Query 032408
Match_columns 141
No_of_seqs 107 out of 302
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 13:42:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032408.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032408hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF15630 CENP-S: Kinetochore c 100.0 3.2E-33 6.9E-38 195.9 7.8 76 24-99 1-76 (76)
2 cd07979 TAF9 TATA Binding Prot 99.5 1.9E-14 4.1E-19 107.5 7.1 60 33-95 6-65 (117)
3 cd00076 H4 Histone H4, one of 99.4 4.1E-13 8.9E-18 96.1 6.9 63 32-97 17-79 (85)
4 COG2036 HHT1 Histones H3 and H 99.4 5.6E-13 1.2E-17 96.6 7.5 62 32-96 23-84 (91)
5 PLN00035 histone H4; Provision 99.4 4.7E-13 1E-17 99.0 7.1 63 32-97 33-95 (103)
6 PTZ00015 histone H4; Provision 99.4 1.7E-12 3.8E-17 95.8 7.0 63 32-97 34-96 (102)
7 PF15511 CENP-T: Centromere ki 99.3 2.2E-12 4.7E-17 113.2 6.7 56 33-88 356-414 (414)
8 smart00803 TAF TATA box bindin 99.3 8.9E-12 1.9E-16 84.8 6.6 59 33-94 7-65 (65)
9 smart00576 BTP Bromodomain tra 99.2 5.5E-11 1.2E-15 82.3 8.2 67 27-96 5-71 (77)
10 PF02291 TFIID-31kDa: Transcri 99.2 3.1E-11 6.7E-16 92.1 6.8 58 34-94 18-75 (129)
11 smart00417 H4 Histone H4. 99.2 3.3E-11 7.3E-16 84.4 5.3 57 32-91 17-73 (74)
12 cd07981 TAF12 TATA Binding Pro 99.1 3.1E-10 6.8E-15 78.0 6.7 53 46-98 17-69 (72)
13 KOG3334 Transcription initiati 99.1 3.1E-10 6.7E-15 88.5 6.8 59 34-95 19-77 (148)
14 PF00125 Histone: Core histone 98.9 7.6E-09 1.7E-13 69.8 8.1 65 31-95 8-74 (75)
15 smart00428 H3 Histone H3. 98.8 9.4E-09 2E-13 76.3 6.9 65 30-94 35-99 (105)
16 PF07524 Bromo_TP: Bromodomain 98.8 3.9E-08 8.5E-13 67.5 8.3 67 27-96 5-71 (77)
17 PF00808 CBFD_NFYB_HMF: Histon 98.5 4E-07 8.7E-12 60.5 6.9 59 33-93 7-65 (65)
18 cd08050 TAF6 TATA Binding Prot 98.5 3.6E-07 7.8E-12 78.4 7.2 60 33-95 4-63 (343)
19 COG5094 TAF9 Transcription ini 98.4 4.1E-07 8.9E-12 70.2 5.1 56 37-95 23-81 (145)
20 PF02969 TAF: TATA box binding 98.4 1.4E-06 3.1E-11 59.8 7.2 59 33-94 8-66 (66)
21 cd00074 H2A Histone 2A; H2A is 98.4 9.8E-07 2.1E-11 66.3 6.2 80 26-105 15-95 (115)
22 PLN00161 histone H3; Provision 98.2 6.2E-06 1.3E-10 63.8 7.4 61 34-94 61-124 (135)
23 PLN00160 histone H3; Provision 98.2 6.2E-06 1.3E-10 60.6 6.4 63 31-94 28-90 (97)
24 KOG0870 DNA polymerase epsilon 98.1 2.2E-05 4.9E-10 62.7 9.6 85 33-117 15-101 (172)
25 PTZ00018 histone H3; Provision 98.0 1.3E-05 2.8E-10 62.1 6.2 60 35-94 69-130 (136)
26 PLN00121 histone H3; Provision 98.0 1.5E-05 3.2E-10 61.7 6.5 60 35-94 69-130 (136)
27 KOG3467 Histone H4 [Chromatin 97.9 3.5E-05 7.6E-10 56.5 6.5 64 31-97 32-95 (103)
28 PF02269 TFIID-18kDa: Transcri 97.9 9.4E-06 2E-10 58.5 3.4 61 48-108 19-79 (93)
29 cd07978 TAF13 The TATA Binding 97.5 0.0009 2E-08 48.4 8.1 60 48-108 20-79 (92)
30 KOG0869 CCAAT-binding factor, 97.4 0.001 2.2E-08 53.1 8.7 80 32-112 36-117 (168)
31 PF03847 TFIID_20kDa: Transcri 97.4 0.00064 1.4E-08 46.7 6.1 52 45-96 14-65 (68)
32 KOG4336 TBP-associated transcr 97.2 0.0012 2.7E-08 57.2 7.1 71 33-106 10-84 (323)
33 KOG2389 Predicted bromodomain 97.2 0.0012 2.6E-08 58.0 6.9 69 24-95 25-93 (353)
34 KOG1745 Histones H3 and H4 [Ch 96.8 0.0013 2.9E-08 51.1 3.3 62 33-94 68-131 (137)
35 KOG2549 Transcription initiati 96.7 0.0055 1.2E-07 56.8 7.2 60 33-95 16-75 (576)
36 smart00414 H2A Histone 2A. 96.6 0.0055 1.2E-07 45.4 5.5 79 27-105 5-84 (106)
37 smart00427 H2B Histone H2B. 96.4 0.022 4.7E-07 41.4 7.4 60 34-95 7-66 (89)
38 KOG0871 Class 2 transcription 96.4 0.022 4.7E-07 45.2 7.9 93 32-126 16-108 (156)
39 PLN00154 histone H2A; Provisio 96.1 0.018 4E-07 44.7 6.0 80 25-104 32-113 (136)
40 PTZ00463 histone H2B; Provisio 96.0 0.035 7.6E-07 42.3 7.0 64 30-95 30-93 (117)
41 PTZ00017 histone H2A; Provisio 96.0 0.015 3.3E-07 45.0 5.1 81 25-105 21-102 (134)
42 PLN00158 histone H2B; Provisio 95.9 0.051 1.1E-06 41.3 7.4 65 29-95 28-92 (116)
43 PLN00157 histone H2A; Provisio 95.7 0.02 4.4E-07 44.3 4.7 81 25-105 20-101 (132)
44 KOG1142 Transcription initiati 95.5 0.018 3.9E-07 48.9 4.0 50 47-96 171-220 (258)
45 KOG3901 Transcription initiati 95.2 0.1 2.2E-06 39.3 7.0 59 47-108 26-84 (109)
46 PLN00156 histone H2AX; Provisi 95.0 0.06 1.3E-06 42.1 5.4 80 26-105 24-104 (139)
47 COG5248 TAF19 Transcription in 95.0 0.13 2.8E-06 39.3 7.0 59 48-108 27-85 (126)
48 PLN00153 histone H2A; Provisio 94.9 0.062 1.3E-06 41.5 5.1 81 25-105 18-99 (129)
49 KOG1744 Histone H2B [Chromatin 94.7 0.097 2.1E-06 40.4 5.7 66 28-95 37-102 (127)
50 PTZ00252 histone H2A; Provisio 94.1 0.12 2.7E-06 40.1 5.2 79 26-105 20-102 (134)
51 KOG1756 Histone 2A [Chromatin 94.1 0.15 3.3E-06 39.5 5.5 80 25-104 21-101 (131)
52 PRK07452 DNA polymerase III su 93.6 0.28 6.1E-06 40.6 6.8 62 34-95 135-198 (326)
53 PRK07914 hypothetical protein; 92.0 0.55 1.2E-05 39.3 6.6 65 32-97 131-195 (320)
54 PRK05907 hypothetical protein; 91.8 0.47 1E-05 40.5 6.0 66 32-97 137-204 (311)
55 PRK06585 holA DNA polymerase I 91.7 0.64 1.4E-05 38.9 6.6 64 33-96 146-210 (343)
56 PRK05629 hypothetical protein; 91.6 0.83 1.8E-05 38.2 7.1 65 32-97 129-193 (318)
57 PRK08487 DNA polymerase III su 90.9 1.1 2.4E-05 37.7 7.3 62 33-96 139-200 (328)
58 TIGR01128 holA DNA polymerase 90.7 1.5 3.3E-05 35.3 7.6 64 33-96 115-178 (302)
59 COG5095 TAF6 Transcription ini 90.4 0.77 1.7E-05 41.1 6.0 58 35-95 12-69 (450)
60 COG5262 HTA1 Histone H2A [Chro 89.2 1.2 2.6E-05 34.4 5.6 82 25-106 20-102 (132)
61 TIGR02902 spore_lonB ATP-depen 88.6 1.9 4.2E-05 39.2 7.5 62 34-95 268-331 (531)
62 PRK05574 holA DNA polymerase I 88.4 2.4 5.2E-05 34.8 7.3 64 33-97 150-214 (340)
63 cd08045 TAF4 TATA Binding Prot 87.6 2.7 5.8E-05 33.8 6.9 66 32-97 48-120 (212)
64 PRK14962 DNA polymerase III su 86.9 3.5 7.5E-05 37.3 8.0 78 34-114 181-258 (472)
65 COG1466 HolA DNA polymerase II 85.9 3.1 6.6E-05 35.3 6.7 63 34-96 145-207 (334)
66 PF13654 AAA_32: AAA domain; P 85.4 5 0.00011 36.8 8.2 64 29-95 431-505 (509)
67 PRK12402 replication factor C 85.1 4.6 0.0001 32.9 7.3 61 33-95 188-248 (337)
68 COG5150 Class 2 transcription 85.1 5.7 0.00012 31.2 7.3 75 32-108 15-89 (148)
69 PRK04195 replication factor C 82.5 3.7 8E-05 36.6 6.0 62 33-96 164-225 (482)
70 PRK00440 rfc replication facto 81.8 8 0.00017 31.2 7.3 61 34-96 166-226 (319)
71 PRK13765 ATP-dependent proteas 81.8 13 0.00027 35.2 9.5 70 34-103 324-407 (637)
72 TIGR00764 lon_rel lon-related 81.8 16 0.00035 34.0 10.1 73 31-105 315-400 (608)
73 PF05236 TAF4: Transcription i 81.7 2 4.4E-05 35.5 3.9 71 28-101 47-123 (264)
74 PRK14970 DNA polymerase III su 81.4 4.8 0.0001 34.0 6.1 62 33-95 171-232 (367)
75 PRK00411 cdc6 cell division co 78.7 16 0.00034 30.8 8.3 49 48-96 228-282 (394)
76 TIGR02397 dnaX_nterm DNA polym 78.1 6.9 0.00015 32.3 5.9 62 33-95 180-241 (355)
77 KOG3902 Histone acetyltransfer 77.9 12 0.00026 33.1 7.5 64 48-111 42-107 (352)
78 PRK08727 hypothetical protein; 77.0 8.6 0.00019 30.9 6.1 63 34-97 167-232 (233)
79 CHL00081 chlI Mg-protoporyphyr 76.4 14 0.00031 32.4 7.6 60 35-94 254-320 (350)
80 TIGR03015 pepcterm_ATPase puta 75.9 13 0.00029 29.3 6.8 49 47-95 214-265 (269)
81 TIGR02030 BchI-ChlI magnesium 75.0 11 0.00023 32.7 6.5 60 35-94 241-307 (337)
82 PF06144 DNA_pol3_delta: DNA p 74.2 8.4 0.00018 28.4 5.0 44 33-76 128-171 (172)
83 PRK14964 DNA polymerase III su 73.5 17 0.00037 33.3 7.7 57 36-93 182-238 (491)
84 PRK00149 dnaA chromosomal repl 73.5 15 0.00033 32.3 7.1 73 22-95 261-348 (450)
85 PF09415 CENP-X: CENP-S associ 72.4 4.1 8.8E-05 28.2 2.7 60 33-92 4-64 (72)
86 TIGR02031 BchD-ChlD magnesium 72.4 12 0.00026 34.6 6.5 50 45-94 200-256 (589)
87 PRK14955 DNA polymerase III su 70.4 13 0.00029 32.3 6.0 59 35-93 192-254 (397)
88 PRK14950 DNA polymerase III su 70.2 27 0.00059 32.2 8.2 63 33-96 183-245 (585)
89 PF09123 DUF1931: Domain of un 70.1 12 0.00025 29.4 5.0 67 35-108 2-68 (138)
90 PRK13407 bchI magnesium chelat 69.8 22 0.00047 30.8 7.2 59 35-93 238-303 (334)
91 PLN03025 replication factor C 69.5 28 0.00061 29.0 7.6 58 35-94 164-221 (319)
92 PRK09111 DNA polymerase III su 69.0 14 0.00031 34.5 6.2 59 35-94 197-255 (598)
93 PRK08903 DnaA regulatory inact 68.3 35 0.00075 26.6 7.5 60 34-94 162-224 (227)
94 PRK14087 dnaA chromosomal repl 67.3 59 0.0013 29.1 9.6 79 17-95 251-347 (450)
95 TIGR02442 Cob-chelat-sub cobal 67.0 35 0.00075 31.8 8.3 50 45-94 246-302 (633)
96 KOG1942 DNA helicase, TBP-inte 66.4 18 0.00038 32.7 6.0 60 34-93 372-435 (456)
97 COG1224 TIP49 DNA helicase TIP 65.9 16 0.00036 33.3 5.8 61 34-94 366-430 (450)
98 PRK06645 DNA polymerase III su 64.9 19 0.00042 33.0 6.1 60 36-95 194-255 (507)
99 COG1067 LonB Predicted ATP-dep 64.2 64 0.0014 30.8 9.5 84 23-108 315-411 (647)
100 PRK14963 DNA polymerase III su 63.9 33 0.00071 31.4 7.4 60 36-97 182-241 (504)
101 cd08048 TAF11 TATA Binding Pro 63.5 51 0.0011 23.4 7.1 67 27-96 14-84 (85)
102 PRK09087 hypothetical protein; 63.4 58 0.0013 26.2 8.1 60 34-94 158-220 (226)
103 PRK00080 ruvB Holliday junctio 62.3 50 0.0011 27.6 7.7 63 33-95 184-249 (328)
104 TIGR00635 ruvB Holliday juncti 60.9 58 0.0013 26.4 7.7 61 35-95 165-228 (305)
105 PF12909 DUF3832: Protein of u 59.9 17 0.00038 26.2 4.0 33 51-83 36-68 (89)
106 PF11867 DUF3387: Domain of un 59.0 23 0.0005 30.3 5.2 43 24-72 292-334 (335)
107 PRK14952 DNA polymerase III su 58.7 52 0.0011 30.8 7.9 59 37-95 185-243 (584)
108 TIGR03420 DnaA_homol_Hda DnaA 58.5 69 0.0015 24.5 7.4 57 35-92 165-224 (226)
109 PRK07764 DNA polymerase III su 57.7 66 0.0014 31.4 8.6 64 32-95 182-245 (824)
110 PRK05896 DNA polymerase III su 57.6 73 0.0016 30.2 8.7 60 33-93 182-241 (605)
111 PF08369 PCP_red: Proto-chloro 57.0 9.5 0.00021 24.0 2.0 25 67-91 19-43 (45)
112 TIGR00362 DnaA chromosomal rep 56.8 63 0.0014 27.8 7.6 60 34-94 273-335 (405)
113 PRK14971 DNA polymerase III su 56.7 32 0.00069 32.2 6.1 58 35-93 186-243 (614)
114 PRK14954 DNA polymerase III su 56.6 35 0.00077 32.1 6.5 57 37-93 194-254 (620)
115 TIGR02933 nifM_nitrog nitrogen 55.2 1.2E+02 0.0025 24.9 8.7 67 31-97 34-115 (256)
116 PRK14961 DNA polymerase III su 54.6 72 0.0016 27.3 7.6 56 34-93 183-241 (363)
117 PRK08691 DNA polymerase III su 53.9 78 0.0017 30.7 8.3 56 37-96 186-244 (709)
118 PRK06893 DNA replication initi 53.7 85 0.0019 25.0 7.5 60 33-93 165-227 (229)
119 PRK06620 hypothetical protein; 51.8 1.2E+02 0.0026 24.2 8.0 58 34-92 152-212 (214)
120 PRK06647 DNA polymerase III su 50.9 78 0.0017 29.4 7.7 59 34-93 183-241 (563)
121 PRK08084 DNA replication initi 49.7 1.2E+02 0.0026 24.3 7.8 59 33-92 171-232 (235)
122 COG5208 HAP5 CCAAT-binding fac 49.6 44 0.00094 28.6 5.3 72 25-96 103-175 (286)
123 PRK14959 DNA polymerase III su 49.6 89 0.0019 29.8 7.9 57 36-93 185-241 (624)
124 PHA02544 44 clamp loader, smal 48.9 1.3E+02 0.0029 24.5 8.0 49 42-93 180-228 (316)
125 KOG2680 DNA helicase TIP49, TB 48.5 80 0.0017 28.7 7.0 60 34-93 363-426 (454)
126 PRK06305 DNA polymerase III su 48.2 1.2E+02 0.0025 27.3 8.1 59 33-95 184-245 (451)
127 PRK14958 DNA polymerase III su 47.4 65 0.0014 29.5 6.5 54 38-95 187-243 (509)
128 PRK14957 DNA polymerase III su 47.3 1.1E+02 0.0023 28.6 7.9 60 35-95 184-243 (546)
129 TIGR02903 spore_lon_C ATP-depe 43.8 67 0.0015 30.0 6.1 64 34-97 358-431 (615)
130 PRK13406 bchD magnesium chelat 43.2 94 0.002 29.1 7.0 49 46-94 193-248 (584)
131 PF12824 MRP-L20: Mitochondria 42.5 71 0.0015 25.3 5.3 52 18-75 89-142 (164)
132 PRK14953 DNA polymerase III su 42.0 77 0.0017 28.8 6.1 55 35-93 184-241 (486)
133 smart00350 MCM minichromosome 39.7 44 0.00095 30.2 4.2 29 66-94 474-502 (509)
134 PF15011 CK2S: Casein Kinase 2 38.5 1.9E+02 0.0042 22.7 8.5 74 22-104 57-130 (168)
135 PRK08451 DNA polymerase III su 38.2 1.7E+02 0.0037 27.3 7.8 53 39-95 186-241 (535)
136 PRK14969 DNA polymerase III su 38.0 1.8E+02 0.004 26.6 7.9 49 43-95 192-243 (527)
137 PHA01513 mnt Mnt 36.6 55 0.0012 23.5 3.5 42 38-79 20-63 (82)
138 PRK12422 chromosomal replicati 36.5 3.2E+02 0.0069 24.5 9.5 73 21-94 251-341 (445)
139 PRK13531 regulatory ATPase Rav 34.7 1.8E+02 0.004 27.1 7.4 47 46-92 221-280 (498)
140 PRK14960 DNA polymerase III su 34.6 1.1E+02 0.0024 29.7 6.1 58 35-93 183-240 (702)
141 PRK14965 DNA polymerase III su 34.1 1.1E+02 0.0025 28.2 6.0 52 37-92 186-240 (576)
142 PRK13342 recombination factor 33.9 3.2E+02 0.0069 23.8 8.5 67 46-114 170-245 (413)
143 PRK14700 recombination factor 33.2 3.3E+02 0.0072 23.8 8.8 71 46-116 62-143 (300)
144 PRK04132 replication factor C 33.2 1.9E+02 0.0042 28.6 7.6 51 43-95 703-753 (846)
145 KOG1757 Histone 2A [Chromatin 32.5 93 0.002 24.0 4.3 85 22-106 21-107 (131)
146 PF11186 DUF2972: Protein of u 31.6 2.1E+02 0.0046 23.0 6.5 52 57-108 117-168 (199)
147 PTZ00361 26 proteosome regulat 30.7 58 0.0013 29.4 3.4 37 59-95 387-423 (438)
148 COG1222 RPT1 ATP-dependent 26S 30.2 66 0.0014 29.3 3.6 35 61-95 357-391 (406)
149 PF01295 Adenylate_cycl: Adeny 29.3 1.3E+02 0.0028 28.6 5.5 28 69-96 169-197 (604)
150 PRK14088 dnaA chromosomal repl 29.2 2.8E+02 0.006 24.7 7.4 72 22-94 244-330 (440)
151 PF13624 SurA_N_3: SurA N-term 29.1 2.3E+02 0.0049 20.6 6.1 70 26-96 75-147 (154)
152 PF02861 Clp_N: Clp amino term 28.9 92 0.002 18.5 3.2 35 72-106 1-37 (53)
153 PHA02943 hypothetical protein; 28.8 59 0.0013 26.2 2.8 60 47-106 57-117 (165)
154 PF14069 SpoVIF: Stage VI spor 28.8 1.2E+02 0.0027 21.4 4.2 44 32-77 31-74 (79)
155 PF07765 KIP1: KIP1-like prote 28.2 2E+02 0.0044 20.3 5.1 41 61-111 27-67 (74)
156 PRK05563 DNA polymerase III su 28.1 1.8E+02 0.0038 26.9 6.2 54 35-92 184-240 (559)
157 PRK14086 dnaA chromosomal repl 26.9 3.2E+02 0.0068 26.2 7.7 72 22-94 427-513 (617)
158 TIGR02928 orc1/cdc6 family rep 26.8 3.7E+02 0.0079 22.2 8.3 48 48-95 220-273 (365)
159 KOG3811 Transcription factor A 26.8 3.6E+02 0.0078 24.9 7.7 66 23-88 236-325 (434)
160 PF12767 SAGA-Tad1: Transcript 26.7 2.1E+02 0.0045 23.4 5.8 44 29-75 207-250 (252)
161 COG2045 Phosphosulfolactate ph 26.1 1.1E+02 0.0025 25.7 4.2 58 31-96 150-211 (230)
162 PRK07133 DNA polymerase III su 26.1 1.9E+02 0.0041 28.1 6.2 54 35-92 183-239 (725)
163 TIGR01242 26Sp45 26S proteasom 26.0 1.9E+02 0.0041 24.6 5.6 33 63-95 330-362 (364)
164 PF11216 DUF3012: Protein of u 25.9 45 0.00098 20.1 1.3 12 68-79 19-30 (32)
165 COG0593 DnaA ATPase involved i 24.9 5.2E+02 0.011 23.4 8.4 73 22-95 225-312 (408)
166 PRK05642 DNA replication initi 24.7 3.7E+02 0.0079 21.5 7.3 55 34-89 171-228 (234)
167 PLN03199 delta6-acyl-lipid des 24.4 1.5E+02 0.0032 26.9 4.9 43 33-76 435-479 (485)
168 PRK14948 DNA polymerase III su 24.2 3.8E+02 0.0082 25.3 7.6 51 40-92 191-241 (620)
169 COG1239 ChlI Mg-chelatase subu 24.0 4E+02 0.0086 24.5 7.5 72 22-93 241-319 (423)
170 PRK14951 DNA polymerase III su 24.0 3.6E+02 0.0078 25.6 7.5 53 37-93 191-246 (618)
171 PF09487 HrpB2: Bacterial type 23.3 1.8E+02 0.0038 22.2 4.4 33 51-83 42-74 (117)
172 COG0184 RpsO Ribosomal protein 23.2 1.1E+02 0.0024 22.1 3.1 36 73-108 13-48 (89)
173 cd01670 Death Death Domain: a 23.2 2.2E+02 0.0047 18.3 5.5 47 62-111 3-49 (79)
174 PRK14127 cell division protein 21.8 3.5E+02 0.0075 20.2 6.0 42 60-111 27-68 (109)
175 COG0831 UreA Urea amidohydrola 21.3 3.6E+02 0.0077 20.1 6.6 60 27-90 8-70 (100)
176 PF02617 ClpS: ATP-dependent C 20.7 1.6E+02 0.0034 20.0 3.4 48 51-99 20-67 (82)
177 TIGR02558 HrpB2 type III secre 20.1 2.2E+02 0.0048 22.0 4.4 44 49-92 47-93 (124)
No 1
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=100.00 E-value=3.2e-33 Score=195.86 Aligned_cols=76 Identities=43% Similarity=0.648 Sum_probs=70.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcHHH
Q 032408 24 EILRDRFRLSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERL 99 (141)
Q Consensus 24 ~~LKaaL~y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~L 99 (141)
++||++|||+|++||++++.+.|+.+||+||++|+||+|.|+.++|.||++||+||||+||++|||+|++||||+|
T Consensus 1 ~~LKaal~~~v~ki~ee~~~~~~~~~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~~dDV~Ll~Rrn~~L 76 (76)
T PF15630_consen 1 QRLKAALWYTVGKIVEEEAKEKGVEVSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTINMDDVKLLARRNPSL 76 (76)
T ss_dssp HHHHHHHHHHHHHHHHHCCCCTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHTTT-HHH
T ss_pred ChHHHHHHHHHHHHHHHHHhccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHHHhhcCCCC
Confidence 5899999999999999999999999999999999999999999999999999999999999999999999999987
No 2
>cd07979 TAF9 TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. The TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAFs orthologs and paralogs. Human TAF9 has a paralogue gene (TAF9L) whi
Probab=99.54 E-value=1.9e-14 Score=107.50 Aligned_cols=60 Identities=22% Similarity=0.457 Sum_probs=55.0
Q ss_pred HHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 33 STISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 33 ~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
.|.+|+++.|.+ +|+++++.+|.|++|+|+.+++.|+..||+||||+||+.+||+|++..
T Consensus 6 ~v~~iLk~~Gv~---~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~ 65 (117)
T cd07979 6 VIAAILKSMGIT---EYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQS 65 (117)
T ss_pred HHHHHHHHCCCC---ccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 467777777666 899999999999999999999999999999999999999999999865
No 3
>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=99.43 E-value=4.1e-13 Score=96.09 Aligned_cols=63 Identities=22% Similarity=0.324 Sum_probs=59.5
Q ss_pred HHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcH
Q 032408 32 LSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNE 97 (141)
Q Consensus 32 y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~ 97 (141)
=+|.||++..|.. +||.++..++.+.+..|+++++.|+..||.|||||||+.+||.++++++.
T Consensus 17 ~~I~RLarr~Gvk---RIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr~g 79 (85)
T cd00076 17 PAIRRLARRGGVK---RISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKRQG 79 (85)
T ss_pred HHHHHHHHHcCcc---hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHCC
Confidence 3688999999877 99999999999999999999999999999999999999999999999875
No 4
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=99.42 E-value=5.6e-13 Score=96.59 Aligned_cols=62 Identities=27% Similarity=0.372 Sum_probs=59.3
Q ss_pred HHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhc
Q 032408 32 LSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRN 96 (141)
Q Consensus 32 y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn 96 (141)
-.|.||+++.|.+ +||.+++.+|.+.++.|+..|+.|+..||.||||+||+.+||.|+.+..
T Consensus 23 apv~Ri~r~~~~~---Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~~~ 84 (91)
T COG2036 23 APVRRILRKAGAE---RVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALKRL 84 (91)
T ss_pred hHHHHHHHHHhHH---HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHHHh
Confidence 4689999999999 9999999999999999999999999999999999999999999999764
No 5
>PLN00035 histone H4; Provisional
Probab=99.42 E-value=4.7e-13 Score=98.98 Aligned_cols=63 Identities=22% Similarity=0.270 Sum_probs=59.7
Q ss_pred HHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcH
Q 032408 32 LSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNE 97 (141)
Q Consensus 32 y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~ 97 (141)
-+|.||++..|.. +||.++..+|.+.+..|+++|+.|+..||+|||||||+++||.++++++.
