Query 030548
Match_columns 175
No_of_seqs 154 out of 261
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 15:24:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030548.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030548hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3334 Transcription initiati 100.0 6.1E-54 1.3E-58 341.0 13.7 135 1-135 1-140 (148)
2 PF02291 TFIID-31kDa: Transcri 100.0 9.3E-55 2E-59 341.1 8.5 124 3-126 6-129 (129)
3 cd07979 TAF9 TATA Binding Prot 100.0 2.9E-49 6.3E-54 304.6 13.6 117 9-125 1-117 (117)
4 COG5094 TAF9 Transcription ini 100.0 3.8E-46 8.3E-51 291.8 11.1 126 1-126 1-134 (145)
5 PLN00035 histone H4; Provision 99.3 2.2E-11 4.7E-16 93.0 8.4 62 14-75 34-95 (103)
6 COG2036 HHT1 Histones H3 and H 99.3 1.3E-11 2.8E-16 92.3 7.0 63 14-76 24-86 (91)
7 smart00803 TAF TATA box bindin 99.3 2.4E-11 5.2E-16 85.3 7.4 59 14-72 7-65 (65)
8 cd00076 H4 Histone H4, one of 99.3 3.2E-11 7E-16 89.1 8.4 62 14-75 18-79 (85)
9 smart00576 BTP Bromodomain tra 99.2 5.4E-11 1.2E-15 85.1 8.8 61 13-73 10-70 (77)
10 PTZ00015 histone H4; Provision 99.2 3.9E-11 8.4E-16 91.4 8.4 66 7-74 30-95 (102)
11 smart00417 H4 Histone H4. 99.2 7.3E-11 1.6E-15 85.3 5.9 58 13-70 17-74 (74)
12 PF15630 CENP-S: Kinetochore c 99.1 1.6E-10 3.5E-15 83.7 4.4 57 15-72 11-71 (76)
13 cd07981 TAF12 TATA Binding Pro 99.0 4E-09 8.6E-14 75.0 8.9 64 14-77 6-70 (72)
14 PF07524 Bromo_TP: Bromodomain 98.8 2.8E-08 6E-13 70.6 8.7 61 13-73 10-70 (77)
15 cd08050 TAF6 TATA Binding Prot 98.8 2.3E-08 4.9E-13 88.9 9.8 96 13-109 3-117 (343)
16 PF00125 Histone: Core histone 98.6 3E-07 6.6E-12 64.2 7.5 61 13-73 13-74 (75)
17 smart00428 H3 Histone H3. 98.4 1.4E-06 3.1E-11 66.8 8.6 64 12-75 36-102 (105)
18 PF02969 TAF: TATA box binding 98.3 5.4E-06 1.2E-10 58.7 8.0 60 13-72 7-66 (66)
19 cd00074 H2A Histone 2A; H2A is 98.2 3.1E-06 6.6E-11 65.7 6.7 62 12-73 23-85 (115)
20 PF00808 CBFD_NFYB_HMF: Histon 98.1 1.8E-05 3.8E-10 54.4 7.2 59 13-71 6-65 (65)
21 PTZ00018 histone H3; Provision 97.8 0.00011 2.4E-09 58.8 7.6 65 12-76 69-134 (136)
22 PLN00161 histone H3; Provision 97.8 0.00014 3E-09 58.2 8.1 65 12-76 62-128 (135)
23 PLN00160 histone H3; Provision 97.8 0.00014 3.1E-09 55.2 7.7 64 12-75 28-93 (97)
24 PLN00121 histone H3; Provision 97.7 0.00016 3.5E-09 57.8 7.5 64 12-75 69-133 (136)
25 KOG3467 Histone H4 [Chromatin 97.6 0.00026 5.6E-09 53.4 7.2 60 14-73 34-93 (103)
26 KOG4336 TBP-associated transcr 97.6 0.00029 6.4E-09 62.9 7.7 62 11-72 7-68 (323)
27 PF03847 TFIID_20kDa: Transcri 97.5 0.00069 1.5E-08 48.1 7.4 60 14-73 4-64 (68)
28 PF15511 CENP-T: Centromere ki 97.5 0.00019 4.2E-09 65.7 5.7 42 25-66 373-414 (414)
29 KOG2389 Predicted bromodomain 97.2 0.0037 8.1E-08 56.7 10.6 63 14-76 34-96 (353)
30 KOG1142 Transcription initiati 97.0 0.0013 2.8E-08 57.5 5.8 67 13-79 158-225 (258)
31 PF13654 AAA_32: AAA domain; P 96.4 0.013 2.9E-07 55.3 7.9 64 12-75 433-507 (509)
32 KOG3423 Transcription initiati 96.2 0.031 6.8E-07 46.4 8.2 66 14-80 91-170 (176)
33 KOG2549 Transcription initiati 96.1 0.024 5.2E-07 54.3 7.9 63 12-74 14-76 (576)
34 PF02269 TFIID-18kDa: Transcri 96.0 0.0091 2E-07 44.4 3.9 59 15-73 7-66 (93)
35 KOG1745 Histones H3 and H4 [Ch 95.9 0.0069 1.5E-07 48.6 2.9 64 14-77 72-136 (137)
36 smart00414 H2A Histone 2A. 95.8 0.031 6.8E-07 42.8 6.0 62 12-73 12-74 (106)
37 PF03540 TFIID_30kDa: Transcri 95.5 0.069 1.5E-06 36.3 6.3 45 13-57 6-50 (51)
38 PLN00154 histone H2A; Provisio 95.4 0.048 1E-06 43.8 6.1 62 12-73 41-104 (136)
39 PTZ00017 histone H2A; Provisio 94.6 0.084 1.8E-06 42.3 5.4 62 12-73 30-92 (134)
40 PTZ00463 histone H2B; Provisio 94.5 0.19 4.1E-06 39.5 7.0 62 14-75 33-95 (117)
41 PLN00158 histone H2B; Provisio 94.4 0.22 4.8E-06 39.1 7.1 62 14-75 32-94 (116)
42 smart00427 H2B Histone H2B. 94.1 0.41 9E-06 35.9 7.9 62 14-75 6-68 (89)
43 cd07978 TAF13 The TATA Binding 94.0 0.45 9.8E-06 35.5 8.0 58 15-73 8-66 (92)
44 PLN00157 histone H2A; Provisio 93.5 0.17 3.6E-06 40.5 5.1 62 12-73 29-91 (132)
45 PLN00156 histone H2AX; Provisi 92.9 0.3 6.4E-06 39.4 5.7 62 12-73 32-94 (139)
46 TIGR00764 lon_rel lon-related 92.7 0.56 1.2E-05 45.2 8.4 64 12-75 315-392 (608)
47 KOG1756 Histone 2A [Chromatin 92.6 0.37 8E-06 38.5 5.8 60 14-73 32-92 (131)
48 PLN00153 histone H2A; Provisio 92.6 0.31 6.7E-06 38.9 5.4 61 13-73 28-89 (129)
49 KOG0869 CCAAT-binding factor, 92.5 0.41 8.9E-06 39.6 6.1 79 12-93 39-117 (168)
50 COG5262 HTA1 Histone H2A [Chro 91.6 0.53 1.1E-05 37.4 5.6 61 13-73 30-91 (132)
51 PTZ00252 histone H2A; Provisio 91.4 0.63 1.4E-05 37.4 5.9 62 12-73 28-92 (134)
52 PRK00411 cdc6 cell division co 90.6 1.8 3.8E-05 38.0 8.6 48 26-73 228-281 (394)
53 KOG0870 DNA polymerase epsilon 90.3 1.4 3.1E-05 36.7 7.2 75 13-89 18-92 (172)
54 PRK05574 holA DNA polymerase I 89.7 1.9 4.1E-05 36.9 7.8 64 12-76 152-215 (340)
55 TIGR00635 ruvB Holliday juncti 89.4 5.8 0.00013 33.6 10.6 81 14-96 167-252 (305)
56 cd08045 TAF4 TATA Binding Prot 89.3 1.4 3E-05 36.8 6.6 62 12-73 51-118 (212)
57 TIGR03015 pepcterm_ATPase puta 89.1 2 4.4E-05 35.4 7.4 61 13-73 199-265 (269)
58 COG1067 LonB Predicted ATP-dep 88.0 1.7 3.8E-05 42.5 7.2 72 4-75 315-400 (647)
59 COG5162 Transcription initiati 87.6 3.7 8E-05 34.5 7.9 43 14-56 93-135 (197)
60 TIGR01128 holA DNA polymerase 87.2 3.7 8E-05 34.4 7.9 65 12-77 117-181 (302)
61 PRK07452 DNA polymerase III su 86.9 2.6 5.6E-05 36.3 7.0 61 12-73 136-198 (326)
62 COG5095 TAF6 Transcription ini 86.9 2.5 5.4E-05 39.0 7.0 61 13-74 9-70 (450)
63 PRK00080 ruvB Holliday junctio 86.9 7 0.00015 34.0 9.7 82 13-96 187-273 (328)
64 KOG1744 Histone H2B [Chromatin 86.3 2.9 6.2E-05 33.4 6.3 49 27-75 56-104 (127)
65 COG1466 HolA DNA polymerase II 86.1 2.9 6.3E-05 36.8 6.9 63 13-76 147-209 (334)
66 PRK06585 holA DNA polymerase I 86.0 2.3 5E-05 37.0 6.2 64 12-76 148-212 (343)
67 TIGR02902 spore_lonB ATP-depen 85.8 3.1 6.8E-05 39.3 7.4 60 13-73 270-331 (531)
68 PF05236 TAF4: Transcription i 85.6 1.5 3.3E-05 37.6 4.8 61 13-73 51-117 (264)
69 PRK05907 hypothetical protein; 83.9 2.9 6.2E-05 37.1 5.9 64 12-76 140-205 (311)
70 PRK08487 DNA polymerase III su 83.6 4.1 8.8E-05 35.7 6.7 62 12-76 141-202 (328)
71 PRK07914 hypothetical protein; 82.9 3.4 7.3E-05 36.0 5.9 63 12-76 134-196 (320)
72 TIGR02397 dnaX_nterm DNA polym 81.7 4.5 9.7E-05 34.8 6.2 58 13-72 183-240 (355)
73 PRK12402 replication factor C 81.0 5.2 0.00011 34.0 6.3 58 12-72 190-247 (337)
74 TIGR02928 orc1/cdc6 family rep 80.7 13 0.00029 32.1 8.8 49 26-74 220-274 (365)
75 PRK05629 hypothetical protein; 79.8 6.4 0.00014 34.2 6.5 62 12-75 132-193 (318)
76 TIGR02030 BchI-ChlI magnesium 78.8 12 0.00026 33.7 8.1 58 26-83 254-318 (337)
77 PRK14970 DNA polymerase III su 78.6 6.4 0.00014 34.6 6.2 58 13-72 174-231 (367)
78 PRK09111 DNA polymerase III su 78.0 6.3 0.00014 38.2 6.5 58 12-71 197-254 (598)
79 PF15127 DUF4565: Protein of u 78.0 1.6 3.6E-05 32.9 2.0 28 26-53 45-72 (91)
80 cd08048 TAF11 TATA Binding Pro 77.9 21 0.00046 26.2 7.9 60 14-73 21-83 (85)
81 PRK00440 rfc replication facto 75.9 9.3 0.0002 32.1 6.2 58 12-72 167-224 (319)
82 TIGR02442 Cob-chelat-sub cobal 75.6 6.8 0.00015 37.8 6.0 55 26-80 249-310 (633)
83 PRK13765 ATP-dependent proteas 75.5 9.1 0.0002 37.5 6.8 50 23-72 336-398 (637)
84 PF13335 Mg_chelatase_2: Magne 74.5 16 0.00034 27.1 6.5 49 26-74 42-96 (96)
85 TIGR02031 BchD-ChlD magnesium 74.5 6.8 0.00015 37.6 5.6 55 26-80 203-264 (589)
86 CHL00081 chlI Mg-protoporyphyr 73.4 20 0.00044 32.5 8.2 55 26-80 267-328 (350)
87 TIGR03420 DnaA_homol_Hda DnaA 71.2 24 0.00051 28.2 7.3 59 11-71 164-225 (226)
88 PRK08691 DNA polymerase III su 71.1 16 0.00035 36.4 7.4 55 12-71 184-241 (709)
89 PRK06645 DNA polymerase III su 70.4 13 0.00029 35.3 6.5 59 12-71 193-253 (507)
90 PRK14955 DNA polymerase III su 70.2 13 0.00029 33.5 6.2 58 13-71 193-254 (397)
91 PRK00149 dnaA chromosomal repl 69.7 40 0.00087 30.8 9.3 63 9-73 279-348 (450)
92 PRK04195 replication factor C 68.6 14 0.0003 34.2 6.1 57 12-71 166-222 (482)
93 PRK14964 DNA polymerase III su 68.6 14 0.00031 35.0 6.3 54 12-70 181-237 (491)
94 PRK14958 DNA polymerase III su 67.1 21 0.00046 33.8 7.1 54 12-70 184-240 (509)
95 PRK13406 bchD magnesium chelat 66.9 16 0.00034 35.5 6.2 54 26-79 195-255 (584)
96 PRK14971 DNA polymerase III su 66.5 17 0.00037 35.3 6.4 56 13-70 187-242 (614)
97 PF09415 CENP-X: CENP-S associ 66.1 22 0.00048 25.4 5.4 56 14-69 4-63 (72)
98 PRK09862 putative ATP-dependen 65.6 21 0.00045 34.1 6.8 35 40-74 458-492 (506)
99 PRK14957 DNA polymerase III su 65.0 19 0.00041 34.7 6.3 53 13-70 185-240 (546)
100 COG5248 TAF19 Transcription in 64.4 24 0.00052 27.9 5.7 43 29-73 30-72 (126)
101 PRK14961 DNA polymerase III su 64.2 23 0.0005 31.5 6.5 55 13-72 185-242 (363)
102 TIGR00362 DnaA chromosomal rep 63.4 93 0.002 27.9 10.2 99 9-108 267-401 (405)
103 PRK14962 DNA polymerase III su 63.0 25 0.00055 33.0 6.7 57 12-73 182-241 (472)
104 PRK14954 DNA polymerase III su 62.3 25 0.00054 34.3 6.7 58 13-71 193-254 (620)
105 PRK08903 DnaA regulatory inact 61.3 59 0.0013 26.3 7.9 60 11-72 162-224 (227)
106 PRK13407 bchI magnesium chelat 61.0 47 0.001 29.9 7.8 55 26-80 251-312 (334)
107 PRK14953 DNA polymerase III su 59.8 28 0.00061 32.8 6.4 54 13-71 185-241 (486)
108 KOG3901 Transcription initiati 58.7 34 0.00074 26.7 5.6 42 29-73 30-71 (109)
109 KOG0871 Class 2 transcription 58.0 54 0.0012 27.0 7.0 70 5-77 10-81 (156)
110 PRK14959 DNA polymerase III su 57.1 33 0.00071 33.8 6.6 53 14-71 186-241 (624)
111 PRK07764 DNA polymerase III su 56.8 31 0.00068 34.8 6.5 55 13-68 186-240 (824)
112 PRK14950 DNA polymerase III su 56.5 32 0.0007 32.9 6.4 56 13-70 186-241 (585)
113 COG1474 CDC6 Cdc6-related prot 56.4 74 0.0016 28.9 8.4 67 7-73 187-264 (366)
114 PRK14960 DNA polymerase III su 56.2 41 0.00088 33.7 7.0 53 12-69 183-238 (702)
115 COG1224 TIP49 DNA helicase TIP 56.1 32 0.00068 32.6 6.0 67 9-76 360-434 (450)
116 PRK05563 DNA polymerase III su 55.6 45 0.00098 31.9 7.1 54 12-70 184-240 (559)
117 PRK14969 DNA polymerase III su 54.8 37 0.0008 32.2 6.4 54 13-71 185-241 (527)
118 PRK09087 hypothetical protein; 54.7 99 0.0022 25.8 8.4 58 14-73 161-221 (226)
119 PRK14952 DNA polymerase III su 53.9 36 0.00078 33.0 6.2 53 13-69 184-239 (584)
120 PRK08451 DNA polymerase III su 53.6 48 0.001 32.0 6.9 53 12-69 182-237 (535)
121 PF07704 PSK_trans_fac: Rv0623 53.5 41 0.00088 24.3 5.1 54 48-103 12-65 (82)
122 smart00350 MCM minichromosome 53.3 22 0.00049 33.3 4.6 30 44-73 474-503 (509)
123 PRK06305 DNA polymerase III su 52.0 46 0.00099 31.0 6.4 52 13-69 187-241 (451)
124 PF02847 MA3: MA3 domain; Int 51.6 88 0.0019 22.5 6.8 66 11-76 17-83 (113)
125 PRK14963 DNA polymerase III su 50.1 47 0.001 31.5 6.3 55 13-70 182-236 (504)
126 PRK08727 hypothetical protein; 49.8 70 0.0015 26.6 6.7 62 9-72 161-229 (233)
127 PRK05896 DNA polymerase III su 49.7 52 0.0011 32.3 6.6 55 13-69 185-239 (605)
128 PRK06647 DNA polymerase III su 48.9 53 0.0011 31.6 6.5 54 13-71 185-241 (563)
129 KOG1942 DNA helicase, TBP-inte 48.3 47 0.001 31.0 5.7 56 20-76 381-440 (456)
130 PRK14951 DNA polymerase III su 46.9 57 0.0012 32.0 6.4 54 12-70 189-245 (618)
131 PLN03025 replication factor C 45.8 59 0.0013 28.2 5.8 55 12-69 164-218 (319)
132 PRK14956 DNA polymerase III su 45.8 1.7E+02 0.0036 28.1 9.2 54 12-70 186-242 (484)
133 PRK14086 dnaA chromosomal repl 45.0 1.1E+02 0.0024 30.2 8.0 99 9-108 445-580 (617)
134 PF09077 Phage-MuB_C: Mu B tra 44.3 10 0.00022 27.7 0.7 55 15-72 17-76 (78)
135 TIGR00153 conserved hypothetic 43.3 38 0.00083 27.9 4.1 36 63-98 58-93 (216)
136 PRK14087 dnaA chromosomal repl 42.7 2.5E+02 0.0054 26.1 9.7 94 15-108 284-412 (450)
137 PRK14965 DNA polymerase III su 42.6 68 0.0015 30.8 6.2 53 13-70 185-240 (576)
138 COG5208 HAP5 CCAAT-binding fac 42.6 45 0.00098 29.4 4.5 72 14-93 114-186 (286)
139 KOG1659 Class 2 transcription 41.8 83 0.0018 27.4 5.9 69 15-91 19-88 (224)
140 PTZ00361 26 proteosome regulat 41.7 79 0.0017 29.6 6.3 38 37-74 387-424 (438)
141 PRK06130 3-hydroxybutyryl-CoA 41.4 1E+02 0.0022 26.3 6.6 69 5-79 154-224 (311)
142 TIGR01446 DnaD_dom DnaD and ph 41.3 84 0.0018 21.2 5.0 28 9-39 15-42 (73)
143 PF04719 TAFII28: hTAFII28-lik 39.5 1.6E+02 0.0035 22.0 7.4 59 14-72 28-88 (90)
144 TIGR01242 26Sp45 26S proteasom 39.4 1E+02 0.0022 27.3 6.4 33 41-73 330-362 (364)
145 PRK06893 DNA replication initi 39.0 1.7E+02 0.0037 24.1 7.4 61 9-71 160-227 (229)
146 COG1378 Predicted transcriptio 38.2 25 0.00055 30.3 2.3 37 14-50 4-40 (247)
147 TIGR02639 ClpA ATP-dependent C 37.9 1E+02 0.0022 30.4 6.6 54 22-76 365-431 (731)
148 TIGR02903 spore_lon_C ATP-depe 36.3 85 0.0018 30.4 5.8 60 13-73 360-429 (615)
149 COG5247 BUR6 Class 2 transcrip 35.7 2.1E+02 0.0047 22.3 7.2 58 37-102 52-109 (113)
150 PRK15485 cobalt transport prot 35.4 1.4E+02 0.0029 25.0 6.2 34 15-52 138-171 (225)
151 PF09123 DUF1931: Domain of un 34.0 15 0.00032 29.7 0.2 53 16-69 2-55 (138)
152 PRK03992 proteasome-activating 33.8 1.3E+02 0.0029 27.1 6.3 37 38-74 336-372 (389)
153 PRK14700 recombination factor 33.4 1.7E+02 0.0037 26.4 6.8 63 13-75 46-116 (300)
154 KOG1657 CCAAT-binding factor, 33.3 74 0.0016 27.6 4.4 66 15-80 80-146 (236)
155 PF13702 Lysozyme_like: Lysozy 33.2 1.8E+02 0.004 23.9 6.5 33 41-81 65-97 (160)
156 PRK06620 hypothetical protein; 32.6 2.6E+02 0.0056 23.1 7.5 56 14-71 155-213 (214)
157 COG0593 DnaA ATPase involved i 32.5 92 0.002 29.2 5.2 99 8-108 242-376 (408)
158 PRK13531 regulatory ATPase Rav 32.2 2.5E+02 0.0054 27.1 8.0 48 26-73 223-283 (498)
159 PRK07133 DNA polymerase III su 32.0 1.3E+02 0.0028 30.3 6.4 52 14-70 185-239 (725)
160 PF13852 DUF4197: Protein of u 31.7 1.1E+02 0.0023 25.9 5.0 46 7-52 43-91 (202)
161 TIGR00368 Mg chelatase-related 31.2 70 0.0015 30.4 4.2 35 40-74 465-499 (499)
162 COG1460 Uncharacterized protei 29.8 96 0.0021 24.4 4.1 37 7-44 77-113 (114)
163 PF08369 PCP_red: Proto-chloro 29.8 85 0.0018 20.3 3.3 26 45-70 18-44 (45)
164 KOG0960 Mitochondrial processi 28.7 5.3E+02 0.012 24.8 10.8 125 4-131 122-269 (467)
165 TIGR00277 HDIG uncharacterized 28.5 1.5E+02 0.0033 19.1 4.5 33 38-73 4-36 (80)
166 TIGR01241 FtsH_fam ATP-depende 28.0 1.7E+02 0.0038 27.1 6.2 37 39-75 260-296 (495)
167 PRK07003 DNA polymerase III su 27.9 2.3E+02 0.0051 29.1 7.4 53 13-70 185-240 (830)
168 cd08054 gp6 Head-Tail Connecto 27.7 1.8E+02 0.0039 19.9 4.9 63 18-82 5-68 (91)
169 PF07766 LETM1: LETM1-like pro 27.4 4.1E+02 0.0088 23.0 8.0 71 14-89 175-245 (268)
170 PF10431 ClpB_D2-small: C-term 27.4 2.1E+02 0.0045 19.6 5.8 25 16-40 18-43 (81)
171 cd05831 Ribosomal_P1 Ribosomal 25.9 1.4E+02 0.003 22.6 4.3 32 7-39 15-46 (103)
172 PLN00138 large subunit ribosom 25.7 1.4E+02 0.0029 23.2 4.3 31 8-39 16-46 (113)
173 PF03874 RNA_pol_Rpb4: RNA pol 24.7 96 0.0021 22.9 3.2 34 8-42 83-116 (117)
174 PRK07994 DNA polymerase III su 24.4 2.7E+02 0.0059 27.6 7.1 51 14-69 186-239 (647)
175 PRK13610 photosystem II reacti 24.2 86 0.0019 24.6 2.9 20 28-47 92-111 (113)
176 KOG1757 Histone 2A [Chromatin 24.1 81 0.0017 25.1 2.8 61 13-73 34-96 (131)
177 KOG3902 Histone acetyltransfer 24.0 4.9E+02 0.011 24.1 8.0 62 11-72 27-88 (352)
178 PRK08084 DNA replication initi 23.5 3.8E+02 0.0083 22.2 7.0 48 22-71 183-233 (235)
179 PTZ00112 origin recognition co 23.3 4.5E+02 0.0097 28.1 8.5 63 8-73 934-1005(1164)
180 cd05833 Ribosomal_P2 Ribosomal 23.0 1.7E+02 0.0037 22.4 4.3 30 9-39 17-46 (109)
181 PF10930 DUF2737: Protein of u 22.7 94 0.002 21.4 2.5 23 75-101 17-39 (54)
182 PF15337 Vasculin: Vascular pr 22.6 46 0.00099 25.5 1.1 23 8-30 5-27 (97)
183 CHL00176 ftsH cell division pr 22.5 2.8E+02 0.0061 27.2 6.7 37 38-74 387-423 (638)
184 PF01406 tRNA-synt_1e: tRNA sy 22.3 2.1E+02 0.0045 25.8 5.3 63 13-75 34-115 (300)
185 PF09597 IGR: IGR protein moti 22.1 1.2E+02 0.0026 20.9 3.0 24 17-43 32-55 (57)
186 PRK06129 3-hydroxyacyl-CoA deh 22.1 3.7E+02 0.008 23.1 6.8 68 5-78 157-226 (308)
187 PF03931 Skp1_POZ: Skp1 family 22.0 2E+02 0.0044 19.1 4.2 31 13-43 24-61 (62)
188 cd04411 Ribosomal_P1_P2_L12p R 21.4 1.3E+02 0.0027 23.0 3.3 29 10-39 17-45 (105)
189 PF00493 MCM: MCM2/3/5 family 21.3 45 0.00097 29.5 1.0 30 44-73 296-325 (331)
190 smart00544 MA3 Domain in DAP-5 20.6 3.3E+02 0.0072 19.5 7.0 67 10-76 16-83 (113)
191 KOG3219 Transcription initiati 20.4 1.9E+02 0.0042 24.7 4.5 59 14-73 117-177 (195)
No 1
>KOG3334 consensus Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=100.00 E-value=6.1e-54 Score=341.04 Aligned_cols=135 Identities=54% Similarity=0.934 Sum_probs=128.2
Q ss_pred CCCCC----CCCChhHHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030548 1 MAEGD----EDLPRDAKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVN 76 (175)
Q Consensus 1 m~~~~----~~~PrDa~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 76 (175)
|++|+ +..||||++|+.||+++||++|||+|++|||||+||||+.||+||+.||+||+|.+|+++||||||+++++
T Consensus 1 m~sg~~~~~~~~pkDa~~i~~iL~s~GI~eyEprVi~qlLefa~rYtt~vL~DA~vys~HA~ka~i~~eDVrlA~~~~~~ 80 (148)
T KOG3334|consen 1 MSSGEKSGTKGVPKDARVIASILKSLGIQEYEPRVINQLLEFAYRYTTTVLDDAKVYSSHAKKATIDAEDVRLAIQMRVD 80 (148)
T ss_pred CCCcccCcccCCcHHHHHHHHHHHHcCccccChHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHhc
Confidence 56666 89999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCCCCcHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCcCCCceee-cCCccchhh
Q 030548 77 SSFSQPPAREVLLELAKNRNKIPLPKSIAGRGIPLPPEQDTLISPNYQLS-IEKKESAQA 135 (175)
Q Consensus 77 ~~f~~pppre~LlelA~e~N~~PLP~i~~~~GirLPper~cLt~~Ny~l~-~~k~~~~~~ 135 (175)
++|++|||||+|+++|.+||++|||.+..+||+||||++||||++||.++ .+|+...+.
