHHHHHHHHhhcCCchHHHH---HHHHhhhhcCCcccchhhHHHHHHHHHhhccCChHHH-HHH----------
Q 016189 168 LSKELQLYFDKIRELTVSRSNSTVFK---QALLSLAMDSGLHPLVPYFTYFISEEVTRSLKNFSLL-FAL---------- 233 (393)
Q Consensus 168 LS~Elq~yf~~It~a~~~~~~~~~~~---~aL~sL~tD~gL~~LlPy~~~fi~e~v~~nl~nl~~L-~~l---------- 233 (393)
.+.+...|+..+.+++-+......|+ .|++.+...-| ..-=||++.++-.-+++--+..... ..-
T Consensus 168 ~~~~~~~~l~~l~~ai~dk~~~~~re~~~~a~~~~~~~Lg-~~~EPyiv~~lp~il~~~~d~~~~Vr~Aa~~a~kai~~~ 246 (569)
T KOG1242|consen 168 ESLKEFGFLDNLSKAIIDKKSALNREAALLAFEAAQGNLG-PPFEPYIVPILPSILTNFGDKINKVREAAVEAAKAIMRC 246 (569)
T ss_pred hhhhhhhHHHHHHHHhcccchhhcHHHHHHHHHHHHHhcC-CCCCchHHhhHHHHHHHhhccchhhhHHHHHHHHHHHHh
Confidence 45677789999999887644433332 14566777666 5556676666654443321111111 122
Q ss_pred ----------------------------HHHHHHhhcCCCcccccchhhhHHHHHHHHhccccCCCCCCcchHHHHHHHH
Q 016189 234 ----------------------------MRVARSLLRNPHIHIEPYLHQMMPSVITCLVSKRLGNRFSDNHWDLRNFVAD 285 (393)
Q Consensus 234 ----------------------------l~~v~ALl~N~~l~ie~YlHqLlpslltcll~k~l~~~~~~~h~~LR~~AA~ 285 (393)
++.+.+|..=-...++.++..++|.+... ..|.|=.+|+-+-.
T Consensus 247 ~~~~aVK~llpsll~~l~~~kWrtK~aslellg~m~~~ap~qLs~~lp~iiP~lsev---------l~DT~~evr~a~~~ 317 (569)
T KOG1242|consen 247 LSAYAVKLLLPSLLGSLLEAKWRTKMASLELLGAMADCAPKQLSLCLPDLIPVLSEV---------LWDTKPEVRKAGIE 317 (569)
T ss_pred cCcchhhHhhhhhHHHHHHHhhhhHHHHHHHHHHHHHhchHHHHHHHhHhhHHHHHH---------HccCCHHHHHHHHH
Confidence 33333333333334444444444432222 13567799999999
Q ss_pred HHHHHHHHcCCCchhhHHHHHHHHHHHhcCCC-CCch------------------------------------hHhHHHH
Q 016189 286 LIASICTRFGHVYQNLQSRVTRTLLHAFLDPT-KSLS------------------------------------QHYGAIQ 328 (393)
Q Consensus 286 lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~~-~~l~------------------------------------t~YGAi~ 328 (393)
+|-.+|..-.+ +.+ .++..+|..++.||+ +... ++=+++.
T Consensus 318 ~l~~~~svidN--~dI-~~~ip~Lld~l~dp~~~~~e~~~~L~~ttFV~~V~~psLalmvpiL~R~l~eRst~~kr~t~~ 394 (569)
T KOG1242|consen 318 TLLKFGSVIDN--PDI-QKIIPTLLDALADPSCYTPECLDSLGATTFVAEVDAPSLALMVPILKRGLAERSTSIKRKTAI 394 (569)
T ss_pred HHHHHHHhhcc--HHH-HHHHHHHHHHhcCcccchHHHHHhhcceeeeeeecchhHHHHHHHHHHHHhhccchhhhhHHH
Confidence 99999987665 444 478899999999998 3222 2222333
Q ss_pred HHHhhCHHh-HHHhcccchHHHHHhhhHhHhhhhhhhhhHHHHHHHHHhHhhhhhhcccc
Q 016189 329 GLAALGPSV-VHLLILPNLELYLKFLEPEMLLEKQKNEMKRHEAWRVYGALQVDFFFKEF 387 (393)
Q Consensus 329 GL~~lG~~~-vr~~ilP~l~~~~~~l~~~l~~~~~~~~~~~~~a~~v~~~l~~a~~~~~~ 387 (393)
-+-.|-..+ =...+-|.|+.+...|+..+.. ...-+|..|.|.+|+++..+|-..|
T Consensus 395 IidNm~~LveDp~~lapfl~~Llp~lk~~~~d---~~PEvR~vaarAL~~l~e~~g~~~f 451 (569)
T KOG1242|consen 395 IIDNMCKLVEDPKDLAPFLPSLLPGLKENLDD---AVPEVRAVAARALGALLERLGEVSF 451 (569)
T ss_pred HHHHHHHhhcCHHHHhhhHHHHhhHHHHHhcC---CChhHHHHHHHHHHHHHHHHHhhcc
Confidence 222222222 1334456666666666655432 2345799999999999998876655
No 53
>KOG0212 consensus Uncharacterized conserved protein [Function unknown]
Probab=91.11 E-value=2.5 Score=45.09 Aligned_cols=177 Identities=18% Similarity=0.231 Sum_probs=111.6
Q ss_pred HHHHHHhhcCCchHHHHHHHHhhhhcCCcccchhhHHHHHHHHHhhccCChHHHHHHHHHHHHhhcCCCcccccchhhhH
Q 016189 177 DKIRELTVSRSNSTVFKQALLSLAMDSGLHPLVPYFTYFISEEVTRSLKNFSLLFALMRVARSLLRNPHIHIEPYLHQMM 256 (393)
Q Consensus 177 ~~It~a~~~~~~~~~~~~aL~sL~tD~gL~~LlPy~~~fi~e~v~~nl~nl~~L~~ll~~v~ALl~N~~l~ie~YlHqLl 256 (393)
+++++.++..++....++.++.|.+| |+. .-..|.+. ..|+-+.-++.||-.+. .+|+.+++
T Consensus 25 Ek~Vk~l~~~~~~~~i~k~I~~L~~d------------~a~-s~~~n~rk-GgLiGlAA~~iaLg~~~----~~Y~~~iv 86 (675)
T KOG0212|consen 25 EKLVKDLVNNNDYDQIRKVISELAGD------------YAY-SPHANMRK-GGLIGLAAVAIALGIKD----AGYLEKIV 86 (675)
T ss_pred HHHHHHHHccCcHHHHHHHHHHHHHH------------hcc-Cccccccc-chHHHHHHHHHHhcccc----HHHHHHhh
Confidence 44555555555555555555555555 111 11122222 55666666666665443 34999999
Q ss_pred HHHHHHHhccccCCCCCCcchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcCCCCCchhHhHHHHHHHhhCHH
Q 016189 257 PSVITCLVSKRLGNRFSDNHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAALGPS 336 (393)
Q Consensus 257 pslltcll~k~l~~~~~~~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~lG~~ 336 (393)
|++++|. .|..-.+|-||..-|-.|++-+......--+.|...+.|...|++.+ +.|-++|+..
T Consensus 87 ~Pv~~cf---------~D~d~~vRyyACEsLYNiaKv~k~~v~~~Fn~iFdvL~klsaDsd~~-------V~~~aeLLdR 150 (675)
T KOG0212|consen 87 PPVLNCF---------SDQDSQVRYYACESLYNIAKVAKGEVLVYFNEIFDVLCKLSADSDQN-------VRGGAELLDR 150 (675)
T ss_pred HHHHHhc---------cCccceeeeHhHHHHHHHHHHhccCcccchHHHHHHHHHHhcCCccc-------cccHHHHHHH
Confidence 9999995 34556899999999999999888888888889999999999887654 4566778887
Q ss_pred hHHHhcccch-----HHHHHhhhHhHhhhhhhhhhHHHHHHHHHhHhhhhhhccccccc
Q 016189 337 VVHLLILPNL-----ELYLKFLEPEMLLEKQKNEMKRHEAWRVYGALQVDFFFKEFLYL 390 (393)
Q Consensus 337 ~vr~~ilP~l-----~~~~~~l~~~l~~~~~~~~~~~~~a~~v~~~l~~a~~~~~~~~~ 390 (393)
-+...+.+.- +.+...|..++.. .+...|.-...-...|-.+-+++-+.|+
T Consensus 151 LikdIVte~~~tFsL~~~ipLL~eriy~---~n~~tR~flv~Wl~~Lds~P~~~m~~yl 206 (675)
T KOG0212|consen 151 LIKDIVTESASTFSLPEFIPLLRERIYV---INPMTRQFLVSWLYVLDSVPDLEMISYL 206 (675)
T ss_pred HHHHhccccccccCHHHHHHHHHHHHhc---CCchHHHHHHHHHHHHhcCCcHHHHhcc
Confidence 7777777654 4455555555432 2444554443334444444444444444
No 54
>PLN00157 histone H2A; Provisional
Probab=90.86 E-value=0.54 Score=41.03 Aligned_cols=63 Identities=16% Similarity=0.214 Sum_probs=53.1
Q ss_pred CChHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhh
Q 016189 4 VPKETIEVIAQSI-GVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALN 66 (393)
Q Consensus 4 ~~~~~i~~iaes~-G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~ 66 (393)
||---|.++.+.. -..+++..+.-.||.-+||-..||++-|...++..|++++|+.||..|.+
T Consensus 27 FPVgRi~R~Lk~g~~a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~ 90 (132)
T PLN00157 27 FPVGRIARYLKAGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRIVPRHIQLAVR 90 (132)
T ss_pred cchHHHHHHHhcCchhhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHhhccc
Confidence 4555566655542 23478889999999999999999999999999999999999999999984
No 55
>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=90.42 E-value=0.35 Score=39.69 Aligned_cols=49 Identities=14% Similarity=0.065 Sum_probs=23.8
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhh
Q 016189 19 YNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNL 67 (393)
Q Consensus 19 ~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~ 67 (393)
.+-.+|.+..+-+.|...+.+++++|.+.+.+.+|++++++|+-.+++-
T Consensus 18 ~~P~~eTv~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR~ 66 (93)
T PF02269_consen 18 EEPLPETVDLVEDIVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLRK 66 (93)
T ss_dssp SS--HHHHHHHHHHHHHHHHHHHHHHHC---------------------
T ss_pred CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHhc
Confidence 4567789999999999999999999999999999999999999999974
No 56
>PLN00156 histone H2AX; Provisional
Probab=89.94 E-value=0.89 Score=39.99 Aligned_cols=63 Identities=14% Similarity=0.207 Sum_probs=53.1
Q ss_pred CChHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhh
Q 016189 4 VPKETIEVIAQSI-GVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALN 66 (393)
Q Consensus 4 ~~~~~i~~iaes~-G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~ 66 (393)
||---|.++.+.. -..+++..+.-.||.-+||-..||++-|..-++..|++++++.+|..|.+
T Consensus 30 FPVgRi~R~Lk~g~ya~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi~lAIr 93 (139)
T PLN00156 30 FPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
T ss_pred cchHHHHHHHhcCChhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHhhcc
Confidence 5555566655442 23478889999999999999999999999999999999999999999984
No 57
>PLN00153 histone H2A; Provisional
Probab=89.93 E-value=0.79 Score=39.87 Aligned_cols=63 Identities=16% Similarity=0.222 Sum_probs=52.0
Q ss_pred CChHHHHHHHHH-cCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhh
Q 016189 4 VPKETIEVIAQS-IGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALN 66 (393)
Q Consensus 4 ~~~~~i~~iaes-~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~ 66 (393)
||---|.++.+. --..+++..+.-.||.-+||-..||++-|..-++..|++++++.+|..|.+
T Consensus 25 FpVgRi~R~Lr~g~~a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~ 88 (129)
T PLN00153 25 FPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVPRHIQLAIR 88 (129)
T ss_pred cchHHHHHHHhcCchhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccChHHHHhhcc
Confidence 444445554443 223478889999999999999999999999999999999999999999984
No 58
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=89.00 E-value=2.4 Score=37.58 Aligned_cols=67 Identities=13% Similarity=0.120 Sum_probs=58.5
Q ss_pred CChHHHHHHHHHcCC--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCC
Q 016189 4 VPKETIEVIAQSIGV--YNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRNV 70 (393)
Q Consensus 4 ~~~~~i~~iaes~G~--~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~ni 70 (393)
+|+++|.-|.+.+== -++..|+-..+-+.--++|.-|-.+|-+.+....++|+.+++|-.||+.++.
T Consensus 13 LPkAtv~KmIke~lP~d~rvakeareliincCvEFI~liSsEAneic~~e~KKTIa~EHV~KALe~LgF 81 (156)
T KOG0871|consen 13 LPKATVNKMIKEMLPKDVRVAKEARELIINCCVEFINLISSEANEICNKEAKKTIAPEHVIKALENLGF 81 (156)
T ss_pred CcHHHHHHHHHHhCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcccCCHHHHHHHHHHcch
Confidence 799999887766522 2688899999999999999999999999999999999999999999987654
No 59
>KOG1745 consensus Histones H3 and H4 [Chromatin structure and dynamics]
Probab=88.95 E-value=0.26 Score=43.17 Aligned_cols=50 Identities=22% Similarity=0.350 Sum_probs=46.2
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcC
Q 016189 20 NLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRN 69 (393)
Q Consensus 20 ~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~n 69 (393)
+....|..+|-+.+|.+|-.+.+++-.++.|+||-|+.+.||..|.+.++
T Consensus 85 rfqs~Ai~ALQeA~EayLv~LfEdtnlcAihAkRVTimpkdiQlArrirg 134 (137)
T KOG1745|consen 85 RFQSSAIAALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRG 134 (137)
T ss_pred eehHHHHHHHHHHHHHHHHHhccccchhhhccceeEecccceehhhhccc
Confidence 45678999999999999999999999999999999999999999997764
No 60
>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=88.94 E-value=0.6 Score=36.54 Aligned_cols=60 Identities=20% Similarity=0.167 Sum_probs=48.8
Q ss_pred ChHHHHHHHHHcCC----CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc-cCHhhHHHHh
Q 016189 5 PKETIEVIAQSIGV----YNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTV-LTANDVDSAL 65 (393)
Q Consensus 5 ~~~~i~~iaes~G~----~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~-Lt~~Di~~Al 65 (393)
|+++|.++.. ... +++++++.+..++-++-+++|-+..|..-++..+... +..+|++..+
T Consensus 1 p~~li~rll~-~~f~~~~tkIs~dal~l~~eyl~iFV~EAv~Ra~~~a~~e~~~~~le~e~LEki~ 65 (72)
T PF09415_consen 1 PPELIARLLH-EHFKDDKTKISKDALKLSAEYLRIFVREAVARAAEQAEAEGDEGFLEVEHLEKIL 65 (72)
T ss_dssp -CHHHHHHHC-TTSSSTT-EE-CCCHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSEE-HHHHHHHC
T ss_pred ChHHHHHHHH-HHhcCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence 6778888776 433 3799999999999999999999999999999999988 9999999865
No 61
>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=88.62 E-value=1.7 Score=40.89 Aligned_cols=46 Identities=24% Similarity=0.380 Sum_probs=42.8
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Q 016189 7 ETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAH 52 (393)
Q Consensus 7 ~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hsk 52 (393)
..|..++.+.|+..+++++...|+..++.|++.|++.++...+|-.
T Consensus 52 ~~~~~i~~~~g~~~~~~d~~~lis~a~e~rlr~li~k~~~~s~hR~ 97 (212)
T cd08045 52 KKIRKIAKKHGLKEVDEDVLDLISLALEERLRNLLEKLIEVSEHRV 97 (212)
T ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 4678899999999999999999999999999999999999999964
No 62
>KOG3423 consensus Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=88.43 E-value=2.8 Score=37.95 Aligned_cols=69 Identities=16% Similarity=0.229 Sum_probs=57.7
Q ss_pred CCChHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC--------------CCccCHhhHHHHhhhc
Q 016189 3 IVPKETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAH--------------RTVLTANDVDSALNLR 68 (393)
Q Consensus 3 ~~~~~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hsk--------------R~~Lt~~Di~~Al~~~ 68 (393)
.||..-+.-+.+..|+...+..+.+.++-....++..|+++|..+.|-.. +-+||.+|+..||+..
T Consensus 86 ~IPDavt~~yL~~aGf~~~D~rv~RLvsLaAQKfvSDIa~DA~Q~~k~r~~~~~~~~k~~~kdkK~tLtmeDL~~AL~Ey 165 (176)
T KOG3423|consen 86 TIPDAVTDHYLKKAGFQTSDPRVKRLVSLAAQKFVSDIANDALQHSKIRTKTAIGKDKKQAKDKKYTLTMEDLSPALAEY 165 (176)
T ss_pred CCcHHHHHHHHHhcCCCcCcHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccccccccccceeeeHHHHHHHHHHh
Confidence 46667677799999998888899999999999999999999998876433 2279999999999886
Q ss_pred CCC
Q 016189 69 NVE 71 (393)
Q Consensus 69 nie 71 (393)
+++
T Consensus 166 Gin 168 (176)
T KOG3423|consen 166 GIN 168 (176)
T ss_pred Ccc
Confidence 554
No 63
>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=88.35 E-value=2.1 Score=35.11 Aligned_cols=58 Identities=17% Similarity=0.110 Sum_probs=48.5
Q ss_pred HHHHHHHcCCC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhh
Q 016189 9 IEVIAQSIGVY-NLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNL 67 (393)
Q Consensus 9 i~~iaes~G~~-~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~ 67 (393)
|+.+.=..|=. +-.+|.+..+=+.|...+.+++.+|...+. ++|.+++++|+-.+++.
T Consensus 8 i~~mmy~~GD~~~P~~eTv~llE~iv~~~i~~l~~~a~~~A~-~r~~k~~~eD~~FliR~ 66 (92)
T cd07978 8 IRQMMYGFGDVQNPLPETVDLLEDIVVEYIIELCHKAAEVAQ-RRRGKVKVEDLIFLLRK 66 (92)
T ss_pred HHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHHHhc
Confidence 66666555654 456688999999999999999999999999 88889999999999853
No 64
>KOG1242 consensus Protein containing adaptin N-terminal region [Translation, ribosomal structure and biogenesis]
Probab=88.19 E-value=25 Score=37.84 Aligned_cols=127 Identities=15% Similarity=0.109 Sum_probs=87.1
Q ss_pred HHHhhhhcCCcccchhhHHHHHHHHHhhccCChHHHHHHHHHHHHhhcCCCcccccchhhhHHHHHHHHhccccCCCCCC
Q 016189 195 ALLSLAMDSGLHPLVPYFTYFISEEVTRSLKNFSLLFALMRVARSLLRNPHIHIEPYLHQMMPSVITCLVSKRLGNRFSD 274 (393)
Q Consensus 195 aL~sL~tD~gL~~LlPy~~~fi~e~v~~nl~nl~~L~~ll~~v~ALl~N~~l~ie~YlHqLlpslltcll~k~l~~~~~~ 274 (393)
++..+-++.++..+-|+-+-=--..-..+.++...-...+....++..|=+-.-|||+-.++|.+++|.= +
T Consensus 157 ~~ag~v~g~~i~~~~~~~~l~~l~~ai~dk~~~~~re~~~~a~~~~~~~Lg~~~EPyiv~~lp~il~~~~---------d 227 (569)
T KOG1242|consen 157 GLAGLVNGLGIESLKEFGFLDNLSKAIIDKKSALNREAALLAFEAAQGNLGPPFEPYIVPILPSILTNFG---------D 227 (569)
T ss_pred HHHHHHcCcHHhhhhhhhHHHHHHHHhcccchhhcHHHHHHHHHHHHHhcCCCCCchHHhhHHHHHHHhh---------c
Confidence 5899999999999999863111111122222222222456667788888888999999999999999962 2
Q ss_pred cchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcCCCCCchhHhHHHHHHHhhCH
Q 016189 275 NHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAALGP 335 (393)
Q Consensus 275 ~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~lG~ 335 (393)
..=.+|+-|......|.+.+.. ..++..+...+...+.+ .+.+.=+++-+|.+|+.
T Consensus 228 ~~~~Vr~Aa~~a~kai~~~~~~--~aVK~llpsll~~l~~~---kWrtK~aslellg~m~~ 283 (569)
T KOG1242|consen 228 KINKVREAAVEAAKAIMRCLSA--YAVKLLLPSLLGSLLEA---KWRTKMASLELLGAMAD 283 (569)
T ss_pred cchhhhHHHHHHHHHHHHhcCc--chhhHhhhhhHHHHHHH---hhhhHHHHHHHHHHHHH
Confidence 2337899999999888887764 45555555555444322 67778888888887764
No 65
>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=87.92 E-value=0.49 Score=45.93 Aligned_cols=63 Identities=27% Similarity=0.369 Sum_probs=33.7
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc------cCHhhHHHHhhhcC
Q 016189 7 ETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTV------LTANDVDSALNLRN 69 (393)
Q Consensus 7 ~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~------Lt~~Di~~Al~~~n 69 (393)
..|..|+...|+..+++|+...|+..+|.||+.||.+++..++|-.+.- ...+||...|+.++
T Consensus 51 ~~i~~i~~~~g~~~~~~d~l~llS~A~e~rLr~lie~~~~~s~hR~~~~~~~~~~~~~sdv~~qlr~l~ 119 (264)
T PF05236_consen 51 KRIQKIAKKHGLKSVDEDVLELLSLATEERLRNLIEKAIVLSRHRRDSSKSDPRYEIRSDVRKQLRFLE 119 (264)
T ss_dssp HHHHHHHHCTT--EE-TCHHHHHHHHHHHHHHHHHHHHH------------------------------
T ss_pred HHHHHHHHHcCCcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCCCcccccchHHHHHHHHHH
Confidence 4577889999998999999999999999999999999999999976542 23667777776653
No 66
>PRK07452 DNA polymerase III subunit delta; Validated
Probab=87.54 E-value=1.6 Score=43.11 Aligned_cols=60 Identities=27% Similarity=0.309 Sum_probs=54.3
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hCCCccCHhhHHHHhh
Q 016189 6 KETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRH--AHRTVLTANDVDSALN 66 (393)
Q Consensus 6 ~~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~h--skR~~Lt~~Di~~Al~ 66 (393)
..+|+..|+..|++ +++++++.|++-+...+..+.+|.-|+.-. ++++++|.+||+....
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 36788999999995 999999999999999999999999999988 5678999999998773
No 67
>KOG1824 consensus TATA-binding protein-interacting protein [General function prediction only]
Probab=87.40 E-value=12 Score=42.49 Aligned_cols=137 Identities=18% Similarity=0.265 Sum_probs=93.2
Q ss_pred cccchhhHHHHHHHHHhhccC-----ChHHHHHHHHHHHHhhcCCCcccccchhhhHHHHHHHHhccccCCCCCCcchHH
Q 016189 205 LHPLVPYFTYFISEEVTRSLK-----NFSLLFALMRVARSLLRNPHIHIEPYLHQMMPSVITCLVSKRLGNRFSDNHWDL 279 (393)
Q Consensus 205 L~~LlPy~~~fi~e~v~~nl~-----nl~~L~~ll~~v~ALl~N~~l~ie~YlHqLlpslltcll~k~l~~~~~~~h~~L 279 (393)
+|+++|-++.-+.-.|..+.- -+-.+..+.++++-+-.|..+.-.||+|.++-+.+.-+-+ .+.+-.+
T Consensus 514 fhp~~~~Ls~~v~~aV~d~fyKisaEAL~v~~~lvkvirpl~~~~~~d~~~~v~~m~~~tl~rL~a-------~d~DqeV 586 (1233)
T KOG1824|consen 514 FHPHLSALSPPVVAAVGDPFYKISAEALLVCQQLVKVIRPLQPPSSFDASPYVKTMYDCTLQRLKA-------TDSDQEV 586 (1233)
T ss_pred cccchhhhhhHHHHHhcCchHhhhHHHHHHHHHHHHHhcccCCCccCCCChhHHHHHHHHHHHHhc-------ccccHHH
Confidence 677777777776666666542 2445566778888888888899999999766654444322 3556799
Q ss_pred HHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcCCCCCchhHhHHHHHHHhhCHHhHHHhcccchHHHHHh
Q 016189 280 RNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAALGPSVVHLLILPNLELYLKF 352 (393)
Q Consensus 280 R~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~lG~~~vr~~ilP~l~~~~~~ 352 (393)
|+.|-.+|+.++..||....+=-+|+.-.|.+-+ +.-.|+--|+.+|.-+-.-..+.-+.|++..++..
T Consensus 587 keraIscmgq~i~~fgD~l~~eL~~~L~il~eRl----~nEiTRl~AvkAlt~Ia~S~l~i~l~~~l~~il~~ 655 (1233)
T KOG1824|consen 587 KERAISCMGQIIANFGDFLGNELPRTLPILLERL----GNEITRLTAVKALTLIAMSPLDIDLSPVLTEILPE 655 (1233)
T ss_pred HHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHH----hchhHHHHHHHHHHHHHhccceeehhhhHHHHHHH
Confidence 9999999999999999766666677776666665 44556677777766554333333334444444433
No 68
>PF14911 MMS22L_C: S-phase genomic integrity recombination mediator, C-terminal
Probab=87.23 E-value=9.6 Score=39.03 Aligned_cols=138 Identities=17% Similarity=0.255 Sum_probs=93.0
Q ss_pred hHHHHHHHHHhhcc----CC--hHHHHHHHHHHHHhhcC----CCcccccchhhhHHHHHHHHhccccCCCCCCcchHHH
Q 016189 211 YFTYFISEEVTRSL----KN--FSLLFALMRVARSLLRN----PHIHIEPYLHQMMPSVITCLVSKRLGNRFSDNHWDLR 280 (393)
Q Consensus 211 y~~~fi~e~v~~nl----~n--l~~L~~ll~~v~ALl~N----~~l~ie~YlHqLlpslltcll~k~l~~~~~~~h~~LR 280 (393)
-|.+||-+.+..|. .+ -+.+..++.++.-|+.. +.=.+.--+-.++|+++.|++-- +++-..|
T Consensus 203 ~l~~~il~~i~~~fl~~~~~~p~p~l~~vL~fl~~Ll~~~~~~~~~~~~~~~~~~lp~lL~c~~~v-------~e~~~~k 275 (373)
T PF14911_consen 203 ELRKFILQVIRSNFLEFKGSAPPPRLASVLAFLQQLLKRLQRQNENQILTLLRLVLPSLLECLMLV-------NEEPQVK 275 (373)
T ss_pred HHHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHHHHHHHhcCcccchhHHHHHHHhhHHHHHHHhhc-------CCCcchh
Confidence 35566666666653 11 34566666667777776 44455555667899999998642 3466789
Q ss_pred HHHHHHHHHHHHHcC-CCchhhHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHhhCHHhHHHhcccchHHHHHhhhHh
Q 016189 281 NFVADLIASICTRFG-HVYQNLQSRVTRTLLHAFLDPT-KSLSQHYGAIQGLAALGPSVVHLLILPNLELYLKFLEPE 356 (393)
Q Consensus 281 ~~AA~lL~~I~~~~~-~~y~~L~~Ri~~~l~k~l~d~~-~~l~t~YGAi~GL~~lG~~~vr~~ilP~l~~~~~~l~~~ 356 (393)
..|.+++..+++.+. .+....+...+..|.....+-- ..-...|+-+.-++.+-++.|..+ +|.++.-...-|..
T Consensus 276 ~~a~e~l~~mv~~~~~~~~~~~~~~l~s~lrsfvqk~l~~~t~~~f~~l~~vA~l~p~lV~~L-ip~i~q~l~~~E~k 352 (373)
T PF14911_consen 276 KLATELLQYMVESCQVGSSGEPREQLTSVLRSFVQKYLAHYTYQYFQFLEKVAELDPQLVISL-IPTIRQSLKDSERK 352 (373)
T ss_pred HHHHHHHHHHHHcccccCcchHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhCHHHHHHH-HHHHHHHHHHHHHH
Confidence 999999999998876 5556666666666655433211 122346788889999999999965 78887776655533
No 69
>PTZ00252 histone H2A; Provisional
Probab=86.56 E-value=2.3 Score=37.13 Aligned_cols=63 Identities=17% Similarity=0.240 Sum_probs=51.1
Q ss_pred CChHHHHHHHHHcC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hCCCccCHhhHHHHhh
Q 016189 4 VPKETIEVIAQSIG-VYNLSSDVALALAPDVEYRVREIMQEAIKCMRH--AHRTVLTANDVDSALN 66 (393)
Q Consensus 4 ~~~~~i~~iaes~G-~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~h--skR~~Lt~~Di~~Al~ 66 (393)
||---|.++.+... ..+++..+.-.||.-+||-..||++-|..-++. .|++++++.+|..|.+
T Consensus 26 FPVgRi~R~Lr~g~ya~RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~kk~RItPrHi~lAIr 91 (134)
T PTZ00252 26 FPVGRVGSLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPKRLTPRTVTLAVR 91 (134)
T ss_pred CchHHHHHHHHcCCcccccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccccHHHHHhhcc
Confidence 45445555554433 347899999999999999999999999999976 6889999999999984
No 70
>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=86.45 E-value=4.7 Score=29.48 Aligned_cols=48 Identities=13% Similarity=0.218 Sum_probs=43.8
Q ss_pred CCChHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016189 3 IVPKETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRH 50 (393)
Q Consensus 3 ~~~~~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~h 50 (393)
.||.+-+.-+.++.|++.-+..+.+.++--...++.+|+.+|..+.+.
T Consensus 2 ~IPD~v~~~yL~~~G~~~~D~rv~RLvSLaaQKFisdI~~dA~q~~k~ 49 (51)
T PF03540_consen 2 TIPDEVTDYYLERSGFQTSDPRVKRLVSLAAQKFISDIANDAMQYCKI 49 (51)
T ss_pred CCCHHHHHHHHHHCCCCCCCHhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 478999999999999998888999999999999999999999988774
No 71
>PRK06585 holA DNA polymerase III subunit delta; Reviewed
Probab=85.45 E-value=2.1 Score=42.56 Aligned_cols=59 Identities=19% Similarity=0.148 Sum_probs=53.1
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-CCccCHhhHHHHhh
Q 016189 7 ETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAH-RTVLTANDVDSALN 66 (393)
Q Consensus 7 ~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hsk-R~~Lt~~Di~~Al~ 66 (393)
.+|+..|+..|+ .+++++++.|++-+...+..+.+|--|..--++ .+++|.+||+..+-
T Consensus 149 ~~i~~~~~~~g~-~i~~~a~~~L~~~~g~dl~~l~~EleKL~ly~~~~~~It~edV~~lv~ 208 (343)
T PRK06585 149 RLIDDELAEAGL-RITPDARALLVALLGGDRLASRNEIEKLALYAHGKGEITLDDVRAVVG 208 (343)
T ss_pred HHHHHHHHHCCC-CCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHhC
Confidence 568999999999 599999999999999999999999999988754 46899999998873
No 72
>KOG3219 consensus Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=85.32 E-value=1.2 Score=41.25 Aligned_cols=70 Identities=24% Similarity=0.276 Sum_probs=61.7
Q ss_pred CCCChHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CccCHhhHHHHhhhcCCC
Q 016189 2 SIVPKETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHR-TVLTANDVDSALNLRNVE 71 (393)
Q Consensus 2 s~~~~~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR-~~Lt~~Di~~Al~~~nie 71 (393)
|-||+..|++++.++--..+++.++.+++....-++-+||++|...|..-+- .-|.+.||..|.+.+..+
T Consensus 111 s~f~Ka~iKkL~~~itg~~v~~nv~Ia~~GiaKvFVGEvVEeAl~V~~~~~e~~PLqP~HIREA~rrL~~q 181 (195)
T KOG3219|consen 111 SAFPKAQIKKLMSSITGQSVSENVAIAMAGIAKVFVGEVVEEALDVREEWGESGPLQPKHIREAYRRLKLQ 181 (195)
T ss_pred hcCCHHHHHHHHHHHhCCccCcceeeeecchhhHhHHHHHHHHHHHHHHhccCCCCCcHHHHHHHHHHHhc
Confidence 4689999999998887777999999999999999999999999999886554 469999999999887554
No 73
>TIGR01128 holA DNA polymerase III, delta subunit. subunit around DNA forming a DNA sliding clamp.
Probab=84.69 E-value=3.4 Score=39.94 Aligned_cols=59 Identities=27% Similarity=0.253 Sum_probs=52.8
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhh
Q 016189 7 ETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALN 66 (393)
Q Consensus 7 ~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~ 66 (393)
..|+..+++.|+ ++++++++.|++.+...++.+.++.-|+.--++.+.+|.+||+..+.
T Consensus 118 ~~i~~~~~~~g~-~i~~~a~~~l~~~~~~d~~~l~~el~KL~~~~~~~~It~e~I~~~~~ 176 (302)
T TIGR01128 118 RWIQARLKKLGL-RIDPDAVQLLAELVEGNLLAIAQELEKLALYAPDGKITLEDVEEAVS 176 (302)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHhCcHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHh
Confidence 367888999999 59999999999999999999999999998887666899999999873
No 74
>cd00020 ARM Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumor suppressor protein, and a number of other proteins. ARM has been implicated in mediating protein-protein interactions, but no common features among the target proteins recognized by the ARM repeats have been identified; related to the HEAT domain; three consecutive copies of the repeat are represented by this alignment model.
Probab=84.52 E-value=4.8 Score=32.41 Aligned_cols=108 Identities=9% Similarity=0.047 Sum_probs=64.3
Q ss_pred chhhHHHHHHHHHhhccCChHHHHHHHHHHHHhhcCCCcccccchh-hhHHHHHHHHhccccCCCCCCcchHHHHHHHHH
Q 016189 208 LVPYFTYFISEEVTRSLKNFSLLFALMRVARSLLRNPHIHIEPYLH-QMMPSVITCLVSKRLGNRFSDNHWDLRNFVADL 286 (393)
Q Consensus 208 LlPy~~~fi~e~v~~nl~nl~~L~~ll~~v~ALl~N~~l~ie~YlH-qLlpslltcll~k~l~~~~~~~h~~LR~~AA~l 286 (393)
++|.++.++.+. +.......+..+..+..+..-.....+. ..+|.++.++- +++..+|..|..+
T Consensus 8 ~i~~l~~~l~~~------~~~~~~~a~~~l~~l~~~~~~~~~~~~~~~~i~~l~~~l~---------~~~~~v~~~a~~~ 72 (120)
T cd00020 8 GLPALVSLLSSS------DENVQREAAWALSNLSAGNNDNIQAVVEAGGLPALVQLLK---------SEDEEVVKAALWA 72 (120)
T ss_pred ChHHHHHHHHcC------CHHHHHHHHHHHHHHhcCCHHHHHHHHHCCChHHHHHHHh---------CCCHHHHHHHHHH
Confidence 567777666533 2456666777777888774333333343 78888888862 2456999999999
Q ss_pred HHHHHHHcCCCchh-hHHHHHHHHHHHhcCCCCCchhHhHHHHHHHh
Q 016189 287 IASICTRFGHVYQN-LQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAA 332 (393)
Q Consensus 287 L~~I~~~~~~~y~~-L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~ 332 (393)
|..++......-.. .+.-+...+.+.+.++ ...+.--|+..|..
T Consensus 73 L~~l~~~~~~~~~~~~~~g~l~~l~~~l~~~--~~~~~~~a~~~l~~ 117 (120)
T cd00020 73 LRNLAAGPEDNKLIVLEAGGVPKLVNLLDSS--NEDIQKNATGALSN 117 (120)
T ss_pred HHHHccCcHHHHHHHHHCCChHHHHHHHhcC--CHHHHHHHHHHHHH
Confidence 99998754321111 1122456677766544 33444444444443
No 75
>KOG2171 consensus Karyopherin (importin) beta 3 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=84.51 E-value=65 Score=37.35 Aligned_cols=196 Identities=15% Similarity=0.187 Sum_probs=126.1
Q ss_pred cCcHHHHH-HHHHHHHHhhcCCchHHHH---HHHHhhhhcCCcccchhhHHHHHHHHHhhc-cCChHHHHHHHHHHHHhh
Q 016189 167 VLSKELQL-YFDKIRELTVSRSNSTVFK---QALLSLAMDSGLHPLVPYFTYFISEEVTRS-LKNFSLLFALMRVARSLL 241 (393)
Q Consensus 167 ~LS~Elq~-yf~~It~a~~~~~~~~~~~---~aL~sL~tD~gL~~LlPy~~~fi~e~v~~n-l~nl~~L~~ll~~v~ALl 241 (393)
.|+.|.|. --..+.+.+..+..+..|+ .+.+.+.++-.-. =-|-+++|+-+.+..- .+--+.-.+++.-+--++
T Consensus 71 ~l~~e~~~siks~lL~~~~~E~~~~vr~k~~dviAeia~~~l~e-~WPell~~L~q~~~S~~~~~rE~al~il~s~~~~~ 149 (1075)
T KOG2171|consen 71 RLSAEVQQSIKSSLLEIIQSETEPSVRHKLADVIAEIARNDLPE-KWPELLQFLFQSTKSPNPSLRESALLILSSLPETF 149 (1075)
T ss_pred cCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHhcccc-chHHHHHHHHHHhcCCCcchhHHHHHHHHhhhhhh
Confidence 46777655 3455666666655555555 3566676665555 5677777777766543 111222233333333344
Q ss_pred cCCCcccccchhhhHHHHHHHHhccccCCCCCCcchHHHHHHHHHHHHHHHHcC------CCchhhHHHHHHHHHHHhcC
Q 016189 242 RNPHIHIEPYLHQMMPSVITCLVSKRLGNRFSDNHWDLRNFVADLIASICTRFG------HVYQNLQSRVTRTLLHAFLD 315 (393)
Q Consensus 242 ~N~~l~ie~YlHqLlpslltcll~k~l~~~~~~~h~~LR~~AA~lL~~I~~~~~------~~y~~L~~Ri~~~l~k~l~d 315 (393)
.| ...||+..|.+.+.+|+-.. + + .+|-.|++-+..+...-. ..+-.+-|++++++...+.+
T Consensus 150 ~~---~~~~~~~~l~~lf~q~~~d~------s--~-~vr~~a~rA~~a~~~~~~~~~~~~~~~~~llP~~l~vl~~~i~~ 217 (1075)
T KOG2171|consen 150 GN---TLQPHLDDLLRLFSQTMTDP------S--S-PVRVAAVRALGAFAEYLENNKSEVDKFRDLLPSLLNVLQEVIQD 217 (1075)
T ss_pred cc---ccchhHHHHHHHHHHhccCC------c--c-hHHHHHHHHHHHHHHHhccchHHHHHHHHHhHHHHHHhHhhhhc
Confidence 44 56789999999888886221 1 1 299999999988775443 12356788889999887765
Q ss_pred CCC-CchhHhHHHHHHHhhCHHhHHHhcccchHHHHHhhhHhHhhhhhhhhhHHHHHHHHHhHhhh
Q 016189 316 PTK-SLSQHYGAIQGLAALGPSVVHLLILPNLELYLKFLEPEMLLEKQKNEMKRHEAWRVYGALQV 380 (393)
Q Consensus 316 ~~~-~l~t~YGAi~GL~~lG~~~vr~~ilP~l~~~~~~l~~~l~~~~~~~~~~~~~a~~v~~~l~~ 380 (393)
.+. .....++++.-|...-+..++ |++..+...--. +..++..+...|+-|..|.-.+..