T Consensus 33 ~~IrRLARr~Gvk---RIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~Alkr~g 95 (103)
T PLN00035 33 PAIRRLARRGGVK---RISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQG 95 (103)
T ss_pred HHHHHHHHHcCcc---cchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHcC
Confidence 5789999999888 99999999999999999999999999999999999999999999998864
No 6
>PTZ00015 histone H4; Provisional
Probab=99.36 E-value=1.7e-12 Score=95.78 Aligned_cols=63 Identities=21% Similarity=0.262 Sum_probs=59.7
Q ss_pred HHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcH
Q 032408 32 LSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNE 97 (141)
Q Consensus 32 y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~ 97 (141)
=+|.||++..|.. +||.++...+.+.+..|+++|+.|+..||+||+||||+.+||.++++++.
T Consensus 34 ~~IrRLarr~Gvk---RIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~AlKr~g 96 (102)
T PTZ00015 34 GAIRRLARRGGVK---RISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVYALKRQG 96 (102)
T ss_pred HHHHHHHHHcCCc---cchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHhcC
Confidence 4789999999888 99999999999999999999999999999999999999999999998864
No 7
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T.
Probab=99.33 E-value=2.2e-12 Score=113.16 Aligned_cols=56 Identities=34% Similarity=0.457 Sum_probs=45.1
Q ss_pred HHHHHHHHHHhh---cCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhh
Q 032408 33 STISIAEAEANQ---IGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMED 88 (141)
Q Consensus 33 ~V~rI~ee~~~~---~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eD 88 (141)
.|.+++...+.. .+++|+++++.+|..++.|||++||.||++||+|||||||+.+|
T Consensus 356 ~vK~la~~~ak~s~~sK~kiskdal~aleqasdwfFeQl~dDL~aYA~HAgRKTIdesD 414 (414)
T PF15511_consen 356 VVKKLAQHFAKSSGGSKMKISKDALEALEQASDWFFEQLGDDLEAYAKHAGRKTIDESD 414 (414)
T ss_dssp HHHHHHHHHH-------S-B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHH
T ss_pred HHHHHHHHHHHhhcccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCCCC
Confidence 577888888664 46899999999999999999999999999999999999999988
No 8
>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=99.29 E-value=8.9e-12 Score=84.75 Aligned_cols=59 Identities=12% Similarity=0.159 Sum_probs=55.8
Q ss_pred HHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHh
Q 032408 33 STISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAH 94 (141)
Q Consensus 33 ~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~R 94 (141)
+|.+|++..|.+ ++|.++...|.+.++.++.++++|+..|++||||+|++++||.++.|
T Consensus 7 ~i~ria~~~Gi~---ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk 65 (65)
T smart00803 7 TIKDVAESLGIG---NLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR 65 (65)
T ss_pred HHHHHHHHCCCc---cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence 588999999888 89999999999999999999999999999999999999999999874
No 9
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=99.23 E-value=5.5e-11 Score=82.26 Aligned_cols=67 Identities=19% Similarity=0.361 Sum_probs=62.2
Q ss_pred HHHHHHHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhc
Q 032408 27 RDRFRLSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRN 96 (141)
Q Consensus 27 KaaL~y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn 96 (141)
++-|.-+|.+||+..|.+ +++|.++..|++++.+|+..+++.+..||.||||++++..||.++....
T Consensus 5 ~~ll~~~Vaqil~~~Gf~---~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~~ 71 (77)
T smart00576 5 FALLRIAVAQILESAGFD---SFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALENL 71 (77)
T ss_pred HHHHHHHHHHHHHHcCcc---ccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHh
Confidence 345778899999999988 9999999999999999999999999999999999999999999998654
No 10
>PF02291 TFIID-31kDa: Transcription initiation factor IID, 31kD subunit; InterPro: IPR003162 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription []. TAFII-31 protein is a transcriptional coactivator of the p53 protein [].; GO: 0006352 transcription initiation, DNA-dependent; PDB: 1TAF_A.
Probab=99.21 E-value=3.1e-11 Score=92.11 Aligned_cols=58 Identities=24% Similarity=0.479 Sum_probs=47.9
Q ss_pred HHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHh
Q 032408 34 TISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAH 94 (141)
Q Consensus 34 V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~R 94 (141)
|..|+++.|.+ .++|.++.+|.|++|+|+.++..|+..||.||||++|+.+||+|++.
T Consensus 18 i~~iL~~~Gv~---~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~~~DVrLAi~ 75 (129)
T PF02291_consen 18 IHLILKSMGVT---EYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTIDADDVRLAIQ 75 (129)
T ss_dssp HHHHHHHTT------B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHHH
T ss_pred HHHHHHHcCCc---ccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCChHHHHHHHH
Confidence 45566666555 79999999999999999999999999999999999999999999997
No 11
>smart00417 H4 Histone H4.
Probab=99.19 E-value=3.3e-11 Score=84.40 Aligned_cols=57 Identities=23% Similarity=0.297 Sum_probs=54.2
Q ss_pred HHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHH
Q 032408 32 LSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVIL 91 (141)
Q Consensus 32 y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~L 91 (141)
-+|.||++..|.. +||.++...+.+.+..|+++++.|+..||+|||||||+.+||..
T Consensus 17 ~~IrRLaRr~Gvk---RIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~~ 73 (74)
T smart00417 17 PAIRRLARRGGVK---RISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVVY 73 (74)
T ss_pred HHHHHHHHHcCcc---hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHhee
Confidence 4789999999988 99999999999999999999999999999999999999999964
No 12
>cd07981 TAF12 TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of the seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs function such as serving as activator-bind
Probab=99.09 E-value=3.1e-10 Score=78.01 Aligned_cols=53 Identities=17% Similarity=0.285 Sum_probs=50.3
Q ss_pred CCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcHH
Q 032408 46 GMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNER 98 (141)
Q Consensus 46 ~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~ 98 (141)
+.++++++..+|.+++..|+.+++.++..+|+|+||+||+.+||.|+.+|+-.
T Consensus 17 ~~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r~~~ 69 (72)
T cd07981 17 REQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLERNWN 69 (72)
T ss_pred CCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhcC
Confidence 46899999999999999999999999999999999999999999999998753
No 13
>KOG3334 consensus Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=99.08 E-value=3.1e-10 Score=88.49 Aligned_cols=59 Identities=25% Similarity=0.428 Sum_probs=54.3
Q ss_pred HHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 34 TISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 34 V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
|..|+++.|.. +++|.+|++|.|+.|+|...|.+|+..||.|||+.+|++|||+|+++-
T Consensus 19 i~~iL~s~GI~---eyEprVi~qlLefa~rYtt~vL~DA~vys~HA~ka~i~~eDVrlA~~~ 77 (148)
T KOG3334|consen 19 IASILKSLGIQ---EYEPRVINQLLEFAYRYTTTVLDDAKVYSSHAKKATIDAEDVRLAIQM 77 (148)
T ss_pred HHHHHHHcCcc---ccChHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCcHHHHHHHHHH
Confidence 55677777776 799999999999999999999999999999999999999999999875
No 14
>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=98.92 E-value=7.6e-09 Score=69.77 Aligned_cols=65 Identities=15% Similarity=0.214 Sum_probs=60.2
Q ss_pred HHHHHHHHHHHHhhcC--CccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 31 RLSTISIAEAEANQIG--MEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 31 ~y~V~rI~ee~~~~~~--~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
...|.|++++.+...+ +++|.+++..|..+++.++.++..++..+|.|+||+||++.||.+++|.
T Consensus 8 ~~~~~r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r~ 74 (75)
T PF00125_consen 8 KFPFSRLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLAVRI 74 (75)
T ss_dssp HHHHHHHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHHH
T ss_pred ceEEeeeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHHHhc
Confidence 4678999999987644 7999999999999999999999999999999999999999999999975
No 15
>smart00428 H3 Histone H3.
Probab=98.85 E-value=9.4e-09 Score=76.27 Aligned_cols=65 Identities=23% Similarity=0.309 Sum_probs=54.7
Q ss_pred HHHHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHh
Q 032408 30 FRLSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAH 94 (141)
Q Consensus 30 L~y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~R 94 (141)
+..-|..|+.+.....+++|+++++.+|-|.++.|+.++..|....|.||||.||.+.|+.|+.|
T Consensus 35 F~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi~La~r 99 (105)
T smart00428 35 FQRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQLARR 99 (105)
T ss_pred HHHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhHHHHHH
Confidence 33445555555432236899999999999999999999999999999999999999999999976
No 16
>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=98.80 E-value=3.9e-08 Score=67.46 Aligned_cols=67 Identities=22% Similarity=0.366 Sum_probs=61.9
Q ss_pred HHHHHHHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhc
Q 032408 27 RDRFRLSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRN 96 (141)
Q Consensus 27 KaaL~y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn 96 (141)
+..|..+|.+|+...|-+ .+++.++..|++++..|+.+++..+..||.|+||...+..||.++....
T Consensus 5 ~~~l~~~va~il~~~GF~---~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~~~ 71 (77)
T PF07524_consen 5 RSLLRRSVAQILKHAGFD---SASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQALEEM 71 (77)
T ss_pred HHHHHHHHHHHHHHcCcc---ccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHh
Confidence 567888999999999877 8999999999999999999999999999999999999999999887543
No 17
>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=98.53 E-value=4e-07 Score=60.48 Aligned_cols=59 Identities=27% Similarity=0.336 Sum_probs=51.3
Q ss_pred HHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHH
Q 032408 33 STISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSA 93 (141)
Q Consensus 33 ~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~ 93 (141)
.|.||++.. ..+..+|.+++..|..++..|+..|+.++..+|.+.||+||+.+||..++
T Consensus 7 ~vkri~k~~--~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~~rkti~~~Dv~~Av 65 (65)
T PF00808_consen 7 RVKRIMKSD--PDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTITYEDVAKAV 65 (65)
T ss_dssp HHHHHHHHT--STTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE-HHHHHHHH
T ss_pred HHHHHhccC--CCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHC
Confidence 467888877 44678999999999999999999999999999999999999999998763
No 18
>cd08050 TAF6 TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and are involved in forming Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs functions such as serving as
Probab=98.49 E-value=3.6e-07 Score=78.37 Aligned_cols=60 Identities=17% Similarity=0.185 Sum_probs=54.8
Q ss_pred HHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 33 STISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 33 ~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
+|.-|++..|.+ ++++++...|.+.++.++.++++++..|++|+||+|++++||.++.|.
T Consensus 4 ~i~~ia~~~Gi~---~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~~ 63 (343)
T cd08050 4 SIKLIAESLGID---SLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALRL 63 (343)
T ss_pred HHHHHHHHcCCC---cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHH
Confidence 456677777666 999999999999999999999999999999999999999999999875
No 19
>COG5094 TAF9 Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=98.41 E-value=4.1e-07 Score=70.24 Aligned_cols=56 Identities=25% Similarity=0.411 Sum_probs=49.0
Q ss_pred HHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcc---chhhHHHHHhh
Q 032408 37 IAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSV---RMEDVILSAHR 95 (141)
Q Consensus 37 I~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI---~~eDV~Ll~Rr 95 (141)
|+.+.|.+ .+++.+.-+|.++.++|.+++.+|+..||+|+||..| .++||+|++..
T Consensus 23 iL~Slgi~---~ye~~VplQLl~FAhRYTq~vl~Dalvya~htgrg~~a~l~veDvrLA~at 81 (145)
T COG5094 23 ILRSLGIE---EYEPKVPLQLLEFAHRYTQDVLEDALVYAKHTGRGHIATLGVEDVRLALAT 81 (145)
T ss_pred HHHhcCch---hhCccchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCcccHHHHHHHHHH
Confidence 56666666 7999999999999999999999999999999999855 45999998754
No 20
>PF02969 TAF: TATA box binding protein associated factor (TAF); InterPro: IPR004823 The TATA box binding protein associated factor (TAF) is part of the transcription initiation factor TFIID multimeric protein complex. TFIID plays a central role in mediating promoter responses to various activators and repressors. It binds tightly to TAFII-250 and directly interacts with TAFII-40. TFIID is composed of TATA binding protein (TBP)and a number of TBP-associated factors (TAFS). TAF proteins adopt a histone-like fold.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus; PDB: 1TAF_B.
Probab=98.41 E-value=1.4e-06 Score=59.79 Aligned_cols=59 Identities=15% Similarity=0.187 Sum_probs=46.5
Q ss_pred HHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHh
Q 032408 33 STISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAH 94 (141)
Q Consensus 33 ~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~R 94 (141)
+|.-|++..|.. .+++++...|.+-+.-.+.+|.+|+..|++|++|++++++||..+.|
T Consensus 8 svk~iAes~Gi~---~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di~~ALr 66 (66)
T PF02969_consen 8 SVKDIAESLGIS---NLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLTTDDINSALR 66 (66)
T ss_dssp HHHHHHHHTT------B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHH-
T ss_pred HHHHHHHHcCCC---CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHhC
Confidence 345555665555 89999999999999999999999999999999999999999998875
No 21
>cd00074 H2A Histone 2A; H2A is a subunit of the nucleosome. The nucleosome is an octamer containing two H2A, H2B, H3, and H4 subunits. The H2A subunit performs essential roles in maintaining structural integrity of the nucleosome, chromatin condensation, and binding of specific chromatin-associated proteins.
Probab=98.37 E-value=9.8e-07 Score=66.28 Aligned_cols=80 Identities=11% Similarity=0.102 Sum_probs=69.2
Q ss_pred HHHHHHHHHHHHHHHHHh-hcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcHHHHHHHH
Q 032408 26 LRDRFRLSTISIAEAEAN-QIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATLR 104 (141)
Q Consensus 26 LKaaL~y~V~rI~ee~~~-~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~L~~~l~ 104 (141)
-|+-|.|.|+||-+-.-. ....+|+..+...|+.+++.++.+|..=+..+|+|+||++|+++||.|+++.+..|.+++.
T Consensus 15 ~ragL~fPV~ri~R~Lk~~~~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi~nD~EL~~L~~ 94 (115)
T cd00074 15 ARAGLQFPVGRIHRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAVRNDEELNKLLK 94 (115)
T ss_pred cccCccCcHHHHHHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHHhccHHHHHHHc
Confidence 366789999988766533 2346999999999999999999999999999999999999999999999999999988776
Q ss_pred H
Q 032408 105 S 105 (141)
Q Consensus 105 ~ 105 (141)
.
T Consensus 95 ~ 95 (115)
T cd00074 95 G 95 (115)
T ss_pred C
Confidence 4
No 22
>PLN00161 histone H3; Provisional
Probab=98.20 E-value=6.2e-06 Score=63.83 Aligned_cols=61 Identities=16% Similarity=0.214 Sum_probs=53.5
Q ss_pred HHHHHHHHHhh---cCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHh
Q 032408 34 TISIAEAEANQ---IGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAH 94 (141)
Q Consensus 34 V~rI~ee~~~~---~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~R 94 (141)
..|+|++.+.+ .++++.++++.+|-|.++.|+.++-.|....|-||+|-||.+.|+.|+.|
T Consensus 61 F~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm~La~r 124 (135)
T PLN00161 61 FARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDMQLARR 124 (135)
T ss_pred HHHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhHHHHHH
Confidence 45556555544 36899999999999999999999999999999999999999999999875
No 23
>PLN00160 histone H3; Provisional
Probab=98.16 E-value=6.2e-06 Score=60.62 Aligned_cols=63 Identities=17% Similarity=0.105 Sum_probs=52.7
Q ss_pred HHHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHh
Q 032408 31 RLSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAH 94 (141)
Q Consensus 31 ~y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~R 94 (141)
..-|..|+.+.. ..++++.++++.+|-|.++.|+..+-.|....|-||||-||.+.|+.|+.|
T Consensus 28 ~RLVREI~~~~~-~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~~L~~r 90 (97)
T PLN00160 28 ARLVREIQMEMS-REAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDMQLARR 90 (97)
T ss_pred HHHHHHHHHHcC-CCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhHHHHHH
Confidence 333444444432 235899999999999999999999999999999999999999999999875
No 24
>KOG0870 consensus DNA polymerase epsilon, subunit D [Transcription]
Probab=98.14 E-value=2.2e-05 Score=62.74 Aligned_cols=85 Identities=16% Similarity=0.146 Sum_probs=74.0
Q ss_pred HHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhh--cHHHHHHHHHHHHHh
Q 032408 33 STISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHR--NERLAATLRSFRNDL 110 (141)
Q Consensus 33 ~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr--n~~L~~~l~~~~~el 110 (141)
.|.|++++...+.++.|++++..+|..-.--|+..+..=...||+-.+||||+++||.=+++- ++.+...|++.++..
T Consensus 15 iI~rlvke~l~E~~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~Eiefs~f~~plk~~Le~y 94 (172)
T KOG0870|consen 15 IITRLVKEVLPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALDEIEFSSFVNPLKSALEAY 94 (172)
T ss_pred HHHHHHHHhCccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHHHhchHHHhhHHHHHHHHH
Confidence 578999999888789999999999999999999888888999999999999999999999986 678888888888877
Q ss_pred hccCCch
Q 032408 111 KAKEPRS 117 (141)
Q Consensus 111 ~~~~~~~ 117 (141)
+....++
T Consensus 95 k~~~k~K 101 (172)
T KOG0870|consen 95 KKAVKQK 101 (172)
T ss_pred HHHHHHH
Confidence 7555333
No 25
>PTZ00018 histone H3; Provisional
Probab=98.04 E-value=1.3e-05 Score=62.07 Aligned_cols=60 Identities=20% Similarity=0.272 Sum_probs=52.2
Q ss_pred HHHHHHHHhh--cCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHh
Q 032408 35 ISIAEAEANQ--IGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAH 94 (141)
Q Consensus 35 ~rI~ee~~~~--~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~R 94 (141)
.|+|.+.+.+ .++++.++++.+|-|.++.|+.++-.|....|-||+|-||.+.|+.|+.|
T Consensus 69 ~RLVREI~~~~~~~~rf~~~al~aLQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~r 130 (136)
T PTZ00018 69 QRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARR 130 (136)
T ss_pred HHHHHHHHHHcCCcceeeHHHHHHHHHHHHHHHHHHhhhhHHHHHhhcceecchhhHHHHHH
Confidence 4445444433 36899999999999999999999999999999999999999999999865
No 26
>PLN00121 histone H3; Provisional
Probab=98.04 E-value=1.5e-05 Score=61.74 Aligned_cols=60 Identities=20% Similarity=0.272 Sum_probs=51.9
Q ss_pred HHHHHHHHhh--cCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHh
Q 032408 35 ISIAEAEANQ--IGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAH 94 (141)
Q Consensus 35 ~rI~ee~~~~--~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~R 94 (141)
.|+|.+.+.+ .++++.++++.+|-|.++.|+.++-.|....|-||+|-||.+.|+.|+.|
T Consensus 69 ~RLVREI~~~~~~~~Rf~~~Al~ALQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~r 130 (136)
T PLN00121 69 QRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARR 130 (136)
T ss_pred HHHHHHHHHHhCccceeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcceecchhhHHHHHH
Confidence 4444444433 36899999999999999999999999999999999999999999999875
No 27
>KOG3467 consensus Histone H4 [Chromatin structure and dynamics]
Probab=97.93 E-value=3.5e-05 Score=56.52 Aligned_cols=64 Identities=22% Similarity=0.281 Sum_probs=56.9
Q ss_pred HHHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcH
Q 032408 31 RLSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNE 97 (141)
Q Consensus 31 ~y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~ 97 (141)
.+++.||+...|-. +++--.........-.|++++..++..|+.||+||||+..||.-+.+|+.
T Consensus 32 KpaIRRlARr~GVk---Ri~G~~yeE~~~~~k~fl~n~i~~A~~yt~HAKRKTvT~~dvv~~LKR~G 95 (103)
T KOG3467|consen 32 KPAIRRLARRGGVK---RISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQG 95 (103)
T ss_pred hHHHHHHHHhcCcc---hhchhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhceeeHHHHHHHHHHcC
Confidence 38888998888766 78888888888888899999999999999999999999999999988864
No 28
>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=97.92 E-value=9.4e-06 Score=58.45 Aligned_cols=61 Identities=21% Similarity=0.364 Sum_probs=24.3
Q ss_pred ccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcHHHHHHHHHHHH
Q 032408 48 EISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATLRSFRN 108 (141)
Q Consensus 48 ~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~L~~~l~~~~~ 108 (141)
...++++..|.+++-.|+..+...+...|.+.||+.|+.+|+..++|++|.-+..++.++.
T Consensus 19 ~P~~eTv~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR~D~~Kl~Rl~~~L~ 79 (93)
T PF02269_consen 19 EPLPETVDLVEDIVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLRKDPKKLARLRELLS 79 (93)
T ss_dssp S--HHHHHHHHHHHHHHHHHHHHHHHC----------------------------------
T ss_pred CCcHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHhcCHHHHHHHHHHHH
Confidence 5789999999999999999999999999999999999999999999999999999988865
No 29
>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=97.48 E-value=0.0009 Score=48.37 Aligned_cols=60 Identities=22% Similarity=0.332 Sum_probs=55.5
Q ss_pred ccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcHHHHHHHHHHHH
Q 032408 48 EISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATLRSFRN 108 (141)
Q Consensus 48 ~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~L~~~l~~~~~ 108 (141)
.-.|+++..|.+++-.|+..++.-+..+|. .+|.-|++||+..++|++|.=+..++.++.
T Consensus 20 ~P~~eTv~llE~iv~~~i~~l~~~a~~~A~-~r~~k~~~eD~~FliR~D~~Kl~Rl~~lL~ 79 (92)
T cd07978 20 NPLPETVDLLEDIVVEYIIELCHKAAEVAQ-RRRGKVKVEDLIFLLRKDPKKLARLRELLS 79 (92)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHHHhcCHHHHHHHHHHHH
Confidence 568999999999999999999999999998 788888999999999999999998888866
No 30
>KOG0869 consensus CCAAT-binding factor, subunit A (HAP3) [Transcription]
Probab=97.44 E-value=0.001 Score=53.07 Aligned_cols=80 Identities=14% Similarity=0.194 Sum_probs=67.6
Q ss_pred HHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhc--HHHHHHHHHHHHH
Q 032408 32 LSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRN--ERLAATLRSFRND 109 (141)
Q Consensus 32 y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn--~~L~~~l~~~~~e 109 (141)
-.|.||++... +.+-.|++++-..+-|+|-.|+.=|...+..-+.--+||||+.|||..++-.- +.-.+-|+-|+..
T Consensus 36 ANV~RIMK~~l-P~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~tLGFe~Y~eplkiyL~k 114 (168)
T KOG0869|consen 36 ANVSRIMKKAL-PANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMSTLGFENYAEPLKIYLQK 114 (168)
T ss_pred HHHHHHHHhcC-CcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHHHcCcHhHHHHHHHHHHH
Confidence 46899999884 55789999999999999999999999999999999999999999999999764 4555666666665
Q ss_pred hhc
Q 032408 110 LKA 112 (141)
Q Consensus 110 l~~ 112 (141)
.+.
T Consensus 115 YRe 117 (168)
T KOG0869|consen 115 YRE 117 (168)
T ss_pred HHH
Confidence 543
No 31
>PF03847 TFIID_20kDa: Transcription initiation factor TFIID subunit A; InterPro: IPR003228 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription [].; GO: 0006352 transcription initiation, DNA-dependent, 0005669 transcription factor TFIID complex; PDB: 1H3O_B.
Probab=97.39 E-value=0.00064 Score=46.74 Aligned_cols=52 Identities=17% Similarity=0.244 Sum_probs=43.9
Q ss_pred cCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhc
Q 032408 45 IGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRN 96 (141)
Q Consensus 45 ~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn 96 (141)
.+..+.|++...|.+++..|+.++...+-.+|+|-|=.||+..||.+...||
T Consensus 14 p~~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~tle~~Dv~~~Ler~ 65 (68)
T PF03847_consen 14 PNEKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSSTLEVKDVQLHLERN 65 (68)
T ss_dssp SS----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHHHHH
T ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHHhh
Confidence 3567999999999999999999999999999999999999999999999886
No 32
>KOG4336 consensus TBP-associated transcription factor Prodos [Transcription]
Probab=97.19 E-value=0.0012 Score=57.22 Aligned_cols=71 Identities=18% Similarity=0.266 Sum_probs=58.9
Q ss_pred HHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcH----HHHHHHHHH
Q 032408 33 STISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNE----RLAATLRSF 106 (141)
Q Consensus 33 ~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~----~L~~~l~~~ 106 (141)
-|..|+...|.. .++.-+...|++++-.|+..|++.+..++.||||...+.-||.|..++.. +|.+.++..
T Consensus 10 VV~~Ll~~~gfd---~is~~aletlvell~~yi~eigrq~~n~celagRT~pT~~Dv~l~Li~mnI~v~sL~~~~q~~ 84 (323)
T KOG4336|consen 10 VVSNLLKTKGFD---SISNAALETLVELLQSYIREIGRQLHNYCELAGRTIPTQGDVKLTLIEMNIKVSSLYAYFQKQ 84 (323)
T ss_pred HHHHHHHHhCch---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHHHhCCChhhhHHHHHhc
Confidence 355666666665 58999999999999999999999999999999999999999999988754 555555443
No 33
>KOG2389 consensus Predicted bromodomain transcription factor [Transcription]
Probab=97.18 E-value=0.0012 Score=58.04 Aligned_cols=69 Identities=16% Similarity=0.277 Sum_probs=60.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 24 EILRDRFRLSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 24 ~~LKaaL~y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
+-=++..+-+|.+||+..|-. .+-..+...|+..+-.|++++|+++-.|+.||||.-.+..|+.++..-
T Consensus 25 ~ya~sla~~avaQIcqslg~~---~~~~sale~Ltd~~~qyvQ~lgk~a~~~~n~anR~epnl~Div~Al~d 93 (353)
T KOG2389|consen 25 EYAFSLARVAVAQICQSLGYS---STQNSALETLTDVLQQYVQNLGKTAHRYSNLANRTEPNLFDIVLALQD 93 (353)
T ss_pred HHHHHHHHHHHHHHHHhcCCc---ccccHHHHHHHHHHHHHHHHHHhhhhhhhhhcCCCCccHHHHHHHHHH
Confidence 345677788999999999765 566668999999999999999999999999999999999999998865
No 34
>KOG1745 consensus Histones H3 and H4 [Chromatin structure and dynamics]
Probab=96.76 E-value=0.0013 Score=51.11 Aligned_cols=62 Identities=23% Similarity=0.277 Sum_probs=52.9
Q ss_pred HHHHHHHHHHhh--cCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHh
Q 032408 33 STISIAEAEANQ--IGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAH 94 (141)
Q Consensus 33 ~V~rI~ee~~~~--~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~R 94 (141)
...|++.+.... .++++=..+|.+|-|.++.|+..+-.|...-|-||+|-||-+.|+.|+-|
T Consensus 68 PFqRlvrei~q~f~~dLrfqs~Ai~ALQeA~EayLv~LfEdtnlcAihAkRVTimpkdiQlArr 131 (137)
T KOG1745|consen 68 PFQRLVREIAQDFKTDLRFQSSAIAALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARR 131 (137)
T ss_pred cHHHHhHHHHhcccccceehHHHHHHHHHHHHHHHHHhccccchhhhccceeEecccceehhhh
Confidence 345555544332 37889999999999999999999999999999999999999999999875
No 35
>KOG2549 consensus Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=96.69 E-value=0.0055 Score=56.80 Aligned_cols=60 Identities=15% Similarity=0.189 Sum_probs=52.6
Q ss_pred HHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 33 STISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 33 ~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
+|.-+++..|.+ .+++++...|.+-+.-.+.+|++|+..|-.|++|.+.+.+||.-+.|-
T Consensus 16 s~k~vAEslGi~---nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~ALr~ 75 (576)
T KOG2549|consen 16 SVKVVAESLGIT---NLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYALRS 75 (576)
T ss_pred HHHHHHHHhCcc---ccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHHHhh
Confidence 455566666655 699999999999999999999999999999999999999999977764
No 36
>smart00414 H2A Histone 2A.