T Consensus 81 ~sf~~pPpRe~lL~lA~~rN~~pLp~i~~~~g~rLPpdryclt~~n~~l~~~~kk~~~~~ 140 (148)
T KOG3334|consen 81 HSFTPPPPREFLLELAAERNSKPLPQIRAGPGLRLPPDRYCLTQPNYVLKNLQKKEMQQA 140 (148)
T ss_pred cccCCCCchHHHHHHHHhhccCCCCcccCCCCccCChhHHHhcCccceeecccccccccC
Confidence 99999999999999999999999999999999999999999999999999 555554444
No 2
>PF02291 TFIID-31kDa: Transcription initiation factor IID, 31kD subunit; InterPro: IPR003162 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription []. TAFII-31 protein is a transcriptional coactivator of the p53 protein [].; GO: 0006352 transcription initiation, DNA-dependent; PDB: 1TAF_A.
Probab=100.00 E-value=9.3e-55 Score=341.13 Aligned_cols=124 Identities=58% Similarity=0.986 Sum_probs=59.0
Q ss_pred CCCCCCChhHHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccCCC
Q 030548 3 EGDEDLPRDAKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFSQP 82 (175)
Q Consensus 3 ~~~~~~PrDa~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f~~p 82 (175)
++.+.+||||++|+.||++|||++|||+|++|||||+|||+++||.||+.||+||||++|+.+||||||++|++++|++|
T Consensus 6 ~~~~~~PrDa~~i~~iL~~~Gv~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~~~DVrLAi~~r~~~~f~~p 85 (129)
T PF02291_consen 6 SQSKSLPRDARVIHLILKSMGVTEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTIDADDVRLAIQSRLDHSFTQP 85 (129)
T ss_dssp -------HHHHHHHHHHHHTT---B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHHHHT--------
T ss_pred CCCccCChHHHHHHHHHHHcCCcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHhhhccCC
Confidence 34568999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCcCCCceee
Q 030548 83 PAREVLLELAKNRNKIPLPKSIAGRGIPLPPEQDTLISPNYQLS 126 (175)
Q Consensus 83 ppre~LlelA~e~N~~PLP~i~~~~GirLPper~cLt~~Ny~l~ 126 (175)
||||+|+++|+++|++|||.|+.+||+|||||+||||++||+||
T Consensus 86 ppre~llelA~e~N~~PLP~i~~~~GirLPpe~~cLt~~Ny~lk 129 (129)
T PF02291_consen 86 PPREFLLELAREKNSIPLPPIPPKFGIRLPPERYCLTAPNYQLK 129 (129)
T ss_dssp --------------------------------------------
T ss_pred CChHHHHHHHHHhcCCCCCCCCCCCCCCCCchhccccCCCCcCC
Confidence 99999999999999999999999999999999999999999986
No 3
>cd07979 TAF9 TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. The TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAFs orthologs and paralogs. Human TAF9 has a paralogue gene (TAF9L) whi
Probab=100.00 E-value=2.9e-49 Score=304.61 Aligned_cols=117 Identities=60% Similarity=1.027 Sum_probs=116.0
Q ss_pred ChhHHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccCCCCcHHHH
Q 030548 9 PRDAKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFSQPPAREVL 88 (175)
Q Consensus 9 PrDa~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f~~pppre~L 88 (175)
|||+++|++||+++||++|||+|+++|+||+|||+.+||+||..||+||||++|+++||+|||++|++++|++|||||+|
T Consensus 1 p~d~~~v~~iLk~~Gv~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~r~~~~f~~~p~~~~l 80 (117)
T cd07979 1 PRDARVIAAILKSMGITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQSRVDYSFTSPPPRDFL 80 (117)
T ss_pred ChHHHHHHHHHHHCCCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhccCCCCCCcHHHH
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhcCCCCCCCCCCCCCCCCCCCCCCcCCCcee
Q 030548 89 LELAKNRNKIPLPKSIAGRGIPLPPEQDTLISPNYQL 125 (175)
Q Consensus 89 lelA~e~N~~PLP~i~~~~GirLPper~cLt~~Ny~l 125 (175)
+++|+++|++|||+++.++|+|||||++|||++||++
T Consensus 81 ~~~a~~~N~~pLP~~~~~~g~~LPp~~~~l~~~n~~~ 117 (117)
T cd07979 81 LELAREKNSIPLPPIPPSCGLRLPPERYCLTAPNYRL 117 (117)
T ss_pred HHHHHHhccCCCCCCCCCCCccCCCHHHcccccCccC
Confidence 9999999999999999999999999999999999985
No 4
>COG5094 TAF9 Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=100.00 E-value=3.8e-46 Score=291.83 Aligned_cols=126 Identities=44% Similarity=0.783 Sum_probs=120.3
Q ss_pred CCCCC-CCC----ChhHHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCC---CCCHHHHHHHHH
Q 030548 1 MAEGD-EDL----PRDAKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKN---TIDCDDVKLAVQ 72 (175)
Q Consensus 1 m~~~~-~~~----PrDa~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~---tI~~eDVrLAI~ 72 (175)
|++|+ +.- |||+|+|+.||+|+||++||+.|+.||||||||||.+||+||++||+|+||. +|.++|||||++
T Consensus 1 M~sggln~~sv~gPrDvrlihliL~Slgi~~ye~~VplQLl~FAhRYTq~vl~Dalvya~htgrg~~a~l~veDvrLA~a 80 (145)
T COG5094 1 MASGGLNLASVSGPRDVRLIHLILRSLGIEEYEPKVPLQLLEFAHRYTQDVLEDALVYAKHTGRGHIATLGVEDVRLALA 80 (145)
T ss_pred CCCCccccccccCCcchhHHHHHHHhcCchhhCccchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCcccHHHHHHHHH
Confidence 77776 444 9999999999999999999999999999999999999999999999999996 566799999999
Q ss_pred HhhccccCCCCcHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCcCCCceee
Q 030548 73 SKVNSSFSQPPAREVLLELAKNRNKIPLPKSIAGRGIPLPPEQDTLISPNYQLS 126 (175)
Q Consensus 73 ~r~~~~f~~pppre~LlelA~e~N~~PLP~i~~~~GirLPper~cLt~~Ny~l~ 126 (175)
+|++++|.+|||||+|+++|.++|+.|||.+...||+||||++||||++||.+.
T Consensus 81 t~v~~~F~pppPke~llela~erN~KpLpq~~g~~g~RlPPekycLt~~~w~v~ 134 (145)
T COG5094 81 TKVGRHFVPPPPKEYLLELATERNSKPLPQPDGENGIRLPPEKYCLTNLDWEVL 134 (145)
T ss_pred HHhcCCcCCCChHHHHHHHHHHhcCCCCCccCCccceecCcHHhhhcccchhhh
Confidence 999999999999999999999999999999999999999999999999999995
No 5
>PLN00035 histone H4; Provisional
Probab=99.27 E-value=2.2e-11 Score=92.96 Aligned_cols=62 Identities=23% Similarity=0.350 Sum_probs=59.6
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhh
Q 030548 14 IVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 75 (175)
Q Consensus 14 ~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 75 (175)
.|.+|++..||.+++.++...|.+.+..|..+|+.||..||+||+|+||+++||.+|++..-
T Consensus 34 ~IrRLARr~GvkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~Alkr~g 95 (103)
T PLN00035 34 AIRRLARRGGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQG 95 (103)
T ss_pred HHHHHHHHcCcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHcC
Confidence 68999999999999999999999999999999999999999999999999999999998743
No 6
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=99.27 E-value=1.3e-11 Score=92.28 Aligned_cols=63 Identities=27% Similarity=0.443 Sum_probs=60.2
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030548 14 IVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVN 76 (175)
Q Consensus 14 ~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 76 (175)
-|.+|+++.|.++++..++..|-+.+++|+.+|.++|..||.||||+||+.+||+||++.+.-
T Consensus 24 pv~Ri~r~~~~~Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~~~~~ 86 (91)
T COG2036 24 PVRRILRKAGAERVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALKRLGR 86 (91)
T ss_pred HHHHHHHHHhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHHHhcc
Confidence 589999999999999999999999999999999999999999999999999999999988543
No 7
>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=99.25 E-value=2.4e-11 Score=85.30 Aligned_cols=59 Identities=15% Similarity=0.313 Sum_probs=57.1
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHH
Q 030548 14 IVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQ 72 (175)
Q Consensus 14 ~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 72 (175)
.|.+|.++.||++.++++...|.+.++.+..+|+++|..|++||+|+|++.+||.+|++
T Consensus 7 ~i~ria~~~Gi~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk 65 (65)
T smart00803 7 TIKDVAESLGIGNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR 65 (65)
T ss_pred HHHHHHHHCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence 68999999999999999999999999999999999999999999999999999999973
No 8
>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=99.25 E-value=3.2e-11 Score=89.08 Aligned_cols=62 Identities=27% Similarity=0.419 Sum_probs=59.7
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhh
Q 030548 14 IVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 75 (175)
Q Consensus 14 ~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 75 (175)
.|.+|++..|+.+++.++...+.+.+..|..+|+.||..||+||||+||+++||.+|++..-
T Consensus 18 ~I~RLarr~GvkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr~g 79 (85)
T cd00076 18 AIRRLARRGGVKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKRQG 79 (85)
T ss_pred HHHHHHHHcCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHCC
Confidence 79999999999999999999999999999999999999999999999999999999998743
No 9
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=99.24 E-value=5.4e-11 Score=85.12 Aligned_cols=61 Identities=23% Similarity=0.453 Sum_probs=58.8
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
+.|.+||+..|.+.+++.++..|.|.+++|..++++.+..||+||||++++..||++|.+.
T Consensus 10 ~~Vaqil~~~Gf~~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~ 70 (77)
T smart00576 10 IAVAQILESAGFDSFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALEN 70 (77)
T ss_pred HHHHHHHHHcCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 4689999999999999999999999999999999999999999999999999999999865
No 10
>PTZ00015 histone H4; Provisional
Probab=99.24 E-value=3.9e-11 Score=91.41 Aligned_cols=66 Identities=18% Similarity=0.354 Sum_probs=61.7
Q ss_pred CCChhHHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHh
Q 030548 7 DLPRDAKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSK 74 (175)
Q Consensus 7 ~~PrDa~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r 74 (175)
.+|+ -.|.+|++..||.+++.++...|.+.+..|..+|+.||..||+||+|+||+++||.+|++..
T Consensus 30 gI~k--~~IrRLarr~GvkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~AlKr~ 95 (102)
T PTZ00015 30 GITK--GAIRRLARRGGVKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVYALKRQ 95 (102)
T ss_pred CCCH--HHHHHHHHHcCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHhc
Confidence 3554 47999999999999999999999999999999999999999999999999999999999764
No 11
>smart00417 H4 Histone H4.
Probab=99.15 E-value=7.3e-11 Score=85.26 Aligned_cols=58 Identities=24% Similarity=0.380 Sum_probs=55.4
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHH
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLA 70 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLA 70 (175)
-.|.+|++..|+.+++..+...|.+++..|..+|+.||..|++||||+||+++||..|
T Consensus 17 ~~IrRLaRr~GvkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~~a 74 (74)
T smart00417 17 PAIRRLARRGGVKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVVYA 74 (74)
T ss_pred HHHHHHHHHcCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHheeC
Confidence 3799999999999999999999999999999999999999999999999999999754
No 12
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=99.06 E-value=1.6e-10 Score=83.69 Aligned_cols=57 Identities=33% Similarity=0.627 Sum_probs=47.0
Q ss_pred HHHHHHhC----CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHH
Q 030548 15 VKSLLKSM----GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQ 72 (175)
Q Consensus 15 I~~ILks~----Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 72 (175)
|.+|..+. |+ .+++.++..|.|++|+|+..+..|...||+||||++|+.+||+|..+
T Consensus 11 v~ki~ee~~~~~~~-~~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~~dDV~Ll~R 71 (76)
T PF15630_consen 11 VGKIVEEEAKEKGV-EVSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTINMDDVKLLAR 71 (76)
T ss_dssp HHHHHHHCCCCTTS-EE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHTT
T ss_pred HHHHHHHHHhccCC-ccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHHHhh
Confidence 44455544 54 59999999999999999999999999999999999999999999764
No 13
>cd07981 TAF12 TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of the seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs function such as serving as activator-bind
Probab=98.99 E-value=4e-09 Score=74.96 Aligned_cols=64 Identities=30% Similarity=0.434 Sum_probs=56.2
Q ss_pred HHHHHHHhC-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhcc
Q 030548 14 IVKSLLKSM-GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNS 77 (175)
Q Consensus 14 ~I~~ILks~-Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~ 77 (175)
-+..+++.. +-++++++|...|++++..|+.+|+++|..+|.|+||+||+.+||+||++..-+.
T Consensus 6 ~l~~lv~~id~~~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r~~~~ 70 (72)
T cd07981 6 KLQELLKEIDPREQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLERNWNI 70 (72)
T ss_pred HHHHHHHhhCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhcCC
Confidence 345666666 4478999999999999999999999999999999999999999999999875543
No 14
>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=98.83 E-value=2.8e-08 Score=70.60 Aligned_cols=61 Identities=26% Similarity=0.512 Sum_probs=58.8
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
++|..||+..|-+..++.+++.|.|.+.+|..++...+..||+|+||...+..||.+|.+.
T Consensus 10 ~~va~il~~~GF~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~~ 70 (77)
T PF07524_consen 10 RSVAQILKHAGFDSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQALEE 70 (77)
T ss_pred HHHHHHHHHcCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 5789999999999999999999999999999999999999999999999999999999865
No 15
>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=98.82 E-value=2.3e-08 Score=88.94 Aligned_cols=96 Identities=19% Similarity=0.306 Sum_probs=77.7
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc---cccCCCCc-----
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVN---SSFSQPPA----- 84 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~---~~f~~ppp----- 84 (175)
..|..|+++.||++.++++...|.+-++.++.+|+++|..|++|++|++++.+||.+|++++-. +-|....+
T Consensus 3 ~~i~~ia~~~Gi~~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~~~n~eplyG~~~~~~~~~~~ 82 (343)
T cd08050 3 ESIKLIAESLGIDSLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALRLRNVEPLYGFSSSEPLPFRV 82 (343)
T ss_pred hHHHHHHHHcCCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHHhCCCcccCCCCCcccccee
Confidence 3688999999999999999999999999999999999999999999999999999999999543 22322111
Q ss_pred -----------HHHHHHHHHhhcCCCCCCCCCCCCC
Q 030548 85 -----------REVLLELAKNRNKIPLPKSIAGRGI 109 (175)
Q Consensus 85 -----------re~LlelA~e~N~~PLP~i~~~~Gi 109 (175)
.|.-+++.+-.| .|||+++...++
T Consensus 83 ~~~~~~~l~~~~D~eidl~~~i~-~~lp~~p~~~~~ 117 (343)
T cd08050 83 STGGGQELYYVEDKEIDLKDLIN-TPLPKVPLDVSV 117 (343)
T ss_pred ccCCCceEeeCCCCcccHHHhhh-cccCCCCCcccc
Confidence 123456667777 788888876443
No 16
>PF00125 Histone: Core histone H2A/H2B/H3/H4 histone h2a signature histone h2b signature histone h3 signature histone h4 signature; InterPro: IPR007125 The core histones together with some other DNA binding proteins appear to form a superfamily defined by a common fold and distant sequence similarities [, ]. Some proteins contain local homology domains related to the histone fold [].; GO: 0003677 DNA binding; PDB: 2YFW_D 2YFV_B 1U35_H 2F8N_D 2PYO_D 2NQB_D 3AN2_C 3AZJ_C 3AV1_G 3AZM_G ....
Probab=98.57 E-value=3e-07 Score=64.15 Aligned_cols=61 Identities=18% Similarity=0.314 Sum_probs=53.0
Q ss_pred HHHHHHHHhCCCc-ccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 13 KIVKSLLKSMGVE-DYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 13 ~~I~~ILks~Gv~-~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
+++..|-...+.. +++..++..|-.+++.|+.+|+++|..+|.|++|+||+..||++|++.
T Consensus 13 r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r~ 74 (75)
T PF00125_consen 13 RLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLAVRI 74 (75)
T ss_dssp HHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHHH
T ss_pred eeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHHHhc
Confidence 3444444544543 999999999999999999999999999999999999999999999875
No 17
>smart00428 H3 Histone H3.
Probab=98.44 E-value=1.4e-06 Score=66.77 Aligned_cols=64 Identities=20% Similarity=0.310 Sum_probs=57.9
Q ss_pred HHHHHHHHHhCC---CcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhh
Q 030548 12 AKIVKSLLKSMG---VEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 75 (175)
Q Consensus 12 a~~I~~ILks~G---v~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 75 (175)
.++|..|..+.. --+|++.++..|-|.++.|..++++||...|.||+|.||...||+||...|.
T Consensus 36 ~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi~La~rir~ 102 (105)
T smart00428 36 QRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQLARRIRG 102 (105)
T ss_pred HHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhHHHHHHHhc
Confidence 578888888874 2389999999999999999999999999999999999999999999987654
No 18
>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=98.29 E-value=5.4e-06 Score=58.75 Aligned_cols=60 Identities=17% Similarity=0.336 Sum_probs=50.8
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHH
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQ 72 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 72 (175)
..|..+-.++||...++++...|.+-+.--..+|+++|..|..|+.|+.++.+||..|++
T Consensus 7 esvk~iAes~Gi~~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di~~ALr 66 (66)
T PF02969_consen 7 ESVKDIAESLGISNLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLTTDDINSALR 66 (66)
T ss_dssp HHHHHHHHHTT---B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHH-
T ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHhC
Confidence 478899999999999999999999999999999999999999999999999999999974
No 19
>cd00074 H2A Histone 2A; H2A is a subunit of the nucleosome. The nucleosome is an octamer containing two H2A, H2B, H3, and H4 subunits. The H2A subunit performs essential roles in maintaining structural integrity of the nucleosome, chromatin condensation, and binding of specific chromatin-associated proteins.
Probab=98.25 E-value=3.1e-06 Score=65.73 Aligned_cols=62 Identities=18% Similarity=0.097 Sum_probs=58.5
Q ss_pred HHHHHHHHHh-CCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 12 AKIVKSLLKS-MGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 12 a~~I~~ILks-~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
+--|+++|++ .+..+++..+.-.|...++.++.+||+-|..+|.|+++++|+.+||.+||..
T Consensus 23 V~ri~R~Lk~~~~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi~n 85 (115)
T cd00074 23 VGRIHRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAVRN 85 (115)
T ss_pred HHHHHHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHHhc
Confidence 3458999998 6889999999999999999999999999999999999999999999999987
No 20
>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=98.09 E-value=1.8e-05 Score=54.38 Aligned_cols=59 Identities=20% Similarity=0.241 Sum_probs=53.7
Q ss_pred HHHHHHHHhC-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHH
Q 030548 13 KIVKSLLKSM-GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAV 71 (175)
Q Consensus 13 ~~I~~ILks~-Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI 71 (175)
-.|.+|+|.. |+..++.+++..+-..+..++..++.+|...|.+.||+||+.+||..|+
T Consensus 6 a~vkri~k~~~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~~rkti~~~Dv~~Av 65 (65)
T PF00808_consen 6 ARVKRIMKSDPDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTITYEDVAKAV 65 (65)
T ss_dssp HHHHHHHHHTSTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE-HHHHHHHH
T ss_pred HHHHHHhccCCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHC
Confidence 3588999999 8889999999999999999999999999999999999999999999885
No 21
>PTZ00018 histone H3; Provisional
Probab=97.78 E-value=0.00011 Score=58.78 Aligned_cols=65 Identities=18% Similarity=0.317 Sum_probs=57.4
Q ss_pred HHHHHHHHHhCCC-cccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030548 12 AKIVKSLLKSMGV-EDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVN 76 (175)
Q Consensus 12 a~~I~~ILks~Gv-~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 76 (175)
.++|..|..+.+- -+|...++..|=|-++.|...+++|+...|-||+|-||...||+||...|..
T Consensus 69 ~RLVREI~~~~~~~~rf~~~al~aLQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~rirg~ 134 (136)
T PTZ00018 69 QRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGE 134 (136)
T ss_pred HHHHHHHHHHcCCcceeeHHHHHHHHHHHHHHHHHHhhhhHHHHHhhcceecchhhHHHHHHhccc
Confidence 4678888877632 3899999999999999999999999999999999999999999999876643
No 22
>PLN00161 histone H3; Provisional
Probab=97.77 E-value=0.00014 Score=58.15 Aligned_cols=65 Identities=20% Similarity=0.262 Sum_probs=58.2
Q ss_pred HHHHHHHHHhCC--CcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030548 12 AKIVKSLLKSMG--VEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVN 76 (175)
Q Consensus 12 a~~I~~ILks~G--v~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 76 (175)
.++|..|..+.. --+|...++..|=|-++.|...+++||...|-||+|-||...||+||...|-.
T Consensus 62 ~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm~La~rirg~ 128 (135)
T PLN00161 62 ARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDMQLARRIRGP 128 (135)
T ss_pred HHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhHHHHHHhccc
Confidence 478888888763 25899999999999999999999999999999999999999999999877643
No 23
>PLN00160 histone H3; Provisional
Probab=97.77 E-value=0.00014 Score=55.15 Aligned_cols=64 Identities=20% Similarity=0.257 Sum_probs=57.2
Q ss_pred HHHHHHHHHhCC--CcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhh
Q 030548 12 AKIVKSLLKSMG--VEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 75 (175)
Q Consensus 12 a~~I~~ILks~G--v~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 75 (175)
.++|..|..+.. --+|...++..|=|-++.|...+++||...|-||+|-||...|++||...|.
T Consensus 28 ~RLVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~~L~~rirg 93 (97)
T PLN00160 28 ARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDMQLARRIRG 93 (97)
T ss_pred HHHHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhHHHHHHhhc
Confidence 477888887762 2489999999999999999999999999999999999999999999986654
No 24
>PLN00121 histone H3; Provisional
Probab=97.71 E-value=0.00016 Score=57.84 Aligned_cols=64 Identities=19% Similarity=0.317 Sum_probs=57.2
Q ss_pred HHHHHHHHHhCCC-cccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhh
Q 030548 12 AKIVKSLLKSMGV-EDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 75 (175)
Q Consensus 12 a~~I~~ILks~Gv-~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 75 (175)
.++|..|..+.+- -+|...++..|=|-++.|...+++|+...|-||+|-||...||+||...|.
T Consensus 69 ~RLVREI~~~~~~~~Rf~~~Al~ALQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~rirg 133 (136)
T PLN00121 69 QRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRG 133 (136)
T ss_pred HHHHHHHHHHhCccceeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcceecchhhHHHHHHhcc
Confidence 4778888877633 389999999999999999999999999999999999999999999986654
No 25
>KOG3467 consensus Histone H4 [Chromatin structure and dynamics]
Probab=97.63 E-value=0.00026 Score=53.41 Aligned_cols=60 Identities=23% Similarity=0.373 Sum_probs=55.6
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 14 IVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 14 ~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
.|.+|-+..||.++.--.-......+..|..+++.+|..|++||.|+||++.||--+++.
T Consensus 34 aIRRlARr~GVkRi~G~~yeE~~~~~k~fl~n~i~~A~~yt~HAKRKTvT~~dvv~~LKR 93 (103)
T KOG3467|consen 34 AIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKR 93 (103)
T ss_pred HHHHHHHhcCcchhchhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhceeeHHHHHHHHHH
Confidence 688999999999999888888888999999999999999999999999999999888764
No 26
>KOG4336 consensus TBP-associated transcription factor Prodos [Transcription]
Probab=97.56 E-value=0.00029 Score=62.92 Aligned_cols=62 Identities=27% Similarity=0.418 Sum_probs=59.7
Q ss_pred hHHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHH
Q 030548 11 DAKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQ 72 (175)
Q Consensus 11 Da~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 72 (175)
++.||..||++.|.+..+..+...|+++..-|..+|...+..|++||||...+..||.+..-
T Consensus 7 l~~VV~~Ll~~~gfd~is~~aletlvell~~yi~eigrq~~n~celagRT~pT~~Dv~l~Li 68 (323)
T KOG4336|consen 7 LAPVVSNLLKTKGFDSISNAALETLVELLQSYIREIGRQLHNYCELAGRTIPTQGDVKLTLI 68 (323)
T ss_pred HHHHHHHHHHHhCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHH
Confidence 67899999999999999999999999999999999999999999999999999999999874
No 27
>PF03847 TFIID_20kDa: Transcription initiation factor TFIID subunit A; InterPro: IPR003228 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription [].; GO: 0006352 transcription initiation, DNA-dependent, 0005669 transcription factor TFIID complex; PDB: 1H3O_B.
Probab=97.48 E-value=0.00069 Score=48.09 Aligned_cols=60 Identities=28% Similarity=0.416 Sum_probs=47.8
Q ss_pred HHHHHHHhCCC-cccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 14 IVKSLLKSMGV-EDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 14 ~I~~ILks~Gv-~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
-+..++++.+- ...+++|...|+++|..|+.+|+..|-.+|+|-|-.+|+..||++.++.