T Consensus 218 ~d~~~a~~~l~~l~El~e~~pk~l~----~~l~~ii~~~l~-Ia~n~~l~~~~R~~ALe~ivs~~e 278 (1075)
T KOG2171|consen 218 GDDDAAKSALEALIELLESEPKLLR----PHLSQIIQFSLE-IAKNKELENSIRHLALEFLVSLSE 278 (1075)
T ss_pred cchHHHHHHHHHHHHHHhhchHHHH----HHHHHHHHHHHH-HhhcccccHHHHHHHHHHHHHHHH
Confidence 443 367788888888888777776 677777654332 345667778889988877766654
No 76
>PRK05574 holA DNA polymerase III subunit delta; Reviewed
Probab=84.47 E-value=2.8 Score=41.32 Aligned_cols=60 Identities=22% Similarity=0.150 Sum_probs=52.3
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhh
Q 016189 7 ETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNL 67 (393)
Q Consensus 7 ~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~ 67 (393)
..|+..+++.|+ ++++++++.|++.+...+..+.+|.-|++--++-+++|.+||+..+..
T Consensus 153 ~~i~~~~~~~g~-~i~~~a~~~L~~~~~~d~~~l~~El~KL~l~~~~~~It~~~I~~~i~~ 212 (340)
T PRK05574 153 QWIQQRLKQQGL-QIDAAALQLLAERVEGNLLALAQELEKLALLYPDGKITLEDVEEAVPD 212 (340)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHhCchHHHHHHHHHHHHhhcCCCCCCHHHHHHHHhh
Confidence 568889999999 599999999999999999999999999988764334999999998743
No 77
>PF11864 DUF3384: Domain of unknown function (DUF3384); InterPro: IPR024584 This entry represents the N-terminal domain of tuberin which is functionally uncharacterised.
Probab=83.89 E-value=30 Score=36.30 Aligned_cols=159 Identities=16% Similarity=0.163 Sum_probs=102.5
Q ss_pred CcHHHHHHHHHHHHHhhcCCchHHHHHHHHhhhhcCC-----cccchhhHHHHHHHHHh-----------------hcc-
Q 016189 168 LSKELQLYFDKIRELTVSRSNSTVFKQALLSLAMDSG-----LHPLVPYFTYFISEEVT-----------------RSL- 224 (393)
Q Consensus 168 LS~Elq~yf~~It~a~~~~~~~~~~~~aL~sL~tD~g-----L~~LlPy~~~fi~e~v~-----------------~nl- 224 (393)
+.-+-..||+.|++.-. .++-..+-+||..|..|-. -..+.|.+++|+.+... .+.
T Consensus 64 ~~~~R~~fF~~I~~~~~-~~d~~~~l~aL~~LT~~Grdi~~~~~~i~~~L~~wl~~~~~~~~~~r~~~~~~~~~~~~~~~ 142 (464)
T PF11864_consen 64 SGLMRAEFFRDISDPSN-DDDFDLRLEALIALTDNGRDIDFFEYEIGPFLLSWLEPSYQAARSARRKAKKSSSSKSKGLS 142 (464)
T ss_pred cHHHHHHHHHHHhcCCC-chhHHHHHHHHHHHHcCCcCchhcccchHHHHHHHHHHHHHHHHHHHHHhhccccccccccc
Confidence 45677889999976432 2334566689999987643 57899999999987661 011
Q ss_pred ---CChHHHHHHHHHHHHhhcCCCcccc-cchhhhHHHHHHHHhcccc-----------------CCCCC----------
Q 016189 225 ---KNFSLLFALMRVARSLLRNPHIHIE-PYLHQMMPSVITCLVSKRL-----------------GNRFS---------- 273 (393)
Q Consensus 225 ---~nl~~L~~ll~~v~ALl~N~~l~ie-~YlHqLlpslltcll~k~l-----------------~~~~~---------- 273 (393)
.+-..+..+++++..+++.++-.++ ..++.++..+++.+-...- |.-|.
T Consensus 143 ~~~~~~~~l~~ll~~l~nviKfn~~~l~e~~i~~lv~~i~~iC~~Ts~~~di~~~L~vldaii~y~~iP~~sl~~~i~vL 222 (464)
T PF11864_consen 143 NLDNEESNLSDLLQFLVNVIKFNFNYLDEDEISSLVDQICTICKSTSSEDDIEACLSVLDAIITYGDIPSESLSPCIEVL 222 (464)
T ss_pred cccchhhhHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHcCcCChHHHHHHHHHH
Confidence 1345688899999999999998886 7788888777666333210 11010
Q ss_pred ---CcchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcCCC----CCchhHhHHHHHHHhh
Q 016189 274 ---DNHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLDPT----KSLSQHYGAIQGLAAL 333 (393)
Q Consensus 274 ---~~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~~----~~l~t~YGAi~GL~~l 333 (393)
.+.-.+.+.|-++|..+|+.+ .....+++|...|.+++ .+....=|||.-|..+
T Consensus 223 Csi~~~~~l~~~~w~~m~nL~~S~------~g~~~i~~L~~iL~~~~~~~~~~~~~lRGAv~~l~~l 283 (464)
T PF11864_consen 223 CSIVNSVSLCKPSWRTMRNLLKSH------LGHSAIRTLCDILRSPDPQNKRDINVLRGAVFFLRML 283 (464)
T ss_pred hhHhcccccchhHHHHHHHHHcCc------cHHHHHHHHHHHHcccCccccccHHHHhhHHHHHHHH
Confidence 122266666777777777532 22456788888884322 2334445988877665
No 78
>COG1466 HolA DNA polymerase III, delta subunit [DNA replication, recombination, and repair]
Probab=83.67 E-value=3.1 Score=41.60 Aligned_cols=58 Identities=21% Similarity=0.212 Sum_probs=55.0
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHh
Q 016189 7 ETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSAL 65 (393)
Q Consensus 7 ~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al 65 (393)
.+|+..+++.|+ +++++|.+.|++.++..+..+.+|--|+.--+.-+.+|.+||+.+.
T Consensus 147 ~~i~~~~~~~~l-~i~~~a~~~L~~~~~~nl~~i~~Ei~KL~l~~~~~~I~~~~V~~~v 204 (334)
T COG1466 147 QWIKKRAKELGL-KIDQEAIQLLLEALGGNLLAIAQEIEKLALYAGDKEITLEDVEEVV 204 (334)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCCcCCHHHHHHHH
Confidence 578899999999 6999999999999999999999999999999988899999999987
No 79
>PRK07914 hypothetical protein; Reviewed
Probab=83.29 E-value=2.7 Score=41.64 Aligned_cols=59 Identities=17% Similarity=0.164 Sum_probs=51.8
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhh
Q 016189 6 KETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALN 66 (393)
Q Consensus 6 ~~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~ 66 (393)
..+|+..|++.|++ +++++++.|++-++.-+..+.+|.-|..-..+ +++|.+||+..+.
T Consensus 134 ~~wi~~~a~~~g~~-i~~~A~~~L~~~~g~dl~~l~~EleKL~~~~~-~~It~e~V~~~v~ 192 (320)
T PRK07914 134 ADFVRKEFRSLRVK-VDDDTVTALLDAVGSDLRELASACSQLVADTG-GAVDAAAVRRYHS 192 (320)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHHCccHHHHHHHHHHHhcCCC-CCcCHHHHHHHcC
Confidence 45799999999995 99999999999999999999999999876554 6799999998773
No 80
>PRK05907 hypothetical protein; Provisional
Probab=83.18 E-value=2.9 Score=41.70 Aligned_cols=59 Identities=20% Similarity=0.271 Sum_probs=54.1
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHH-HHHHHHHHHHHHHHHHH-hCCCccCHhhHHHHh
Q 016189 6 KETIEVIAQSIGVYNLSSDVALALAPDV-EYRVREIMQEAIKCMRH-AHRTVLTANDVDSAL 65 (393)
Q Consensus 6 ~~~i~~iaes~G~~~ls~~~a~~La~dv-e~rl~~iiq~a~k~~~h-skR~~Lt~~Di~~Al 65 (393)
..+|...+++.|. .+++++++.|++.+ +.-+..+.+|--|.+-. +.++++|.+||+...
T Consensus 140 ~~Wi~~~~~~~g~-~i~~~a~~~L~~~~~~~nL~~l~~EleKL~ly~g~~~~It~e~V~~lv 200 (311)
T PRK05907 140 AQLLIQRAKELGI-SCSLGLASLFVSKFPQTGLFEILSEFQKLLCQMGKKESLEASDIQSFV 200 (311)
T ss_pred HHHHHHHHHHcCC-CcCHHHHHHHHHHccCCCHHHHHHHHHHHHHhcCCCCeECHHHHHHHh
Confidence 4689999999999 59999999999999 69999999999999998 568899999999976
No 81
>PRK05629 hypothetical protein; Validated
Probab=82.46 E-value=3.7 Score=40.66 Aligned_cols=57 Identities=19% Similarity=0.180 Sum_probs=51.0
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHh
Q 016189 7 ETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSAL 65 (393)
Q Consensus 7 ~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al 65 (393)
.+|+..|++.|.+ +++++++.|++.+..-+..+-+|--|..-.. .+++|.+||+..+
T Consensus 133 ~wi~~~~~~~g~~-i~~~A~~~L~~~~g~dl~~l~~EleKL~~~~-~~~It~e~V~~~v 189 (318)
T PRK05629 133 GWVTQEFKNHGVR-PTPDVVHALLEGVGSDLRELASAISQLVEDT-QGNVTVEKVRAYY 189 (318)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHHCccHHHHHHHHHHHHhcC-CCCcCHHHHHHHh
Confidence 5799999999995 9999999999999999999999999987665 4679999998776
No 82
>cd00020 ARM Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumor suppressor protein, and a number of other proteins. ARM has been implicated in mediating protein-protein interactions, but no common features among the target proteins recognized by the ARM repeats have been identified; related to the HEAT domain; three consecutive copies of the repeat are represented by this alignment model.
Probab=82.12 E-value=9.2 Score=30.69 Aligned_cols=68 Identities=12% Similarity=0.116 Sum_probs=45.8
Q ss_pred hHHHHHHHHhccccCCCCCCcchHHHHHHHHHHHHHHHHcCCCchhh-HHHHHHHHHHHhcCCCCCchhHhHHHHHHHhh
Q 016189 255 MMPSVITCLVSKRLGNRFSDNHWDLRNFVADLIASICTRFGHVYQNL-QSRVTRTLLHAFLDPTKSLSQHYGAIQGLAAL 333 (393)
Q Consensus 255 Llpslltcll~k~l~~~~~~~h~~LR~~AA~lL~~I~~~~~~~y~~L-~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~l 333 (393)
++|.++.++- +.+|.+|..|...|+.+|.........+ +..+...+.+.+.|+ .......|+..|..|
T Consensus 8 ~i~~l~~~l~---------~~~~~~~~~a~~~l~~l~~~~~~~~~~~~~~~~i~~l~~~l~~~--~~~v~~~a~~~L~~l 76 (120)
T cd00020 8 GLPALVSLLS---------SSDENVQREAAWALSNLSAGNNDNIQAVVEAGGLPALVQLLKSE--DEEVVKAALWALRNL 76 (120)
T ss_pred ChHHHHHHHH---------cCCHHHHHHHHHHHHHHhcCCHHHHHHHHHCCChHHHHHHHhCC--CHHHHHHHHHHHHHH
Confidence 5666666652 2349999999999999997533222332 236777888887763 455566777777777
No 83
>PRK08487 DNA polymerase III subunit delta; Validated
Probab=81.55 E-value=4.5 Score=40.26 Aligned_cols=57 Identities=14% Similarity=0.064 Sum_probs=52.0
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHh
Q 016189 6 KETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSAL 65 (393)
Q Consensus 6 ~~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al 65 (393)
..+|+..|+..|++ ++++|++.|++-+...+..+.+|--|.+--++ ++|.+||+...
T Consensus 141 ~~~i~~~~~~~g~~-i~~~a~~~L~~~~g~dl~~l~~ELeKL~ly~~--~It~edV~~~v 197 (328)
T PRK08487 141 LELLQERAKELGLD-IDQNALNHLYFIHNEDLALAANELEKLAILNE--PITLKDIQELV 197 (328)
T ss_pred HHHHHHHHHHhCCC-CCHHHHHHHHHHhCcHHHHHHHHHHHHHHhcC--CCCHHHHHHHh
Confidence 35789999999995 99999999999999999999999999988865 79999999976
No 84
>PF13251 DUF4042: Domain of unknown function (DUF4042)
Probab=79.63 E-value=14 Score=33.97 Aligned_cols=139 Identities=20% Similarity=0.201 Sum_probs=86.4
Q ss_pred HHHHHHHhhcC-CCcccccchhhhHHHH-----------HHHHhccccCCCCCCcchHHHHHHHHHHHHHHHH-------
Q 016189 233 LMRVARSLLRN-PHIHIEPYLHQMMPSV-----------ITCLVSKRLGNRFSDNHWDLRNFVADLIASICTR------- 293 (393)
Q Consensus 233 ll~~v~ALl~N-~~l~ie~YlHqLlpsl-----------ltcll~k~l~~~~~~~h~~LR~~AA~lL~~I~~~------- 293 (393)
-+.++.+|+++ +.=.+..|.+.|+|.. +||++. |..-..|--|+++++.+.+.
T Consensus 6 Al~~L~al~k~~~~r~l~~yW~~llP~~~~~~~~~~~sLlt~il~--------Dp~~kvR~aA~~~l~~lL~gsk~~L~~ 77 (182)
T PF13251_consen 6 ALQCLQALAKSTDKRSLFGYWPALLPDSVLQGRPATPSLLTCILK--------DPSPKVRAAAASALAALLEGSKPFLAQ 77 (182)
T ss_pred HHHHHHHHHHhcCCceeHhhHHHHCCCCCCcCCCCCcchhHHHHc--------CCchhHHHHHHHHHHHHHHccHHHHHH
Confidence 56777899998 7778899999999865 444433 34558999999999988743
Q ss_pred ------cCCCchhhHHHHH-------HHHHHHhcCCCCCchhHhHHHHHHHhhCHHhHHH-hcccchHHHHHhhhHhHhh
Q 016189 294 ------FGHVYQNLQSRVT-------RTLLHAFLDPTKSLSQHYGAIQGLAALGPSVVHL-LILPNLELYLKFLEPEMLL 359 (393)
Q Consensus 294 ------~~~~y~~L~~Ri~-------~~l~k~l~d~~~~l~t~YGAi~GL~~lG~~~vr~-~ilP~l~~~~~~l~~~l~~ 359 (393)
-..+|..+-.++. +.|..++..+ ++.++.=-.+.+|..|-..+=.. +=-..+...+..+.+.+..
T Consensus 78 Ae~~~~~~~sFtslS~tLa~~i~~lH~~Ll~~L~~E-~~~~~l~q~lK~la~Lv~~tPY~rL~~~ll~~~v~~v~~~l~~ 156 (182)
T PF13251_consen 78 AEESKGPSGSFTSLSSTLASMIMELHRGLLLALQAE-KSPPVLTQLLKCLAVLVQATPYHRLPPGLLTEVVTQVRPLLRH 156 (182)
T ss_pred HHhcCCCCCCcccHHHHHHHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHHHccCChhhcCHhHHHHHHHHHHHHHhc
Confidence 1234544444433 3455555543 34445556677777664322111 1123344444555544432
Q ss_pred hhhhhhhHHHHHHHHHhHhhhhhh
Q 016189 360 EKQKNEMKRHEAWRVYGALQVDFF 383 (393)
Q Consensus 360 ~~~~~~~~~~~a~~v~~~l~~a~~ 383 (393)
.+..+|..+.-|.|+|+.+..
T Consensus 157 ---~d~~v~v~~l~~~~~l~s~~~ 177 (182)
T PF13251_consen 157 ---RDPNVRVAALSCLGALLSVQP 177 (182)
T ss_pred ---CCCcHHHHHHHHHHHHHcCCC
Confidence 445678899999999987653
No 85
>KOG1744 consensus Histone H2B [Chromatin structure and dynamics]
Probab=79.32 E-value=5.8 Score=34.38 Aligned_cols=48 Identities=19% Similarity=0.223 Sum_probs=41.4
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhc
Q 016189 21 LSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLR 68 (393)
Q Consensus 21 ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~ 68 (393)
++.++...+-..+...+..|+.||.++++-.||.+++..+|..|.+.+
T Consensus 56 is~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta~rLl 103 (127)
T KOG1744|consen 56 ISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTAVRLL 103 (127)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHHHHHh
Confidence 566666666677777789999999999999999999999999999875
No 86
>KOG2171 consensus Karyopherin (importin) beta 3 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=79.20 E-value=33 Score=39.56 Aligned_cols=149 Identities=18% Similarity=0.206 Sum_probs=102.6
Q ss_pred HHHHhhhhcCCcccchhhHHHHHHHHHhhccCChHHHHHHHHHHHHhhcCCCcccccchhhhHHHHHHHHhccccCCCCC
Q 016189 194 QALLSLAMDSGLHPLVPYFTYFISEEVTRSLKNFSLLFALMRVARSLLRNPHIHIEPYLHQMMPSVITCLVSKRLGNRFS 273 (393)
Q Consensus 194 ~aL~sL~tD~gL~~LlPy~~~fi~e~v~~nl~nl~~L~~ll~~v~ALl~N~~l~ie~YlHqLlpslltcll~k~l~~~~~ 273 (393)
++|..|+..=|=.+++|-+..++..-+++- ++..-...|..+-++..=-+=.++.-|.+++|.++..+ .
T Consensus 331 ~~lDrlA~~L~g~~v~p~~~~~l~~~l~S~--~w~~R~AaL~Als~i~EGc~~~m~~~l~~Il~~Vl~~l---------~ 399 (1075)
T KOG2171|consen 331 QALDRLALHLGGKQVLPPLFEALEAMLQST--EWKERHAALLALSVIAEGCSDVMIGNLPKILPIVLNGL---------N 399 (1075)
T ss_pred HHHHHHHhcCChhhehHHHHHHHHHHhcCC--CHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHhhc---------C
Confidence 588999998888888888888888776554 56666666666667766665566776777777665543 4
Q ss_pred CcchHHHHHHHHHHHHHHHHcCCCchhhHH----HHHHHHHHHhcCCCCCchhHhHHHHHHHhhCHHhHHHhcccchHHH
Q 016189 274 DNHWDLRNFVADLIASICTRFGHVYQNLQS----RVTRTLLHAFLDPTKSLSQHYGAIQGLAALGPSVVHLLILPNLELY 349 (393)
Q Consensus 274 ~~h~~LR~~AA~lL~~I~~~~~~~y~~L~~----Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~lG~~~vr~~ilP~l~~~ 349 (393)
|.|=.+|.-|-+.++++..-|. |+++. |+.-.|... +|...+...+=-|-.+|.++--+.-...|-|.|..+
T Consensus 400 DphprVr~AA~naigQ~stdl~---p~iqk~~~e~l~~aL~~~-ld~~~~~rV~ahAa~al~nf~E~~~~~~l~pYLd~l 475 (1075)
T KOG2171|consen 400 DPHPRVRYAALNAIGQMSTDLQ---PEIQKKHHERLPPALIAL-LDSTQNVRVQAHAAAALVNFSEECDKSILEPYLDGL 475 (1075)
T ss_pred CCCHHHHHHHHHHHHhhhhhhc---HHHHHHHHHhccHHHHHH-hcccCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHH
Confidence 6788999999999999877665 33332 233333333 344455555556667777777777788888999999
Q ss_pred HHhhhHhH
Q 016189 350 LKFLEPEM 357 (393)
Q Consensus 350 ~~~l~~~l 357 (393)
++..-..+
T Consensus 476 m~~~l~~L 483 (1075)
T KOG2171|consen 476 MEKKLLLL 483 (1075)
T ss_pred HHHHHHHH
Confidence 88543333
No 87
>PF13654 AAA_32: AAA domain; PDB: 3K1J_B.
Probab=78.68 E-value=7.7 Score=41.39 Aligned_cols=61 Identities=23% Similarity=0.258 Sum_probs=48.8
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhc
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVE-----------YRVREIMQEAIKCMRHAHRTVLTANDVDSALNLR 68 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve-----------~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~ 68 (393)
.|+.++++-|...++.+|...|.+... ..|.+++++|.-+++..+++.++.+||+.|++.+
T Consensus 435 ~i~~~~~~~~L~~~~~~Av~~li~~~~R~~q~kLsl~~~~l~~ll~EA~~~A~~~~~~~I~~~~V~~Ai~~r 506 (509)
T PF13654_consen 435 FIASICQKEGLPPFDRSAVARLIEYSARLDQDKLSLRFSWLADLLREANYWARKEGAKVITAEHVEQAIEER 506 (509)
T ss_dssp HHHHHHHHHSS--BBHHHHHHHHHHHHHCC-SEEE--HHHHHHHHHHHHHHHHHCT-SSB-HHHHHHHHHH-
T ss_pred HHHHHHHhCCCCCCCHHHHHHHHHHHHHHhCCEeCCCHHHHHHHHHHHHHHHHHhCCCccCHHHHHHHHHcc
Confidence 467788999999999998888877653 2688999999999999999999999999999865
No 88
>KOG2023 consensus Nuclear transport receptor Karyopherin-beta2/Transportin (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=78.48 E-value=14 Score=40.58 Aligned_cols=164 Identities=21% Similarity=0.194 Sum_probs=104.4
Q ss_pred HHHHhhhhcCCcccchhhHHHHHHHHHhhccCChHHHHHHHHHHHHhhcCCCcccccchhhhHHHHHHHHhccccCCCCC
Q 016189 194 QALLSLAMDSGLHPLVPYFTYFISEEVTRSLKNFSLLFALMRVARSLLRNPHIHIEPYLHQMMPSVITCLVSKRLGNRFS 273 (393)
Q Consensus 194 ~aL~sL~tD~gL~~LlPy~~~fi~e~v~~nl~nl~~L~~ll~~v~ALl~N~~l~ie~YlHqLlpslltcll~k~l~~~~~ 273 (393)
+||.-|++== =++++|-+.-++.+...+. ++..-..-+-.+-|+..-=.=.+-|||..|+|-++.|+=.|.---+ .
T Consensus 377 AaLDVLanvf-~~elL~~l~PlLk~~L~~~--~W~vrEagvLAlGAIAEGcM~g~~p~LpeLip~l~~~L~DKkplVR-s 452 (885)
T KOG2023|consen 377 AALDVLANVF-GDELLPILLPLLKEHLSSE--EWKVREAGVLALGAIAEGCMQGFVPHLPELIPFLLSLLDDKKPLVR-S 452 (885)
T ss_pred HHHHHHHHhh-HHHHHHHHHHHHHHHcCcc--hhhhhhhhHHHHHHHHHHHhhhcccchHHHHHHHHHHhccCcccee-e
Confidence 3555554432 2577888888887777652 3433333333334444333336778999999999999877643222 2
Q ss_pred CcchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcCCCCCchhHhHHHHHHHhhCHHhHHHhcccchHHHHHhh
Q 016189 274 DNHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAALGPSVVHLLILPNLELYLKFL 353 (393)
Q Consensus 274 ~~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~lG~~~vr~~ilP~l~~~~~~l 353 (393)
-..|.|-+||.-++..= .+.-++| ++.-|++.++| ++--.+-.|..+++.|-.+|-..+ +|++..++..|
T Consensus 453 ITCWTLsRys~wv~~~~------~~~~f~p-vL~~ll~~llD--~NK~VQEAAcsAfAtleE~A~~eL-Vp~l~~IL~~l 522 (885)
T KOG2023|consen 453 ITCWTLSRYSKWVVQDS------RDEYFKP-VLEGLLRRLLD--SNKKVQEAACSAFATLEEEAGEEL-VPYLEYILDQL 522 (885)
T ss_pred eeeeeHhhhhhhHhcCC------hHhhhHH-HHHHHHHHHhc--ccHHHHHHHHHHHHHHHHhccchh-HHHHHHHHHHH
Confidence 46799988887765432 2233444 44445555676 445667788888888888887764 79999999999
Q ss_pred hHhHhhhhhhhhhHHHHH
Q 016189 354 EPEMLLEKQKNEMKRHEA 371 (393)
Q Consensus 354 ~~~l~~~~~~~~~~~~~a 371 (393)
.....-...+|..+-+||
T Consensus 523 ~~af~kYQ~KNLlILYDA 540 (885)
T KOG2023|consen 523 VFAFGKYQKKNLLILYDA 540 (885)
T ss_pred HHHHHHHhhcceehHHHH
Confidence 877765545554444454
No 89
>COG5247 BUR6 Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]
Probab=78.03 E-value=7.5 Score=32.37 Aligned_cols=63 Identities=19% Similarity=0.252 Sum_probs=49.3
Q ss_pred CCCChHHHHHHHH---HcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhh
Q 016189 2 SIVPKETIEVIAQ---SIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALN 66 (393)
Q Consensus 2 s~~~~~~i~~iae---s~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~ 66 (393)
+-+|.+-|+.|.+ -+|. ++...--.....+|.++.+||+++.|-+|.-..+++|.+.+..|..
T Consensus 22 trFP~ar~KkIMQ~deDiGK--V~q~tPVIaskalE~Fl~~iv~~s~k~aR~~~skR~t~e~lk~a~~ 87 (113)
T COG5247 22 TRFPIARLKKIMQLDEDIGK--VGQSTPVIASKALEMFLTEIVGLSLKEARKKSSKRMTSEFLKRATE 87 (113)
T ss_pred hcCCHHHHHHHHHhhhhhhh--hhhcchHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHh
Confidence 3578888888764 2333 4444444567788999999999999999999999999999999874
No 90
>PF08506 Cse1: Cse1; InterPro: IPR013713 The exchange of macromolecules between the nucleus and cytoplasm takes place through nuclear pore complexes within the nuclear membrane. Active transport of large molecules through these pore complexes require carrier proteins, called karyopherins (importins and exportins), which shuttle between the two compartments. This domain is found in exportin Cse1 (also known as importin-alpha re-exporter). Exportin Cse1 mediates nuclear transport of importin-alpha back into the cytosol, where importin-alpha functions as a transporter of proteins carrying nuclear localisation signals (NLS) from the cytoplasm into the nucleus [, , ]. This domain contains HEAT repeats. More information about these proteins can be found at Protein of the Month: Importins [].; GO: 0006886 intracellular protein transport; PDB: 1Z3H_B 1WA5_C.
Probab=77.32 E-value=16 Score=37.30 Aligned_cols=103 Identities=15% Similarity=0.258 Sum_probs=60.0
Q ss_pred cchHHHHHHHHHHHHHHHHcCCCchhhHH-HHHHHHHHHhcCCCCCchhHhHHHHHHHhhCHHh------HH--Hhcccc
Q 016189 275 NHWDLRNFVADLIASICTRFGHVYQNLQS-RVTRTLLHAFLDPTKSLSQHYGAIQGLAALGPSV------VH--LLILPN 345 (393)
Q Consensus 275 ~h~~LR~~AA~lL~~I~~~~~~~y~~L~~-Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~lG~~~------vr--~~ilP~ 345 (393)
+.-.-|.-|.++|..+|++|+.....+-. -|...|.+.=.+|....-..-||+.-+.++.... |. ..+++-
T Consensus 223 d~~TrR~AA~dfl~~L~~~~~~~v~~i~~~~i~~~l~~y~~~~~~~w~~KD~Al~Li~ala~k~~t~~~Gvt~~~~~v~v 302 (370)
T PF08506_consen 223 DSDTRRRAACDFLRSLCKKFEKQVTSILMQYIQQLLQQYASNPSNNWRSKDGALYLIGALASKGSTTKSGVTQTNELVDV 302 (370)
T ss_dssp ---SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-TTT-HHHHHHHHHHHHHHHBSS--BTTB-S-B-TTS-H
T ss_pred ccCCcHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCcccHHHHHHHHHHHHHHHhhhccccCCcccccccccH
Confidence 34467888999999999998865443333 3333444333478888899999999888774332 11 123444
Q ss_pred hHHHHHhhhHhHhhhhhhhhhHHHHHHHHHhH
Q 016189 346 LELYLKFLEPEMLLEKQKNEMKRHEAWRVYGA 377 (393)
Q Consensus 346 l~~~~~~l~~~l~~~~~~~~~~~~~a~~v~~~ 377 (393)
...+...+.|+|..+.....+.|.+|-+..-.
T Consensus 303 ~~Ff~~~v~peL~~~~~~~piLka~aik~~~~ 334 (370)
T PF08506_consen 303 VDFFSQHVLPELQPDVNSHPILKADAIKFLYT 334 (370)
T ss_dssp HHHHHHHTCHHHH-SS-S-HHHHHHHHHHHHH
T ss_pred HHHHHHHhHHHhcccCCCCcchHHHHHHHHHH
Confidence 55555677888873334445566777665443
No 91
>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=75.04 E-value=11 Score=40.43 Aligned_cols=61 Identities=21% Similarity=0.170 Sum_probs=46.1
Q ss_pred HHHHHHHcCCCCCCHHHHHHHHHHHH-HH-HHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCC
Q 016189 9 IEVIAQSIGVYNLSSDVALALAPDVE-YR-VREIMQEAIKCMRHAHRTVLTANDVDSALNLRNV 70 (393)
Q Consensus 9 i~~iaes~G~~~ls~~~a~~La~dve-~r-l~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~ni 70 (393)
++..++..|+ .+++++.+.|+.... .| +.++++.|...+...+|..++.+||..++..-..
T Consensus 272 l~~~a~k~~i-~is~~al~~I~~y~~n~Rel~nll~~Aa~~A~~~~~~~It~~dI~~vl~~~~~ 334 (531)
T TIGR02902 272 AKNAAEKIGI-NLEKHALELIVKYASNGREAVNIVQLAAGIALGEGRKRILAEDIEWVAENGNY 334 (531)
T ss_pred HHHHHHHcCC-CcCHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCcEEcHHHHHHHhCCccc
Confidence 3445677787 599999998876554 22 6677888888888778899999999999865433
No 92
>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells. 26S proteasome non-ATPase regulatory subunit 5 is one of a number of chaperones that are involved in the assembly of the proteasome. The chaperones dissociate before 26S proteasome formation is complete [].; GO: 0044183 protein binding involved in protein folding
Probab=74.87 E-value=41 Score=35.74 Aligned_cols=137 Identities=12% Similarity=0.216 Sum_probs=89.0
Q ss_pred HHHHhhhhcCCcccchhhHHHHHHHHHhhccCChHHHHHHHHHHHHhhcCCCcccccch-hhhHHHHHHHHhccccCCCC
Q 016189 194 QALLSLAMDSGLHPLVPYFTYFISEEVTRSLKNFSLLFALMRVARSLLRNPHIHIEPYL-HQMMPSVITCLVSKRLGNRF 272 (393)
Q Consensus 194 ~aL~sL~tD~gL~~LlPy~~~fi~e~v~~nl~nl~~L~~ll~~v~ALl~N~~l~ie~Yl-HqLlpslltcll~k~l~~~~ 272 (393)
.+|..+=.+.....+.|.+..|+..++.+.- -......++.+..++.++.-..+.-. +.++|.++.|+-.
T Consensus 60 ~iL~~~l~~~~~~~l~~~~~~~L~~gL~h~~--~~Vr~l~l~~l~~~~~~~~~~~~~~~~~~l~~~i~~~L~~------- 130 (503)
T PF10508_consen 60 DILKRLLSALSPDSLLPQYQPFLQRGLTHPS--PKVRRLALKQLGRIARHSEGAAQLLVDNELLPLIIQCLRD------- 130 (503)
T ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHhcCCC--HHHHHHHHHHHHHHhcCCHHHHHHhcCccHHHHHHHHHcC-------
Confidence 4577777777888889999999999998753 22223334556666666655444333 5689999999833
Q ss_pred CCcchHHHHHHHHHHHHHHHHcCCCchhh-HHHHHHHHHHHhcCCC-CCchhHhHHHHHHHhhCHHhHHHhc
Q 016189 273 SDNHWDLRNFVADLIASICTRFGHVYQNL-QSRVTRTLLHAFLDPT-KSLSQHYGAIQGLAALGPSVVHLLI 342 (393)
Q Consensus 273 ~~~h~~LR~~AA~lL~~I~~~~~~~y~~L-~~Ri~~~l~k~l~d~~-~~l~t~YGAi~GL~~lG~~~vr~~i 342 (393)
..-.+-..|+++|..+++. ......+ .+.+...|.+.+..++ ......|-.++-++...+++...+.
T Consensus 131 --~d~~Va~~A~~~L~~l~~~-~~~~~~l~~~~~~~~L~~l~~~~~~~vR~Rv~el~v~i~~~S~~~~~~~~ 199 (503)
T PF10508_consen 131 --PDLSVAKAAIKALKKLASH-PEGLEQLFDSNLLSKLKSLMSQSSDIVRCRVYELLVEIASHSPEAAEAVV 199 (503)
T ss_pred --CcHHHHHHHHHHHHHHhCC-chhHHHHhCcchHHHHHHHHhccCHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence 3447899999999999963 2222222 2222556666554312 2345678888888888888776553
No 93
>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.
Probab=74.48 E-value=62 Score=33.69 Aligned_cols=69 Identities=20% Similarity=0.179 Sum_probs=50.7
Q ss_pred chhhhHHHHHHHHhccccCCCCCCcchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcCCCCCchhHhHHHHHH
Q 016189 251 YLHQMMPSVITCLVSKRLGNRFSDNHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGL 330 (393)
Q Consensus 251 YlHqLlpslltcll~k~l~~~~~~~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL 330 (393)
-+..++|.+..++. +++|.+|..|+-.+.++++.+....+.- +...+.+.+.| +.......|+..+
T Consensus 111 ~~~~l~~~v~~ll~---------~~~~~VRk~A~~~l~~i~~~~p~~~~~~---~~~~l~~lL~d--~~~~V~~~a~~~l 176 (526)
T PF01602_consen 111 MAEPLIPDVIKLLS---------DPSPYVRKKAALALLKIYRKDPDLVEDE---LIPKLKQLLSD--KDPSVVSAALSLL 176 (526)
T ss_dssp HHHHHHHHHHHHHH---------SSSHHHHHHHHHHHHHHHHHCHCCHHGG---HHHHHHHHTTH--SSHHHHHHHHHHH
T ss_pred hhhHHHHHHHHHhc---------CCchHHHHHHHHHHHHHhccCHHHHHHH---HHHHHhhhccC--CcchhHHHHHHHH
Confidence 34566777777752 4577999999999999999855443331 56677777754 4488889999999
Q ss_pred Hhh
Q 016189 331 AAL 333 (393)
Q Consensus 331 ~~l 333 (393)
..+
T Consensus 177 ~~i 179 (526)
T PF01602_consen 177 SEI 179 (526)
T ss_dssp HHH
T ss_pred HHH
Confidence 888
No 94
>KOG0212 consensus Uncharacterized conserved protein [Function unknown]
Probab=73.72 E-value=38 Score=36.57 Aligned_cols=158 Identities=15% Similarity=0.107 Sum_probs=100.5
Q ss_pred ccchhhHHHHHHHHHhhccCChHHHHHHHHHHHHhhcCCCcccccchhhhHHHHHHHHhccccCCCCCCcchHHHHHHHH
Q 016189 206 HPLVPYFTYFISEEVTRSLKNFSLLFALMRVARSLLRNPHIHIEPYLHQMMPSVITCLVSKRLGNRFSDNHWDLRNFVAD 285 (393)
Q Consensus 206 ~~LlPy~~~fi~e~v~~nl~nl~~L~~ll~~v~ALl~N~~l~ie~YlHqLlpslltcll~k~l~~~~~~~h~~LR~~AA~ 285 (393)
+-=+|-|+..+.|.+..- |...-..++.-+.-|-.=|.+.+-.|+..+++-+++-+ .|++-++|+.+..
T Consensus 162 tFsL~~~ipLL~eriy~~--n~~tR~flv~Wl~~Lds~P~~~m~~yl~~~ldGLf~~L---------sD~s~eVr~~~~t 230 (675)
T KOG0212|consen 162 TFSLPEFIPLLRERIYVI--NPMTRQFLVSWLYVLDSVPDLEMISYLPSLLDGLFNML---------SDSSDEVRTLTDT 230 (675)
T ss_pred ccCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHhcCCcHHHHhcchHHHHHHHHHh---------cCCcHHHHHHHHH
Confidence 344777777777777554 66666778888899999999999999999999877764 4667799999888
Q ss_pred HHHHHHHHcCCCchh-hHHHHHHHHHHHhcCCCCCchhHhHHHHHHHhhCHHhHHHhcccchHHHHHhhhHhHhhhhhhh
Q 016189 286 LIASICTRFGHVYQN-LQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAALGPSVVHLLILPNLELYLKFLEPEMLLEKQKN 364 (393)
Q Consensus 286 lL~~I~~~~~~~y~~-L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~lG~~~vr~~ilP~l~~~~~~l~~~l~~~~~~~ 364 (393)
+|+.....-.++=.+ =..++..++...+..+.. -.+--|+.=+.+|=+-.=+ -++|+++.++..+-|.+...- +
T Consensus 231 ~l~~fL~eI~s~P~s~d~~~~i~vlv~~l~ss~~--~iq~~al~Wi~efV~i~g~-~~l~~~s~il~~iLpc~s~~e--~ 305 (675)
T KOG0212|consen 231 LLSEFLAEIRSSPSSMDYDDMINVLVPHLQSSEP--EIQLKALTWIQEFVKIPGR-DLLLYLSGILTAILPCLSDTE--E 305 (675)
T ss_pred HHHHHHHHHhcCccccCcccchhhccccccCCcH--HHHHHHHHHHHHHhcCCCc-chhhhhhhhhhhcccCCCCCc--c
Confidence 877766443332222 244566666665543222 2233456666555332222 247888888888887765321 1
Q ss_pred hhHHHHHHHHHhHhh
Q 016189 365 EMKRHEAWRVYGALQ 379 (393)
Q Consensus 365 ~~~~~~a~~v~~~l~ 379 (393)
...+.-|..+-|.|+
T Consensus 306 ~~i~~~a~~~n~~l~ 320 (675)
T KOG0212|consen 306 MSIKEYAQMVNGLLL 320 (675)
T ss_pred ccHHHHHHHHHHHHH
Confidence 123344444544444
No 95
>PF03224 V-ATPase_H_N: V-ATPase subunit H; InterPro: IPR004908 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. This entry represents subunit H (also known as Vma13p) found in the V1 complex of V-ATPases. This subunit has a regulatory function, being responsible for activating ATPase activity and coupling ATPase activity to proton flow []. The yeast enzyme contains five motifs similar to the HEAT or Armadillo repeats seen in the importins, and can be divided into two distinct domains: a large N-terminal domain consisting of stacked alpha helices, and a smaller C-terminal alpha-helical domain with a similar superhelical topology to an armadillo repeat []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0000221 vacuolar proton-transporting V-type ATPase, V1 domain; PDB: 1HO8_A.