Probab=96.60 E-value=0.0055 Score=45.45 Aligned_cols=79 Identities=10% Similarity=0.098 Sum_probs=61.0
Q ss_pred HHHHHHHHHHHHHHHHhh-cCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcHHHHHHHHH
Q 032408 27 RDRFRLSTISIAEAEANQ-IGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATLRS 105 (141)
Q Consensus 27 KaaL~y~V~rI~ee~~~~-~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~L~~~l~~ 105 (141)
|+-|+|.|+||-.-.-.. ...+|+..+..-|+.+++-.+.+|..=+-..|+..+++.|++.++.++++.++.|.+++..
T Consensus 5 ragL~fPVgRi~r~Lk~~~~~~Rv~~~A~VyLaAvLEYLtaEILeLagn~a~~~k~~rItp~hi~lAi~nD~EL~~L~~~ 84 (106)
T smart00414 5 RAGLQFPVGRIHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIRNDEELNKLLKG 84 (106)
T ss_pred cCCccCchHHHHHHHHcCccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchHHHhhhccCCHHHHHHHcC
Confidence 566889999987766332 2457887777777776666666666666667888889999999999999999999988765
No 37
>smart00427 H2B Histone H2B.
Probab=96.41 E-value=0.022 Score=41.44 Aligned_cols=60 Identities=8% Similarity=0.124 Sum_probs=53.3
Q ss_pred HHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 34 TISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 34 V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
|.|++++.- .+..+|..++..+.-++...++.|+.++..+|+..+|+||+..+|..++|-
T Consensus 7 i~kvLKqVh--pd~giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~TltsreIqtAvrl 66 (89)
T smart00427 7 IYKVLKQVH--PDTGISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLSSREIQTAVRL 66 (89)
T ss_pred HHHHHHHhC--CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHH
Confidence 567777764 256799999999999999999999999999999999999999999988864
No 38
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=96.40 E-value=0.022 Score=45.20 Aligned_cols=93 Identities=12% Similarity=0.196 Sum_probs=71.9
Q ss_pred HHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcHHHHHHHHHHHHHhh
Q 032408 32 LSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATLRSFRNDLK 111 (141)
Q Consensus 32 y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~L~~~l~~~~~el~ 111 (141)
-+|.+|+++.. +.+++|..++-..|.++.-.|+.-|+..+...|.--.+|||.++-|.=+...- +..+++.+....+.
T Consensus 16 Atv~KmIke~l-P~d~rvakeareliincCvEFI~liSsEAneic~~e~KKTIa~EHV~KALe~L-gF~eYiee~~~vl~ 93 (156)
T KOG0871|consen 16 ATVNKMIKEML-PKDVRVAKEARELIINCCVEFINLISSEANEICNKEAKKTIAPEHVIKALENL-GFGEYIEEAEEVLE 93 (156)
T ss_pred HHHHHHHHHhC-CcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcccCCHHHHHHHHHHc-chHHHHHHHHHHHH
Confidence 47899999984 56899999999999999999999999999999999999999999999998765 34466655544443
Q ss_pred ccCCchhhhhhccCC
Q 032408 112 AKEPRSERKRKKSST 126 (141)
Q Consensus 112 ~~~~~~~~krKk~~~ 126 (141)
.=+..-.++|+|+++
T Consensus 94 ~~K~~~~~~~~kssk 108 (156)
T KOG0871|consen 94 NCKEEAKKRRRKSSK 108 (156)
T ss_pred HHHHHHHHhhhhhhh
Confidence 222222235666654
No 39
>PLN00154 histone H2A; Provisional
Probab=96.09 E-value=0.018 Score=44.75 Aligned_cols=80 Identities=9% Similarity=0.048 Sum_probs=59.7
Q ss_pred HHHHHHHHHHHHHHHHHHhh--cCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcHHHHHH
Q 032408 25 ILRDRFRLSTISIAEAEANQ--IGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAAT 102 (141)
Q Consensus 25 ~LKaaL~y~V~rI~ee~~~~--~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~L~~~ 102 (141)
-=|+-|+|.|+||-.-.-.. ...+|+..+..-|+.+++-.+.+|.+=+-..|+..+++.|++..|.|++|.+..|.++
T Consensus 32 S~rAgL~FPVgRi~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lAIrnDeEL~~L 111 (136)
T PLN00154 32 SSRAGLQFPVGRIHRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTL 111 (136)
T ss_pred ccccCccCchHHHHHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhhccCcHHHHHH
Confidence 44678999999986544221 2358876666666555555555666666677888999999999999999999999988
Q ss_pred HH
Q 032408 103 LR 104 (141)
Q Consensus 103 l~ 104 (141)
+.
T Consensus 112 l~ 113 (136)
T PLN00154 112 IK 113 (136)
T ss_pred hc
Confidence 85
No 40
>PTZ00463 histone H2B; Provisional
Probab=96.01 E-value=0.035 Score=42.29 Aligned_cols=64 Identities=9% Similarity=0.176 Sum_probs=55.5
Q ss_pred HHHHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 30 FRLSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 30 L~y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
.-.-|.|++++.-- ++.+|..++..+.-++...++.|+.++..+|+..+|.||+..+|.-++|=
T Consensus 30 y~~YI~KVLKqVhP--d~gIS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAvrL 93 (117)
T PTZ00463 30 YGLYIFKVLKQVHP--DTGISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAIRL 93 (117)
T ss_pred HHHHHHHHHHhhCC--CCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHhh
Confidence 33447788887743 55689999999999999999999999999999999999999999988864
No 41
>PTZ00017 histone H2A; Provisional
Probab=95.97 E-value=0.015 Score=45.02 Aligned_cols=81 Identities=9% Similarity=0.062 Sum_probs=62.1
Q ss_pred HHHHHHHHHHHHHHHHHHhh-cCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcHHHHHHH
Q 032408 25 ILRDRFRLSTISIAEAEANQ-IGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATL 103 (141)
Q Consensus 25 ~LKaaL~y~V~rI~ee~~~~-~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~L~~~l 103 (141)
--|+-|+|.|+||-.-.-.. ...+|+..+..-|+.+++-.+.+|.+=+-..|+..+++.|++.++.|++|.+..|.+++
T Consensus 21 S~ragL~FPVgRi~R~Lk~g~~a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~RItPrHi~lAI~nDeEL~~Ll 100 (134)
T PTZ00017 21 SAKAGLQFPVGRVHRYLKKGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLAIRNDEELNKLL 100 (134)
T ss_pred cccCCcccchHHHHHHHhccchhccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHhhccCcHHHHHHH
Confidence 34678999999998765321 23578777766666666666666666667778888999999999999999999999888
Q ss_pred HH
Q 032408 104 RS 105 (141)
Q Consensus 104 ~~ 105 (141)
..
T Consensus 101 ~~ 102 (134)
T PTZ00017 101 AG 102 (134)
T ss_pred cC
Confidence 54
No 42
>PLN00158 histone H2B; Provisional
Probab=95.88 E-value=0.051 Score=41.33 Aligned_cols=65 Identities=9% Similarity=0.164 Sum_probs=55.9
Q ss_pred HHHHHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 29 RFRLSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 29 aL~y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
..-..|.|++++.-- +..+|..++..+.-++...++.|+.++..+|+..+|.||+..+|.-++|-
T Consensus 28 sy~~YI~kVLKQVhP--d~gIS~kaM~ImnSfvnDiferIA~EAs~La~~nkr~TltsrEIqtAvrL 92 (116)
T PLN00158 28 TYKIYIYKVLKQVHP--DTGISSKAMSIMNSFINDIFEKIATEAGKLARYNKKPTVTSREIQTAVRL 92 (116)
T ss_pred cHHHHHHHHHHHhCC--CCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHH
Confidence 334457788888743 45689999999999999999999999999999999999999999988764
No 43
>PLN00157 histone H2A; Provisional
Probab=95.68 E-value=0.02 Score=44.30 Aligned_cols=81 Identities=9% Similarity=0.057 Sum_probs=61.7
Q ss_pred HHHHHHHHHHHHHHHHHHhh-cCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcHHHHHHH
Q 032408 25 ILRDRFRLSTISIAEAEANQ-IGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATL 103 (141)
Q Consensus 25 ~LKaaL~y~V~rI~ee~~~~-~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~L~~~l 103 (141)
-=|+-|.|.|+||-.-.-.. ...+|+..+..-|+.+++-.+.+|.+=+-..|+..+++.|++..+.|++|.+..|.+++
T Consensus 20 S~ragL~FPVgRi~R~Lk~g~~a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~nDeEL~~Ll 99 (132)
T PLN00157 20 SAKAGLQFPVGRIARYLKAGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRIVPRHIQLAVRNDEELSKLL 99 (132)
T ss_pred ccccCcccchHHHHHHHhcCchhhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHhhcccCcHHHHHHH
Confidence 34678999999997766321 23577776666666666655666666666778888999999999999999999999888
Q ss_pred HH
Q 032408 104 RS 105 (141)
Q Consensus 104 ~~ 105 (141)
..
T Consensus 100 ~~ 101 (132)
T PLN00157 100 GG 101 (132)
T ss_pred cC
Confidence 75
No 44
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=95.46 E-value=0.018 Score=48.92 Aligned_cols=50 Identities=16% Similarity=0.286 Sum_probs=47.5
Q ss_pred CccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhc
Q 032408 47 MEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRN 96 (141)
Q Consensus 47 ~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn 96 (141)
-.+.+++-..|.|++..|+++|..=.-.||+|-+-.||.+-||+|...||
T Consensus 171 ~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhLEr~ 220 (258)
T KOG1142|consen 171 TKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHLERN 220 (258)
T ss_pred ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeeeecc
Confidence 37889999999999999999999999999999999999999999999987
No 45
>KOG3901 consensus Transcription initiation factor IID subunit [Transcription]
Probab=95.25 E-value=0.1 Score=39.26 Aligned_cols=59 Identities=12% Similarity=0.246 Sum_probs=47.4
Q ss_pred CccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcHHHHHHHHHHHH
Q 032408 47 MEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATLRSFRN 108 (141)
Q Consensus 47 ~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~L~~~l~~~~~ 108 (141)
+.--++++++|.++|-.|+..+ +.++-.-+.|..+.+||++.++|+.|.=...+++++.
T Consensus 26 ~nP~~~tv~~Le~iV~~Yi~el---t~~a~~~g~rgk~~veD~~f~lRkDpkK~~Rv~eLL~ 84 (109)
T KOG3901|consen 26 VNPYPETVDLLEDIVLEYITEL---THAAMEIGKRGKVKVEDFKFLLRKDPKKLGRVKELLA 84 (109)
T ss_pred CCccHhHHHHHHHHHHHHHHHH---HHHHHHhcccCceeHHHHHHHHHhChHHHhHHHHHHH
Confidence 3455899999999999999988 3444444478899999999999999987777777643
No 46
>PLN00156 histone H2AX; Provisional
Probab=95.03 E-value=0.06 Score=42.06 Aligned_cols=80 Identities=11% Similarity=0.070 Sum_probs=58.9
Q ss_pred HHHHHHHHHHHHHHHHHhh-cCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcHHHHHHHH
Q 032408 26 LRDRFRLSTISIAEAEANQ-IGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATLR 104 (141)
Q Consensus 26 LKaaL~y~V~rI~ee~~~~-~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~L~~~l~ 104 (141)
=|+-|.|.|+||-+-.-.. ...+|+..+..-|+.+++-.+.+|..=+-.-|+..+++.|++..+.|++|.+..|.+++.
T Consensus 24 ~rAgL~FPVgRi~R~Lk~g~ya~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi~lAIrnDeEL~~Ll~ 103 (139)
T PLN00156 24 SKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEELSKLLG 103 (139)
T ss_pred cccCcccchHHHHHHHhcCChhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHhhccCcHHHHHHHC
Confidence 3667899999987665221 235777666666665555555555555566678888999999999999999999998887
Q ss_pred H
Q 032408 105 S 105 (141)
Q Consensus 105 ~ 105 (141)
.
T Consensus 104 ~ 104 (139)
T PLN00156 104 S 104 (139)
T ss_pred C
Confidence 5
No 47
>COG5248 TAF19 Transcription initiation factor TFIID, subunit TAF13 [Transcription]
Probab=94.99 E-value=0.13 Score=39.28 Aligned_cols=59 Identities=14% Similarity=0.201 Sum_probs=51.9
Q ss_pred ccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcHHHHHHHHHHHH
Q 032408 48 EISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATLRSFRN 108 (141)
Q Consensus 48 ~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~L~~~l~~~~~ 108 (141)
.--++.+++|-|+|-.|...++..+...|+ .|..+..+|.+.+.|+.|.=+....+++-
T Consensus 27 ~P~~dt~~~L~e~V~dY~~~~ctna~~~Aq--~rnK~k~eDfkfaLr~DpkKlgRveeLl~ 85 (126)
T COG5248 27 APRYDTAEALHEYVLDYMSILCTNAHNMAQ--VRNKTKTEDFKFALRRDPKKLGRVEELLI 85 (126)
T ss_pred CcchhHHHHHHHHHHHHHHHHHHHHHHHHH--hcccchHHHHHHHHhhChHHHhHHHHHHH
Confidence 345789999999999999999999999988 78899999999999999987777766643
No 48
>PLN00153 histone H2A; Provisional
Probab=94.89 E-value=0.062 Score=41.46 Aligned_cols=81 Identities=11% Similarity=0.063 Sum_probs=59.3
Q ss_pred HHHHHHHHHHHHHHHHHHhh-cCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcHHHHHHH
Q 032408 25 ILRDRFRLSTISIAEAEANQ-IGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATL 103 (141)
Q Consensus 25 ~LKaaL~y~V~rI~ee~~~~-~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~L~~~l 103 (141)
-=|+-|+|.|+||-+-.-.. ...+|+..+..-|+.+++-.+.+|..=+-.-|+..+++.|++..+.|++|.+..|.+++
T Consensus 18 S~ragL~FpVgRi~R~Lr~g~~a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~nDeEL~~Ll 97 (129)
T PLN00153 18 SAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVPRHIQLAIRNDEELGKLL 97 (129)
T ss_pred ccccCcccchHHHHHHHhcCchhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccChHHHHhhccCcHHHHHHH
Confidence 34678999999998766321 12467766665665555555555555556667888899999999999999999999888
Q ss_pred HH
Q 032408 104 RS 105 (141)
Q Consensus 104 ~~ 105 (141)
..
T Consensus 98 ~~ 99 (129)
T PLN00153 98 GE 99 (129)
T ss_pred CC
Confidence 74
No 49
>KOG1744 consensus Histone H2B [Chromatin structure and dynamics]
Probab=94.69 E-value=0.097 Score=40.39 Aligned_cols=66 Identities=9% Similarity=0.174 Sum_probs=56.7
Q ss_pred HHHHHHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 28 DRFRLSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 28 aaL~y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
...-+.|.|+.++..-. .-++..++..+.-+++..++.||..+-.+|.--||.||+..++..+.|=
T Consensus 37 e~~s~yv~kvlk~Vhpd--~gis~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta~rL 102 (127)
T KOG1744|consen 37 ESYSEYVYKVLKQVHPD--LGISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTAVRL 102 (127)
T ss_pred CceeeehhhhhhcccCC--CCcCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHHHHH
Confidence 34456788877777543 5599999999999999999999999999999999999999999998863
No 50
>PTZ00252 histone H2A; Provisional
Probab=94.10 E-value=0.12 Score=40.12 Aligned_cols=79 Identities=11% Similarity=0.068 Sum_probs=55.4
Q ss_pred HHHHHHHHHHHHHHHHHhhc--CCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhh--cCCCccchhhHHHHHhhcHHHHH
Q 032408 26 LRDRFRLSTISIAEAEANQI--GMEISKPIIACISDLAFKYTEQLAKDLELFAQH--AGRKSVRMEDVILSAHRNERLAA 101 (141)
Q Consensus 26 LKaaL~y~V~rI~ee~~~~~--~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkH--AgRkTI~~eDV~Ll~Rrn~~L~~ 101 (141)
=|+-|+|.|+||-+-. .+. ..+|+..+..-|+.+++-.+.+|.+=+-.-|+. .+++.|++..+.|++|.+..|.+
T Consensus 20 ~rAGL~FPVgRi~R~L-r~g~ya~RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~kk~RItPrHi~lAIrNDeEL~~ 98 (134)
T PTZ00252 20 AKAGLIFPVGRVGSLL-RRGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPKRLTPRTVTLAVRHDDDLGS 98 (134)
T ss_pred cccCccCchHHHHHHH-HcCCcccccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccccHHHHHhhccChHHHHH
Confidence 3677999999998655 332 246776666666655555555555444444443 46778999999999999999999
Q ss_pred HHHH
Q 032408 102 TLRS 105 (141)
Q Consensus 102 ~l~~ 105 (141)
+++.
T Consensus 99 Ll~~ 102 (134)
T PTZ00252 99 LLKN 102 (134)
T ss_pred HHcC
Confidence 8875
No 51
>KOG1756 consensus Histone 2A [Chromatin structure and dynamics]
Probab=94.05 E-value=0.15 Score=39.51 Aligned_cols=80 Identities=10% Similarity=0.069 Sum_probs=62.2
Q ss_pred HHHHHHHHHHHHHHHHHHh-hcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcHHHHHHH
Q 032408 25 ILRDRFRLSTISIAEAEAN-QIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATL 103 (141)
Q Consensus 25 ~LKaaL~y~V~rI~ee~~~-~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~L~~~l 103 (141)
.-++-|.|.|++|.+=.=. ..-.+++..+-..|+..++..+.+|..=+-.+|+-.+++.|++.-+.|++|.+..|..+|
T Consensus 21 s~~agl~fPvgri~r~Lr~~~~~~ri~~gapV~laavLeYL~Aeile~agnaardnkk~ri~PrH~~lAI~NDeEL~~lL 100 (131)
T KOG1756|consen 21 SSRAGLQFPVGRIHRLLRKGRYAQRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRITPRHLQLAIRNDEELNKLL 100 (131)
T ss_pred hhhcccccCHHHHHHHHHccchhhhccCCChHHHHHHHHHHHHHHHHHhHHHhhhcCccccChHHHHHHHhCcHHHHHHh
Confidence 4578899999988765433 123577776666666666656667777778889999999999999999999999998887
Q ss_pred H
Q 032408 104 R 104 (141)
Q Consensus 104 ~ 104 (141)
-
T Consensus 101 ~ 101 (131)
T KOG1756|consen 101 G 101 (131)
T ss_pred c
Confidence 5
No 52
>PRK07452 DNA polymerase III subunit delta; Validated
Probab=93.57 E-value=0.28 Score=40.60 Aligned_cols=62 Identities=18% Similarity=0.247 Sum_probs=53.8
Q ss_pred HHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhc--CCCccchhhHHHHHhh
Q 032408 34 TISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHA--GRKSVRMEDVILSAHR 95 (141)
Q Consensus 34 V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHA--gRkTI~~eDV~Ll~Rr 95 (141)
+.+++.+.+...|..++++++..|.+.+-.-...+...++.++-.+ ++.+|+.+||..++-.
T Consensus 135 l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~dl~~l~~EleKL~ly~~~~~~~It~~~V~~~v~~ 198 (326)
T PRK07452 135 LKQLVERTAQELGVKLTPEAAELLAEAVGNDSRRLYNELEKLALYAENSTKPISAEEVKALVSN 198 (326)
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHHHhCccHHHHHHHHHHHHHhccCCCCccCHHHHHHHhcc
Confidence 4567778888889999999999999999988889999999999884 5789999999987543
No 53
>PRK07914 hypothetical protein; Reviewed
Probab=92.02 E-value=0.55 Score=39.34 Aligned_cols=65 Identities=11% Similarity=0.109 Sum_probs=55.0
Q ss_pred HHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcH
Q 032408 32 LSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNE 97 (141)
Q Consensus 32 y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~ 97 (141)
..+.+.+...+...|+.++++++..|.+.+-.-...+...++..+-+.| .+|+.+||.-++-+++
T Consensus 131 ~~l~~wi~~~a~~~g~~i~~~A~~~L~~~~g~dl~~l~~EleKL~~~~~-~~It~e~V~~~v~~~~ 195 (320)
T PRK07914 131 AERADFVRKEFRSLRVKVDDDTVTALLDAVGSDLRELASACSQLVADTG-GAVDAAAVRRYHSGKA 195 (320)
T ss_pred HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHCccHHHHHHHHHHHhcCCC-CCcCHHHHHHHcCCCe
Confidence 3346678888888999999999999999998888889999999876666 5799999999877665
No 54
>PRK05907 hypothetical protein; Provisional
Probab=91.84 E-value=0.47 Score=40.51 Aligned_cols=66 Identities=11% Similarity=0.119 Sum_probs=55.9
Q ss_pred HHHHHHHHHHHhhcCCccCHHHHHHHHHHH-HHHHHHHHHHHHHHHhhcC-CCccchhhHHHHHhhcH
Q 032408 32 LSTISIAEAEANQIGMEISKPIIACISDLA-FKYTEQLAKDLELFAQHAG-RKSVRMEDVILSAHRNE 97 (141)
Q Consensus 32 y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv-~~~~~~ia~DLe~FAkHAg-RkTI~~eDV~Ll~Rrn~ 97 (141)
..+.+.+.+.....|..++++++..|.+.+ +.-...+...++..+-.+| +.+|+.+||..++-+++
T Consensus 137 ~~L~~Wi~~~~~~~g~~i~~~a~~~L~~~~~~~nL~~l~~EleKL~ly~g~~~~It~e~V~~lv~~s~ 204 (311)
T PRK05907 137 KRIAQLLIQRAKELGISCSLGLASLFVSKFPQTGLFEILSEFQKLLCQMGKKESLEASDIQSFVVKKE 204 (311)
T ss_pred HHHHHHHHHHHHHcCCCcCHHHHHHHHHHccCCCHHHHHHHHHHHHHhcCCCCeECHHHHHHHhcCcc
Confidence 345666777777889999999999999988 6778899999999999965 88999999999976654
No 55
>PRK06585 holA DNA polymerase III subunit delta; Reviewed
Probab=91.73 E-value=0.64 Score=38.87 Aligned_cols=64 Identities=16% Similarity=0.147 Sum_probs=52.6
Q ss_pred HHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC-CCccchhhHHHHHhhc
Q 032408 33 STISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAG-RKSVRMEDVILSAHRN 96 (141)
Q Consensus 33 ~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAg-RkTI~~eDV~Ll~Rrn 96 (141)
.+.+.+.+.+...|..++++++..|.+.+-.-...+..+|+..+-.+| ..+|+.+||.-++-.+
T Consensus 146 ~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~dl~~l~~EleKL~ly~~~~~~It~edV~~lv~~~ 210 (343)
T PRK06585 146 DLARLIDDELAEAGLRITPDARALLVALLGGDRLASRNEIEKLALYAHGKGEITLDDVRAVVGDA 210 (343)
T ss_pred HHHHHHHHHHHHCCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHhCCc
Confidence 346677788888899999999999999999877788888888888765 5689999997765443
No 56
>PRK05629 hypothetical protein; Validated
Probab=91.58 E-value=0.83 Score=38.17 Aligned_cols=65 Identities=11% Similarity=0.048 Sum_probs=55.1
Q ss_pred HHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcH
Q 032408 32 LSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNE 97 (141)
Q Consensus 32 y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~ 97 (141)
..+.+.+.+.....|..++++++..|.+.+-.-...+...++..+-+.| .+|+.+||.-++-.++
T Consensus 129 ~~l~~wi~~~~~~~g~~i~~~A~~~L~~~~g~dl~~l~~EleKL~~~~~-~~It~e~V~~~v~~~~ 193 (318)
T PRK05629 129 RERPGWVTQEFKNHGVRPTPDVVHALLEGVGSDLRELASAISQLVEDTQ-GNVTVEKVRAYYVGVA 193 (318)
T ss_pred HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHCccHHHHHHHHHHHHhcCC-CCcCHHHHHHHhCCCc
Confidence 4556778888888999999999999999998888889999998887654 5799999999876665
No 57
>PRK08487 DNA polymerase III subunit delta; Validated
Probab=90.91 E-value=1.1 Score=37.75 Aligned_cols=62 Identities=13% Similarity=0.204 Sum_probs=53.6
Q ss_pred HHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhc
Q 032408 33 STISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRN 96 (141)
Q Consensus 33 ~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn 96 (141)
.+.+.+.+.....|..++++++..|.+.+-.-...+...|+..+-.+| +|+.+||..++-.+
T Consensus 139 ~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~dl~~l~~ELeKL~ly~~--~It~edV~~~v~~~ 200 (328)
T PRK08487 139 EALELLQERAKELGLDIDQNALNHLYFIHNEDLALAANELEKLAILNE--PITLKDIQELVFGL 200 (328)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHHHHhCcHHHHHHHHHHHHHHhcC--CCCHHHHHHHhccc
Confidence 357788888888999999999999999999888889999998888866 69999999887443
No 58
>TIGR01128 holA DNA polymerase III, delta subunit. subunit around DNA forming a DNA sliding clamp.
Probab=90.68 E-value=1.5 Score=35.31 Aligned_cols=64 Identities=19% Similarity=0.231 Sum_probs=49.1
Q ss_pred HHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhc
Q 032408 33 STISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRN 96 (141)
Q Consensus 33 ~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn 96 (141)
.+.+++.+.+...|+.++++++..|.+.+-.=...+-..++.++--+|-++|+.+||.-++-..
T Consensus 115 ~~~~~i~~~~~~~g~~i~~~a~~~l~~~~~~d~~~l~~el~KL~~~~~~~~It~e~I~~~~~~~ 178 (302)
T TIGR01128 115 ELPRWIQARLKKLGLRIDPDAVQLLAELVEGNLLAIAQELEKLALYAPDGKITLEDVEEAVSDS 178 (302)
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHHHHhCcHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHhhh
Confidence 3456677777788999999999999998876666666777777666665589999998666443
No 59
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=90.38 E-value=0.77 Score=41.07 Aligned_cols=58 Identities=12% Similarity=0.186 Sum_probs=48.8
Q ss_pred HHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 35 ISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 35 ~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
.-.++..|.+ .+..++..+|+-=++-.+.++++.+..|-.|.+|...+.+||--+.|.