T Consensus 4 ~l~~Lv~~iDp~~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~tle~~Dv~~~Ler 64 (68)
T PF03847_consen 4 KLQELVKQIDPNEKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSSTLEVKDVQLHLER 64 (68)
T ss_dssp HHHHHHHCC-SS----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHHHH
T ss_pred HHHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHHh
Confidence 35566777633 4799999999999999999999999999999999999999999999875
No 28
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T.
Probab=97.47 E-value=0.00019 Score=65.71 Aligned_cols=42 Identities=21% Similarity=0.328 Sum_probs=36.8
Q ss_pred cccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHH
Q 030548 25 EDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDD 66 (175)
Q Consensus 25 ~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eD 66 (175)
..++.++...|..-...|-..+..|.-.||+|||||||+.+|
T Consensus 373 ~kiskdal~aleqasdwfFeQl~dDL~aYA~HAgRKTIdesD 414 (414)
T PF15511_consen 373 MKISKDALEALEQASDWFFEQLGDDLEAYAKHAGRKTIDESD 414 (414)
T ss_dssp S-B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHH
T ss_pred CccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCCCC
Confidence 589999999999999999999999999999999999999987
No 29
>KOG2389 consensus Predicted bromodomain transcription factor [Transcription]
Probab=97.21 E-value=0.0037 Score=56.72 Aligned_cols=63 Identities=21% Similarity=0.299 Sum_probs=59.5
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030548 14 IVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVN 76 (175)
Q Consensus 14 ~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 76 (175)
.|.+|..+.|...|..-+.+.|-+++.+|+.++.+.|-.|++||||...+..||.+|++.-..
T Consensus 34 avaQIcqslg~~~~~~sale~Ltd~~~qyvQ~lgk~a~~~~n~anR~epnl~Div~Al~dls~ 96 (353)
T KOG2389|consen 34 AVAQICQSLGYSSTQNSALETLTDVLQQYVQNLGKTAHRYSNLANRTEPNLFDIVLALQDLSA 96 (353)
T ss_pred HHHHHHHhcCCcccccHHHHHHHHHHHHHHHHHHhhhhhhhhhcCCCCccHHHHHHHHHHhhh
Confidence 578999999999999999999999999999999999999999999999999999999998443
No 30
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=97.03 E-value=0.0013 Score=57.50 Aligned_cols=67 Identities=16% Similarity=0.373 Sum_probs=57.5
Q ss_pred HHHHHHHHhC-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhcccc
Q 030548 13 KIVKSLLKSM-GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSF 79 (175)
Q Consensus 13 ~~I~~ILks~-Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f 79 (175)
+-|..+++.. |=+-.+++|...|+|+|..++.+|..-|-.+|+|-+.++|++-||+|.++...+..|
T Consensus 158 ~kl~dLvqqId~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhLEr~~Nm~i 225 (258)
T KOG1142|consen 158 RKLDDLVQQIDGTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHLERNFNMEI 225 (258)
T ss_pred cchhHHHHhhcCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeeeeccccccC
Confidence 3455555555 546789999999999999999999999999999999999999999999988776654
No 31
>PF13654 AAA_32: AAA domain; PDB: 3K1J_B.
Probab=96.39 E-value=0.013 Score=55.25 Aligned_cols=64 Identities=19% Similarity=0.471 Sum_probs=54.6
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHH-----------HHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhh
Q 030548 12 AKIVKSLLKSMGVEDYEPRVIHQFLELWYR-----------YVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 75 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfayr-----------Yt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 75 (175)
+++|..+.++.|.-.++..++..|++++-| ...++|.+|..+|...|++.|+.+||+.||+.|.
T Consensus 433 ~~~i~~~~~~~~L~~~~~~Av~~li~~~~R~~q~kLsl~~~~l~~ll~EA~~~A~~~~~~~I~~~~V~~Ai~~r~ 507 (509)
T PF13654_consen 433 ARFIASICQKEGLPPFDRSAVARLIEYSARLDQDKLSLRFSWLADLLREANYWARKEGAKVITAEHVEQAIEERR 507 (509)
T ss_dssp HHHHHHHHHHHSS--BBHHHHHHHHHHHHHCC-SEEE--HHHHHHHHHHHHHHHHHCT-SSB-HHHHHHHHHH--
T ss_pred HHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHhCCEeCCCHHHHHHHHHHHHHHHHHhCCCccCHHHHHHHHHccc
Confidence 678899999999999999999999999988 5789999999999999999999999999999875
No 32
>KOG3423 consensus Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=96.20 E-value=0.031 Score=46.43 Aligned_cols=66 Identities=23% Similarity=0.280 Sum_probs=55.9
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhC--------------CCCCCHHHHHHHHHHhhcccc
Q 030548 14 IVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAG--------------KNTIDCDDVKLAVQSKVNSSF 79 (175)
Q Consensus 14 ~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAg--------------R~tI~~eDVrLAI~~r~~~~f 79 (175)
++.-.|+..|++-.++||+..+-=.+..|+++|+.||..|++..+ |-|++.+|+.-|+.. .+.+.
T Consensus 91 vt~~yL~~aGf~~~D~rv~RLvsLaAQKfvSDIa~DA~Q~~k~r~~~~~~~~k~~~kdkK~tLtmeDL~~AL~E-yGinv 169 (176)
T KOG3423|consen 91 VTDHYLKKAGFQTSDPRVKRLVSLAAQKFVSDIANDALQHSKIRTKTAIGKDKKQAKDKKYTLTMEDLSPALAE-YGINV 169 (176)
T ss_pred HHHHHHHhcCCCcCcHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccccccccccceeeeHHHHHHHHHH-hCccc
Confidence 577889999999999999999999999999999999999998654 237899999999876 33443
Q ss_pred C
Q 030548 80 S 80 (175)
Q Consensus 80 ~ 80 (175)
.
T Consensus 170 ~ 170 (176)
T KOG3423|consen 170 K 170 (176)
T ss_pred C
Confidence 3
No 33
>KOG2549 consensus Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=96.08 E-value=0.024 Score=54.35 Aligned_cols=63 Identities=21% Similarity=0.310 Sum_probs=59.1
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHh
Q 030548 12 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSK 74 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r 74 (175)
...++-+.+++|++...+++...|-+-...-+.+|.+||..|-.|+.|.+.+.+||-.|++++
T Consensus 14 ~Es~k~vAEslGi~nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~ALr~~ 76 (576)
T KOG2549|consen 14 KESVKVVAESLGITNLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYALRSL 76 (576)
T ss_pred HHHHHHHHHHhCccccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHHHhhc
Confidence 457888999999999999999999988888899999999999999999999999999999985
No 34
>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=96.01 E-value=0.0091 Score=44.41 Aligned_cols=59 Identities=14% Similarity=0.389 Sum_probs=30.1
Q ss_pred HHHHHHhCCC-cccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 15 VKSLLKSMGV-EDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 15 I~~ILks~Gv-~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
|..+|-..|= .+=.++.+..+-|++..|+.+++..|..+|...|++.|+.+|+..+++.
T Consensus 7 I~~mMy~fGD~~~P~~eTv~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR~ 66 (93)
T PF02269_consen 7 IRQMMYGFGDVEEPLPETVDLVEDIVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLRK 66 (93)
T ss_dssp CHHHHHCTTS-SS--HHHHHHHHHHHHHHHHHHHHHHHC---------------------
T ss_pred HHHHHHHcCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHhc
Confidence 4456666664 4667889999999999999999999999999999999999999999875
No 35
>KOG1745 consensus Histones H3 and H4 [Chromatin structure and dynamics]
Probab=95.87 E-value=0.0069 Score=48.64 Aligned_cols=64 Identities=20% Similarity=0.303 Sum_probs=53.7
Q ss_pred HHHHHHHhCC-CcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhcc
Q 030548 14 IVKSLLKSMG-VEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNS 77 (175)
Q Consensus 14 ~I~~ILks~G-v~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~ 77 (175)
+|..|..+.- .-+|...++..|-|.++.|..++.+|+...|-||+|-||-..||+||.+.+..+
T Consensus 72 lvrei~q~f~~dLrfqs~Ai~ALQeA~EayLv~LfEdtnlcAihAkRVTimpkdiQlArrirg~~ 136 (137)
T KOG1745|consen 72 LVREIAQDFKTDLRFQSSAIAALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGER 136 (137)
T ss_pred HhHHHHhcccccceehHHHHHHHHHHHHHHHHHhccccchhhhccceeEecccceehhhhcccCC
Confidence 4444444431 127999999999999999999999999999999999999999999999887643
No 36
>smart00414 H2A Histone 2A.
Probab=95.77 E-value=0.031 Score=42.83 Aligned_cols=62 Identities=15% Similarity=0.104 Sum_probs=56.3
Q ss_pred HHHHHHHHHhCC-CcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 12 AKIVKSLLKSMG-VEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 12 a~~I~~ILks~G-v~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
+--|+++|++.. ..+++..++-.|.-.++-.+.+||+-|-.+|...+++.|+..+|.+||..
T Consensus 12 VgRi~r~Lk~~~~~~Rv~~~A~VyLaAvLEYLtaEILeLagn~a~~~k~~rItp~hi~lAi~n 74 (106)
T smart00414 12 VGRIHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIRN 74 (106)
T ss_pred hHHHHHHHHcCccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchHHHhhhccC
Confidence 446899999874 56999999999999999999999999999999999999999999999976
No 37
>PF03540 TFIID_30kDa: Transcription initiation factor TFIID 23-30kDa subunit; InterPro: IPR003923 Transcription initiation factor TFIID is a multimeric protein complex that plays a central role in mediating promoter responses to various activators and repressors. The complex includes TATA binding protein (TBP) and various TBP-associated factors (TAFS). TFIID a bona fide RNA polymerase II-specific TATA-binding protein-associated factor (TAF) and is essential for viability []. TFIID acts to nucleate the transcription complex, recruiting the rest of the factors through a direct interaction with TFIIB. The TBP subunit of TFIID is sufficient for TATA-element binding and TFIIB interaction, and can support basal transcription. The protein belongs to the TAF2H family.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus
Probab=95.55 E-value=0.069 Score=36.29 Aligned_cols=45 Identities=20% Similarity=0.334 Sum_probs=41.5
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHh
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHA 57 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HA 57 (175)
.++.-+|+..|.+--+++++..+-=.+.+++++|+.||..|++..
T Consensus 6 ~v~~~yL~~~G~~~~D~rv~RLvSLaaQKFisdI~~dA~q~~k~r 50 (51)
T PF03540_consen 6 EVTDYYLERSGFQTSDPRVKRLVSLAAQKFISDIANDAMQYCKIR 50 (51)
T ss_pred HHHHHHHHHCCCCCCCHhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 378899999999999999999999999999999999999999763
No 38
>PLN00154 histone H2A; Provisional
Probab=95.40 E-value=0.048 Score=43.80 Aligned_cols=62 Identities=15% Similarity=0.029 Sum_probs=57.0
Q ss_pred HHHHHHHHHhCC--CcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 12 AKIVKSLLKSMG--VEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 12 a~~I~~ILks~G--v~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
+--|+++|++-. ..+++..++-.|.-.++-.+.+||+-|-.+|...+++.|+...|.|||..
T Consensus 41 VgRi~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lAIrn 104 (136)
T PLN00154 41 VGRIHRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 104 (136)
T ss_pred hHHHHHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhhccC
Confidence 446899999965 57999999999999999999999999999999999999999999999976
No 39
>PTZ00017 histone H2A; Provisional
Probab=94.62 E-value=0.084 Score=42.29 Aligned_cols=62 Identities=16% Similarity=0.086 Sum_probs=55.7
Q ss_pred HHHHHHHHHhC-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 12 AKIVKSLLKSM-GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 12 a~~I~~ILks~-Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
+--|+++|++. -..+++..++-.|.-.++-.+.+||+-|-.+|...+++.|+..+|.+||..
T Consensus 30 VgRi~R~Lk~g~~a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~RItPrHi~lAI~n 92 (134)
T PTZ00017 30 VGRVHRYLKKGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLAIRN 92 (134)
T ss_pred hHHHHHHHhccchhccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHhhccC
Confidence 34588999875 346899999999999999999999999999999999999999999999976
No 40
>PTZ00463 histone H2B; Provisional
Probab=94.48 E-value=0.19 Score=39.53 Aligned_cols=62 Identities=10% Similarity=0.176 Sum_probs=52.1
Q ss_pred HHHHHHHhCCC-cccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhh
Q 030548 14 IVKSLLKSMGV-EDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 75 (175)
Q Consensus 14 ~I~~ILks~Gv-~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 75 (175)
-|.++||..-- ...+.++..-+--|++.....|..+|..+|...+|.||+..+|+.|+...+
T Consensus 33 YI~KVLKqVhPd~gIS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAvrLlL 95 (117)
T PTZ00463 33 YIFKVLKQVHPDTGISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAIRLVL 95 (117)
T ss_pred HHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHhhcc
Confidence 46666665411 134888999999999999999999999999999999999999999998865
No 41
>PLN00158 histone H2B; Provisional
Probab=94.36 E-value=0.22 Score=39.10 Aligned_cols=62 Identities=13% Similarity=0.162 Sum_probs=52.1
Q ss_pred HHHHHHHhCCC-cccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhh
Q 030548 14 IVKSLLKSMGV-EDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 75 (175)
Q Consensus 14 ~I~~ILks~Gv-~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 75 (175)
.|.++||..-- ...+..+..-+--|.+.....|..+|..+|...+|.||+..+|+.|+...+
T Consensus 32 YI~kVLKQVhPd~gIS~kaM~ImnSfvnDiferIA~EAs~La~~nkr~TltsrEIqtAvrLvL 94 (116)
T PLN00158 32 YIYKVLKQVHPDTGISSKAMSIMNSFINDIFEKIATEAGKLARYNKKPTVTSREIQTAVRLIL 94 (116)
T ss_pred HHHHHHHHhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHHhc
Confidence 46666665411 134888899999999999999999999999999999999999999998865
No 42
>smart00427 H2B Histone H2B.
Probab=94.14 E-value=0.41 Score=35.92 Aligned_cols=62 Identities=11% Similarity=0.160 Sum_probs=52.1
Q ss_pred HHHHHHHhCCC-cccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhh
Q 030548 14 IVKSLLKSMGV-EDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 75 (175)
Q Consensus 14 ~I~~ILks~Gv-~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 75 (175)
-|.++||...- ...+.++..-+--|+......|..+|..++...+|+||+..+|+.|++..+
T Consensus 6 Yi~kvLKqVhpd~giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~TltsreIqtAvrl~L 68 (89)
T smart00427 6 YIYKVLKQVHPDTGISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLSSREIQTAVRLIL 68 (89)
T ss_pred HHHHHHHHhCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHHHc
Confidence 45666665511 246788888899999999999999999999999999999999999998866
No 43
>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=94.04 E-value=0.45 Score=35.49 Aligned_cols=58 Identities=9% Similarity=0.327 Sum_probs=49.3
Q ss_pred HHHHHHhCCCc-ccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 15 VKSLLKSMGVE-DYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 15 I~~ILks~Gv~-~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
|..+|-..|=. .=.++.+..+=|....|+.+++..|...|. .++..|+.||+..+|+.
T Consensus 8 i~~mmy~~GD~~~P~~eTv~llE~iv~~~i~~l~~~a~~~A~-~r~~k~~~eD~~FliR~ 66 (92)
T cd07978 8 IRQMMYGFGDVQNPLPETVDLLEDIVVEYIIELCHKAAEVAQ-RRRGKVKVEDLIFLLRK 66 (92)
T ss_pred HHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHHHhc
Confidence 55666666643 457889999999999999999999999999 78888899999999964
No 44
>PLN00157 histone H2A; Provisional
Probab=93.52 E-value=0.17 Score=40.51 Aligned_cols=62 Identities=16% Similarity=0.060 Sum_probs=55.3
Q ss_pred HHHHHHHHHhC-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 12 AKIVKSLLKSM-GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 12 a~~I~~ILks~-Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
+--|+++|++. -..+++..++-.|.-.++-.+.+||+-|-..|...+++.|+...|.+||..
T Consensus 29 VgRi~R~Lk~g~~a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~n 91 (132)
T PLN00157 29 VGRIARYLKAGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRIVPRHIQLAVRN 91 (132)
T ss_pred hHHHHHHHhcCchhhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHhhcccC
Confidence 34688999884 346889999999999999999999999999999999999999999999976
No 45
>PLN00156 histone H2AX; Provisional
Probab=92.89 E-value=0.3 Score=39.44 Aligned_cols=62 Identities=19% Similarity=0.101 Sum_probs=55.6
Q ss_pred HHHHHHHHHhC-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 12 AKIVKSLLKSM-GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 12 a~~I~~ILks~-Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
+--|+++|++. -..+++..++-.|.-.++-.+.+||+-|-..|...+++.|+...|.|||..
T Consensus 32 VgRi~R~Lk~g~ya~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi~lAIrn 94 (139)
T PLN00156 32 VGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRN 94 (139)
T ss_pred hHHHHHHHhcCChhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHhhccC
Confidence 44688999886 346899999999999999999999999999999999999999999999976
No 46
>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=92.75 E-value=0.56 Score=45.16 Aligned_cols=64 Identities=14% Similarity=0.175 Sum_probs=54.3
Q ss_pred HHHHHHHHHhCC-CcccChHHHHHHHHHHH-------------HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhh
Q 030548 12 AKIVKSLLKSMG-VEDYEPRVIHQFLELWY-------------RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 75 (175)
Q Consensus 12 a~~I~~ILks~G-v~~yep~Vv~qLlEfay-------------rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 75 (175)
+++|...++..| ...+++.++..|++++. |...+|+..|..+|+..|+..|+.+||+-|++.+.
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 VQFVAQEVKKDGRIPHFTRDAVEEIVREAQRRAGRKDHLTLRLRELGGLVRAAGDIAKSSGKVYVTAEHVLKAKKLAK 392 (608)
T ss_pred HHHHHHHHHHhCCCCcCCHHHHHHHHHHHHHHHhcccccCCCHHHHHHHHHHHHHHHHhcCCceecHHHHHHHHHHHH
Confidence 567777777775 56899999999999877 45678999998888888999999999999999865
No 47
>KOG1756 consensus Histone 2A [Chromatin structure and dynamics]
Probab=92.64 E-value=0.37 Score=38.54 Aligned_cols=60 Identities=13% Similarity=0.109 Sum_probs=55.4
Q ss_pred HHHHHHHh-CCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 14 IVKSLLKS-MGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 14 ~I~~ILks-~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
-|+++|++ -.+.+++-.++-.|.-..+..+.+||+-|-..|+-.+++.|+..-|+|||..
T Consensus 32 ri~r~Lr~~~~~~ri~~gapV~laavLeYL~Aeile~agnaardnkk~ri~PrH~~lAI~N 92 (131)
T KOG1756|consen 32 RIHRLLRKGRYAQRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRITPRHLQLAIRN 92 (131)
T ss_pred HHHHHHHccchhhhccCCChHHHHHHHHHHHHHHHHHhHHHhhhcCccccChHHHHHHHhC
Confidence 58899998 5778899999999999999999999999999999999999999999999975
No 48
>PLN00153 histone H2A; Provisional
Probab=92.61 E-value=0.31 Score=38.87 Aligned_cols=61 Identities=18% Similarity=0.091 Sum_probs=54.7
Q ss_pred HHHHHHHHhC-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 13 KIVKSLLKSM-GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 13 ~~I~~ILks~-Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
--|+++|++. -..+++..++-.|.-.++-.+.+||+-|-..|...+++.|+...|.+||..
T Consensus 28 gRi~R~Lr~g~~a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~n 89 (129)
T PLN00153 28 GRIARYLKKGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVPRHIQLAIRN 89 (129)
T ss_pred HHHHHHHhcCchhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccChHHHHhhccC
Confidence 4588889875 346889999999999999999999999999999999999999999999976
No 49
>KOG0869 consensus CCAAT-binding factor, subunit A (HAP3) [Transcription]
Probab=92.52 E-value=0.41 Score=39.62 Aligned_cols=79 Identities=16% Similarity=0.180 Sum_probs=63.0
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccCCCCcHHHHHHH
Q 030548 12 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFSQPPAREVLLEL 91 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f~~pppre~Llel 91 (175)
+|+|+.+|-..| .++.++....-|-+-.|++=|-.+|..-+.--.||||+.|||-.|+.. ++|....-|=+=+|..+
T Consensus 39 ~RIMK~~lP~na--KIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~t-LGFe~Y~eplkiyL~kY 115 (168)
T KOG0869|consen 39 SRIMKKALPANA--KISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMST-LGFENYAEPLKIYLQKY 115 (168)
T ss_pred HHHHHhcCCccc--ccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHHH-cCcHhHHHHHHHHHHHH
Confidence 344444444444 689999999999999999999999999999999999999999999965 88766666666677655
Q ss_pred HH
Q 030548 92 AK 93 (175)
Q Consensus 92 A~ 93 (175)
=.
T Consensus 116 Re 117 (168)
T KOG0869|consen 116 RE 117 (168)
T ss_pred HH
Confidence 44
No 50
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]
Probab=91.59 E-value=0.53 Score=37.42 Aligned_cols=61 Identities=18% Similarity=0.071 Sum_probs=55.6
Q ss_pred HHHHHHHH-hCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 13 KIVKSLLK-SMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 13 ~~I~~ILk-s~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
--|++||| ..+..++..++.-.|.-..+-.+.+||+-|-..|.--+++.|..--+.+||..
T Consensus 30 grvkr~lk~~~~~~Rig~~A~Vyl~AvleYL~aEilelAgNaA~d~kkkri~PrHlqlAIrn 91 (132)
T COG5262 30 GRVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIPRHLQLAIRN 91 (132)
T ss_pred HHHHHHHHcCccceeecCCcHHHHHHHHHHHHHHHHHHhhhhhhhcCcceechHHHHHHhcC
Confidence 35899999 55778999999999999999999999999999999999999999999999976
No 51
>PTZ00252 histone H2A; Provisional
Probab=91.41 E-value=0.63 Score=37.39 Aligned_cols=62 Identities=15% Similarity=0.057 Sum_probs=53.4
Q ss_pred HHHHHHHHHhCC-CcccChHHHHHHHHHHHHHHHHHHHHHHHHHhH--hCCCCCCHHHHHHHHHH
Q 030548 12 AKIVKSLLKSMG-VEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEH--AGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 12 a~~I~~ILks~G-v~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~H--AgR~tI~~eDVrLAI~~ 73 (175)
+--|++.|+... ..+++..++-.|.-.++-.+.+||+-|-..|.. .+++.|+...|.|||..
T Consensus 28 VgRi~R~Lr~g~ya~RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~kk~RItPrHi~lAIrN 92 (134)
T PTZ00252 28 VGRVGSLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPKRLTPRTVTLAVRH 92 (134)
T ss_pred hHHHHHHHHcCCcccccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccccHHHHHhhccC
Confidence 456889998875 468999999999999999999999999999864 45678999999999976
No 52
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=90.65 E-value=1.8 Score=38.02 Aligned_cols=48 Identities=23% Similarity=0.352 Sum_probs=43.9
Q ss_pred ccChHHHHHHHHHH------HHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 26 DYEPRVIHQFLELW------YRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 26 ~yep~Vv~qLlEfa------yrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
.++++++..+.+++ .|++.+++..|..+|...|+.+|+.+||+-|+..
T Consensus 228 ~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~~~I~~~~v~~a~~~ 281 (394)
T PRK00411 228 VVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRKVTEEDVRKAYEK 281 (394)
T ss_pred CCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHH
Confidence 58999999999998 7888899999999999999999999999999976
No 53
>KOG0870 consensus DNA polymerase epsilon, subunit D [Transcription]
Probab=90.25 E-value=1.4 Score=36.65 Aligned_cols=75 Identities=19% Similarity=0.201 Sum_probs=58.3
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccCCCCcHHHHH
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFSQPPAREVLL 89 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f~~pppre~Ll 89 (175)
|+|...|..-.+ .++-++...+..-|-=|+.-+..=|..+|.-.+|+||+++||--|... ++|+-..+|=++.|=
T Consensus 18 rlvke~l~E~~v-sisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~E-iefs~f~~plk~~Le 92 (172)
T KOG0870|consen 18 RLVKEVLPESNV-SISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALDE-IEFSSFVNPLKSALE 92 (172)
T ss_pred HHHHHhCccccc-cccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHHH-hchHHHhhHHHHHHH
Confidence 344455555444 488899999999999999999999999999999999999999999988 665444444455443
No 54
>PRK05574 holA DNA polymerase III subunit delta; Reviewed
Probab=89.72 E-value=1.9 Score=36.91 Aligned_cols=64 Identities=14% Similarity=0.185 Sum_probs=53.6
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030548 12 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVN 76 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 76 (175)
..+|...+++.|++ +++.++..|++...-=...+..+...++-.+|.+.|+.+||+..+....+
T Consensus 152 ~~~i~~~~~~~g~~-i~~~a~~~L~~~~~~d~~~l~~El~KL~l~~~~~~It~~~I~~~i~~~~~ 215 (340)
T PRK05574 152 PQWIQQRLKQQGLQ-IDAAALQLLAERVEGNLLALAQELEKLALLYPDGKITLEDVEEAVPDSAR 215 (340)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHhCchHHHHHHHHHHHHhhcCCCCCCHHHHHHHHhhhhc
Confidence 57899999999985 99999999999998777788888888888876555999999988766443
No 55
>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=89.43 E-value=5.8 Score=33.59 Aligned_cols=81 Identities=15% Similarity=0.104 Sum_probs=58.3
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHHH---HHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccCCCCcHH--HH
Q 030548 14 IVKSLLKSMGVEDYEPRVIHQFLELWYR---YVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFSQPPARE--VL 88 (175)
Q Consensus 14 ~I~~ILks~Gv~~yep~Vv~qLlEfayr---Yt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f~~pppre--~L 88 (175)
++...++..|+ .++++++..+.+.+.. .+..++..+..+|...+...|+.+.|+-++.. ++..+..-++++ +|
T Consensus 167 il~~~~~~~~~-~~~~~al~~ia~~~~G~pR~~~~ll~~~~~~a~~~~~~~it~~~v~~~l~~-l~~~~~~l~~~~~~~L 244 (305)
T TIGR00635 167 IVSRSAGLLNV-EIEPEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRDIALKALEM-LMIDELGLDEIDRKLL 244 (305)
T ss_pred HHHHHHHHhCC-CcCHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHH-hCCCCCCCCHHHHHHH
Confidence 44455555676 5999999999998764 45566666666776677788999999999987 676677777777 66
Q ss_pred HHHHHhhc
Q 030548 89 LELAKNRN 96 (175)
Q Consensus 89 lelA~e~N 96 (175)
..++....