Probab=72.10 E-value=78 Score=31.15 Aligned_cols=158 Identities=15% Similarity=0.119 Sum_probs=80.1
Q ss_pred ccCcHHHHHHHHHHHHHhhcCCchHHHHHHHHhhhhcCCcccchhhHHHHHHHHHhhcc-CChHHHHHHHHHHHHhhcCC
Q 016189 166 HVLSKELQLYFDKIRELTVSRSNSTVFKQALLSLAMDSGLHPLVPYFTYFISEEVTRSL-KNFSLLFALMRVARSLLRNP 244 (393)
Q Consensus 166 h~LS~Elq~yf~~It~a~~~~~~~~~~~~aL~sL~tD~gL~~LlPy~~~fi~e~v~~nl-~nl~~L~~ll~~v~ALl~N~ 244 (393)
+.+|.|.-.+.+++-..... .+++. ++.|.. ....-|+..+ .+. ++...+.|++.++.-|+...
T Consensus 24 ~~is~~~~~~ik~~~~~~~~-----~~~~~---~~~~~~--~~~~~~l~lL-----~~~~~~~d~v~yvL~li~dll~~~ 88 (312)
T PF03224_consen 24 GLISEEDLSLIKKLDKQSKE-----ERREL---LEEDGD--QYASLFLNLL-----NKLSSNDDTVQYVLTLIDDLLSDD 88 (312)
T ss_dssp TSS-HHHHHHHHHHHHHHH-----------------------------HHH-----HHH---HHHHHHHHHHHHHHHH-S
T ss_pred CCCCHHHHHHHHHHHCCCHH-----HHHHH---HHhchh--hHHHHHHHHH-----HHccCcHHHHHHHHHHHHHHHhcC
Confidence 46888888888877765431 12222 222221 1222222222 233 67888999998888888776
Q ss_pred CcccccchhhhHH----HHHHHHhccccCCCCCCcchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcCCCCC-
Q 016189 245 HIHIEPYLHQMMP----SVITCLVSKRLGNRFSDNHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTKS- 319 (393)
Q Consensus 245 ~l~ie~YlHqLlp----slltcll~k~l~~~~~~~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~~~~- 319 (393)
. .....++.+-. ...+..+. .+ ..++|.+...|+.+|+.++...+..-......+...|.+.+.+-.++
T Consensus 89 ~-~~~~~~~~~~~~~~~~~~~~fl~-ll----~~~D~~i~~~a~~iLt~Ll~~~~~~~~~~~~~~l~~ll~~L~~~l~~~ 162 (312)
T PF03224_consen 89 P-SRVELFLELAKQDDSDPYSPFLK-LL----DRNDSFIQLKAAFILTSLLSQGPKRSEKLVKEALPKLLQWLSSQLSSS 162 (312)
T ss_dssp S-SSHHHHHHHHH-TTH--HHHHHH-H-----S-SSHHHHHHHHHHHHHHHTSTTT--HHHHHHHHHHHHHHHH-TT-HH
T ss_pred H-HHHHHHHHhcccccchhHHHHHH-Hh----cCCCHHHHHHHHHHHHHHHHcCCccccchHHHHHHHHHHHHHHhhcCC
Confidence 6 33333333221 11122221 11 12488999999999999998766655543345666666665542222
Q ss_pred -chhHhHHHHHHHhh-CHHhHHHhccc
Q 016189 320 -LSQHYGAIQGLAAL-GPSVVHLLILP 344 (393)
Q Consensus 320 -l~t~YGAi~GL~~l-G~~~vr~~ilP 344 (393)
....+.|+.+|+.| ..+..|..++-
T Consensus 163 ~~~~~~~av~~L~~LL~~~~~R~~f~~ 189 (312)
T PF03224_consen 163 DSELQYIAVQCLQNLLRSKEYRQVFWK 189 (312)
T ss_dssp HH---HHHHHHHHHHHTSHHHHHHHHT
T ss_pred CcchHHHHHHHHHHHhCcchhHHHHHh
Confidence 23348999999998 66777766543
No 96
>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=69.67 E-value=11 Score=37.43 Aligned_cols=57 Identities=16% Similarity=0.250 Sum_probs=48.1
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHh
Q 016189 7 ETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSAL 65 (393)
Q Consensus 7 ~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al 65 (393)
+.++.+++..|+ .+++++++.|++-++-.++.++++.-|.+..++ +++|.+||+.++
T Consensus 183 ~~l~~~~~~~g~-~i~~~a~~~l~~~~~g~~~~a~~~lekl~~~~~-~~it~~~v~~~~ 239 (355)
T TIGR02397 183 ERLKKILDKEGI-KIEDEALELIARAADGSLRDALSLLDQLISFGN-GNITYEDVNELL 239 (355)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHcCCChHHHHHHHHHHHhhcC-CCCCHHHHHHHh
Confidence 356667778998 599999999999998889999998888887766 459999999877
No 97
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=68.11 E-value=12 Score=36.60 Aligned_cols=57 Identities=19% Similarity=0.090 Sum_probs=46.5
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhh
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNL 67 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~ 67 (393)
.++.+++..|+. +++++++.|++...--+++++...-+++ .+.+++|.+||+.++..
T Consensus 192 ~l~~~~~~~~~~-~~~~al~~l~~~~~gdlr~l~~~l~~~~--~~~~~It~~~v~~~~~~ 248 (337)
T PRK12402 192 VLESIAEAEGVD-YDDDGLELIAYYAGGDLRKAILTLQTAA--LAAGEITMEAAYEALGD 248 (337)
T ss_pred HHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHH--HcCCCCCHHHHHHHhCC
Confidence 456677788985 9999999999999888999988887766 34458999999998754
No 98
>KOG1659 consensus Class 2 transcription repressor NC2, alpha subunit (DRAP1) [Transcription]
Probab=67.01 E-value=21 Score=33.65 Aligned_cols=66 Identities=15% Similarity=0.267 Sum_probs=52.8
Q ss_pred CCChHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhc
Q 016189 3 IVPKETIEVIAQSI-GVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLR 68 (393)
Q Consensus 3 ~~~~~~i~~iaes~-G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~ 68 (393)
.||..-||.|.++= .|..+...+=-.+...+|.++..+++.+.+..+--+-|+++++++..|...-
T Consensus 13 rfp~aRiKKIMQ~dEdIGKvaqavPViisralElFl~~l~~~t~~~t~~~~aKt~s~~hlkq~v~~~ 79 (224)
T KOG1659|consen 13 RFPPARIKKIMQSDEDIGKVAQAVPVIISRALELFLESLLQKTLEITRSRGAKTVSSSHLKQAVESD 79 (224)
T ss_pred cCCHHHHHHHHhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCccccCHHHHHHHHhcc
Confidence 47778888876541 2333555566678889999999999999999999999999999999998653
No 99
>PRK09687 putative lyase; Provisional
Probab=65.62 E-value=9.1 Score=37.47 Aligned_cols=57 Identities=11% Similarity=0.137 Sum_probs=41.1
Q ss_pred CcchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcCCCCCchhHhHHHHHHHhhCHH
Q 016189 274 DNHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAALGPS 336 (393)
Q Consensus 274 ~~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~lG~~ 336 (393)
+..|.+|..|+..|+++|.... .-.++....+...+.|+ +...+++|+.+|..+|..
T Consensus 102 D~d~~VR~~A~~aLG~~~~~~~----~~~~~a~~~l~~~~~D~--~~~VR~~a~~aLg~~~~~ 158 (280)
T PRK09687 102 DKSACVRASAINATGHRCKKNP----LYSPKIVEQSQITAFDK--STNVRFAVAFALSVINDE 158 (280)
T ss_pred CCCHHHHHHHHHHHhccccccc----ccchHHHHHHHHHhhCC--CHHHHHHHHHHHhccCCH
Confidence 4568899999999999875432 22456777777777765 557888888888888653
No 100
>KOG1824 consensus TATA-binding protein-interacting protein [General function prediction only]
Probab=64.94 E-value=94 Score=35.74 Aligned_cols=112 Identities=16% Similarity=0.252 Sum_probs=73.0
Q ss_pred hhcCCcccchhhHHHHHHHHHhhccCChHHHHHHHHHHHHhhcCCCcccccchhhhHHHHHHHHhcc-ccC--CC-----
Q 016189 200 AMDSGLHPLVPYFTYFISEEVTRSLKNFSLLFALMRVARSLLRNPHIHIEPYLHQMMPSVITCLVSK-RLG--NR----- 271 (393)
Q Consensus 200 ~tD~gL~~LlPy~~~fi~e~v~~nl~nl~~L~~ll~~v~ALl~N~~l~ie~YlHqLlpslltcll~k-~l~--~~----- 271 (393)
|-+..+.-++|.+.+|-..- +..+-+.-.+.++..++++.-.--.|-||...++.-.+.-+--. +.. .+
T Consensus 247 r~~~h~~~ivp~v~~y~~~~---e~~dDELrE~~lQale~fl~rcp~ei~p~~pei~~l~l~yisYDPNy~yd~~eDed~ 323 (1233)
T KOG1824|consen 247 RFGSHLDKIVPLVADYCNKI---EEDDDELREYCLQALESFLRRCPKEILPHVPEIINLCLSYISYDPNYNYDTEEDEDA 323 (1233)
T ss_pred hhhcccchhhHHHHHHhccc---ccCcHHHHHHHHHHHHHHHHhChhhhcccchHHHHHHHHHhccCCCCCCCCccchhh
Confidence 34566777888887776422 44455666789999999998877888888887777666555332 111 10
Q ss_pred -----C------------CCcchHHHHHHHHHHHHHH-------------------HHcCCCchhhHHHHHHHHHHHhc
Q 016189 272 -----F------------SDNHWDLRNFVADLIASIC-------------------TRFGHVYQNLQSRVTRTLLHAFL 314 (393)
Q Consensus 272 -----~------------~~~h~~LR~~AA~lL~~I~-------------------~~~~~~y~~L~~Ri~~~l~k~l~ 314 (393)
. .|-.|.+|+.||+++..++ .||...-.+.+.-++.+|...|.
T Consensus 324 ~~~ed~eDde~~deYsDDeD~SWkVRRaAaKcl~a~IsSR~E~L~~~~q~l~p~lI~RfkEREEnVk~dvf~~yi~ll~ 402 (1233)
T KOG1824|consen 324 MFLEDEEDDEQDDEYSDDEDMSWKVRRAAAKCLEAVISSRLEMLPDFYQTLGPALISRFKEREENVKADVFHAYIALLK 402 (1233)
T ss_pred hhhhccccchhccccccccchhHHHHHHHHHHHHHHHhccHHHHHHHHHHhCHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence 0 0125999999999997655 34555555555556666655543
No 101
>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=63.96 E-value=37 Score=29.44 Aligned_cols=68 Identities=16% Similarity=0.166 Sum_probs=56.8
Q ss_pred CChHHHHHHHHHcCCCC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCCC
Q 016189 4 VPKETIEVIAQSIGVYN--LSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRNVE 71 (393)
Q Consensus 4 ~~~~~i~~iaes~G~~~--ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~nie 71 (393)
+|++||..+..++==.+ .+.|+-..+-..-=++|.-+-.+|-+.+..-+.+|+..++|=.||+.++.+
T Consensus 12 LPKATVqKMvS~iLp~dl~ftKearei~in~cieFi~~lsseAne~ce~EaKKTIa~EHviKALenLef~ 81 (148)
T COG5150 12 LPKATVQKMVSSILPKDLVFTKEAREIFINACIEFINMLSSEANEACEEEAKKTIAYEHVIKALENLEFE 81 (148)
T ss_pred CcHHHHHHHHHHhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHhccHH
Confidence 79999988766543322 567888888888888999999999999999999999999999999877654
No 102
>KOG1823 consensus DRIM (Down-regulated in metastasis)-like proteins [Defense mechanisms]
Probab=63.85 E-value=26 Score=41.31 Aligned_cols=119 Identities=22% Similarity=0.264 Sum_probs=73.4
Q ss_pred HHHHHHHHHhhcCCCcccccchhhhHHHHHHHHhccccCCCCCCcchHHHHHHHHHHHHHHHHcCCCc-hhhHHHHHHHH
Q 016189 231 FALMRVARSLLRNPHIHIEPYLHQMMPSVITCLVSKRLGNRFSDNHWDLRNFVADLIASICTRFGHVY-QNLQSRVTRTL 309 (393)
Q Consensus 231 ~~ll~~v~ALl~N~~l~ie~YlHqLlpslltcll~k~l~~~~~~~h~~LR~~AA~lL~~I~~~~~~~y-~~L~~Ri~~~l 309 (393)
...+-++++.+.|..+... .||+++-=+-..+.++ ...+||-|-+++++|.+--|..| ..+-+-+.-|+
T Consensus 542 ~~~~~~~~~~l~~~~i~~~-~L~~illkic~~l~~~---------s~e~rd~srktl~~i~k~Lg~~yl~~Vi~el~~Tl 611 (1364)
T KOG1823|consen 542 AEALVFLVLFLGNAEIVLR-NLPSILLDICYLLRSR---------SAELRDASRKTLAKIIKILGPKYLYFVIKELQTTL 611 (1364)
T ss_pred HHHHHHHHhcccchHHHHh-cCcHHHHHHHHHHhhh---------hHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence 3345566666666666444 3444333222222222 34899999999999998877766 44555666677
Q ss_pred HHHhcCCCCCchhHh--HHHHHHHhhCHHhHHHhcccchHHHHHhhhHhHhhhh
Q 016189 310 LHAFLDPTKSLSQHY--GAIQGLAALGPSVVHLLILPNLELYLKFLEPEMLLEK 361 (393)
Q Consensus 310 ~k~l~d~~~~l~t~Y--GAi~GL~~lG~~~vr~~ilP~l~~~~~~l~~~l~~~~ 361 (393)
.+.++=-..+.+.|| ||+.+...-|. ...++=|.+....+.+--+...++
T Consensus 612 ~rg~q~hvl~~tvh~ll~a~~~v~~~g~--Ld~~~~~~i~i~~e~~fg~v~~ek 663 (1364)
T KOG1823|consen 612 KRGFQVHVLSYTVHYLLGAMKNVLKAGS--LDTCLDPIIKIFNENLFGEVGKEK 663 (1364)
T ss_pred HHhhhhhhhHHHHHHHHHHHhccccccc--HHHHHHHHHHHHHHHHHHHHhhhh
Confidence 777765556666666 78877777775 333444666677666655554444
No 103
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]
Probab=63.66 E-value=13 Score=34.99 Aligned_cols=67 Identities=18% Similarity=0.253 Sum_probs=57.5
Q ss_pred CChHHHHHHHHH-cCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCC
Q 016189 4 VPKETIEVIAQS-IGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRNV 70 (393)
Q Consensus 4 ~~~~~i~~iaes-~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~ni 70 (393)
+|.+-||.+.+. -|+.-++.||--..|...|.+|.|+--.|--.++..||.+|...||-.|++...+
T Consensus 110 LPlARIkkvMKtdedVkMisaEaPvlFak~~EiFI~ELTmRAW~~ae~NkRRtLQksDia~Av~kSeM 177 (286)
T COG5208 110 LPLARIKKVMKTDEDVKMISAEAPVLFAKITEIFIEELTMRAWINAEENKRRTLQKSDIAAAVKKSEM 177 (286)
T ss_pred CcHHHHHHHHhcccchhheecccchHHHHHHHHHHHHHHHHHHHHHhHhhhhHHHHHHHHHHHHHHHH
Confidence 677778776653 3566688899999999999999999999999999999999999999999987544
No 104
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=63.53 E-value=16 Score=38.83 Aligned_cols=60 Identities=12% Similarity=0.088 Sum_probs=51.5
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhc
Q 016189 7 ETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLR 68 (393)
Q Consensus 7 ~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~ 68 (393)
+.++.+++.-|+ .+++++++.|++-.+-.+|.+++..-+.+.+++ +++|.+||...+...
T Consensus 182 ~~L~~ia~~Egi-~i~~eAL~lIa~~s~GslR~alslLdqli~y~~-~~It~e~V~~llg~~ 241 (491)
T PRK14964 182 EHLVDIAKKENI-EHDEESLKLIAENSSGSMRNALFLLEQAAIYSN-NKISEKSVRDLLGCV 241 (491)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcC-CCCCHHHHHHHHccC
Confidence 456778888899 599999999999999999999999989888887 589999999877433
No 105
>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=62.83 E-value=28 Score=38.05 Aligned_cols=60 Identities=13% Similarity=0.188 Sum_probs=47.5
Q ss_pred HHHHHHHcC-CCCCCHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhc
Q 016189 9 IEVIAQSIG-VYNLSSDVALALAPDVE-------------YRVREIMQEAIKCMRHAHRTVLTANDVDSALNLR 68 (393)
Q Consensus 9 i~~iaes~G-~~~ls~~~a~~La~dve-------------~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~ 68 (393)
|...++.-| ...+++++...|.+... -.+..++++|..+++..++..++.+||..|++..
T Consensus 318 i~~~~~r~G~l~~~s~~Av~~Li~~~~R~ag~r~~lsl~~R~L~~llR~A~~iA~~~~~~~I~~ehV~~Ai~~~ 391 (608)
T TIGR00764 318 VAQEVKKDGRIPHFTRDAVEEIVREAQRRAGRKDHLTLRLRELGGLVRAAGDIAKSSGKVYVTAEHVLKAKKLA 391 (608)
T ss_pred HHHHHHHhCCCCcCCHHHHHHHHHHHHHHHhcccccCCCHHHHHHHHHHHHHHHHhcCCceecHHHHHHHHHHH
Confidence 344445554 66799999999876544 3488999999889988899999999999999765
No 106
>KOG3901 consensus Transcription initiation factor IID subunit [Transcription]
Probab=60.31 E-value=24 Score=29.59 Aligned_cols=42 Identities=19% Similarity=0.143 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhh
Q 016189 23 SDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNL 67 (393)
Q Consensus 23 ~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~ 67 (393)
++.++.|-+.|-..|.++.+.| |.-++|.++..+|+..+|+-
T Consensus 30 ~~tv~~Le~iV~~Yi~elt~~a---~~~g~rgk~~veD~~f~lRk 71 (109)
T KOG3901|consen 30 PETVDLLEDIVLEYITELTHAA---MEIGKRGKVKVEDFKFLLRK 71 (109)
T ss_pred HhHHHHHHHHHHHHHHHHHHHH---HHhcccCceeHHHHHHHHHh
Confidence 4778888888888888885554 44559999999999999974
No 107
>PF08623 TIP120: TATA-binding protein interacting (TIP20); InterPro: IPR013932 TIP120 (also known as cullin-associated and neddylation-dissociated protein 1) is a TATA binding protein interacting protein that enhances transcription []. ; PDB: 4A0C_A 1U6G_C.
Probab=60.23 E-value=46 Score=30.34 Aligned_cols=103 Identities=18% Similarity=0.212 Sum_probs=65.6
Q ss_pred cccchhhhHHHHHHHHhcc-------ccCCC--CCCcchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcCCCC
Q 016189 248 IEPYLHQMMPSVITCLVSK-------RLGNR--FSDNHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTK 318 (393)
Q Consensus 248 ie~YlHqLlpslltcll~k-------~l~~~--~~~~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~~~ 318 (393)
|-|++.+++|.++.=..-+ ++|+= ..|+-..+|..|=.+|..+.+.+....+ -..+.......|-| ..
T Consensus 3 i~~~L~~llP~ly~et~v~~elir~V~mGPFKh~vDDGLelRK~ayE~lytlLd~~~~~~~--~~~~~~~v~~GL~D-~~ 79 (169)
T PF08623_consen 3 IRPHLDQLLPNLYAETKVKPELIREVDMGPFKHKVDDGLELRKAAYECLYTLLDTCLSRID--ISEFLDRVEAGLKD-EH 79 (169)
T ss_dssp TTTTHHHHHHHHHHTTS--STTEEEEEETTCEEEEEGGGHHHHHHHHHHHHHHHSTCSSS---HHHHHHHHHHTTSS--H
T ss_pred hHHHHHHHHHHHHHHhccCHHHheeeecCCceeeecCcHHHHHHHHHHHHHHHHHHHHhCC--HHHHHHHHHhhcCC-cH
Confidence 4577888999887655443 24542 3689999999999999999987655443 33456667777777 43
Q ss_pred Cchh-HhHHHHHHHhhCHHhHHHhcccchHHHHHhhhHhH
Q 016189 319 SLSQ-HYGAIQGLAALGPSVVHLLILPNLELYLKFLEPEM 357 (393)
Q Consensus 319 ~l~t-~YGAi~GL~~lG~~~vr~~ilP~l~~~~~~l~~~l 357 (393)
.+.. -|.-+.=|..+.|..+.. +|..+.+.++..+
T Consensus 80 DIk~L~~~~l~kl~~~~p~~v~~----~Ld~l~~~l~~~L 115 (169)
T PF08623_consen 80 DIKMLCHLMLSKLAQLAPEEVLQ----RLDSLVEPLRKTL 115 (169)
T ss_dssp HHHHHHHHHHHHHHHS-HHHHHH----CCTTTHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhCHHHHHH----HHHHHHHHHHHHh
Confidence 3332 356666677777777664 4555555555555
No 108
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=60.19 E-value=2e+02 Score=33.21 Aligned_cols=139 Identities=15% Similarity=0.120 Sum_probs=78.3
Q ss_pred cccchhhHHHHHHHHHh--hccCChHHHHHHHHHHHHhhcCCCc-ccccchhhhHHHHHHHHhccccCCCCCCcchHHHH
Q 016189 205 LHPLVPYFTYFISEEVT--RSLKNFSLLFALMRVARSLLRNPHI-HIEPYLHQMMPSVITCLVSKRLGNRFSDNHWDLRN 281 (393)
Q Consensus 205 L~~LlPy~~~fi~e~v~--~nl~nl~~L~~ll~~v~ALl~N~~l-~ie~YlHqLlpslltcll~k~l~~~~~~~h~~LR~ 281 (393)
++.+++|.+.-+..... ...+|...-.--|+|+-+|. ..| .=.||-.++=- +|.--|.+.+. .+---||-
T Consensus 408 l~k~l~F~~~Il~~~~~~~~~~~~~rqkdGAL~~vgsl~--~~L~K~s~~~~~mE~-flv~hVfP~f~----s~~g~Lra 480 (1010)
T KOG1991|consen 408 LPKILSFIVDILTRYKEASPPNKNPRQKDGALRMVGSLA--SILLKKSPYKSQMEY-FLVNHVFPEFQ----SPYGYLRA 480 (1010)
T ss_pred hhhHHHHHHHHHHhhcccCCCccChhhhhhHHHHHHHHH--HHHccCCchHHHHHH-HHHHHhhHhhc----CchhHHHH
Confidence 44455544444432222 33455555555666666655 111 22344333222 22222222222 23347999
Q ss_pred HHHHHHHHHH-HHcCCCchhhHHHHHHHHHHHhcCCCCCchhHhHHHHHHHhh-CHHh-HHHhcccchHHHHHhh
Q 016189 282 FVADLIASIC-TRFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAAL-GPSV-VHLLILPNLELYLKFL 353 (393)
Q Consensus 282 ~AA~lL~~I~-~~~~~~y~~L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~l-G~~~-vr~~ilP~l~~~~~~l 353 (393)
.|+-+++.+| -.|+. ++.-..+..--.+.|.+ ++.++..--|..+|..| ..+. ....+-||++..++.|
T Consensus 481 rac~vl~~~~~~df~d--~~~l~~ale~t~~~l~~-d~~lPV~VeAalALq~fI~~~~~~~e~~~~hvp~~mq~l 552 (1010)
T KOG1991|consen 481 RACWVLSQFSSIDFKD--PNNLSEALELTHNCLLN-DNELPVRVEAALALQSFISNQEQADEKVSAHVPPIMQEL 552 (1010)
T ss_pred HHHHHHHHHHhccCCC--hHHHHHHHHHHHHHhcc-CCcCchhhHHHHHHHHHHhcchhhhhhHhhhhhHHHHHH
Confidence 9999999999 67776 55555566666677775 68888889999999988 3322 2223446666666544
No 109
>KOG1967 consensus DNA repair/transcription protein Mms19 [Replication, recombination and repair; Transcription]
Probab=59.75 E-value=55 Score=37.24 Aligned_cols=140 Identities=18% Similarity=0.257 Sum_probs=88.0
Q ss_pred HHHHHHHHHHhhcC------CchHHHHHHHHhhhhcCCcccchhhHHHHHHHHHhh-ccCChHHHHHHHHHHHHhhcCCC
Q 016189 173 QLYFDKIRELTVSR------SNSTVFKQALLSLAMDSGLHPLVPYFTYFISEEVTR-SLKNFSLLFALMRVARSLLRNPH 245 (393)
Q Consensus 173 q~yf~~It~a~~~~------~~~~~~~~aL~sL~tD~gL~~LlPy~~~fi~e~v~~-nl~nl~~L~~ll~~v~ALl~N~~ 245 (393)
|.||..|.-+++++ +.....-+||..+=++.-.++++|.+-...---+.. .+-|...-...++.+.-++.=-+
T Consensus 862 QRfF~~ivP~l~~~~~t~~~~~K~~yl~~LshVl~~vP~~vllp~~~~LlPLLLq~Ls~~D~~v~vstl~~i~~~l~~~~ 941 (1030)
T KOG1967|consen 862 QRFFCDIVPILVSKFETAPGSQKHNYLEALSHVLTNVPKQVLLPQFPMLLPLLLQALSMPDVIVRVSTLRTIPMLLTESE 941 (1030)
T ss_pred HHHHHhhHHHHHHHhccCCccchhHHHHHHHHHHhcCCHHhhccchhhHHHHHHHhcCCCccchhhhHhhhhhHHHHhcc
Confidence 78888888776542 334556688877666766688888765443211111 12233332233444444444444
Q ss_pred cccccchhhhHHHHHHHHhccccCCCCCCcchHHHHHHHHHHHHHHHHcCC-CchhhHHHHHHHHHHHhcCCCC
Q 016189 246 IHIEPYLHQMMPSVITCLVSKRLGNRFSDNHWDLRNFVADLIASICTRFGH-VYQNLQSRVTRTLLHAFLDPTK 318 (393)
Q Consensus 246 l~ie~YlHqLlpslltcll~k~l~~~~~~~h~~LR~~AA~lL~~I~~~~~~-~y~~L~~Ri~~~l~k~l~d~~~ 318 (393)
==+..|+.-++|.+++. ++ .+.+|--..|..|=++|..+.++--+ .-..-|+.|++.+.+.|-||++
T Consensus 942 tL~t~~~~Tlvp~lLsl--s~----~~~n~~~~VR~~ALqcL~aL~~~~P~~~l~~fr~~Vl~al~k~LdDkKR 1009 (1030)
T KOG1967|consen 942 TLQTEHLSTLVPYLLSL--SS----DNDNNMMVVREDALQCLNALTRRLPTKSLLSFRPLVLRALIKILDDKKR 1009 (1030)
T ss_pred ccchHHHhHHHHHHHhc--CC----CCCcchhHHHHHHHHHHHHHhccCCCcccccccHHHHHHhhhccCcHHH
Confidence 45677888888877654 22 22233478999999999999985333 3355688899999999888765
No 110
>COG5248 TAF19 Transcription initiation factor TFIID, subunit TAF13 [Transcription]
Probab=58.02 E-value=30 Score=29.29 Aligned_cols=43 Identities=23% Similarity=0.094 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhh
Q 016189 23 SDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNL 67 (393)
Q Consensus 23 ~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~ 67 (393)
.+.++.|-+.|--.+..+.-+|...+. .|.++.++|+..||+.
T Consensus 30 ~dt~~~L~e~V~dY~~~~ctna~~~Aq--~rnK~k~eDfkfaLr~ 72 (126)
T COG5248 30 YDTAEALHEYVLDYMSILCTNAHNMAQ--VRNKTKTEDFKFALRR 72 (126)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHH--hcccchHHHHHHHHhh
Confidence 478899999999999999999999988 6789999999999975
No 111
>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A.
Probab=57.53 E-value=48 Score=25.32 Aligned_cols=51 Identities=16% Similarity=0.208 Sum_probs=39.8
Q ss_pred CcchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcCCCCCchhHhHHHHHHHhhCHH
Q 016189 274 DNHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAALGPS 336 (393)
Q Consensus 274 ~~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~lG~~ 336 (393)
+..|.+|..|+.+|+.+. .+++...|.+.+.| .......=|+.+|..+|..
T Consensus 11 ~~~~~vr~~a~~~L~~~~----------~~~~~~~L~~~l~d--~~~~vr~~a~~aL~~i~~~ 61 (88)
T PF13646_consen 11 DPDPQVRAEAARALGELG----------DPEAIPALIELLKD--EDPMVRRAAARALGRIGDP 61 (88)
T ss_dssp SSSHHHHHHHHHHHHCCT----------HHHHHHHHHHHHTS--SSHHHHHHHHHHHHCCHHH
T ss_pred CCCHHHHHHHHHHHHHcC----------CHhHHHHHHHHHcC--CCHHHHHHHHHHHHHhCCH
Confidence 467899999999999332 23677788887754 6678899999999999863
No 112
>KOG1658 consensus DNA polymerase epsilon, subunit C [Replication, recombination and repair]
Probab=57.45 E-value=9.4 Score=34.17 Aligned_cols=68 Identities=18% Similarity=0.212 Sum_probs=55.7
Q ss_pred CCCCChHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhc
Q 016189 1 MSIVPKETIEVIAQSI-GVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLR 68 (393)
Q Consensus 1 ms~~~~~~i~~iaes~-G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~ 68 (393)
|+-+|...|+.+-+.= .++-+.+++.+.++.-++-+++++-.++-.....+||+++..-|++.|.+.-
T Consensus 57 l~rLpL~rik~vvkl~pdl~l~~dea~~l~a~aaelfi~~Ln~~~~~~~q~~k~kt~qr~d~D~ai~~~ 125 (162)
T KOG1658|consen 57 LSRLPLARIKQVVKLDPDLTLLNDEASQLIAKAAELFIQELNDVAYTTAQLRKRKTEQRRDYDTAIEAV 125 (162)
T ss_pred hhhccHHHHHhhccCCcchhhhhhHHHHHHHHHHHHHHHHHHhccchhHHHHHhhhhhhhcccccccch
Confidence 4566777777665432 2334678999999999999999999999999999999999999999988654
No 113
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=57.43 E-value=24 Score=35.46 Aligned_cols=57 Identities=18% Similarity=0.261 Sum_probs=47.2
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhh
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALN 66 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~ 66 (393)
.++.+|+..|+ .+++++++.|++-..--++.++++.-|..-.++.+ +|.+||...+.
T Consensus 175 ~l~~~~~~~g~-~i~~~al~~l~~~~~gdlr~~~~~lekl~~y~~~~-it~~~v~~~~~ 231 (367)
T PRK14970 175 HLAGIAVKEGI-KFEDDALHIIAQKADGALRDALSIFDRVVTFCGKN-ITRQAVTENLN 231 (367)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCC-CCHHHHHHHhC
Confidence 46677888999 59999999999999888898888888877776655 99999887763
No 114
>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=56.92 E-value=40 Score=31.80 Aligned_cols=58 Identities=7% Similarity=-0.019 Sum_probs=46.2
Q ss_pred HHHHcCC---CCCCHHHHHHHHHHHH---HHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcC
Q 016189 12 IAQSIGV---YNLSSDVALALAPDVE---YRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRN 69 (393)
Q Consensus 12 iaes~G~---~~ls~~~a~~La~dve---~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~n 69 (393)
.++..|. ..+++++.+.|++... ..+.+++..+...+-..+.+.++.+||..|++..+
T Consensus 204 ~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~~~~a~~~~~~~i~~~~v~~~~~~~~ 267 (269)
T TIGR03015 204 RLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRLLLSAFLEEKREIGGEEVREVIAEID 267 (269)
T ss_pred HHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhh
Confidence 3445564 3699999999998775 36888888888887777888999999999998765
No 115
>PF06371 Drf_GBD: Diaphanous GTPase-binding Domain; InterPro: IPR010473 Diaphanous-related formins (Drfs) are a family of formin homology (FH) proteins that act as effectors of Rho small GTPases during growth factor-induced cytoskeletal remodelling, stress fibre formation, and cell division []. Drf proteins are characterised by a variety of shared domains: an N-terminal GTPase-binding domain (GBD), formin-homology domains FH1, FH2 (IPR003104 from INTERPRO) and FH3 (IPR010472 from INTERPRO), and a C-terminal conserved Dia-autoregulatory domain (DAD) that binds the GBD. This entry represents the GBD, which is a bifunctional autoinhibitory domain that interacts with and is regulated by activated Rho family members. Mammalian Drf3 contains a CRIB-like motif within its GBD for binding to Cdc42, which is required for Cdc42 to activate and guide Drf3 towards the cell cortex where it remodels the actin skeleton [].; GO: 0003779 actin binding, 0017048 Rho GTPase binding, 0030036 actin cytoskeleton organization; PDB: 3OBV_A 2BNX_A 3EG5_D 2BAP_B 3O4X_B 1Z2C_B 2F31_A.
Probab=56.62 E-value=11 Score=33.62 Aligned_cols=78 Identities=17% Similarity=0.337 Sum_probs=48.7
Q ss_pred CCcccchhhHHHHHHHHHhhccCChHHHHHHHHHHHHhhcCCCcccccch--hhhHHHHHHHHhccccCCCCCCcchHHH
Q 016189 203 SGLHPLVPYFTYFISEEVTRSLKNFSLLFALMRVARSLLRNPHIHIEPYL--HQMMPSVITCLVSKRLGNRFSDNHWDLR 280 (393)
Q Consensus 203 ~gL~~LlPy~~~fi~e~v~~nl~nl~~L~~ll~~v~ALl~N~~l~ie~Yl--HqLlpslltcll~k~l~~~~~~~h~~LR 280 (393)
-|+..|+-.+.++.... ..+-.+.......++.++||+.|+. -++-.+ +..+..+..|+.+ .+...|
T Consensus 107 ~G~~~L~~~L~~~~~~~-~~~~~~~~~~~~~l~Clkal~n~~~-G~~~v~~~~~~v~~i~~~L~s---------~~~~~r 175 (187)
T PF06371_consen 107 GGLEALLNVLSKLNKKK-EKSEEDIDIEHECLRCLKALMNTKY-GLEAVLSHPDSVNLIALSLDS---------PNIKTR 175 (187)
T ss_dssp HHHHHHHHHHHHHHTHH-CTCTTCHHHHHHHHHHHHHHTSSHH-HHHHHHCSSSHHHHHHHT--T---------TSHHHH
T ss_pred CCHHHHHHHHHHhhhhh-hhcchhHHHHHHHHHHHHHHHccHH-HHHHHHcCcHHHHHHHHHHCC---------CCHHHH
Confidence 45555555555443222 2223456777788999999998874 222222 2456666666543 346899
Q ss_pred HHHHHHHHHHH
Q 016189 281 NFVADLIASIC 291 (393)
Q Consensus 281 ~~AA~lL~~I~ 291 (393)
..|..+|+.+|
T Consensus 176 ~~~leiL~~lc 186 (187)
T PF06371_consen 176 KLALEILAALC 186 (187)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99999999998
No 116
>PRK09087 hypothetical protein; Validated
Probab=55.79 E-value=62 Score=30.51 Aligned_cols=60 Identities=15% Similarity=0.049 Sum_probs=45.2
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CCCccCHhhHHHHhhhc
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHA--HRTVLTANDVDSALNLR 68 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hs--kR~~Lt~~Di~~Al~~~ 68 (393)
-++..++..|+ .+++|+...|++..+-.++.++.-..+.-+.+ ..+++|...++.+|+..
T Consensus 161 iL~~~~~~~~~-~l~~ev~~~La~~~~r~~~~l~~~l~~L~~~~~~~~~~it~~~~~~~l~~~ 222 (226)
T PRK09087 161 VIFKLFADRQL-YVDPHVVYYLVSRMERSLFAAQTIVDRLDRLALERKSRITRALAAEVLNEM 222 (226)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHhh
Confidence 45667778888 59999999999999988888887333333322 23569999999999764
No 117
>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ]. The domain is also found in other proteins involved in microtubule binding, including STU1, MOR1 and spindle pole body component Alp14.; PDB: 2QK2_A.
Probab=54.13 E-value=76 Score=29.18 Aligned_cols=105 Identities=15% Similarity=0.167 Sum_probs=52.6
Q ss_pred CCcchHHHHHHHHHHHHHHHHc--CCCchhhHHHHH---HHHHHHhcCCCCCchhHhHHHHHHHhhCHHhHHHhcccchH
Q 016189 273 SDNHWDLRNFVADLIASICTRF--GHVYQNLQSRVT---RTLLHAFLDPTKSLSQHYGAIQGLAALGPSVVHLLILPNLE 347 (393)
Q Consensus 273 ~~~h~~LR~~AA~lL~~I~~~~--~~~y~~L~~Ri~---~~l~k~l~d~~~~l~t~YGAi~GL~~lG~~~vr~~ilP~l~ 347 (393)
.+..|.-|..|-.-|..+++.. ....+.+-..+- ..+.+.+.|..+.+.. .|+..+..+....=.. +=|.+.
T Consensus 17 ~~~~W~~r~~al~~L~~l~~~~~~~~~~~~~~~~l~~~~~~i~~~l~d~Rs~v~~--~A~~~l~~l~~~l~~~-~~~~~~ 93 (228)
T PF12348_consen 17 SESDWEERVEALQKLRSLIKGNAPEDFPPDFVECLRQLLDAIIKQLSDLRSKVSK--TACQLLSDLARQLGSH-FEPYAD 93 (228)
T ss_dssp T-SSHHHHHHHHHHHHHHHHH-B-----HHHHHHHH---HHHHH-S-HH---HHH--HHHHHHHHHHHHHGGG-GHHHHH
T ss_pred CccCHHHHHHHHHHHHHHHHcCCccccHHHHHHHHHHhHHHHHHHHhhhHHHHHH--HHHHHHHHHHHHHhHh-HHHHHH
Confidence 4678999999999999999877 222333333222 3555555554444332 3333344433221111 223333
Q ss_pred HHHHhhhHhHhhhhhhhhhHHHHHHHHHhHhhhhhh
Q 016189 348 LYLKFLEPEMLLEKQKNEMKRHEAWRVYGALQVDFF 383 (393)
Q Consensus 348 ~~~~~l~~~l~~~~~~~~~~~~~a~~v~~~l~~a~~ 383 (393)
.+...|-..+ +..+...|..|..+..++...+.