T Consensus 12 KdvAeslGi~---Ni~Dd~l~alamDlEYRI~ev~qea~KFmvhSKRtvLt~dDis~ALr~ 69 (450)
T COG5095 12 KDVAESLGIS---NIDDDALRALAMDLEYRIKEVCQEASKFMVHSKRTVLTIDDISYALRS 69 (450)
T ss_pred HHHHHHcCCc---ccccHHHHHHHHhHHHHHHHHHHHHHHHhhcccceeeeHHhHHHHHHh
Confidence 3344444444 699999999988888888999999999999999999999999988875
No 60
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]
Probab=89.22 E-value=1.2 Score=34.38 Aligned_cols=82 Identities=10% Similarity=0.058 Sum_probs=66.0
Q ss_pred HHHHHHHHHHHHHHHHHH-hhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcHHHHHHH
Q 032408 25 ILRDRFRLSTISIAEAEA-NQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATL 103 (141)
Q Consensus 25 ~LKaaL~y~V~rI~ee~~-~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~L~~~l 103 (141)
.-++-|.|.|+||-+=.- ....++|+.++...|+.+++-.+.+|.+=+-.-|+--|.+.|.+--+.|++|....|...+
T Consensus 20 sa~agl~fpvgrvkr~lk~~~~~~Rig~~A~Vyl~AvleYL~aEilelAgNaA~d~kkkri~PrHlqlAIrnD~EL~~l~ 99 (132)
T COG5262 20 SAKAGLIFPVGRVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIPRHLQLAIRNDEELNKLL 99 (132)
T ss_pred hhhcCccccHHHHHHHHHcCccceeecCCcHHHHHHHHHHHHHHHHHHhhhhhhhcCcceechHHHHHHhcCcHHHHHHh
Confidence 346778898888755443 1245899999999998888877777877777788888999999999999999999998888
Q ss_pred HHH
Q 032408 104 RSF 106 (141)
Q Consensus 104 ~~~ 106 (141)
.+.
T Consensus 100 ~~~ 102 (132)
T COG5262 100 GDV 102 (132)
T ss_pred hhh
Confidence 754
No 61
>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=88.62 E-value=1.9 Score=39.20 Aligned_cols=62 Identities=24% Similarity=0.279 Sum_probs=50.1
Q ss_pred HHHHHHHHHhhcCCccCHHHHHHHHHHHH--HHHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 34 TISIAEAEANQIGMEISKPIIACISDLAF--KYTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 34 V~rI~ee~~~~~~~~vs~~~v~aL~Elv~--~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
+..|++..+...++.++++++..|....+ +++.++.+.+..+|..-+|.+|+.+||.-++..
T Consensus 268 i~~Il~~~a~k~~i~is~~al~~I~~y~~n~Rel~nll~~Aa~~A~~~~~~~It~~dI~~vl~~ 331 (531)
T TIGR02902 268 IKEIAKNAAEKIGINLEKHALELIVKYASNGREAVNIVQLAAGIALGEGRKRILAEDIEWVAEN 331 (531)
T ss_pred HHHHHHHHHHHcCCCcCHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCcEEcHHHHHHHhCC
Confidence 56778888777889999999999888776 344567777777777778999999999999854
No 62
>PRK05574 holA DNA polymerase III subunit delta; Reviewed
Probab=88.39 E-value=2.4 Score=34.82 Aligned_cols=64 Identities=19% Similarity=0.178 Sum_probs=50.6
Q ss_pred HHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC-CCccchhhHHHHHhhcH
Q 032408 33 STISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAG-RKSVRMEDVILSAHRNE 97 (141)
Q Consensus 33 ~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAg-RkTI~~eDV~Ll~Rrn~ 97 (141)
.+...+...+...|+.++++++..|.+.+..-...+-.+++.++--+| .+ |+.+||.-++-..+
T Consensus 150 ~~~~~i~~~~~~~g~~i~~~a~~~L~~~~~~d~~~l~~El~KL~l~~~~~~-It~~~I~~~i~~~~ 214 (340)
T PRK05574 150 ELPQWIQQRLKQQGLQIDAAALQLLAERVEGNLLALAQELEKLALLYPDGK-ITLEDVEEAVPDSA 214 (340)
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHHHHhCchHHHHHHHHHHHHhhcCCCC-CCHHHHHHHHhhhh
Confidence 345566777777899999999999999998777788888888887663 44 99999987655543
No 63
>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=87.60 E-value=2.7 Score=33.83 Aligned_cols=66 Identities=17% Similarity=0.076 Sum_probs=50.1
Q ss_pred HHHHHHHHHHHhhcCC-ccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC------CCccchhhHHHHHhhcH
Q 032408 32 LSTISIAEAEANQIGM-EISKPIIACISDLAFKYTEQLAKDLELFAQHAG------RKSVRMEDVILSAHRNE 97 (141)
Q Consensus 32 y~V~rI~ee~~~~~~~-~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAg------RkTI~~eDV~Ll~Rrn~ 97 (141)
|.+.+.+...+...|+ .++++++..|+..++.++..|..++...|+|-- -..+-.+||.--++.-.
T Consensus 48 ~~l~~~~~~i~~~~g~~~~~~d~~~lis~a~e~rlr~li~k~~~~s~hR~~~~~~~~r~~~~sdvr~qL~~l~ 120 (212)
T cd08045 48 SPLAKKIRKIAKKHGLKEVDEDVLDLISLALEERLRNLLEKLIEVSEHRVDSEKEDERYEITSDVRKQLRFLE 120 (212)
T ss_pred HHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCceeecchHHHHHHHHH
Confidence 4455555555556565 899999999999999999999999999999973 34555677766555433
No 64
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.92 E-value=3.5 Score=37.27 Aligned_cols=78 Identities=17% Similarity=0.130 Sum_probs=50.8
Q ss_pred HHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcHHHHHHHHHHHHHhhcc
Q 032408 34 TISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATLRSFRNDLKAK 113 (141)
Q Consensus 34 V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~L~~~l~~~~~el~~~ 113 (141)
+..+++..+...|+.++++++..|.+.+..-+..+..-|+..+..++. .|+.+||.-++...+. +.+..+.+.+.+.
T Consensus 181 l~~~L~~i~~~egi~i~~eal~~Ia~~s~GdlR~aln~Le~l~~~~~~-~It~e~V~~~l~~~~~--~~i~~li~si~~~ 257 (472)
T PRK14962 181 IIKRLQEVAEAEGIEIDREALSFIAKRASGGLRDALTMLEQVWKFSEG-KITLETVHEALGLIPI--EVVRDYINAIFNG 257 (472)
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCC-CCCHHHHHHHHcCCCH--HHHHHHHHHHHcC
Confidence 455666666667899999999999987754444444445544444444 3999999988766543 4555555555443
Q ss_pred C
Q 032408 114 E 114 (141)
Q Consensus 114 ~ 114 (141)
+
T Consensus 258 d 258 (472)
T PRK14962 258 D 258 (472)
T ss_pred C
Confidence 3
No 65
>COG1466 HolA DNA polymerase III, delta subunit [DNA replication, recombination, and repair]
Probab=85.88 E-value=3.1 Score=35.29 Aligned_cols=63 Identities=21% Similarity=0.234 Sum_probs=54.3
Q ss_pred HHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhc
Q 032408 34 TISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRN 96 (141)
Q Consensus 34 V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn 96 (141)
+.+.+.....+.|++++++++..|.+.+..-.-.+...++.++--++=++|+.+||..++=+.
T Consensus 145 l~~~i~~~~~~~~l~i~~~a~~~L~~~~~~nl~~i~~Ei~KL~l~~~~~~I~~~~V~~~v~~~ 207 (334)
T COG1466 145 LPQWIKKRAKELGLKIDQEAIQLLLEALGGNLLAIAQEIEKLALYAGDKEITLEDVEEVVSDV 207 (334)
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCCcCCHHHHHHHHhcc
Confidence 455667777888999999999999999998888999999999977776699999999887664
No 66
>PF13654 AAA_32: AAA domain; PDB: 3K1J_B.
Probab=85.35 E-value=5 Score=36.79 Aligned_cols=64 Identities=16% Similarity=0.286 Sum_probs=49.2
Q ss_pred HHHHHHHHHHHHHHhhcCCccCHHHHHHHHHHHHH-----------HHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 29 RFRLSTISIAEAEANQIGMEISKPIIACISDLAFK-----------YTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 29 aL~y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~-----------~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
.+.-.|..+|++.+.. .++.++++.|.+..-+ .+.++...+..||+-.|++.|+.+||.-++..
T Consensus 431 ~~~~~i~~~~~~~~L~---~~~~~Av~~li~~~~R~~q~kLsl~~~~l~~ll~EA~~~A~~~~~~~I~~~~V~~Ai~~ 505 (509)
T PF13654_consen 431 QYARFIASICQKEGLP---PFDRSAVARLIEYSARLDQDKLSLRFSWLADLLREANYWARKEGAKVITAEHVEQAIEE 505 (509)
T ss_dssp HHHHHHHHHHHHHSS-----BBHHHHHHHHHHHHHCC-SEEE--HHHHHHHHHHHHHHHHHCT-SSB-HHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCCC---CCCHHHHHHHHHHHHHHhCCEeCCCHHHHHHHHHHHHHHHHHhCCCccCHHHHHHHHHc
Confidence 3445677888877655 8999999999997755 45678899999999999999999999988753
No 67
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=85.13 E-value=4.6 Score=32.91 Aligned_cols=61 Identities=15% Similarity=0.078 Sum_probs=46.2
Q ss_pred HHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 33 STISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 33 ~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
.+..++++.+...|+.++++++..|.+.+-.-+..+..-|+.++ .+..+|+.+||..++..
T Consensus 188 ~~~~~l~~~~~~~~~~~~~~al~~l~~~~~gdlr~l~~~l~~~~--~~~~~It~~~v~~~~~~ 248 (337)
T PRK12402 188 ELVDVLESIAEAEGVDYDDDGLELIAYYAGGDLRKAILTLQTAA--LAAGEITMEAAYEALGD 248 (337)
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHH--HcCCCCCHHHHHHHhCC
Confidence 34556666666678899999999999888666666666777666 34458999999998765
No 68
>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=85.05 E-value=5.7 Score=31.16 Aligned_cols=75 Identities=9% Similarity=0.137 Sum_probs=59.7
Q ss_pred HHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcHHHHHHHHHHHH
Q 032408 32 LSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATLRSFRN 108 (141)
Q Consensus 32 y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~L~~~l~~~~~ 108 (141)
-+|.+++.+. .+.+..|+.++-..+-+..-.++.-+...+...+..-..|||..+-|.-+... =....++.....
T Consensus 15 ATVqKMvS~i-Lp~dl~ftKearei~in~cieFi~~lsseAne~ce~EaKKTIa~EHviKALen-Lef~eyi~~~~e 89 (148)
T COG5150 15 ATVQKMVSSI-LPKDLVFTKEAREIFINACIEFINMLSSEANEACEEEAKKTIAYEHVIKALEN-LEFEEYIESCME 89 (148)
T ss_pred HHHHHHHHHh-ccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHh-ccHHHHHHHHHH
Confidence 3677777776 45578899999999999999899899999999999999999999999988854 344555544444
No 69
>PRK04195 replication factor C large subunit; Provisional
Probab=82.52 E-value=3.7 Score=36.56 Aligned_cols=62 Identities=19% Similarity=0.258 Sum_probs=48.0
Q ss_pred HHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhc
Q 032408 33 STISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRN 96 (141)
Q Consensus 33 ~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn 96 (141)
.+..++...+...|+.++++++..|.+....-+..+..+|+.++. |+..|+.+||.-+..++
T Consensus 164 ~i~~~L~~i~~~egi~i~~eaL~~Ia~~s~GDlR~ain~Lq~~a~--~~~~it~~~v~~~~~~d 225 (482)
T PRK04195 164 SIVPVLKRICRKEGIECDDEALKEIAERSGGDLRSAINDLQAIAE--GYGKLTLEDVKTLGRRD 225 (482)
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhc--CCCCCcHHHHHHhhcCC
Confidence 344455555556688999999999999988888888899998764 56789999998776444
No 70
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=81.83 E-value=8 Score=31.18 Aligned_cols=61 Identities=18% Similarity=0.089 Sum_probs=47.0
Q ss_pred HHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhc
Q 032408 34 TISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRN 96 (141)
Q Consensus 34 V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn 96 (141)
+.++++..+...|+.++++++..|.+.+...+..+-.-|+.++.. ..+|+.++|..++-+.
T Consensus 166 i~~~l~~~~~~~~~~i~~~al~~l~~~~~gd~r~~~~~l~~~~~~--~~~it~~~v~~~~~~~ 226 (319)
T PRK00440 166 VAERLRYIAENEGIEITDDALEAIYYVSEGDMRKAINALQAAAAT--GKEVTEEAVYKITGTA 226 (319)
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHc--CCCCCHHHHHHHhCCC
Confidence 455666666667899999999999998877777777777776654 3689999999887554
No 71
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=81.82 E-value=13 Score=35.23 Aligned_cols=70 Identities=13% Similarity=0.062 Sum_probs=52.5
Q ss_pred HHHHHHHHHhh-cCCccCHHHHHHHHHHHHHHHH-------------HHHHHHHHHHhhcCCCccchhhHHHHHhhcHHH
Q 032408 34 TISIAEAEANQ-IGMEISKPIIACISDLAFKYTE-------------QLAKDLELFAQHAGRKSVRMEDVILSAHRNERL 99 (141)
Q Consensus 34 V~rI~ee~~~~-~~~~vs~~~v~aL~Elv~~~~~-------------~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~L 99 (141)
+..++++.... .-..++++++..|.+..-+.+. .+.+.+..+|+..+++.|+.+||.-+.++...+
T Consensus 324 ~~~iaqe~~~~G~l~~f~~eAVa~LI~~~~R~ag~r~~lsl~~~~l~~l~r~a~~~a~~~~~~~i~~~~v~~a~~~~~~i 403 (637)
T PRK13765 324 VRFVAQEVKRDGKIPHFDRDAVEEIIREAKRRAGRKGHLTLKLRDLGGLVRVAGDIARSEGAELTTAEHVLEAKKIARSI 403 (637)
T ss_pred HHHHHHHhhhccCCCCCCHHHHHHHHHHHHHHhCCccccccCHHHHHHHHHHHHHHHHhhccceecHHHHHHHHHhhhhh
Confidence 34455555443 2247999999999887666553 388889999999999999999999888776666
Q ss_pred HHHH
Q 032408 100 AATL 103 (141)
Q Consensus 100 ~~~l 103 (141)
.+.+
T Consensus 404 ~~~~ 407 (637)
T PRK13765 404 EQQL 407 (637)
T ss_pred hHHH
Confidence 6554
No 72
>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=81.76 E-value=16 Score=34.04 Aligned_cols=73 Identities=14% Similarity=0.087 Sum_probs=51.9
Q ss_pred HHHHHHHHHHHHhhcCCccCHHHHHHHHHHHH-------------HHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcH
Q 032408 31 RLSTISIAEAEANQIGMEISKPIIACISDLAF-------------KYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNE 97 (141)
Q Consensus 31 ~y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~-------------~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~ 97 (141)
.-.|.+.+++.|. -..++++++..|.+... +.+..+.+.+..+|+..|..+|+.+||.-+.+...
T Consensus 315 ~~~i~~~~~r~G~--l~~~s~~Av~~Li~~~~R~ag~r~~lsl~~R~L~~llR~A~~iA~~~~~~~I~~ehV~~Ai~~~~ 392 (608)
T TIGR00764 315 VQFVAQEVKKDGR--IPHFTRDAVEEIVREAQRRAGRKDHLTLRLRELGGLVRAAGDIAKSSGKVYVTAEHVLKAKKLAK 392 (608)
T ss_pred HHHHHHHHHHhCC--CCcCCHHHHHHHHHHHHHHHhcccccCCCHHHHHHHHHHHHHHHHhcCCceecHHHHHHHHHHHH
Confidence 3344444544431 13699999999987544 45567888888888888999999999999887666
Q ss_pred HHHHHHHH
Q 032408 98 RLAATLRS 105 (141)
Q Consensus 98 ~L~~~l~~ 105 (141)
...+.+.+
T Consensus 393 ~~~~~i~~ 400 (608)
T TIGR00764 393 TLEKQLAD 400 (608)
T ss_pred HHHHHHHH
Confidence 66665544
No 73
>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=81.75 E-value=2 Score=35.50 Aligned_cols=71 Identities=14% Similarity=0.090 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCc------cchhhHHHHHhhcHHHHH
Q 032408 28 DRFRLSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKS------VRMEDVILSAHRNERLAA 101 (141)
Q Consensus 28 aaL~y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkT------I~~eDV~Ll~Rrn~~L~~ 101 (141)
..|+..|.+|+...+ ...+.++++..|+-.++.++.+|..++...|+|--... ...+||.--+|....+..
T Consensus 47 ~~L~~~i~~i~~~~g---~~~~~~d~l~llS~A~e~rLr~lie~~~~~s~hR~~~~~~~~~~~~~sdv~~qlr~l~~~e~ 123 (264)
T PF05236_consen 47 SPLQKRIQKIAKKHG---LKSVDEDVLELLSLATEERLRNLIEKAIVLSRHRRDSSKSDPRYEIRSDVRKQLRFLEQLEK 123 (264)
T ss_dssp HHHHHHHHHHHHCTT-----EE-TCHHHHHHHHHHHHHHHHHHHHH----------------------------------
T ss_pred HHHHHHHHHHHHHcC---CcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCCCcccccchHHHHHHHHHHHHHH
Confidence 345555666654444 24799999999999999999999999999999965432 235666655555444433
No 74
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=81.35 E-value=4.8 Score=34.00 Aligned_cols=62 Identities=10% Similarity=0.053 Sum_probs=45.4
Q ss_pred HHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 33 STISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 33 ~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
.+..++.+.+...|+.++++++..|.+.+-.-...+..-|+..+..+|.. |+.+||..++-.
T Consensus 171 ~l~~~l~~~~~~~g~~i~~~al~~l~~~~~gdlr~~~~~lekl~~y~~~~-it~~~v~~~~~~ 232 (367)
T PRK14970 171 DIKEHLAGIAVKEGIKFEDDALHIIAQKADGALRDALSIFDRVVTFCGKN-ITRQAVTENLNI 232 (367)
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCC-CCHHHHHHHhCC
Confidence 34555666666778999999999999987755555666666666666766 999999966543
No 75
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=78.71 E-value=16 Score=30.82 Aligned_cols=49 Identities=22% Similarity=0.353 Sum_probs=41.1
Q ss_pred ccCHHHHHHHHHHH------HHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhc
Q 032408 48 EISKPIIACISDLA------FKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRN 96 (141)
Q Consensus 48 ~vs~~~v~aL~Elv------~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn 96 (141)
.++++++..+.+++ .+++-+++..+..+|...|+.+|+.+||.-+..+.
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 58999999999988 55666778888888888899999999999887653
No 76
>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=78.05 E-value=6.9 Score=32.30 Aligned_cols=62 Identities=13% Similarity=0.076 Sum_probs=43.2
Q ss_pred HHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 33 STISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 33 ~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
.+..++...+...|+.++++++..|.+.+..-...+...++..+..+++ .|+.+||.-++..
T Consensus 180 ~l~~~l~~~~~~~g~~i~~~a~~~l~~~~~g~~~~a~~~lekl~~~~~~-~it~~~v~~~~~~ 241 (355)
T TIGR02397 180 DIVERLKKILDKEGIKIEDEALELIARAADGSLRDALSLLDQLISFGNG-NITYEDVNELLGL 241 (355)
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCChHHHHHHHHHHHhhcCC-CCCHHHHHHHhCC
Confidence 3455666666677889999999999988765555555555555555554 4999999876643
No 77
>KOG3902 consensus Histone acetyltransferase PCAF/SAGA, subunit SUPT3H/SPT3 [Transcription]
Probab=77.88 E-value=12 Score=33.09 Aligned_cols=64 Identities=16% Similarity=0.163 Sum_probs=54.1
Q ss_pred ccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcHHHHHHHHHHHH--Hhh
Q 032408 48 EISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATLRSFRN--DLK 111 (141)
Q Consensus 48 ~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~L~~~l~~~~~--el~ 111 (141)
.-.|+.++-+.++|-.++..+..-....|.-+|=..|+++|+.+++|....=...|..|+. +++
T Consensus 42 ~P~pett~Lved~V~gqvie~l~qa~eia~lrgsr~Itpedliflir~Drakv~rL~tyl~~kdlR 107 (352)
T KOG3902|consen 42 DPLPETTNLVEDNVRGQVIESLVQANEIADLRGSRSITPEDLIFLIRHDRAKVNRLVTYLSWKDLR 107 (352)
T ss_pred CCcHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCccccChHHHHHHhhccHHHHHHHHHHHHHHHHH
Confidence 4789999999999999999999999999999999999999999999998765555555543 454
No 78
>PRK08727 hypothetical protein; Validated
Probab=77.02 E-value=8.6 Score=30.85 Aligned_cols=63 Identities=13% Similarity=0.101 Sum_probs=47.4
Q ss_pred HHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHH---HHHHHHHHhhcCCCccchhhHHHHHhhcH
Q 032408 34 TISIAEAEANQIGMEISKPIIACISDLAFKYTEQL---AKDLELFAQHAGRKSVRMEDVILSAHRNE 97 (141)
Q Consensus 34 V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~i---a~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~ 97 (141)
...|++..+...|+.++++++..|.+.+...+..+ ..-|..+|...+| .|+.+.|+-+..++.
T Consensus 167 ~~~iL~~~a~~~~l~l~~e~~~~La~~~~rd~r~~l~~L~~l~~~~~~~~~-~it~~~~~~~l~~~~ 232 (233)
T PRK08727 167 RAAVLRERAQRRGLALDEAAIDWLLTHGERELAGLVALLDRLDRESLAAKR-RVTVPFLRRVLEEGR 232 (233)
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCC-CCCHHHHHHHHhhcC
Confidence 45677776666789999999999999987655544 6666655666666 699998888876654
No 79
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=76.44 E-value=14 Score=32.39 Aligned_cols=60 Identities=18% Similarity=0.163 Sum_probs=46.9
Q ss_pred HHHHHHHHhhcCCccCHHHHHHHHHHHHHHH-------HHHHHHHHHHHhhcCCCccchhhHHHHHh
Q 032408 35 ISIAEAEANQIGMEISKPIIACISDLAFKYT-------EQLAKDLELFAQHAGRKSVRMEDVILSAH 94 (141)
Q Consensus 35 ~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~-------~~ia~DLe~FAkHAgRkTI~~eDV~Ll~R 94 (141)
.+|..-...-..+.+++..+..+++++...- ..+.+=+.++|.-.||..|+++||+.+++
T Consensus 254 ~~I~~ar~~~~~V~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~pdDv~~~a~ 320 (350)
T CHL00081 254 SKIVAAQNLLPKVEIDYDLRVKISQICSELDVDGLRGDIVTNRAAKALAAFEGRTEVTPKDIFKVIT 320 (350)
T ss_pred HHHHHHHHhcCCCccCHHHHHHHHHHHHHHCCCCChHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 4444443333568899999999999988754 24667888999999999999999998874
No 80
>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=75.86 E-value=13 Score=29.26 Aligned_cols=49 Identities=16% Similarity=0.072 Sum_probs=40.8
Q ss_pred CccCHHHHHHHHHHHHH---HHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 47 MEISKPIIACISDLAFK---YTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 47 ~~vs~~~v~aL~Elv~~---~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
..++++++..|.+.+-. ++..++..+...|-=.|.++|+.++|..+++.
T Consensus 214 ~~~~~~~~~~i~~~s~G~p~~i~~l~~~~~~~a~~~~~~~i~~~~v~~~~~~ 265 (269)
T TIGR03015 214 PVFSEGAFDAIHRFSRGIPRLINILCDRLLLSAFLEEKREIGGEEVREVIAE 265 (269)
T ss_pred CCcCHHHHHHHHHHcCCcccHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 57999999999888765 66788888888776678889999999998864
No 81
>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.
Probab=75.00 E-value=11 Score=32.73 Aligned_cols=60 Identities=18% Similarity=0.253 Sum_probs=44.9
Q ss_pred HHHHHHHHhhcCCccCHHHHHHHHHHHHHHHH-------HHHHHHHHHHhhcCCCccchhhHHHHHh
Q 032408 35 ISIAEAEANQIGMEISKPIIACISDLAFKYTE-------QLAKDLELFAQHAGRKSVRMEDVILSAH 94 (141)
Q Consensus 35 ~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~-------~ia~DLe~FAkHAgRkTI~~eDV~Ll~R 94 (141)
..|+.....-.++.+++.++..+++++...-. .+.+=+.++|.-.||..|+++||+.+++
T Consensus 241 ~~I~~a~~~~~~V~v~d~~~~~i~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~~dDv~~~a~ 307 (337)
T TIGR02030 241 AKIVNAQNLLPQVTIPYDVLVKVAELCAELDVDGLRGELTLNRAAKALAAFEGRTEVTVDDIRRVAV 307 (337)
T ss_pred HHHHHHHHHhccCcCCHHHHHHHHHHHHHHCCCCCcHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 34444333335688999999988888875432 3667788999999999999999997763
No 82
>PF06144 DNA_pol3_delta: DNA polymerase III, delta subunit; InterPro: IPR010372 DNA polymerase III, delta subunit (2.7.7.7 from EC) is required for, along with delta' subunit, the assembly of the processivity factor beta(2) onto primed DNA in the DNA polymerase III holoenzyme-catalysed reaction []. The delta subunit is also known as HolA.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication, 0009360 DNA polymerase III complex; PDB: 3GLG_F 1XXH_A 1JQL_B 3GLF_F 1JQJ_C 3GLI_F.
Probab=74.21 E-value=8.4 Score=28.41 Aligned_cols=44 Identities=14% Similarity=0.124 Sum_probs=33.8
Q ss_pred HHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032408 33 STISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFA 76 (141)
Q Consensus 33 ~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FA 76 (141)
.+.+.+++.+...|+.++++++..|.+.+-.-...+..+++..+
T Consensus 128 ~~~~~i~~~~~~~g~~i~~~a~~~L~~~~~~d~~~l~~EleKL~ 171 (172)
T PF06144_consen 128 ELPRWIKERAKKNGLKIDPDAAQYLIERVGNDLSLLQNELEKLS 171 (172)
T ss_dssp THHHHHHHHHHHTT-EE-HHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHHHHhChHHHHHHHHHHHhc
Confidence 35677888888889999999999999998888888888887654
No 83
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=73.50 E-value=17 Score=33.33 Aligned_cols=57 Identities=12% Similarity=-0.058 Sum_probs=41.9
Q ss_pred HHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHH
Q 032408 36 SIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSA 93 (141)
Q Consensus 36 rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~ 93 (141)
..+...+...|+.++++++..|.+.+..-...+..-|+..+.|+|. +|+.+||..+.