T Consensus 245 ~al~~~~~ 252 (305)
T TIGR00635 245 SVLIEQFQ 252 (305)
T ss_pred HHHHHHhC
Confidence 65655433
No 56
>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=89.34 E-value=1.4 Score=36.81 Aligned_cols=62 Identities=18% Similarity=0.177 Sum_probs=51.2
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCC------CCCCHHHHHHHHHH
Q 030548 12 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGK------NTIDCDDVKLAVQS 73 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR------~tI~~eDVrLAI~~ 73 (175)
.+.|..|++..|+..++++++..|..-++.|...|+..+...|+|--. ..+-..||+--+..
T Consensus 51 ~~~~~~i~~~~g~~~~~~d~~~lis~a~e~rlr~li~k~~~~s~hR~~~~~~~~r~~~~sdvr~qL~~ 118 (212)
T cd08045 51 AKKIRKIAKKHGLKEVDEDVLDLISLALEERLRNLLEKLIEVSEHRVDSEKEDERYEITSDVRKQLRF 118 (212)
T ss_pred HHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCceeecchHHHHHHH
Confidence 467899999999999999999999999999999999999999999622 23334666655443
No 57
>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=89.11 E-value=2 Score=35.37 Aligned_cols=61 Identities=8% Similarity=0.080 Sum_probs=49.8
Q ss_pred HHHHHHHHhCCC---cccChHHHHHHHHHHHH---HHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 13 KIVKSLLKSMGV---EDYEPRVIHQFLELWYR---YVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 13 ~~I~~ILks~Gv---~~yep~Vv~qLlEfayr---Yt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
.++...|+..|. ..++++++..|.+.+.- ++..++..|...|--.|.+.|+.++|+.|+..
T Consensus 199 ~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~~~~a~~~~~~~i~~~~v~~~~~~ 265 (269)
T TIGR03015 199 EYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRLLLSAFLEEKREIGGEEVREVIAE 265 (269)
T ss_pred HHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 456667777774 36999999999998874 77777888888777779999999999999976
No 58
>COG1067 LonB Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]
Probab=88.01 E-value=1.7 Score=42.54 Aligned_cols=72 Identities=14% Similarity=0.199 Sum_probs=59.4
Q ss_pred CCCCCChhHHHHHHHHHhC-CCcccChHHHHHHHHHHHHHH-------------HHHHHHHHHHHhHhCCCCCCHHHHHH
Q 030548 4 GDEDLPRDAKIVKSLLKSM-GVEDYEPRVIHQFLELWYRYV-------------VDVLTDAQVYSEHAGKNTIDCDDVKL 69 (175)
Q Consensus 4 ~~~~~PrDa~~I~~ILks~-Gv~~yep~Vv~qLlEfayrYt-------------~~VL~DA~~yA~HAgR~tI~~eDVrL 69 (175)
.+++.-+.++.+.+-+..- ++-.++..++..|...+.|++ ..++..|-.+|.-.|++-|+++||..
T Consensus 315 ~~~nr~k~~~~~~q~v~~d~~ip~~~~~Av~~li~~a~R~Ag~~~~Ltl~~rdl~~lv~~A~~ia~~~~~~~I~ae~Ve~ 394 (647)
T COG1067 315 TDANRSKLVQFYVQELARDGNIPHLDKDAVEELIREAARRAGDQNKLTLRLRDLGNLVREAGDIAVSEGRKLITAEDVEE 394 (647)
T ss_pred ChHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhccccceeccCHHHHHHHHHHhhHHHhcCCcccCcHHHHHH
Confidence 3444446677777766666 999999999999999999876 56788888889999999999999999
Q ss_pred HHHHhh
Q 030548 70 AVQSKV 75 (175)
Q Consensus 70 AI~~r~ 75 (175)
|++.+.
T Consensus 395 a~~~~~ 400 (647)
T COG1067 395 ALQKRE 400 (647)
T ss_pred HHHhhh
Confidence 999854
No 59
>COG5162 Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=87.57 E-value=3.7 Score=34.47 Aligned_cols=43 Identities=26% Similarity=0.322 Sum_probs=38.9
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhH
Q 030548 14 IVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEH 56 (175)
Q Consensus 14 ~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~H 56 (175)
++.--|...|..-.+++|...|-=.++.++++|+.||-.|++.
T Consensus 93 v~DYyl~k~Gf~~~D~rvKkLl~L~aqKFvsDiA~dayqYsrI 135 (197)
T COG5162 93 VTDYYLEKAGFVTSDQRVKKLLSLLAQKFVSDIAVDAYQYSRI 135 (197)
T ss_pred HHHHHHHhcCceeccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6777888899988999999999999999999999999999875
No 60
>TIGR01128 holA DNA polymerase III, delta subunit. subunit around DNA forming a DNA sliding clamp.
Probab=87.23 E-value=3.7 Score=34.42 Aligned_cols=65 Identities=18% Similarity=0.293 Sum_probs=51.3
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhcc
Q 030548 12 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNS 77 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~ 77 (175)
.++|...+++.|+. +++.++..|++.+.-=+..+..+...++-.+|.+.|+.+||+..+....+.
T Consensus 117 ~~~i~~~~~~~g~~-i~~~a~~~l~~~~~~d~~~l~~el~KL~~~~~~~~It~e~I~~~~~~~~~~ 181 (302)
T TIGR01128 117 PRWIQARLKKLGLR-IDPDAVQLLAELVEGNLLAIAQELEKLALYAPDGKITLEDVEEAVSDSARF 181 (302)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHhCcHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHhhhhcC
Confidence 34889999999985 999999999998876666666666677766776689999999887654443
No 61
>PRK07452 DNA polymerase III subunit delta; Validated
Probab=86.93 E-value=2.6 Score=36.30 Aligned_cols=61 Identities=16% Similarity=0.226 Sum_probs=53.1
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHh--CCCCCCHHHHHHHHHH
Q 030548 12 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHA--GKNTIDCDDVKLAVQS 73 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HA--gR~tI~~eDVrLAI~~ 73 (175)
.++|...++..|++ ++++++..|++.+--=...+..+...++-++ ++..|+.+||+..+..
T Consensus 136 ~~~i~~~~~~~g~~-i~~~a~~~L~~~~g~dl~~l~~EleKL~ly~~~~~~~It~~~V~~~v~~ 198 (326)
T PRK07452 136 KQLVERTAQELGVK-LTPEAAELLAEAVGNDSRRLYNELEKLALYAENSTKPISAEEVKALVSN 198 (326)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHhCccHHHHHHHHHHHHHhccCCCCccCHHHHHHHhcc
Confidence 57899999999986 9999999999999888888888888888885 3668999999987743
No 62
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=86.89 E-value=2.5 Score=39.02 Aligned_cols=61 Identities=21% Similarity=0.469 Sum_probs=52.7
Q ss_pred HHHHHHHHhCCCcccChHHHHHHH-HHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHh
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFL-ELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSK 74 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLl-EfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r 74 (175)
..|+..-.+.|+....+++...|. |+-|| +.+|.++|..|-.|..|..++.+||--|..++
T Consensus 9 et~KdvAeslGi~Ni~Dd~l~alamDlEYR-I~ev~qea~KFmvhSKRtvLt~dDis~ALr~l 70 (450)
T COG5095 9 ETLKDVAESLGISNIDDDALRALAMDLEYR-IKEVCQEASKFMVHSKRTVLTIDDISYALRSL 70 (450)
T ss_pred HHHHHHHHHcCCcccccHHHHHHHHhHHHH-HHHHHHHHHHHhhcccceeeeHHhHHHHHHhc
Confidence 357778889999999999988874 55555 67899999999999999999999999999884
No 63
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=86.86 E-value=7 Score=34.01 Aligned_cols=82 Identities=17% Similarity=0.157 Sum_probs=60.3
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccCC--CCcHHH
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFSQ--PPAREV 87 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f~~--pppre~ 87 (175)
+++.+.++..|+. ++++++..+.+.+. |.+..+|..+..+|...+...|+.++|+.+... ++..+.+ +-.+++
T Consensus 187 ~il~~~~~~~~~~-~~~~~~~~ia~~~~G~pR~a~~~l~~~~~~a~~~~~~~I~~~~v~~~l~~-~~~~~~~l~~~~~~~ 264 (328)
T PRK00080 187 KIVKRSARILGVE-IDEEGALEIARRSRGTPRIANRLLRRVRDFAQVKGDGVITKEIADKALDM-LGVDELGLDEMDRKY 264 (328)
T ss_pred HHHHHHHHHcCCC-cCHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH-hCCCcCCCCHHHHHH
Confidence 3556666667775 99999999998884 668888888888887777789999999999966 4433333 355677
Q ss_pred HHHHHHhhc
Q 030548 88 LLELAKNRN 96 (175)
Q Consensus 88 LlelA~e~N 96 (175)
|..++...+
T Consensus 265 l~~~~~~~~ 273 (328)
T PRK00080 265 LRTIIEKFG 273 (328)
T ss_pred HHHHHHHcC
Confidence 766766544
No 64
>KOG1744 consensus Histone H2B [Chromatin structure and dynamics]
Probab=86.28 E-value=2.9 Score=33.38 Aligned_cols=49 Identities=10% Similarity=0.143 Sum_probs=42.6
Q ss_pred cChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhh
Q 030548 27 YEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 75 (175)
Q Consensus 27 yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 75 (175)
.+..+..-+.-|.+.....|+.+|-.||...+|.||+..+|+.|+..-+
T Consensus 56 is~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta~rLll 104 (127)
T KOG1744|consen 56 ISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTAVRLLL 104 (127)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHHHHHhC
Confidence 4566777777777888999999999999999999999999999998744
No 65
>COG1466 HolA DNA polymerase III, delta subunit [DNA replication, recombination, and repair]
Probab=86.10 E-value=2.9 Score=36.83 Aligned_cols=63 Identities=19% Similarity=0.289 Sum_probs=55.2
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVN 76 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 76 (175)
++|...++++|+. ++++++..|++-..-=...+..+-..++-.++.+.|+.+||+.++.....
T Consensus 147 ~~i~~~~~~~~l~-i~~~a~~~L~~~~~~nl~~i~~Ei~KL~l~~~~~~I~~~~V~~~v~~~~~ 209 (334)
T COG1466 147 QWIKKRAKELGLK-IDQEAIQLLLEALGGNLLAIAQEIEKLALYAGDKEITLEDVEEVVSDVAE 209 (334)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCCcCCHHHHHHHHhcccc
Confidence 5889999999985 99999999999998888888888888888888779999999999966443
No 66
>PRK06585 holA DNA polymerase III subunit delta; Reviewed
Probab=85.96 E-value=2.3 Score=36.97 Aligned_cols=64 Identities=19% Similarity=0.208 Sum_probs=52.4
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhC-CCCCCHHHHHHHHHHhhc
Q 030548 12 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAG-KNTIDCDDVKLAVQSKVN 76 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAg-R~tI~~eDVrLAI~~r~~ 76 (175)
.++|...++..|++ .+++++..|++.+.-=...+..+-..++-.+| ++.|+.+||+..+....+
T Consensus 148 ~~~i~~~~~~~g~~-i~~~a~~~L~~~~g~dl~~l~~EleKL~ly~~~~~~It~edV~~lv~~~~e 212 (343)
T PRK06585 148 ARLIDDELAEAGLR-ITPDARALLVALLGGDRLASRNEIEKLALYAHGKGEITLDDVRAVVGDASA 212 (343)
T ss_pred HHHHHHHHHHCCCC-CCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHhCCccc
Confidence 46899999999986 99999999999998877777777777777765 468999999877655443
No 67
>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=85.80 E-value=3.1 Score=39.31 Aligned_cols=60 Identities=17% Similarity=0.304 Sum_probs=48.1
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHH--HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWY--RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfay--rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
.++...++..|+ .++++++..|..++. |.+..+++.|..+|..-++..|+.+||.-++..
T Consensus 270 ~Il~~~a~k~~i-~is~~al~~I~~y~~n~Rel~nll~~Aa~~A~~~~~~~It~~dI~~vl~~ 331 (531)
T TIGR02902 270 EIAKNAAEKIGI-NLEKHALELIVKYASNGREAVNIVQLAAGIALGEGRKRILAEDIEWVAEN 331 (531)
T ss_pred HHHHHHHHHcCC-CcCHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCcEEcHHHHHHHhCC
Confidence 456666777886 499999987776654 777888888888888778899999999999854
No 68
>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=85.59 E-value=1.5 Score=37.64 Aligned_cols=61 Identities=16% Similarity=0.174 Sum_probs=34.0
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCC------CCCHHHHHHHHHH
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKN------TIDCDDVKLAVQS 73 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~------tI~~eDVrLAI~~ 73 (175)
+.|..|.+.+|+..++++|+..|---++.|..+|++++..+|.|--.. ..-..||+-.+..
T Consensus 51 ~~i~~i~~~~g~~~~~~d~l~llS~A~e~rLr~lie~~~~~s~hR~~~~~~~~~~~~~sdv~~qlr~ 117 (264)
T PF05236_consen 51 KRIQKIAKKHGLKSVDEDVLELLSLATEERLRNLIEKAIVLSRHRRDSSKSDPRYEIRSDVRKQLRF 117 (264)
T ss_dssp HHHHHHHHCTT--EE-TCHHHHHHHHHHHHHHHHHHHHH----------------------------
T ss_pred HHHHHHHHHcCCcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCCCcccccchHHHHHHHH
Confidence 467888999999999999999999999999999999999999996432 2224666555443
No 69
>PRK05907 hypothetical protein; Provisional
Probab=83.87 E-value=2.9 Score=37.10 Aligned_cols=64 Identities=17% Similarity=0.294 Sum_probs=53.6
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHH-HHHHHHHHHHHHHHHhHhC-CCCCCHHHHHHHHHHhhc
Q 030548 12 AKIVKSLLKSMGVEDYEPRVIHQFLELW-YRYVVDVLTDAQVYSEHAG-KNTIDCDDVKLAVQSKVN 76 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfa-yrYt~~VL~DA~~yA~HAg-R~tI~~eDVrLAI~~r~~ 76 (175)
.+||...++..|.+ .++.++..|++.. +--...+..+-..++-++| +..|+.+||...+.....
T Consensus 140 ~~Wi~~~~~~~g~~-i~~~a~~~L~~~~~~~nL~~l~~EleKL~ly~g~~~~It~e~V~~lv~~s~e 205 (311)
T PRK05907 140 AQLLIQRAKELGIS-CSLGLASLFVSKFPQTGLFEILSEFQKLLCQMGKKESLEASDIQSFVVKKEA 205 (311)
T ss_pred HHHHHHHHHHcCCC-cCHHHHHHHHHHccCCCHHHHHHHHHHHHHhcCCCCeECHHHHHHHhcCccc
Confidence 68999999999985 9999999999987 6777788888888888866 778999999988654433
No 70
>PRK08487 DNA polymerase III subunit delta; Validated
Probab=83.56 E-value=4.1 Score=35.68 Aligned_cols=62 Identities=8% Similarity=0.127 Sum_probs=50.6
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030548 12 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVN 76 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 76 (175)
.+||...++.+|++ .++.++..|++.+.--...+-.+-..++-+.| .|+.+||...+.....
T Consensus 141 ~~~i~~~~~~~g~~-i~~~a~~~L~~~~g~dl~~l~~ELeKL~ly~~--~It~edV~~~v~~~~e 202 (328)
T PRK08487 141 LELLQERAKELGLD-IDQNALNHLYFIHNEDLALAANELEKLAILNE--PITLKDIQELVFGLGS 202 (328)
T ss_pred HHHHHHHHHHhCCC-CCHHHHHHHHHHhCcHHHHHHHHHHHHHHhcC--CCCHHHHHHHhccccc
Confidence 56999999999986 99999999999988777777777767666655 6999999998755433
No 71
>PRK07914 hypothetical protein; Reviewed
Probab=82.88 E-value=3.4 Score=35.99 Aligned_cols=63 Identities=14% Similarity=0.240 Sum_probs=50.4
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030548 12 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVN 76 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 76 (175)
.+||...+++.|++ .+++++..|++..-.-...+..+...++-+.| +.|+.+||+-.+.....
T Consensus 134 ~~wi~~~a~~~g~~-i~~~A~~~L~~~~g~dl~~l~~EleKL~~~~~-~~It~e~V~~~v~~~~~ 196 (320)
T PRK07914 134 ADFVRKEFRSLRVK-VDDDTVTALLDAVGSDLRELASACSQLVADTG-GAVDAAAVRRYHSGKAE 196 (320)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHHCccHHHHHHHHHHHhcCCC-CCcCHHHHHHHcCCCee
Confidence 67999999999986 99999999999987666666666666655555 57999999988765444
No 72
>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=81.71 E-value=4.5 Score=34.80 Aligned_cols=58 Identities=16% Similarity=0.177 Sum_probs=39.4
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHH
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQ 72 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 72 (175)
.+|..+++..|+. +++.++..|++.+..-...+.......+.+++ +.|+.+||+-++.
T Consensus 183 ~~l~~~~~~~g~~-i~~~a~~~l~~~~~g~~~~a~~~lekl~~~~~-~~it~~~v~~~~~ 240 (355)
T TIGR02397 183 ERLKKILDKEGIK-IEDEALELIARAADGSLRDALSLLDQLISFGN-GNITYEDVNELLG 240 (355)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHcCCChHHHHHHHHHHHhhcC-CCCCHHHHHHHhC
Confidence 4677778889984 99999999999886433444333333333334 3599999987653
No 73
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=81.04 E-value=5.2 Score=33.99 Aligned_cols=58 Identities=12% Similarity=0.131 Sum_probs=42.3
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHH
Q 030548 12 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQ 72 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 72 (175)
..++..+++..|+. +++.+...|++.+..-...++.....++ .+...|+.+||+.++.
T Consensus 190 ~~~l~~~~~~~~~~-~~~~al~~l~~~~~gdlr~l~~~l~~~~--~~~~~It~~~v~~~~~ 247 (337)
T PRK12402 190 VDVLESIAEAEGVD-YDDDGLELIAYYAGGDLRKAILTLQTAA--LAAGEITMEAAYEALG 247 (337)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHH--HcCCCCCHHHHHHHhC
Confidence 34667777888986 9999999999888655555555555444 2345799999998765
No 74
>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=80.70 E-value=13 Score=32.11 Aligned_cols=49 Identities=24% Similarity=0.216 Sum_probs=41.2
Q ss_pred ccChHHHHHHHHHHH------HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHh
Q 030548 26 DYEPRVIHQFLELWY------RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSK 74 (175)
Q Consensus 26 ~yep~Vv~qLlEfay------rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r 74 (175)
.++++++..+.+++. |++.+++..|..+|.-.|+..|+.+||+-|+..-
T Consensus 220 ~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~~a~~~~~~~it~~~v~~a~~~~ 274 (365)
T TIGR02928 220 VLDDGVIPLCAALAAQEHGDARKAIDLLRVAGEIAEREGAERVTEDHVEKAQEKI 274 (365)
T ss_pred CCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence 488888888777764 7888899999988888888999999999988663
No 75
>PRK05629 hypothetical protein; Validated
Probab=79.80 E-value=6.4 Score=34.18 Aligned_cols=62 Identities=18% Similarity=0.198 Sum_probs=47.7
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhh
Q 030548 12 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 75 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 75 (175)
.+||...+++.|.+ .+++++..|++.+-.=...+-.+-..++-+.| +.|+.+||+..+....
T Consensus 132 ~~wi~~~~~~~g~~-i~~~A~~~L~~~~g~dl~~l~~EleKL~~~~~-~~It~e~V~~~v~~~~ 193 (318)
T PRK05629 132 PGWVTQEFKNHGVR-PTPDVVHALLEGVGSDLRELASAISQLVEDTQ-GNVTVEKVRAYYVGVA 193 (318)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHHCccHHHHHHHHHHHHhcCC-CCcCHHHHHHHhCCCc
Confidence 46999999999986 99999999999887655556555555555544 4799999988765433
No 76
>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=78.79 E-value=12 Score=33.68 Aligned_cols=58 Identities=14% Similarity=0.220 Sum_probs=44.9
Q ss_pred ccChHHHHHHHHHHHH-------HHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccCCCC
Q 030548 26 DYEPRVIHQFLELWYR-------YVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFSQPP 83 (175)
Q Consensus 26 ~yep~Vv~qLlEfayr-------Yt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f~~pp 83 (175)
.+++.+...+.+.+.. =...++.=|+.+|-..||..|+.+||+.|+..-+.|-....|
T Consensus 254 ~v~d~~~~~i~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~~dDv~~~a~~vL~HR~~~~p 318 (337)
T TIGR02030 254 TIPYDVLVKVAELCAELDVDGLRGELTLNRAAKALAAFEGRTEVTVDDIRRVAVLALRHRLRKDP 318 (337)
T ss_pred cCCHHHHHHHHHHHHHHCCCCCcHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHhCcCCc
Confidence 3677777777776653 344477888999999999999999999998887777665444
No 77
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=78.55 E-value=6.4 Score=34.59 Aligned_cols=58 Identities=17% Similarity=0.198 Sum_probs=41.5
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHH
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQ 72 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 72 (175)
.++..+++..|++ +++.++..|.+.+..=...++.....++.++|+. |+.+||+..+.
T Consensus 174 ~~l~~~~~~~g~~-i~~~al~~l~~~~~gdlr~~~~~lekl~~y~~~~-it~~~v~~~~~ 231 (367)
T PRK14970 174 EHLAGIAVKEGIK-FEDDALHIIAQKADGALRDALSIFDRVVTFCGKN-ITRQAVTENLN 231 (367)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCC-CCHHHHHHHhC
Confidence 4778888899985 9999999999988743344444444444455655 99999887654
No 78
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=78.04 E-value=6.3 Score=38.16 Aligned_cols=58 Identities=19% Similarity=0.158 Sum_probs=42.7
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHH
Q 030548 12 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAV 71 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI 71 (175)
..++..+++..|++ +++++...|++.+.-....++.....+..| |.+.|+.+||+..+
T Consensus 197 ~~~L~~i~~kegi~-i~~eAl~lIa~~a~Gdlr~al~~Ldkli~~-g~g~It~e~V~~ll 254 (598)
T PRK09111 197 AAHLSRIAAKEGVE-VEDEALALIARAAEGSVRDGLSLLDQAIAH-GAGEVTAEAVRDML 254 (598)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHhh-cCCCcCHHHHHHHh
Confidence 45788888899985 999999999999876555555555444444 34579999998654
No 79
>PF15127 DUF4565: Protein of unknown function (DUF4565)
Probab=78.01 E-value=1.6 Score=32.94 Aligned_cols=28 Identities=25% Similarity=0.197 Sum_probs=23.0
Q ss_pred ccChHHHHHHHHHHHHHHHHHHHHHHHH
Q 030548 26 DYEPRVIHQFLELWYRYVVDVLTDAQVY 53 (175)
Q Consensus 26 ~yep~Vv~qLlEfayrYt~~VL~DA~~y 53 (175)
.-++.+-.-+||||+|...+||.||+.-
T Consensus 45 ~~~~~a~~vvlEyA~rLSqEIl~dAlqQ 72 (91)
T PF15127_consen 45 PPSPGASPVVLEYAHRLSQEILSDALQQ 72 (91)
T ss_pred CCCCCCCchhHHHHHHHHHHHHHHHHHH
Confidence 4455566789999999999999999863
No 80
>cd08048 TAF11 TATA Binding Protein (TBP) Associated Factor 11 (TAF11) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 11 (TAF11) is one of several TAFs that bind TBP and are involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAF orthologs and paralogs. Several hypothes
Probab=77.94 E-value=21 Score=26.19 Aligned_cols=60 Identities=15% Similarity=0.229 Sum_probs=50.0
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCC---CCCCHHHHHHHHHH
Q 030548 14 IVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGK---NTIDCDDVKLAVQS 73 (175)
Q Consensus 14 ~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR---~tI~~eDVrLAI~~ 73 (175)
.|++|+...--+.+++.|+.-|--++.-|+.+|.+.|+...+.-|. +-|..+.|+.|...
T Consensus 21 ~iKr~~~~~~~~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~HireA~rr 83 (85)
T cd08048 21 AIKRLIQSVTGQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHLREAYRR 83 (85)
T ss_pred HHHHHHHHHcCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHHHHHHHH
Confidence 4666666553378999999999999999999999999999887665 67889999988753
No 81
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=75.85 E-value=9.3 Score=32.09 Aligned_cols=58 Identities=9% Similarity=0.079 Sum_probs=43.4
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHH
Q 030548 12 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQ 72 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 72 (175)
..++..+++..|+. +++.++..|++.+......++.....++.. .+.|+.++|+.++.
T Consensus 167 ~~~l~~~~~~~~~~-i~~~al~~l~~~~~gd~r~~~~~l~~~~~~--~~~it~~~v~~~~~ 224 (319)
T PRK00440 167 AERLRYIAENEGIE-ITDDALEAIYYVSEGDMRKAINALQAAAAT--GKEVTEEAVYKITG 224 (319)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHc--CCCCCHHHHHHHhC
Confidence 35677788888985 999999999998876666655555555543 36799999988864
No 82
>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=75.65 E-value=6.8 Score=37.84 Aligned_cols=55 Identities=15% Similarity=0.204 Sum_probs=45.6
Q ss_pred ccChHHHHHHHHHHHHHH-------HHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccC
Q 030548 26 DYEPRVIHQFLELWYRYV-------VDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFS 80 (175)
Q Consensus 26 ~yep~Vv~qLlEfayrYt-------~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f~ 80 (175)
.+++.++..|.+++.++. .-++.-|+.+|...||..|+.+||+.|+..-+.|-..