T Consensus 94 ~~l~~Ll~~~---~~~~~~i~~~a~~~L~~i~~~~~ 126 (228)
T PF12348_consen 94 ILLPPLLKKL---GDSKKFIREAANNALDAIIESCS 126 (228)
T ss_dssp HHHHHHHHGG---G---HHHHHHHHHHHHHHHTTS-
T ss_pred HHHHHHHHHH---ccccHHHHHHHHHHHHHHHHHCC
Confidence 3333332222 34556788999999999998776
No 118
>PF13513 HEAT_EZ: HEAT-like repeat; PDB: 2Z5J_A 2OT8_B 2Z5O_A 2H4M_A 2QMR_A 1QBK_B 2Z5M_A 2Z5K_A 2Z5N_A 1GCJ_B ....
Probab=53.55 E-value=14 Score=26.24 Aligned_cols=42 Identities=24% Similarity=0.412 Sum_probs=29.7
Q ss_pred hhcCCCcccccchhhhHHHHHHHHhccccCCCCCCcchHHHHHHHHHHHHH
Q 016189 240 LLRNPHIHIEPYLHQMMPSVITCLVSKRLGNRFSDNHWDLRNFVADLIASI 290 (393)
Q Consensus 240 Ll~N~~l~ie~YlHqLlpslltcll~k~l~~~~~~~h~~LR~~AA~lL~~I 290 (393)
+..+..-.+++|+.+++|.++.++ .|++-.+|..|+..|+.|
T Consensus 14 l~~~~~~~~~~~~~~~~~~L~~~L---------~d~~~~VR~~A~~aLg~l 55 (55)
T PF13513_consen 14 LAEGCPELLQPYLPELLPALIPLL---------QDDDDSVRAAAAWALGNL 55 (55)
T ss_dssp TTTTTHHHHHHHHHHHHHHHHHHT---------TSSSHHHHHHHHHHHHCH
T ss_pred HhcccHHHHHHHHHHHHHHHHHHH---------cCCCHHHHHHHHHHHhcC
Confidence 334444567888888888888665 123339999999988764
No 119
>PRK09687 putative lyase; Provisional
Probab=52.54 E-value=38 Score=33.11 Aligned_cols=64 Identities=23% Similarity=0.325 Sum_probs=41.3
Q ss_pred hhHHHHHHHHhccccCCCCCCcchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcCCCCCchhHhHHHHHHHhh
Q 016189 254 QMMPSVITCLVSKRLGNRFSDNHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAAL 333 (393)
Q Consensus 254 qLlpslltcll~k~l~~~~~~~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~l 333 (393)
.-+|.++.++ .++.|.+|..|+.-|+.+ .+++ +.+...|.+.+.|+ ....+-+|+.||..+
T Consensus 159 ~ai~~L~~~L---------~d~~~~VR~~A~~aLg~~--~~~~------~~~~~~L~~~L~D~--~~~VR~~A~~aLg~~ 219 (280)
T PRK09687 159 AAIPLLINLL---------KDPNGDVRNWAAFALNSN--KYDN------PDIREAFVAMLQDK--NEEIRIEAIIGLALR 219 (280)
T ss_pred HHHHHHHHHh---------cCCCHHHHHHHHHHHhcC--CCCC------HHHHHHHHHHhcCC--ChHHHHHHHHHHHcc
Confidence 4566666664 245678888888888887 2221 24555666666554 445567788888777
Q ss_pred CHH
Q 016189 334 GPS 336 (393)
Q Consensus 334 G~~ 336 (393)
|..
T Consensus 220 ~~~ 222 (280)
T PRK09687 220 KDK 222 (280)
T ss_pred CCh
Confidence 764
No 120
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=51.07 E-value=34 Score=37.32 Aligned_cols=58 Identities=22% Similarity=0.251 Sum_probs=49.0
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhh
Q 016189 7 ETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALN 66 (393)
Q Consensus 7 ~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~ 66 (393)
+.++.+++.-|+ .++++++..|+.-.+-.++.++++.-|.+.++ .+++|.+||...+.
T Consensus 198 ~~L~~i~~kegi-~i~~eAl~lIa~~a~Gdlr~al~~Ldkli~~g-~g~It~e~V~~llg 255 (598)
T PRK09111 198 AHLSRIAAKEGV-EVEDEALALIARAAEGSVRDGLSLLDQAIAHG-AGEVTAEAVRDMLG 255 (598)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHhhc-CCCcCHHHHHHHhC
Confidence 356677888898 49999999999999999999999888877776 56899999998764
No 121
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=51.01 E-value=86 Score=31.52 Aligned_cols=49 Identities=14% Similarity=0.074 Sum_probs=40.4
Q ss_pred CCCHHHHHHHHHHHHH------HHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhc
Q 016189 20 NLSSDVALALAPDVEY------RVREIMQEAIKCMRHAHRTVLTANDVDSALNLR 68 (393)
Q Consensus 20 ~ls~~~a~~La~dve~------rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~ 68 (393)
.+++++++.+++.+.. ++.+++..|...+...++.+++.+||..|+...
T Consensus 228 ~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~~~I~~~~v~~a~~~~ 282 (394)
T PRK00411 228 VVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRKVTEEDVRKAYEKS 282 (394)
T ss_pred CCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHH
Confidence 5899999999888843 234777888888888888999999999999876
No 122
>COG5162 Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=50.91 E-value=93 Score=28.24 Aligned_cols=47 Identities=17% Similarity=0.215 Sum_probs=36.3
Q ss_pred CCChHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016189 3 IVPKETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMR 49 (393)
Q Consensus 3 ~~~~~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~ 49 (393)
.||..-+.-..+..|+.-.+..+.+.|+-....++..|.++|-.|-|
T Consensus 88 liPd~v~DYyl~k~Gf~~~D~rvKkLl~L~aqKFvsDiA~dayqYsr 134 (197)
T COG5162 88 LIPDSVTDYYLEKAGFVTSDQRVKKLLSLLAQKFVSDIAVDAYQYSR 134 (197)
T ss_pred CccHHHHHHHHHhcCceeccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35555556688999997677788888888888888888888876654
No 123
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=50.74 E-value=26 Score=35.47 Aligned_cols=59 Identities=10% Similarity=0.101 Sum_probs=45.8
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhc
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLR 68 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~ 68 (393)
.++.+++..|+ .+++++++.+++-..-.+|.++...-+....+ ++.+|.+||..++...
T Consensus 186 ~L~~~~~~~g~-~i~~~al~~ia~~s~G~~R~al~~l~~~~~~~-~~~It~~~v~~~l~~~ 244 (363)
T PRK14961 186 FLKYILIKESI-DTDEYALKLIAYHAHGSMRDALNLLEHAINLG-KGNINIKNVTDMLGLL 244 (363)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-CCCCCHHHHHHHHCCC
Confidence 45567778887 59999999999988877887777766665554 6789999999988544
No 124
>PF05004 IFRD: Interferon-related developmental regulator (IFRD); InterPro: IPR007701 Interferon-related developmental regulator (IFRD1) is the human homologue of the Rattus norvegicus early response protein PC4 and its murine homologue TIS7 []. The exact function of IFRD1 is unknown but it has been shown that PC4 is necessary for muscle differentiation and that it might have a role in signal transduction. This entry also contains IFRD2 and its murine equivalent SKMc15, which are highly expressed soon after gastrulation and in the hepatic primordium, suggesting an involvement in early hematopoiesis [].
Probab=50.60 E-value=1.6e+02 Score=29.28 Aligned_cols=70 Identities=16% Similarity=0.275 Sum_probs=49.8
Q ss_pred ccccchhhhHHHHHHHHhccccCCCCCCcchHHHHHHHHHHHHHHHHcC--CCchhhHHHHHHHHHHHhcCCCCCchhHh
Q 016189 247 HIEPYLHQMMPSVITCLVSKRLGNRFSDNHWDLRNFVADLIASICTRFG--HVYQNLQSRVTRTLLHAFLDPTKSLSQHY 324 (393)
Q Consensus 247 ~ie~YlHqLlpslltcll~k~l~~~~~~~h~~LR~~AA~lL~~I~~~~~--~~y~~L~~Ri~~~l~k~l~d~~~~l~t~Y 324 (393)
+++.....|+..++.|+ |+ |. . .=+..|+++++.+|-+.| ..-..+-..+...|.+++.|...+...+=
T Consensus 79 ~v~~~~~tL~~~~~k~l--kk-g~--~----~E~~lA~~~l~Ll~ltlg~g~~~~ei~~~~~~~L~~~l~d~s~~~~~R~ 149 (309)
T PF05004_consen 79 FVEDRRETLLDALLKSL--KK-GK--S----EEQALAARALALLALTLGAGEDSEEIFEELKPVLKRILTDSSASPKARA 149 (309)
T ss_pred HHHHHHHHHHHHHHHHh--cc-CC--H----HHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHHHHHHHhCCccchHHHH
Confidence 45555666777777776 21 11 1 236789999999999965 66678888888999999999876655533
Q ss_pred H
Q 016189 325 G 325 (393)
Q Consensus 325 G 325 (393)
.
T Consensus 150 ~ 150 (309)
T PF05004_consen 150 A 150 (309)
T ss_pred H
Confidence 3
No 125
>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1
Probab=50.49 E-value=53 Score=29.54 Aligned_cols=53 Identities=21% Similarity=0.197 Sum_probs=41.2
Q ss_pred chHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcCCCCCchhHhHHHHHHHhhC
Q 016189 276 HWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAALG 334 (393)
Q Consensus 276 h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~lG 334 (393)
|..+|--|...|+.+|.+|. ++-.+.+..+.+.|.|+ +...+..|+..|+.|-
T Consensus 1 ~~~vR~n~i~~l~DL~~r~~----~~ve~~~~~l~~~L~D~--~~~VR~~al~~Ls~Li 53 (178)
T PF12717_consen 1 DPSVRNNAIIALGDLCIRYP----NLVEPYLPNLYKCLRDE--DPLVRKTALLVLSHLI 53 (178)
T ss_pred CHHHHHHHHHHHHHHHHhCc----HHHHhHHHHHHHHHCCC--CHHHHHHHHHHHHHHH
Confidence 56889999999999999875 45556666777777764 5777888999988873
No 126
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=49.48 E-value=42 Score=32.45 Aligned_cols=55 Identities=16% Similarity=0.158 Sum_probs=45.0
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHh
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSAL 65 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al 65 (393)
.++.+++..|+ .+++++++.|++-..-.+|.++.+.-+.... .+++|.+||..++
T Consensus 169 ~l~~~~~~~~~-~i~~~al~~l~~~~~gd~r~~~~~l~~~~~~--~~~it~~~v~~~~ 223 (319)
T PRK00440 169 RLRYIAENEGI-EITDDALEAIYYVSEGDMRKAINALQAAAAT--GKEVTEEAVYKIT 223 (319)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHc--CCCCCHHHHHHHh
Confidence 45667778898 5999999999998887888888887776665 3689999999887
No 127
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=48.74 E-value=41 Score=34.47 Aligned_cols=57 Identities=11% Similarity=0.185 Sum_probs=46.3
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----CCCccCHhhHHHHh
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHA----HRTVLTANDVDSAL 65 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hs----kR~~Lt~~Di~~Al 65 (393)
.++.+++.-|+ .++++++..|++-+.-.++.++++.-|....+ .++++|.+||..++
T Consensus 194 ~l~~~~~~~g~-~i~~~al~~l~~~s~g~lr~a~~~L~kl~~~~~~~~~~~~It~~~v~~~v 254 (397)
T PRK14955 194 QLQGICEAEGI-SVDADALQLIGRKAQGSMRDAQSILDQVIAFSVESEGEGSIRYDKVAELL 254 (397)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccccCCCCccCHHHHHHHH
Confidence 45666666788 59999999999999998998888887765553 46789999998877
No 128
>KOG1851 consensus Uncharacterized conserved protein [Function unknown]
Probab=47.39 E-value=94 Score=37.47 Aligned_cols=114 Identities=17% Similarity=0.201 Sum_probs=71.9
Q ss_pred ccchhhHHHHHHHHHhhccCChHHHHHHHHHHHHhhc-CCCcccccchhhhHHHHHHHHhccccCCCCCCcchHHHHHHH
Q 016189 206 HPLVPYFTYFISEEVTRSLKNFSLLFALMRVARSLLR-NPHIHIEPYLHQMMPSVITCLVSKRLGNRFSDNHWDLRNFVA 284 (393)
Q Consensus 206 ~~LlPy~~~fi~e~v~~nl~nl~~L~~ll~~v~ALl~-N~~l~ie~YlHqLlpslltcll~k~l~~~~~~~h~~LR~~AA 284 (393)
+-+.|-|++-+...+..+ .+...-...+.++++.+= |.+++-+.-...+--. +-|++ .|++.+.|+.||
T Consensus 1521 ~~l~~e~l~~l~~~~~~~-~tw~vr~avl~fl~~~vy~n~Fv~~~~~r~dI~~l-~~s~l--------~D~~i~vre~Aa 1590 (1710)
T KOG1851|consen 1521 HHLQPEFLRDLKMLTADS-STWRVRSAVLKFLQTVVYSNIFVSQELRRDDIRKL-LESLL--------NDDQIEVREEAA 1590 (1710)
T ss_pred hhhHHHHHHHHHHHhccc-chHHHHHHHHHHHHHHHHHHhhcccchhHHHHHHH-HHHHH--------cchHHHHHHHHH
Confidence 446677777666533222 344444447777776653 3333334433333332 22222 356678999999
Q ss_pred HHHHHHH-HHcCCCchhhHHHHHHHHHHHhcCCCCCchhHhHHHHHHHhh
Q 016189 285 DLIASIC-TRFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAAL 333 (393)
Q Consensus 285 ~lL~~I~-~~~~~~y~~L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~l 333 (393)
.+|+.+. -.|....+ +..+++.+.+..+.++..-.-||+-||+++
T Consensus 1591 ~~Lsgl~~~s~~~~~~----~k~d~~~~~~~s~s~~~i~~HgavlgLgA~ 1636 (1710)
T KOG1851|consen 1591 KCLSGLLQGSKFQFVS----DKRDTTSNILQSKSKDEIKAHGAVLGLGAI 1636 (1710)
T ss_pred HHHHHHHhccccccch----HhhhhhhhhhhhcchHHHHhhhhHHHHHHH
Confidence 9998775 33444333 677788888888888899999999999987
No 129
>PRK08727 hypothetical protein; Validated
Probab=46.50 E-value=60 Score=30.57 Aligned_cols=57 Identities=18% Similarity=0.082 Sum_probs=41.4
Q ss_pred HHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHH---HHHHHHHHHHhCCCccCHhhHHHHhhh
Q 016189 9 IEVIAQSIGVYNLSSDVALALAPDVEYRVREI---MQEAIKCMRHAHRTVLTANDVDSALNL 67 (393)
Q Consensus 9 i~~iaes~G~~~ls~~~a~~La~dve~rl~~i---iq~a~k~~~hskR~~Lt~~Di~~Al~~ 67 (393)
++..|+.-|+ .+++++...|++..+-.++.+ ++.....+...+| ++|.+.+...|..
T Consensus 171 L~~~a~~~~l-~l~~e~~~~La~~~~rd~r~~l~~L~~l~~~~~~~~~-~it~~~~~~~l~~ 230 (233)
T PRK08727 171 LRERAQRRGL-ALDEAAIDWLLTHGERELAGLVALLDRLDRESLAAKR-RVTVPFLRRVLEE 230 (233)
T ss_pred HHHHHHHcCC-CCCHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCC-CCCHHHHHHHHhh
Confidence 3444555688 699999999999987445554 7766655555565 7999999988753
No 130
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=46.27 E-value=46 Score=35.34 Aligned_cols=57 Identities=16% Similarity=0.078 Sum_probs=47.7
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHh
Q 016189 7 ETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSAL 65 (393)
Q Consensus 7 ~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al 65 (393)
+.++.+++..|+ .+++++++.|++-.+--+|.+++..-+.+..+ ..++|.+||..++
T Consensus 185 ~~L~~i~k~egi-~id~~al~~La~~s~G~lr~al~~Ldkl~~~~-~~~It~~~V~~~l 241 (486)
T PRK14953 185 EYLKRICNEEKI-EYEEKALDLLAQASEGGMRDAASLLDQASTYG-EGKVTIKVVEEFL 241 (486)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-CCCcCHHHHHHHh
Confidence 356778888898 59999999999999988998888887776665 4589999999887
No 131
>PTZ00429 beta-adaptin; Provisional
Probab=45.23 E-value=4.3e+02 Score=29.76 Aligned_cols=76 Identities=11% Similarity=0.085 Sum_probs=53.4
Q ss_pred cccccchhhhHHHHHHHHhccccCCCCCCcchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcCCCCCchhHhH
Q 016189 246 IHIEPYLHQMMPSVITCLVSKRLGNRFSDNHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYG 325 (393)
Q Consensus 246 l~ie~YlHqLlpslltcll~k~l~~~~~~~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~~~~l~t~YG 325 (393)
|.....+-.+++++..|+. +.+=.+|..||-.+.++.+.+....+ ..++...+.+.+. +++....+.
T Consensus 132 Ir~~~i~e~l~~~lkk~L~---------D~~pYVRKtAalai~Kly~~~pelv~--~~~~~~~L~~LL~--D~dp~Vv~n 198 (746)
T PTZ00429 132 IRVSSVLEYTLEPLRRAVA---------DPDPYVRKTAAMGLGKLFHDDMQLFY--QQDFKKDLVELLN--DNNPVVASN 198 (746)
T ss_pred CCcHHHHHHHHHHHHHHhc---------CCCHHHHHHHHHHHHHHHhhCccccc--ccchHHHHHHHhc--CCCccHHHH
Confidence 4555666677788888873 34558999999999999887654322 1234445555444 578888999
Q ss_pred HHHHHHhhC
Q 016189 326 AIQGLAALG 334 (393)
Q Consensus 326 Ai~GL~~lG 334 (393)
|+..|.++.
T Consensus 199 Al~aL~eI~ 207 (746)
T PTZ00429 199 AAAIVCEVN 207 (746)
T ss_pred HHHHHHHHH
Confidence 999988884
No 132
>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.
Probab=44.57 E-value=2.9e+02 Score=28.68 Aligned_cols=87 Identities=17% Similarity=0.210 Sum_probs=49.5
Q ss_pred cHHH-HHHHHHHHHHhhcCCchHHHHHHH----HhhhhcCCcc-c-chhhHHHHHHHHHhhccCChHHHHHHHHHHHHhh
Q 016189 169 SKEL-QLYFDKIRELTVSRSNSTVFKQAL----LSLAMDSGLH-P-LVPYFTYFISEEVTRSLKNFSLLFALMRVARSLL 241 (393)
Q Consensus 169 S~El-q~yf~~It~a~~~~~~~~~~~~aL----~sL~tD~gL~-~-LlPy~~~fi~e~v~~nl~nl~~L~~ll~~v~ALl 241 (393)
+.|. +.....|.+.+. .+++..|+.|+ +-.+.+|.+- . ++|.+.+.+.+ +|...+...+.++..+-
T Consensus 108 ~~~~~~~l~~~v~~ll~-~~~~~VRk~A~~~l~~i~~~~p~~~~~~~~~~l~~lL~d------~~~~V~~~a~~~l~~i~ 180 (526)
T PF01602_consen 108 TPEMAEPLIPDVIKLLS-DPSPYVRKKAALALLKIYRKDPDLVEDELIPKLKQLLSD------KDPSVVSAALSLLSEIK 180 (526)
T ss_dssp SHHHHHHHHHHHHHHHH-SSSHHHHHHHHHHHHHHHHHCHCCHHGGHHHHHHHHTTH------SSHHHHHHHHHHHHHHH
T ss_pred ccchhhHHHHHHHHHhc-CCchHHHHHHHHHHHHHhccCHHHHHHHHHHHHhhhccC------CcchhHHHHHHHHHHHc
Confidence 4555 445666666554 45556666543 4456777762 2 34554444422 24566666677776664
Q ss_pred cCCCcccccchhhhHHHHHHHH
Q 016189 242 RNPHIHIEPYLHQMMPSVITCL 263 (393)
Q Consensus 242 ~N~~l~ie~YlHqLlpslltcl 263 (393)
.|+..+. ..+|+++..+.+++
T Consensus 181 ~~~~~~~-~~~~~~~~~L~~~l 201 (526)
T PF01602_consen 181 CNDDSYK-SLIPKLIRILCQLL 201 (526)
T ss_dssp CTHHHHT-THHHHHHHHHHHHH
T ss_pred cCcchhh-hhHHHHHHHhhhcc
Confidence 5666655 66666666555554
No 133
>KOG1967 consensus DNA repair/transcription protein Mms19 [Replication, recombination and repair; Transcription]
Probab=44.36 E-value=1.5e+02 Score=33.92 Aligned_cols=115 Identities=21% Similarity=0.155 Sum_probs=80.6
Q ss_pred ccccchhhhHHHHHHHHhccccCCCCCCcchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcC----CCC-Cch
Q 016189 247 HIEPYLHQMMPSVITCLVSKRLGNRFSDNHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLD----PTK-SLS 321 (393)
Q Consensus 247 ~ie~YlHqLlpslltcll~k~l~~~~~~~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d----~~~-~l~ 321 (393)
-+-|.+..|+|-+|.|+=-. +...|-.+-+++.......+ +|++.=..|+...++. ++. +..
T Consensus 902 vllp~~~~LlPLLLq~Ls~~---------D~~v~vstl~~i~~~l~~~~----tL~t~~~~Tlvp~lLsls~~~~n~~~~ 968 (1030)
T KOG1967|consen 902 VLLPQFPMLLPLLLQALSMP---------DVIVRVSTLRTIPMLLTESE----TLQTEHLSTLVPYLLSLSSDNDNNMMV 968 (1030)
T ss_pred hhccchhhHHHHHHHhcCCC---------ccchhhhHhhhhhHHHHhcc----ccchHHHhHHHHHHHhcCCCCCcchhH
Confidence 56778888889888886222 23456666677777776544 4555555565555553 333 366
Q ss_pred hHhHHHHHHHhhCHHhHHHhcccchHHHHHhhhHhHhhhhhhhhhHHHHHHHHHhH
Q 016189 322 QHYGAIQGLAALGPSVVHLLILPNLELYLKFLEPEMLLEKQKNEMKRHEAWRVYGA 377 (393)
Q Consensus 322 t~YGAi~GL~~lG~~~vr~~ilP~l~~~~~~l~~~l~~~~~~~~~~~~~a~~v~~~ 377 (393)
.+--|+.||.+|-...=-..++|.-+.....|.+-|.+ +++..|.||.++++.
T Consensus 969 VR~~ALqcL~aL~~~~P~~~l~~fr~~Vl~al~k~LdD---kKRlVR~eAv~tR~~ 1021 (1030)
T KOG1967|consen 969 VREDALQCLNALTRRLPTKSLLSFRPLVLRALIKILDD---KKRLVRKEAVDTRQN 1021 (1030)
T ss_pred HHHHHHHHHHHHhccCCCcccccccHHHHHHhhhccCc---HHHHHHHHHHHHhhh
Confidence 78899999999876444456788888888888888765 457899999999875
No 134
>PF12074 DUF3554: Domain of unknown function (DUF3554); InterPro: IPR022716 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 287 to 356 amino acids in length. This domain is found associated with PF02985 from PFAM.
Probab=44.14 E-value=1.2e+02 Score=30.22 Aligned_cols=91 Identities=18% Similarity=0.218 Sum_probs=64.6
Q ss_pred HHHHHHhhccCChHHHHHHHHHHHHhhcCCCcccccc-hhhhHHHHHHHHhccccCCCCCCcchHHHHHHHHHHHHHHHH
Q 016189 215 FISEEVTRSLKNFSLLFALMRVARSLLRNPHIHIEPY-LHQMMPSVITCLVSKRLGNRFSDNHWDLRNFVADLIASICTR 293 (393)
Q Consensus 215 fi~e~v~~nl~nl~~L~~ll~~v~ALl~N~~l~ie~Y-lHqLlpslltcll~k~l~~~~~~~h~~LR~~AA~lL~~I~~~ 293 (393)
|+.+++...+.+-+.+.-++|..++++.+-.-.+..- ...+--+++.|+++... .|..|..|.+.+..++.+
T Consensus 164 ll~~kvyskl~~~~d~~w~~~al~~~~~~~~~~~~~~~~~~~~~a~i~ll~s~~~-------~~~vR~~A~~~l~~l~~~ 236 (339)
T PF12074_consen 164 LLSEKVYSKLASEEDLCWLLRALEALLSDHPSELSSDKSSAWAQAFIYLLCSSNV-------SWKVRRAALSALKKLYAS 236 (339)
T ss_pred hcCHHHHhccCCHhHHHHHHHHHHHHHhcchhhhhhhHHHHHHHHHHHHHHcCCC-------CHHHHHHHHHHHHHHHHh
Confidence 4566676666677788889999999998866544333 25555678888766533 579999999999999987
Q ss_pred cCCCchhhHHHHHHHHHHHhcC
Q 016189 294 FGHVYQNLQSRVTRTLLHAFLD 315 (393)
Q Consensus 294 ~~~~y~~L~~Ri~~~l~k~l~d 315 (393)
.... +..-|+..+.+.+.+
T Consensus 237 ~~~~---l~~~li~~l~~~l~~ 255 (339)
T PF12074_consen 237 NPEL---LSKSLISGLWKWLSS 255 (339)
T ss_pred ChHH---HHHHHHHHHHHHHHh
Confidence 6643 555666666666543
No 135
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=43.54 E-value=55 Score=35.00 Aligned_cols=61 Identities=11% Similarity=0.147 Sum_probs=48.9
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC--CCccCHhhHHHHhhhc
Q 016189 7 ETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAH--RTVLTANDVDSALNLR 68 (393)
Q Consensus 7 ~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hsk--R~~Lt~~Di~~Al~~~ 68 (393)
+.++.+++.-|+ .++++++..|++..+--+|.++++--+...+++ ++.+|.+||+..+...
T Consensus 194 ~~L~~i~~~egi-~ie~eAL~~Ia~~s~GslR~al~~Ldkai~~~~~~~~~It~~~V~~llg~~ 256 (507)
T PRK06645 194 KLLEYITKQENL-KTDIEALRIIAYKSEGSARDAVSILDQAASMSAKSDNIISPQVINQMLGLV 256 (507)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhccCCCCcCHHHHHHHHCCC
Confidence 345677888898 589999999999998888988888877766653 4579999999887443
No 136
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=43.54 E-value=61 Score=34.25 Aligned_cols=58 Identities=16% Similarity=0.263 Sum_probs=43.3
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhh
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNL 67 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~ 67 (393)
.++.+++.-|+ .++++++..|++-..--+|.+++.--+....++ +++|.+||..++..
T Consensus 184 ~L~~i~~~egi-~i~~eal~~Ia~~s~GdlR~aln~Le~l~~~~~-~~It~e~V~~~l~~ 241 (472)
T PRK14962 184 RLQEVAEAEGI-EIDREALSFIAKRASGGLRDALTMLEQVWKFSE-GKITLETVHEALGL 241 (472)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcC-CCCCHHHHHHHHcC
Confidence 45667777788 599999999999877777776666655554443 35999999998844
No 137
>PF10274 ParcG: Parkin co-regulated protein; InterPro: IPR019399 This family of proteins is transcribed anti-sense along the DNA to the Parkin gene product and the two appear to be transcribed under the same promoter. The protein has predicted alpha-helical and beta-sheet domains which suggest its function is in the ubiquitin/proteasome system []. Mutations in parkin are the genetic cause of early-onset and autosomal recessive juvenile parkinsonism.
Probab=43.37 E-value=1.2e+02 Score=28.12 Aligned_cols=91 Identities=14% Similarity=0.367 Sum_probs=60.3
Q ss_pred CCcccchhhHHHHHHHHHhhccCChHHHHHHHHHHHHh-hcCCCc--ccccchhhhHHHHHHHHhcccc--CCCCC-Ccc
Q 016189 203 SGLHPLVPYFTYFISEEVTRSLKNFSLLFALMRVARSL-LRNPHI--HIEPYLHQMMPSVITCLVSKRL--GNRFS-DNH 276 (393)
Q Consensus 203 ~gL~~LlPy~~~fi~e~v~~nl~nl~~L~~ll~~v~AL-l~N~~l--~ie~YlHqLlpslltcll~k~l--~~~~~-~~h 276 (393)
..+-+++|-++.-+-..+ |.+|.+.....|++++.| ...+.+ .+-||+-||+| ++.....++. |.... ...
T Consensus 72 ~kilPvlPqLI~plk~AL--~tr~~~V~~~~L~~Lq~Lv~~~~~vG~aLvPyyrqLLp-~ln~f~~k~~n~gd~i~y~~~ 148 (183)
T PF10274_consen 72 EKILPVLPQLIIPLKRAL--NTRDPEVFCATLKALQQLVTSSDMVGEALVPYYRQLLP-VLNLFKNKNVNLGDGIDYRKR 148 (183)
T ss_pred hHHHHHHHHHHHHHHHHH--hCCCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHH-HHHHHHhcccCCCcccccccc
Confidence 335666666665554444 335788888899999888 455655 88999999999 4454444442 22111 244
Q ss_pred hHHHHHHHHHHHHHHHHcCC
Q 016189 277 WDLRNFVADLIASICTRFGH 296 (393)
Q Consensus 277 ~~LR~~AA~lL~~I~~~~~~ 296 (393)
=.++|.-..+|..+.+.-|.
T Consensus 149 ~~~~dlI~etL~~lE~~GG~ 168 (183)
T PF10274_consen 149 KNLGDLIQETLELLERNGGP 168 (183)
T ss_pred cchhHHHHHHHHHHHHhcCh
Confidence 57888888888887776664
No 138
>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=43.23 E-value=38 Score=23.91 Aligned_cols=40 Identities=25% Similarity=0.344 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH-HHHHHhCCCccCHhhHHHH
Q 016189 24 DVALALAPDVEYRVREIMQEAI-KCMRHAHRTVLTANDVDSA 64 (393)
Q Consensus 24 ~~a~~La~dve~rl~~iiq~a~-k~~~hskR~~Lt~~Di~~A 64 (393)
||-..|- .+=+++|.-+++++ ++++..+.+.+|.++++.|
T Consensus 4 eA~~~L~-~iP~fvR~~~r~~~E~~Ar~~G~~~IT~e~v~~A 44 (45)
T PF08369_consen 4 EAEARLD-RIPFFVRKKLRDAAEKYARERGYDEITVEVVDAA 44 (45)
T ss_dssp HHHHHHC-TS-HHHHHHHHHHHHHHHHHCT-SEE-HHHHHHH
T ss_pred HHHHHHH-HCCHHHHHHHHHHHHHHHHHcCCCeECHHHHHhh
Confidence 3433333 35667776666655 8999999999999999876
No 139
>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=42.91 E-value=1.1e+02 Score=27.96 Aligned_cols=55 Identities=18% Similarity=0.123 Sum_probs=41.7
Q ss_pred HHHHHHcCCCCCCHHHHHHHHHHHHH---HHHHHHHHHHHHHHHhCCCccCHhhHHHHhh
Q 016189 10 EVIAQSIGVYNLSSDVALALAPDVEY---RVREIMQEAIKCMRHAHRTVLTANDVDSALN 66 (393)
Q Consensus 10 ~~iaes~G~~~ls~~~a~~La~dve~---rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~ 66 (393)
+..++..|+ .+++++.+.|+....- .++++++++-.+++..+ +++|.+.++..|+
T Consensus 169 ~~~~~~~~~-~~~~~~l~~L~~~~~gn~r~L~~~l~~~~~~~~~~~-~~i~~~~~~~~~~ 226 (226)
T TIGR03420 169 QSRAARRGL-QLPDEVADYLLRHGSRDMGSLMALLDALDRASLAAK-RKITIPFVKEVLA 226 (226)
T ss_pred HHHHHHcCC-CCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhC-CCCCHHHHHHHhC
Confidence 344556787 5999999999997642 27778888888777766 4799999988764
No 140
>PRK06620 hypothetical protein; Validated
Probab=42.48 E-value=65 Score=30.08 Aligned_cols=57 Identities=16% Similarity=0.047 Sum_probs=40.9
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH---HHHhCCCccCHhhHHHHhh
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKC---MRHAHRTVLTANDVDSALN 66 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~---~~hskR~~Lt~~Di~~Al~ 66 (393)
-++..++.-|+ .+++|++..|++..+-.+|++..---+. +...+ +.+|...++.+|+
T Consensus 155 ~l~k~~~~~~l-~l~~ev~~~L~~~~~~d~r~l~~~l~~l~~~~~~~~-~~it~~~~~~~l~ 214 (214)
T PRK06620 155 LIFKHFSISSV-TISRQIIDFLLVNLPREYSKIIEILENINYFALISK-RKITISLVKEVLN 214 (214)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHcC-CCCCHHHHHHHhC
Confidence 45566777788 5999999999999987777666544443 33334 4689888888763
No 141
>COG1067 LonB Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]
Probab=41.85 E-value=80 Score=34.84 Aligned_cols=60 Identities=25% Similarity=0.346 Sum_probs=51.5
Q ss_pred HHHHHHHcCCCCCCHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHhCCCccCHhhHHHHhhhc
Q 016189 9 IEVIAQSIGVYNLSSDVALALAPDVEYR-------------VREIMQEAIKCMRHAHRTVLTANDVDSALNLR 68 (393)
Q Consensus 9 i~~iaes~G~~~ls~~~a~~La~dve~r-------------l~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~ 68 (393)
++.+++.-++..++.+|+..|....+.+ |.+++++|--.+.--+|+.+|++||..|++..
T Consensus 327 ~q~v~~d~~ip~~~~~Av~~li~~a~R~Ag~~~~Ltl~~rdl~~lv~~A~~ia~~~~~~~I~ae~Ve~a~~~~ 399 (647)
T COG1067 327 VQELARDGNIPHLDKDAVEELIREAARRAGDQNKLTLRLRDLGNLVREAGDIAVSEGRKLITAEDVEEALQKR 399 (647)
T ss_pred HHHHHhcCCCCCCCHHHHHHHHHHHHHhccccceeccCHHHHHHHHHHhhHHHhcCCcccCcHHHHHHHHHhh
Confidence 4556777789899999999998888653 67899999999999899999999999999884
No 142
>PLN00163 histone H4; Provisional
Probab=41.83 E-value=24 Score=26.48 Aligned_cols=26 Identities=23% Similarity=0.224 Sum_probs=22.8
Q ss_pred CChHHHHHHHHHcCCCCCCHHHHHHH
Q 016189 4 VPKETIEVIAQSIGVYNLSSDVALAL 29 (393)
Q Consensus 4 ~~~~~i~~iaes~G~~~ls~~~a~~L 29 (393)
|++.+|+++|...|+.++|..+.++.
T Consensus 30 ItKpaIrRLARRgGVKRIs~~iY~e~ 55 (59)
T PLN00163 30 ITKPAIRRLARRGGVKRISGLIYEET 55 (59)
T ss_pred cchHHHHHHHHhcCceeecchhhHhH
Confidence 78899999999999999998876654
No 143
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=41.77 E-value=47 Score=36.41 Aligned_cols=57 Identities=14% Similarity=0.258 Sum_probs=47.1
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----CCCccCHhhHHHHh
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHA----HRTVLTANDVDSAL 65 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hs----kR~~Lt~~Di~~Al 65 (393)
.++.+++.-|+ .++++++..|++-+.-.++.++.+.-|.+-.+ .++.+|.+||...+
T Consensus 194 ~L~~i~~~egi-~I~~eal~~La~~s~Gdlr~al~eLeKL~~y~~~~~~~~~It~~~V~~lv 254 (620)
T PRK14954 194 QLQMICRAEGI-QIDADALQLIARKAQGSMRDAQSILDQVIAFSVGSEAEKVIAYQGVAELL 254 (620)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhccccccCCccCHHHHHHHH
Confidence 45667777788 59999999999999999999999988877775 26789988887755
No 144
>KOG0915 consensus Uncharacterized conserved protein [Function unknown]
Probab=40.42 E-value=82 Score=37.87 Aligned_cols=79 Identities=13% Similarity=0.330 Sum_probs=60.3
Q ss_pred hhcCCcccchhhHHHHHHHHHhhccCChHHHHHHHHHHHHhhcCCCcccccchhhhHHHHHHHHhccccCCCCCCcchHH
Q 016189 200 AMDSGLHPLVPYFTYFISEEVTRSLKNFSLLFALMRVARSLLRNPHIHIEPYLHQMMPSVITCLVSKRLGNRFSDNHWDL 279 (393)
Q Consensus 200 ~tD~gL~~LlPy~~~fi~e~v~~nl~nl~~L~~ll~~v~ALl~N~~l~ie~YlHqLlpslltcll~k~l~~~~~~~h~~L 279 (393)
+-.|-+.+|+|.+.+|=.+= +...-..|-.+=.+|+.-+..-++.|+..|+-=+|-- ..+..|+.
T Consensus 991 kl~p~l~kLIPrLyRY~yDP------~~~Vq~aM~sIW~~Li~D~k~~vd~y~neIl~eLL~~---------lt~kewRV 1055 (1702)
T KOG0915|consen 991 KLEPYLKKLIPRLYRYQYDP------DKKVQDAMTSIWNALITDSKKVVDEYLNEILDELLVN---------LTSKEWRV 1055 (1702)
T ss_pred hhhhHHHHhhHHHhhhccCC------cHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHh---------ccchhHHH
Confidence 34566788888888775432 2344455678889999999999999999988765533 24679999
Q ss_pred HHHHHHHHHHHHHH
Q 016189 280 RNFVADLIASICTR 293 (393)
Q Consensus 280 R~~AA~lL~~I~~~ 293 (393)
|+-|.--|+.+++.