T Consensus 182 ~~L~~ia~~Egi~i~~eAL~lIa~~s~GslR~alslLdqli~y~~~-~It~e~V~~ll 238 (491)
T PRK14964 182 EHLVDIAKKENIEHDEESLKLIAENSSGSMRNALFLLEQAAIYSNN-KISEKSVRDLL 238 (491)
T ss_pred HHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCC-CCCHHHHHHHH
Confidence 3444444456889999999999998866666666666666667774 89999998753
No 84
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=73.48 E-value=15 Score=32.30 Aligned_cols=73 Identities=21% Similarity=0.321 Sum_probs=57.2
Q ss_pred HHHHHHHHHH------------HHHHHHHHHHHhhcCCccCHHHHHHHHHHHH---HHHHHHHHHHHHHHhhcCCCccch
Q 032408 22 VTEILRDRFR------------LSTISIAEAEANQIGMEISKPIIACISDLAF---KYTEQLAKDLELFAQHAGRKSVRM 86 (141)
Q Consensus 22 ~~~~LKaaL~------------y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~---~~~~~ia~DLe~FAkHAgRkTI~~ 86 (141)
+.++|++++. -....|++..+...++.++++++..|.+-+. +.++.+...|.+||...||. |+.
T Consensus 261 l~~~l~SRl~~gl~v~i~~pd~~~r~~il~~~~~~~~~~l~~e~l~~ia~~~~~~~R~l~~~l~~l~~~~~~~~~~-it~ 339 (450)
T PRK00149 261 LEERLRSRFEWGLTVDIEPPDLETRIAILKKKAEEEGIDLPDEVLEFIAKNITSNVRELEGALNRLIAYASLTGKP-ITL 339 (450)
T ss_pred HHHHHHhHhcCCeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHcCcCCCHHHHHHHHHHHHHHHHhhCCC-CCH
Confidence 4566777773 2356788888777789999999999988765 55667888999999888876 899
Q ss_pred hhHHHHHhh
Q 032408 87 EDVILSAHR 95 (141)
Q Consensus 87 eDV~Ll~Rr 95 (141)
+.++-+++.
T Consensus 340 ~~~~~~l~~ 348 (450)
T PRK00149 340 ELAKEALKD 348 (450)
T ss_pred HHHHHHHHH
Confidence 998888764
No 85
>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=72.38 E-value=4.1 Score=28.23 Aligned_cols=60 Identities=10% Similarity=0.064 Sum_probs=39.0
Q ss_pred HHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCc-cchhhHHHH
Q 032408 33 STISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKS-VRMEDVILS 92 (141)
Q Consensus 33 ~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkT-I~~eDV~Ll 92 (141)
.|.||....-...+.++|++++..+++++.-++..-..=+..-|+--|-.. |+.+|+.=+
T Consensus 4 li~rll~~~f~~~~tkIs~dal~l~~eyl~iFV~EAv~Ra~~~a~~e~~~~~le~e~LEki 64 (72)
T PF09415_consen 4 LIARLLHEHFKDDKTKISKDALKLSAEYLRIFVREAVARAAEQAEAEGDEGFLEVEHLEKI 64 (72)
T ss_dssp HHHHHHCTTSSSTT-EE-CCCHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSEE-HHHHHHH
T ss_pred HHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCHHHHHHH
Confidence 466777633334578999999999999999888664444444556666666 999998643
No 86
>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea.
Probab=72.36 E-value=12 Score=34.64 Aligned_cols=50 Identities=20% Similarity=0.117 Sum_probs=42.1
Q ss_pred cCCccCHHHHHHHHHHHHHHHH-------HHHHHHHHHHhhcCCCccchhhHHHHHh
Q 032408 45 IGMEISKPIIACISDLAFKYTE-------QLAKDLELFAQHAGRKSVRMEDVILSAH 94 (141)
Q Consensus 45 ~~~~vs~~~v~aL~Elv~~~~~-------~ia~DLe~FAkHAgRkTI~~eDV~Ll~R 94 (141)
..+.++++.+..|++++...-. .+.+=+.++|.-.||.+|+.+||+.+++
T Consensus 200 ~~V~i~~~~~~~l~~~~~~~gv~s~Ra~i~~~r~ArA~Aal~gr~~V~~~Dv~~a~~ 256 (589)
T TIGR02031 200 PQVTISAEQVKELVLTAASLGISGHRADLFAVRAAKAHAALHGRTEVTEEDLKLAVE 256 (589)
T ss_pred CCccCCHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Confidence 4688999999999999876542 3667788999999999999999999884
No 87
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=70.37 E-value=13 Score=32.26 Aligned_cols=59 Identities=14% Similarity=0.153 Sum_probs=40.8
Q ss_pred HHHHHHHHhhcCCccCHHHHHHHHHHHHHHHH---HHHHHHHHHHh-hcCCCccchhhHHHHH
Q 032408 35 ISIAEAEANQIGMEISKPIIACISDLAFKYTE---QLAKDLELFAQ-HAGRKSVRMEDVILSA 93 (141)
Q Consensus 35 ~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~---~ia~DLe~FAk-HAgRkTI~~eDV~Ll~ 93 (141)
...+.......|+.++++++..|.+++-.... +...-|..|+. |.++.+|+.+||.-++
T Consensus 192 ~~~l~~~~~~~g~~i~~~al~~l~~~s~g~lr~a~~~L~kl~~~~~~~~~~~~It~~~v~~~v 254 (397)
T PRK14955 192 QQQLQGICEAEGISVDADALQLIGRKAQGSMRDAQSILDQVIAFSVESEGEGSIRYDKVAELL 254 (397)
T ss_pred HHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccccCCCCccCHHHHHHHH
Confidence 33444444455889999999999888866444 44445556664 5567899999997655
No 88
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=70.16 E-value=27 Score=32.17 Aligned_cols=63 Identities=11% Similarity=0.034 Sum_probs=42.8
Q ss_pred HHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhc
Q 032408 33 STISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRN 96 (141)
Q Consensus 33 ~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn 96 (141)
.+..++...+...|+.++++++..|.+++..-...+..-|+.++.+ +...|+.+||..++..+
T Consensus 183 el~~~L~~~a~~egl~i~~eal~~La~~s~Gdlr~al~~LekL~~y-~~~~It~e~V~~ll~~s 245 (585)
T PRK14950 183 DMAAHLRKIAAAEGINLEPGALEAIARAATGSMRDAENLLQQLATT-YGGEISLSQVQSLLGIS 245 (585)
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cCCCCCHHHHHHHhcCC
Confidence 3455566666667889999999999888865444455555555444 34579999997765543
No 89
>PF09123 DUF1931: Domain of unknown function (DUF1931); InterPro: IPR015207 This entry represents a set of hypothetical bacterial proteins containing a core of six alpha-helices, where one central helix is surrounded by the other five. The exact function of this family has not, as yet, been determined []. ; PDB: 1WWS_A 1WWI_A 1R4V_A.
Probab=70.11 E-value=12 Score=29.42 Aligned_cols=67 Identities=22% Similarity=0.268 Sum_probs=48.5
Q ss_pred HHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcHHHHHHHHHHHH
Q 032408 35 ISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATLRSFRN 108 (141)
Q Consensus 35 ~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~L~~~l~~~~~ 108 (141)
.++.+.++ |..|.+.-+..++++|.+.+.++..=++.-|+--||.+|.+-|+=+ ..+|+..|+.|.+
T Consensus 2 e~lFR~aa---~LdvdK~d~~r~~d~V~~Kl~DLl~va~~~Ak~ngRdvI~~~DLPI----TkGlqesi~~Fr~ 68 (138)
T PF09123_consen 2 ERLFRKAA---GLDVDKNDAKRYSDFVEKKLYDLLLVAQENAKANGRDVIEPRDLPI----TKGLQESIREFRK 68 (138)
T ss_dssp HHHHHHHH---S----HHHHHHHHHHHHHHHHHCCCCHHHHHHHTT-SEE-GGGS-------HHHHHHHHHHHT
T ss_pred hHHHHHHh---ccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeeccccCCc----cHHHHHHHHHHHH
Confidence 35555554 6789999999999999999999888889999999999999999865 3478888877743
No 90
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=69.81 E-value=22 Score=30.85 Aligned_cols=59 Identities=15% Similarity=0.136 Sum_probs=46.5
Q ss_pred HHHHHHHHhhcCCccCHHHHHHHHHHHHHHHH-------HHHHHHHHHHhhcCCCccchhhHHHHH
Q 032408 35 ISIAEAEANQIGMEISKPIIACISDLAFKYTE-------QLAKDLELFAQHAGRKSVRMEDVILSA 93 (141)
Q Consensus 35 ~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~-------~ia~DLe~FAkHAgRkTI~~eDV~Ll~ 93 (141)
.+|..-...-..+.++++++..+++++...-. .+.+-+.++|-..||..|+++||+-++
T Consensus 238 ~~i~~a~~~~~~V~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~~aA~a~A~l~Gr~~V~~~Di~~~~ 303 (334)
T PRK13407 238 GRILGARARLPQLKTPNTVLHDCAALCIALGSDGLRGELTLLRAARALAAFEGAEAVGRSHLRSVA 303 (334)
T ss_pred HHHHHHHHhcCCcccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHHcCCCeeCHHHHHHHH
Confidence 44554443335788999999999999876542 277889999999999999999997766
No 91
>PLN03025 replication factor C subunit; Provisional
Probab=69.53 E-value=28 Score=29.04 Aligned_cols=58 Identities=14% Similarity=-0.022 Sum_probs=43.2
Q ss_pred HHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHh
Q 032408 35 ISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAH 94 (141)
Q Consensus 35 ~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~R 94 (141)
..++...+...|+.++++++..|.+....-...+...|+..+ .|...|+.++|.-++-
T Consensus 164 ~~~L~~i~~~egi~i~~~~l~~i~~~~~gDlR~aln~Lq~~~--~~~~~i~~~~v~~~~~ 221 (319)
T PLN03025 164 LGRLMKVVEAEKVPYVPEGLEAIIFTADGDMRQALNNLQATH--SGFGFVNQENVFKVCD 221 (319)
T ss_pred HHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHH--hcCCCCCHHHHHHHcC
Confidence 444555555668999999999999888877778888888433 4556899999976543
No 92
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=69.01 E-value=14 Score=34.52 Aligned_cols=59 Identities=19% Similarity=0.054 Sum_probs=43.6
Q ss_pred HHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHh
Q 032408 35 ISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAH 94 (141)
Q Consensus 35 ~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~R 94 (141)
.+.+.+.+...|+.++++++..|.+.+......+...|+....|+ ...|+.+||..++-
T Consensus 197 ~~~L~~i~~kegi~i~~eAl~lIa~~a~Gdlr~al~~Ldkli~~g-~g~It~e~V~~llg 255 (598)
T PRK09111 197 AAHLSRIAAKEGVEVEDEALALIARAAEGSVRDGLSLLDQAIAHG-AGEVTAEAVRDMLG 255 (598)
T ss_pred HHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhhc-CCCcCHHHHHHHhC
Confidence 444455555568899999999999988777766666666666664 46799999997754
No 93
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=68.29 E-value=35 Score=26.60 Aligned_cols=60 Identities=13% Similarity=0.120 Sum_probs=45.3
Q ss_pred HHHHHHHHHhhcCCccCHHHHHHHHHHHH---HHHHHHHHHHHHHHhhcCCCccchhhHHHHHh
Q 032408 34 TISIAEAEANQIGMEISKPIIACISDLAF---KYTEQLAKDLELFAQHAGRKSVRMEDVILSAH 94 (141)
Q Consensus 34 V~rI~ee~~~~~~~~vs~~~v~aL~Elv~---~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~R 94 (141)
...++.+.+...|+.++++++..|...+. .++..+.++|..+|...|| .|+...|+-++.
T Consensus 162 ~~~~l~~~~~~~~v~l~~~al~~L~~~~~gn~~~l~~~l~~l~~~~~~~~~-~i~~~~~~~~l~ 224 (227)
T PRK08903 162 KIAALKAAAAERGLQLADEVPDYLLTHFRRDMPSLMALLDALDRYSLEQKR-PVTLPLLREMLA 224 (227)
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhCC-CCCHHHHHHHHh
Confidence 34466666666789999999999999543 3566788888888888884 788887776653
No 94
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=67.33 E-value=59 Score=29.13 Aligned_cols=79 Identities=19% Similarity=0.193 Sum_probs=57.2
Q ss_pred hhhhhHHHHHHHHHH------------HHHHHHHHHHHhhcCC--ccCHHHHHHHHHHHH---HHHHHHHHHHHHHHhhc
Q 032408 17 EEDASVTEILRDRFR------------LSTISIAEAEANQIGM--EISKPIIACISDLAF---KYTEQLAKDLELFAQHA 79 (141)
Q Consensus 17 ~~~~~~~~~LKaaL~------------y~V~rI~ee~~~~~~~--~vs~~~v~aL~Elv~---~~~~~ia~DLe~FAkHA 79 (141)
++-..+.++|..++. -....|++..+...|+ .++++++..|.+.+- +.+..+...|..+|...
T Consensus 251 ~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~~~~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL~~l~~~a~~~ 330 (450)
T PRK14087 251 ELLNGFDNRLITRFNMGLSIAIQKLDNKTATAIIKKEIKNQNIKQEVTEEAINFISNYYSDDVRKIKGSVSRLNFWSQQN 330 (450)
T ss_pred HHHhhccHHHHHHHhCCceeccCCcCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHHHHHHHHHhcc
Confidence 333446778888885 3456778777776664 799999999998876 45566777787666554
Q ss_pred C-CCccchhhHHHHHhh
Q 032408 80 G-RKSVRMEDVILSAHR 95 (141)
Q Consensus 80 g-RkTI~~eDV~Ll~Rr 95 (141)
+ .+.|+.+.|+-+.+.
T Consensus 331 ~~~~~it~~~v~~~l~~ 347 (450)
T PRK14087 331 PEEKIITIEIVSDLFRD 347 (450)
T ss_pred cCCCCCCHHHHHHHHhh
Confidence 2 357999999888864
No 95
>TIGR02442 Cob-chelat-sub cobaltochelatase subunit. A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.
Probab=66.97 E-value=35 Score=31.83 Aligned_cols=50 Identities=30% Similarity=0.414 Sum_probs=41.4
Q ss_pred cCCccCHHHHHHHHHHHHHHH-------HHHHHHHHHHHhhcCCCccchhhHHHHHh
Q 032408 45 IGMEISKPIIACISDLAFKYT-------EQLAKDLELFAQHAGRKSVRMEDVILSAH 94 (141)
Q Consensus 45 ~~~~vs~~~v~aL~Elv~~~~-------~~ia~DLe~FAkHAgRkTI~~eDV~Ll~R 94 (141)
..+.++++++..|.+++...- ..+.+=+.++|.-.||.+|+.+||..+++
T Consensus 246 ~~V~is~~~~~~l~~~~~~~~i~s~Ra~i~~~r~Ara~AaL~gr~~V~~~Dv~~A~~ 302 (633)
T TIGR02442 246 PSVRISDSLIRFISELCIEFGVDGHRADIVMARAARALAALDGRRRVTAEDVREAAE 302 (633)
T ss_pred CCCCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHH
Confidence 468899999999999887653 24667788999999999999999987663
No 96
>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]
Probab=66.40 E-value=18 Score=32.70 Aligned_cols=60 Identities=22% Similarity=0.413 Sum_probs=50.1
Q ss_pred HHHHHHHHHhhcCCccCHHHHHHHHHH----HHHHHHHHHHHHHHHHhhcCCCccchhhHHHHH
Q 032408 34 TISIAEAEANQIGMEISKPIIACISDL----AFKYTEQLAKDLELFAQHAGRKSVRMEDVILSA 93 (141)
Q Consensus 34 V~rI~ee~~~~~~~~vs~~~v~aL~El----v~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~ 93 (141)
+..|++.-+...|+.++.++..-|.++ .-+|+.++..-+.-.|+-.||+.|..+||.-+.
T Consensus 372 ~r~Ii~~Ra~~E~l~~~e~a~~~l~~~gt~tsLRy~vqLl~p~~~~ak~~g~~~i~v~dvee~~ 435 (456)
T KOG1942|consen 372 IRQIIKIRAQVEGLQVEEEALDLLAEIGTSTSLRYAVQLLTPASILAKTNGRKEISVEDVEEVT 435 (456)
T ss_pred HHHHHHHHHhhhcceecHHHHHHHHhhccchhHHHHHHhcCHHHHHHHHcCCceeecccHHHHH
Confidence 556777777777899999999999884 567888888888889999999999999997554
No 97
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=65.91 E-value=16 Score=33.34 Aligned_cols=61 Identities=25% Similarity=0.400 Sum_probs=50.1
Q ss_pred HHHHHHHHHhhcCCccCHHHHHHHHHHH----HHHHHHHHHHHHHHHhhcCCCccchhhHHHHHh
Q 032408 34 TISIAEAEANQIGMEISKPIIACISDLA----FKYTEQLAKDLELFAQHAGRKSVRMEDVILSAH 94 (141)
Q Consensus 34 V~rI~ee~~~~~~~~vs~~~v~aL~Elv----~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~R 94 (141)
+.-|++--+.+.++.+|++++.-|+.+- -+|+.++..=+..+|+--|+++|..+||.-+..
T Consensus 366 ireIi~iRa~ee~i~l~~~Ale~L~~ig~etSLRYa~qLL~pa~iiA~~rg~~~V~~~dVe~a~~ 430 (450)
T COG1224 366 IREIIRIRAKEEDIELSDDALEYLTDIGEETSLRYAVQLLTPASIIAKRRGSKRVEVEDVERAKE 430 (450)
T ss_pred HHHHHHHhhhhhccccCHHHHHHHHhhchhhhHHHHHHhccHHHHHHHHhCCCeeehhHHHHHHH
Confidence 4556777777789999999999998764 567777777777799999999999999987653
No 98
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=64.89 E-value=19 Score=33.00 Aligned_cols=60 Identities=8% Similarity=-0.045 Sum_probs=42.7
Q ss_pred HHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC--CCccchhhHHHHHhh
Q 032408 36 SIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAG--RKSVRMEDVILSAHR 95 (141)
Q Consensus 36 rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAg--RkTI~~eDV~Ll~Rr 95 (141)
.+++..+...|+.++++++..|.+.+..........|+..+.+++ ...|+.+||.-++-.
T Consensus 194 ~~L~~i~~~egi~ie~eAL~~Ia~~s~GslR~al~~Ldkai~~~~~~~~~It~~~V~~llg~ 255 (507)
T PRK06645 194 KLLEYITKQENLKTDIEALRIIAYKSEGSARDAVSILDQAASMSAKSDNIISPQVINQMLGL 255 (507)
T ss_pred HHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhccCCCCcCHHHHHHHHCC
Confidence 334444445578899999999999887666666677766666664 447999999876533
No 99
>COG1067 LonB Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]
Probab=64.20 E-value=64 Score=30.83 Aligned_cols=84 Identities=17% Similarity=0.105 Sum_probs=61.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHH-------------HHHHHHHHHHhhcCCCccchhhH
Q 032408 23 TEILRDRFRLSTISIAEAEANQIGMEISKPIIACISDLAFKYTE-------------QLAKDLELFAQHAGRKSVRMEDV 89 (141)
Q Consensus 23 ~~~LKaaL~y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~-------------~ia~DLe~FAkHAgRkTI~~eDV 89 (141)
.+.-+.++|..+.+-+.+.+ .-..++.++++.|.....+++. ++...+..+|.-.|++-|+.+||
T Consensus 315 ~~~nr~k~~~~~~q~v~~d~--~ip~~~~~Av~~li~~a~R~Ag~~~~Ltl~~rdl~~lv~~A~~ia~~~~~~~I~ae~V 392 (647)
T COG1067 315 TDANRSKLVQFYVQELARDG--NIPHLDKDAVEELIREAARRAGDQNKLTLRLRDLGNLVREAGDIAVSEGRKLITAEDV 392 (647)
T ss_pred ChHHHHHHHHHHHHHHHhcC--CCCCCCHHHHHHHHHHHHHhccccceeccCHHHHHHHHHHhhHHHhcCCcccCcHHHH
Confidence 34566777766655555442 2347999999999888877653 45566777788889999999999
Q ss_pred HHHHhhcHHHHHHHHHHHH
Q 032408 90 ILSAHRNERLAATLRSFRN 108 (141)
Q Consensus 90 ~Ll~Rrn~~L~~~l~~~~~ 108 (141)
..+.++.....+.+.+...
T Consensus 393 e~a~~~~~~~e~~l~e~~~ 411 (647)
T COG1067 393 EEALQKRELREGQLAERYI 411 (647)
T ss_pred HHHHHhhhhHHHHHHHHHH
Confidence 9999997777776655443
No 100
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=63.90 E-value=33 Score=31.38 Aligned_cols=60 Identities=13% Similarity=-0.019 Sum_probs=43.6
Q ss_pred HHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcH
Q 032408 36 SIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNE 97 (141)
Q Consensus 36 rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~ 97 (141)
..+...+...|+.++++++..|.+.+-.-...+...|+..+.. ..+|+.+||.-++-..+
T Consensus 182 ~~L~~i~~~egi~i~~~Al~~ia~~s~GdlR~aln~Lekl~~~--~~~It~~~V~~~l~~~~ 241 (504)
T PRK14963 182 GKLRRLLEAEGREAEPEALQLVARLADGAMRDAESLLERLLAL--GTPVTRKQVEEALGLPP 241 (504)
T ss_pred HHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhc--CCCCCHHHHHHHHCCCc
Confidence 3344444455788999999999999887777777777776554 34799999988765543
No 101
>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=63.49 E-value=51 Score=23.40 Aligned_cols=67 Identities=10% Similarity=0.222 Sum_probs=47.9
Q ss_pred HHHHHH-HHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhh---cCCCccchhhHHHHHhhc
Q 032408 27 RDRFRL-STISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQH---AGRKSVRMEDVILSAHRN 96 (141)
Q Consensus 27 KaaL~y-~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkH---AgRkTI~~eDV~Ll~Rrn 96 (141)
+++|-+ .|.||+.... |..+++.++.+|.-+..-++..|-..+-..... +.+.-|.++.|.-+.|+.
T Consensus 14 ra~f~k~~iKr~~~~~~---~~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~HireA~rrl 84 (85)
T cd08048 14 RSSFPKAAIKRLIQSVT---GQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHLREAYRRL 84 (85)
T ss_pred HhhccHHHHHHHHHHHc---CCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHHHHHHHHh
Confidence 344444 3566666554 469999999999999999998765555555444 346889999998888864
No 102
>PRK09087 hypothetical protein; Validated
Probab=63.44 E-value=58 Score=26.21 Aligned_cols=60 Identities=3% Similarity=-0.088 Sum_probs=45.8
Q ss_pred HHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHH---HHHHHHHhhcCCCccchhhHHHHHh
Q 032408 34 TISIAEAEANQIGMEISKPIIACISDLAFKYTEQLA---KDLELFAQHAGRKSVRMEDVILSAH 94 (141)
Q Consensus 34 V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia---~DLe~FAkHAgRkTI~~eDV~Ll~R 94 (141)
...|+++.....++.++++++.-|.+-+.+-...+- ..|..+|...||+ |+...++-+..
T Consensus 158 ~~~iL~~~~~~~~~~l~~ev~~~La~~~~r~~~~l~~~l~~L~~~~~~~~~~-it~~~~~~~l~ 220 (226)
T PRK09087 158 LSQVIFKLFADRQLYVDPHVVYYLVSRMERSLFAAQTIVDRLDRLALERKSR-ITRALAAEVLN 220 (226)
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhCCC-CCHHHHHHHHH
Confidence 356777777777899999999999998887776544 5788888887876 78777766653
No 103
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=62.30 E-value=50 Score=27.63 Aligned_cols=63 Identities=19% Similarity=0.157 Sum_probs=48.1
Q ss_pred HHHHHHHHHHhhcCCccCHHHHHHHHHHHH---HHHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 33 STISIAEAEANQIGMEISKPIIACISDLAF---KYTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 33 ~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~---~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
.+..|++..+...++.++++++..|.+.+. +.+..+..-+..||.-.+...|+.++|.-+...
T Consensus 184 e~~~il~~~~~~~~~~~~~~~~~~ia~~~~G~pR~a~~~l~~~~~~a~~~~~~~I~~~~v~~~l~~ 249 (328)
T PRK00080 184 ELEKIVKRSARILGVEIDEEGALEIARRSRGTPRIANRLLRRVRDFAQVKGDGVITKEIADKALDM 249 (328)
T ss_pred HHHHHHHHHHHHcCCCcCHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 346677777777799999999999988874 445667777777776556678999999888755
No 104
>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=60.85 E-value=58 Score=26.42 Aligned_cols=61 Identities=18% Similarity=0.189 Sum_probs=44.2
Q ss_pred HHHHHHHHhhcCCccCHHHHHHHHHHHHH---HHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 35 ISIAEAEANQIGMEISKPIIACISDLAFK---YTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 35 ~rI~ee~~~~~~~~vs~~~v~aL~Elv~~---~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
..|++..+...++.++++++..|.+.+.. .+..++.-+..+|...+...|+.++|.-+...
T Consensus 165 ~~il~~~~~~~~~~~~~~al~~ia~~~~G~pR~~~~ll~~~~~~a~~~~~~~it~~~v~~~l~~ 228 (305)
T TIGR00635 165 AEIVSRSAGLLNVEIEPEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRDIALKALEM 228 (305)
T ss_pred HHHHHHHHHHhCCCcCHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHH
Confidence 44555555556889999999999887643 34567777777877777778999888877753
No 105
>PF12909 DUF3832: Protein of unknown function (DUF3832); InterPro: IPR024308 This domain found in bacteria and Acanthamoeba polyphaga mimivirus (APMV) L591 protein has no known function. In Q0AZ30 from SWISSPROT and other uncharacterised proteins this domain is found C-terminal, while the N terminus shows remote homology to the bacterial toxin/antitoxin 'addiction module' (PF12910 from PFAM).; PDB: 3K6Q_C.
Probab=59.85 E-value=17 Score=26.23 Aligned_cols=33 Identities=18% Similarity=0.277 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCc
Q 032408 51 KPIIACISDLAFKYTEQLAKDLELFAQHAGRKS 83 (141)
Q Consensus 51 ~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkT 83 (141)
.+++..|.+.+-.|++++-.++..|.++-+|+.
T Consensus 36 eeA~~~lie~l~dYAedy~~~~~~~~~apnR~~ 68 (89)
T PF12909_consen 36 EEAIEDLIEDLRDYAEDYMNRFPLFYNAPNRRH 68 (89)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTHHHHHTSTTTGG
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccc
Confidence 478999999999999999999999999888874
No 106
>PF11867 DUF3387: Domain of unknown function (DUF3387); InterPro: IPR021810 This domain is functionally uncharacterised. This domain is found in bacteria and archaea. This presumed domain is typically between 255 to 340 amino acids in length. This domain is found associated with PF04851 from PFAM, PF04313 from PFAM.
Probab=58.99 E-value=23 Score=30.26 Aligned_cols=43 Identities=14% Similarity=0.086 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHH
Q 032408 24 EILRDRFRLSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDL 72 (141)
Q Consensus 24 ~~LKaaL~y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DL 72 (141)
+..++.+...|.+++... .+.|+....+++.+..|++.++.++
T Consensus 292 e~~ra~~r~~Ik~~L~k~------~ypp~~~~~~~~~v~~qae~~~~~~ 334 (335)
T PF11867_consen 292 EDVRAKMRRAIKRLLRKY------GYPPDKQEEAVDEVMEQAELFADNW 334 (335)
T ss_pred ccHHHHHHHHHHHHHHHc------CCChHHHHHHHHHHHHHHHHHHhhC
Confidence 456677777777777765 5889999999999999999998875
No 107
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=58.72 E-value=52 Score=30.81 Aligned_cols=59 Identities=8% Similarity=0.028 Sum_probs=40.2
Q ss_pred HHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 37 IAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 37 I~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
.+...+...|+.++++++..|.++...-......-|+.++.-+|...|+.++|.-++-.