T Consensus 249 ~is~~~~~~l~~~~~~~~i~s~Ra~i~~~r~Ara~AaL~gr~~V~~~Dv~~A~~lvL~hR~~ 310 (633)
T TIGR02442 249 RISDSLIRFISELCIEFGVDGHRADIVMARAARALAALDGRRRVTAEDVREAAELVLPHRRR 310 (633)
T ss_pred CCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHHHhhhhcc
Confidence 468888898988886653 4578889999999999999999999999887766544
No 83
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=75.55 E-value=9.1 Score=37.46 Aligned_cols=50 Identities=10% Similarity=0.125 Sum_probs=43.8
Q ss_pred CCcccChHHHHHHHHHHHHHHH-------------HHHHHHHHHHhHhCCCCCCHHHHHHHHH
Q 030548 23 GVEDYEPRVIHQFLELWYRYVV-------------DVLTDAQVYSEHAGKNTIDCDDVKLAVQ 72 (175)
Q Consensus 23 Gv~~yep~Vv~qLlEfayrYt~-------------~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 72 (175)
+.-.+++.++..|++++.|.+. +++..|-.+|...+++.|+.+||..|+.
T Consensus 336 ~l~~f~~eAVa~LI~~~~R~ag~r~~lsl~~~~l~~l~r~a~~~a~~~~~~~i~~~~v~~a~~ 398 (637)
T PRK13765 336 KIPHFDRDAVEEIIREAKRRAGRKGHLTLKLRDLGGLVRVAGDIARSEGAELTTAEHVLEAKK 398 (637)
T ss_pred CCCCCCHHHHHHHHHHHHHHhCCccccccCHHHHHHHHHHHHHHHHhhccceecHHHHHHHHH
Confidence 3558999999999999887664 4899999999999999999999998874
No 84
>PF13335 Mg_chelatase_2: Magnesium chelatase, subunit ChlI
Probab=74.50 E-value=16 Score=27.08 Aligned_cols=49 Identities=12% Similarity=0.101 Sum_probs=37.3
Q ss_pred ccChHHHHHHHHHHH------HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHh
Q 030548 26 DYEPRVIHQFLELWY------RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSK 74 (175)
Q Consensus 26 ~yep~Vv~qLlEfay------rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r 74 (175)
..++.+...|-..+. |=...||+=|.-.|+.+|...|+.++|..|+.-|
T Consensus 42 ~l~~~~~~~l~~~~~~~~lS~R~~~rilrvARTIADL~~~~~I~~~hi~EAl~yR 96 (96)
T PF13335_consen 42 PLSSEAKKLLEQAAEKLNLSARGYHRILRVARTIADLEGSERITREHIAEALSYR 96 (96)
T ss_pred CCCHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHhHcCCCCCCHHHHHHHHhCc
Confidence 345555544444443 5567899999999999999999999999998754
No 85
>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=74.50 E-value=6.8 Score=37.63 Aligned_cols=55 Identities=13% Similarity=0.132 Sum_probs=45.0
Q ss_pred ccChHHHHHHHHHHHHHH-------HHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccC
Q 030548 26 DYEPRVIHQFLELWYRYV-------VDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFS 80 (175)
Q Consensus 26 ~yep~Vv~qLlEfayrYt-------~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f~ 80 (175)
.+++.++..|++++.++. .-++.-|+.+|...||..|+.+||+.|+..-+.|-..
T Consensus 203 ~i~~~~~~~l~~~~~~~gv~s~Ra~i~~~r~ArA~Aal~gr~~V~~~Dv~~a~~lvl~hR~~ 264 (589)
T TIGR02031 203 TISAEQVKELVLTAASLGISGHRADLFAVRAAKAHAALHGRTEVTEEDLKLAVELVLLPRAT 264 (589)
T ss_pred cCCHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhhhhcc
Confidence 478888888888887543 3467888899999999999999999999987766544
No 86
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=73.44 E-value=20 Score=32.53 Aligned_cols=55 Identities=5% Similarity=0.065 Sum_probs=44.3
Q ss_pred ccChHHHHHHHHHHHH-------HHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccC
Q 030548 26 DYEPRVIHQFLELWYR-------YVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFS 80 (175)
Q Consensus 26 ~yep~Vv~qLlEfayr-------Yt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f~ 80 (175)
.+++.++..+++.+.. =..-++.-|+.+|-..||..|+.+||+.++..-+.|-..
T Consensus 267 ~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~pdDv~~~a~~vL~HR~~ 328 (350)
T CHL00081 267 EIDYDLRVKISQICSELDVDGLRGDIVTNRAAKALAAFEGRTEVTPKDIFKVITLCLRHRLR 328 (350)
T ss_pred ccCHHHHHHHHHHHHHHCCCCChHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHhCc
Confidence 4778888888888764 455677889999999999999999999998886665443
No 87
>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=71.21 E-value=24 Score=28.21 Aligned_cols=59 Identities=17% Similarity=0.068 Sum_probs=45.2
Q ss_pred hHHHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHH
Q 030548 11 DAKIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAV 71 (175)
Q Consensus 11 Da~~I~~ILks~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI 71 (175)
+..++...++..|+ .+++++...|...+- |....+++++..+|.-+| ++|+.+.|+-.+
T Consensus 164 ~~~~l~~~~~~~~~-~~~~~~l~~L~~~~~gn~r~L~~~l~~~~~~~~~~~-~~i~~~~~~~~~ 225 (226)
T TIGR03420 164 KIAALQSRAARRGL-QLPDEVADYLLRHGSRDMGSLMALLDALDRASLAAK-RKITIPFVKEVL 225 (226)
T ss_pred HHHHHHHHHHHcCC-CCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhC-CCCCHHHHHHHh
Confidence 34555566667787 499999999999754 788999999888877766 479998887654
No 88
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=71.14 E-value=16 Score=36.42 Aligned_cols=55 Identities=22% Similarity=0.331 Sum_probs=43.5
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHH
Q 030548 12 AKIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAV 71 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI 71 (175)
..++..|++..|+. +++.++..|.+.+. |++..+|..+..| |...|+.++|+..+
T Consensus 184 ~~~L~~Il~kEgi~-id~eAL~~Ia~~A~GslRdAlnLLDqaia~----g~g~It~e~V~~lL 241 (709)
T PRK08691 184 ADHLAHVLDSEKIA-YEPPALQLLGRAAAGSMRDALSLLDQAIAL----GSGKVAENDVRQMI 241 (709)
T ss_pred HHHHHHHHHHcCCC-cCHHHHHHHHHHhCCCHHHHHHHHHHHHHh----cCCCcCHHHHHHHH
Confidence 45678889999985 99999999999986 7777777777776 34568888877654
No 89
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=70.38 E-value=13 Score=35.30 Aligned_cols=59 Identities=8% Similarity=0.024 Sum_probs=40.8
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhC--CCCCCHHHHHHHH
Q 030548 12 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAG--KNTIDCDDVKLAV 71 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAg--R~tI~~eDVrLAI 71 (175)
..++..+++..|+. +++++...+.+.+.-...+.+.....++.+++ ...|+.+||+..+
T Consensus 193 ~~~L~~i~~~egi~-ie~eAL~~Ia~~s~GslR~al~~Ldkai~~~~~~~~~It~~~V~~ll 253 (507)
T PRK06645 193 FKLLEYITKQENLK-TDIEALRIIAYKSEGSARDAVSILDQAASMSAKSDNIISPQVINQML 253 (507)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhccCCCCcCHHHHHHHH
Confidence 45778889999975 89999999999886544444444444444443 3468888887543
No 90
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=70.16 E-value=13 Score=33.48 Aligned_cols=58 Identities=12% Similarity=0.209 Sum_probs=42.6
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHH---HHHHHHHHHHh-HhCCCCCCHHHHHHHH
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVV---DVLTDAQVYSE-HAGKNTIDCDDVKLAV 71 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~---~VL~DA~~yA~-HAgR~tI~~eDVrLAI 71 (175)
.+|..+++..|++ +++++...|.+++.-... ..|+.+..|+. +.+++.|+.+||+.++
T Consensus 193 ~~l~~~~~~~g~~-i~~~al~~l~~~s~g~lr~a~~~L~kl~~~~~~~~~~~~It~~~v~~~v 254 (397)
T PRK14955 193 QQLQGICEAEGIS-VDADALQLIGRKAQGSMRDAQSILDQVIAFSVESEGEGSIRYDKVAELL 254 (397)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccccCCCCccCHHHHHHHH
Confidence 4788888888975 999999999999875444 44445555553 3346789999997655
No 91
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=69.67 E-value=40 Score=30.80 Aligned_cols=63 Identities=24% Similarity=0.296 Sum_probs=39.2
Q ss_pred ChhHHHHHHHHHh----CCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 9 PRDAKIVKSLLKS----MGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 9 PrDa~~I~~ILks----~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
|.|......||+. .|+ .++++|+..|.+-+. |....+|.....||...|+. |+.+.++-++..
T Consensus 279 ~pd~~~r~~il~~~~~~~~~-~l~~e~l~~ia~~~~~~~R~l~~~l~~l~~~~~~~~~~-it~~~~~~~l~~ 348 (450)
T PRK00149 279 PPDLETRIAILKKKAEEEGI-DLPDEVLEFIAKNITSNVRELEGALNRLIAYASLTGKP-ITLELAKEALKD 348 (450)
T ss_pred CCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHcCcCCCHHHHHHHHHHHHHHHHhhCCC-CCHHHHHHHHHH
Confidence 5555555455444 465 499999999988766 55556666666676665543 555555555543
No 92
>PRK04195 replication factor C large subunit; Provisional
Probab=68.61 E-value=14 Score=34.25 Aligned_cols=57 Identities=19% Similarity=0.285 Sum_probs=45.9
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHH
Q 030548 12 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAV 71 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI 71 (175)
..++..|++..|+. +++.++..|.+.+..-...++.+...|+. |+..|+.+||+..+
T Consensus 166 ~~~L~~i~~~egi~-i~~eaL~~Ia~~s~GDlR~ain~Lq~~a~--~~~~it~~~v~~~~ 222 (482)
T PRK04195 166 VPVLKRICRKEGIE-CDDEALKEIAERSGGDLRSAINDLQAIAE--GYGKLTLEDVKTLG 222 (482)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHhc--CCCCCcHHHHHHhh
Confidence 45677888889985 99999999999998888888877777654 56679999998655
No 93
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=68.56 E-value=14 Score=35.03 Aligned_cols=54 Identities=17% Similarity=0.158 Sum_probs=40.0
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHH
Q 030548 12 AKIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLA 70 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLA 70 (175)
..++..|++..|++ +++++...|++.+. |.+...|+.+.. |+| +.|+.+||+..
T Consensus 181 ~~~L~~ia~~Egi~-i~~eAL~lIa~~s~GslR~alslLdqli~---y~~-~~It~e~V~~l 237 (491)
T PRK14964 181 VEHLVDIAKKENIE-HDEESLKLIAENSSGSMRNALFLLEQAAI---YSN-NKISEKSVRDL 237 (491)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHH---hcC-CCCCHHHHHHH
Confidence 45777888889984 99999999999986 455555555544 444 47999999864
No 94
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=67.14 E-value=21 Score=33.78 Aligned_cols=54 Identities=26% Similarity=0.340 Sum_probs=40.5
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHH
Q 030548 12 AKIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLA 70 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLA 70 (175)
..++..|++..|+. +++.++..|.+.+. |.+..+|+.+..| |...|+.+||+..
T Consensus 184 ~~~l~~il~~egi~-~~~~al~~ia~~s~GslR~al~lLdq~ia~----~~~~It~~~V~~~ 240 (509)
T PRK14958 184 AAHCQHLLKEENVE-FENAALDLLARAANGSVRDALSLLDQSIAY----GNGKVLIADVKTM 240 (509)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHcCCcHHHHHHHHHHHHhc----CCCCcCHHHHHHH
Confidence 35678899999985 99999988888875 5666777766655 4556888877754
No 95
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=66.88 E-value=16 Score=35.46 Aligned_cols=54 Identities=17% Similarity=0.172 Sum_probs=45.4
Q ss_pred ccChHHHHHHHHHHHHHH-------HHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhcccc
Q 030548 26 DYEPRVIHQFLELWYRYV-------VDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSF 79 (175)
Q Consensus 26 ~yep~Vv~qLlEfayrYt-------~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f 79 (175)
.+++.++..+.+.+.++. ..++.=|+.+|...||..|+.+||+.|+..-+.|--
T Consensus 195 ~v~~~~l~~i~~~~~~~gv~S~Ra~i~llraARa~AaL~Gr~~V~~~dv~~Aa~lvL~hR~ 255 (584)
T PRK13406 195 GPPPEAIAALCAAAAALGIASLRAPLLALRAARAAAALAGRTAVEEEDLALAARLVLAPRA 255 (584)
T ss_pred CCCHHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHhhc
Confidence 578888888888777654 478899999999999999999999999988666544
No 96
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=66.48 E-value=17 Score=35.29 Aligned_cols=56 Identities=16% Similarity=0.134 Sum_probs=41.4
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHH
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLA 70 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLA 70 (175)
.++..+++..|++ +++.++..|++.+..-...++.....++.++|+. |+.++|...
T Consensus 187 ~~L~~ia~~egi~-i~~~al~~La~~s~gdlr~al~~Lekl~~y~~~~-It~~~V~~~ 242 (614)
T PRK14971 187 NHLQYVASKEGIT-AEPEALNVIAQKADGGMRDALSIFDQVVSFTGGN-ITYKSVIEN 242 (614)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCC-ccHHHHHHH
Confidence 4778888899985 9999999999988765666655555555556655 888777544
No 97
>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=66.06 E-value=22 Score=25.39 Aligned_cols=56 Identities=13% Similarity=0.223 Sum_probs=44.7
Q ss_pred HHHHHHHhC---CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCC-CCHHHHHH
Q 030548 14 IVKSLLKSM---GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNT-IDCDDVKL 69 (175)
Q Consensus 14 ~I~~ILks~---Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~t-I~~eDVrL 69 (175)
+|.+||+.. .-++.+.++...+-+++.-++.+-...|..-|+--|... |+.+|+.-
T Consensus 4 li~rll~~~f~~~~tkIs~dal~l~~eyl~iFV~EAv~Ra~~~a~~e~~~~~le~e~LEk 63 (72)
T PF09415_consen 4 LIARLLHEHFKDDKTKISKDALKLSAEYLRIFVREAVARAAEQAEAEGDEGFLEVEHLEK 63 (72)
T ss_dssp HHHHHHCTTSSSTT-EE-CCCHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSEE-HHHHHH
T ss_pred HHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCHHHHHH
Confidence 688888832 235889999999999999999999999999998889888 99999864
No 98
>PRK09862 putative ATP-dependent protease; Provisional
Probab=65.62 E-value=21 Score=34.08 Aligned_cols=35 Identities=17% Similarity=0.154 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHh
Q 030548 40 YRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSK 74 (175)
Q Consensus 40 yrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r 74 (175)
.|=...+|+=|+.+|+.+|+..|+.+||..|+.-|
T Consensus 458 ~Ra~~rlLrvARTiADL~g~~~V~~~hv~eAl~yR 492 (506)
T PRK09862 458 IRAWQRLLKVARTIADIDQSDIITRQHLQEAVSYR 492 (506)
T ss_pred HHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHhh
Confidence 46677889999999999999999999999999987
No 99
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=64.96 E-value=19 Score=34.69 Aligned_cols=53 Identities=11% Similarity=0.169 Sum_probs=39.6
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHH---HHHHHHHHHHHHHhHhCCCCCCHHHHHHH
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWYR---YVVDVLTDAQVYSEHAGKNTIDCDDVKLA 70 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfayr---Yt~~VL~DA~~yA~HAgR~tI~~eDVrLA 70 (175)
.++..+++..|+ .+++.++..|.+++.- .+...|+.+..| .| +.|+.+||+-+
T Consensus 185 ~~L~~il~~egi-~~e~~Al~~Ia~~s~GdlR~alnlLek~i~~---~~-~~It~~~V~~~ 240 (546)
T PRK14957 185 DQLKIILAKENI-NSDEQSLEYIAYHAKGSLRDALSLLDQAISF---CG-GELKQAQIKQM 240 (546)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh---cc-CCCCHHHHHHH
Confidence 477888889998 5999999999999874 555566655555 34 56888887753
No 100
>COG5248 TAF19 Transcription initiation factor TFIID, subunit TAF13 [Transcription]
Probab=64.44 E-value=24 Score=27.91 Aligned_cols=43 Identities=19% Similarity=0.244 Sum_probs=37.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 29 PRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 29 p~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
++.++.|=|+.-.|..++...|-..|. .|..+..+|.+.|.+.
T Consensus 30 ~dt~~~L~e~V~dY~~~~ctna~~~Aq--~rnK~k~eDfkfaLr~ 72 (126)
T COG5248 30 YDTAEALHEYVLDYMSILCTNAHNMAQ--VRNKTKTEDFKFALRR 72 (126)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHH--hcccchHHHHHHHHhh
Confidence 467899999999999999999999888 5566889999999865
No 101
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=64.18 E-value=23 Score=31.52 Aligned_cols=55 Identities=18% Similarity=0.209 Sum_probs=40.0
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHH
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQ 72 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 72 (175)
.++..+++..|+ .++++++..+.+++. |.+...|+.+..| |+..|+.+||+-++.
T Consensus 185 ~~L~~~~~~~g~-~i~~~al~~ia~~s~G~~R~al~~l~~~~~~----~~~~It~~~v~~~l~ 242 (363)
T PRK14961 185 NFLKYILIKESI-DTDEYALKLIAYHAHGSMRDALNLLEHAINL----GKGNINIKNVTDMLG 242 (363)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh----cCCCCCHHHHHHHHC
Confidence 367778888886 489999999888875 4555555555443 577899999977653
No 102
>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=63.44 E-value=93 Score=27.85 Aligned_cols=99 Identities=21% Similarity=0.288 Sum_probs=52.3
Q ss_pred ChhHHHHHHHH----HhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhC-------------------CCCC
Q 030548 9 PRDAKIVKSLL----KSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAG-------------------KNTI 62 (175)
Q Consensus 9 PrDa~~I~~IL----ks~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAg-------------------R~tI 62 (175)
|.|......|| +..|+ .++++++..|.+-.. |....+|.....||...| ++.|
T Consensus 267 ~pd~~~r~~il~~~~~~~~~-~l~~e~l~~ia~~~~~~~r~l~~~l~~l~~~a~~~~~~it~~~~~~~L~~~~~~~~~~i 345 (405)
T TIGR00362 267 PPDLETRLAILQKKAEEEGL-ELPDEVLEFIAKNIRSNVRELEGALNRLLAYASLTGKPITLELAKEALKDLLRAKKKEI 345 (405)
T ss_pred CCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHhccccCCCC
Confidence 44554444444 44565 488999888887655 444455555555555443 2345
Q ss_pred CHHHHHHHHHHhhccccC----------CCCcHHHHHHHHHhhcCCCCCCCCCCCC
Q 030548 63 DCDDVKLAVQSKVNSSFS----------QPPAREVLLELAKNRNKIPLPKSIAGRG 108 (175)
Q Consensus 63 ~~eDVrLAI~~r~~~~f~----------~pppre~LlelA~e~N~~PLP~i~~~~G 108 (175)
+.++|.-++....+.+.. -.-+|...+=++++.-..+|+.|-..+|
T Consensus 346 t~~~I~~~Va~~~~v~~~~l~~~~r~~~~~~~R~~amyl~~~~~~~s~~~ig~~fg 401 (405)
T TIGR00362 346 TIENIQEVVAKYYNIKVSDLKSKKRTRNIVRPRQIAMYLAKELTDLSLPEIGRAFG 401 (405)
T ss_pred CHHHHHHHHHHHcCCCHHHHhCCCCCcccchHHHHHHHHHHHHcCCCHHHHHHHhC
Confidence 555555555443321111 0135556666666666666655544333
No 103
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=62.99 E-value=25 Score=32.99 Aligned_cols=57 Identities=14% Similarity=0.181 Sum_probs=42.4
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 12 AKIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
..++..+++..|+ .++++++..|.+.+. |++...|+.+..|+ ++ .|+.+||+.++..
T Consensus 182 ~~~L~~i~~~egi-~i~~eal~~Ia~~s~GdlR~aln~Le~l~~~~---~~-~It~e~V~~~l~~ 241 (472)
T PRK14962 182 IKRLQEVAEAEGI-EIDREALSFIAKRASGGLRDALTMLEQVWKFS---EG-KITLETVHEALGL 241 (472)
T ss_pred HHHHHHHHHHcCC-CCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhc---CC-CCCHHHHHHHHcC
Confidence 3466777778888 599999999999775 67777777655553 33 4999999887753
No 104
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=62.32 E-value=25 Score=34.34 Aligned_cols=58 Identities=7% Similarity=0.071 Sum_probs=44.8
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHh---C-CCCCCHHHHHHHH
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHA---G-KNTIDCDDVKLAV 71 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HA---g-R~tI~~eDVrLAI 71 (175)
.++..+++..|++ +++.++..|++.+--....++.....++.++ | ++.|+.+||...+
T Consensus 193 ~~L~~i~~~egi~-I~~eal~~La~~s~Gdlr~al~eLeKL~~y~~~~~~~~~It~~~V~~lv 254 (620)
T PRK14954 193 SQLQMICRAEGIQ-IDADALQLIARKAQGSMRDAQSILDQVIAFSVGSEAEKVIAYQGVAELL 254 (620)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHhCCCHHHHHHHHHHHHHhccccccCCccCHHHHHHHH
Confidence 3788888999975 9999999999999877777766666666665 2 6789988886543
No 105
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=61.30 E-value=59 Score=26.32 Aligned_cols=60 Identities=12% Similarity=0.137 Sum_probs=43.3
Q ss_pred hHHHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHH
Q 030548 11 DAKIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQ 72 (175)
Q Consensus 11 Da~~I~~ILks~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 72 (175)
+..++..+.+..|+ .++++++..|+..+. +....+++.-..||...+ +.|+...||-++.
T Consensus 162 ~~~~l~~~~~~~~v-~l~~~al~~L~~~~~gn~~~l~~~l~~l~~~~~~~~-~~i~~~~~~~~l~ 224 (227)
T PRK08903 162 KIAALKAAAAERGL-QLADEVPDYLLTHFRRDMPSLMALLDALDRYSLEQK-RPVTLPLLREMLA 224 (227)
T ss_pred HHHHHHHHHHHcCC-CCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhC-CCCCHHHHHHHHh
Confidence 34455555556786 499999999999876 566667777666666655 5899888877653
No 106
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=60.97 E-value=47 Score=29.89 Aligned_cols=55 Identities=11% Similarity=0.202 Sum_probs=43.3
Q ss_pred ccChHHHHHHHHHHHHHH-------HHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccC
Q 030548 26 DYEPRVIHQFLELWYRYV-------VDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFS 80 (175)
Q Consensus 26 ~yep~Vv~qLlEfayrYt-------~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f~ 80 (175)
.+++.++..+++.+...- .-++.-|+.+|-..||..|+.+||+-+....+.|...
T Consensus 251 ~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~~aA~a~A~l~Gr~~V~~~Di~~~~~~vl~hR~~ 312 (334)
T PRK13407 251 KTPNTVLHDCAALCIALGSDGLRGELTLLRAARALAAFEGAEAVGRSHLRSVATMALSHRLR 312 (334)
T ss_pred ccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHHcCCCeeCHHHHHHHHHHhhhhhcc
Confidence 478888888888887533 2388999999999999999999998887665555443
No 107
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=59.82 E-value=28 Score=32.78 Aligned_cols=54 Identities=17% Similarity=0.309 Sum_probs=40.1
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHH
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAV 71 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI 71 (175)
.++..+++..|+ .++++++..|.+++. |.+...|..+..| |...|+.++|+.++
T Consensus 185 ~~L~~i~k~egi-~id~~al~~La~~s~G~lr~al~~Ldkl~~~----~~~~It~~~V~~~l 241 (486)
T PRK14953 185 EYLKRICNEEKI-EYEEKALDLLAQASEGGMRDAASLLDQASTY----GEGKVTIKVVEEFL 241 (486)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh----cCCCcCHHHHHHHh
Confidence 378889999998 599999999998885 5555556555544 24468888888754
No 108
>KOG3901 consensus Transcription initiation factor IID subunit [Transcription]
Probab=58.71 E-value=34 Score=26.67 Aligned_cols=42 Identities=12% Similarity=0.364 Sum_probs=33.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 29 PRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 29 p~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
++.+..|=++.-.|+++++.-|.... .|..+.+||+..+|+-
T Consensus 30 ~~tv~~Le~iV~~Yi~elt~~a~~~g---~rgk~~veD~~f~lRk 71 (109)
T KOG3901|consen 30 PETVDLLEDIVLEYITELTHAAMEIG---KRGKVKVEDFKFLLRK 71 (109)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHhc---ccCceeHHHHHHHHHh
Confidence 45678888888888888866665555 5677999999999975
No 109
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=57.99 E-value=54 Score=27.03 Aligned_cols=70 Identities=16% Similarity=0.217 Sum_probs=54.4
Q ss_pred CCCCChhHHHHHHHHHhCCC--cccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhcc
Q 030548 5 DEDLPRDAKIVKSLLKSMGV--EDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNS 77 (175)
Q Consensus 5 ~~~~PrDa~~I~~ILks~Gv--~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~ 77 (175)
+-.+|+- .|..|+++|== -+|--++...+.+-+-.++.=|-.+|...++.-.|+||..+-|--|++. ++|
T Consensus 10 e~sLPkA--tv~KmIke~lP~d~rvakeareliincCvEFI~liSsEAneic~~e~KKTIa~EHV~KALe~-LgF 81 (156)
T KOG0871|consen 10 ELSLPKA--TVNKMIKEMLPKDVRVAKEARELIINCCVEFINLISSEANEICNKEAKKTIAPEHVIKALEN-LGF 81 (156)
T ss_pred cccCcHH--HHHHHHHHhCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcccCCHHHHHHHHHH-cch
Confidence 3367774 46666666621 2677777788888888888888999999999999999999999999977 543
No 110
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=57.08 E-value=33 Score=33.76 Aligned_cols=53 Identities=17% Similarity=0.296 Sum_probs=38.2
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHH
Q 030548 14 IVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAV 71 (175)
Q Consensus 14 ~I~~ILks~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI 71 (175)
++..+++..|+. |+++++..|.+++. |++..+|..+ + ..|.+.|+.++|+-++
T Consensus 186 ~L~~il~~egi~-id~eal~lIA~~s~GdlR~Al~lLeql---l-~~g~~~It~d~V~~~l 241 (624)
T PRK14959 186 HLTKVLGREGVD-YDPAAVRLIARRAAGSVRDSMSLLGQV---L-ALGESRLTIDGARGVL 241 (624)
T ss_pred HHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHH---H-HhcCCCcCHHHHHHHh
Confidence 566777788874 99999999999987 4555665544 2 2366689988876544
No 111
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=56.77 E-value=31 Score=34.83 Aligned_cols=55 Identities=18% Similarity=0.168 Sum_probs=38.7
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHH
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVK 68 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVr 68 (175)
.+|.+|++..|+. +++.++..|+.++..-..+++.....+...++...|+.++|+
T Consensus 186 ~~L~~il~~EGv~-id~eal~lLa~~sgGdlR~Al~eLEKLia~~~~~~IT~e~V~ 240 (824)
T PRK07764 186 GYLERICAQEGVP-VEPGVLPLVIRAGGGSVRDSLSVLDQLLAGAGPEGVTYERAV 240 (824)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCCCCCHHHHH
Confidence 4788889999985 999999999888775454444444444444566667777554
No 112
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=56.53 E-value=32 Score=32.87 Aligned_cols=56 Identities=13% Similarity=0.102 Sum_probs=38.6
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHH
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLA 70 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLA 70 (175)
.++..+++..|+. ++++++..|.+.+.--...++.....++.+ +...|+.+||+..