T Consensus 1056 ReasclAL~dLl~g 1069 (1702)
T KOG0915|consen 1056 REASCLALADLLQG 1069 (1702)
T ss_pred HHHHHHHHHHHHcC
Confidence 99999999999875
No 145
>COG1737 RpiR Transcriptional regulators [Transcription]
Probab=39.87 E-value=87 Score=30.47 Aligned_cols=76 Identities=20% Similarity=0.367 Sum_probs=56.0
Q ss_pred CChHHHHHHHHHcCCCCCCHHHHHHHHHHHH-----------------HHHHHHHHHHHHHHHHhCCCccCHhhHHHHhh
Q 016189 4 VPKETIEVIAQSIGVYNLSSDVALALAPDVE-----------------YRVREIMQEAIKCMRHAHRTVLTANDVDSALN 66 (393)
Q Consensus 4 ~~~~~i~~iaes~G~~~ls~~~a~~La~dve-----------------~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~ 66 (393)
+|+.||-++++.+|.+..+| ....|++.+. ..+.+++.+....+++.. +.+..++++.|.+
T Consensus 48 VS~aTv~Rf~~kLGf~Gf~e-fk~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~t~-~~l~~~~l~~av~ 125 (281)
T COG1737 48 VSPATVVRFARKLGFEGFSE-FKLALAQELAEGRAQLLREIAEDDGPESILEKLLAANIAALERTL-NLLDEEALERAVE 125 (281)
T ss_pred CCHHHHHHHHHHcCCCCHHH-HHHHHHHHHhhccchhhcccCCCCCHHHHHHHHHHHHHHHHHHHH-HhcCHHHHHHHHH
Confidence 68999999999999998885 3333444432 257788888888888875 6899999999998
Q ss_pred hc-CCCC--cccCCCCCC
Q 016189 67 LR-NVEP--IYGFASGDS 81 (393)
Q Consensus 67 ~~-niep--lyGy~s~~~ 81 (393)
.+ +-+- +||..++.+
T Consensus 126 ~L~~A~rI~~~G~g~S~~ 143 (281)
T COG1737 126 LLAKARRIYFFGLGSSGL 143 (281)
T ss_pred HHHcCCeEEEEEechhHH
Confidence 86 3333 567666554
No 146
>KOG1241 consensus Karyopherin (importin) beta 1 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=38.85 E-value=4.1e+02 Score=30.04 Aligned_cols=137 Identities=20% Similarity=0.198 Sum_probs=86.4
Q ss_pred cchhhHHHHHHHHHhhccCChHHHHHHHHHHHHhhcCCCc-ccccchhhhHHHHHHHHhccccCCCCCCcchHHHHHHHH
Q 016189 207 PLVPYFTYFISEEVTRSLKNFSLLFALMRVARSLLRNPHI-HIEPYLHQMMPSVITCLVSKRLGNRFSDNHWDLRNFVAD 285 (393)
Q Consensus 207 ~LlPy~~~fi~e~v~~nl~nl~~L~~ll~~v~ALl~N~~l-~ie~YlHqLlpslltcll~k~l~~~~~~~h~~LR~~AA~ 285 (393)
-++|...-||-+.++.- |+..-..-.-..-+.+.=|.- .+.|+++|.+|+++.-+..+ ..-.||-+|-
T Consensus 360 ~Iv~~Vl~Fiee~i~~p--dwr~reaavmAFGSIl~gp~~~~Lt~iV~qalp~ii~lm~D~---------sl~VkdTaAw 428 (859)
T KOG1241|consen 360 DIVPHVLPFIEENIQNP--DWRNREAAVMAFGSILEGPEPDKLTPIVIQALPSIINLMSDP---------SLWVKDTAAW 428 (859)
T ss_pred cchhhhHHHHHHhcCCc--chhhhhHHHHHHHhhhcCCchhhhhHHHhhhhHHHHHHhcCc---------hhhhcchHHH
Confidence 36777777777666442 233332222233455666654 88999999999999886432 2245699999
Q ss_pred HHHHHHHHcCCC--chhhHHHHHHHHHHHhcCCCCCchhHhHHHHHHHhhCHHhHHHh-----cccchHHHHHhhh
Q 016189 286 LIASICTRFGHV--YQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAALGPSVVHLL-----ILPNLELYLKFLE 354 (393)
Q Consensus 286 lL~~I~~~~~~~--y~~L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~lG~~~vr~~-----ilP~l~~~~~~l~ 354 (393)
.+++||+-.... ...+-+-+...|.+.|.|.-+--..-=+|+.||+.=-.++.+.- .-|....+...|-
T Consensus 429 tlgrI~d~l~e~~~n~~~l~~~l~~l~~gL~DePrva~N~CWAf~~Laea~~eA~~s~~qt~~~t~~y~~ii~~Ll 504 (859)
T KOG1241|consen 429 TLGRIADFLPEAIINQELLQSKLSALLEGLNDEPRVASNVCWAFISLAEAAYEAAVSNGQTDPATPFYEAIIGSLL 504 (859)
T ss_pred HHHHHHhhchhhcccHhhhhHHHHHHHHHhhhCchHHHHHHHHHHHHHHHHHHhccCCCCCCccchhHHHHHHHHH
Confidence 999999753321 13344456667788888876667777889999886555544432 2355555555443
No 147
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=38.47 E-value=69 Score=34.17 Aligned_cols=58 Identities=16% Similarity=0.156 Sum_probs=47.2
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhh
Q 016189 7 ETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNL 67 (393)
Q Consensus 7 ~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~ 67 (393)
+.++.+++.-|+ .++++++..|++-..-.+|.++...-+.+.. .+++|.+||..++..
T Consensus 182 ~~L~~i~~~egi-~i~~~Al~~ia~~s~GdlR~aln~Lekl~~~--~~~It~~~V~~~l~~ 239 (504)
T PRK14963 182 GKLRRLLEAEGR-EAEPEALQLVARLADGAMRDAESLLERLLAL--GTPVTRKQVEEALGL 239 (504)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHhc--CCCCCHHHHHHHHCC
Confidence 346677888898 5899999999999999999998888777654 458999999988743
No 148
>COG5593 Nucleic-acid-binding protein possibly involved in ribosomal biogenesis [Translation, ribosomal structure and biogenesis]
Probab=38.39 E-value=54 Score=35.23 Aligned_cols=120 Identities=17% Similarity=0.285 Sum_probs=75.1
Q ss_pred hhcCCcccch--hhHHHHHHHHHhhccCChHHHHHHHHHHHHhhcCCCcccccchhhhHHHHHHH-----------Hhcc
Q 016189 200 AMDSGLHPLV--PYFTYFISEEVTRSLKNFSLLFALMRVARSLLRNPHIHIEPYLHQMMPSVITC-----------LVSK 266 (393)
Q Consensus 200 ~tD~gL~~Ll--Py~~~fi~e~v~~nl~nl~~L~~ll~~v~ALl~N~~l~ie~YlHqLlpslltc-----------ll~k 266 (393)
...||+.-.+ ||+.+|+-+....|+.+ +.++++++|-..|-+++-.-+-.++=-+|+. .+.
T Consensus 162 k~q~~lsk~v~~k~l~~~~fesflk~l~f-----r~levle~ls~d~i~~Vk~qvv~~VydLL~a~peqe~nLl~L~IN- 235 (821)
T COG5593 162 KNQPGLSKEVQNKYLKQRIFESFLKNLRF-----RVLEVLEVLSHDPIQYVKKQVVRLVYDLLEARPEQEVNLLHLFIN- 235 (821)
T ss_pred hcCcchhhhhcchHHHHHHHHHHHHHHHH-----HHHHHHHHhccchHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHH-
Confidence 3445553222 78888888888766532 3455556665555544433222221111111 111
Q ss_pred ccCCCCCCcchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcCCCCCchhHhHHHHHHHhh
Q 016189 267 RLGNRFSDNHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAAL 333 (393)
Q Consensus 267 ~l~~~~~~~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~l 333 (393)
.+| +.|+.-|.--++++.+-...-|+++.=|++-.-...+.|+..+.+.|=|++.|...
T Consensus 236 KlG--------Dk~~kvsskasY~ilkLe~~hP~mk~VV~d~Iedf~f~pn~~~~s~yyalitLnqt 294 (821)
T COG5593 236 KLG--------DKRDKVSSKASYVILKLELLHPGMKEVVLDGIEDFYFKPNDLFRSRYYALITLNQT 294 (821)
T ss_pred hhc--------cchhhhhhhhhHHHHHHHhcCCchhHHHHhhhhHheeccccccceeeeeehhhHHH
Confidence 222 33665555556666777777899999999999999999999999999999988654
No 149
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=37.62 E-value=51 Score=36.07 Aligned_cols=56 Identities=13% Similarity=0.178 Sum_probs=44.7
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHh
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSAL 65 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al 65 (393)
.++.+|+.-|+ .++++++..|++-+.-.++.++.+.-+.+..++++ +|.++|...+
T Consensus 188 ~L~~ia~~egi-~i~~~al~~La~~s~gdlr~al~~Lekl~~y~~~~-It~~~V~~~l 243 (614)
T PRK14971 188 HLQYVASKEGI-TAEPEALNVIAQKADGGMRDALSIFDQVVSFTGGN-ITYKSVIENL 243 (614)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCC-ccHHHHHHHh
Confidence 55677888898 59999999999999988999988887776666544 8877776544
No 150
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=37.54 E-value=75 Score=33.30 Aligned_cols=56 Identities=20% Similarity=0.214 Sum_probs=43.2
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHh
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSAL 65 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al 65 (393)
.++.+++.-|+ .++++++..|++-+.-.++.++++.-+..-..+ +++|.+||..++
T Consensus 188 ~L~~~~~~eg~-~i~~~al~~L~~~s~gdlr~a~~~Lekl~~~~~-~~It~~~V~~l~ 243 (451)
T PRK06305 188 KLALIAKQEGI-ETSREALLPIARAAQGSLRDAESLYDYVVGLFP-KSLDPDSVAKAL 243 (451)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc-CCcCHHHHHHHH
Confidence 34556667788 489999999999998888888888777654333 459999988776
No 151
>COG1938 Archaeal enzymes of ATP-grasp superfamily [General function prediction only]
Probab=36.51 E-value=1e+02 Score=29.89 Aligned_cols=45 Identities=18% Similarity=0.323 Sum_probs=39.7
Q ss_pred HHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Q 016189 9 IEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRT 54 (393)
Q Consensus 9 i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~ 54 (393)
|..+.+-+|. +++.|-...-|+.++.+++++.+...+-++|-+|+
T Consensus 193 ve~lnk~~~l-~V~td~L~keAe~i~~~lekl~eq~~~~~~~~~~~ 237 (244)
T COG1938 193 VEALNKMLGL-NVDTDKLEKEAEEIEEQLEKLAEQLEKEEERVERE 237 (244)
T ss_pred HHHHHHHhcC-ccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 5667888898 69999999999999999999999999999986654
No 152
>PF12719 Cnd3: Nuclear condensing complex subunits, C-term domain
Probab=36.48 E-value=1.2e+02 Score=29.69 Aligned_cols=57 Identities=12% Similarity=0.099 Sum_probs=43.9
Q ss_pred cchHHHHHHHHHHHHHHHHcCCCchhhHH---------HHHHHHHHHhcCCCCCchhHhHHHHHHHhh
Q 016189 275 NHWDLRNFVADLIASICTRFGHVYQNLQS---------RVTRTLLHAFLDPTKSLSQHYGAIQGLAAL 333 (393)
Q Consensus 275 ~h~~LR~~AA~lL~~I~~~~~~~y~~L~~---------Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~l 333 (393)
++-.+|-.|.+.+-.+...||..+-.-.. .+.+.|.+.+.+. ....+.=|+-|++.|
T Consensus 76 ~~~~v~~~al~~l~Dll~~~g~~~~~~~~~~~~~~~~~~l~~~l~~~l~~~--~~~~~~~a~EGl~KL 141 (298)
T PF12719_consen 76 DDEEVKITALKALFDLLLTHGIDIFDSESDNDESVDSKSLLKILTKFLDSE--NPELQAIAVEGLCKL 141 (298)
T ss_pred CCHHHHHHHHHHHHHHHHHcCchhccchhccCccchHhHHHHHHHHHHhcC--CHHHHHHHHHHHHHH
Confidence 57789999999999999999977654444 5888888887654 545677788888775
No 153
>KOG2213 consensus Apoptosis inhibitor 5/fibroblast growth factor 2-interacting factor 2, and related proteins [Signal transduction mechanisms]
Probab=36.40 E-value=65 Score=33.40 Aligned_cols=114 Identities=24% Similarity=0.269 Sum_probs=76.3
Q ss_pred HHHHHHHhccccCCCCCCcchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcCCCCCchhHhHHHHHHHhhCHH
Q 016189 257 PSVITCLVSKRLGNRFSDNHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAALGPS 336 (393)
Q Consensus 257 pslltcll~k~l~~~~~~~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~lG~~ 336 (393)
|++-+-.+.-++.- ..++.-.+|..|-+=|-..|+- +.-+||..+|.+.|. +.+++..+|-+-. |.+
T Consensus 56 p~la~~a~da~~d~-~ed~d~~ir~qaik~lp~fc~~------d~~~rv~d~l~qLLn--k~sl~~Lf~~~~~----~D~ 122 (460)
T KOG2213|consen 56 PSLADEAIDAQLDL-CEDDDVGIRRQAIKGLPLFCKG------DALSRVNDVLVQLLN--KASLTGLFGQIEV----GDE 122 (460)
T ss_pred chhhhHHHHhhhcc-ccccchhhHHHHHhccchhccC------chhhhhHHHHHHHHH--HHHHHHHHhhhhh----hhH
Confidence 44444444433321 2467889999999999988873 677899999999765 5566555554433 788
Q ss_pred hHHHhcccchHHHHHhhhHhHhhhhhhhhhHHHHHHHHHhHhhhhhhccccc
Q 016189 337 VVHLLILPNLELYLKFLEPEMLLEKQKNEMKRHEAWRVYGALQVDFFFKEFL 388 (393)
Q Consensus 337 ~vr~~ilP~l~~~~~~l~~~l~~~~~~~~~~~~~a~~v~~~l~~a~~~~~~~ 388 (393)
.+|--++|.|+.=+-.+..++.- .++.|+-.+-+.-||...-|= ||.
T Consensus 123 ~irek~l~fi~tKl~~l~~e~L~----kevE~~iv~eikkal~dVtge-ef~ 169 (460)
T KOG2213|consen 123 QIREKVLKFIRTKLITLKGEVLT----KEVERHIVDEIKKALEDVTGE-EFT 169 (460)
T ss_pred HHHHHHHHHHHHHhhcccHHHhh----hHHHHHHHHHHHHHHHhccHH-HHH
Confidence 88888888887766666555422 456677777777777765553 443
No 154
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=36.04 E-value=87 Score=33.43 Aligned_cols=64 Identities=13% Similarity=0.070 Sum_probs=48.5
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCCCCc
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRNVEPI 73 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~niepl 73 (393)
.++.+++.-|+ .++++++..|++-..-.+|.+++..-+..-.+ ++++|.+||...+...+-+-+
T Consensus 186 ~l~~il~~egi-~~~~~al~~ia~~s~GslR~al~lLdq~ia~~-~~~It~~~V~~~lg~~~~~~i 249 (509)
T PRK14958 186 HCQHLLKEENV-EFENAALDLLARAANGSVRDALSLLDQSIAYG-NGKVLIADVKTMLGTIEPLLL 249 (509)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHcCCcHHHHHHHHHHHHhcC-CCCcCHHHHHHHHCCCCHHHH
Confidence 45568888898 58999999999998887888777766555554 678999999998855444433
No 155
>PRK04195 replication factor C large subunit; Provisional
Probab=36.00 E-value=77 Score=33.32 Aligned_cols=55 Identities=15% Similarity=0.151 Sum_probs=45.0
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHh
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSAL 65 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al 65 (393)
.++.+++.-|+ .+++++.+.|++...-.+|.++++..++. .++.+++.+||+...
T Consensus 168 ~L~~i~~~egi-~i~~eaL~~Ia~~s~GDlR~ain~Lq~~a--~~~~~it~~~v~~~~ 222 (482)
T PRK04195 168 VLKRICRKEGI-ECDDEALKEIAERSGGDLRSAINDLQAIA--EGYGKLTLEDVKTLG 222 (482)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHh--cCCCCCcHHHHHHhh
Confidence 45667778899 59999999999999999999999887744 345689999998765
No 156
>PF13335 Mg_chelatase_2: Magnesium chelatase, subunit ChlI
Probab=35.44 E-value=2.4e+02 Score=22.98 Aligned_cols=59 Identities=20% Similarity=0.204 Sum_probs=45.4
Q ss_pred CCChHHHHHHHHHcCCCCCCHHHHHHHHHHHHHH------HHHHHHHHHHHHHHhCCCccCHhhHHHHhhh
Q 016189 3 IVPKETIEVIAQSIGVYNLSSDVALALAPDVEYR------VREIMQEAIKCMRHAHRTVLTANDVDSALNL 67 (393)
Q Consensus 3 ~~~~~~i~~iaes~G~~~ls~~~a~~La~dve~r------l~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~ 67 (393)
.+|.+.|+.++ .+++++...|-..++.. ...|++-|-+.+--.++..++.+||..|+..
T Consensus 31 ~l~~~~l~~~~------~l~~~~~~~l~~~~~~~~lS~R~~~rilrvARTIADL~~~~~I~~~hi~EAl~y 95 (96)
T PF13335_consen 31 QLPGEELRKYC------PLSSEAKKLLEQAAEKLNLSARGYHRILRVARTIADLEGSERITREHIAEALSY 95 (96)
T ss_pred cCCHHHHHhHc------CCCHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHhHcCCCCCCHHHHHHHHhC
Confidence 34555555543 57888888777766432 6788999999999999999999999999864
No 157
>PF12460 MMS19_C: RNAPII transcription regulator C-terminal; InterPro: IPR024687 This domain, approximately 60 amino acids in length, is found in the N-terminal region of MMS19 proteins. MMS19 is required for both nucleotide excision repair (NER) and RNA polymerase II (RNAP II) transcription [].
Probab=35.44 E-value=94 Score=31.96 Aligned_cols=89 Identities=16% Similarity=0.277 Sum_probs=57.0
Q ss_pred HHHHHHHHHHHhhcC----Cc--hHHHHHHHHhhhhcCCcccchhhHHHHH---HHHHhhccCChHHHHHHHHHHHHhhc
Q 016189 172 LQLYFDKIRELTVSR----SN--STVFKQALLSLAMDSGLHPLVPYFTYFI---SEEVTRSLKNFSLLFALMRVARSLLR 242 (393)
Q Consensus 172 lq~yf~~It~a~~~~----~~--~~~~~~aL~sL~tD~gL~~LlPy~~~fi---~e~v~~nl~nl~~L~~ll~~v~ALl~ 242 (393)
-|.||..+...++.+ ++ ....-.||..+=...--+.++|++-..+ -+.+ .+.|-......+++...++.
T Consensus 317 kQR~F~~~~p~L~~~~~~~~~~~k~~yL~ALs~ll~~vP~~vl~~~l~~LlPLLlqsL--~~~~~~v~~s~L~tL~~~l~ 394 (415)
T PF12460_consen 317 KQRFFTQVLPKLLEGFKEADDEIKSNYLTALSHLLKNVPKSVLLPELPTLLPLLLQSL--SLPDADVLLSSLETLKMILE 394 (415)
T ss_pred hHHHHHHHHHHHHHHHhhcChhhHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHH
Confidence 377888877666542 11 1222357766444443444444443322 3333 44566778889999999999
Q ss_pred CCCcccccchhhhHHHHHHH
Q 016189 243 NPHIHIEPYLHQMMPSVITC 262 (393)
Q Consensus 243 N~~l~ie~YlHqLlpslltc 262 (393)
+..=-+.+|++.|+|.+|.+
T Consensus 395 ~~~~~i~~hl~sLI~~LL~l 414 (415)
T PF12460_consen 395 EAPELISEHLSSLIPRLLKL 414 (415)
T ss_pred cCHHHHHHHHHHHHHHHHhc
Confidence 88888888999999988764
No 158
>PRK08084 DNA replication initiation factor; Provisional
Probab=34.87 E-value=1.3e+02 Score=28.20 Aligned_cols=57 Identities=21% Similarity=0.223 Sum_probs=40.0
Q ss_pred HHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hCCCccCHhhHHHHhh
Q 016189 9 IEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRH--AHRTVLTANDVDSALN 66 (393)
Q Consensus 9 i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~h--skR~~Lt~~Di~~Al~ 66 (393)
++..|+.-|+ .+++|+...|+.-.+-.+|++..---+..+. ++.+++|...+..+|.
T Consensus 176 l~~~a~~~~~-~l~~~v~~~L~~~~~~d~r~l~~~l~~l~~~~l~~~~~it~~~~k~~l~ 234 (235)
T PRK08084 176 LQLRARLRGF-ELPEDVGRFLLKRLDREMRTLFMTLDQLDRASITAQRKLTIPFVKEILK 234 (235)
T ss_pred HHHHHHHcCC-CCCHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHc
Confidence 3444555787 5999999999999987776666554444333 2234599998888874
No 159
>PRK00034 gatC aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed
Probab=34.74 E-value=1.1e+02 Score=24.49 Aligned_cols=35 Identities=17% Similarity=0.279 Sum_probs=28.6
Q ss_pred CCCCChHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHH
Q 016189 1 MSIVPKETIEVIAQSIGVYNLSSDVALALAPDVEYRV 37 (393)
Q Consensus 1 ms~~~~~~i~~iaes~G~~~ls~~~a~~La~dve~rl 37 (393)
|. ++++.|+.+|+..-+ +++++-+..+..+++..+
T Consensus 1 M~-i~~e~i~~la~La~l-~l~~ee~~~~~~~l~~il 35 (95)
T PRK00034 1 MA-ITREEVKHLAKLARL-ELSEEELEKFAGQLNKIL 35 (95)
T ss_pred CC-CCHHHHHHHHHHhCC-CCCHHHHHHHHHHHHHHH
Confidence 54 899999999999999 599988887777765444
No 160
>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=34.50 E-value=1.4e+02 Score=29.12 Aligned_cols=67 Identities=13% Similarity=0.234 Sum_probs=48.1
Q ss_pred CChHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCCCCc
Q 016189 4 VPKETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRNVEPI 73 (393)
Q Consensus 4 ~~~~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~niepl 73 (393)
++...++.+++.+|+.....+.. +..-+..++++|-++=.-..+- +=..||.+++..|...+|+.+.
T Consensus 171 Lsr~~L~~L~r~~~l~~~~~~~~--lr~rL~~~~~~l~~dD~~i~~e-Gv~~Ls~~EL~~Ac~~RGl~~~ 237 (268)
T PF07766_consen 171 LSRPHLRALCRLLGLTPFGPSSL--LRRRLRKRLRYLKQDDRLIKRE-GVDSLSEEELQDACYERGLRST 237 (268)
T ss_dssp S-HHHHHHHHHHTT----SSHHH--HHHHHHHHHHHHHHHHHHHHHH--GGGS-HHHHHHHHHHTT---T
T ss_pred CCHHHHHHHHHHhccCcCCchHH--HHHHHHHHHHHHHHHHHHHHHh-ccccCCHHHHHHHHHHhCCCcC
Confidence 56677899999999988765443 7788899999999988777777 6679999999999999999865
No 161
>COG4996 Predicted phosphatase [General function prediction only]
Probab=34.09 E-value=14 Score=32.56 Aligned_cols=74 Identities=16% Similarity=0.250 Sum_probs=51.4
Q ss_pred HHHHHHHHHHHHHHHHHhCC--CccCHhhHHHHhhh---cCCCCcccCCCCCCcceee-----------c-----CCCCc
Q 016189 34 EYRVREIMQEAIKCMRHAHR--TVLTANDVDSALNL---RNVEPIYGFASGDSLRFKR-----------A-----SGLKD 92 (393)
Q Consensus 34 e~rl~~iiq~a~k~~~hskR--~~Lt~~Di~~Al~~---~nieplyGy~s~~~l~f~~-----------~-----~g~~~ 92 (393)
|-+|..=+.+..+.+|+++- +..|.++-+.|++. +++...|-|---+|.+++. + ..+++
T Consensus 39 ev~L~~~v~~~l~warnsG~i~~~~sWN~~~kA~~aLral~~~~yFhy~ViePhP~K~~ML~~llr~i~~er~~~ikP~~ 118 (164)
T COG4996 39 EVHLFPDVKETLKWARNSGYILGLASWNFEDKAIKALRALDLLQYFHYIVIEPHPYKFLMLSQLLREINTERNQKIKPSE 118 (164)
T ss_pred EEEEcHHHHHHHHHHHhCCcEEEEeecCchHHHHHHHHHhchhhhEEEEEecCCChhHHHHHHHHHHHHHhhccccCcce
Confidence 34455566777888888886 46777777776554 5777777776555554431 0 23478
Q ss_pred eeeecCcccchHHhh
Q 016189 93 LYYIDDKDVELRNVI 107 (393)
Q Consensus 93 l~~~~D~evdl~~ii 107 (393)
+.|++|+++-|.+|-
T Consensus 119 Ivy~DDR~iH~~~Iw 133 (164)
T COG4996 119 IVYLDDRRIHFGNIW 133 (164)
T ss_pred EEEEecccccHHHHH
Confidence 999999999999874
No 162
>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=34.06 E-value=2e+02 Score=28.46 Aligned_cols=49 Identities=14% Similarity=0.073 Sum_probs=38.2
Q ss_pred CCCHHHHHHHHHHHHH------HHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhc
Q 016189 20 NLSSDVALALAPDVEY------RVREIMQEAIKCMRHAHRTVLTANDVDSALNLR 68 (393)
Q Consensus 20 ~ls~~~a~~La~dve~------rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~ 68 (393)
.+++++.+.++..+.. ++.++++.|...+...++.++|.+||..|+...
T Consensus 220 ~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~~a~~~~~~~it~~~v~~a~~~~ 274 (365)
T TIGR02928 220 VLDDGVIPLCAALAAQEHGDARKAIDLLRVAGEIAEREGAERVTEDHVEKAQEKI 274 (365)
T ss_pred CCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence 3788888877776642 345577788888877778899999999999876
No 163
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=34.03 E-value=1e+02 Score=33.28 Aligned_cols=57 Identities=16% Similarity=0.211 Sum_probs=45.0
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhh
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALN 66 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~ 66 (393)
.++.+++.-|+ .++++++..|+....-.+|.++...-+.+.-+ +..+|.+||...+.
T Consensus 184 ~L~~Il~~EGi-~i~~~Al~~Ia~~s~GdlR~alnlLdqai~~~-~~~It~~~V~~~lg 240 (535)
T PRK08451 184 HLKTILEKEGV-SYEPEALEILARSGNGSLRDTLTLLDQAIIYC-KNAITESKVADMLG 240 (535)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhc-CCCCCHHHHHHHhC
Confidence 45667778898 58999999999999888888888776666555 46789998887653
No 164
>TIGR00362 DnaA chromosomal replication initiator protein DnaA. DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).
Probab=33.65 E-value=1.1e+02 Score=31.20 Aligned_cols=58 Identities=19% Similarity=0.229 Sum_probs=42.9
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHH---HHHHHHHHHHHhCCCccCHhhHHHHhhh
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVRE---IMQEAIKCMRHAHRTVLTANDVDSALNL 67 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~---iiq~a~k~~~hskR~~Lt~~Di~~Al~~ 67 (393)
-++..++..|+ .+++++...||+.++--+|+ ++.....++...+ +.+|.+.+..+|+.
T Consensus 276 il~~~~~~~~~-~l~~e~l~~ia~~~~~~~r~l~~~l~~l~~~a~~~~-~~it~~~~~~~L~~ 336 (405)
T TIGR00362 276 ILQKKAEEEGL-ELPDEVLEFIAKNIRSNVRELEGALNRLLAYASLTG-KPITLELAKEALKD 336 (405)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhC-CCCCHHHHHHHHHH
Confidence 45667777888 59999999999998765555 5555555555555 45899999999864
No 165
>cd03571 ENTH_epsin ENTH domain, Epsin family; The epsin (Eps15 interactor) N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. ENTH and ANTH (E/ANTH) domains are structurally similar to the VHS domain and are composed of a superhelix of eight alpha helices. E/ANTH domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membranes. ENTH domains also function in the development of membrane curvature through lipid remodeling during the formation of clathrin-coated vesicles. E/ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the trans-Golgi network, which suggests that E/ANTH domains are univ
Probab=33.62 E-value=1.9e+02 Score=24.77 Aligned_cols=96 Identities=20% Similarity=0.117 Sum_probs=63.2
Q ss_pred HHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcCCCCCchhHhHHHHHHHhh---CHHhHHHhcccchHHHHHhhhHhHhh
Q 016189 283 VADLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAAL---GPSVVHLLILPNLELYLKFLEPEMLL 359 (393)
Q Consensus 283 AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~l---G~~~vr~~ilP~l~~~~~~l~~~l~~ 359 (393)
++..|..|++---+ ..--++|++.+.+.|.|..+..-..|=|+.-|-.| |++.+-.-+--++..+-..-+-...+
T Consensus 18 ~~~~m~eIa~~t~~--~~~~~~Im~~l~kRL~~~~k~WR~vyKaL~lleyLl~nGse~vv~~~r~~~~~i~~L~~F~~~d 95 (123)
T cd03571 18 SGTLMAEIARATYN--YVEFQEIMSMLWKRLNDKGKNWRHVYKALTLLEYLLKNGSERVVDDARENLYIIRTLKDFQYID 95 (123)
T ss_pred CHHHHHHHHHHhCC--HHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHhCCHHHHHHHHHhHHHHHhhccceeeC
Confidence 36778888864221 35567999999999999889999999999998888 88765554455553332221111112
Q ss_pred h--hhhhhhHHHHHHHHHhHhhh
Q 016189 360 E--KQKNEMKRHEAWRVYGALQV 380 (393)
Q Consensus 360 ~--~~~~~~~~~~a~~v~~~l~~ 380 (393)
+ +..-.++|.-|..|...|..
T Consensus 96 ~~g~d~G~~VR~ka~~i~~Ll~D 118 (123)
T cd03571 96 ENGKDQGINVREKAKEILELLED 118 (123)
T ss_pred CCCCchhHHHHHHHHHHHHHhCC
Confidence 1 12224578889888877643
No 166
>KOG1657 consensus CCAAT-binding factor, subunit C (HAP5) [Transcription]
Probab=33.51 E-value=68 Score=30.83 Aligned_cols=64 Identities=19% Similarity=0.268 Sum_probs=53.3
Q ss_pred CChHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhh
Q 016189 4 VPKETIEVIAQSI-GVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNL 67 (393)
Q Consensus 4 ~~~~~i~~iaes~-G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~ 67 (393)
+|.+-||.|-++= .+.-++.|+.-..+...|+++.++--.+-....-++|+++.-.|+..|..-
T Consensus 75 lPlaRiKkimK~dedv~mI~~Eapvl~aka~E~Fi~elt~~sw~~Tee~~rrtl~~sdia~av~~ 139 (236)
T KOG1657|consen 75 LPLARIKKIMKSDEDVSMITAEAPVLFAKACELFITELTLRSWVHTEENKRRTLQKSDIAAAVTQ 139 (236)
T ss_pred CcHhhccccccccccccccchhHHHHHHHHHHHHHHHHHHHhhhhhcccccccchHHHHHHHhcc
Confidence 5666666654432 333689999999999999999999999999999999999999999999854
No 167
>PF10363 DUF2435: Protein of unknown function (DUF2435)
Probab=33.46 E-value=1.6e+02 Score=23.97 Aligned_cols=66 Identities=21% Similarity=0.128 Sum_probs=48.8
Q ss_pred hHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcCCCCCchhHhHHHHHHHhhCHHhHHHhcccch
Q 016189 277 WDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAALGPSVVHLLILPNL 346 (393)
Q Consensus 277 ~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~lG~~~vr~~ilP~l 346 (393)
-.+|-.+=..|..++++.+ .-..-.++|...+...+.|++ -..+..||.||++|+..-=+ .++|.|
T Consensus 17 ~PvRa~gL~~L~~Li~~~~-~~~~~~~~il~l~l~~L~d~D--syVYL~aI~~L~~La~~~p~-~vl~~L 82 (92)
T PF10363_consen 17 PPVRAHGLVLLRKLIESKS-EPVIDIPKILDLFLSQLKDED--SYVYLNAIKGLAALADRHPD-EVLPIL 82 (92)
T ss_pred cchHHHHHHHHHHHHHcCC-cchhhHHHHHHHHHHHcCCCC--chHHHHHHHHHHHHHHHChH-HHHHHH
Confidence 4689999999999999877 234456799999999988753 34556999999999875433 234444
No 168
>PF14500 MMS19_N: Dos2-interacting transcription regulator of RNA-Pol-II
Probab=33.24 E-value=2.2e+02 Score=27.58 Aligned_cols=64 Identities=22% Similarity=0.301 Sum_probs=40.8
Q ss_pred cCCCCCCcchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcCCCCCchhHhHHHHHHHhh
Q 016189 268 LGNRFSDNHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAAL 333 (393)
Q Consensus 268 l~~~~~~~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~l 333 (393)
+|.....+.+..|..|-.+|+.++.+..... |...=++.+...+.+.-....+.=+|+.|+.+|
T Consensus 4 Lg~~Ltsed~~~R~ka~~~Ls~vL~~lp~~~--L~~~ev~~L~~F~~~rl~D~~~~~~~l~gl~~L 67 (262)
T PF14500_consen 4 LGEYLTSEDPIIRAKALELLSEVLERLPPDF--LSRQEVQVLLDFFCSRLDDHACVQPALKGLLAL 67 (262)
T ss_pred hhhhhCCCCHHHHHHHHHHHHHHHHhCCHhh--ccHHHHHHHHHHHHHHhccHhhHHHHHHHHHHH
Confidence 4444456788999999999999999877532 444334444444444334445555666666655
No 169
>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=33.15 E-value=1.9e+02 Score=27.95 Aligned_cols=60 Identities=12% Similarity=0.168 Sum_probs=42.5
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHH---HHHHHHHHHHHHHHhCCCccCHhhHHHHhhhc
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYR---VREIMQEAIKCMRHAHRTVLTANDVDSALNLR 68 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~r---l~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~ 68 (393)
-++..++..|+ .++++++..|++...-. +-.+++.+..++...+..+++.+++..++...
T Consensus 167 il~~~~~~~~~-~~~~~al~~ia~~~~G~pR~~~~ll~~~~~~a~~~~~~~it~~~v~~~l~~l 229 (305)
T TIGR00635 167 IVSRSAGLLNV-EIEPEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRDIALKALEML 229 (305)
T ss_pred HHHHHHHHhCC-CcCHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHh
Confidence 34455667777 59999999999876533 34455555556555555779999999999873
No 170
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=32.96 E-value=96 Score=33.62 Aligned_cols=56 Identities=20% Similarity=0.181 Sum_probs=44.4
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHh
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSAL 65 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al 65 (393)
.++.+++.-|+ .++++++..|++-..-.++.+++..-|++... .+++|.+||...+
T Consensus 187 ~L~~~a~~egl-~i~~eal~~La~~s~Gdlr~al~~LekL~~y~-~~~It~e~V~~ll 242 (585)
T PRK14950 187 HLRKIAAAEGI-NLEPGALEAIARAATGSMRDAENLLQQLATTY-GGEISLSQVQSLL 242 (585)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-CCCCCHHHHHHHh
Confidence 45566777788 49999999999999888999988888877754 4579998886644
No 171
>KOG0211 consensus Protein phosphatase 2A regulatory subunit A and related proteins [Signal transduction mechanisms]
Probab=32.96 E-value=1.7e+02 Score=33.03 Aligned_cols=75 Identities=20% Similarity=0.235 Sum_probs=55.6
Q ss_pred cchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcCC-CCCchhHhHHHHHHHhh-CHHhHHHhcccchHHHHH
Q 016189 275 NHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLDP-TKSLSQHYGAIQGLAAL-GPSVVHLLILPNLELYLK 351 (393)
Q Consensus 275 ~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~-~~~l~t~YGAi~GL~~l-G~~~vr~~ilP~l~~~~~ 351 (393)
.-.++|+.||..+..++.+||..+... .++..++....++ =+.-.|.+=++.-|..+ |.+.....++|-+.....
T Consensus 530 ~v~~Ir~~aa~~l~~l~~~~G~~w~~~--~~i~k~L~~~~q~~y~~R~t~l~si~~la~v~g~ei~~~~Llp~~~~l~~ 606 (759)
T KOG0211|consen 530 HVYSIREAAARNLPALVETFGSEWARL--EEIPKLLAMDLQDNYLVRMTTLFSIHELAEVLGQEITCEDLLPVFLDLVK 606 (759)
T ss_pred hHHHHHHHHHHHhHHHHHHhCcchhHH--HhhHHHHHHhcCcccchhhHHHHHHHHHHHHhccHHHHHHHhHHHHHhcc
Confidence 456899999999999999999665543 4665566666655 34566777778777765 889999988887766544
No 172
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=32.52 E-value=47 Score=34.79 Aligned_cols=38 Identities=18% Similarity=0.039 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhc
Q 016189 31 PDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLR 68 (393)
Q Consensus 31 ~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~ 68 (393)
.-.-..|+.++++|...+.+.+|..+|.+|+..|++..
T Consensus 387 g~sgAdI~~i~~eA~~~Alr~~r~~Vt~~D~~~A~~~v 424 (438)
T PTZ00361 387 ELSGADIKAICTEAGLLALRERRMKVTQADFRKAKEKV 424 (438)
T ss_pred CCCHHHHHHHHHHHHHHHHHhcCCccCHHHHHHHHHHH
Confidence 34455588999999999999999999999999998763
No 173
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=32.43 E-value=2.8e+02 Score=22.65 Aligned_cols=84 Identities=19% Similarity=0.173 Sum_probs=57.0
Q ss_pred HHHHHHHHHcCCCchhhHHHHHHHHHHHhcCCCCCchhHhHHHHHHHhhCHHhHHHhcccchHHHHHhhhHhHhhhhhhh
Q 016189 285 DLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAALGPSVVHLLILPNLELYLKFLEPEMLLEKQKN 364 (393)
Q Consensus 285 ~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~lG~~~vr~~ilP~l~~~~~~l~~~l~~~~~~~ 364 (393)
--|+.++--.+..-..-.+.|+.-.++.|-| .....+|=|.-+|..+- .+.+.-++|++..++..|-.-.. .++
T Consensus 8 i~Laa~ai~l~~~~~~~l~~Il~pVL~~~~D--~d~rVRy~AcEaL~ni~-k~~~~~~l~~f~~IF~~L~kl~~---D~d 81 (97)
T PF12755_consen 8 IGLAAVAIALGKDISKYLDEILPPVLKCFDD--QDSRVRYYACEALYNIS-KVARGEILPYFNEIFDALCKLSA---DPD 81 (97)
T ss_pred HHHHHHHHHchHhHHHHHHHHHHHHHHHcCC--CcHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHc---CCc
Confidence 3445555544544455556677777787765 45566899999998884 66677889999999888765543 345
Q ss_pred hhHHHHHHHH
Q 016189 365 EMKRHEAWRV 374 (393)
Q Consensus 365 ~~~~~~a~~v 374 (393)
..+|..|+-+
T Consensus 82 ~~Vr~~a~~L 91 (97)
T PF12755_consen 82 ENVRSAAELL 91 (97)
T ss_pred hhHHHHHHHH
Confidence 5677777544
No 174
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=32.23 E-value=1.2e+02 Score=33.89 Aligned_cols=60 Identities=10% Similarity=0.107 Sum_probs=47.3
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhc
Q 016189 7 ETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLR 68 (393)
Q Consensus 7 ~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~ 68 (393)
+.++.+++.-|+ .++++++..|++-..-.+|.++...-+.+..+ ..+++.+||...+...