T Consensus 185 ~L~~i~~~egi~i~~~al~~Ia~~s~GdlR~aln~Ldql~~~~~~~~It~~~v~~llg~ 243 (584)
T PRK14952 185 LIARICEQEGVVVDDAVYPLVIRAGGGSPRDTLSVLDQLLAGAADTHVTYQRALGLLGA 243 (584)
T ss_pred HHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhccCCCCcCHHHHHHHHCC
Confidence 33444444578899999988888766555555555555555566778999998876544
No 108
>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=58.48 E-value=69 Score=24.49 Aligned_cols=57 Identities=14% Similarity=0.124 Sum_probs=41.4
Q ss_pred HHHHHHHHhhcCCccCHHHHHHHHHHHH---HHHHHHHHHHHHHHhhcCCCccchhhHHHH
Q 032408 35 ISIAEAEANQIGMEISKPIIACISDLAF---KYTEQLAKDLELFAQHAGRKSVRMEDVILS 92 (141)
Q Consensus 35 ~rI~ee~~~~~~~~vs~~~v~aL~Elv~---~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll 92 (141)
..+++......++.++++++..|...+- +++.++.+++..+|.-+|+ +|+.+.|+=+
T Consensus 165 ~~~l~~~~~~~~~~~~~~~l~~L~~~~~gn~r~L~~~l~~~~~~~~~~~~-~i~~~~~~~~ 224 (226)
T TIGR03420 165 IAALQSRAARRGLQLPDEVADYLLRHGSRDMGSLMALLDALDRASLAAKR-KITIPFVKEV 224 (226)
T ss_pred HHHHHHHHHHcCCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhCC-CCCHHHHHHH
Confidence 4455555555688999999999998532 4567888888888766664 7998877643
No 109
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=57.66 E-value=66 Score=31.44 Aligned_cols=64 Identities=13% Similarity=0.047 Sum_probs=45.8
Q ss_pred HHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 32 LSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 32 y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
..+.+++.+.+...|+.+++.++..|..+...-...+...|+.+...++...|+.+||.-++-.
T Consensus 182 ~~l~~~L~~il~~EGv~id~eal~lLa~~sgGdlR~Al~eLEKLia~~~~~~IT~e~V~allg~ 245 (824)
T PRK07764 182 EVMRGYLERICAQEGVPVEPGVLPLVIRAGGGSVRDSLSVLDQLLAGAGPEGVTYERAVALLGV 245 (824)
T ss_pred HHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCCCCCHHHHHHHhcC
Confidence 3445566666666689999999999888877656666666666666667777999887765443
No 110
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=57.61 E-value=73 Score=30.23 Aligned_cols=60 Identities=17% Similarity=0.149 Sum_probs=40.5
Q ss_pred HHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHH
Q 032408 33 STISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSA 93 (141)
Q Consensus 33 ~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~ 93 (141)
.+...+...+...|+.++++++..|.+++..-...+..-|+..+..+|.. |+.+||.-+.
T Consensus 182 eL~~~L~~il~kegi~Is~eal~~La~lS~GdlR~AlnlLekL~~y~~~~-It~e~V~ell 241 (605)
T PRK05896 182 ELQELLKSIAKKEKIKIEDNAIDKIADLADGSLRDGLSILDQLSTFKNSE-IDIEDINKTF 241 (605)
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCcHHHHHHHHHHHHhhcCCC-CCHHHHHHHh
Confidence 34445555555668899999999999988765554445555555555643 9998887653
No 111
>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=57.05 E-value=9.5 Score=24.04 Aligned_cols=25 Identities=24% Similarity=0.312 Sum_probs=18.2
Q ss_pred HHHHHHHHHHhhcCCCccchhhHHH
Q 032408 67 QLAKDLELFAQHAGRKSVRMEDVIL 91 (141)
Q Consensus 67 ~ia~DLe~FAkHAgRkTI~~eDV~L 91 (141)
.+=.-++.||+..|...|+.+.|.-
T Consensus 19 ~~r~~~E~~Ar~~G~~~IT~e~v~~ 43 (45)
T PF08369_consen 19 KLRDAAEKYARERGYDEITVEVVDA 43 (45)
T ss_dssp HHHHHHHHHHHHCT-SEE-HHHHHH
T ss_pred HHHHHHHHHHHHcCCCeECHHHHHh
Confidence 3445678999999999999998764
No 112
>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=56.78 E-value=63 Score=27.82 Aligned_cols=60 Identities=17% Similarity=0.261 Sum_probs=48.2
Q ss_pred HHHHHHHHHhhcCCccCHHHHHHHHHHHH---HHHHHHHHHHHHHHhhcCCCccchhhHHHHHh
Q 032408 34 TISIAEAEANQIGMEISKPIIACISDLAF---KYTEQLAKDLELFAQHAGRKSVRMEDVILSAH 94 (141)
Q Consensus 34 V~rI~ee~~~~~~~~vs~~~v~aL~Elv~---~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~R 94 (141)
...|++..+...++.++++++.-|.+-+. +.++.+...|.+||...||. |+.+.++-+.+
T Consensus 273 r~~il~~~~~~~~~~l~~e~l~~ia~~~~~~~r~l~~~l~~l~~~a~~~~~~-it~~~~~~~L~ 335 (405)
T TIGR00362 273 RLAILQKKAEEEGLELPDEVLEFIAKNIRSNVRELEGALNRLLAYASLTGKP-ITLELAKEALK 335 (405)
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCC-CCHHHHHHHHH
Confidence 46778888777899999999999988765 45667888999999887765 88888777665
No 113
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=56.70 E-value=32 Score=32.24 Aligned_cols=58 Identities=12% Similarity=0.115 Sum_probs=37.9
Q ss_pred HHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHH
Q 032408 35 ISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSA 93 (141)
Q Consensus 35 ~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~ 93 (141)
...+...+...|+.++++++..|.+.+-.-...+...|+..+..+|+. |+.++|..++
T Consensus 186 ~~~L~~ia~~egi~i~~~al~~La~~s~gdlr~al~~Lekl~~y~~~~-It~~~V~~~l 243 (614)
T PRK14971 186 VNHLQYVASKEGITAEPEALNVIAQKADGGMRDALSIFDQVVSFTGGN-ITYKSVIENL 243 (614)
T ss_pred HHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCC-ccHHHHHHHh
Confidence 344455555668999999999998887655554444444444445655 8888875443
No 114
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=56.63 E-value=35 Score=32.15 Aligned_cols=57 Identities=12% Similarity=0.070 Sum_probs=41.5
Q ss_pred HHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhc----CCCccchhhHHHHH
Q 032408 37 IAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHA----GRKSVRMEDVILSA 93 (141)
Q Consensus 37 I~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHA----gRkTI~~eDV~Ll~ 93 (141)
.+.......|+.++++++..|.+++-.....+...|+..+.++ .++.|+.+||.-++
T Consensus 194 ~L~~i~~~egi~I~~eal~~La~~s~Gdlr~al~eLeKL~~y~~~~~~~~~It~~~V~~lv 254 (620)
T PRK14954 194 QLQMICRAEGIQIDADALQLIARKAQGSMRDAQSILDQVIAFSVGSEAEKVIAYQGVAELL 254 (620)
T ss_pred HHHHHHHHcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhccccccCCccCHHHHHHHH
Confidence 3444444557889999999999998877776666666655555 27789999996554
No 115
>TIGR02933 nifM_nitrog nitrogen fixation protein NifM. Members of this protein family, found in a subset of nitrogen-fixing bacteria, are the nitrogen fixation protein NifM. NifM, homologous to peptidyl-prolyl cis-trans isomerases, appears to be an accessory protein for NifH, the Fe protein, also called component II or dinitrogenase reductase, of nitrogenase.
Probab=55.22 E-value=1.2e+02 Score=24.90 Aligned_cols=67 Identities=15% Similarity=0.096 Sum_probs=40.4
Q ss_pred HHHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHH---------------HHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 31 RLSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQ---------------LAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 31 ~y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~---------------ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
..-+.++.-..+...|+.|+++.+.+-.+-...++.+ +.-+...-..-.+|.+|+.+||.-....
T Consensus 34 ~lI~e~l~lq~A~~~gi~v~~~ev~~~~e~~~~~L~~~G~~~~~~r~~ir~~i~~~~~~~~~~~~~i~ise~ei~~yy~~ 113 (256)
T TIGR02933 34 QRHIEQAVVRAADEIGVVIPPSLLEEAPQALAQALDEQALDAAERRAMLAHHLRLEAQLACVCAQAPQPDDADVEAWYRR 113 (256)
T ss_pred HHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHH
Confidence 5667777778888899999999995543332222221 1111111112245677888888887766
Q ss_pred cH
Q 032408 96 NE 97 (141)
Q Consensus 96 n~ 97 (141)
|+
T Consensus 114 ~~ 115 (256)
T TIGR02933 114 HA 115 (256)
T ss_pred HH
Confidence 54
No 116
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=54.65 E-value=72 Score=27.32 Aligned_cols=56 Identities=9% Similarity=0.046 Sum_probs=37.3
Q ss_pred HHHHHHHHHhhcCCccCHHHHHHHHHHHHH---HHHHHHHHHHHHHhhcCCCccchhhHHHHH
Q 032408 34 TISIAEAEANQIGMEISKPIIACISDLAFK---YTEQLAKDLELFAQHAGRKSVRMEDVILSA 93 (141)
Q Consensus 34 V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~---~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~ 93 (141)
+..++...+...|+.++++++..|.+.+-. .+.++...+..| |+..|+.+||.-++
T Consensus 183 l~~~L~~~~~~~g~~i~~~al~~ia~~s~G~~R~al~~l~~~~~~----~~~~It~~~v~~~l 241 (363)
T PRK14961 183 IFNFLKYILIKESIDTDEYALKLIAYHAHGSMRDALNLLEHAINL----GKGNINIKNVTDML 241 (363)
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh----cCCCCCHHHHHHHH
Confidence 344555555556788999999988887644 444444444444 57789999995544
No 117
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=53.91 E-value=78 Score=30.69 Aligned_cols=56 Identities=13% Similarity=0.017 Sum_probs=38.1
Q ss_pred HHHHHHhhcCCccCHHHHHHHHHHHHH---HHHHHHHHHHHHHhhcCCCccchhhHHHHHhhc
Q 032408 37 IAEAEANQIGMEISKPIIACISDLAFK---YTEQLAKDLELFAQHAGRKSVRMEDVILSAHRN 96 (141)
Q Consensus 37 I~ee~~~~~~~~vs~~~v~aL~Elv~~---~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn 96 (141)
.+...+...|+.++++++..|.+.+.. .+.++...+..| |...|+.+||..++-..
T Consensus 186 ~L~~Il~kEgi~id~eAL~~Ia~~A~GslRdAlnLLDqaia~----g~g~It~e~V~~lLG~~ 244 (709)
T PRK08691 186 HLAHVLDSEKIAYEPPALQLLGRAAAGSMRDALSLLDQAIAL----GSGKVAENDVRQMIGAV 244 (709)
T ss_pred HHHHHHHHcCCCcCHHHHHHHHHHhCCCHHHHHHHHHHHHHh----cCCCcCHHHHHHHHccc
Confidence 344444556889999999999988754 444555555555 35579999988776544
No 118
>PRK06893 DNA replication initiation factor; Validated
Probab=53.71 E-value=85 Score=24.97 Aligned_cols=60 Identities=17% Similarity=0.070 Sum_probs=42.9
Q ss_pred HHHHHHHHHHhhcCCccCHHHHHHHHHHHH---HHHHHHHHHHHHHHhhcCCCccchhhHHHHH
Q 032408 33 STISIAEAEANQIGMEISKPIIACISDLAF---KYTEQLAKDLELFAQHAGRKSVRMEDVILSA 93 (141)
Q Consensus 33 ~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~---~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~ 93 (141)
....|++..+...++.++++++.-|..-.. +.+..+...|...+-..|| .|+...|+-+.
T Consensus 165 ~~~~iL~~~a~~~~l~l~~~v~~~L~~~~~~d~r~l~~~l~~l~~~~~~~~~-~it~~~v~~~L 227 (229)
T PRK06893 165 QKIIVLQRNAYQRGIELSDEVANFLLKRLDRDMHTLFDALDLLDKASLQAQR-KLTIPFVKEIL 227 (229)
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhcCC-CCCHHHHHHHh
Confidence 456677777777789999999999988876 4445666667654444466 58888776543
No 119
>PRK06620 hypothetical protein; Validated
Probab=51.78 E-value=1.2e+02 Score=24.20 Aligned_cols=58 Identities=14% Similarity=0.083 Sum_probs=39.6
Q ss_pred HHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHH---HHHHHHHHHHhhcCCCccchhhHHHH
Q 032408 34 TISIAEAEANQIGMEISKPIIACISDLAFKYTE---QLAKDLELFAQHAGRKSVRMEDVILS 92 (141)
Q Consensus 34 V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~---~ia~DLe~FAkHAgRkTI~~eDV~Ll 92 (141)
...++++.....|+.++++++.-|.+-+.+-+. .+..-|..+|...+| .|+..-++-+
T Consensus 152 ~~~~l~k~~~~~~l~l~~ev~~~L~~~~~~d~r~l~~~l~~l~~~~~~~~~-~it~~~~~~~ 212 (214)
T PRK06620 152 IKILIFKHFSISSVTISRQIIDFLLVNLPREYSKIIEILENINYFALISKR-KITISLVKEV 212 (214)
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHcCC-CCCHHHHHHH
Confidence 355666666667899999999999988765554 444445555665565 4777666544
No 120
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=50.91 E-value=78 Score=29.39 Aligned_cols=59 Identities=3% Similarity=0.011 Sum_probs=37.7
Q ss_pred HHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHH
Q 032408 34 TISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSA 93 (141)
Q Consensus 34 V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~ 93 (141)
+..++++.+...|+.++++++..|.+.+-.-...+..-|+..+..++ ..|+.+||.-++
T Consensus 183 l~~~L~~i~~~egi~id~eAl~lLa~~s~GdlR~alslLdklis~~~-~~It~e~V~~ll 241 (563)
T PRK06647 183 IYNMLKKVCLEDQIKYEDEALKWIAYKSTGSVRDAYTLFDQVVSFSD-SDITLEQIRSKM 241 (563)
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhhcC-CCCCHHHHHHHh
Confidence 34455666666789999999999988865434333333333333344 458888887654
No 121
>PRK08084 DNA replication initiation factor; Provisional
Probab=49.69 E-value=1.2e+02 Score=24.26 Aligned_cols=59 Identities=14% Similarity=0.039 Sum_probs=38.8
Q ss_pred HHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHH---HHHHHHHHHHHhhcCCCccchhhHHHH
Q 032408 33 STISIAEAEANQIGMEISKPIIACISDLAFKYT---EQLAKDLELFAQHAGRKSVRMEDVILS 92 (141)
Q Consensus 33 ~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~---~~ia~DLe~FAkHAgRkTI~~eDV~Ll 92 (141)
...+|++..+...|+.++++++..|..-+..-+ ..+...|...|-..+|+ |+.+-|+-+
T Consensus 171 ~~~~~l~~~a~~~~~~l~~~v~~~L~~~~~~d~r~l~~~l~~l~~~~l~~~~~-it~~~~k~~ 232 (235)
T PRK08084 171 EKLQALQLRARLRGFELPEDVGRFLLKRLDREMRTLFMTLDQLDRASITAQRK-LTIPFVKEI 232 (235)
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHhcCCC-CCHHHHHHH
Confidence 345667776666789999999999998887444 34444454333344555 777666544
No 122
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]
Probab=49.57 E-value=44 Score=28.62 Aligned_cols=72 Identities=15% Similarity=0.211 Sum_probs=53.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCc-cCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhc
Q 032408 25 ILRDRFRLSTISIAEAEANQIGME-ISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRN 96 (141)
Q Consensus 25 ~LKaaL~y~V~rI~ee~~~~~~~~-vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn 96 (141)
.|+..+-+...||-+=.-...+++ ||.++-..++..++.+++.+.--+.--|+-.+|.|..-.|+--++.+.
T Consensus 103 ~~~k~h~LPlARIkkvMKtdedVkMisaEaPvlFak~~EiFI~ELTmRAW~~ae~NkRRtLQksDia~Av~kS 175 (286)
T COG5208 103 ILLKDHNLPLARIKKVMKTDEDVKMISAEAPVLFAKITEIFIEELTMRAWINAEENKRRTLQKSDIAAAVKKS 175 (286)
T ss_pred HHHHhccCcHHHHHHHHhcccchhheecccchHHHHHHHHHHHHHHHHHHHHHhHhhhhHHHHHHHHHHHHHH
Confidence 444444466666655443344555 666666667777888888888888888999999999999999998775
No 123
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=49.57 E-value=89 Score=29.78 Aligned_cols=57 Identities=9% Similarity=0.011 Sum_probs=38.5
Q ss_pred HHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHH
Q 032408 36 SIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSA 93 (141)
Q Consensus 36 rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~ 93 (141)
.++++.+...|+.++++++..|.+++..-+.....-|+..+.+ |..+|+.++|.-++
T Consensus 185 ~~L~~il~~egi~id~eal~lIA~~s~GdlR~Al~lLeqll~~-g~~~It~d~V~~~l 241 (624)
T PRK14959 185 AHLTKVLGREGVDYDPAAVRLIARRAAGSVRDSMSLLGQVLAL-GESRLTIDGARGVL 241 (624)
T ss_pred HHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cCCCcCHHHHHHHh
Confidence 3444444455788999999999998876555555555544433 55689999876544
No 124
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=48.93 E-value=1.3e+02 Score=24.46 Aligned_cols=49 Identities=12% Similarity=0.192 Sum_probs=37.8
Q ss_pred HhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHH
Q 032408 42 ANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSA 93 (141)
Q Consensus 42 ~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~ 93 (141)
....|+.++++++..|.+..+.-...+...|+.|+. ...|+.+|+..+.
T Consensus 180 ~~~~~~~i~~~al~~l~~~~~~d~r~~l~~l~~~~~---~~~i~~~~l~~~~ 228 (316)
T PHA02544 180 LEAEGVEVDMKVLAALVKKNFPDFRRTINELQRYAS---TGKIDAGILSEVT 228 (316)
T ss_pred HHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHc---cCCCCHHHHHHhh
Confidence 344588999999999998888777788888888874 2468888876654
No 125
>KOG2680 consensus DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=48.54 E-value=80 Score=28.71 Aligned_cols=60 Identities=13% Similarity=0.227 Sum_probs=47.0
Q ss_pred HHHHHHHHHhhcCCccCHHHHHHHHHHH----HHHHHHHHHHHHHHHhhcCCCccchhhHHHHH
Q 032408 34 TISIAEAEANQIGMEISKPIIACISDLA----FKYTEQLAKDLELFAQHAGRKSVRMEDVILSA 93 (141)
Q Consensus 34 V~rI~ee~~~~~~~~vs~~~v~aL~Elv----~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~ 93 (141)
+.+|++--+.+.++.++|+++.-|+.+- -+|+-++-.-+...|...+-++|..+||+-+-
T Consensus 363 ~~~IL~iRc~EEdv~m~~~A~d~Lt~i~~~tsLRYai~Lit~a~~~~~krk~~~v~~~di~r~y 426 (454)
T KOG2680|consen 363 IKKILRIRCQEEDVEMNPDALDLLTKIGEATSLRYAIHLITAASLVCLKRKGKVVEVDDIERVY 426 (454)
T ss_pred HHHHHHhhhhhhccccCHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhcCceeehhHHHHHH
Confidence 5667777777889999999999998765 46666776667777777778899999997554
No 126
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=48.20 E-value=1.2e+02 Score=27.29 Aligned_cols=59 Identities=22% Similarity=0.120 Sum_probs=38.7
Q ss_pred HHHHHHHHHHhhcCCccCHHHHHHHHHHHH---HHHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 33 STISIAEAEANQIGMEISKPIIACISDLAF---KYTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 33 ~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~---~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
.+.+.+...+...|+.++++++..|.+.+. +.+.++...+..| .| ..|+.+||.-++-+
T Consensus 184 el~~~L~~~~~~eg~~i~~~al~~L~~~s~gdlr~a~~~Lekl~~~---~~-~~It~~~V~~l~~~ 245 (451)
T PRK06305 184 TIIDKLALIAKQEGIETSREALLPIARAAQGSLRDAESLYDYVVGL---FP-KSLDPDSVAKALGL 245 (451)
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh---cc-CCcCHHHHHHHHCC
Confidence 334455555555688999999999998874 4555555555555 23 34999998765533
No 127
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=47.40 E-value=65 Score=29.47 Aligned_cols=54 Identities=13% Similarity=0.092 Sum_probs=36.3
Q ss_pred HHHHHhhcCCccCHHHHHHHHHHHHH---HHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 38 AEAEANQIGMEISKPIIACISDLAFK---YTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 38 ~ee~~~~~~~~vs~~~v~aL~Elv~~---~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
+...+...|+.++++++..|.+.+.. .+.++...+.+| |...|+.+||.-+.-.
T Consensus 187 l~~il~~egi~~~~~al~~ia~~s~GslR~al~lLdq~ia~----~~~~It~~~V~~~lg~ 243 (509)
T PRK14958 187 CQHLLKEENVEFENAALDLLARAANGSVRDALSLLDQSIAY----GNGKVLIADVKTMLGT 243 (509)
T ss_pred HHHHHHHcCCCCCHHHHHHHHHHcCCcHHHHHHHHHHHHhc----CCCCcCHHHHHHHHCC
Confidence 33444456889999999988888654 444444444444 4567999999876544
No 128
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=47.34 E-value=1.1e+02 Score=28.61 Aligned_cols=60 Identities=7% Similarity=-0.052 Sum_probs=39.8
Q ss_pred HHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 35 ISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 35 ~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
.+.+.......|+.+++.++..|.+.+..-...+..-|+..+...| ..|+.+||.-+.-.
T Consensus 184 ~~~L~~il~~egi~~e~~Al~~Ia~~s~GdlR~alnlLek~i~~~~-~~It~~~V~~~l~~ 243 (546)
T PRK14957 184 KDQLKIILAKENINSDEQSLEYIAYHAKGSLRDALSLLDQAISFCG-GELKQAQIKQMLGI 243 (546)
T ss_pred HHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc-CCCCHHHHHHHHcc
Confidence 3344444444578999999999988886544444444544444455 67999999876544
No 129
>TIGR02903 spore_lon_C ATP-dependent protease, Lon family. Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.
Probab=43.81 E-value=67 Score=30.01 Aligned_cols=64 Identities=13% Similarity=0.158 Sum_probs=44.1
Q ss_pred HHHHHHHHHhhcCCccCHHHHHHHHHHHH--HHHHHHHHHHHHHHhh--------cCCCccchhhHHHHHhhcH
Q 032408 34 TISIAEAEANQIGMEISKPIIACISDLAF--KYTEQLAKDLELFAQH--------AGRKSVRMEDVILSAHRNE 97 (141)
Q Consensus 34 V~rI~ee~~~~~~~~vs~~~v~aL~Elv~--~~~~~ia~DLe~FAkH--------AgRkTI~~eDV~Ll~Rrn~ 97 (141)
+..|++..+...++.+++++...|.+..| +.+.++..|+-.++.+ -++..|+.+||.-+.+...
T Consensus 358 i~~Il~~~a~~~~v~ls~eal~~L~~ys~~gRraln~L~~~~~~~~~~~~~~~~~~~~~~I~~edv~~~l~~~r 431 (615)
T TIGR02903 358 IALIVLNAAEKINVHLAAGVEELIARYTIEGRKAVNILADVYGYALYRAAEAGKENDKVTITQDDVYEVIQISR 431 (615)
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHHCCCcHHHHHHHHHHHHHHHHHHHHHhccCCCCeeECHHHHHHHhCCCc
Confidence 45555555555677899999999998876 3344566777666521 1344799999988887653
No 130
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=43.20 E-value=94 Score=29.14 Aligned_cols=49 Identities=24% Similarity=0.205 Sum_probs=41.2
Q ss_pred CCccCHHHHHHHHHHHHHHHH-------HHHHHHHHHHhhcCCCccchhhHHHHHh
Q 032408 46 GMEISKPIIACISDLAFKYTE-------QLAKDLELFAQHAGRKSVRMEDVILSAH 94 (141)
Q Consensus 46 ~~~vs~~~v~aL~Elv~~~~~-------~ia~DLe~FAkHAgRkTI~~eDV~Ll~R 94 (141)
++.++++.+..+.+++..+.. .+.+=+.++|.-.||..|+.+||..+++
T Consensus 193 ~v~v~~~~l~~i~~~~~~~gv~S~Ra~i~llraARa~AaL~Gr~~V~~~dv~~Aa~ 248 (584)
T PRK13406 193 AVGPPPEAIAALCAAAAALGIASLRAPLLALRAARAAAALAGRTAVEEEDLALAAR 248 (584)
T ss_pred cCCCCHHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 688999999988888776642 4677788899999999999999998874
No 131
>PF12824 MRP-L20: Mitochondrial ribosomal protein subunit L20; InterPro: IPR024388 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents the essential mitochondrial ribosomal protein L20 family from fungi [].
Probab=42.50 E-value=71 Score=25.28 Aligned_cols=52 Identities=15% Similarity=0.167 Sum_probs=38.9
Q ss_pred hhhhHHHHHHHH--HHHHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032408 18 EDASVTEILRDR--FRLSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELF 75 (141)
Q Consensus 18 ~~~~~~~~LKaa--L~y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~F 75 (141)
++-..+.+|+.. ..|++.+++++. .||+-||..++..--.....+-..|+.-
T Consensus 89 e~i~Eir~LR~~DP~~wTr~~LAkkF------~~S~~fV~~v~~~~~e~~~~~~~~le~~ 142 (164)
T PF12824_consen 89 EDIQEIRRLRAEDPEKWTRKKLAKKF------NCSPLFVSMVAPAPKEKKKEMEARLEAI 142 (164)
T ss_pred HHHHHHHHHHHcCchHhhHHHHHHHh------CCCHHHHHHhcCCCHHHHHHHHHHHHHH
Confidence 333445677776 689999999999 6899999999988776666666555544
No 132
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=41.96 E-value=77 Score=28.81 Aligned_cols=55 Identities=9% Similarity=0.019 Sum_probs=36.6
Q ss_pred HHHHHHHHhhcCCccCHHHHHHHHHHHHHH---HHHHHHHHHHHHhhcCCCccchhhHHHHH
Q 032408 35 ISIAEAEANQIGMEISKPIIACISDLAFKY---TEQLAKDLELFAQHAGRKSVRMEDVILSA 93 (141)
Q Consensus 35 ~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~---~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~ 93 (141)
..++...+...|+.++++++..|.+++..- +.++...+..| ++ ..|+.++|.-++
T Consensus 184 ~~~L~~i~k~egi~id~~al~~La~~s~G~lr~al~~Ldkl~~~---~~-~~It~~~V~~~l 241 (486)
T PRK14953 184 KEYLKRICNEEKIEYEEKALDLLAQASEGGMRDAASLLDQASTY---GE-GKVTIKVVEEFL 241 (486)
T ss_pred HHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh---cC-CCcCHHHHHHHh
Confidence 344555555668899999999998887543 44455555444 33 368888888754
No 133
>smart00350 MCM minichromosome maintenance proteins.