T Consensus 186 ~~L~~~a~~egl~-i~~eal~~La~~s~Gdlr~al~~LekL~~y-~~~~It~e~V~~l 241 (585)
T PRK14950 186 AHLRKIAAAEGIN-LEPGALEAIARAATGSMRDAENLLQQLATT-YGGEISLSQVQSL 241 (585)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cCCCCCHHHHHHH
Confidence 3556667777875 999999999988865455555544455544 4557999998753
No 113
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=56.41 E-value=74 Score=28.90 Aligned_cols=67 Identities=22% Similarity=0.282 Sum_probs=53.8
Q ss_pred CCChhHHHHHHHHHhC---C--CcccChHHHHHHHHHHH------HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 7 DLPRDAKIVKSLLKSM---G--VEDYEPRVIHQFLELWY------RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 7 ~~PrDa~~I~~ILks~---G--v~~yep~Vv~qLlEfay------rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
.-|-++.=|..||+.= | -..+++.|+..-..++- |++-++|.-|-..|+--|+.+|+.++|+.|...
T Consensus 187 F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A~eiAe~~~~~~v~~~~v~~a~~~ 264 (366)
T COG1474 187 FPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAEREGSRKVSEDHVREAQEE 264 (366)
T ss_pred eCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHH
Confidence 4567788888888652 3 23688888888777765 788999999999999999999999999999433
No 114
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=56.18 E-value=41 Score=33.72 Aligned_cols=53 Identities=23% Similarity=0.306 Sum_probs=39.9
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHH
Q 030548 12 AKIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKL 69 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrL 69 (175)
..++..|++..|+. +++.++..+.+.+. |.+..++..+..| |++.|+.+||+.
T Consensus 183 ~k~L~~Il~kEgI~-id~eAL~~IA~~S~GdLRdALnLLDQaIay----g~g~IT~edV~~ 238 (702)
T PRK14960 183 TKHLGAILEKEQIA-ADQDAIWQIAESAQGSLRDALSLTDQAIAY----GQGAVHHQDVKE 238 (702)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHh----cCCCcCHHHHHH
Confidence 45778889999984 99999999988876 5555666655544 456788888865
No 115
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=56.10 E-value=32 Score=32.56 Aligned_cols=67 Identities=16% Similarity=0.406 Sum_probs=52.5
Q ss_pred ChhHHHHHHHHH----hCCCcccChHHHHHHHHHH----HHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030548 9 PRDAKIVKSLLK----SMGVEDYEPRVIHQFLELW----YRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVN 76 (175)
Q Consensus 9 PrDa~~I~~ILk----s~Gv~~yep~Vv~qLlEfa----yrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 76 (175)
|-...-|+.||+ ..+| ..++++...|.+.- -||+..+|.=|...|..-|++.|.++||.-|...-++
T Consensus 360 py~~~EireIi~iRa~ee~i-~l~~~Ale~L~~ig~etSLRYa~qLL~pa~iiA~~rg~~~V~~~dVe~a~~lF~D 434 (450)
T COG1224 360 PYSREEIREIIRIRAKEEDI-ELSDDALEYLTDIGEETSLRYAVQLLTPASIIAKRRGSKRVEVEDVERAKELFLD 434 (450)
T ss_pred CCCHHHHHHHHHHhhhhhcc-ccCHHHHHHHHhhchhhhHHHHHHhccHHHHHHHHhCCCeeehhHHHHHHHHHhh
Confidence 333445555554 4465 48999999998765 4899999999999999999999999999998866443
No 116
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=55.56 E-value=45 Score=31.90 Aligned_cols=54 Identities=19% Similarity=0.310 Sum_probs=40.2
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHH
Q 030548 12 AKIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLA 70 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLA 70 (175)
..++..+++..|+. ++++++..|..++. |.+..+|..+..|+ ...|+.+||+-.
T Consensus 184 ~~~L~~i~~~egi~-i~~~al~~ia~~s~G~~R~al~~Ldq~~~~~----~~~It~~~V~~v 240 (559)
T PRK05563 184 VERLKYILDKEGIE-YEDEALRLIARAAEGGMRDALSILDQAISFG----DGKVTYEDALEV 240 (559)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc----cCCCCHHHHHHH
Confidence 35677788889985 89999999888875 67777777776663 346888877643
No 117
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=54.85 E-value=37 Score=32.24 Aligned_cols=54 Identities=15% Similarity=0.335 Sum_probs=39.7
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHH
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAV 71 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI 71 (175)
.++..+++..|+. +++.+...|.+++. |.+...+..|..| |...|+.+||+..+
T Consensus 185 ~~L~~il~~egi~-~~~~al~~la~~s~Gslr~al~lldqai~~----~~~~I~~~~v~~~~ 241 (527)
T PRK14969 185 SHLQHILEQENIP-FDATALQLLARAAAGSMRDALSLLDQAIAY----GGGTVNESEVRAML 241 (527)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHh----cCCCcCHHHHHHHH
Confidence 3667788888975 99999999998876 4566666666555 46678888877654
No 118
>PRK09087 hypothetical protein; Validated
Probab=54.74 E-value=99 Score=25.81 Aligned_cols=58 Identities=10% Similarity=0.080 Sum_probs=41.7
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHH---HHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 14 IVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLT---DAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 14 ~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~---DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
++.+.++..|+ ..+++|+..|++-+.|-...+.. ....+|...| +.||...+|-+++.
T Consensus 161 iL~~~~~~~~~-~l~~ev~~~La~~~~r~~~~l~~~l~~L~~~~~~~~-~~it~~~~~~~l~~ 221 (226)
T PRK09087 161 VIFKLFADRQL-YVDPHVVYYLVSRMERSLFAAQTIVDRLDRLALERK-SRITRALAAEVLNE 221 (226)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhC-CCCCHHHHHHHHHh
Confidence 44445556687 49999999999999988777776 3334444445 45999999888764
No 119
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=53.89 E-value=36 Score=33.03 Aligned_cols=53 Identities=13% Similarity=0.092 Sum_probs=36.9
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHH
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKL 69 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrL 69 (175)
.++..|++..|+. +++.+...+.+++. |.+..+|+.+..| +|...|+.++|..
T Consensus 184 ~~L~~i~~~egi~-i~~~al~~Ia~~s~GdlR~aln~Ldql~~~---~~~~~It~~~v~~ 239 (584)
T PRK14952 184 ALIARICEQEGVV-VDDAVYPLVIRAGGGSPRDTLSVLDQLLAG---AADTHVTYQRALG 239 (584)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHhc---cCCCCcCHHHHHH
Confidence 4788999999984 89999888888765 4555555555444 4455677666653
No 120
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=53.58 E-value=48 Score=31.97 Aligned_cols=53 Identities=28% Similarity=0.409 Sum_probs=40.2
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHH
Q 030548 12 AKIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKL 69 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrL 69 (175)
.+++..|++..|+. +++++...|.+.+. |.+..+|+.|..|+ +..|+.++|..
T Consensus 182 ~~~L~~Il~~EGi~-i~~~Al~~Ia~~s~GdlR~alnlLdqai~~~----~~~It~~~V~~ 237 (535)
T PRK08451 182 ISHLKTILEKEGVS-YEPEALEILARSGNGSLRDTLTLLDQAIIYC----KNAITESKVAD 237 (535)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHcCCcHHHHHHHHHHHHHhc----CCCCCHHHHHH
Confidence 45778888999985 99999999998865 67777777777775 34577776653
No 121
>PF07704 PSK_trans_fac: Rv0623-like transcription factor; InterPro: IPR011660 This entry represents the Rv0623 (P96913 from SWISSPROT)-like group of transcription factors associated with the PSK operon [].
Probab=53.48 E-value=41 Score=24.27 Aligned_cols=54 Identities=19% Similarity=0.290 Sum_probs=41.1
Q ss_pred HHHHHHHhHhCCCCCCHHHHHHHHHHhhccccCCCCcHHHHHHHHHhhcCCCCCCC
Q 030548 48 TDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFSQPPAREVLLELAKNRNKIPLPKS 103 (175)
Q Consensus 48 ~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f~~pppre~LlelA~e~N~~PLP~i 103 (175)
.-|..+|...|- ++ .+-|+.|++.++...-...++.+.|..+.......+++.-
T Consensus 12 ~LareLA~~tG~-s~-TeAVr~AL~~~L~~~~~~~~l~~~l~~~~~~~~~~~~~~~ 65 (82)
T PF07704_consen 12 RLARELARLTGE-SK-TEAVRRALRERLERRRRAEPLLERLAAIIRRCAAAPLPPP 65 (82)
T ss_pred HHHHHHHHHHCC-CH-HHHHHHHHHHHHHhccccccHHHHHHHHHHHhhccccCCC
Confidence 345667777776 44 4889999999998777778999999998766777666654
No 122
>smart00350 MCM minichromosome maintenance proteins.
Probab=53.25 E-value=22 Score=33.31 Aligned_cols=30 Identities=10% Similarity=0.149 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 44 VDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 44 ~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
..++.-|..+|...+|..|+.+||+.||+.
T Consensus 474 ~sliRla~A~A~l~~r~~V~~~Dv~~ai~l 503 (509)
T smart00350 474 ESIIRLSEAHAKMRLSDVVEEADVEEAIRL 503 (509)
T ss_pred HHHHHHHHHHHHHcCCCccCHHHHHHHHHH
Confidence 456677888899999999999999999986
No 123
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=51.96 E-value=46 Score=30.95 Aligned_cols=52 Identities=13% Similarity=0.067 Sum_probs=35.9
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHH
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKL 69 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrL 69 (175)
.++..+++..|++ ++++++..|++.+. |.+...++....| .| +.|+.++|.-
T Consensus 187 ~~L~~~~~~eg~~-i~~~al~~L~~~s~gdlr~a~~~Lekl~~~---~~-~~It~~~V~~ 241 (451)
T PRK06305 187 DKLALIAKQEGIE-TSREALLPIARAAQGSLRDAESLYDYVVGL---FP-KSLDPDSVAK 241 (451)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHh---cc-CCcCHHHHHH
Confidence 3667777888975 89999999999885 4555555554444 34 3388877654
No 124
>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]. It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....
Probab=51.64 E-value=88 Score=22.48 Aligned_cols=66 Identities=12% Similarity=0.076 Sum_probs=41.8
Q ss_pred hHHHHHHHHHhCCCcccChHHHHHHHHHHHHH-HHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030548 11 DAKIVKSLLKSMGVEDYEPRVIHQFLELWYRY-VVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVN 76 (175)
Q Consensus 11 Da~~I~~ILks~Gv~~yep~Vv~qLlEfayrY-t~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 76 (175)
|..=...-|+.+++..+-+.|+.++++.+-.- ....-.=+..++....++.++.+++..|....++
T Consensus 17 d~~ea~~~l~el~~~~~~~~vv~~~l~~~le~~~~~r~~~~~Ll~~L~~~~~~~~~~~~~gf~~~l~ 83 (113)
T PF02847_consen 17 DVDEAVECLKELKLPSQHHEVVKVILECALEEKKSYREYYSKLLSHLCKRKLISKEQFQEGFEDLLE 83 (113)
T ss_dssp -HHHHHHHHHHTT-GGGHHHHHHHHHHHHHTSSHHHHHHHHHHHHHHHHTTSS-HHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHhCCCccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHh
Confidence 44445556677888888888888888877644 2222222333344455788999999999987654
No 125
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=50.10 E-value=47 Score=31.47 Aligned_cols=55 Identities=18% Similarity=0.140 Sum_probs=39.6
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHH
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLA 70 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLA 70 (175)
.++..+++..|++ ++++++..|.+.+.-....++.....+... ...|+.++|...
T Consensus 182 ~~L~~i~~~egi~-i~~~Al~~ia~~s~GdlR~aln~Lekl~~~--~~~It~~~V~~~ 236 (504)
T PRK14963 182 GKLRRLLEAEGRE-AEPEALQLVARLADGAMRDAESLLERLLAL--GTPVTRKQVEEA 236 (504)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHhc--CCCCCHHHHHHH
Confidence 4677888899985 899999999999886665555555444333 346888887755
No 126
>PRK08727 hypothetical protein; Validated
Probab=49.83 E-value=70 Score=26.57 Aligned_cols=62 Identities=15% Similarity=0.126 Sum_probs=43.2
Q ss_pred ChhHHHHHHHHHh----CCCcccChHHHHHHHHHHHHHHHHH---HHHHHHHHhHhCCCCCCHHHHHHHHH
Q 030548 9 PRDAKIVKSLLKS----MGVEDYEPRVIHQFLELWYRYVVDV---LTDAQVYSEHAGKNTIDCDDVKLAVQ 72 (175)
Q Consensus 9 PrDa~~I~~ILks----~Gv~~yep~Vv~qLlEfayrYt~~V---L~DA~~yA~HAgR~tI~~eDVrLAI~ 72 (175)
|-|...+..||+. -|+ .++++++..|++.+.|-...+ |+....+|...+| .|+.+.|+-.++
T Consensus 161 ~~~~e~~~~iL~~~a~~~~l-~l~~e~~~~La~~~~rd~r~~l~~L~~l~~~~~~~~~-~it~~~~~~~l~ 229 (233)
T PRK08727 161 VLDDVARAAVLRERAQRRGL-ALDEAAIDWLLTHGERELAGLVALLDRLDRESLAAKR-RVTVPFLRRVLE 229 (233)
T ss_pred CCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCC-CCCHHHHHHHHh
Confidence 4444555555554 476 599999999999998655555 7766656665565 699888887664
No 127
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=49.67 E-value=52 Score=32.30 Aligned_cols=55 Identities=22% Similarity=0.268 Sum_probs=38.4
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHH
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKL 69 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrL 69 (175)
.++..+++..|+. +++.++..|++++..-...++.....++.+.|.. |+.+||..
T Consensus 185 ~~L~~il~kegi~-Is~eal~~La~lS~GdlR~AlnlLekL~~y~~~~-It~e~V~e 239 (605)
T PRK05896 185 ELLKSIAKKEKIK-IEDNAIDKIADLADGSLRDGLSILDQLSTFKNSE-IDIEDINK 239 (605)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHcCCcHHHHHHHHHHHHhhcCCC-CCHHHHHH
Confidence 3777888888874 9999999999998754444444444445555543 88877765
No 128
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=48.93 E-value=53 Score=31.65 Aligned_cols=54 Identities=7% Similarity=0.153 Sum_probs=38.5
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHH---HHHHHHHHHHHHHhHhCCCCCCHHHHHHHH
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWYR---YVVDVLTDAQVYSEHAGKNTIDCDDVKLAV 71 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfayr---Yt~~VL~DA~~yA~HAgR~tI~~eDVrLAI 71 (175)
+++..+++..|+. +++++...|++.+.- .+...|..+..| ++ ..|+.++|+-++
T Consensus 185 ~~L~~i~~~egi~-id~eAl~lLa~~s~GdlR~alslLdklis~---~~-~~It~e~V~~ll 241 (563)
T PRK06647 185 NMLKKVCLEDQIK-YEDEALKWIAYKSTGSVRDAYTLFDQVVSF---SD-SDITLEQIRSKM 241 (563)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHhh---cC-CCCCHHHHHHHh
Confidence 4677888888975 999999999998764 555555555444 34 458888877653
No 129
>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]
Probab=48.33 E-value=47 Score=30.99 Aligned_cols=56 Identities=23% Similarity=0.433 Sum_probs=46.0
Q ss_pred HhCCCcccChHHHHHHHHH----HHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030548 20 KSMGVEDYEPRVIHQFLEL----WYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVN 76 (175)
Q Consensus 20 ks~Gv~~yep~Vv~qLlEf----ayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 76 (175)
+.-|++ +++++...|.+. .-||+..+|.-|..+|...||+.|.++||.-....-++
T Consensus 381 ~~E~l~-~~e~a~~~l~~~gt~tsLRy~vqLl~p~~~~ak~~g~~~i~v~dvee~~~Lf~D 440 (456)
T KOG1942|consen 381 QVEGLQ-VEEEALDLLAEIGTSTSLRYAVQLLTPASILAKTNGRKEISVEDVEEVTELFLD 440 (456)
T ss_pred hhhcce-ecHHHHHHHHhhccchhHHHHHHhcCHHHHHHHHcCCceeecccHHHHHHHHHh
Confidence 344664 889988888874 45999999999999999999999999999877665443
No 130
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=46.93 E-value=57 Score=31.99 Aligned_cols=54 Identities=13% Similarity=0.196 Sum_probs=38.3
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHH---HHHHHHHHHHHHHhHhCCCCCCHHHHHHH
Q 030548 12 AKIVKSLLKSMGVEDYEPRVIHQFLELWYR---YVVDVLTDAQVYSEHAGKNTIDCDDVKLA 70 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfayr---Yt~~VL~DA~~yA~HAgR~tI~~eDVrLA 70 (175)
..++..+++.-|+. +++.+...|.+.+.. .+..++..+..| |...|+.++|+-.
T Consensus 189 ~~~L~~i~~~egi~-ie~~AL~~La~~s~GslR~al~lLdq~ia~----~~~~It~~~V~~~ 245 (618)
T PRK14951 189 LEHLTQVLAAENVP-AEPQALRLLARAARGSMRDALSLTDQAIAF----GSGQLQEAAVRQM 245 (618)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHh----cCCCcCHHHHHHH
Confidence 35677888889985 999999999998764 444455445544 3456888887653
No 131
>PLN03025 replication factor C subunit; Provisional
Probab=45.79 E-value=59 Score=28.20 Aligned_cols=55 Identities=15% Similarity=0.153 Sum_probs=37.4
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHH
Q 030548 12 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKL 69 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrL 69 (175)
..++..+++.-|+. +++.++..|++.+..=...++..-... +.|...|+.++|.-
T Consensus 164 ~~~L~~i~~~egi~-i~~~~l~~i~~~~~gDlR~aln~Lq~~--~~~~~~i~~~~v~~ 218 (319)
T PLN03025 164 LGRLMKVVEAEKVP-YVPEGLEAIIFTADGDMRQALNNLQAT--HSGFGFVNQENVFK 218 (319)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHH--HhcCCCCCHHHHHH
Confidence 34667788888985 999999999998875444444444322 23556788888753
No 132
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=45.79 E-value=1.7e+02 Score=28.07 Aligned_cols=54 Identities=13% Similarity=0.180 Sum_probs=38.6
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHH
Q 030548 12 AKIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLA 70 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLA 70 (175)
...+..|++..|+ .|+++++..+.+.+. |.+-.+|+.+..++ ...|+.++|+-.
T Consensus 186 ~~~L~~i~~~Egi-~~e~eAL~~Ia~~S~Gd~RdAL~lLeq~i~~~----~~~it~~~V~~~ 242 (484)
T PRK14956 186 QDYSEKLCKIENV-QYDQEGLFWIAKKGDGSVRDMLSFMEQAIVFT----DSKLTGVKIRKM 242 (484)
T ss_pred HHHHHHHHHHcCC-CCCHHHHHHHHHHcCChHHHHHHHHHHHHHhC----CCCcCHHHHHHH
Confidence 3567788888898 599999999998887 56666666665542 235888877543
No 133
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=44.96 E-value=1.1e+02 Score=30.18 Aligned_cols=99 Identities=15% Similarity=0.202 Sum_probs=59.2
Q ss_pred ChhHHHHHHHHH----hCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhC--------------------CCC
Q 030548 9 PRDAKIVKSLLK----SMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAG--------------------KNT 61 (175)
Q Consensus 9 PrDa~~I~~ILk----s~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAg--------------------R~t 61 (175)
|.|......||+ .-|+ ..+++|+..|+.-+. |....+|..-..||...+ +..
T Consensus 445 ~PD~EtR~aIL~kka~~r~l-~l~~eVi~yLa~r~~rnvR~LegaL~rL~a~a~~~~~~itl~la~~vL~~~~~~~~~~~ 523 (617)
T PRK14086 445 PPELETRIAILRKKAVQEQL-NAPPEVLEFIASRISRNIRELEGALIRVTAFASLNRQPVDLGLTEIVLRDLIPEDSAPE 523 (617)
T ss_pred CCCHHHHHHHHHHHHHhcCC-CCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccccCCc
Confidence 344444444544 4465 488999999988877 444444444444444333 224
Q ss_pred CCHHHHHHHHHHhhcccc----------CCCCcHHHHHHHHHhhcCCCCCCCCCCCC
Q 030548 62 IDCDDVKLAVQSKVNSSF----------SQPPAREVLLELAKNRNKIPLPKSIAGRG 108 (175)
Q Consensus 62 I~~eDVrLAI~~r~~~~f----------~~pppre~LlelA~e~N~~PLP~i~~~~G 108 (175)
|+.++|.-++....+... .-..+|.+-|=||++.-..+|+.|-..+|
T Consensus 524 it~d~I~~~Va~~f~v~~~dl~s~~R~~~i~~aRqiAMYL~r~lt~~Sl~~IG~~Fg 580 (617)
T PRK14086 524 ITAAAIMAATADYFGLTVEDLCGTSRSRVLVTARQIAMYLCRELTDLSLPKIGQQFG 580 (617)
T ss_pred CCHHHHHHHHHHHhCCCHHHHhCCCCCcccchHHHHHHHHHHHHcCCCHHHHHHHhC
Confidence 666666666655433211 01256778888888888888888876666
No 134
>PF09077 Phage-MuB_C: Mu B transposition protein, C terminal ; InterPro: IPR009084 Bacteriophage Mu can integrate into the host bacterial genome and replicate via transposition. Mu requires the activity of four proteins for DNA transposition. Two of these proteins are the phage-encoded A and B transposition proteins, while the other two are host-specified accessory factors HU and IHF. These four proteins can form nucleoprotein complexes (transposomes), which enable strand transfer. The stable protein-DNA intermediate is subsequently disassembled prior to DNA replication by host proteins. The Mu B transposition protein is an ATP-dependent, DNA-binding protein required for target capture and immunity, as well as for activating transpososome function []. The C-terminal domain of the B transposition protein is believed to be involved in both DNA-binding and protein-protein contacts with the Mu A transposition protein. The structure of the C-terminal domain consists of four helices in an irregular array [].; GO: 0003677 DNA binding, 0006313 transposition, DNA-mediated; PDB: 1F6V_A.
Probab=44.29 E-value=10 Score=27.71 Aligned_cols=55 Identities=18% Similarity=0.329 Sum_probs=36.7
Q ss_pred HHHHHHhCCCcccChHHHHHHHHHHH-----HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHH
Q 030548 15 VKSLLKSMGVEDYEPRVIHQFLELWY-----RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQ 72 (175)
Q Consensus 15 I~~ILks~Gv~~yep~Vv~qLlEfay-----rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 72 (175)
|..|++.-||+ ++++...|.+.+. |-.+..|.-|..+|.-.|.. |+.++|+.|-+
T Consensus 17 i~Ai~~AWgI~--d~~~~~~l~~I~~k~GaLR~l~ktLrlA~m~A~g~g~~-i~~~~i~~A~~ 76 (78)
T PF09077_consen 17 IKAIAKAWGIT--DKEERKLLQSIAEKPGALRQLTKTLRLAAMFAKGEGEA-ITADHIRAAWK 76 (78)
T ss_dssp TTHHHHSSSSS--SSHHHHHHHTTSSS-S-HHHHHHHHGGGT-TT-TTS---SSHHHHHHHHT
T ss_pred HHHHHHHhCCC--CHHHHHHHHHHcccccHHHHHHHHHHHHHHHhccCCCc-CCHHHHHHHHH
Confidence 34678888995 4555555555544 66777777777777777766 99999998853
No 135
>TIGR00153 conserved hypothetical protein TIGR00153. An apparent homolog with a suggested function is Pit accessory protein from Sinorhizobium meliloti, which may be involved in phosphate (Pi) transport.