T Consensus 185 ~~L~~Il~kEgi-~id~eAL~~Ia~~A~GslRdAlnLLDqaia~g-~g~It~e~V~~lLG~~ 244 (709)
T PRK08691 185 DHLAHVLDSEKI-AYEPPALQLLGRAAAGSMRDALSLLDQAIALG-SGKVAENDVRQMIGAV 244 (709)
T ss_pred HHHHHHHHHcCC-CcCHHHHHHHHHHhCCCHHHHHHHHHHHHHhc-CCCcCHHHHHHHHccc
Confidence 346678889998 59999999999999888888887776666654 5678998888776554
No 175
>PRK09862 putative ATP-dependent protease; Provisional
Probab=32.18 E-value=1.4e+02 Score=31.88 Aligned_cols=56 Identities=16% Similarity=0.226 Sum_probs=43.0
Q ss_pred CCHHHHHHHHHHH-----HHH-HHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCCCCcccC
Q 016189 21 LSSDVALALAPDV-----EYR-VREIMQEAIKCMRHAHRTVLTANDVDSALNLRNVEPIYGF 76 (393)
Q Consensus 21 ls~~~a~~La~dv-----e~r-l~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~nieplyGy 76 (393)
+++++.+.|.+.. .-| ...+++-|...+--.+|..++.+||..|+..++++.++|.
T Consensus 439 l~~~~~~~l~~~~~~~~lS~Ra~~rlLrvARTiADL~g~~~V~~~hv~eAl~yR~~~~~~~~ 500 (506)
T PRK09862 439 LESEDARWLEETLIHLGLSIRAWQRLLKVARTIADIDQSDIITRQHLQEAVSYRAIDRLLIH 500 (506)
T ss_pred CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHhhcccHHHHH
Confidence 5666555444322 233 4678888999999999999999999999999988877764
No 176
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=32.18 E-value=1.1e+02 Score=33.79 Aligned_cols=56 Identities=16% Similarity=0.156 Sum_probs=44.0
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHh
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSAL 65 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al 65 (393)
.++.+++..|+ .++++++..|++-..-.+|.+++..-+.+.. +.+++|.+||..++
T Consensus 186 ~L~~il~~egi-~id~eal~lIA~~s~GdlR~Al~lLeqll~~-g~~~It~d~V~~~l 241 (624)
T PRK14959 186 HLTKVLGREGV-DYDPAAVRLIARRAAGSVRDSMSLLGQVLAL-GESRLTIDGARGVL 241 (624)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cCCCcCHHHHHHHh
Confidence 44566777788 4999999999998888888888877666644 44589999998887
No 177
>PF12231 Rif1_N: Rap1-interacting factor 1 N terminal; InterPro: IPR022031 This domain family is found in eukaryotes, and is typically between 135 and 146 amino acids in length. Rif1 is a protein which interacts with Rap1 to regulate telomere length. Interaction with telomeres limits their length. The N-terminal region contains many HEAT- and ARMADILLO- type repeats. These are helical folds which form extended curved proteins or RNA interface surfaces.
Probab=31.85 E-value=5.6e+02 Score=25.97 Aligned_cols=202 Identities=15% Similarity=0.105 Sum_probs=116.8
Q ss_pred cccCcHHHHH-HHHHHHHHhhcC-CchHHHHHHHHhhhhc---CCc-ccchhhHHHHHHHHHhhccCChHHHHHHHHHHH
Q 016189 165 KHVLSKELQL-YFDKIRELTVSR-SNSTVFKQALLSLAMD---SGL-HPLVPYFTYFISEEVTRSLKNFSLLFALMRVAR 238 (393)
Q Consensus 165 ~h~LS~Elq~-yf~~It~a~~~~-~~~~~~~~aL~sL~tD---~gL-~~LlPy~~~fi~e~v~~nl~nl~~L~~ll~~v~ 238 (393)
...||.|... +++..++++... .++.....+|..|+.- +.+ ..-.|--+-.+-..+...++.......-+.+++
T Consensus 80 ~~~l~~d~~~~~i~~~i~~l~~~~~~K~i~~~~l~~ls~Q~f~~~~~~~~~~~~l~~~l~~i~~~~~s~si~~erL~i~~ 159 (372)
T PF12231_consen 80 VSTLSDDFASFIIDHSIESLQNPNSPKSICTHYLWCLSDQKFSPKIMTSDRVERLLAALHNIKNRFPSKSIISERLNIYK 159 (372)
T ss_pred HhhCChHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcCCCCCcccchhhHHHHHHHHHHhhccCCchhHHHHHHHHHH
Confidence 3458888888 678888876443 3334445566666542 111 222222222223333333444455555566666
Q ss_pred HhhcCCCcccccchhhhHHHHHHHHhccccCCCCCCcchHHHHHHHHHHHHHHHHcCCCch-----------------hh
Q 016189 239 SLLRNPHIHIEPYLHQMMPSVITCLVSKRLGNRFSDNHWDLRNFVADLIASICTRFGHVYQ-----------------NL 301 (393)
Q Consensus 239 ALl~N~~l~ie~YlHqLlpslltcll~k~l~~~~~~~h~~LR~~AA~lL~~I~~~~~~~y~-----------------~L 301 (393)
-|+.+---.+-...+.-+|.+++++++..- .+|..|..++..+..-.+. .. ++
T Consensus 160 ~ll~q~p~~M~~~~~~W~~~l~~~l~~~~k---------~ir~~a~~l~~~~~~~l~~-~~~~s~~~~~~~~~~~~~~~~ 229 (372)
T PF12231_consen 160 RLLSQFPQQMIKHADIWFPILFPDLLSSAK---------DIRTKAISLLLEAKKCLGP-NKELSKSVLEDLQRSLENGKL 229 (372)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcch---------HHHHHHHHHHHHHHHHhCh-hHHHHHHHHHHhccccccccH
Confidence 666665555666688889999999887411 5677766666555544332 11 12
Q ss_pred HHHHHHHHHHHhcC--CCCCchhHhHHHHHHHhhCHHhHHHhcccchHHHHHhhhHhHhhhhhhhhhHHHHHHHHHhHhh
Q 016189 302 QSRVTRTLLHAFLD--PTKSLSQHYGAIQGLAALGPSVVHLLILPNLELYLKFLEPEMLLEKQKNEMKRHEAWRVYGALQ 379 (393)
Q Consensus 302 ~~Ri~~~l~k~l~d--~~~~l~t~YGAi~GL~~lG~~~vr~~ilP~l~~~~~~l~~~l~~~~~~~~~~~~~a~~v~~~l~ 379 (393)
-.-+.+.+.+.+.+ ..+.-....|++++|. |...++. .++++.++.-.|..... ++...|.+|..+-..|+
T Consensus 230 ~~~~~~~L~~mi~~~~~~~~a~~iW~~~i~LL--~~~~~~~--w~~~n~wL~v~e~cFn~---~d~~~k~~A~~aW~~li 302 (372)
T PF12231_consen 230 IQLYCERLKEMIKSKDEYKLAMQIWSVVILLL--GSSRLDS--WEHLNEWLKVPEKCFNS---SDPQVKIQAFKAWRRLI 302 (372)
T ss_pred HHHHHHHHHHHHhCcCCcchHHHHHHHHHHHh--CCchhhc--cHhHhHHHHHHHHHhcC---CCHHHHHHHHHHHHHHH
Confidence 22233345555555 2234556889999987 6555443 58888888888877643 44567788877777776
Q ss_pred hhhh
Q 016189 380 VDFF 383 (393)
Q Consensus 380 ~a~~ 383 (393)
-++.
T Consensus 303 y~~~ 306 (372)
T PF12231_consen 303 YASN 306 (372)
T ss_pred HHhc
Confidence 6443
No 178
>cd00155 RasGEF Guanine nucleotide exchange factor for Ras-like small GTPases. Small GTP-binding proteins of the Ras superfamily function as molecular switches in fundamental events such as signal transduction, cytoskeleton dynamics and intracellular trafficking. Guanine-nucleotide-exchange factors (GEFs) positively regulate these GTP-binding proteins in response to a variety of signals. GEFs catalyze the dissociation of GDP from the inactive GTP-binding proteins. GTP can then bind and induce structural changes that allow interaction with effectors.
Probab=31.67 E-value=1.9e+02 Score=26.88 Aligned_cols=73 Identities=23% Similarity=0.385 Sum_probs=45.2
Q ss_pred cCcHHHHHHHHHHHHHhhcCCchHHHHHHHHhhhhcCCcccchhhHHHHHHHHHhh----------ccCChHHHHHHHHH
Q 016189 167 VLSKELQLYFDKIRELTVSRSNSTVFKQALLSLAMDSGLHPLVPYFTYFISEEVTR----------SLKNFSLLFALMRV 236 (393)
Q Consensus 167 ~LS~Elq~yf~~It~a~~~~~~~~~~~~aL~sL~tD~gL~~LlPy~~~fi~e~v~~----------nl~nl~~L~~ll~~ 236 (393)
.++.+.+.+|+++.+.+...++-...+.++++.. .-.+.+||+.-|+.+-+.. .+-|..++..+.++
T Consensus 118 ~l~~~~~~~~~~l~~l~~~~~n~~~yr~~l~~~~---~~~p~IP~lg~~l~dl~~~~e~~~~~~~~~~iN~~K~~~i~~~ 194 (237)
T cd00155 118 VLSSKLKKLFEELEELVDPSRNFKNYRKLLKSVG---PNPPCVPFLGVYLKDLTFLHEGNPDFLEGNLVNFEKRRKIAEI 194 (237)
T ss_pred HCCHHHHHHHHHHHHHhCcHhhHHHHHHHHHhcC---CCCCCeeehhHHHHHHHHHHccCCccCcCCCccHHHHHHHHHH
Confidence 4788889999999987654334444566776654 1236677777777664332 22356666666655
Q ss_pred HHHhhc
Q 016189 237 ARSLLR 242 (393)
Q Consensus 237 v~ALl~ 242 (393)
++.+..
T Consensus 195 i~~~~~ 200 (237)
T cd00155 195 LREIRQ 200 (237)
T ss_pred HHHHHH
Confidence 555543
No 179
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=31.63 E-value=1.1e+02 Score=33.13 Aligned_cols=57 Identities=12% Similarity=0.144 Sum_probs=43.3
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhh
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALN 66 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~ 66 (393)
.++.+++.-|+ .+++++++.|+.-.+-.+|..+...-+.+..+ ..++|.+||..++-
T Consensus 186 ~L~~i~~~egi-~i~~~al~~ia~~s~G~~R~al~~Ldq~~~~~-~~~It~~~V~~vlg 242 (559)
T PRK05563 186 RLKYILDKEGI-EYEDEALRLIARAAEGGMRDALSILDQAISFG-DGKVTYEDALEVTG 242 (559)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-cCCCCHHHHHHHhC
Confidence 45667778899 59999999999988777777666655555544 56899999998773
No 180
>PF14500 MMS19_N: Dos2-interacting transcription regulator of RNA-Pol-II
Probab=31.56 E-value=4.6e+02 Score=25.41 Aligned_cols=118 Identities=12% Similarity=0.091 Sum_probs=68.5
Q ss_pred CchHHHHHHH-------HhhhhcCCcccchhhHHHHHHHHHhhccCChHHHHHHHHHHHHhhcCCCcccccchhhhHHHH
Q 016189 187 SNSTVFKQAL-------LSLAMDSGLHPLVPYFTYFISEEVTRSLKNFSLLFALMRVARSLLRNPHIHIEPYLHQMMPSV 259 (393)
Q Consensus 187 ~~~~~~~~aL-------~sL~tD~gL~~LlPy~~~fi~e~v~~nl~nl~~L~~ll~~v~ALl~N~~l~ie~YlHqLlpsl 259 (393)
+|...|..|+ +.+..|.=-.+=+..++.|+.+.+ .|...+...++-+.||+..+++.-+- ... +
T Consensus 11 ed~~~R~ka~~~Ls~vL~~lp~~~L~~~ev~~L~~F~~~rl----~D~~~~~~~l~gl~~L~~~~~~~~~~-~~~----i 81 (262)
T PF14500_consen 11 EDPIIRAKALELLSEVLERLPPDFLSRQEVQVLLDFFCSRL----DDHACVQPALKGLLALVKMKNFSPES-AVK----I 81 (262)
T ss_pred CCHHHHHHHHHHHHHHHHhCCHhhccHHHHHHHHHHHHHHh----ccHhhHHHHHHHHHHHHhCcCCChhh-HHH----H
Confidence 4445566554 333333322334556666666554 56677777788889999887754443 333 3
Q ss_pred HHHHhccccCCCCCCcchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcCC
Q 016189 260 ITCLVSKRLGNRFSDNHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLDP 316 (393)
Q Consensus 260 ltcll~k~l~~~~~~~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~ 316 (393)
+.-+....-. ...--.-|...=+++..+..+|.....++-+-.+..+.+..-.+
T Consensus 82 ~~~l~~~~~~---q~~~q~~R~~~~~ll~~l~~~~~~~l~~~~~~fv~~~i~~~~gE 135 (262)
T PF14500_consen 82 LRSLFQNVDV---QSLPQSTRYAVYQLLDSLLENHREALQSMGDDFVYGFIQLIDGE 135 (262)
T ss_pred HHHHHHhCCh---hhhhHHHHHHHHHHHHHHHHHhHHHHHhchhHHHHHHHHHhccC
Confidence 3333322111 11223568888888888888877666666666777777764433
No 181
>KOG3547 consensus Bestrophin (Best vitelliform macular dystrophy-associated protein) [General function prediction only]
Probab=31.32 E-value=66 Score=33.86 Aligned_cols=68 Identities=15% Similarity=0.204 Sum_probs=55.4
Q ss_pred cccCcHHHHHHHHHHHHHhhcCCchHHHHHHHHhhhhcCCcccchhhHHHHHHHHHhhccCChHHHHHHHHHHHHhhcCC
Q 016189 165 KHVLSKELQLYFDKIRELTVSRSNSTVFKQALLSLAMDSGLHPLVPYFTYFISEEVTRSLKNFSLLFALMRVARSLLRNP 244 (393)
Q Consensus 165 ~h~LS~Elq~yf~~It~a~~~~~~~~~~~~aL~sL~tD~gL~~LlPy~~~fi~e~v~~nl~nl~~L~~ll~~v~ALl~N~ 244 (393)
+..|++++|.+|++++.-|-+..+. - =|..+|-|||..|.+.-.....|+.-...++.++-+.+...
T Consensus 51 R~~l~~~qq~~Fe~~~~~~d~~~~~------------i-PLtFmLGFfVt~Vv~RW~~~f~nig~id~~a~~vs~~i~g~ 117 (450)
T KOG3547|consen 51 RFALTESQQETFEKFVMYCDSRLDF------------I-PLTFMLGFFVTIVVDRWWKQFRNIGWIDNLALLVSAYIPGT 117 (450)
T ss_pred HHhcCHHHHHHHHHHHHHHhccccc------------c-cchHhhhhhHHHHHHHHHHHHhccCchHHHHHHHHHHccCC
Confidence 4579999999999999887533221 1 47889999999999998888889999999999999999884
Q ss_pred C
Q 016189 245 H 245 (393)
Q Consensus 245 ~ 245 (393)
.
T Consensus 118 d 118 (450)
T KOG3547|consen 118 D 118 (450)
T ss_pred c
Confidence 4
No 182
>COG5096 Vesicle coat complex, various subunits [Intracellular trafficking and secretion]
Probab=31.15 E-value=8.2e+02 Score=27.70 Aligned_cols=145 Identities=14% Similarity=0.216 Sum_probs=84.2
Q ss_pred cHHHHHHHHHHHHHhhcCCchHHHHHHHHhhhhcCCcccchhhHHHHHHHHHhhccCC--hHHHHHHHHHHHHhhcCCCc
Q 016189 169 SKELQLYFDKIRELTVSRSNSTVFKQALLSLAMDSGLHPLVPYFTYFISEEVTRSLKN--FSLLFALMRVARSLLRNPHI 246 (393)
Q Consensus 169 S~Elq~yf~~It~a~~~~~~~~~~~~aL~sL~tD~gL~~LlPy~~~fi~e~v~~nl~n--l~~L~~ll~~v~ALl~N~~l 246 (393)
-+.++.||-+|++.+. ..|.++++-..-=|..-|..+| -.+.-....+.+-+.+ -..-...||..- .+
T Consensus 50 G~dmssLf~dViK~~~-trd~ElKrL~ylYl~~yak~~P---~~~lLavNti~kDl~d~N~~iR~~AlR~ls------~l 119 (757)
T COG5096 50 GEDMSSLFPDVIKNVA-TRDVELKRLLYLYLERYAKLKP---ELALLAVNTIQKDLQDPNEEIRGFALRTLS------LL 119 (757)
T ss_pred CCChHHHHHHHHHHHH-hcCHHHHHHHHHHHHHHhccCH---HHHHHHHHHHHhhccCCCHHHHHHHHHHHH------hc
Confidence 3457888888888877 4555555544333444444443 4444444444444433 222223444442 23
Q ss_pred ccccchhhhHHHHHHHHhccccCCCCCCcchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcCCCCCchhHhHH
Q 016189 247 HIEPYLHQMMPSVITCLVSKRLGNRFSDNHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGA 326 (393)
Q Consensus 247 ~ie~YlHqLlpslltcll~k~l~~~~~~~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~~~~l~t~YGA 326 (393)
....-+-++++++..|+ .+.|=..|..||-.+..+.+.=.+-|+.+- .--..+.+.. +.+....=-|
T Consensus 120 ~~~el~~~~~~~ik~~l---------~d~~ayVRk~Aalav~kly~ld~~l~~~~g---~~~~l~~l~~-D~dP~Vi~nA 186 (757)
T COG5096 120 RVKELLGNIIDPIKKLL---------TDPHAYVRKTAALAVAKLYRLDKDLYHELG---LIDILKELVA-DSDPIVIANA 186 (757)
T ss_pred ChHHHHHHHHHHHHHHc---------cCCcHHHHHHHHHHHHHHHhcCHhhhhccc---HHHHHHHHhh-CCCchHHHHH
Confidence 44455667777888885 345669999999999999865444444431 2223344442 3555566788
Q ss_pred HHHHHhhCHH
Q 016189 327 IQGLAALGPS 336 (393)
Q Consensus 327 i~GL~~lG~~ 336 (393)
+.+|..+-++
T Consensus 187 l~sl~~i~~e 196 (757)
T COG5096 187 LASLAEIDPE 196 (757)
T ss_pred HHHHHHhchh
Confidence 9999988887
No 183
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=31.04 E-value=58 Score=27.78 Aligned_cols=26 Identities=12% Similarity=0.364 Sum_probs=21.6
Q ss_pred HHHHHHHcCCCchhhHHHHHHHHHHH
Q 016189 287 IASICTRFGHVYQNLQSRVTRTLLHA 312 (393)
Q Consensus 287 L~~I~~~~~~~y~~L~~Ri~~~l~k~ 312 (393)
|..+-+.+|-|||++|.|+-+.+.+.
T Consensus 52 lKe~e~~lgiSYPTvR~rLd~ii~~l 77 (113)
T PF09862_consen 52 LKEMEKELGISYPTVRNRLDKIIEKL 77 (113)
T ss_pred HHHHHHHHCCCcHHHHHHHHHHHHHh
Confidence 45677899999999999988877664
No 184
>KOG0213 consensus Splicing factor 3b, subunit 1 [RNA processing and modification]
Probab=30.57 E-value=2e+02 Score=32.50 Aligned_cols=98 Identities=20% Similarity=0.167 Sum_probs=70.9
Q ss_pred cchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcCCCCCchhHhHHHHHHHhhCHHhHHHhcccchHHHHHhhh
Q 016189 275 NHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAALGPSVVHLLILPNLELYLKFLE 354 (393)
Q Consensus 275 ~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~lG~~~vr~~ilP~l~~~~~~l~ 354 (393)
..-.+|.-.|+..+-+++.+|- |.|- -|++++...++|...+--.|.....++--.=+. ++||++...+-|+
T Consensus 488 ~deYVRnttarafavvasalgi--p~ll-----pfLkavc~SkkSwqaRhTgIkivqqIail~Gcs-vlphl~~lv~ii~ 559 (1172)
T KOG0213|consen 488 KDEYVRNTTARAFAVVASALGI--PALL-----PFLKAVCGSKKSWQARHTGIKIVQQIAILSGCS-VLPHLKPLVKIIE 559 (1172)
T ss_pred ccHHHHHHHHHHHHHHHHHhCc--HHHH-----HHHHHHhccccchhhhchhhHHHHHHHHHhcch-hhhhhHHHHHHHH
Confidence 4557999999999999999885 5444 467777877878776666666655554433333 5899999999999
Q ss_pred HhHhhhhhhhhhHHHHHHHHHhHhhhhhh
Q 016189 355 PEMLLEKQKNEMKRHEAWRVYGALQVDFF 383 (393)
Q Consensus 355 ~~l~~~~~~~~~~~~~a~~v~~~l~~a~~ 383 (393)
..+.++. .-+|..+.....||-.|++
T Consensus 560 ~gl~De~---qkVR~itAlalsalaeaa~ 585 (1172)
T KOG0213|consen 560 HGLKDEQ---QKVRTITALALSALAEAAT 585 (1172)
T ss_pred Hhhcccc---hhhhhHHHHHHHHHHHhcC
Confidence 8886643 3457777777777776654
No 185
>COG5181 HSH155 U2 snRNP spliceosome subunit [RNA processing and modification]
Probab=30.29 E-value=4.6e+02 Score=29.19 Aligned_cols=121 Identities=21% Similarity=0.258 Sum_probs=0.0
Q ss_pred cchhhhHHHHHHHHhccccCCCCCCcchHHHHHHHHHHHHHH---HHcCCCchhhHHHHHHHHHHHhcCCCCC--chhHh
Q 016189 250 PYLHQMMPSVITCLVSKRLGNRFSDNHWDLRNFVADLIASIC---TRFGHVYQNLQSRVTRTLLHAFLDPTKS--LSQHY 324 (393)
Q Consensus 250 ~YlHqLlpslltcll~k~l~~~~~~~h~~LR~~AA~lL~~I~---~~~~~~y~~L~~Ri~~~l~k~l~d~~~~--l~t~Y 324 (393)
||+.+|+..+|.-+=+|.- ..|..||++++.+. +.||. ..+-..+-..|-.- ++..-| +++..
T Consensus 600 p~l~~ivStiL~~L~~k~p---------~vR~~aadl~~sl~~vlk~c~e--~~~l~klg~iLyE~-lge~ypEvLgsil 667 (975)
T COG5181 600 PHLSMIVSTILKLLRSKPP---------DVRIRAADLMGSLAKVLKACGE--TKELAKLGNILYEN-LGEDYPEVLGSIL 667 (975)
T ss_pred cchHHHHHHHHHHhcCCCc---------cHHHHHHHHHHHHHHHHHhcch--HHHHHHHhHHHHHh-cCcccHHHHHHHH
Q ss_pred HHHHHHHhh-CHH----hHHHhcccchHHHHHhhhHhHhhhhh--------------------------------hhhhH
Q 016189 325 GAIQGLAAL-GPS----VVHLLILPNLELYLKFLEPEMLLEKQ--------------------------------KNEMK 367 (393)
Q Consensus 325 GAi~GL~~l-G~~----~vr~~ilP~l~~~~~~l~~~l~~~~~--------------------------------~~~~~ 367 (393)
||++++.+- |-. -++.+ +|.|-.++..=.+.+..+.. -|.-.
T Consensus 668 ~Ai~~I~sv~~~~~mqpPi~~i-lP~ltPILrnkh~Kv~~nti~lvg~I~~~~peyi~~rEWMRIcfeLvd~Lks~nKei 746 (975)
T COG5181 668 KAICSIYSVHRFRSMQPPISGI-LPSLTPILRNKHQKVVANTIALVGTICMNSPEYIGVREWMRICFELVDSLKSWNKEI 746 (975)
T ss_pred HHHHHHhhhhcccccCCchhhc-cccccHhhhhhhHHHhhhHHHHHHHHHhcCcccCCHHHHHHHHHHHHHHHHHhhHHH
Q ss_pred HHHHHHHHhHhhhhhh
Q 016189 368 RHEAWRVYGALQVDFF 383 (393)
Q Consensus 368 ~~~a~~v~~~l~~a~~ 383 (393)
|--|..-.|-+-.|+|
T Consensus 747 RR~A~~tfG~Is~aiG 762 (975)
T COG5181 747 RRNATETFGCISRAIG 762 (975)
T ss_pred HHhhhhhhhhHHhhcC
No 186
>smart00147 RasGEF Guanine nucleotide exchange factor for Ras-like small GTPases.
Probab=30.22 E-value=2e+02 Score=26.95 Aligned_cols=71 Identities=21% Similarity=0.359 Sum_probs=45.4
Q ss_pred cCcHHHHHHHHHHHHHhhcCCchHHHHHHHHhhhhcCCcccchhhHHHHHHHHHhhc------c----CChHHHHHHHHH
Q 016189 167 VLSKELQLYFDKIRELTVSRSNSTVFKQALLSLAMDSGLHPLVPYFTYFISEEVTRS------L----KNFSLLFALMRV 236 (393)
Q Consensus 167 ~LS~Elq~yf~~It~a~~~~~~~~~~~~aL~sL~tD~gL~~LlPy~~~fi~e~v~~n------l----~nl~~L~~ll~~ 236 (393)
.++.+....|+++.+.+...++-...++++++... .+.+||+--|+.+-+... . -|+.++..+.++
T Consensus 118 ~l~~~~~~~~~~L~~l~s~~~n~~~yR~~l~~~~~----~p~IP~lg~~l~dl~~~~~~~~~~~~~~~iNf~k~~~i~~~ 193 (242)
T smart00147 118 KLPSKYKKLFEELEELLSPERNFKNYREALSSCNL----PPCVPFLGVLLKDLTFIDEGNPDFLENGLVNFEKRRKIAEI 193 (242)
T ss_pred HCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhcCC----CCCccchHHHHHHHHHHHccCcccccCCcccHHHHHHHHHH
Confidence 47888889999988865443333344556655532 789999998887754321 1 256666666666
Q ss_pred HHHhh
Q 016189 237 ARSLL 241 (393)
Q Consensus 237 v~ALl 241 (393)
++.+.
T Consensus 194 i~~~~ 198 (242)
T smart00147 194 LREIR 198 (242)
T ss_pred HHHHH
Confidence 65554
No 187
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=30.14 E-value=77 Score=35.19 Aligned_cols=61 Identities=13% Similarity=0.192 Sum_probs=47.9
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCC
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRNV 70 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~ni 70 (393)
.++.+++.-|+ .++++++..|++...-.+|.++...-+.+..+ ++.+|.+||...+-..+-
T Consensus 185 ~L~~Il~kEgI-~id~eAL~~IA~~S~GdLRdALnLLDQaIayg-~g~IT~edV~~lLG~~d~ 245 (702)
T PRK14960 185 HLGAILEKEQI-AADQDAIWQIAESAQGSLRDALSLTDQAIAYG-QGAVHHQDVKEMLGLIDR 245 (702)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-CCCcCHHHHHHHhccCCH
Confidence 45667788898 59999999999999888888888766656554 678999999887655443
No 188
>PF04695 Pex14_N: Peroxisomal membrane anchor protein (Pex14p) conserved region; InterPro: IPR006785 This conserved region defines a group of peroxisomal membrane anchor proteins which bind the PTS1 (peroxisomal targeting signal) receptor and are required for the import of PTS1-containing proteins into peroxisomes. Loss of functional Pex14p results in defects in both the PTS1 and PTS2-dependent import pathways. Deletion analysis of this conserved region implicates it in selective peroxisome degradation. In the majority of members this region is situated at the N terminus of the protein [, ].; GO: 0005777 peroxisome, 0016020 membrane; PDB: 2W85_A 2W84_A 3FF5_B.
Probab=30.14 E-value=30 Score=30.17 Aligned_cols=35 Identities=23% Similarity=0.482 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHhC--------------CCccCHhhHHHHhhhcCCCC
Q 016189 38 REIMQEAIKCMRHAH--------------RTVLTANDVDSALNLRNVEP 72 (393)
Q Consensus 38 ~~iiq~a~k~~~hsk--------------R~~Lt~~Di~~Al~~~niep 72 (393)
.++|+.|++|++|-+ .|-||.+||+.||+..+-.+
T Consensus 3 e~li~~A~~FL~~p~V~~sp~~~k~~FL~sKGLt~~EI~~al~~a~~~~ 51 (136)
T PF04695_consen 3 EDLIEQAVKFLQDPKVRNSPLEKKIAFLESKGLTEEEIDEALGRAGSPP 51 (136)
T ss_dssp HHHHHHHHHHHCTTTCCCS-HHHHHHHHHHCT--HHHHHHHHHHHT--S
T ss_pred HHHHHHHHHHhCCcccccCCHHHHHHHHHcCCCCHHHHHHHHHhcCCcc
Confidence 367888888888764 24799999999999876654
No 189
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=30.13 E-value=2e+02 Score=31.71 Aligned_cols=58 Identities=16% Similarity=0.192 Sum_probs=45.6
Q ss_pred HHHHHHHc----CCCCCCHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHhCCCccCHhhHHHHhh
Q 016189 9 IEVIAQSI----GVYNLSSDVALALAPDVE-------------YRVREIMQEAIKCMRHAHRTVLTANDVDSALN 66 (393)
Q Consensus 9 i~~iaes~----G~~~ls~~~a~~La~dve-------------~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~ 66 (393)
++.+++.+ +...+++++...|.+.-. ..|.+++++|..+++..+++.++.+||..|.+
T Consensus 324 ~~~iaqe~~~~G~l~~f~~eAVa~LI~~~~R~ag~r~~lsl~~~~l~~l~r~a~~~a~~~~~~~i~~~~v~~a~~ 398 (637)
T PRK13765 324 VRFVAQEVKRDGKIPHFDRDAVEEIIREAKRRAGRKGHLTLKLRDLGGLVRVAGDIARSEGAELTTAEHVLEAKK 398 (637)
T ss_pred HHHHHHHhhhccCCCCCCHHHHHHHHHHHHHHhCCccccccCHHHHHHHHHHHHHHHHhhccceecHHHHHHHHH
Confidence 34456555 345789999888887654 23667999999999999999999999999973
No 190
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=29.69 E-value=1.7e+02 Score=27.00 Aligned_cols=57 Identities=12% Similarity=0.138 Sum_probs=41.0
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHH---HHHHHHHHHHHhCCCccCHhhHHHHhh
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVRE---IMQEAIKCMRHAHRTVLTANDVDSALN 66 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~---iiq~a~k~~~hskR~~Lt~~Di~~Al~ 66 (393)
.++.++...|+ .+++++.+.|+....--+++ +++.-..++...| +++|-..++.+|.
T Consensus 165 ~l~~~~~~~~v-~l~~~al~~L~~~~~gn~~~l~~~l~~l~~~~~~~~-~~i~~~~~~~~l~ 224 (227)
T PRK08903 165 ALKAAAAERGL-QLADEVPDYLLTHFRRDMPSLMALLDALDRYSLEQK-RPVTLPLLREMLA 224 (227)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhC-CCCCHHHHHHHHh
Confidence 34455667888 59999999999976544444 6666555555666 5899999988874
No 191
>KOG0567 consensus HEAT repeat-containing protein [General function prediction only]
Probab=28.75 E-value=55 Score=32.18 Aligned_cols=73 Identities=21% Similarity=0.248 Sum_probs=44.8
Q ss_pred HHHHHHHHhcCCCCCchhHhHHHHHHHhhCH-HhHHHhcccchHHHHHhh--------------------hHhHhhhhhh
Q 016189 305 VTRTLLHAFLDPTKSLSQHYGAIQGLAALGP-SVVHLLILPNLELYLKFL--------------------EPEMLLEKQK 363 (393)
Q Consensus 305 i~~~l~k~l~d~~~~l~t~YGAi~GL~~lG~-~~vr~~ilP~l~~~~~~l--------------------~~~l~~~~~~ 363 (393)
.+.++.+.|-|++.++..+|-|+.-|..+|. .+++..- -....=.+.+ ...+.++ ..
T Consensus 4 ~i~~i~~~L~~~s~~l~~r~rALf~Lr~l~~~~~i~~i~-ka~~d~s~llkhe~ay~LgQ~~~~~Av~~l~~vl~de-sq 81 (289)
T KOG0567|consen 4 EIETIGNILVNKSQPLQNRFRALFNLRNLLGPAAIKAIT-KAFIDDSALLKHELAYVLGQMQDEDAVPVLVEVLLDE-SQ 81 (289)
T ss_pred HHHHHHHHHcCccHHHHHHHHHHHhhhccCChHHHHHHH-HhcccchhhhccchhhhhhhhccchhhHHHHHHhccc-cc
Confidence 4567778888888888888998888888844 4443321 1111111111 1112222 24
Q ss_pred hhhHHHHHHHHHhHhh
Q 016189 364 NEMKRHEAWRVYGALQ 379 (393)
Q Consensus 364 ~~~~~~~a~~v~~~l~ 379 (393)
..+.|+||-.+.|++.
T Consensus 82 ~pmvRhEAaealga~~ 97 (289)
T KOG0567|consen 82 EPMVRHEAAEALGAIG 97 (289)
T ss_pred chHHHHHHHHHHHhhc
Confidence 4678999999999987
No 192
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=28.63 E-value=1.7e+02 Score=28.91 Aligned_cols=63 Identities=19% Similarity=0.274 Sum_probs=44.0
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHH---HHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCCC
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYR---VREIMQEAIKCMRHAHRTVLTANDVDSALNLRNVE 71 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~r---l~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~nie 71 (393)
-++..++..|+ .++++++..|++...-. +..+++.+..++...+..+++.+++..++...++.
T Consensus 188 il~~~~~~~~~-~~~~~~~~~ia~~~~G~pR~a~~~l~~~~~~a~~~~~~~I~~~~v~~~l~~~~~~ 253 (328)
T PRK00080 188 IVKRSARILGV-EIDEEGALEIARRSRGTPRIANRLLRRVRDFAQVKGDGVITKEIADKALDMLGVD 253 (328)
T ss_pred HHHHHHHHcCC-CcCHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhCCC
Confidence 34556677788 59999999999877443 44555555555544455689999999999775443
No 193
>COG5064 SRP1 Karyopherin (importin) alpha [Intracellular trafficking and secretion]
Probab=28.19 E-value=2.6e+02 Score=28.73 Aligned_cols=168 Identities=24% Similarity=0.311 Sum_probs=91.2
Q ss_pred CcHHHHHH--HHHHHHHhhcCCchH------HHHHHHHhhhhcCCccc-----chhhHHHHHHHHHhhccCChHHHHHHH
Q 016189 168 LSKELQLY--FDKIRELTVSRSNST------VFKQALLSLAMDSGLHP-----LVPYFTYFISEEVTRSLKNFSLLFALM 234 (393)
Q Consensus 168 LS~Elq~y--f~~It~a~~~~~~~~------~~~~aL~sL~tD~gL~~-----LlPy~~~fi~e~v~~nl~nl~~L~~ll 234 (393)
.+.|+|+| |-++|..+.+.+-++ .|+. +-|-++.|-+++ .+|+|+.|.-+ +-+++..+
T Consensus 63 i~meqq~~~elp~lt~~l~SdDie~q~qav~kFR~-~LS~E~~PPIq~VIdaGvVpRfvefm~~----~q~~mlqf---- 133 (526)
T COG5064 63 IPMEQQFYSELPQLTQQLFSDDIEQQLQAVYKFRK-LLSKETSPPIQPVIDAGVVPRFVEFMDE----IQRDMLQF---- 133 (526)
T ss_pred CchhHHhhhhhHHHHHHHhhhHHHHHHHHHHHHHH-HhccccCCCchhHHhccccHHHHHHHHh----cchhHHHH----
Confidence 66777766 566677766432221 1222 335678888876 57999998852 22333322
Q ss_pred HHHHHhhc-------CCCcccccchhhhHHHHHHHHhccccCCCCCCcchHHHHHHHHHHHHHHH-HcCCCchhhHHHHH
Q 016189 235 RVARSLLR-------NPHIHIEPYLHQMMPSVITCLVSKRLGNRFSDNHWDLRNFVADLIASICT-RFGHVYQNLQSRVT 306 (393)
Q Consensus 235 ~~v~ALl~-------N~~l~ie~YlHqLlpslltcll~k~l~~~~~~~h~~LR~~AA~lL~~I~~-~~~~~y~~L~~Ri~ 306 (393)
..++||.. -.++-++- --+|-++..+.+. .-++|+.|-=-|+.|.- .-+-...-|+.-.+
T Consensus 134 EAaWalTNiaSGtt~QTkvVvd~---~AVPlfiqlL~s~---------~~~V~eQavWALGNiAGDS~~~RD~vL~~gal 201 (526)
T COG5064 134 EAAWALTNIASGTTQQTKVVVDA---GAVPLFIQLLSST---------EDDVREQAVWALGNIAGDSEGCRDYVLQCGAL 201 (526)
T ss_pred HHHHHHhhhccCcccceEEEEeC---CchHHHHHHHcCc---------hHHHHHHHHHHhccccCCchhHHHHHHhcCch
Confidence 33444431 11222221 1244444443222 22677777777766641 11111123445556
Q ss_pred HHHHHHhcCCCCCchhHhHHHHHHHhh--CH------HhHHHhcccchHHHHHhhhHhH
Q 016189 307 RTLLHAFLDPTKSLSQHYGAIQGLAAL--GP------SVVHLLILPNLELYLKFLEPEM 357 (393)
Q Consensus 307 ~~l~k~l~d~~~~l~t~YGAi~GL~~l--G~------~~vr~~ilP~l~~~~~~l~~~l 357 (393)
..++..|+.....+...-.|-+.|+.| |. ..++. .+|-|....-..+++.
T Consensus 202 eplL~ll~ss~~~ismlRn~TWtLSNlcRGknP~P~w~~isq-alpiL~KLiys~D~ev 259 (526)
T COG5064 202 EPLLGLLLSSAIHISMLRNATWTLSNLCRGKNPPPDWSNISQ-ALPILAKLIYSRDPEV 259 (526)
T ss_pred HHHHHHHHhccchHHHHHHhHHHHHHhhCCCCCCCchHHHHH-HHHHHHHHHhhcCHHH
Confidence 677777775455577788888999988 43 24443 3677766665555554
No 194
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=28.05 E-value=1.4e+02 Score=32.43 Aligned_cols=59 Identities=10% Similarity=0.105 Sum_probs=45.5
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhc
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLR 68 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~ 68 (393)
.++.+++.-|+ .++++++..|++-..-.+|.++...-+.+..++ +++|.+||..++...