Probab=39.69 E-value=44 Score=30.22 Aligned_cols=29 Identities=21% Similarity=0.082 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHhhcCCCccchhhHHHHHh
Q 032408 66 EQLAKDLELFAQHAGRKSVRMEDVILSAH 94 (141)
Q Consensus 66 ~~ia~DLe~FAkHAgRkTI~~eDV~Ll~R 94 (141)
+.+.+=++++|+-.+|.+|+.+||+.+++
T Consensus 474 ~sliRla~A~A~l~~r~~V~~~Dv~~ai~ 502 (509)
T smart00350 474 ESIIRLSEAHAKMRLSDVVEEADVEEAIR 502 (509)
T ss_pred HHHHHHHHHHHHHcCCCccCHHHHHHHHH
Confidence 45556678999999999999999999885
No 134
>PF15011 CK2S: Casein Kinase 2 substrate
Probab=38.51 E-value=1.9e+02 Score=22.66 Aligned_cols=74 Identities=16% Similarity=0.202 Sum_probs=51.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcHHHHH
Q 032408 22 VTEILRDRFRLSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAA 101 (141)
Q Consensus 22 ~~~~LKaaL~y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~L~~ 101 (141)
+.++|..++-.++..|...... .+..|-++.-.....+..=...|-+|+|=..++++.+..-.=-.|+|-+
T Consensus 57 l~~rL~~Kq~~ale~vl~~L~e---------~l~~l~~v~~~l~~~~~~~~~l~~~~~~~~~l~~~~~~~r~~~~PSlAd 127 (168)
T PF15011_consen 57 LQERLRRKQLEALETVLAKLRE---------TLEELQKVRDSLSRQVRDVFQLYEQHAGLDELSLKALQQRSGVCPSLAD 127 (168)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHhccCCCCCCHHH
Confidence 5667777776776666666532 3445555555444455555667888999999999998888888898877
Q ss_pred HHH
Q 032408 102 TLR 104 (141)
Q Consensus 102 ~l~ 104 (141)
.|.
T Consensus 128 mLe 130 (168)
T PF15011_consen 128 MLE 130 (168)
T ss_pred HHH
Confidence 654
No 135
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=38.22 E-value=1.7e+02 Score=27.27 Aligned_cols=53 Identities=8% Similarity=0.048 Sum_probs=35.0
Q ss_pred HHHHhhcCCccCHHHHHHHHHHHHH---HHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 39 EAEANQIGMEISKPIIACISDLAFK---YTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 39 ee~~~~~~~~vs~~~v~aL~Elv~~---~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
...+...|+.++++++..|.+.... .+.++..-+..|+ +..|+.++|..++..
T Consensus 186 ~~Il~~EGi~i~~~Al~~Ia~~s~GdlR~alnlLdqai~~~----~~~It~~~V~~~lg~ 241 (535)
T PRK08451 186 KTILEKEGVSYEPEALEILARSGNGSLRDTLTLLDQAIIYC----KNAITESKVADMLGL 241 (535)
T ss_pred HHHHHHcCCCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhc----CCCCCHHHHHHHhCC
Confidence 3333345789999999999988654 4444444455554 457899988866543
No 136
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=37.99 E-value=1.8e+02 Score=26.61 Aligned_cols=49 Identities=12% Similarity=0.080 Sum_probs=35.3
Q ss_pred hhcCCccCHHHHHHHHHHHHH---HHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 43 NQIGMEISKPIIACISDLAFK---YTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 43 ~~~~~~vs~~~v~aL~Elv~~---~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
...|+.+++.++..|.+++.. .+.++...+..| |...|+.+||.-+.-.
T Consensus 192 ~~egi~~~~~al~~la~~s~Gslr~al~lldqai~~----~~~~I~~~~v~~~~~~ 243 (527)
T PRK14969 192 EQENIPFDATALQLLARAAAGSMRDALSLLDQAIAY----GGGTVNESEVRAMLGA 243 (527)
T ss_pred HHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh----cCCCcCHHHHHHHHCC
Confidence 344788999999998888654 555566666555 4667999999877643
No 137
>PHA01513 mnt Mnt
Probab=36.62 E-value=55 Score=23.51 Aligned_cols=42 Identities=17% Similarity=0.212 Sum_probs=30.9
Q ss_pred HHHHHhhcCCccCHHHHHHHHHHHHHHH--HHHHHHHHHHHhhc
Q 032408 38 AEAEANQIGMEISKPIIACISDLAFKYT--EQLAKDLELFAQHA 79 (141)
Q Consensus 38 ~ee~~~~~~~~vs~~~v~aL~Elv~~~~--~~ia~DLe~FAkHA 79 (141)
++..+...|..++..++..|...+.... .-+..|++.||...
T Consensus 20 L~~aA~~nGRSmNaeIv~~Le~al~~~~~~~g~~~~~~~~a~~~ 63 (82)
T PHA01513 20 LKQRAKANGRSLNAELVQIVQDALSKPSPVTGYRDDAERLADEQ 63 (82)
T ss_pred HHHHHHHhCCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHH
Confidence 3455566788899999998888876654 34788898888643
No 138
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=36.50 E-value=3.2e+02 Score=24.54 Aligned_cols=73 Identities=16% Similarity=0.185 Sum_probs=52.4
Q ss_pred hHHHHHHHHHH------------HHHHHHHHHHHhhcCCccCHHHHHHHHHHHH---HHHHHHHHHH---HHHHhhcCCC
Q 032408 21 SVTEILRDRFR------------LSTISIAEAEANQIGMEISKPIIACISDLAF---KYTEQLAKDL---ELFAQHAGRK 82 (141)
Q Consensus 21 ~~~~~LKaaL~------------y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~---~~~~~ia~DL---e~FAkHAgRk 82 (141)
.+.++|++++. .....|++..+...|+.++++++.-|..-+. +.++.....| .+|+.-.| .
T Consensus 251 ~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~~k~~~~~~~l~~evl~~la~~~~~dir~L~g~l~~l~~~~a~~~~~~-~ 329 (445)
T PRK12422 251 AMEERLISRFEWGIAIPLHPLTKEGLRSFLERKAEALSIRIEETALDFLIEALSSNVKSLLHALTLLAKRVAYKKLSH-Q 329 (445)
T ss_pred hhHHHHHhhhcCCeEEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHhhC-C
Confidence 46678888873 4556788888888899999999998877665 3334455555 35665556 4
Q ss_pred ccchhhHHHHHh
Q 032408 83 SVRMEDVILSAH 94 (141)
Q Consensus 83 TI~~eDV~Ll~R 94 (141)
.|+.++++-+.+
T Consensus 330 ~i~~~~~~~~l~ 341 (445)
T PRK12422 330 LLYVDDIKALLH 341 (445)
T ss_pred CCCHHHHHHHHH
Confidence 589999977765
No 139
>PRK13531 regulatory ATPase RavA; Provisional
Probab=34.70 E-value=1.8e+02 Score=27.05 Aligned_cols=47 Identities=19% Similarity=0.216 Sum_probs=32.2
Q ss_pred CCccCHHHHHHHHHHHHH-------------HHHHHHHHHHHHHhhcCCCccchhhHHHH
Q 032408 46 GMEISKPIIACISDLAFK-------------YTEQLAKDLELFAQHAGRKSVRMEDVILS 92 (141)
Q Consensus 46 ~~~vs~~~v~aL~Elv~~-------------~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll 92 (141)
.+.|++.+..-+..++.. -...+.+=+.++|--.||..|.++||.++
T Consensus 221 ~V~v~d~v~eyI~~L~~~lr~~r~~~~~SpR~~~~l~~~akA~A~l~GR~~V~p~Dv~ll 280 (498)
T PRK13531 221 KITLPDHVFELIFQLRQQLDALPNAPYVSDRRWKKAIRLLQASAFFSGRDAIAPIDLILL 280 (498)
T ss_pred ceeCCHHHHHHHHHHHHHHhcCCCCCCcCcHHHHHHHHHHHHHHHHCCCCCCCHHHHHHh
Confidence 456666666666555532 11235556778888999999999999954
No 140
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=34.59 E-value=1.1e+02 Score=29.73 Aligned_cols=58 Identities=14% Similarity=-0.019 Sum_probs=37.7
Q ss_pred HHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHH
Q 032408 35 ISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSA 93 (141)
Q Consensus 35 ~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~ 93 (141)
.+.+...+...|+.++++++..|.+.+-.-...+...|.....+ |+..|+.+||..++
T Consensus 183 ~k~L~~Il~kEgI~id~eAL~~IA~~S~GdLRdALnLLDQaIay-g~g~IT~edV~~lL 240 (702)
T PRK14960 183 TKHLGAILEKEQIAADQDAIWQIAESAQGSLRDALSLTDQAIAY-GQGAVHHQDVKEML 240 (702)
T ss_pred HHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cCCCcCHHHHHHHh
Confidence 34444444556889999999999888765444444444332223 56779999997753
No 141
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=34.12 E-value=1.1e+02 Score=28.24 Aligned_cols=52 Identities=21% Similarity=0.171 Sum_probs=34.2
Q ss_pred HHHHHHhhcCCccCHHHHHHHHHHHHHH---HHHHHHHHHHHHhhcCCCccchhhHHHH
Q 032408 37 IAEAEANQIGMEISKPIIACISDLAFKY---TEQLAKDLELFAQHAGRKSVRMEDVILS 92 (141)
Q Consensus 37 I~ee~~~~~~~~vs~~~v~aL~Elv~~~---~~~ia~DLe~FAkHAgRkTI~~eDV~Ll 92 (141)
.+...+...|+.++++++..|.+.+..- +.++...+.+| .| ..|+.+||..+
T Consensus 186 ~L~~i~~~egi~i~~~al~~la~~a~G~lr~al~~Ldqliay---~g-~~It~edV~~l 240 (576)
T PRK14965 186 RLRYIADQEGISISDAALALVARKGDGSMRDSLSTLDQVLAF---CG-DAVGDDDVAEL 240 (576)
T ss_pred HHHHHHHHhCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh---cc-CCCCHHHHHHH
Confidence 3344444568899999999988877653 44444444555 34 35999998765
No 142
>PRK13342 recombination factor protein RarA; Reviewed
Probab=33.86 E-value=3.2e+02 Score=23.78 Aligned_cols=67 Identities=15% Similarity=0.237 Sum_probs=42.0
Q ss_pred CC-ccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhc--------HHHHHHHHHHHHHhhccC
Q 032408 46 GM-EISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRN--------ERLAATLRSFRNDLKAKE 114 (141)
Q Consensus 46 ~~-~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn--------~~L~~~l~~~~~el~~~~ 114 (141)
++ .++++++..|.++.-.-...+-.-|+..+.. ...|+.++|.-++... ....+.+..+...+++..
T Consensus 170 ~~i~i~~~al~~l~~~s~Gd~R~aln~Le~~~~~--~~~It~~~v~~~~~~~~~~~d~~~~~~~~~isa~~ks~rgsd 245 (413)
T PRK13342 170 GLVELDDEALDALARLANGDARRALNLLELAALG--VDSITLELLEEALQKRAARYDKDGDEHYDLISALHKSIRGSD 245 (413)
T ss_pred CCCCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHc--cCCCCHHHHHHHHhhhhhccCCCccHHHHHHHHHHHHHhcCC
Confidence 54 8999999998887644344444444444333 5679999998887653 235556666655554433
No 143
>PRK14700 recombination factor protein RarA; Provisional
Probab=33.21 E-value=3.3e+02 Score=23.77 Aligned_cols=71 Identities=10% Similarity=0.140 Sum_probs=52.1
Q ss_pred CCccCHHHHHHHHHHHHHHHHHHHHHHHHHHh---hcCCCccchhhHHHHHhhcH--------HHHHHHHHHHHHhhccC
Q 032408 46 GMEISKPIIACISDLAFKYTEQLAKDLELFAQ---HAGRKSVRMEDVILSAHRNE--------RLAATLRSFRNDLKAKE 114 (141)
Q Consensus 46 ~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAk---HAgRkTI~~eDV~Ll~Rrn~--------~L~~~l~~~~~el~~~~ 114 (141)
++.++++++..|.++.-.=+.....=||.-+. +.+...|+.++|+-++++.. .-.+.+..|+..+++..
T Consensus 62 ~~~i~~~al~~ia~~a~GDaR~aLN~LE~a~~~~~~~~~~~it~~~~~~~~~~~~~~yDk~gd~HYd~iSAf~KSiRGSD 141 (300)
T PRK14700 62 KFKIDDGLYNAMHNYNEGDCRKILNLLERMFLISTRGDEIYLNKELFDQAVGETSRDFHREGKEFYEQLSAFHKSVRGTD 141 (300)
T ss_pred CCCcCHHHHHHHHHhcCCHHHHHHHHHHHHHhhccccCCCccCHHHHHHHHhHHHhcccCCcchhHHHHHHHHHHhhcCC
Confidence 47899999999999987766666666666332 22233599999998876553 57788999998888776
Q ss_pred Cc
Q 032408 115 PR 116 (141)
Q Consensus 115 ~~ 116 (141)
|.
T Consensus 142 pD 143 (300)
T PRK14700 142 PD 143 (300)
T ss_pred cc
Confidence 53
No 144
>PRK04132 replication factor C small subunit; Provisional
Probab=33.19 E-value=1.9e+02 Score=28.56 Aligned_cols=51 Identities=22% Similarity=0.205 Sum_probs=38.9
Q ss_pred hhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 43 NQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 43 ~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
...|+.++++++.+|......=+......|+..+.+. +.|+.++|..++.+
T Consensus 703 ~~Egi~i~~e~L~~Ia~~s~GDlR~AIn~Lq~~~~~~--~~It~~~V~~~~~~ 753 (846)
T PRK04132 703 ENEGLELTEEGLQAILYIAEGDMRRAINILQAAAALD--DKITDENVFLVASR 753 (846)
T ss_pred HhcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc--CCCCHHHHHHHhCC
Confidence 3347889999999999888876667777777776554 46999998877654
No 145
>KOG1757 consensus Histone 2A [Chromatin structure and dynamics]
Probab=32.46 E-value=93 Score=24.02 Aligned_cols=85 Identities=9% Similarity=0.054 Sum_probs=50.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhh--cCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcHHH
Q 032408 22 VTEILRDRFRLSTISIAEAEANQ--IGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERL 99 (141)
Q Consensus 22 ~~~~LKaaL~y~V~rI~ee~~~~--~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~L 99 (141)
.-.--++-|+|.|+||-+..-.. ...+|...+..-.+.+++-...++.+=+..-++.-+=|.|++--+.|++|-...|
T Consensus 21 vs~s~raGlqFpVgRihr~LK~r~t~h~rVGataavy~aaileYLTaEVLeLAgNasKdLKvKRitprHlqLAiRGDeEL 100 (131)
T KOG1757|consen 21 VSRSARAGLQFPVGRIHRHLKTRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEEL 100 (131)
T ss_pred hhHHHhcccccchHHHHHHHHHhcccccccchHHHHHHHHHHHHHHHHHHHHcccccccceeeeccchhheeeecCcHHH
Confidence 34456778999999997655322 2345554433322222222222333322333444456789999999999999888
Q ss_pred HHHHHHH
Q 032408 100 AATLRSF 106 (141)
Q Consensus 100 ~~~l~~~ 106 (141)
-.+++.-
T Consensus 101 DtLIk~T 107 (131)
T KOG1757|consen 101 DTLIKAT 107 (131)
T ss_pred HHHHHHh
Confidence 8777654
No 146
>PF11186 DUF2972: Protein of unknown function (DUF2972); InterPro: IPR021353 Some members in this family of proteins with unknown function are annotated as sugar transferase proteins, however this cannot be confirmed.
Probab=31.55 E-value=2.1e+02 Score=22.96 Aligned_cols=52 Identities=17% Similarity=0.249 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcHHHHHHHHHHHH
Q 032408 57 ISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATLRSFRN 108 (141)
Q Consensus 57 L~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~L~~~l~~~~~ 108 (141)
|-..+-.|+..+..-|+...+.-.-+-|+.+||.-..|.|+.+.-.+.+.++
T Consensus 117 l~~~ik~YL~~fi~~L~~~i~~~~~k~i~E~diL~ylk~nk~l~~k~K~ilD 168 (199)
T PF11186_consen 117 LFKKIKKYLNKFIKALEKQIKIEKKKLIKEKDILEYLKNNKDLRRKFKKILD 168 (199)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHhCHHHHHHHHHHHH
Confidence 3445667777788888888888888899999999999999999988877766
No 147
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=30.72 E-value=58 Score=29.40 Aligned_cols=37 Identities=16% Similarity=0.182 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 59 DLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 59 Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
+++-..+..++..+..+|-..+|..|+.+|+.-+.++
T Consensus 387 g~sgAdI~~i~~eA~~~Alr~~r~~Vt~~D~~~A~~~ 423 (438)
T PTZ00361 387 ELSGADIKAICTEAGLLALRERRMKVTQADFRKAKEK 423 (438)
T ss_pred CCCHHHHHHHHHHHHHHHHHhcCCccCHHHHHHHHHH
Confidence 4555556788999999999999999999999988765
No 148
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=30.20 E-value=66 Score=29.32 Aligned_cols=35 Identities=20% Similarity=0.313 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 61 AFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 61 v~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
.=..+..++.++-+||--.+|..|+++|+.-+..+
T Consensus 357 sGAdlkaictEAGm~AiR~~R~~Vt~~DF~~Av~K 391 (406)
T COG1222 357 SGADLKAICTEAGMFAIRERRDEVTMEDFLKAVEK 391 (406)
T ss_pred chHHHHHHHHHHhHHHHHhccCeecHHHHHHHHHH
Confidence 34556789999999999999999999999988765
No 149
>PF01295 Adenylate_cycl: Adenylate cyclase, class-I; InterPro: IPR000274 Adenylate cyclase is the enzyme responsible for the synthesis of cAMP from ATP. On the basis of sequence similarity, it has been proposed that there are three different classes of adenylate cyclases [, ]. Class I cyclases are found in enterobacteria and related Gram-negative bacteria.; GO: 0004016 adenylate cyclase activity, 0006171 cAMP biosynthetic process
Probab=29.25 E-value=1.3e+02 Score=28.58 Aligned_cols=28 Identities=21% Similarity=0.267 Sum_probs=23.3
Q ss_pred HHHHHHHH-hhcCCCccchhhHHHHHhhc
Q 032408 69 AKDLELFA-QHAGRKSVRMEDVILSAHRN 96 (141)
Q Consensus 69 a~DLe~FA-kHAgRkTI~~eDV~Ll~Rrn 96 (141)
=+.|..|| +|.-...|+++|+.++.||-
T Consensus 169 Yr~L~~fAr~~~~~~~i~~~Dl~iLgRKL 197 (604)
T PF01295_consen 169 YRNLIQFARRHNISSSISPQDLGILGRKL 197 (604)
T ss_pred HHHHHHHHHhCCCcccCCHHHHHHHHHHH
Confidence 36677787 78888899999999999973
No 150
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=29.17 E-value=2.8e+02 Score=24.72 Aligned_cols=72 Identities=15% Similarity=0.222 Sum_probs=53.3
Q ss_pred HHHHHHHHHH------------HHHHHHHHHHHhhcCCccCHHHHHHHHHHHH---HHHHHHHHHHHHHHhhcCCCccch
Q 032408 22 VTEILRDRFR------------LSTISIAEAEANQIGMEISKPIIACISDLAF---KYTEQLAKDLELFAQHAGRKSVRM 86 (141)
Q Consensus 22 ~~~~LKaaL~------------y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~---~~~~~ia~DLe~FAkHAgRkTI~~ 86 (141)
+.++|++++. =....|++..+...++.++++++.-|.+-+. +.++.+..-|.+||.-.||. |+.
T Consensus 244 l~~rL~SR~~~gl~v~i~~pd~e~r~~IL~~~~~~~~~~l~~ev~~~Ia~~~~~~~R~L~g~l~~l~~~~~~~~~~-it~ 322 (440)
T PRK14088 244 FQDRLVSRFQMGLVAKLEPPDEETRKKIARKMLEIEHGELPEEVLNFVAENVDDNLRRLRGAIIKLLVYKETTGEE-VDL 322 (440)
T ss_pred HHHHHhhHHhcCceEeeCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHhccccCHHHHHHHHHHHHHHHHHhCCC-CCH
Confidence 5567777774 2446678888777789999999999988765 45566777888888887765 887
Q ss_pred hhHHHHHh
Q 032408 87 EDVILSAH 94 (141)
Q Consensus 87 eDV~Ll~R 94 (141)
+.++-+.+
T Consensus 323 ~~a~~~L~ 330 (440)
T PRK14088 323 KEAILLLK 330 (440)
T ss_pred HHHHHHHH
Confidence 77755554
No 151
>PF13624 SurA_N_3: SurA N-terminal domain; PDB: 3NRK_A.
Probab=29.08 E-value=2.3e+02 Score=20.56 Aligned_cols=70 Identities=16% Similarity=0.209 Sum_probs=27.1
Q ss_pred HHHHHH--HHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHH-HHHHHHHhhcCCCccchhhHHHHHhhc
Q 032408 26 LRDRFR--LSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLA-KDLELFAQHAGRKSVRMEDVILSAHRN 96 (141)
Q Consensus 26 LKaaL~--y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia-~DLe~FAkHAgRkTI~~eDV~Ll~Rrn 96 (141)
|+..++ +-..+++..++...|+.||++-+.....-.-.+-.+ + -|-+.|.+.-...-++.++++-.+|++
T Consensus 75 ~~~~~l~~lI~~~ll~q~A~~~gi~vsd~ev~~~i~~~~~f~~~-g~~~~~~f~~~L~~~g~t~~~~~~~lr~~ 147 (154)
T PF13624_consen 75 LKQQVLDQLIDQKLLLQEAKKLGISVSDAEVDDAIKQIPAFQEN-GKFDKEAFEEFLKQQGMTEEEFKEELREQ 147 (154)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTT----HHHHHHHHHH--HHHHH-----HHHHHHHHH----------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHC-CCCCHHHHHHHHHHhhccccccchhhhcc
Confidence 444444 233677888888999999988777654443222222 1 245566665556667777776666554
No 152
>PF02861 Clp_N: Clp amino terminal domain; InterPro: IPR004176 This short domain is found in one or two copies at the amino terminus of ClpA and ClpB proteins from bacteria and eukaryotes. The function of these domains is uncertain but they may form a protein binding site []. The proteins are thought to be subunits of ATP-dependent proteases which act as chaperones to target the proteases to substrates.; GO: 0019538 protein metabolic process; PDB: 3FH2_A 3ZRJ_A 3ZRI_A 1QVR_C 3FES_C 2Y1R_F 3PXG_D 2Y1Q_A 3PXI_C 2K77_A ....
Probab=28.89 E-value=92 Score=18.52 Aligned_cols=35 Identities=17% Similarity=0.285 Sum_probs=26.1
Q ss_pred HHHHHhhcCCCccchhhHHHHHhhcH--HHHHHHHHH
Q 032408 72 LELFAQHAGRKSVRMEDVILSAHRNE--RLAATLRSF 106 (141)
Q Consensus 72 Le~FAkHAgRkTI~~eDV~Ll~Rrn~--~L~~~l~~~ 106 (141)
+..+|+..|...|+++-+.+++=.+| .+...|+.+
T Consensus 1 A~~~A~~~~~~~i~~eHlL~all~~~~~~~~~il~~~ 37 (53)
T PF02861_consen 1 AQELARERGHQYISPEHLLLALLEDPDSIAARILKKL 37 (53)
T ss_dssp HHHHHHHTTBSSE-HHHHHHHHHHHTTSHHHHHHHHT
T ss_pred CHHHHHHcCCCcccHHHHHHHHHhhhhHHHHHHHHHc
Confidence 35688999999999999999976766 555555544
No 153
>PHA02943 hypothetical protein; Provisional
Probab=28.79 E-value=59 Score=26.22 Aligned_cols=60 Identities=12% Similarity=0.229 Sum_probs=41.7
Q ss_pred CccCHHHHHHHHHHHHHHH-HHHHHHHHHHHhhcCCCccchhhHHHHHhhcHHHHHHHHHH
Q 032408 47 MEISKPIIACISDLAFKYT-EQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATLRSF 106 (141)
Q Consensus 47 ~~vs~~~v~aL~Elv~~~~-~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~L~~~l~~~ 106 (141)
++....++-.|.+=.|..+ ..+-+|++.|-.-.+++.|++.|+.=++-+.+........+
T Consensus 57 V~~G~~tyw~l~~day~~~v~~~~Relwrlv~s~~~kfi~p~~l~~li~kd~~a~~~~ak~ 117 (165)
T PHA02943 57 VEIGRAAIWCLDEDAYTNLVFEIKRELWRLVCNSRLKFITPSRLLRLIAKDTEAHNIFAKY 117 (165)
T ss_pred EeecceEEEEEChHHHHHHHHHHHHHHHHHHHhccccccChHHHHHHHHhCHHHHHHHHHh
Confidence 3344333333333333333 46889999999999999999999999998888777654443
No 154
>PF14069 SpoVIF: Stage VI sporulation protein F
Probab=28.79 E-value=1.2e+02 Score=21.41 Aligned_cols=44 Identities=9% Similarity=0.040 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032408 32 LSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQ 77 (141)
Q Consensus 32 y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAk 77 (141)
-.|.++++..+.-.|.+||++....|++.+-..-. ..|...+.+
T Consensus 31 ~~vR~lIk~vs~~an~~Vs~~~ed~IV~~I~~~~~--p~d~~~l~K 74 (79)
T PF14069_consen 31 KKVRQLIKQVSQIANKPVSKEQEDQIVQAIINQKI--PNDMNHLMK 74 (79)
T ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhCCC--CcCHHHHHH
Confidence 36788888888888999999999999988865432 455544443
No 155
>PF07765 KIP1: KIP1-like protein; InterPro: IPR011684 This is a group of sequences found exclusively in plants. They are similar to kinase interacting protein 1 (KIP1), which has been found to interact with the kinase domain of PRK1, a receptor-like kinase []. This particular region contains two coiled-coils, which are described as motifs involved in protein-protein interactions []. It has also been suggested that the coiled-coils of the protein allow it to dimerise in vivo [].
Probab=28.17 E-value=2e+02 Score=20.30 Aligned_cols=41 Identities=15% Similarity=0.220 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcHHHHHHHHHHHHHhh
Q 032408 61 AFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATLRSFRNDLK 111 (141)
Q Consensus 61 v~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~L~~~l~~~~~el~ 111 (141)
|-..+.-|..|...||+-| .+.-++-|.|.+++.++.....