Probab=43.27 E-value=38 Score=27.89 Aligned_cols=36 Identities=28% Similarity=0.413 Sum_probs=31.7
Q ss_pred CHHHHHHHHHHhhccccCCCCcHHHHHHHHHhhcCC
Q 030548 63 DCDDVKLAVQSKVNSSFSQPPAREVLLELAKNRNKI 98 (175)
Q Consensus 63 ~~eDVrLAI~~r~~~~f~~pppre~LlelA~e~N~~ 98 (175)
.+|+|+--|...+...|..|-.|+.++.++.....+
T Consensus 58 eaD~i~~~i~~~L~~~fitP~dReDi~~L~~~lD~I 93 (216)
T TIGR00153 58 EADEIKREIRLNLEKGAFLPNDRRDLLELAELLDEI 93 (216)
T ss_pred HHHHHHHHHHHhCcccccCcCcHHHHHHHHHHHHHH
Confidence 468999999999999999999999999999876654
No 136
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=42.74 E-value=2.5e+02 Score=26.10 Aligned_cols=94 Identities=15% Similarity=0.196 Sum_probs=52.8
Q ss_pred HHHHHHhCCCc-ccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhC-CCCCCHHHHHHHHHHhhcc------------
Q 030548 15 VKSLLKSMGVE-DYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAG-KNTIDCDDVKLAVQSKVNS------------ 77 (175)
Q Consensus 15 I~~ILks~Gv~-~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAg-R~tI~~eDVrLAI~~r~~~------------ 77 (175)
+.+.++..|.. .++++|+..|.+.+. |-...+|..+..+|.... +..|+.+.|+-+++.-...
T Consensus 284 L~~~~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL~~l~~~a~~~~~~~~it~~~v~~~l~~~~~~~~~~~t~~~I~~ 363 (450)
T PRK14087 284 IKKEIKNQNIKQEVTEEAINFISNYYSDDVRKIKGSVSRLNFWSQQNPEEKIITIEIVSDLFRDIPTSKLGILNVKKIKE 363 (450)
T ss_pred HHHHHHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHHHHHHHHHhcccCCCCCCHHHHHHHHhhccccccCCCCHHHHHH
Confidence 34444456753 699999999988887 444444544444443331 2346666666555431100
Q ss_pred ----ccC----------C----CCcHHHHHHHHHhhcCCCCCCCCCCCC
Q 030548 78 ----SFS----------Q----PPAREVLLELAKNRNKIPLPKSIAGRG 108 (175)
Q Consensus 78 ----~f~----------~----pppre~LlelA~e~N~~PLP~i~~~~G 108 (175)
.|. . ..||..-|=||++.-..+||.|-..+|
T Consensus 364 ~Va~~~~i~~~dl~s~~R~~~i~~~RqiamyL~r~~t~~sl~~IG~~Fg 412 (450)
T PRK14087 364 VVSEKYGISVNAIDGKARSKSIVTARHIAMYLTKEILNHTLAQIGEEFG 412 (450)
T ss_pred HHHHHcCCCHHHHhCCCCCccccHHHHHHHHHHHHHcCCCHHHHHHHhC
Confidence 111 0 146666777777777777777755554
No 137
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=42.60 E-value=68 Score=30.79 Aligned_cols=53 Identities=11% Similarity=0.142 Sum_probs=39.1
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHH
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLA 70 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLA 70 (175)
.++..|++..|++ +++.+...|.+.+. |++...|..+..|.. ..|+.+||...
T Consensus 185 ~~L~~i~~~egi~-i~~~al~~la~~a~G~lr~al~~Ldqliay~g----~~It~edV~~l 240 (576)
T PRK14965 185 DRLRYIADQEGIS-ISDAALALVARKGDGSMRDSLSTLDQVLAFCG----DAVGDDDVAEL 240 (576)
T ss_pred HHHHHHHHHhCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc----CCCCHHHHHHH
Confidence 4677888899985 99999999888876 566666666666643 34888877643
No 138
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]
Probab=42.60 E-value=45 Score=29.37 Aligned_cols=72 Identities=15% Similarity=0.230 Sum_probs=59.6
Q ss_pred HHHHHHHhC-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccCCCCcHHHHHHHH
Q 030548 14 IVKSLLKSM-GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFSQPPAREVLLELA 92 (175)
Q Consensus 14 ~I~~ILks~-Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f~~pppre~LlelA 92 (175)
-|++++|.- ||.-++.+|+--+...++.++.++--.|-.-|+...|.|+...||--|++.--.| +||+.+.
T Consensus 114 RIkkvMKtdedVkMisaEaPvlFak~~EiFI~ELTmRAW~~ae~NkRRtLQksDia~Av~kSeMf--------DFLidiv 185 (286)
T COG5208 114 RIKKVMKTDEDVKMISAEAPVLFAKITEIFIEELTMRAWINAEENKRRTLQKSDIAAAVKKSEMF--------DFLIDIV 185 (286)
T ss_pred HHHHHHhcccchhheecccchHHHHHHHHHHHHHHHHHHHHHhHhhhhHHHHHHHHHHHHHHHHH--------hHHhhhc
Confidence 355566654 7777888999999999999999999999999999999999999999999764434 5677765
Q ss_pred H
Q 030548 93 K 93 (175)
Q Consensus 93 ~ 93 (175)
-
T Consensus 186 p 186 (286)
T COG5208 186 P 186 (286)
T ss_pred c
Confidence 5
No 139
>KOG1659 consensus Class 2 transcription repressor NC2, alpha subunit (DRAP1) [Transcription]
Probab=41.81 E-value=83 Score=27.39 Aligned_cols=69 Identities=17% Similarity=0.226 Sum_probs=50.9
Q ss_pred HHHHHHhC-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccCCCCcHHHHHHH
Q 030548 15 VKSLLKSM-GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFSQPPAREVLLEL 91 (175)
Q Consensus 15 I~~ILks~-Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f~~pppre~Llel 91 (175)
|+.|+.+- .|-.+..-|+--.-.-++-++.+++..+...+..-|-++|+.+-+|-||.+--.| +||.++
T Consensus 19 iKKIMQ~dEdIGKvaqavPViisralElFl~~l~~~t~~~t~~~~aKt~s~~hlkq~v~~~~~F--------dFLk~~ 88 (224)
T KOG1659|consen 19 IKKIMQSDEDIGKVAQAVPVIISRALELFLESLLQKTLEITRSRGAKTVSSSHLKQAVESDPKF--------DFLKEV 88 (224)
T ss_pred HHHHHhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCccccCHHHHHHHHhccchh--------HHHHHH
Confidence 45555443 3335555566555666677899999999999999999999999999999884433 557663
No 140
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=41.68 E-value=79 Score=29.58 Aligned_cols=38 Identities=16% Similarity=0.117 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHh
Q 030548 37 ELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSK 74 (175)
Q Consensus 37 EfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r 74 (175)
.|.-.-...|+.+|-..|-..|+..|+.+|++.|+...
T Consensus 387 g~sgAdI~~i~~eA~~~Alr~~r~~Vt~~D~~~A~~~v 424 (438)
T PTZ00361 387 ELSGADIKAICTEAGLLALRERRMKVTQADFRKAKEKV 424 (438)
T ss_pred CCCHHHHHHHHHHHHHHHHHhcCCccCHHHHHHHHHHH
Confidence 34445566788999999999999999999999999774
No 141
>PRK06130 3-hydroxybutyryl-CoA dehydrogenase; Validated
Probab=41.39 E-value=1e+02 Score=26.31 Aligned_cols=69 Identities=16% Similarity=0.178 Sum_probs=46.5
Q ss_pred CCCCChhHHHHHHHHHhCCCc--ccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhcccc
Q 030548 5 DEDLPRDAKIVKSLLKSMGVE--DYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSF 79 (175)
Q Consensus 5 ~~~~PrDa~~I~~ILks~Gv~--~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f 79 (175)
.+.-+.+...+..+|..+|.. .++++.... ++.|+...++.+|..+.+..| ++.+||..|+..-.++-+
T Consensus 154 ~~t~~~~~~~v~~l~~~~G~~~v~~~~d~~G~---i~nr~~~~~~~Ea~~l~~~g~---~~~~~id~~~~~~~g~~~ 224 (311)
T PRK06130 154 DKTSPQTVATTMALLRSIGKRPVLVKKDIPGF---IANRIQHALAREAISLLEKGV---ASAEDIDEVVKWSLGIRL 224 (311)
T ss_pred CCCCHHHHHHHHHHHHHcCCEEEEEcCCCCCc---HHHHHHHHHHHHHHHHHHcCC---CCHHHHHHHHHhcCCCCc
Confidence 334567889999999999963 233333222 455555567888877765544 799999999976555543
No 142
>TIGR01446 DnaD_dom DnaD and phage-associated domain. This model represents the conserved domain of DnaD, part of Bacillus subtilis replication restart primosome, and of a number of phage-associated proteins. Members, both chromosomal or phage-associated, are found in the Bacillus/Clostridium group of Gram-positive bacteria.
Probab=41.30 E-value=84 Score=21.21 Aligned_cols=28 Identities=25% Similarity=0.364 Sum_probs=14.4
Q ss_pred ChhHHHHHHHHHhCCCcccChHHHHHHHHHH
Q 030548 9 PRDAKIVKSLLKSMGVEDYEPRVIHQFLELW 39 (175)
Q Consensus 9 PrDa~~I~~ILks~Gv~~yep~Vv~qLlEfa 39 (175)
|.+.+.|...+...| ++++|+..+++.|
T Consensus 15 ~~e~~~i~~~~~~~~---~~~evI~~ai~~a 42 (73)
T TIGR01446 15 PFEMEDLKYWLDEFG---NSPELIKEALKEA 42 (73)
T ss_pred HHHHHHHHHHHHHhC---CCHHHHHHHHHHH
Confidence 445555555555554 3455555555544
No 143
>PF04719 TAFII28: hTAFII28-like protein conserved region; InterPro: IPR006809 The general transcription factor, TFIID, consists of the TATA-binding protein (TBP) associated with a series of TBP-associated factors (TAFs) that together participate in the assembly of the transcription preinitiation complex. The conserved region is found at the C terminus of most member proteins. The crystal structure of hTAFII28 with hTAFII18 shows that this region is involved in the binding of these two subunits. The conserved region contains four alpha helices and three loops arranged as in histone H3 [, ].; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005634 nucleus; PDB: 1BH9_B 1BH8_B.
Probab=39.47 E-value=1.6e+02 Score=21.96 Aligned_cols=59 Identities=17% Similarity=0.298 Sum_probs=41.1
Q ss_pred HHHHHHHhC-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCC-CCCCHHHHHHHHH
Q 030548 14 IVKSLLKSM-GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGK-NTIDCDDVKLAVQ 72 (175)
Q Consensus 14 ~I~~ILks~-Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR-~tI~~eDVrLAI~ 72 (175)
.|++|+.+. |=+.+++.++..+--++.-|+.||.+.|+...+--+. .-|....++-|.+
T Consensus 28 ~ikkli~~~~~~qsv~~~v~i~v~g~aKvFVGEiVE~A~~Vq~~~~~~~pl~P~hlreA~r 88 (90)
T PF04719_consen 28 AIKKLINQVLGNQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGETGPLQPDHLREAYR 88 (90)
T ss_dssp HHHHHHHHHHS-S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SS--HHHHHHHHH
T ss_pred HHHHHHHHHcCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHH
Confidence 344555443 4357999999999999999999999999998876554 3688888888764
No 144
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=39.42 E-value=1e+02 Score=27.27 Aligned_cols=33 Identities=18% Similarity=0.280 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 41 RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 41 rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
+-...+..+|...|-..++..|+.+|+..|+..
T Consensus 330 ~dl~~l~~~A~~~a~~~~~~~i~~~d~~~a~~~ 362 (364)
T TIGR01242 330 ADLKAICTEAGMFAIREERDYVTMDDFIKAVEK 362 (364)
T ss_pred HHHHHHHHHHHHHHHHhCCCccCHHHHHHHHHH
Confidence 445577888888888889999999999999865
No 145
>PRK06893 DNA replication initiation factor; Validated
Probab=39.04 E-value=1.7e+02 Score=24.11 Aligned_cols=61 Identities=16% Similarity=0.104 Sum_probs=39.9
Q ss_pred ChhHHHHHHHHH----hCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHH
Q 030548 9 PRDAKIVKSLLK----SMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAV 71 (175)
Q Consensus 9 PrDa~~I~~ILk----s~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI 71 (175)
|.|-.....||+ ..|+ ..+++|+..|+..+. |....++...-..+-..|| .|+...||-++
T Consensus 160 ~pd~e~~~~iL~~~a~~~~l-~l~~~v~~~L~~~~~~d~r~l~~~l~~l~~~~~~~~~-~it~~~v~~~L 227 (229)
T PRK06893 160 DLTDEQKIIVLQRNAYQRGI-ELSDEVANFLLKRLDRDMHTLFDALDLLDKASLQAQR-KLTIPFVKEIL 227 (229)
T ss_pred CCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhcCC-CCCHHHHHHHh
Confidence 444454555555 5676 599999999999998 4555555554323332344 69999888765
No 146
>COG1378 Predicted transcriptional regulators [Transcription]
Probab=38.21 E-value=25 Score=30.28 Aligned_cols=37 Identities=19% Similarity=0.294 Sum_probs=32.1
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHH
Q 030548 14 IVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDA 50 (175)
Q Consensus 14 ~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA 50 (175)
-+...|+++|.++||-+|-..|+.+-..-+.+|+.-+
T Consensus 4 ~~~~~L~~lGlt~yEa~vY~aLl~~g~~tA~eis~~s 40 (247)
T COG1378 4 ELEENLQKLGLTEYEAKVYLALLCLGEATAKEISEAS 40 (247)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHHhCCccHHHHHHHc
Confidence 4678999999999999999999998887777777665
No 147
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=37.89 E-value=1e+02 Score=30.38 Aligned_cols=54 Identities=22% Similarity=0.316 Sum_probs=39.6
Q ss_pred CCCcccChHHHHHHHHHHHHHHHH---------HHHHHHHHHhHh----CCCCCCHHHHHHHHHHhhc
Q 030548 22 MGVEDYEPRVIHQFLELWYRYVVD---------VLTDAQVYSEHA----GKNTIDCDDVKLAVQSKVN 76 (175)
Q Consensus 22 ~Gv~~yep~Vv~qLlEfayrYt~~---------VL~DA~~yA~HA----gR~tI~~eDVrLAI~~r~~ 76 (175)
+++ .|+++++..+++++.||..+ ++.+|-...... .+..|+.+||.-++...++
T Consensus 365 ~~v-~i~~~al~~~~~ls~ryi~~r~~P~kai~lld~a~a~~~~~~~~~~~~~v~~~~i~~~i~~~tg 431 (731)
T TIGR02639 365 HHV-KYSDEALEAAVELSARYINDRFLPDKAIDVIDEAGASFRLRPKAKKKANVSVKDIENVVAKMAH 431 (731)
T ss_pred cCc-ccCHHHHHHHHHhhhcccccccCCHHHHHHHHHhhhhhhcCcccccccccCHHHHHHHHHHHhC
Confidence 354 59999999999999999744 566665443322 1356999999999987553
No 148
>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=36.31 E-value=85 Score=30.44 Aligned_cols=60 Identities=27% Similarity=0.228 Sum_probs=43.7
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHH--HHHHHHHHHHHHHHhHh--------CCCCCCHHHHHHHHHH
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWY--RYVVDVLTDAQVYSEHA--------GKNTIDCDDVKLAVQS 73 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfay--rYt~~VL~DA~~yA~HA--------gR~tI~~eDVrLAI~~ 73 (175)
.++..+++..|+ .+++.+...|.++.. |.+.++|.++..|+.+. ++..|+.+||+-+++.
T Consensus 360 ~Il~~~a~~~~v-~ls~eal~~L~~ys~~gRraln~L~~~~~~~~~~~~~~~~~~~~~~I~~edv~~~l~~ 429 (615)
T TIGR02903 360 LIVLNAAEKINV-HLAAGVEELIARYTIEGRKAVNILADVYGYALYRAAEAGKENDKVTITQDDVYEVIQI 429 (615)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHCCCcHHHHHHHHHHHHHHHHHHHHHhccCCCCeeECHHHHHHHhCC
Confidence 345566666676 489999888887653 77778899998775321 2347999999999976
No 149
>COG5247 BUR6 Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]
Probab=35.66 E-value=2.1e+02 Score=22.32 Aligned_cols=58 Identities=10% Similarity=0.170 Sum_probs=46.1
Q ss_pred HHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccCCCCcHHHHHHHHHhhcCCCCCC
Q 030548 37 ELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFSQPPAREVLLELAKNRNKIPLPK 102 (175)
Q Consensus 37 EfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f~~pppre~LlelA~e~N~~PLP~ 102 (175)
.-++-+..+|......-|+.-+-+.|+++=++-|+++--.| +||.++-.-+|..+-|.
T Consensus 52 kalE~Fl~~iv~~s~k~aR~~~skR~t~e~lk~a~~sdekF--------dFL~~~~~~~~~~~~~e 109 (113)
T COG5247 52 KALEMFLTEIVGLSLKEARKKSSKRMTSEFLKRATESDEKF--------DFLKNMEQFKNRETQPE 109 (113)
T ss_pred HHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHhhhHHH--------HHHHHHHHhcCCCCCcc
Confidence 34445788888889888988888999999999999884333 67888888888877654
No 150
>PRK15485 cobalt transport protein CbiQ; Provisional
Probab=35.40 E-value=1.4e+02 Score=25.03 Aligned_cols=34 Identities=24% Similarity=0.431 Sum_probs=28.1
Q ss_pred HHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHH
Q 030548 15 VKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQV 52 (175)
Q Consensus 15 I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~ 52 (175)
+-..|+.+|+- .+...++.++|||.--+++++..
T Consensus 138 l~~~L~~l~vP----~~~~~~~~l~~Rfi~~l~~e~~~ 171 (225)
T PRK15485 138 LIKLLKRAHIP----RLLTEQILLTWRFIFILLEEAAA 171 (225)
T ss_pred HHHHHHHcCCC----HHHHHHHHHHHHHHHHHHHHHHH
Confidence 44567888874 67999999999999999999854
No 151
>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=34.04 E-value=15 Score=29.74 Aligned_cols=53 Identities=19% Similarity=0.369 Sum_probs=39.2
Q ss_pred HHHHHhC-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHH
Q 030548 16 KSLLKSM-GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKL 69 (175)
Q Consensus 16 ~~ILks~-Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrL 69 (175)
.++++.. |+ ++.-.=...++||..+-..++|.-|..-|+..||..|..-|+=+
T Consensus 2 e~lFR~aa~L-dvdK~d~~r~~d~V~~Kl~DLl~va~~~Ak~ngRdvI~~~DLPI 55 (138)
T PF09123_consen 2 ERLFRKAAGL-DVDKNDAKRYSDFVEKKLYDLLLVAQENAKANGRDVIEPRDLPI 55 (138)
T ss_dssp HHHHHHHHS-----HHHHHHHHHHHHHHHHHCCCCHHHHHHHTT-SEE-GGGS--
T ss_pred hHHHHHHhcc-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeeccccCCc
Confidence 4566665 54 57788889999999999999999999999999999998877544
No 152
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=33.79 E-value=1.3e+02 Score=27.14 Aligned_cols=37 Identities=11% Similarity=0.144 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHh
Q 030548 38 LWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSK 74 (175)
Q Consensus 38 fayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r 74 (175)
|.-+-...++.+|..+|-..++..|+.+|+.-|+...
T Consensus 336 ~sgadl~~l~~eA~~~a~~~~~~~i~~~d~~~A~~~~ 372 (389)
T PRK03992 336 ASGADLKAICTEAGMFAIRDDRTEVTMEDFLKAIEKV 372 (389)
T ss_pred CCHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHH
Confidence 3446667888888888888899999999999999773
No 153
>PRK14700 recombination factor protein RarA; Provisional
Probab=33.37 E-value=1.7e+02 Score=26.44 Aligned_cols=63 Identities=11% Similarity=0.135 Sum_probs=45.8
Q ss_pred HHHHHHHHh---CCC--cccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhh
Q 030548 13 KIVKSLLKS---MGV--EDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 75 (175)
Q Consensus 13 ~~I~~ILks---~Gv--~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 75 (175)
.++.+.|++ .|- -.++++++..|.+++- |.+-.+|+-|...+...+...|+.++|+-+++.+.
T Consensus 46 ~il~ral~~~~~~~~~~~~i~~~al~~ia~~a~GDaR~aLN~LE~a~~~~~~~~~~~it~~~~~~~~~~~~ 116 (300)
T PRK14700 46 KLIEKALSQDEVLAKHKFKIDDGLYNAMHNYNEGDCRKILNLLERMFLISTRGDEIYLNKELFDQAVGETS 116 (300)
T ss_pred HHHHHHHHhhhccCCcCCCcCHHHHHHHHHhcCCHHHHHHHHHHHHHhhccccCCCccCHHHHHHHHhHHH
Confidence 466677764 231 2589999999999996 88888888877544333334599999999998753
No 154
>KOG1657 consensus CCAAT-binding factor, subunit C (HAP5) [Transcription]
Probab=33.27 E-value=74 Score=27.61 Aligned_cols=66 Identities=18% Similarity=0.217 Sum_probs=54.1
Q ss_pred HHHHHHhC-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccC
Q 030548 15 VKSLLKSM-GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFS 80 (175)
Q Consensus 15 I~~ILks~-Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f~ 80 (175)
|+.|+|+- .+.-+..+++.++.--++-+..++-..|-.+++-.+|+++...||--|+..-..|.|.
T Consensus 80 iKkimK~dedv~mI~~Eapvl~aka~E~Fi~elt~~sw~~Tee~~rrtl~~sdia~av~~s~~fdFL 146 (236)
T KOG1657|consen 80 IKKIMKSDEDVSMITAEAPVLFAKACELFITELTLRSWVHTEENKRRTLQKSDIAAAVTQSETFDFL 146 (236)
T ss_pred ccccccccccccccchhHHHHHHHHHHHHHHHHHHHhhhhhcccccccchHHHHHHHhccCCCccce
Confidence 55666655 6668899999999999999999999999999999999999999998888765555553
No 155
>PF13702 Lysozyme_like: Lysozyme-like
Probab=33.21 E-value=1.8e+02 Score=23.86 Aligned_cols=33 Identities=27% Similarity=0.399 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccCC
Q 030548 41 RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFSQ 81 (175)
Q Consensus 41 rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f~~ 81 (175)
++...-+.+++..|...|- +||++|||+ +.|..
T Consensus 65 ~~Gv~~fa~~l~~a~~~~~-----~di~~alQa---YNfG~ 97 (160)
T PF13702_consen 65 KQGVKYFADNLKKAKEKGP-----DDIKTALQA---YNFGS 97 (160)
T ss_pred HHHHHHHHHHHHHHHhcCc-----ccHHHHhhh---hcCCc
Confidence 5666667777776666554 999999998 44543
No 156
>PRK06620 hypothetical protein; Validated
Probab=32.61 E-value=2.6e+02 Score=23.09 Aligned_cols=56 Identities=13% Similarity=0.119 Sum_probs=35.8
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHH---HHHHHHhHhCCCCCCHHHHHHHH
Q 030548 14 IVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLT---DAQVYSEHAGKNTIDCDDVKLAV 71 (175)
Q Consensus 14 ~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~---DA~~yA~HAgR~tI~~eDVrLAI 71 (175)
++.+..+.-|+ ..+++|+..|++-+.|=+..++. ....+|...+ ..|+.+-++-++
T Consensus 155 ~l~k~~~~~~l-~l~~ev~~~L~~~~~~d~r~l~~~l~~l~~~~~~~~-~~it~~~~~~~l 213 (214)
T PRK06620 155 LIFKHFSISSV-TISRQIIDFLLVNLPREYSKIIEILENINYFALISK-RKITISLVKEVL 213 (214)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHcC-CCCCHHHHHHHh
Confidence 44445555676 49999999999998865555443 3323344334 468888777654
No 157
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=32.50 E-value=92 Score=29.17 Aligned_cols=99 Identities=19% Similarity=0.294 Sum_probs=63.9
Q ss_pred CChhHHHHHHHHHh----CCCcccChHHHHHHHHHHHHHHHHH---HHHHHHHHhHhC-------------------CCC
Q 030548 8 LPRDAKIVKSLLKS----MGVEDYEPRVIHQFLELWYRYVVDV---LTDAQVYSEHAG-------------------KNT 61 (175)
Q Consensus 8 ~PrDa~~I~~ILks----~Gv~~yep~Vv~qLlEfayrYt~~V---L~DA~~yA~HAg-------------------R~t 61 (175)
-|.|......||.. .|+ ..+++|+..++.-..+=+.++ |.....||...| .+
T Consensus 242 ~~Pd~e~r~aiL~kka~~~~~-~i~~ev~~~la~~~~~nvReLegaL~~l~~~a~~~~~~iTi~~v~e~L~~~~~~~~~- 319 (408)
T COG0593 242 EPPDDETRLAILRKKAEDRGI-EIPDEVLEFLAKRLDRNVRELEGALNRLDAFALFTKRAITIDLVKEILKDLLRAGEK- 319 (408)
T ss_pred CCCCHHHHHHHHHHHHHhcCC-CCCHHHHHHHHHHhhccHHHHHHHHHHHHHHHHhcCccCcHHHHHHHHHHhhccccc-
Confidence 35565555555554 365 489999888888777544433 333344444433 35
Q ss_pred CCHHHHHHHHHHhhccccC----------CCCcHHHHHHHHHhhcCCCCCCCCCCCC
Q 030548 62 IDCDDVKLAVQSKVNSSFS----------QPPAREVLLELAKNRNKIPLPKSIAGRG 108 (175)
Q Consensus 62 I~~eDVrLAI~~r~~~~f~----------~pppre~LlelA~e~N~~PLP~i~~~~G 108 (175)
|+.++|.-++....+-... -.-||..-|=||++.=...||.|-..+|
T Consensus 320 itie~I~~~Va~~y~v~~~dl~s~~R~~~i~~~RqiamyL~r~lt~~Slp~IG~~Fg 376 (408)
T COG0593 320 ITIEDIQKIVAEYYNVKVSDLLSKSRTRNIVRPRQIAMYLARELTNLSLPEIGKAFG 376 (408)
T ss_pred CCHHHHHHHHHHHhCCCHHHhhccccccccchHHHHHHHHHHHHccCcHHHHHHHhC
Confidence 7777777777654432111 1367888899999999999999877777
No 158
>PRK13531 regulatory ATPase RavA; Provisional
Probab=32.18 E-value=2.5e+02 Score=27.14 Aligned_cols=48 Identities=17% Similarity=0.135 Sum_probs=35.0
Q ss_pred ccChHHHHHHHHHHH-------------HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 26 DYEPRVIHQFLELWY-------------RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 26 ~yep~Vv~qLlEfay-------------rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
.+++.|...+.++.. |=...++.-|+.+|-..||..|+.+||++|.-.