T Consensus 186 ~L~~i~~~egi-~id~eAl~lLa~~s~GdlR~alslLdklis~~~-~~It~e~V~~llg~~ 244 (563)
T PRK06647 186 MLKKVCLEDQI-KYEDEALKWIAYKSTGSVRDAYTLFDQVVSFSD-SDITLEQIRSKMGLT 244 (563)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHhhcC-CCCCHHHHHHHhCCC
Confidence 45667777788 499999999999888878877777766666555 569999999887543
No 195
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=27.42 E-value=1.5e+02 Score=32.46 Aligned_cols=55 Identities=9% Similarity=0.135 Sum_probs=42.5
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHH
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSA 64 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~A 64 (393)
.++.+++.-|+ .++++++..|++-..-.+|.+++..-+.+..++.. +|.+||...
T Consensus 186 ~L~~il~kegi-~Is~eal~~La~lS~GdlR~AlnlLekL~~y~~~~-It~e~V~el 240 (605)
T PRK05896 186 LLKSIAKKEKI-KIEDNAIDKIADLADGSLRDGLSILDQLSTFKNSE-IDIEDINKT 240 (605)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHcCCcHHHHHHHHHHHHhhcCCC-CCHHHHHHH
Confidence 44566667787 59999999999998888888888888877776643 888776663
No 196
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=27.18 E-value=1.3e+02 Score=32.56 Aligned_cols=56 Identities=16% Similarity=0.236 Sum_probs=45.5
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHh
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSAL 65 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al 65 (393)
.++.++++-|+ .++++++..|+.-..-.+|..+...-+.+..++ .++|.+||...+
T Consensus 186 ~L~~i~~~egi-~i~~~al~~la~~a~G~lr~al~~Ldqliay~g-~~It~edV~~ll 241 (576)
T PRK14965 186 RLRYIADQEGI-SISDAALALVARKGDGSMRDSLSTLDQVLAFCG-DAVGDDDVAELL 241 (576)
T ss_pred HHHHHHHHhCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc-CCCCHHHHHHHh
Confidence 45567778898 499999999999999888888888777776666 469999998765
No 197
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=27.13 E-value=1.4e+02 Score=32.20 Aligned_cols=58 Identities=10% Similarity=0.146 Sum_probs=46.9
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhh
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNL 67 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~ 67 (393)
.++.+++..|+ .++++++..|++...-.+|.++...-+.+..++ +.+|.+||..++..
T Consensus 186 ~L~~il~~egi-~~e~~Al~~Ia~~s~GdlR~alnlLek~i~~~~-~~It~~~V~~~l~~ 243 (546)
T PRK14957 186 QLKIILAKENI-NSDEQSLEYIAYHAKGSLRDALSLLDQAISFCG-GELKQAQIKQMLGI 243 (546)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc-CCCCHHHHHHHHcc
Confidence 34567777898 599999999999998888888887777766665 68999999998854
No 198
>PF14837 INTS5_N: Integrator complex subunit 5 N-terminus
Probab=27.08 E-value=5.5e+02 Score=24.35 Aligned_cols=133 Identities=17% Similarity=0.194 Sum_probs=72.2
Q ss_pred cCcHHHHHHHHHHHHHhhcCCchHHHHHHHHhhhhcCCc-ccchhhHHHHHHHHHhhccCChHHHHHHHHHHHHhhcCCC
Q 016189 167 VLSKELQLYFDKIRELTVSRSNSTVFKQALLSLAMDSGL-HPLVPYFTYFISEEVTRSLKNFSLLFALMRVARSLLRNPH 245 (393)
Q Consensus 167 ~LS~Elq~yf~~It~a~~~~~~~~~~~~aL~sL~tD~gL-~~LlPy~~~fi~e~v~~nl~nl~~L~~ll~~v~ALl~N~~ 245 (393)
.+..|++.|+.-+.....+.+-.++-+-|+.=|++=|.- +..+=||..-+-|.|..++.+.+.-.. .|..
T Consensus 3 ~~l~~L~~fi~~~~~~~~~~~~~~lvk~al~lL~~lPaaR~AVley~~~vf~eaV~~~~~~~E~~~~---------~~~~ 73 (213)
T PF14837_consen 3 NLLDELKSFIRGVRPCYSNKSVEDLVKCALSLLRSLPAARDAVLEYFGLVFDEAVHLYLSPKENDAQ---------NNKQ 73 (213)
T ss_pred hHHHHHHHHHhcCCcccccccHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHHHHHhhhhc---------cccc
Confidence 356677777776544222222234445688999999987 667778888888888777654442111 3333
Q ss_pred ccc----ccchhhhHHHHHHHHhccccCC-CCCCcchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhc
Q 016189 246 IHI----EPYLHQMMPSVITCLVSKRLGN-RFSDNHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFL 314 (393)
Q Consensus 246 l~i----e~YlHqLlpslltcll~k~l~~-~~~~~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~ 314 (393)
-.. +.=++++.-.+.. .+...-.. .+....|++ ++++.|+.+|...=.--.+.=.+.+++.|+
T Consensus 74 ~~~~~~~~~ai~ei~~~L~~-fv~~npkAWap~i~~Wsl-----~Llgelssk~~~R~~~~~~~~~~e~l~~Wm 141 (213)
T PF14837_consen 74 QQDEADLDEAIQEIHDVLSR-FVEANPKAWAPLISAWSL-----ELLGELSSKYAGRRGVPHSSSLNELLQLWM 141 (213)
T ss_pred CCCCccHHHHHHHHHHHHHH-HHhcCCcccHHHHHHHHH-----HHHHHHHHHhcCCCcccccccHHHHHHHHH
Confidence 333 3334444443333 22221111 012356765 899999999887422111112344555555
No 199
>PRK06893 DNA replication initiation factor; Validated
Probab=27.04 E-value=2e+02 Score=26.84 Aligned_cols=56 Identities=25% Similarity=0.231 Sum_probs=37.8
Q ss_pred HHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHH---HHHHHHHHHhCCCccCHhhHHHHhh
Q 016189 9 IEVIAQSIGVYNLSSDVALALAPDVEYRVREIM---QEAIKCMRHAHRTVLTANDVDSALN 66 (393)
Q Consensus 9 i~~iaes~G~~~ls~~~a~~La~dve~rl~~ii---q~a~k~~~hskR~~Lt~~Di~~Al~ 66 (393)
++..|..-|+ .+++|+...|++..+-.+|.+. +..-+.....+| ++|...+..+|.
T Consensus 170 L~~~a~~~~l-~l~~~v~~~L~~~~~~d~r~l~~~l~~l~~~~~~~~~-~it~~~v~~~L~ 228 (229)
T PRK06893 170 LQRNAYQRGI-ELSDEVANFLLKRLDRDMHTLFDALDLLDKASLQAQR-KLTIPFVKEILG 228 (229)
T ss_pred HHHHHHHcCC-CCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhcCC-CCCHHHHHHHhc
Confidence 4555667787 6999999999999875544443 332222222244 699999998875
No 200
>PF04826 Arm_2: Armadillo-like; InterPro: IPR006911 This entry consists of mammalian proteins of unknown function.
Probab=27.04 E-value=4.9e+02 Score=25.10 Aligned_cols=140 Identities=16% Similarity=0.194 Sum_probs=70.9
Q ss_pred hhcCCchHHHHHH---HHhhhhcCCcccchhhHHHHHHHHHhhccCChHHHHHHHHHHHHhhcCCCcccccchhhhHHHH
Q 016189 183 TVSRSNSTVFKQA---LLSLAMDSGLHPLVPYFTYFISEEVTRSLKNFSLLFALMRVARSLLRNPHIHIEPYLHQMMPSV 259 (393)
Q Consensus 183 ~~~~~~~~~~~~a---L~sL~tD~gL~~LlPy~~~fi~e~v~~nl~nl~~L~~ll~~v~ALl~N~~l~ie~YlHqLlpsl 259 (393)
++...+...+..| |..|+.+..=+..+--++..+.+.+...--|.+.-...+|+...|--. ..-|.++...
T Consensus 62 lL~~p~~~vr~~AL~aL~Nls~~~en~~~Ik~~i~~Vc~~~~s~~lns~~Q~agLrlL~nLtv~------~~~~~~l~~~ 135 (254)
T PF04826_consen 62 LLNDPNPSVREKALNALNNLSVNDENQEQIKMYIPQVCEETVSSPLNSEVQLAGLRLLTNLTVT------NDYHHMLANY 135 (254)
T ss_pred HcCCCChHHHHHHHHHHHhcCCChhhHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHccCCC------cchhhhHHhh
Confidence 4444555555554 455555555444444455555555544323444445566666666432 3334444444
Q ss_pred HHHHhccccCCCCCCcchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcCCCCCchhHhHHHHHHHhhC
Q 016189 260 ITCLVSKRLGNRFSDNHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAALG 334 (393)
Q Consensus 260 ltcll~k~l~~~~~~~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~lG 334 (393)
+.+++. -+.... =..|..+-++|..+...-.....-+..+....|.. |+|.+.+-....-++.-+..++
T Consensus 136 i~~ll~-LL~~G~----~~~k~~vLk~L~nLS~np~~~~~Ll~~q~~~~~~~-Lf~~~~~~~~l~~~l~~~~ni~ 204 (254)
T PF04826_consen 136 IPDLLS-LLSSGS----EKTKVQVLKVLVNLSENPDMTRELLSAQVLSSFLS-LFNSSESKENLLRVLTFFENIN 204 (254)
T ss_pred HHHHHH-HHHcCC----hHHHHHHHHHHHHhccCHHHHHHHHhccchhHHHH-HHccCCccHHHHHHHHHHHHHH
Confidence 444431 111111 15677888888777665333334444444455553 4555555555555555555553
No 201
>KOG0567 consensus HEAT repeat-containing protein [General function prediction only]
Probab=26.95 E-value=90 Score=30.74 Aligned_cols=36 Identities=31% Similarity=0.431 Sum_probs=28.1
Q ss_pred HHHHHHHhcCCCCCchhHhHHHHHHHhhCH-HhHHHh
Q 016189 306 TRTLLHAFLDPTKSLSQHYGAIQGLAALGP-SVVHLL 341 (393)
Q Consensus 306 ~~~l~k~l~d~~~~l~t~YGAi~GL~~lG~-~~vr~~ 341 (393)
+-.+...++|+++++...|-|+-.|...|. ++|..+
T Consensus 156 v~~lr~~lld~t~~l~~Ry~amF~LRn~g~EeaI~al 192 (289)
T KOG0567|consen 156 VHELRAELLDETKPLFERYRAMFYLRNIGTEEAINAL 192 (289)
T ss_pred HHHHHHHHHhcchhHHHHHhhhhHhhccCcHHHHHHH
Confidence 345677889999999999999999999966 455543
No 202
>PF03378 CAS_CSE1: CAS/CSE protein, C-terminus; InterPro: IPR005043 Mammalian cellular apoptosis susceptibility (CAS) proteins and the yeast chromosome-segregation protein, CSE1 are homologous []. CAS is involved in both cellular apoptosis and proliferation [, ]. Apoptosis is inhibited in CAS-depleted cells, while the expression of CAS correlates to the degree of cellular proliferation. Like CSE1, it is essential for the mitotic checkpoint in the cell cycle (CAS depletion blocks the cell in the G2 phase), and has been shown to be associated with the microtubule network and the mitotic spindle [], as is the protein MEK, which is thought to regulate the intracellular localization (predominantly nuclear vs. predominantly cytosolic) of CAS. In the nucleus, CAS acts as a nuclear transport factor in the importin pathway []. The importin pathway mediates the nuclear transport of several proteins that are necessary for mitosis and further progression. CAS is therefore thought to affect the cell cycle through its effect on the nuclear transport of these proteins []. Since apoptosis also requires the nuclear import of several proteins (such as P53 and transcription factors), it has been suggested that CAS also enables apoptosis by facilitating the nuclear import of at least a subset of these essential proteins []. This entry represents the C-terminal portion of these proteins. Structural studies of the yeast CSE1 protein indicate that this domain binds to both the transport-orchestrating protein RanGTP and the cargo molecule that is being exported [].; GO: 0005515 protein binding; PDB: 1Z3H_B 1WA5_C.
Probab=26.89 E-value=3.8e+02 Score=28.04 Aligned_cols=96 Identities=15% Similarity=0.275 Sum_probs=60.5
Q ss_pred ccccchhhhHHHHHHHHhccccCCCCCCcchHHHHHHHHHHHHHHHHcCCC----chhhHHHHHHHHHHHhcCCCCCchh
Q 016189 247 HIEPYLHQMMPSVITCLVSKRLGNRFSDNHWDLRNFVADLIASICTRFGHV----YQNLQSRVTRTLLHAFLDPTKSLSQ 322 (393)
Q Consensus 247 ~ie~YlHqLlpslltcll~k~l~~~~~~~h~~LR~~AA~lL~~I~~~~~~~----y~~L~~Ri~~~l~k~l~d~~~~l~t 322 (393)
.|.|++.+|+-.+...+-... ..+| +|--+++-+++...... ...+-++++..+..+-.+|.+|..+
T Consensus 19 di~p~~~~ll~~Lf~~i~~~~----s~EN-----eylMk~iMRvl~~~~e~~~p~~~~il~~L~~il~~v~kNPsnP~Fn 89 (435)
T PF03378_consen 19 DIQPFAQQLLQNLFALIEKPG----SAEN-----EYLMKCIMRVLSVLQEDILPIAVEILQHLTAILKEVSKNPSNPRFN 89 (435)
T ss_dssp GTTCCHHHHHHHHHHHHHTT-----STC------HHHHHHHHHHHHHSTTTTGGGHHHHHHHHHHHHHHHHTS---HHHH
T ss_pred HhhhhHHHHHHHHHHHHhcCC----Cccc-----hHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhCCCCcchh
Confidence 688999999888888774321 1344 34444555555443333 4678888889999999999999999
Q ss_pred Hh--HHHHHHHhhCH----H---hHHHhcccchHHHHH
Q 016189 323 HY--GAIQGLAALGP----S---VVHLLILPNLELYLK 351 (393)
Q Consensus 323 ~Y--GAi~GL~~lG~----~---~vr~~ilP~l~~~~~ 351 (393)
|| =+|..|..... + .++..++|-+..++.
T Consensus 90 HylFEsi~~lir~~~~~~~~~v~~~E~~L~P~f~~ILq 127 (435)
T PF03378_consen 90 HYLFESIGALIRFVCEADPEAVSQFEEALFPPFQEILQ 127 (435)
T ss_dssp HHHHHHHHHHHHHS-GGGHH---HHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHHHH
Confidence 98 45555554433 3 466777777766653
No 203
>smart00544 MA3 Domain in DAP-5, eIF4G, MA-3 and other proteins. Highly alpha-helical. May contain repeats and/or regions similar to MIF4G domains Ponting (TIBS) "Novel eIF4G domain homologues" in press
Probab=26.80 E-value=3e+02 Score=22.30 Aligned_cols=44 Identities=14% Similarity=0.372 Sum_probs=32.9
Q ss_pred cchhhhHHHHHHHHhccccCCCCCCcchHHHHHHHHHHHHHHHHcCCCchhhH
Q 016189 250 PYLHQMMPSVITCLVSKRLGNRFSDNHWDLRNFVADLIASICTRFGHVYQNLQ 302 (393)
Q Consensus 250 ~YlHqLlpslltcll~k~l~~~~~~~h~~LR~~AA~lL~~I~~~~~~~y~~L~ 302 (393)
.|.|.++-.+++|.+.+. . .-|++.+.++..+|++-.-+-.+++
T Consensus 32 ~~~~~vv~~~i~~~le~~--~-------~~~~~~~~Ll~~L~~~~~~~~~~~~ 75 (113)
T smart00544 32 EQHHEVVKVLLTCALEEK--R-------TYREMYSVLLSRLCQANVISTKQFE 75 (113)
T ss_pred cchHHHHHHHHHHHHcCC--c-------cHHHHHHHHHHHHHHcCCcCHHHHH
Confidence 478899999999998762 1 3499999999999976443333343
No 204
>KOG1248 consensus Uncharacterized conserved protein [Function unknown]
Probab=26.64 E-value=6.6e+02 Score=29.73 Aligned_cols=117 Identities=18% Similarity=0.254 Sum_probs=69.6
Q ss_pred cHHHHHHHHHHHHHhhcCCchHHHH---HHHHh-hhhcCCc--ccchhhHHHHHHHHHhhccCChHHHHHHHHHHHHhh-
Q 016189 169 SKELQLYFDKIRELTVSRSNSTVFK---QALLS-LAMDSGL--HPLVPYFTYFISEEVTRSLKNFSLLFALMRVARSLL- 241 (393)
Q Consensus 169 S~Elq~yf~~It~a~~~~~~~~~~~---~aL~s-L~tD~gL--~~LlPy~~~fi~e~v~~nl~nl~~L~~ll~~v~ALl- 241 (393)
+.-++.|+..|.+.++|. ...... .|+.+ +..-.++ ...++.++.++.--+..+- -+....-+.++..++
T Consensus 780 ~~~lnefl~~Isagl~gd-~~~~~as~Ivai~~il~e~~~~ld~~~l~~li~~V~~~L~s~s--reI~kaAI~fikvlv~ 856 (1176)
T KOG1248|consen 780 SAILNEFLSIISAGLVGD-STRVVASDIVAITHILQEFKNILDDETLEKLISMVCLYLASNS--REIAKAAIGFIKVLVY 856 (1176)
T ss_pred HHHHHHHHHHHHhhhccc-HHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHhcCC--HHHHHHHHHHHHHHHH
Confidence 334677888888887652 211111 12322 2222111 3455555555555555553 333344445554444
Q ss_pred cCCCcccccchhhhHHHHHHHHhccccCCCCCCcchHHHHHHHHHHHHHHHHcCCC
Q 016189 242 RNPHIHIEPYLHQMMPSVITCLVSKRLGNRFSDNHWDLRNFVADLIASICTRFGHV 297 (393)
Q Consensus 242 ~N~~l~ie~YlHqLlpslltcll~k~l~~~~~~~h~~LR~~AA~lL~~I~~~~~~~ 297 (393)
.=|-..+-+|+.+|||+++.- .+ +-.-.+|-..-.++..+|++||..
T Consensus 857 ~~pe~~l~~~~~~LL~sll~l--s~-------d~k~~~r~Kvr~LlekLirkfg~~ 903 (1176)
T KOG1248|consen 857 KFPEECLSPHLEELLPSLLAL--SH-------DHKIKVRKKVRLLLEKLIRKFGAE 903 (1176)
T ss_pred cCCHHHHhhhHHHHHHHHHHH--HH-------hhhHHHHHHHHHHHHHHHHHhCHH
Confidence 346678899999999998873 22 123478999999999999999953
No 205
>PF08064 UME: UME (NUC010) domain; InterPro: IPR012993 This domain is characteristic of UVSB PI-3 kinase, MEI-41 and ESR1 [].; GO: 0004674 protein serine/threonine kinase activity
Probab=26.57 E-value=1.8e+02 Score=24.09 Aligned_cols=70 Identities=14% Similarity=0.179 Sum_probs=44.8
Q ss_pred HHHHHHHhcC--CCCCchhHhHHHHHHHhh---CHHhHHHhcccchHHHHHhhhHhHhhhhhhhhhHHHHHHHHHhHhhh
Q 016189 306 TRTLLHAFLD--PTKSLSQHYGAIQGLAAL---GPSVVHLLILPNLELYLKFLEPEMLLEKQKNEMKRHEAWRVYGALQV 380 (393)
Q Consensus 306 ~~~l~k~l~d--~~~~l~t~YGAi~GL~~l---G~~~vr~~ilP~l~~~~~~l~~~l~~~~~~~~~~~~~a~~v~~~l~~ 380 (393)
+..+...+.| .+++...+==++.||..| |...+. +..+.+...|+..+..+ --|..|-+|..+++.
T Consensus 13 l~~f~~~l~d~~~~~~~~ek~~~l~si~~lI~~~~~~i~----~~~pQI~a~L~sal~~~-----~l~~~al~~W~~fi~ 83 (107)
T PF08064_consen 13 LTRFSDVLNDLRGKKPIPEKKRALRSIEELIKLGGSHIS----SARPQIMACLQSALEIP-----ELREEALSCWNCFIK 83 (107)
T ss_pred HHHHHHHHhccccCCCHHHHHHHHHHHHHHHHHhHHHHH----HHHHHHHHHHHHHhCCh-----hhHHHHHHHHHHHHH
Confidence 4566677777 778888877777776665 555555 45566666677665432 345667777777766
Q ss_pred hhhc
Q 016189 381 DFFF 384 (393)
Q Consensus 381 a~~~ 384 (393)
.+.-
T Consensus 84 ~L~~ 87 (107)
T PF08064_consen 84 TLDE 87 (107)
T ss_pred HCCH
Confidence 5443
No 206
>cd08780 Death_TRADD Death Domain of Tumor Necrosis Factor Receptor 1-Associated Death Domain protein. Death domain (DD) of TRADD (TNF Receptor 1-Associated Death Domain or TNFRSF1A-associated via death domain) protein. TRADD is a central signaling adaptor for TNF-receptor 1 (TNFR1), mediating activation of Nuclear Factor -kappaB (NF-kB) and c-Jun N-terminal kinase (JNK), as well as caspase-dependent apoptosis. It also carries important immunological roles including germinal center formation, DR3-mediated T-cell stimulation, and TNFalpha-mediated inflammatory responses. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into s
Probab=26.27 E-value=2e+02 Score=23.56 Aligned_cols=62 Identities=13% Similarity=0.101 Sum_probs=46.5
Q ss_pred HHHHHHcCC--CCCCHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCCC
Q 016189 10 EVIAQSIGV--YNLSSDVALALAPDVEYR-VREIMQEAIKCMRHAHRTVLTANDVDSALNLRNVE 71 (393)
Q Consensus 10 ~~iaes~G~--~~ls~~~a~~La~dve~r-l~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~nie 71 (393)
|.+|+++|. .-++|.....|+.+-+-- +.|-+.+..+--+.+....-|.+.+-.||+..++.
T Consensus 17 K~laR~Lg~~cral~d~~ID~I~~~y~r~gL~EqvyQ~L~~W~~~eg~~Atv~~Lv~AL~~c~l~ 81 (90)
T cd08780 17 KPVGRSLQKNCRALRDPAIDNLAYEYDREGLYEQAYQLLRRFIQSEGKKATLQRLVQALEENGLT 81 (90)
T ss_pred HHHHHHHcccccccchhHHHHHHhhcccccHHHHHHHHHHHHHHhccccchHHHHHHHHHHccch
Confidence 557777773 238888999998777655 77777777666666666669999999999987765
No 207
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=26.23 E-value=71 Score=32.13 Aligned_cols=33 Identities=21% Similarity=0.162 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhh
Q 016189 35 YRVREIMQEAIKCMRHAHRTVLTANDVDSALNL 67 (393)
Q Consensus 35 ~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~ 67 (393)
..++.++.+|...+.+.+|..++.+|+..|++.
T Consensus 330 ~dl~~l~~~A~~~a~~~~~~~i~~~d~~~a~~~ 362 (364)
T TIGR01242 330 ADLKAICTEAGMFAIREERDYVTMDDFIKAVEK 362 (364)
T ss_pred HHHHHHHHHHHHHHHHhCCCccCHHHHHHHHHH
Confidence 568899999999999999999999999999864
No 208
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=25.95 E-value=1.5e+02 Score=30.73 Aligned_cols=63 Identities=22% Similarity=0.209 Sum_probs=47.7
Q ss_pred ChHHHHHH----HHHcCCCCCCHHHHHHHHHHHHH-HH---HHHHHHHHHHHHHhCCCccCHhhHHHHhhhc
Q 016189 5 PKETIEVI----AQSIGVYNLSSDVALALAPDVEY-RV---REIMQEAIKCMRHAHRTVLTANDVDSALNLR 68 (393)
Q Consensus 5 ~~~~i~~i----aes~G~~~ls~~~a~~La~dve~-rl---~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~ 68 (393)
+.+-|+.| |+.-++ .++++|...|+..=+. -| -+++.-|..++...+++++..+||+.|-+..
T Consensus 362 ~~~EireIi~iRa~ee~i-~l~~~Ale~L~~ig~etSLRYa~qLL~pa~iiA~~rg~~~V~~~dVe~a~~lF 432 (450)
T COG1224 362 SREEIREIIRIRAKEEDI-ELSDDALEYLTDIGEETSLRYAVQLLTPASIIAKRRGSKRVEVEDVERAKELF 432 (450)
T ss_pred CHHHHHHHHHHhhhhhcc-ccCHHHHHHHHhhchhhhHHHHHHhccHHHHHHHHhCCCeeehhHHHHHHHHH
Confidence 34444444 666777 5999999999876433 24 4667788899999999999999999998763
No 209
>PF08454 RIH_assoc: RyR and IP3R Homology associated; InterPro: IPR013662 This eukaryotic domain is found in ryanodine receptors (RyR) and inositol 1, 4, 5-trisphosphate receptors (IP3R) which together form a superfamily of homotetrameric ligand-gated intracellular Ca2+ channels []. There seems to be no known function for this domain []. Also see the IP3-binding domain IPR000699 from INTERPRO and IPR003608 from INTERPRO.
Probab=25.82 E-value=2.2e+02 Score=23.89 Aligned_cols=78 Identities=19% Similarity=0.317 Sum_probs=53.9
Q ss_pred CChHHHHHHHHHHHHhhcCCCcccccchhhhHHHHHHHHhccccCCCCCCcchHHHHHHHHHHHHH---HHHcCCCchhh
Q 016189 225 KNFSLLFALMRVARSLLRNPHIHIEPYLHQMMPSVITCLVSKRLGNRFSDNHWDLRNFVADLIASI---CTRFGHVYQNL 301 (393)
Q Consensus 225 ~nl~~L~~ll~~v~ALl~N~~l~ie~YlHqLlpslltcll~k~l~~~~~~~h~~LR~~AA~lL~~I---~~~~~~~y~~L 301 (393)
.+...+..++|+.+.|+.|.+..+..|+.. +-++ .....+=...+.++..+ .+......-.+
T Consensus 5 ~~~~~~~~ilr~LQLlCEghn~~lQnylR~------------Q~~~---~~s~nlV~~~~~ll~~l~~~~~~~~~~~~~~ 69 (109)
T PF08454_consen 5 QDMEIIQRILRFLQLLCEGHNLDLQNYLRQ------------QPNN---KNSYNLVSETVDLLDSLQEFGKDINSDNIEL 69 (109)
T ss_pred HHHHHHHHHHHHHHHHHCcCCHHHHHHHhc------------CCCC---CCccHHHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence 356678899999999999999999999882 2221 23456666677777776 44444444556
Q ss_pred HHHHHHHHHHHhcCCC
Q 016189 302 QSRVTRTLLHAFLDPT 317 (393)
Q Consensus 302 ~~Ri~~~l~k~l~d~~ 317 (393)
-..+..||......|-
T Consensus 70 ~~q~~~tL~E~iQGPC 85 (109)
T PF08454_consen 70 IIQCFDTLTEFIQGPC 85 (109)
T ss_pred HHHHHHHHHHHHcCCC
Confidence 6677777777776553
No 210
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=25.80 E-value=1.5e+02 Score=32.38 Aligned_cols=58 Identities=17% Similarity=0.059 Sum_probs=46.4
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhh
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALN 66 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~ 66 (393)
.++.+++.-|+ .++++++..+++...-.+|.++..--+++.-+.++++|.+||...+.
T Consensus 185 ~L~~i~~~egi-~i~~~al~~Ia~~s~GdlR~aln~Ldql~~~~~~~~It~~~v~~llg 242 (584)
T PRK14952 185 LIARICEQEGV-VVDDAVYPLVIRAGGGSPRDTLSVLDQLLAGAADTHVTYQRALGLLG 242 (584)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHhccCCCCcCHHHHHHHHC
Confidence 56778888898 59999999999988877887777777766666677899998887763
No 211
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=25.79 E-value=1.1e+03 Score=27.47 Aligned_cols=109 Identities=15% Similarity=0.200 Sum_probs=58.5
Q ss_pred HHHHHHHhhccC---ChHHHHHHHHHHHHhhcCCCcccccchhhhHHHHHHHHhc--cccCCCCCCcchHHHHHHHHHHH
Q 016189 214 YFISEEVTRSLK---NFSLLFALMRVARSLLRNPHIHIEPYLHQMMPSVITCLVS--KRLGNRFSDNHWDLRNFVADLIA 288 (393)
Q Consensus 214 ~fi~e~v~~nl~---nl~~L~~ll~~v~ALl~N~~l~ie~YlHqLlpslltcll~--k~l~~~~~~~h~~LR~~AA~lL~ 288 (393)
.=+.+.+..++. .++.-.----..+.++.|..- .+.|+.+.+|+++.-++. +...+ |-=+.+|.
T Consensus 501 ~~ale~t~~~l~~d~~lPV~VeAalALq~fI~~~~~-~~e~~~~hvp~~mq~lL~L~ne~En----------d~Lt~vme 569 (1010)
T KOG1991|consen 501 SEALELTHNCLLNDNELPVRVEAALALQSFISNQEQ-ADEKVSAHVPPIMQELLKLSNEVEN----------DDLTNVME 569 (1010)
T ss_pred HHHHHHHHHHhccCCcCchhhHHHHHHHHHHhcchh-hhhhHhhhhhHHHHHHHHHHHhcch----------hHHHHHHH
Confidence 334445555543 234333333344666776653 334444455554444432 22211 23467888
Q ss_pred HHHHHcCCCc----hhhHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHhh
Q 016189 289 SICTRFGHVY----QNLQSRVTRTLLHAFLD-PTKSLSQHYGAIQGLAAL 333 (393)
Q Consensus 289 ~I~~~~~~~y----~~L~~Ri~~~l~k~l~d-~~~~l~t~YGAi~GL~~l 333 (393)
.|+.+|+..- ..|-+.+.+++.|.+.+ ....-..-=||+.++.-|
T Consensus 570 ~iV~~fseElsPfA~eL~q~La~~F~k~l~~~~~~~~~~ddk~iaA~GiL 619 (1010)
T KOG1991|consen 570 KIVCKFSEELSPFAVELCQNLAETFLKVLQTSEDEDESDDDKAIAASGIL 619 (1010)
T ss_pred HHHHHHHHhhchhHHHHHHHHHHHHHHHHhccCCCCccchHHHHHHHHHH
Confidence 8888888765 56777888888998885 233344444555544443
No 212
>smart00567 EZ_HEAT E-Z type HEAT repeats. Present in subunits of cyanobacterial phycocyanin lyase, and other proteins. Probable scaffolding role.
Probab=25.30 E-value=1.1e+02 Score=18.87 Aligned_cols=14 Identities=14% Similarity=-0.047 Sum_probs=12.8
Q ss_pred hHHHHHHHHHHHHH
Q 016189 277 WDLRNFVADLIASI 290 (393)
Q Consensus 277 ~~LR~~AA~lL~~I 290 (393)
|.+|..|+..|+.+
T Consensus 1 ~~vR~~aa~aLg~~ 14 (30)
T smart00567 1 PLVRHEAAFALGQL 14 (30)
T ss_pred CHHHHHHHHHHHHc
Confidence 78999999999987
No 213
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=25.14 E-value=1.4e+02 Score=31.08 Aligned_cols=59 Identities=20% Similarity=0.244 Sum_probs=42.4
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHH---HHHHHHHHHHHhCCCccCHhhHHHHhhhc
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVRE---IMQEAIKCMRHAHRTVLTANDVDSALNLR 68 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~---iiq~a~k~~~hskR~~Lt~~Di~~Al~~~ 68 (393)
-++..++..|+ .+++|++..||+.+.-.+|+ ++.....++...+| .+|.+.+..+|+..
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 34556666677 59999999999988766665 44444455555554 59999999999753
No 214
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=25.01 E-value=1.6e+02 Score=32.39 Aligned_cols=58 Identities=12% Similarity=0.095 Sum_probs=45.2
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhh
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNL 67 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~ 67 (393)
.++.+++.-|+ .++++++..|++..+-.+|.++...-+.+..+ .+++|.++|...|-.
T Consensus 191 ~L~~i~~~egi-~ie~~AL~~La~~s~GslR~al~lLdq~ia~~-~~~It~~~V~~~Lg~ 248 (618)
T PRK14951 191 HLTQVLAAENV-PAEPQALRLLARAARGSMRDALSLTDQAIAFG-SGQLQEAAVRQMLGS 248 (618)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-CCCcCHHHHHHHHcC
Confidence 45667778898 59999999999988888888888766666555 457998888877643
No 215
>PF03810 IBN_N: Importin-beta N-terminal domain; InterPro: IPR001494 Karyopherins are a group of proteins involved in transporting molecules through the pores of the nuclear envelope. Karyopherins, which may act as importins or exportins, are part of the Importin-beta super-family, which all share a similar three-dimensional structure. Members of the importin-beta (karyopherin-beta) family can bind and transport cargo by themselves, or can form heterodimers with importin-alpha. As part of a heterodimer, importin-beta mediates interactions with the pore complex, while importin-alpha acts as an adaptor protein to bind the nuclear localisation signal (NLS) on the cargo through the classical NLS import of proteins. Importin-beta is a helicoidal molecule constructed from 19 HEAT repeats. Many nuclear pore proteins contain FG sequence repeats that can bind to HEAT repeats within importins [, ], which is important for importin-beta mediated transport. Ran GTPase helps to control the unidirectional transfer of cargo. The cytoplasm contains primarily RanGDP and the nucleus RanGTP through the actions of RanGAP and RanGEF, respectively. In the nucleus, RanGTP binds to importin-beta within the importin/cargo complex, causing a conformational change in importin-beta that releases it from importin-alpha-bound cargo. As a result, the N-terminal auto-inhibitory region on importin-alpha is free to loop back and bind to the major NLS-binding site, causing the cargo to be released []. There are additional release factors as well. This entry represents the N-terminal domain of karyopherins that is important for the binding of the Ran protein []. More information about these proteins can be found at Protein of the Month: Importins [].; GO: 0008565 protein transporter activity, 0006886 intracellular protein transport; PDB: 3NC1_A 3NBY_D 3NBZ_D 3NC0_A 3GJX_D 1IBR_D 1QGR_A 3LWW_A 1F59_A 2Q5D_A ....
Probab=24.88 E-value=2.5e+02 Score=20.78 Aligned_cols=38 Identities=13% Similarity=0.274 Sum_probs=26.9
Q ss_pred chHHHHHHHHHHHHHHHHc-C--------CCchhhHHHHHHHHHHHh
Q 016189 276 HWDLRNFVADLIASICTRF-G--------HVYQNLQSRVTRTLLHAF 313 (393)
Q Consensus 276 h~~LR~~AA~lL~~I~~~~-~--------~~y~~L~~Ri~~~l~k~l 313 (393)
+-.+|.+|+-+|...++++ + .--++-|..|-..+.+.+
T Consensus 29 ~~~~R~~A~i~LKn~I~~~W~~~~~~~~~~~~~~~k~~Ik~~ll~~l 75 (77)
T PF03810_consen 29 DPEVRQLAAILLKNLIKKNWSPSKQKGWSQLPEEEKEQIKSQLLQLL 75 (77)
T ss_dssp CHHHHHHHHHHHHHHHHHSGGHHHHHHHHGSSHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHcCchhhccCCCCCCHHHHHHHHHHHHHHH
Confidence 4589999999999988776 5 444556666655555544
No 216
>PF12231 Rif1_N: Rap1-interacting factor 1 N terminal; InterPro: IPR022031 This domain family is found in eukaryotes, and is typically between 135 and 146 amino acids in length. Rif1 is a protein which interacts with Rap1 to regulate telomere length. Interaction with telomeres limits their length. The N-terminal region contains many HEAT- and ARMADILLO- type repeats. These are helical folds which form extended curved proteins or RNA interface surfaces.
Probab=24.24 E-value=7.6e+02 Score=25.01 Aligned_cols=142 Identities=13% Similarity=0.230 Sum_probs=82.8
Q ss_pred CcccchhhHHHHHHHHHhhcc-----CChHHHHHHHHHHHHhhcCCCc--ccccchhh-hHHHHHHHHhccccCCCCCCc
Q 016189 204 GLHPLVPYFTYFISEEVTRSL-----KNFSLLFALMRVARSLLRNPHI--HIEPYLHQ-MMPSVITCLVSKRLGNRFSDN 275 (393)
Q Consensus 204 gL~~LlPy~~~fi~e~v~~nl-----~nl~~L~~ll~~v~ALl~N~~l--~ie~YlHq-Llpslltcll~k~l~~~~~~~ 275 (393)
.++.=++.|++||...+.... .+.......+|+.-.++.||.+ .+..=... ++-..+.++..+...
T Consensus 32 ~l~~k~~~l~~~i~rDi~~~~~~~~p~~~~L~~qALkll~~~l~~~~i~~~l~~d~~~~~i~~~i~~l~~~~~~------ 105 (372)
T PF12231_consen 32 ALQDKMSLLLQFIQRDISSSSSKGDPFDSRLVIQALKLLGFFLYHPEIVSTLSDDFASFIIDHSIESLQNPNSP------ 105 (372)
T ss_pred HHHHHHHHHHHHHHHHHhcccCCCCCcchHHHHHHHHHHHHHHccHHHHhhCChHHHHHHHHHHHHHHcCCCCC------
Confidence 456678999999998887643 2456678899999999999988 33221111 333333333333221
Q ss_pred chHHHHHHHHHHHHHH-HHcCCCc--hhhHHHHHHHHHHHhcCCCCCchhHhHHHHHHHhhCHHhHHHhcccchHHHHHh
Q 016189 276 HWDLRNFVADLIASIC-TRFGHVY--QNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAALGPSVVHLLILPNLELYLKF 352 (393)
Q Consensus 276 h~~LR~~AA~lL~~I~-~~~~~~y--~~L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~lG~~~vr~~ilP~l~~~~~~ 352 (393)
...+...|.-+. .+|+..+ ...-.|+...+ ..+.++-.+.+..+.++.++..|-.+.-.. ...+...+...