T Consensus 27 vk~mlklieedgdSfakrA----------Emyy~kRp~Li~~vee~yr~Yr 67 (74)
T PF07765_consen 27 VKAMLKLIEEDGDSFAKRA----------EMYYKKRPELISLVEEFYRSYR 67 (74)
T ss_pred HHHHHHHhccCcchHHHhh----------HHHhcccHHHHHHHHHHHHHHH
Confidence 4444445566777887765 5778899999999999876543
No 156
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=28.15 E-value=1.8e+02 Score=26.92 Aligned_cols=54 Identities=15% Similarity=0.135 Sum_probs=35.6
Q ss_pred HHHHHHHHhhcCCccCHHHHHHHHHHHH---HHHHHHHHHHHHHHhhcCCCccchhhHHHH
Q 032408 35 ISIAEAEANQIGMEISKPIIACISDLAF---KYTEQLAKDLELFAQHAGRKSVRMEDVILS 92 (141)
Q Consensus 35 ~rI~ee~~~~~~~~vs~~~v~aL~Elv~---~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll 92 (141)
..+++..+...|+.++++++..|..+.. +.+.++...+..|+ ...|+.+||.-+
T Consensus 184 ~~~L~~i~~~egi~i~~~al~~ia~~s~G~~R~al~~Ldq~~~~~----~~~It~~~V~~v 240 (559)
T PRK05563 184 VERLKYILDKEGIEYEDEALRLIARAAEGGMRDALSILDQAISFG----DGKVTYEDALEV 240 (559)
T ss_pred HHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc----cCCCCHHHHHHH
Confidence 3444555556688999999988888764 44455555555663 356888887654
No 157
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=26.87 E-value=3.2e+02 Score=26.18 Aligned_cols=72 Identities=18% Similarity=0.209 Sum_probs=52.8
Q ss_pred HHHHHHHHHHHH------------HHHHHHHHHhhcCCccCHHHHHHHHHHHH---HHHHHHHHHHHHHHhhcCCCccch
Q 032408 22 VTEILRDRFRLS------------TISIAEAEANQIGMEISKPIIACISDLAF---KYTEQLAKDLELFAQHAGRKSVRM 86 (141)
Q Consensus 22 ~~~~LKaaL~y~------------V~rI~ee~~~~~~~~vs~~~v~aL~Elv~---~~~~~ia~DLe~FAkHAgRkTI~~ 86 (141)
+.++|+++|... -..|++..+...++.++++++.-|..-+. +.++.+..-|..||.-.+| .|+.
T Consensus 427 l~~rL~SRf~~GLvv~I~~PD~EtR~aIL~kka~~r~l~l~~eVi~yLa~r~~rnvR~LegaL~rL~a~a~~~~~-~itl 505 (617)
T PRK14086 427 LEDRLRNRFEWGLITDVQPPELETRIAILRKKAVQEQLNAPPEVLEFIASRISRNIRELEGALIRVTAFASLNRQ-PVDL 505 (617)
T ss_pred ccHHHHhhhhcCceEEcCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhhCC-CCCH
Confidence 455666666422 25688888888899999999999988876 5556677778778776664 4888
Q ss_pred hhHHHHHh
Q 032408 87 EDVILSAH 94 (141)
Q Consensus 87 eDV~Ll~R 94 (141)
+.++-+++
T Consensus 506 ~la~~vL~ 513 (617)
T PRK14086 506 GLTEIVLR 513 (617)
T ss_pred HHHHHHHH
Confidence 88776665
No 158
>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=26.85 E-value=3.7e+02 Score=22.25 Aligned_cols=48 Identities=17% Similarity=0.188 Sum_probs=36.1
Q ss_pred ccCHHHHHHHHHHHH------HHHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 48 EISKPIIACISDLAF------KYTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 48 ~vs~~~v~aL~Elv~------~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
.++++++..+.+++. +++.++...+..+|.=.|+.+|+.+||.-+...
T Consensus 220 ~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~~a~~~~~~~it~~~v~~a~~~ 273 (365)
T TIGR02928 220 VLDDGVIPLCAALAAQEHGDARKAIDLLRVAGEIAEREGAERVTEDHVEKAQEK 273 (365)
T ss_pred CCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 488888887777664 455667777777776667889999999976644
No 159
>KOG3811 consensus Transcription factor AP-2 [Transcription]
Probab=26.77 E-value=3.6e+02 Score=24.92 Aligned_cols=66 Identities=20% Similarity=0.308 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHHH---------HHHHHHHhhcCCccC----HHH-HHHHHHHHHHHHHHHHHHHH----------HHHhh
Q 032408 23 TEILRDRFRLSTI---------SIAEAEANQIGMEIS----KPI-IACISDLAFKYTEQLAKDLE----------LFAQH 78 (141)
Q Consensus 23 ~~~LKaaL~y~V~---------rI~ee~~~~~~~~vs----~~~-v~aL~Elv~~~~~~ia~DLe----------~FAkH 78 (141)
.|-|-++|-|.|- |.+++.....|+.+- ..+ |..|+-||+.-+..+|+|+. +.|.+
T Consensus 236 PEcLNaSlLggvLRRaKsKnGGr~lRe~L~k~GlnlpagrRkaAnVT~ltsLVE~EAvHLArDf~~vcE~efP~~~Iae~ 315 (434)
T KOG3811|consen 236 PECLNASLLGGVLRRAKSKNGGRLLREKLTKIGLNLPAGRRKAANVTLLTSLVEEEAVHLARDFGYVCETEFPARAIAEE 315 (434)
T ss_pred hhhhhhHhhhhhhhhhhhcchHHHHHHHHHHcCCCCcccchhhccchhhhHHHHHHHHHHHHhhhhhhhhhccHHHHHHH
Confidence 4578888888884 455555555665543 333 88999999999999999974 45667
Q ss_pred cCCCccchhh
Q 032408 79 AGRKSVRMED 88 (141)
Q Consensus 79 AgRkTI~~eD 88 (141)
=-|+-+..++
T Consensus 316 l~r~~l~~~~ 325 (434)
T KOG3811|consen 316 LLRKHLAPEN 325 (434)
T ss_pred HHHHhhcCch
Confidence 7777777633
No 160
>PF12767 SAGA-Tad1: Transcriptional regulator of RNA polII, SAGA, subunit; InterPro: IPR024738 The yeast Spt-Ada-Gcn5-Acetyl (SAGA) transferase complex is a multifunctional coactivator involved in multiple cellular processes [], including regulation of transcription by RNA polymerase II [, ]. It is formed of five major modular subunits and shows a high degree of structural conservation to human TFTC and STAGA []. This entry represents Ada1 (known as Tada1 in higher eukaryotes), one of the subunits that constitute the SAGA core. It also functions as a component of the SALSA and SLIK complexes. ; GO: 0070461 SAGA-type complex
Probab=26.66 E-value=2.1e+02 Score=23.43 Aligned_cols=44 Identities=14% Similarity=-0.062 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032408 29 RFRLSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELF 75 (141)
Q Consensus 29 aL~y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~F 75 (141)
.|+--+..||.+.|.. .|+.+++..|.-.+..|+.+|..-....
T Consensus 207 ~L~~Rm~~ia~e~GL~---gvs~~~a~ll~~ale~~LK~lI~s~l~~ 250 (252)
T PF12767_consen 207 SLRKRMEQIAWEHGLG---GVSDDCANLLNLALEVHLKNLIKSCLDL 250 (252)
T ss_pred HHHHHHHHHHHHcCCC---CCCHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4555666777777653 7999999999999999999887655443
No 161
>COG2045 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]
Probab=26.11 E-value=1.1e+02 Score=25.73 Aligned_cols=58 Identities=19% Similarity=0.116 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccch----hhHHHHHhhc
Q 032408 31 RLSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRM----EDVILSAHRN 96 (141)
Q Consensus 31 ~y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~----eDV~Ll~Rrn 96 (141)
||+-+-|+.-...+. ++. +... ...+.+...-..++..++.|++| +.. +||..+++.+
T Consensus 150 ~~~AG~I~~~l~g~~----~~~-~~~a-a~~~~~~~~~~~~~~~~ss~~~r--L~~lg~~eDveyc~~~d 211 (230)
T COG2045 150 FLCAGAIAHYLEGEN----GDG-VAAA-AVYMERTREDLEEAIKGSSHGKR--LLELGFEEDVEYCAKED 211 (230)
T ss_pred HHHHHHHHHHHhccC----cch-HHHH-HHHHHHhcccHHHHHhhcchhhh--HHhcchhhhhHHHHhhc
Confidence 455566665554332 555 3333 33445556777888899999999 666 9999999775
No 162
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=26.10 E-value=1.9e+02 Score=28.13 Aligned_cols=54 Identities=15% Similarity=0.243 Sum_probs=36.4
Q ss_pred HHHHHHHHhhcCCccCHHHHHHHHHHH---HHHHHHHHHHHHHHHhhcCCCccchhhHHHH
Q 032408 35 ISIAEAEANQIGMEISKPIIACISDLA---FKYTEQLAKDLELFAQHAGRKSVRMEDVILS 92 (141)
Q Consensus 35 ~rI~ee~~~~~~~~vs~~~v~aL~Elv---~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll 92 (141)
..++...+...|+.++++++..|+.++ .+.+..++..+..|+ .| .|+.++|.-+
T Consensus 183 ~~~L~~il~kegI~id~eAl~~LA~lS~GslR~AlslLekl~~y~--~~--~It~e~V~el 239 (725)
T PRK07133 183 VSRLEFILEKENISYEKNALKLIAKLSSGSLRDALSIAEQVSIFG--NN--KITLKNVEEL 239 (725)
T ss_pred HHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc--cC--CCCHHHHHHH
Confidence 444455545568889999988888887 455666667776663 23 3888888654
No 163
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=25.97 E-value=1.9e+02 Score=24.59 Aligned_cols=33 Identities=21% Similarity=0.357 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHhhcCCCccchhhHHHHHhh
Q 032408 63 KYTEQLAKDLELFAQHAGRKSVRMEDVILSAHR 95 (141)
Q Consensus 63 ~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rr 95 (141)
..+..++..+..+|-..+|..|+.+|+.-+.++
T Consensus 330 ~dl~~l~~~A~~~a~~~~~~~i~~~d~~~a~~~ 362 (364)
T TIGR01242 330 ADLKAICTEAGMFAIREERDYVTMDDFIKAVEK 362 (364)
T ss_pred HHHHHHHHHHHHHHHHhCCCccCHHHHHHHHHH
Confidence 344578888888888889999999999988765
No 164
>PF11216 DUF3012: Protein of unknown function (DUF3012); InterPro: IPR021379 This family of proteins with unknown function is restricted to Gammaproteobacteria.
Probab=25.89 E-value=45 Score=20.13 Aligned_cols=12 Identities=33% Similarity=0.468 Sum_probs=9.8
Q ss_pred HHHHHHHHHhhc
Q 032408 68 LAKDLELFAQHA 79 (141)
Q Consensus 68 ia~DLe~FAkHA 79 (141)
-++|+..||+|.
T Consensus 19 tanea~~fAKhC 30 (32)
T PF11216_consen 19 TANEAADFAKHC 30 (32)
T ss_pred cHhHHHHHHHhh
Confidence 478899999994
No 165
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=24.94 E-value=5.2e+02 Score=23.41 Aligned_cols=73 Identities=19% Similarity=0.301 Sum_probs=54.9
Q ss_pred HHHHHHHHHH------------HHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHH---HHHHHHHHHHHhhcCCCccch
Q 032408 22 VTEILRDRFR------------LSTISIAEAEANQIGMEISKPIIACISDLAFKYT---EQLAKDLELFAQHAGRKSVRM 86 (141)
Q Consensus 22 ~~~~LKaaL~------------y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~---~~ia~DLe~FAkHAgRkTI~~ 86 (141)
+.++|++++- -.-..|+...+...|+.++++++.-|..-+.+-. +-...-|..||.-.|| .|+.
T Consensus 225 ~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL~kka~~~~~~i~~ev~~~la~~~~~nvReLegaL~~l~~~a~~~~~-~iTi 303 (408)
T COG0593 225 LEDRLRSRLEWGLVVEIEPPDDETRLAILRKKAEDRGIEIPDEVLEFLAKRLDRNVRELEGALNRLDAFALFTKR-AITI 303 (408)
T ss_pred ccHHHHHHHhceeEEeeCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccHHHHHHHHHHHHHHHHhcCc-cCcH
Confidence 4567777765 2335677777788899999999999988877655 3467788888888888 7888
Q ss_pred hhHHHHHhh
Q 032408 87 EDVILSAHR 95 (141)
Q Consensus 87 eDV~Ll~Rr 95 (141)
+-|+-+.+-
T Consensus 304 ~~v~e~L~~ 312 (408)
T COG0593 304 DLVKEILKD 312 (408)
T ss_pred HHHHHHHHH
Confidence 877766654
No 166
>PRK05642 DNA replication initiation factor; Validated
Probab=24.67 E-value=3.7e+02 Score=21.50 Aligned_cols=55 Identities=15% Similarity=0.148 Sum_probs=37.1
Q ss_pred HHHHHHHHHhhcCCccCHHHHHHHHHHHH---HHHHHHHHHHHHHHhhcCCCccchhhH
Q 032408 34 TISIAEAEANQIGMEISKPIIACISDLAF---KYTEQLAKDLELFAQHAGRKSVRMEDV 89 (141)
Q Consensus 34 V~rI~ee~~~~~~~~vs~~~v~aL~Elv~---~~~~~ia~DLe~FAkHAgRkTI~~eDV 89 (141)
...|++..+...|+.++++++.-|.+-+. +.+..+...|..+|-..||+ |+..=+
T Consensus 171 ~~~il~~ka~~~~~~l~~ev~~~L~~~~~~d~r~l~~~l~~l~~~~l~~~~~-it~~~~ 228 (234)
T PRK05642 171 KLRALQLRASRRGLHLTDEVGHFILTRGTRSMSALFDLLERLDQASLQAQRK-LTIPFL 228 (234)
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHcCCc-CCHHHH
Confidence 34556645556688999999999988776 44556777777666666665 554433
No 167
>PLN03199 delta6-acyl-lipid desaturase-like protein; Provisional
Probab=24.39 E-value=1.5e+02 Score=26.88 Aligned_cols=43 Identities=14% Similarity=0.189 Sum_probs=30.6
Q ss_pred HHHHHHHHHHhhcCCccC-HHHHHHHHHHHHHHHHHHHHH-HHHHH
Q 032408 33 STISIAEAEANQIGMEIS-KPIIACISDLAFKYTEQLAKD-LELFA 76 (141)
Q Consensus 33 ~V~rI~ee~~~~~~~~vs-~~~v~aL~Elv~~~~~~ia~D-Le~FA 76 (141)
.+..|+++.+++.|+.+. ..++.++. .+.+++.++|+| |+-|+
T Consensus 435 ~i~piVk~~C~k~glpY~~~~~~~a~~-~~~~~L~~vg~~~~~~~~ 479 (485)
T PLN03199 435 KCHALVESFCKEWGVKYHEADLVDGTM-EVLHHLGKVADDFLVDFV 479 (485)
T ss_pred hhhHHHHHHHHHhCCCccccCHHHHHH-HHHHHHHHHHHHHHHhcc
Confidence 678999999999998854 33666655 456678888877 34443
No 168
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=24.19 E-value=3.8e+02 Score=25.30 Aligned_cols=51 Identities=14% Similarity=0.085 Sum_probs=30.3
Q ss_pred HHHhhcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHH
Q 032408 40 AEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILS 92 (141)
Q Consensus 40 e~~~~~~~~vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll 92 (141)
..+...|+.++++++..|.+++..-......-|+.++-..| .|+.++|.-+
T Consensus 191 ~ia~kegi~is~~al~~La~~s~G~lr~A~~lLeklsL~~~--~It~e~V~~l 241 (620)
T PRK14948 191 EIAEKESIEIEPEALTLVAQRSQGGLRDAESLLDQLSLLPG--PITPEAVWDL 241 (620)
T ss_pred HHHHHhCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhccC--CCCHHHHHHH
Confidence 33344578899999988888875533333333333333333 4777776644
No 169
>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]
Probab=24.03 E-value=4e+02 Score=24.50 Aligned_cols=72 Identities=21% Similarity=0.206 Sum_probs=47.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCccCHHHHHHHHHHHHHHHHH-------HHHHHHHHHhhcCCCccchhhHHHHH
Q 032408 22 VTEILRDRFRLSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQ-------LAKDLELFAQHAGRKSVRMEDVILSA 93 (141)
Q Consensus 22 ~~~~LKaaL~y~V~rI~ee~~~~~~~~vs~~~v~aL~Elv~~~~~~-------ia~DLe~FAkHAgRkTI~~eDV~Ll~ 93 (141)
+-+++.....+.=.+|+.....-..+..+......+++++-+.... +.+=..++|.-.||.+|+.+||+=++
T Consensus 241 f~~~~~~~~~~lR~~ii~ar~~l~~V~l~~~~~~~ia~~~~~~~v~g~radi~~~r~a~a~aa~~Gr~~v~~~Di~~a~ 319 (423)
T COG1239 241 FLEKYADAQRALRARIIAARSLLSEVELDDDAETKIAELCARLAVDGHRADIVVVRAAKALAALRGRTEVEEEDIREAA 319 (423)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHhcCceeeehhhHHHHH
Confidence 3334443333333444433333335778888888888888776532 55556778888999999999998654
No 170
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=23.99 E-value=3.6e+02 Score=25.62 Aligned_cols=53 Identities=8% Similarity=-0.057 Sum_probs=32.8
Q ss_pred HHHHHHhhcCCccCHHHHHHHHHHHHHHH---HHHHHHHHHHHhhcCCCccchhhHHHHH
Q 032408 37 IAEAEANQIGMEISKPIIACISDLAFKYT---EQLAKDLELFAQHAGRKSVRMEDVILSA 93 (141)
Q Consensus 37 I~ee~~~~~~~~vs~~~v~aL~Elv~~~~---~~ia~DLe~FAkHAgRkTI~~eDV~Ll~ 93 (141)
.+.......|+.++++++..|.+.+..-. .++..-+..| + ...|+.++|.-++
T Consensus 191 ~L~~i~~~egi~ie~~AL~~La~~s~GslR~al~lLdq~ia~---~-~~~It~~~V~~~L 246 (618)
T PRK14951 191 HLTQVLAAENVPAEPQALRLLARAARGSMRDALSLTDQAIAF---G-SGQLQEAAVRQML 246 (618)
T ss_pred HHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh---c-CCCcCHHHHHHHH
Confidence 33344444588999999998888765433 3444334444 3 3468888886543
No 171
>PF09487 HrpB2: Bacterial type III secretion protein (HrpB2); InterPro: IPR013391 This entry represents proteins encoded by genes which are found in type III secretion operons in a narrow group of species including Xanthomonas, Burkholderia and Ralstonia.
Probab=23.31 E-value=1.8e+02 Score=22.17 Aligned_cols=33 Identities=12% Similarity=0.089 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCc
Q 032408 51 KPIIACISDLAFKYTEQLAKDLELFAQHAGRKS 83 (141)
Q Consensus 51 ~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkT 83 (141)
+.++..|.+-=..++.++.+|...|..||+--.
T Consensus 42 ~s~vs~lv~~qd~~~r~~~~dv~~~~~~a~~ms 74 (117)
T PF09487_consen 42 PSAVSKLVATQDAAMRQVLNDVAALSAQAPEMS 74 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhCccCC
Confidence 567777777777788899999999999998654
No 172
>COG0184 RpsO Ribosomal protein S15P/S13E [Translation, ribosomal structure and biogenesis]
Probab=23.23 E-value=1.1e+02 Score=22.14 Aligned_cols=36 Identities=11% Similarity=0.150 Sum_probs=29.2
Q ss_pred HHHHhhcCCCccchhhHHHHHhhcHHHHHHHHHHHH
Q 032408 73 ELFAQHAGRKSVRMEDVILSAHRNERLAATLRSFRN 108 (141)
Q Consensus 73 e~FAkHAgRkTI~~eDV~Ll~Rrn~~L~~~l~~~~~ 108 (141)
..|+.|.+..-..+.||.+++.|=-.|.+++...-.
T Consensus 13 ~eyg~~~~dtgs~evq~a~Lt~ri~~L~~Hlk~hkK 48 (89)
T COG0184 13 DEYGIPEVDTGSGEVQLALLTERINNLTEHLKEHKK 48 (89)
T ss_pred HHhCCCCCCCCCcHHHHHHHHHHHHHHHHHHHHCCc
Confidence 368888888888899999999998888888876533
No 173
>cd01670 Death Death Domain: a protein-protein interaction domain. Death Domains (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. Structural analysis of DD-DD complexes show that the domains interact with each other in many different ways. DD-containing proteins serve as adaptors in signaling pathways and they can recruit other proteins into signaling complexes. In mammals, they are prominent components of the programmed cell death (apoptosis) pathway and are found in a number of other signaling pathways. In invertebrates, they are involved in transcriptional regulation of zygotic patterning genes in insect embryogenesis, and are components of the ToII/NF-kappaB pathway, a conserved innate immune pathway in a
Probab=23.17 E-value=2.2e+02 Score=18.33 Aligned_cols=47 Identities=17% Similarity=0.182 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcHHHHHHHHHHHHHhh
Q 032408 62 FKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATLRSFRNDLK 111 (141)
Q Consensus 62 ~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~L~~~l~~~~~el~ 111 (141)
+..+..++.|=..||++-| ++..||.-+-..||.+.+...+.+..-.
T Consensus 3 ~~ia~~lg~~W~~la~~Lg---l~~~~I~~i~~~~~~~~~~~~~mL~~W~ 49 (79)
T cd01670 3 DKLAKKLGKDWKKLARKLG---LSDGEIDQIEEDNPRVREQAYQLLLKWE 49 (79)
T ss_pred HHHHHHHhhHHHHHHHHhC---CCHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 3455678899999999888 8899999999999876666666655443
No 174
>PRK14127 cell division protein GpsB; Provisional
Probab=21.85 E-value=3.5e+02 Score=20.20 Aligned_cols=42 Identities=21% Similarity=0.352 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcHHHHHHHHHHHHHhh
Q 032408 60 LAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATLRSFRNDLK 111 (141)
Q Consensus 60 lv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~L~~~l~~~~~el~ 111 (141)
=|..|+..++.|.+.|.+ .+.-+-..+..|...|.++...+.
T Consensus 27 EVD~FLd~V~~dye~l~~----------e~~~Lk~e~~~l~~~l~e~~~~~~ 68 (109)
T PRK14127 27 EVDKFLDDVIKDYEAFQK----------EIEELQQENARLKAQVDELTKQVS 68 (109)
T ss_pred HHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHhhc
Confidence 366777888889988843 444556666677777777666554
No 175
>COG0831 UreA Urea amidohydrolase (urease) gamma subunit [Amino acid transport and metabolism]
Probab=21.32 E-value=3.6e+02 Score=20.14 Aligned_cols=60 Identities=18% Similarity=0.323 Sum_probs=39.2
Q ss_pred HHHHHHHHHHHHHHHHhhcCCccC-HHHHHHHHHHHHHHHHH--HHHHHHHHHhhcCCCccchhhHH
Q 032408 27 RDRFRLSTISIAEAEANQIGMEIS-KPIIACISDLAFKYTEQ--LAKDLELFAQHAGRKSVRMEDVI 90 (141)
Q Consensus 27 KaaL~y~V~rI~ee~~~~~~~~vs-~~~v~aL~Elv~~~~~~--ia~DLe~FAkHAgRkTI~~eDV~ 90 (141)
+.+|..++.--+-+.-...|+... |++++-++..+...+.+ -..||- ..||..++.+||.
T Consensus 8 ~dKLli~~a~~lA~rR~~RGlKLNypEAvAlIs~~i~EgaRdGktVaelM----~~g~~vL~~ddVm 70 (100)
T COG0831 8 KDKLLIFTAAELARRRKARGLKLNYPEAVALISAFILEGARDGKTVAELM----SEGRHVLTRDDVM 70 (100)
T ss_pred HHHHHHHHHHHHHHHHHhcCcccCcHHHHHHHHHHHHHhhhcCCcHHHHH----HhhhhhCCHHHHh
Confidence 445554444443333345677766 89999998888887753 344444 4578889999985
No 176
>PF02617 ClpS: ATP-dependent Clp protease adaptor protein ClpS; InterPro: IPR003769 In the bacterial cytosol, ATP-dependent protein degradation is performed by several different chaperone-protease pairs, including ClpAP. ClpS directly influences the ClpAP machine by binding to the N-terminal domain of the chaperone ClpA. The degradation of ClpAP substrates, both SsrA-tagged proteins and ClpA itself, is specifically inhibited by ClpS. ClpS modifies ClpA substrate specificity, potentially redirecting degradation by ClpAP toward aggregated proteins []. ClpS is a small alpha/beta protein that consists of three alpha-helices connected to three antiparallel beta-strands []. The protein has a globular shape, with a curved layer of three antiparallel alpha-helices over a twisted antiparallel beta-sheet. Dimerization of ClpS may occur through its N-terminal domain. This short extended N-terminal region in ClpS is followed by the central seven-residue beta-strand, which is flanked by two other beta-strands in a small beta-sheet. ; GO: 0030163 protein catabolic process; PDB: 3O2O_B 1MBU_D 3O2B_C 2WA9_D 3O1F_A 2W9R_A 1MG9_A 1MBX_C 2WA8_C 1R6O_D ....
Probab=20.69 E-value=1.6e+02 Score=19.99 Aligned_cols=48 Identities=17% Similarity=0.254 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHHHhhcHHH
Q 032408 51 KPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERL 99 (141)
Q Consensus 51 ~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkTI~~eDV~Ll~Rrn~~L 99 (141)
+.++..|...+ .....-|..+..-+..-||..|..-+...+.+.-..|
T Consensus 20 ~~Vi~~L~~~~-~~s~~~A~~~a~~v~~~G~avv~~~~~e~ae~~~~~l 67 (82)
T PF02617_consen 20 EQVIDVLRRVF-GCSEEQARQIAMEVHREGRAVVGTGSREEAEEYAEKL 67 (82)
T ss_dssp HHHHHHHHHHC----HHHHHHHHHHHHHHSEEEEEEEEHHHHHHHHHHH
T ss_pred HHHHHHHHHHH-CCCHHHHHHHHHHHhHcCCEeeeeCCHHHHHHHHHHH
Confidence 45666676666 6667888888888899999988887766665444333
No 177
>TIGR02558 HrpB2 type III secretion protein HrpB2. This family of genes is found in type III secretion operons in a narrow group of species including Xanthomonas, Burkholderia and Ralstonia.
Probab=20.13 E-value=2.2e+02 Score=22.00 Aligned_cols=44 Identities=14% Similarity=0.104 Sum_probs=33.4
Q ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCc---cchhhHHHH
Q 032408 49 ISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKS---VRMEDVILS 92 (141)
Q Consensus 49 vs~~~v~aL~Elv~~~~~~ia~DLe~FAkHAgRkT---I~~eDV~Ll 92 (141)
-++.+|..|.+--..++..+..|...|..||+-.. |.+..++|-
T Consensus 47 ~~~s~i~~lV~~qda~~r~~~~dv~~~~~~a~~msm~em~a~~m~l~ 93 (124)
T TIGR02558 47 AGPSAISRLVAAQDAEVRASVDDVAAVERRAPMMSLEEINVETMRLT 93 (124)
T ss_pred cchhHHHHHHHHhHHHHHHHHHHHHHHHHhCcccCHHHHHHHHHHHH
Confidence 34778888888888888999999999999998654 344444443
Done!