T Consensus 106 ----K~i~~~~l~~ls~Q~f~~~~~~~~~~~~l~~~l-~~i~~~~~s~si~~erL~i~~~ll~q~p~~-M~~~~~~W~~~ 179 (372)
T PF12231_consen 106 ----KSICTHYLWCLSDQKFSPKIMTSDRVERLLAAL-HNIKNRFPSKSIISERLNIYKRLLSQFPQQ-MIKHADIWFPI 179 (372)
T ss_pred ----HHHHHHHHHHHHcCCCCCcccchhhHHHHHHHH-HHhhccCCchhHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHH
Confidence 122222232232 4566655 22223333333 444566778888899999998887776543 34566666655
Q ss_pred hhHhH
Q 016189 353 LEPEM 357 (393)
Q Consensus 353 l~~~l 357 (393)
+-+.+
T Consensus 180 l~~~l 184 (372)
T PF12231_consen 180 LFPDL 184 (372)
T ss_pred HHHHH
Confidence 55444
No 217
>PTZ00373 60S Acidic ribosomal protein P2; Provisional
Probab=24.06 E-value=1.7e+02 Score=24.94 Aligned_cols=43 Identities=14% Similarity=0.261 Sum_probs=36.0
Q ss_pred CChHHHHHHHHHcCCCCCCHHHHHHHHHHHHHH-HHHHHHHHHHH
Q 016189 4 VPKETIEVIAQSIGVYNLSSDVALALAPDVEYR-VREIMQEAIKC 47 (393)
Q Consensus 4 ~~~~~i~~iaes~G~~~ls~~~a~~La~dve~r-l~~iiq~a~k~ 47 (393)
++.+.|+.|.+++|+ .+.++-...++..++-+ +.++|.+..+-
T Consensus 20 pTaddI~kIL~AaGv-eVd~~~~~l~~~~L~GKdI~ELIa~G~~k 63 (112)
T PTZ00373 20 PTKKEVKNVLSAVNA-DVEDDVLDNFFKSLEGKTPHELIAAGMKK 63 (112)
T ss_pred CCHHHHHHHHHHcCC-CccHHHHHHHHHHHcCCCHHHHHHHhHHH
Confidence 578899999999999 59999999999888776 88888775543
No 218
>smart00323 RasGAP GTPase-activator protein for Ras-like GTPases. All alpha-helical domain that accelerates the GTPase activity of Ras, thereby "switching" it into an "off" position. Improved domain limits from structure.
Probab=23.69 E-value=4e+02 Score=26.61 Aligned_cols=102 Identities=22% Similarity=0.245 Sum_probs=62.1
Q ss_pred ccchhhHHHHHHHHHhhc------cCChHHHHHHHHHHHHhhcCCCcccccchhhhHHHHHHHHhccccC--CCC-----
Q 016189 206 HPLVPYFTYFISEEVTRS------LKNFSLLFALMRVARSLLRNPHIHIEPYLHQMMPSVITCLVSKRLG--NRF----- 272 (393)
Q Consensus 206 ~~LlPy~~~fi~e~v~~n------l~nl~~L~~ll~~v~ALl~N~~l~ie~YlHqLlpslltcll~k~l~--~~~----- 272 (393)
..+.+++-..+..+|... .+.......+|.....++. ..||+..+.+++.=++...-+ .++
T Consensus 69 ~~~~~~L~~li~~Ei~~~~~~~~lfR~Nsl~tk~l~~y~k~~g------~~yL~~~l~~~i~~i~~~~~~~e~dp~k~~~ 142 (344)
T smart00323 69 GRGHPFLRALIDPEVERTDDPNTIFRGNSLATKSMEVYMKLVG------NQYLHTTLKPVLKKIVESKKSCEVDPAKLEG 142 (344)
T ss_pred CcHHHHHHHHHHHHHHcCCcHhhHhhhccHhHHHHHHHHHHHh------HHHHHHHHHHHHHHHHcCCCCCCcChhhcCh
Confidence 456677777777777652 1233445555655555544 388998888888777665321 111
Q ss_pred ---CCcchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhc
Q 016189 273 ---SDNHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFL 314 (393)
Q Consensus 273 ---~~~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~ 314 (393)
..+-..||+++.+++..|++.... .|.---.|.+.+.+.+.
T Consensus 143 ~~~~~n~~~L~~~~~~~~~~I~~s~~~-~P~~lr~i~~~l~~~~~ 186 (344)
T smart00323 143 EDLETNLENLLQYVERLFDAIINSSDR-LPYGLRDICKQLRQAAE 186 (344)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHhHHh-CcHHHHHHHHHHHHHHH
Confidence 124467899999999988876544 33333355665555543
No 219
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=23.45 E-value=85 Score=32.10 Aligned_cols=35 Identities=23% Similarity=0.134 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhc
Q 016189 34 EYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLR 68 (393)
Q Consensus 34 e~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~ 68 (393)
-..|+.++++|..++.+.+++.++.+|+..|++..
T Consensus 338 gadl~~l~~eA~~~a~~~~~~~i~~~d~~~A~~~~ 372 (389)
T PRK03992 338 GADLKAICTEAGMFAIRDDRTEVTMEDFLKAIEKV 372 (389)
T ss_pred HHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHH
Confidence 36688999999999999999999999999999874
No 220
>cd05833 Ribosomal_P2 Ribosomal protein P2. This subfamily represents the eukaryotic large ribosomal protein P2. Eukaryotic P1 and P2 are functionally equivalent to the bacterial protein L7/L12, but are not homologous to L7/L12. P2 is located in the L12 stalk, with proteins P1, P0, L11, and 28S rRNA. P1 and P2 are the only proteins in the ribosome to occur as multimers, always appearing as sets of heterodimers. Recent data indicate that eukaryotes have four copies (two heterodimers), while most archaeal species contain six copies of L12p (three homodimers). Bacteria may have four or six copies of L7/L12 (two or three homodimers) depending on the species. Experiments using S. cerevisiae P1 and P2 indicate that P1 proteins are positioned more internally with limited reactivity in the C-terminal domains, while P2 proteins seem to be more externally located and are more likely to interact with other cellular components. In lower eukaryotes, P1 and P2 are further subdivided into P1A, P1B, P2
Probab=23.34 E-value=1.7e+02 Score=24.71 Aligned_cols=45 Identities=16% Similarity=0.272 Sum_probs=37.1
Q ss_pred CCChHHHHHHHHHcCCCCCCHHHHHHHHHHHHHH-HHHHHHHHHHHH
Q 016189 3 IVPKETIEVIAQSIGVYNLSSDVALALAPDVEYR-VREIMQEAIKCM 48 (393)
Q Consensus 3 ~~~~~~i~~iaes~G~~~ls~~~a~~La~dve~r-l~~iiq~a~k~~ 48 (393)
.++.+.|+.|.+++|+ .+.++-...++..++-. +.++|.+....|
T Consensus 17 ~pTa~dI~~IL~AaGv-eVe~~~~~lf~~~L~GKdi~eLIa~g~~kl 62 (109)
T cd05833 17 SPSAADVKKILGSVGV-EVDDEKLNKVISELEGKDVEELIAAGKEKL 62 (109)
T ss_pred CCCHHHHHHHHHHcCC-CccHHHHHHHHHHHcCCCHHHHHHHhHhhh
Confidence 4678899999999999 59999999999888766 788887766544
No 221
>COG5251 TAF40 Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=23.22 E-value=1.1e+02 Score=27.95 Aligned_cols=67 Identities=15% Similarity=0.131 Sum_probs=57.1
Q ss_pred CCCChHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CccCHhhHHHHhhhc
Q 016189 2 SIVPKETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHR-TVLTANDVDSALNLR 68 (393)
Q Consensus 2 s~~~~~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR-~~Lt~~Di~~Al~~~ 68 (393)
+-+++..||.+|.++--..+++.++..|..--.-++-|||+-|.+....-+- .-|.+.|+..|.+..
T Consensus 114 t~lnKt~VKKlastV~nQtVspNi~I~l~g~~KVfvGEiIElA~~Vq~~w~~sgpl~p~h~reayr~~ 181 (199)
T COG5251 114 TSLNKTQVKKLASTVANQTVSPNIRIFLQGVGKVFVGEIIELAMIVQNKWLTSGPLIPFHKREAYRYK 181 (199)
T ss_pred cCCCHHHHHHHHHHHhccccCCCeeeeeechhHHHHHHHHHHHHHHHHHhcccCCCChHHHHHHHHHH
Confidence 3478999999999999999999999999999999999999999888766443 368899999887653
No 222
>KOG1241 consensus Karyopherin (importin) beta 1 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=23.22 E-value=1.1e+03 Score=26.71 Aligned_cols=134 Identities=17% Similarity=0.288 Sum_probs=80.3
Q ss_pred HhhhhcCCcccchhhHHHHHHHHHhh------ccCChHHH--HHHHHHHHHhhcCCCcccccchhhhHHHHHH----HHh
Q 016189 197 LSLAMDSGLHPLVPYFTYFISEEVTR------SLKNFSLL--FALMRVARSLLRNPHIHIEPYLHQMMPSVIT----CLV 264 (393)
Q Consensus 197 ~sL~tD~gL~~LlPy~~~fi~e~v~~------nl~nl~~L--~~ll~~v~ALl~N~~l~ie~YlHqLlpsllt----cll 264 (393)
+...+.+.=.+.-|+|-.-|..-+.. |-+|+..- ..||.|+ .|-.-..-+-+.++.+.++. |+=
T Consensus 481 eA~~s~~qt~~~t~~y~~ii~~Ll~~tdr~dgnqsNLR~AAYeALmElI----k~st~~vy~~v~~~~l~il~kl~q~i~ 556 (859)
T KOG1241|consen 481 EAAVSNGQTDPATPFYEAIIGSLLKVTDRADGNQSNLRSAAYEALMELI----KNSTDDVYPMVQKLTLVILEKLDQTIS 556 (859)
T ss_pred HhccCCCCCCccchhHHHHHHHHHhhccccccchhhHHHHHHHHHHHHH----HcCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444433344557776666544432 33444332 3455444 45554444445555554444 333
Q ss_pred ccccCCCCCCcchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcCCCCC---chhHhHHHHHHHh-hCH
Q 016189 265 SKRLGNRFSDNHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTKS---LSQHYGAIQGLAA-LGP 335 (393)
Q Consensus 265 ~k~l~~~~~~~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~~~~---l~t~YGAi~GL~~-lG~ 335 (393)
+..++....+.+-.|.+.=...|..|.+|.++..+..--.|+..|.+.|-. .++ -..-+|||.+|.+ ||+
T Consensus 557 ~~~l~~~dr~q~~eLQs~Lc~~Lq~i~rk~~~~~~~~~d~iM~lflri~~s-~~s~~v~e~a~laV~tl~~~Lg~ 630 (859)
T KOG1241|consen 557 SQILSLADRAQLNELQSLLCNTLQSIIRKVGSDIREVSDQIMGLFLRIFES-KRSAVVHEEAFLAVSTLAESLGK 630 (859)
T ss_pred HHhccHhhHHHHHHHHHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHcC-CccccchHHHHHHHHHHHHHHhH
Confidence 333433333456667777788889999999999999999999999999876 344 3456777777664 354
No 223
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=23.08 E-value=1.8e+02 Score=32.64 Aligned_cols=55 Identities=13% Similarity=0.167 Sum_probs=41.8
Q ss_pred HHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHh
Q 016189 9 IEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSAL 65 (393)
Q Consensus 9 i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al 65 (393)
++.+++..|+ .++++++..||.-..-.+|.++..+-+....++ .++|.++|..++
T Consensus 186 L~~il~kegI-~id~eAl~~LA~lS~GslR~AlslLekl~~y~~-~~It~e~V~ell 240 (725)
T PRK07133 186 LEFILEKENI-SYEKNALKLIAKLSSGSLRDALSIAEQVSIFGN-NKITLKNVEELF 240 (725)
T ss_pred HHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc-CCCCHHHHHHHH
Confidence 3455667798 489999999999998888888888777666654 458888777644
No 224
>PF01603 B56: Protein phosphatase 2A regulatory B subunit (B56 family); InterPro: IPR002554 Protein phosphatase 2A (PP2A) is a major intracellular protein phosphatase that regulates multiple aspects of cell growth and metabolism. The ability of this widely distributed heterotrimeric enzyme to act on a diverse array of substrates is largely controlled by the nature of its regulatory B subunit. There are multiple families of B subunits, this family is called the B56 family [].; GO: 0008601 protein phosphatase type 2A regulator activity, 0007165 signal transduction, 0000159 protein phosphatase type 2A complex; PDB: 2NYM_B 2NYL_B 2IAE_E 2NPP_B 3FGA_B 2JAK_A.
Probab=22.77 E-value=2.6e+02 Score=28.92 Aligned_cols=98 Identities=15% Similarity=0.323 Sum_probs=0.0
Q ss_pred cHHHHHHHHHHHHHhhcCCchHHHHHHHHhhhhcCCcccchhhHHHHHHHHHhhccCChHHHHHHHHHHHHhhcCCCc--
Q 016189 169 SKELQLYFDKIRELTVSRSNSTVFKQALLSLAMDSGLHPLVPYFTYFISEEVTRSLKNFSLLFALMRVARSLLRNPHI-- 246 (393)
Q Consensus 169 S~Elq~yf~~It~a~~~~~~~~~~~~aL~sL~tD~gL~~LlPy~~~fi~e~v~~nl~nl~~L~~ll~~v~ALl~N~~l-- 246 (393)
|..+-.|.+++.+.+...++.+ ...+++-+.+.++..+... +.....+.| .+..|+++
T Consensus 269 s~Kev~FL~el~~il~~~~~~~--------------f~~i~~~lf~~la~ci~S~--h~qVAErAl----~~w~n~~~~~ 328 (409)
T PF01603_consen 269 SQKEVLFLNELEEILEVLPPEE--------------FQKIMVPLFKRLAKCISSP--HFQVAERAL----YFWNNEYFLS 328 (409)
T ss_dssp HHHHHHHHHHHHHHHTT--HHH--------------HHHHHHHHHHHHHHHHTSS--SHHHHHHHH----GGGGSHHHHH
T ss_pred chhHHHHHHHHHHHHHhcCHHH--------------HHHHHHHHHHHHHHHhCCC--CHHHHHHHH----HHHCCHHHHH
Q ss_pred ccccchhhhHHHHHHHHhccccCCCCCCcchH--HHHHHHHHHHHHHH
Q 016189 247 HIEPYLHQMMPSVITCLVSKRLGNRFSDNHWD--LRNFVADLIASICT 292 (393)
Q Consensus 247 ~ie~YlHqLlpslltcll~k~l~~~~~~~h~~--LR~~AA~lL~~I~~ 292 (393)
-+..+-+.++|.+..-+ -+...+||. +|..|.+.+..+.+
T Consensus 329 li~~~~~~i~p~i~~~L------~~~~~~HWn~~Vr~~a~~vl~~l~~ 370 (409)
T PF01603_consen 329 LISQNSRVILPIIFPAL------YRNSKNHWNQTVRNLAQNVLKILME 370 (409)
T ss_dssp HHHCTHHHHHHHHHHHH------SSTTSS-SSTTHHHHHHHHHHHHHT
T ss_pred HHHhChHHHHHHHHHHH------HHHHHHHhhHHHHHHHHHHHHHHHH
No 225
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=22.70 E-value=1.8e+02 Score=31.09 Aligned_cols=59 Identities=10% Similarity=0.137 Sum_probs=46.1
Q ss_pred HHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcC
Q 016189 9 IEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRN 69 (393)
Q Consensus 9 i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~n 69 (393)
++.+++.-|+ .++++++..|+.-..-.+|.+++..-+.+..+ .++++.+||...+...+
T Consensus 187 L~~il~~egi-~~~~~al~~la~~s~Gslr~al~lldqai~~~-~~~I~~~~v~~~~~~~~ 245 (527)
T PRK14969 187 LQHILEQENI-PFDATALQLLARAAAGSMRDALSLLDQAIAYG-GGTVNESEVRAMLGAID 245 (527)
T ss_pred HHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-CCCcCHHHHHHHHCCCC
Confidence 4456666788 58999999999998887888888777766664 67899999998876553
No 226
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=22.46 E-value=2.1e+02 Score=30.03 Aligned_cols=61 Identities=10% Similarity=0.055 Sum_probs=44.6
Q ss_pred HHHHHHHHcCCC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC----CCccCHhhHHHHhhhc
Q 016189 8 TIEVIAQSIGVY-NLSSDVALALAPDVEYRVREIMQEAIKCMRHAH----RTVLTANDVDSALNLR 68 (393)
Q Consensus 8 ~i~~iaes~G~~-~ls~~~a~~La~dve~rl~~iiq~a~k~~~hsk----R~~Lt~~Di~~Al~~~ 68 (393)
-++..++..|.. .++++++..||+...--+|++..-..+....+. .+.+|.+.+..+++..
T Consensus 283 iL~~~~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL~~l~~~a~~~~~~~~it~~~v~~~l~~~ 348 (450)
T PRK14087 283 IIKKEIKNQNIKQEVTEEAINFISNYYSDDVRKIKGSVSRLNFWSQQNPEEKIITIEIVSDLFRDI 348 (450)
T ss_pred HHHHHHHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHHHHHHHHHhcccCCCCCCHHHHHHHHhhc
Confidence 355566777763 699999999999998777777666655543332 2579999999999753
No 227
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family groups together a range of proteins, including ascG, ccpA, cytR, ebgR, fruR, galR, galS, lacI, malI, opnR, purF, rafR, rbtR and scrR [, ]. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3KJX_C 1ZAY_A 1VPW_A 2PUA_A 1QQA_A 1PNR_A 1JFT_A 1QP4_A 2PUD_A 1JH9_A ....
Probab=22.31 E-value=1.4e+02 Score=21.14 Aligned_cols=12 Identities=50% Similarity=0.562 Sum_probs=10.0
Q ss_pred HHHHHHHHcCCC
Q 016189 8 TIEVIAQSIGVY 19 (393)
Q Consensus 8 ~i~~iaes~G~~ 19 (393)
||++||+.+|++
T Consensus 1 Ti~dIA~~agvS 12 (46)
T PF00356_consen 1 TIKDIAREAGVS 12 (46)
T ss_dssp CHHHHHHHHTSS
T ss_pred CHHHHHHHHCcC
Confidence 478899999986
No 228
>PF04648 MF_alpha: Yeast mating factor alpha hormone; InterPro: IPR006742 This repeated sequence,WHWLQLKPGQPMY, characterises the mating factor alpha-1 or alpha-1 mating pheromone [contains: Mating factor alpha].The hormone is excreted into the culture medium by haploid cells of the alpha mating type and acts on cells of the opposite mating type (type A) by binding to a cognate G-protein coupled receptor which is coupled to a downstream signal transduction pathway. It inhibits DNA synthesis in type A cells synchronising them with type alpha, and so mediates the conjugation process.; GO: 0000772 mating pheromone activity, 0019953 sexual reproduction, 0005576 extracellular region
Probab=22.22 E-value=42 Score=17.66 Aligned_cols=11 Identities=45% Similarity=0.948 Sum_probs=8.5
Q ss_pred EEEEecCccCC
Q 016189 123 HWLAIEGVQPA 133 (393)
Q Consensus 123 hWLaveGvqP~ 133 (393)
|||.++--||.
T Consensus 2 hWL~~~~GqP~ 12 (13)
T PF04648_consen 2 HWLRLSPGQPM 12 (13)
T ss_pred cceeccCCCcC
Confidence 89998877763
No 229
>cd08313 Death_TNFR1 Death domain of Tumor Necrosis Factor Receptor 1. Death Domain (DD) found in tumor necrosis factor receptor-1 (TNFR-1). TNFR-1 has many names including TNFRSF1A, CD120a, p55, p60, and TNFR60. It activates two major intracellular signaling pathways that lead to the activation of the transcription factor NF-kB and the induction of cell death. Upon binding of its ligand TNF, TNFR-1 trimerizes which leads to the recruitment of an adaptor protein named TNFR-associated death domain protein (TRADD) through a DD/DD interaction. Mutations in the TNFRSF1A gene causes TNFR-associated periodic syndrome (TRAPS), a rare disorder characterized recurrent fever, myalgia, abdominal pain, conjunctivitis and skin eruptions. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation a
Probab=22.20 E-value=4e+02 Score=21.11 Aligned_cols=65 Identities=17% Similarity=0.178 Sum_probs=44.1
Q ss_pred CCChHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH-HHHHhCCCccCHhhHHHHhhhcCCC
Q 016189 3 IVPKETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIK-CMRHAHRTVLTANDVDSALNLRNVE 71 (393)
Q Consensus 3 ~~~~~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k-~~~hskR~~Lt~~Di~~Al~~~nie 71 (393)
.+|....+.+|+.+|++ |.-.+.+-.+=. .++|-..+..+ ....-+|..=|.+++-.||+..++.
T Consensus 8 ~v~~~~wk~~~R~LGls---e~~Id~ie~~~~-~~~Eq~yqmL~~W~~~~g~~~At~~~L~~aLr~~~l~ 73 (80)
T cd08313 8 EVPPRRWKEFVRRLGLS---DNEIERVELDHR-RCRDAQYQMLKVWKERGPRPYATLQHLLSVLRDMELV 73 (80)
T ss_pred hCCHHHHHHHHHHcCCC---HHHHHHHHHhCC-ChHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHcCcH
Confidence 46788899999999975 544555544444 56555555544 4444455578889999999887764
No 230
>PF12167 DUF3596: Domain of unknown function (DUF3596); InterPro: IPR022000 This N-terminal domain is found in Bacteriophage P27p02, it is functionally uncharacterised, though it is considered to be an integrase. Integrase is necessary for integration of the phage into the host genome by site-specific recombination. In conjunction with excisionase, integrase is also necessary for excision of the prophage from the host genome. This domain is found in related proteins in other bacteriophage, and prophage regions of bacterial genomes. The domain is approximately 90 amino acids in length and is found is associated with the C-terminal domain characterised by PF00589 from PFAM.
Probab=21.88 E-value=69 Score=24.23 Aligned_cols=26 Identities=23% Similarity=0.509 Sum_probs=23.4
Q ss_pred HHHHHHHHhHhhhhhhcccccccccC
Q 016189 368 RHEAWRVYGALQVDFFFKEFLYLDYY 393 (393)
Q Consensus 368 ~~~a~~v~~~l~~a~~~~~~~~~~~~ 393 (393)
|.-|++..+.+...+..|+|-|.+|+
T Consensus 35 ~k~a~~~~~~I~~~I~~G~Fdy~~~F 60 (64)
T PF12167_consen 35 RKKAERLRAEIEAEIALGTFDYAKYF 60 (64)
T ss_pred HHHHHHHHHHHHHHHHhCCCcHHHhC
Confidence 66788999999999999999999885
No 231
>KOG0166 consensus Karyopherin (importin) alpha [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.39 E-value=4.7e+02 Score=28.17 Aligned_cols=132 Identities=24% Similarity=0.304 Sum_probs=74.5
Q ss_pred ccchhhHHHHHHHHHhhccCChHHHHHHHHHHHHhhcCCCcccccchhhhHHHHHHHHhccccCCCCCCcchHHHHHHHH
Q 016189 206 HPLVPYFTYFISEEVTRSLKNFSLLFALMRVARSLLRNPHIHIEPYLHQMMPSVITCLVSKRLGNRFSDNHWDLRNFVAD 285 (393)
Q Consensus 206 ~~LlPy~~~fi~e~v~~nl~nl~~L~~ll~~v~ALl~N~~l~ie~YlHqLlpslltcll~k~l~~~~~~~h~~LR~~AA~ 285 (393)
...+|.||.|........+ .++....+-.++.--..+.+..++ +--+|.++.|+.+. |-++|+.|.-
T Consensus 108 ~G~v~~lV~~l~~~~~~~l-q~eAAWaLTnIAsgtse~T~~vv~---agavp~fi~Ll~s~---------~~~v~eQavW 174 (514)
T KOG0166|consen 108 SGVVPRLVEFLSRDDNPTL-QFEAAWALTNIASGTSEQTKVVVD---AGAVPIFIQLLSSP---------SADVREQAVW 174 (514)
T ss_pred cCcHHHHHHHHccCCChhH-HHHHHHHHHHHhcCchhhcccccc---CCchHHHHHHhcCC---------cHHHHHHHHH
Confidence 3678999988872221111 122223333333333334444333 34577777776443 3478888888
Q ss_pred HHHHHHHHcCCCchhhHH-----HHHHHHHHHhcCCCCCchhHhHHHHHHHhh--CH------HhHHHhcccchHHHHHh
Q 016189 286 LIASICTRFGHVYQNLQS-----RVTRTLLHAFLDPTKSLSQHYGAIQGLAAL--GP------SVVHLLILPNLELYLKF 352 (393)
Q Consensus 286 lL~~I~~~~~~~y~~L~~-----Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~l--G~------~~vr~~ilP~l~~~~~~ 352 (393)
-|+.|... | +.+|. -++..|...+.. ..+++.+=-+.+.|+.| |. +.|+ .++|-|...+..
T Consensus 175 ALgNIagd-s---~~~Rd~vl~~g~l~pLl~~l~~-~~~~~~lRn~tW~LsNlcrgk~P~P~~~~v~-~iLp~L~~ll~~ 248 (514)
T KOG0166|consen 175 ALGNIAGD-S---PDCRDYVLSCGALDPLLRLLNK-SDKLSMLRNATWTLSNLCRGKNPSPPFDVVA-PILPALLRLLHS 248 (514)
T ss_pred HHhccccC-C---hHHHHHHHhhcchHHHHHHhcc-ccchHHHHHHHHHHHHHHcCCCCCCcHHHHH-HHHHHHHHHHhc
Confidence 88777632 1 23332 344567776654 44488888999999999 66 3343 345555555544
Q ss_pred hhHh
Q 016189 353 LEPE 356 (393)
Q Consensus 353 l~~~ 356 (393)
-+++
T Consensus 249 ~D~~ 252 (514)
T KOG0166|consen 249 TDEE 252 (514)
T ss_pred CCHH
Confidence 4444
No 232
>PRK11302 DNA-binding transcriptional regulator HexR; Provisional
Probab=21.16 E-value=2.9e+02 Score=26.33 Aligned_cols=75 Identities=23% Similarity=0.413 Sum_probs=48.1
Q ss_pred CCChHHHHHHHHHcCCCCCCHHHHHHHHHHH-----------------HHHHHHHHHHHHHHHHHhCCCccCHhhHHHHh
Q 016189 3 IVPKETIEVIAQSIGVYNLSSDVALALAPDV-----------------EYRVREIMQEAIKCMRHAHRTVLTANDVDSAL 65 (393)
Q Consensus 3 ~~~~~~i~~iaes~G~~~ls~~~a~~La~dv-----------------e~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al 65 (393)
-.++.||-|+++.+|.+..+| .-..|++++ +..+.++++...+-+.+. ...+..++++.+.
T Consensus 45 ~vS~aTv~Rf~kklG~~gf~e-~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~t-~~~id~~~i~~~~ 122 (284)
T PRK11302 45 NVSEPTVNRFCRSLDTKGFPD-FKLHLAQSLANGTPYVNRNVEEDDSVEAYTGKIFESAMASLDHA-RQSLDPSAINRAV 122 (284)
T ss_pred CCCHHHHHHHHHHcCCCCHHH-HHHHHHHHhhccccccccCCCCCCCHHHHHHHHHHHHHHHHHHH-HHhcCHHHHHHHH
Confidence 468999999999999998874 333344332 222444555555555554 3568889999988
Q ss_pred hhc-CCCCc--ccCCCC
Q 016189 66 NLR-NVEPI--YGFASG 79 (393)
Q Consensus 66 ~~~-niepl--yGy~s~ 79 (393)
+.+ +-..+ ||.+++
T Consensus 123 ~~i~~a~~I~i~G~G~S 139 (284)
T PRK11302 123 DLLTQAKKISFFGLGAS 139 (284)
T ss_pred HHHHcCCeEEEEEcchH
Confidence 875 44544 455443
No 233
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=21.03 E-value=5.9e+02 Score=30.61 Aligned_cols=171 Identities=18% Similarity=0.198 Sum_probs=101.4
Q ss_pred HHHhhhhcCC--cccchhhHHHHHHHHHhhccCChHHHHHHHHHHHHhhcCCCcccccchhhhHHHHHHHHhccccCCCC
Q 016189 195 ALLSLAMDSG--LHPLVPYFTYFISEEVTRSLKNFSLLFALMRVARSLLRNPHIHIEPYLHQMMPSVITCLVSKRLGNRF 272 (393)
Q Consensus 195 aL~sL~tD~g--L~~LlPy~~~fi~e~v~~nl~nl~~L~~ll~~v~ALl~N~~l~ie~YlHqLlpslltcll~k~l~~~~ 272 (393)
+|+.|...=| +.+=+|.|-.|..+........-.....-+++.+++.-=-+.++++ +-+++|.+.+|+
T Consensus 756 ~L~~l~~~fg~sl~~klp~l~~~L~~~L~~~~~~~d~~~~s~~vf~s~~~~m~s~l~~-~~~~l~~l~~~~--------- 825 (1549)
T KOG0392|consen 756 FLKILSKMFGGSLAAKLPHLWDFLLKALSGLIDGNDEFLSSFEVFNSLAPLMHSFLHP-LGSLLPRLFFFV--------- 825 (1549)
T ss_pred HHHHHHHHhhHHHHHhcchHHHHHHHhhhccCCCCcchhhhHHHHHHHHHhhhhhhhh-hhhhhhHHHHhc---------
Confidence 4555544433 5666777766665555443211124444556666766556667777 888899888885
Q ss_pred CCcchHHHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHhcCCCCCchhHhHHHHHHHhhCHHhHHHhcccchHHHHHh
Q 016189 273 SDNHWDLRNFVADLIASICTRFGHVYQNLQSRVTRTLLHAFLDPTKSLSQHYGAIQGLAALGPSVVHLLILPNLELYLKF 352 (393)
Q Consensus 273 ~~~h~~LR~~AA~lL~~I~~~~~~~y~~L~~Ri~~~l~k~l~d~~~~l~t~YGAi~GL~~lG~~~vr~~ilP~l~~~~~~ 352 (393)
...|-+.|..||+.++...+--+ -..-.-+.+.+.- |++....+..+-||..-+.-+-.--.+ .+.|...-+..-
T Consensus 826 ~s~~~a~r~~~ar~i~~~~k~~~---~e~m~~v~~~~~~-ll~~~~~~~~r~~a~e~~~~l~~~l~~-~l~~~~~Llv~p 900 (1549)
T KOG0392|consen 826 RSIHIAVRYAAARCIGTMFKSAT---RETMATVINGFLP-LLGDLDKFVRRQGADELIELLDAVLMV-GLVPYNPLLVVP 900 (1549)
T ss_pred ccchHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHhh-hccchhhHhhhhhHHHHHHHHHHhhcc-cccccceeehhh
Confidence 24688999999999988876422 2233334444443 345566777788887766555333222 234555444333
Q ss_pred hhHhHhhhhhhhhhHHHHHHHHHhHhhhhhh
Q 016189 353 LEPEMLLEKQKNEMKRHEAWRVYGALQVDFF 383 (393)
Q Consensus 353 l~~~l~~~~~~~~~~~~~a~~v~~~l~~a~~ 383 (393)
|-+.| +..+..+|.-|.++...|+--+.
T Consensus 901 llr~m---sd~~d~vR~aat~~fa~lip~~~ 928 (1549)
T KOG0392|consen 901 LLRRM---SDQIDSVREAATKVFAKLIPLLP 928 (1549)
T ss_pred hhccc---ccchHHHHHHHHHHHHHHhcccc
Confidence 33333 34456678888888877765443
No 234
>cd08319 Death_RAIDD Death domain of RIP-associated ICH-1 homologous protein with a death domain. Death domain (DD) of RAIDD (RIP-associated ICH-1 homologous protein with a death domain), also known as CRADD (Caspase and RIP adaptor). RAIDD is an adaptor protein that together with the p53-inducible protein PIDD and caspase-2, forms the PIDDosome complex, which is required for caspase-2 activation and plays a role in mediating stress-induced apoptosis. RAIDD contains an N-terminal Caspase Activation and Recruitment Domain (CARD), which interacts with the caspase-2 CARD, and a C-terminal DD, which interacts with the DD of PIDD. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD, DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other pr
Probab=21.03 E-value=3.7e+02 Score=21.43 Aligned_cols=59 Identities=17% Similarity=0.184 Sum_probs=38.2
Q ss_pred HHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHHhhhcCCCC
Q 016189 11 VIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSALNLRNVEP 72 (393)
Q Consensus 11 ~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~Al~~~niep 72 (393)
.+|..+|+ |+.-...+..+--..+.+-+.+...-=+....+.=|.+.+-.||+..|++|
T Consensus 18 ~Lar~Lgl---s~~~I~~i~~~~p~~l~eQv~~mL~~W~~r~G~~ATv~~L~~aL~~~~~~~ 76 (83)
T cd08319 18 QVLLDLGL---SQTDIYRCKENHPHNVQSQIVEALVKWRQRFGKKATVQSLIQSLKAVEVDP 76 (83)
T ss_pred HHHHHcCC---CHHHHHHHHHhCCCCHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHcCCCH
Confidence 34555555 566666666665555655555554433333336888999999999999986
No 235
>PLN03025 replication factor C subunit; Provisional
Probab=20.98 E-value=2.3e+02 Score=27.88 Aligned_cols=54 Identities=7% Similarity=0.041 Sum_probs=37.3
Q ss_pred HHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHhhHHHH
Q 016189 8 TIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHAHRTVLTANDVDSA 64 (393)
Q Consensus 8 ~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hskR~~Lt~~Di~~A 64 (393)
.++.+|+.-|+ .+++++++.|++...-.+|.++.+-- .+. .+...+|.+||...
T Consensus 166 ~L~~i~~~egi-~i~~~~l~~i~~~~~gDlR~aln~Lq-~~~-~~~~~i~~~~v~~~ 219 (319)
T PLN03025 166 RLMKVVEAEKV-PYVPEGLEAIIFTADGDMRQALNNLQ-ATH-SGFGFVNQENVFKV 219 (319)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHH-HHH-hcCCCCCHHHHHHH
Confidence 45667778888 58899999998888877777776654 222 22356777777643
No 236
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=20.77 E-value=3.6e+02 Score=27.19 Aligned_cols=59 Identities=8% Similarity=-0.012 Sum_probs=45.6
Q ss_pred hHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHhCCCccCHhhHHHHh
Q 016189 6 KETIEVIAQSIGVYNLSSDVALALAPDVEYRVRE--------IMQEAIKCMRHAHRTVLTANDVDSAL 65 (393)
Q Consensus 6 ~~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~--------iiq~a~k~~~hskR~~Lt~~Di~~Al 65 (393)
.+.|...-+.+.-=.++|++.+.+++-+.. .+. +++-|...+-..+|..++.+||+.+.
T Consensus 237 ~~~i~~a~~~~~~V~v~~~~~~yi~~l~~~-~~~~s~Ra~i~l~~aA~a~A~l~Gr~~V~~~Di~~~~ 303 (334)
T PRK13407 237 RGRILGARARLPQLKTPNTVLHDCAALCIA-LGSDGLRGELTLLRAARALAAFEGAEAVGRSHLRSVA 303 (334)
T ss_pred HHHHHHHHHhcCCcccCHHHHHHHHHHHHH-HCCCCchHHHHHHHHHHHHHHHcCCCeeCHHHHHHHH
Confidence 355666666665556899888888877743 221 88999999999999999999998876
No 237
>COG2058 RPP1A Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]
Probab=20.61 E-value=1.9e+02 Score=24.49 Aligned_cols=42 Identities=19% Similarity=0.357 Sum_probs=30.8
Q ss_pred CCChHHHHHHHHHcCCCCCCHHHHHHHHHHHHHH-HHHHHHHHH
Q 016189 3 IVPKETIEVIAQSIGVYNLSSDVALALAPDVEYR-VREIMQEAI 45 (393)
Q Consensus 3 ~~~~~~i~~iaes~G~~~ls~~~a~~La~dve~r-l~~iiq~a~ 45 (393)
.++.+.|+.+.+.+|+ .+.+.=++.|..-++-. |.++|.++.
T Consensus 16 ei~e~~l~~vl~aaGv-eve~~r~k~lvaaLeg~~idE~i~~~~ 58 (109)
T COG2058 16 EITEDNLKSVLEAAGV-EVEEARAKALVAALEGVDIDEVIKNAA 58 (109)
T ss_pred cCCHHHHHHHHHHcCC-CccHHHHHHHHHHhcCCCHHHHHHHhc
Confidence 5788999999999999 48887777777666543 555555543
No 238
>PF11865 DUF3385: Domain of unknown function (DUF3385); InterPro: IPR024585 This uncharacterised domain is is typically between 160 to 172 amino acids in length. It is found in the phosphatidylinositol kinase-related protein kinases TOR (target of rapamycin). In Saccharomyces cerevisiae the TOR proteins, TOR1 and TOR2, regulate growth in a rapamycin-sensitive manner [].
Probab=20.21 E-value=4.2e+02 Score=23.50 Aligned_cols=49 Identities=22% Similarity=0.457 Sum_probs=30.7
Q ss_pred HHHHHHHHHHhhcCCCcccccchhhhHHHHHHHHhccccCCCCCCcchHHHHHHHHHHHHHH
Q 016189 230 LFALMRVARSLLRNPHIHIEPYLHQMMPSVITCLVSKRLGNRFSDNHWDLRNFVADLIASIC 291 (393)
Q Consensus 230 L~~ll~~v~ALl~N~~l~ie~YlHqLlpslltcll~k~l~~~~~~~h~~LR~~AA~lL~~I~ 291 (393)
+..+|.+. +...+..-+|+-|++|.++.++=. .++ ++|++-=.-|+.++
T Consensus 108 v~ai~~If----~~l~~~cv~~L~~viP~~l~~i~~-------~~~--~~~e~~~~qL~~lv 156 (160)
T PF11865_consen 108 VQAIMYIF----KSLGLKCVPYLPQVIPIFLRVIRT-------CPD--SLREFYFQQLADLV 156 (160)
T ss_pred HHHHHHHH----HhcCcCchhHHHHHhHHHHHHHHh-------CCH--HHHHHHHHHHHHHH
Confidence 33444444 445566699999999999999721 112 66776555554443
No 239
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=20.20 E-value=2.6e+02 Score=30.75 Aligned_cols=60 Identities=17% Similarity=0.160 Sum_probs=42.7
Q ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CCCccCHhhHHHHhhh
Q 016189 7 ETIEVIAQSIGVYNLSSDVALALAPDVEYRVREIMQEAIKCMRHA--HRTVLTANDVDSALNL 67 (393)
Q Consensus 7 ~~i~~iaes~G~~~ls~~~a~~La~dve~rl~~iiq~a~k~~~hs--kR~~Lt~~Di~~Al~~ 67 (393)
+-++..|+.-|+ .+++|++..|++.++--++++..-..++..++ .++.+|.+.+..+|+.
T Consensus 453 aIL~kka~~r~l-~l~~eVi~yLa~r~~rnvR~LegaL~rL~a~a~~~~~~itl~la~~vL~~ 514 (617)
T PRK14086 453 AILRKKAVQEQL-NAPPEVLEFIASRISRNIRELEGALIRVTAFASLNRQPVDLGLTEIVLRD 514 (617)
T ss_pred HHHHHHHHhcCC-CCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHH
Confidence 345567778888 69999999999999866666555444333332 3466999999888864
Done!