T Consensus 223 ~v~d~v~eyI~~L~~~lr~~r~~~~~SpR~~~~l~~~akA~A~l~GR~~V~p~Dv~ll~~v 283 (498)
T PRK13531 223 TLPDHVFELIFQLRQQLDALPNAPYVSDRRWKKAIRLLQASAFFSGRDAIAPIDLILLKDC 283 (498)
T ss_pred eCCHHHHHHHHHHHHHHhcCCCCCCcCcHHHHHHHHHHHHHHHHCCCCCCCHHHHHHhHHH
Confidence 466666666666654 223456777888999999999999999976544
No 159
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=31.95 E-value=1.3e+02 Score=30.27 Aligned_cols=52 Identities=15% Similarity=0.301 Sum_probs=35.2
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHH
Q 030548 14 IVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLA 70 (175)
Q Consensus 14 ~I~~ILks~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLA 70 (175)
++..+++..|+. +++.+...|..++. |.+..+|..+..|+ ...|+.++|+.+
T Consensus 185 ~L~~il~kegI~-id~eAl~~LA~lS~GslR~AlslLekl~~y~----~~~It~e~V~el 239 (725)
T PRK07133 185 RLEFILEKENIS-YEKNALKLIAKLSSGSLRDALSIAEQVSIFG----NNKITLKNVEEL 239 (725)
T ss_pred HHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc----cCCCCHHHHHHH
Confidence 566677788974 89999988888885 45555555554442 334888877653
No 160
>PF13852 DUF4197: Protein of unknown function (DUF4197)
Probab=31.67 E-value=1.1e+02 Score=25.91 Aligned_cols=46 Identities=17% Similarity=0.177 Sum_probs=36.0
Q ss_pred CCChhHHHHHHHHHhCCCcccChHHHHHHHHHHHH---HHHHHHHHHHH
Q 030548 7 DLPRDAKIVKSLLKSMGVEDYEPRVIHQFLELWYR---YVVDVLTDAQV 52 (175)
Q Consensus 7 ~~PrDa~~I~~ILks~Gv~~yep~Vv~qLlEfayr---Yt~~VL~DA~~ 52 (175)
.+|..++-+..+|++.|...+-++++..|-+-|+. -+..|+.||+.
T Consensus 43 ~lP~~l~~~~~~Lr~~G~~~~~d~l~~smNrAAe~A~~~A~~if~~AI~ 91 (202)
T PF13852_consen 43 PLPEELQKVESTLRKIGLGSQVDDLELSMNRAAEAAVPEAAPIFVDAIK 91 (202)
T ss_pred cCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 68999999999999999987777777777665553 55667777763
No 161
>TIGR00368 Mg chelatase-related protein. The N-terminal end matches very strongly a pfam Mg_chelatase domain.
Probab=31.22 E-value=70 Score=30.38 Aligned_cols=35 Identities=14% Similarity=0.202 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHh
Q 030548 40 YRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSK 74 (175)
Q Consensus 40 yrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r 74 (175)
.|-...||+=|+-+|+..|...|+.+||..|++-|
T Consensus 465 ~R~~~rilrvArTiAdL~g~~~i~~~hv~eA~~~r 499 (499)
T TIGR00368 465 SRATHRILKVARTIADLKEEKNISREHLAEAIEYR 499 (499)
T ss_pred chHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHhcC
Confidence 36678899999999999999999999999998754
No 162
>COG1460 Uncharacterized protein conserved in archaea [Function unknown]
Probab=29.83 E-value=96 Score=24.37 Aligned_cols=37 Identities=19% Similarity=0.285 Sum_probs=32.4
Q ss_pred CCChhHHHHHHHHHhCCCcccChHHHHHHHHHHHHHHH
Q 030548 7 DLPRDAKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVV 44 (175)
Q Consensus 7 ~~PrDa~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~ 44 (175)
-+|+|--=+..||.+-|+.- +++.+.+++|+..+|..
T Consensus 77 I~P~t~~ElRsIla~e~~~~-s~E~l~~Ildiv~Ky~~ 113 (114)
T COG1460 77 IMPRTPDELRSILAKERVML-SDEELDKILDIVDKYRE 113 (114)
T ss_pred hCCCCHHHHHHHHHHccCCC-CHHHHHHHHHHHHHHhc
Confidence 47888889999999999874 99999999999998864
No 163
>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=29.80 E-value=85 Score=20.32 Aligned_cols=26 Identities=27% Similarity=0.377 Sum_probs=18.3
Q ss_pred HHHH-HHHHHHhHhCCCCCCHHHHHHH
Q 030548 45 DVLT-DAQVYSEHAGKNTIDCDDVKLA 70 (175)
Q Consensus 45 ~VL~-DA~~yA~HAgR~tI~~eDVrLA 70 (175)
..+. .+-.||...|...|+.+.|.-|
T Consensus 18 ~~~r~~~E~~Ar~~G~~~IT~e~v~~A 44 (45)
T PF08369_consen 18 KKLRDAAEKYARERGYDEITVEVVDAA 44 (45)
T ss_dssp HHHHHHHHHHHHHCT-SEE-HHHHHHH
T ss_pred HHHHHHHHHHHHHcCCCeECHHHHHhh
Confidence 4444 4557999999999999998765
No 164
>KOG0960 consensus Mitochondrial processing peptidase, beta subunit, and related enzymes (insulinase superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=28.72 E-value=5.3e+02 Score=24.77 Aligned_cols=125 Identities=18% Similarity=0.230 Sum_probs=82.8
Q ss_pred CCCCCChhHHHHHHHHHhCCCc----ccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCC-------------CCCCHHH
Q 030548 4 GDEDLPRDAKIVKSLLKSMGVE----DYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGK-------------NTIDCDD 66 (175)
Q Consensus 4 ~~~~~PrDa~~I~~ILks~Gv~----~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR-------------~tI~~eD 66 (175)
..+.+|+-+.++..||.....+ +-|-+||..=|+-...+..+|.=|=+.-.-+-|- +.|+..|
T Consensus 122 l~~dv~kavdiLaDIlqns~L~~s~IerER~vILrEmqevd~~~~eVVfdhLHatafQgtPL~~tilGp~enI~si~r~D 201 (467)
T KOG0960|consen 122 LSKDVPKAVDILADILQNSKLEESAIERERDVILREMQEVDKNHQEVVFDHLHATAFQGTPLGRTILGPSENIKSISRAD 201 (467)
T ss_pred ccccchHHHHHHHHHHHhCccchhHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhcCCcccccccChhhhhhhhhHHH
Confidence 3568999999999999987653 4566777777777788888888887766655542 4789999
Q ss_pred HHHHHHH-----hhccccCCCCcHHHHHHHHHhhcCCCCCCCCCCCC-CCCCCCCCCCcCCCceeecCCcc
Q 030548 67 VKLAVQS-----KVNSSFSQPPAREVLLELAKNRNKIPLPKSIAGRG-IPLPPEQDTLISPNYQLSIEKKE 131 (175)
Q Consensus 67 VrLAI~~-----r~~~~f~~pppre~LlelA~e~N~~PLP~i~~~~G-irLPper~cLt~~Ny~l~~~k~~ 131 (175)
++--|.. |+=-.-.+.-.-|.|.++|...+-- ||.....-+ .+.||-+ .|+..+++.-.+-|
T Consensus 202 L~~yi~thY~~~RmVlaaaGgV~He~lv~la~k~fg~-~~~~~~~~~~~~~~~~~--FtgsEvR~rdd~lP 269 (467)
T KOG0960|consen 202 LKDYINTHYKASRMVLAAAGGVKHEELVKLAEKYFGD-LSKLQTGDKVPLVPPAR--FTGSEVRVRDDDLP 269 (467)
T ss_pred HHHHHHhcccCccEEEEecCCcCHHHHHHHHHHHcCC-CcccccCcCCCCCCCcc--ccCceeeecCCCCc
Confidence 9988865 1111233458889999999988864 333222222 2233434 45666666533333
No 165
>TIGR00277 HDIG uncharacterized domain HDIG. This domain is found in a few known nucleotidyltransferes and in a large number of uncharacterized proteins. It contains four widely separated His residues, the second of which is part of an invariant dipeptide His-Asp in a region matched approximately by the motif HDIG.
Probab=28.52 E-value=1.5e+02 Score=19.11 Aligned_cols=33 Identities=12% Similarity=0.110 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 38 LWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 38 fayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
+.++++..|+.-|..+|++.| ++.+++.+|.-.
T Consensus 4 ~~~~H~~~v~~~a~~la~~~~---~~~~~l~~AalL 36 (80)
T TIGR00277 4 NVLQHSLEVAKLAEALARELG---LDVELARRGALL 36 (80)
T ss_pred hHHHHHHHHHHHHHHHHHHcC---CCHHHHHHHHHH
Confidence 456788888888888888765 567777776643
No 166
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=28.03 E-value=1.7e+02 Score=27.10 Aligned_cols=37 Identities=16% Similarity=0.279 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhh
Q 030548 39 WYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 75 (175)
Q Consensus 39 ayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 75 (175)
.-.-...++.+|...|.-.++..|+.+|++.|++...
T Consensus 260 sgadl~~l~~eA~~~a~~~~~~~i~~~~l~~a~~~~~ 296 (495)
T TIGR01241 260 SGADLANLLNEAALLAARKNKTEITMNDIEEAIDRVI 296 (495)
T ss_pred CHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHh
Confidence 3355667777887777777888999999999998644
No 167
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=27.88 E-value=2.3e+02 Score=29.12 Aligned_cols=53 Identities=17% Similarity=0.246 Sum_probs=38.6
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHH
Q 030548 13 KIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLA 70 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLA 70 (175)
.++..|++.-|+. |+++++..|..++. |.+..+|..+..|+ ...|+.++|+-.
T Consensus 185 ~~L~~Il~~EgI~-id~eAL~lIA~~A~GsmRdALsLLdQAia~~----~~~It~~~V~~~ 240 (830)
T PRK07003 185 SHLERILGEERIA-FEPQALRLLARAAQGSMRDALSLTDQAIAYS----ANEVTETAVSGM 240 (830)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc----cCCcCHHHHHHH
Confidence 4567788888984 99999999998874 67777777776653 345777777643
No 168
>cd08054 gp6 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins. The bacteriophage HK97 gp6 protein is critical in the assembly of the connector, a specialized structure that serves as an interface for head and tail attachment, as well as a point at which DNA exits the head during infection by the bacteriophage. It forms a dodecameric ring structure that comprises the middle ring of the connector, located between the portal protein (attached to the head) and the gp7 ring (attached to the tail). It is a component of the mature phage and the absence of HK97 gp6 results in defective head-tail joining and the absence of mature phage particles. Although the crystal structure of HK97 gp6 shows an unexpected 13-mer ring, the biological form present in the mature phage is believed to be a dodecamer.
Probab=27.73 E-value=1.8e+02 Score=19.90 Aligned_cols=63 Identities=13% Similarity=0.086 Sum_probs=37.9
Q ss_pred HHHhCCCc-ccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccCCC
Q 030548 18 LLKSMGVE-DYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFSQP 82 (175)
Q Consensus 18 ILks~Gv~-~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f~~p 82 (175)
+=+.++|. +.++..+..+++-|..|+..-+..-..... ........++++||...+.+.|...
T Consensus 5 ~K~~Lrid~d~dD~~i~~li~aA~~~i~~~~g~~~~~~~--~~~~~~~~~~~~Ail~l~~~~Y~nR 68 (91)
T cd08054 5 AKAHLRIDHDDDDALIELLIDAAEEYIENYTGRDLDEQT--ADAEEVPALIKLAVLLLVAHLYENR 68 (91)
T ss_pred HHhHcCCCCCCCHHHHHHHHHHHHHHHHHHhCCchhhcC--CccccCCHHHHHHHHHHHHHHHhCc
Confidence 33445664 455777777777777766554322211100 1123456899999999888877665
No 169
>PF07766 LETM1: LETM1-like protein; InterPro: IPR011685 This is a group of mainly hypothetical eukaryotic proteins. Putative features found in LETM1, such as a transmembrane domain and a CK2 and PKC phosphorylation site [], are relatively conserved throughout the family. Deletion of LETM1 is thought to be involved in the development of Wolf-Hirschhorn syndrome in humans []. A member of this family, P91927 from SWISSPROT, is known to be expressed in the mitochondria of Drosophila melanogaster [], suggesting that this may be a group of mitochondrial proteins.; PDB: 3SKQ_A.
Probab=27.40 E-value=4.1e+02 Score=22.98 Aligned_cols=71 Identities=13% Similarity=0.205 Sum_probs=44.3
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccCCCCcHHHHH
Q 030548 14 IVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFSQPPAREVLL 89 (175)
Q Consensus 14 ~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f~~pppre~Ll 89 (175)
-+..+.+.+|+..|.+... |.--..+++..|..|=.....- |=..++.++++.|+..|.-... .-+++.|.
T Consensus 175 ~L~~L~r~~~l~~~~~~~~--lr~rL~~~~~~l~~dD~~i~~e-Gv~~Ls~~EL~~Ac~~RGl~~~--~~s~~~lr 245 (268)
T PF07766_consen 175 HLRALCRLLGLTPFGPSSL--LRRRLRKRLRYLKQDDRLIKRE-GVDSLSEEELQDACYERGLRST--GLSEEELR 245 (268)
T ss_dssp HHHHHHHHTT----SSHHH--HHHHHHHHHHHHHHHHHHHHHH--GGGS-HHHHHHHHHHTT---T--T--HHHHH
T ss_pred HHHHHHHHhccCcCCchHH--HHHHHHHHHHHHHHHHHHHHHh-ccccCCHHHHHHHHHHhCCCcC--CCCHHHHH
Confidence 3667888899998877554 4555677777887777766666 8889999999999999874322 34556554
No 170
>PF10431 ClpB_D2-small: C-terminal, D2-small domain, of ClpB protein ; InterPro: IPR019489 Most Clp ATPases form complexes with peptidase subunits and are involved in protein degradation, though some, such as ClpB, do not associate with peptidases and are involved in protein disaggregation []. This entry represents the C-terminal domain of Clp ATPases, often referred to as the D2-small domain, which forms a mixed alpha-beta structure. Compared with the adjacent AAA D1-small domain (IPR003959 from INTERPRO) it lacks the long coiled-coil insertion, and instead of helix C4 contains a beta-strand (e3) that is part of a three stranded beta-pleated sheet. In Thermophilus the whole protein forms a hexamer with the D1-small and D2-small domains located on the outside of the hexamer, with the long coiled-coil being exposed on the surface. The D2-small domain is essential for oligomerisation, forming a tight interface with the D2-large domain of a neighbouring subunit, thereby providing enough binding energy to stabilise the functional assembly [].; PDB: 3HWS_A 3HTE_F 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 3PXI_A 1R6B_X ....
Probab=27.36 E-value=2.1e+02 Score=19.62 Aligned_cols=25 Identities=28% Similarity=0.515 Sum_probs=19.6
Q ss_pred HHHHHhCCCc-ccChHHHHHHHHHHH
Q 030548 16 KSLLKSMGVE-DYEPRVIHQFLELWY 40 (175)
Q Consensus 16 ~~ILks~Gv~-~yep~Vv~qLlEfay 40 (175)
..-|+..|++ .|++.|+..|++.+|
T Consensus 18 ~~~l~~~~i~l~~~~~~~~~l~~~~~ 43 (81)
T PF10431_consen 18 NERLKEKGIELEFDDAVVDYLAEKGY 43 (81)
T ss_dssp HHHHHHTTEEEEE-HHHHHHHHHHHH
T ss_pred HHHHHHCCCeEEecHHHHHHHHHhCc
Confidence 3445669997 899999999999887
No 171
>cd05831 Ribosomal_P1 Ribosomal protein P1. This subfamily represents the eukaryotic large ribosomal protein P1. Eukaryotic P1 and P2 are functionally equivalent to the bacterial protein L7/L12, but are not homologous to L7/L12. P1 is located in the L12 stalk, with proteins P2, P0, L11, and 28S rRNA. P1 and P2 are the only proteins in the ribosome to occur as multimers, always appearing as sets of heterodimers. Recent data indicate that eukaryotes have four copies (two heterodimers), while most archaeal species contain six copies of L12p (three homodimers) and bacteria may have four or six copies (two or three homodimers), depending on the species. Experiments using S. cerevisiae P1 and P2 indicate that P1 proteins are positioned more internally with limited reactivity in the C-terminal domains, while P2 proteins seem to be more externally located and are more likely to interact with other cellular components. In lower eukaryotes, P1 and P2 are further subdivided into P1A, P1B, P2A, and
Probab=25.86 E-value=1.4e+02 Score=22.61 Aligned_cols=32 Identities=28% Similarity=0.343 Sum_probs=23.5
Q ss_pred CCChhHHHHHHHHHhCCCcccChHHHHHHHHHH
Q 030548 7 DLPRDAKIVKSLLKSMGVEDYEPRVIHQFLELW 39 (175)
Q Consensus 7 ~~PrDa~~I~~ILks~Gv~~yep~Vv~qLlEfa 39 (175)
..+-.+.=|..||++.|++ +++.-+..|.+++
T Consensus 15 ~~~~Tae~I~~ilkAaGve-ve~~~~~~f~~~L 46 (103)
T cd05831 15 GIEITADNINALLKAAGVN-VEPYWPGLFAKAL 46 (103)
T ss_pred CCCCCHHHHHHHHHHcCCc-ccHHHHHHHHHHH
Confidence 4566777889999999985 7777666665543
No 172
>PLN00138 large subunit ribosomal protein LP2; Provisional
Probab=25.71 E-value=1.4e+02 Score=23.18 Aligned_cols=31 Identities=23% Similarity=0.222 Sum_probs=23.9
Q ss_pred CChhHHHHHHHHHhCCCcccChHHHHHHHHHH
Q 030548 8 LPRDAKIVKSLLKSMGVEDYEPRVIHQFLELW 39 (175)
Q Consensus 8 ~PrDa~~I~~ILks~Gv~~yep~Vv~qLlEfa 39 (175)
-...+.-|..||++.||+ +++.-+..|..++
T Consensus 16 ~~pta~dI~~IL~AaGve-vd~~~~~~f~~~L 46 (113)
T PLN00138 16 TCPSAEDLKDILGSVGAD-ADDDRIELLLSEV 46 (113)
T ss_pred CCCCHHHHHHHHHHcCCc-ccHHHHHHHHHHH
Confidence 345677899999999984 8888887776554
No 173
>PF03874 RNA_pol_Rpb4: RNA polymerase Rpb4; InterPro: IPR005574 The eukaryotic RNA polymerase subunits RPB4 and RPB7 form a heterodimer that reversibly associates with the RNA polymerase II core. Archaeal cells contain a single RNAP made up of about 12 subunits, displaying considerable homology to the eukaryotic RNAPII subunits. The RPB4 and RPB7 homologs are called subunits F and E, respectively, and have been shown to form a stable heterodimer. While the RPB7 homologue is reasonably well conserved, the similarity between the eukaryotic RPB4 and the archaeal F subunit is barely detectable [].; GO: 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3AYH_A 3H3V_E 4A3C_D 3PO3_D 3HOX_D 2R92_D 3HOU_D 1Y77_D 2R7Z_D 3QT1_D ....
Probab=24.74 E-value=96 Score=22.92 Aligned_cols=34 Identities=18% Similarity=0.427 Sum_probs=20.0
Q ss_pred CChhHHHHHHHHHhCCCcccChHHHHHHHHHHHHH
Q 030548 8 LPRDAKIVKSLLKSMGVEDYEPRVIHQFLELWYRY 42 (175)
Q Consensus 8 ~PrDa~~I~~ILks~Gv~~yep~Vv~qLlEfayrY 42 (175)
+|.++--++.|+.+.+. +|++.-+..+++.+..|
T Consensus 83 ~P~~~~El~~ii~~~~~-r~~ee~l~~iL~~v~~~ 116 (117)
T PF03874_consen 83 RPTTAVELRAIIESLES-RFSEEDLEEILDLVSKY 116 (117)
T ss_dssp --SSHHHHHHHSTTGTT-TSTHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHhcc-CCCHHHHHHHHHHHHHh
Confidence 46666666666666653 56666666666665544
No 174
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=24.44 E-value=2.7e+02 Score=27.58 Aligned_cols=51 Identities=20% Similarity=0.350 Sum_probs=32.0
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHH
Q 030548 14 IVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKL 69 (175)
Q Consensus 14 ~I~~ILks~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrL 69 (175)
.+..|++..|+ .|++.++..|..++. |.+..++..|..+ |...|+.++|+.
T Consensus 186 ~L~~il~~e~i-~~e~~aL~~Ia~~s~Gs~R~Al~lldqaia~----~~~~it~~~v~~ 239 (647)
T PRK07994 186 QLEHILQAEQI-PFEPRALQLLARAADGSMRDALSLTDQAIAS----GNGQVTTDDVSA 239 (647)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh----cCCCcCHHHHHH
Confidence 56677777787 489999888888776 4444555444433 223466555543
No 175
>PRK13610 photosystem II reaction center protein Psb28; Provisional
Probab=24.16 E-value=86 Score=24.64 Aligned_cols=20 Identities=15% Similarity=0.341 Sum_probs=17.3
Q ss_pred ChHHHHHHHHHHHHHHHHHH
Q 030548 28 EPRVIHQFLELWYRYVVDVL 47 (175)
Q Consensus 28 ep~Vv~qLlEfayrYt~~VL 47 (175)
+++--..+|.|++||+.++-
T Consensus 92 s~~~WdRFMRFMeRYA~~~~ 111 (113)
T PRK13610 92 SEEAFERFMRFASRYANSLS 111 (113)
T ss_pred CHHHHHHHHHHHHHHHHHhc
Confidence 67778899999999998864
No 176
>KOG1757 consensus Histone 2A [Chromatin structure and dynamics]
Probab=24.12 E-value=81 Score=25.08 Aligned_cols=61 Identities=15% Similarity=0.052 Sum_probs=44.0
Q ss_pred HHHHHHHHhC--CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 13 KIVKSLLKSM--GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 13 ~~I~~ILks~--Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
--|++.||.- +-.++-..+.-...-..+-.|.+||+-|-..|+--.-+.|+.--++|||+-
T Consensus 34 gRihr~LK~r~t~h~rVGataavy~aaileYLTaEVLeLAgNasKdLKvKRitprHlqLAiRG 96 (131)
T KOG1757|consen 34 GRIHRHLKTRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 96 (131)
T ss_pred HHHHHHHHHhcccccccchHHHHHHHHHHHHHHHHHHHHcccccccceeeeccchhheeeecC
Confidence 3467777764 333677777777777777888899987766666555678898888998853
No 177
>KOG3902 consensus Histone acetyltransferase PCAF/SAGA, subunit SUPT3H/SPT3 [Transcription]
Probab=24.00 E-value=4.9e+02 Score=24.06 Aligned_cols=62 Identities=16% Similarity=0.232 Sum_probs=49.7
Q ss_pred hHHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHH
Q 030548 11 DAKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQ 72 (175)
Q Consensus 11 Da~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 72 (175)
=+++=..++.+-.|.+=.+...+..=+..+-.+.++|..|...|..+|-..|+.+|+=+-|.
T Consensus 27 ~veiQqmmf~sGei~~P~pett~Lved~V~gqvie~l~qa~eia~lrgsr~Itpedliflir 88 (352)
T KOG3902|consen 27 RVEIQQMMFQSGEIPDPLPETTNLVEDNVRGQVIESLVQANEIADLRGSRSITPEDLIFLIR 88 (352)
T ss_pred HHHHHHHHHHhCCCCCCcHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCccccChHHHHHHhh
Confidence 34444445555567788888888888899999999999999999999999999998766553
No 178
>PRK08084 DNA replication initiation factor; Provisional
Probab=23.50 E-value=3.8e+02 Score=22.17 Aligned_cols=48 Identities=15% Similarity=0.069 Sum_probs=31.4
Q ss_pred CCCcccChHHHHHHHHHHHHHHH---HHHHHHHHHHhHhCCCCCCHHHHHHHH
Q 030548 22 MGVEDYEPRVIHQFLELWYRYVV---DVLTDAQVYSEHAGKNTIDCDDVKLAV 71 (175)
Q Consensus 22 ~Gv~~yep~Vv~qLlEfayrYt~---~VL~DA~~yA~HAgR~tI~~eDVrLAI 71 (175)
.|+ .++++|+..|+.-+.+=+. .+|.... .+..+.++.||.+-+|-++
T Consensus 183 ~~~-~l~~~v~~~L~~~~~~d~r~l~~~l~~l~-~~~l~~~~~it~~~~k~~l 233 (235)
T PRK08084 183 RGF-ELPEDVGRFLLKRLDREMRTLFMTLDQLD-RASITAQRKLTIPFVKEIL 233 (235)
T ss_pred cCC-CCCHHHHHHHHHhhcCCHHHHHHHHHHHH-HHHHhcCCCCCHHHHHHHH
Confidence 576 4999999999999885444 4444422 2222344558888887765
No 179
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=23.32 E-value=4.5e+02 Score=28.11 Aligned_cols=63 Identities=14% Similarity=0.079 Sum_probs=45.3
Q ss_pred CChhHHHHHHHHHhC---CCcccChHHHHHHHHHHH------HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 8 LPRDAKIVKSLLKSM---GVEDYEPRVIHQFLELWY------RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 8 ~PrDa~~I~~ILks~---Gv~~yep~Vv~qLlEfay------rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
-|-++.-+..||+.- +-.-++++|+..+.+++- |.+-++|.-|... ++...|+.+||+.|+..
T Consensus 934 ~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAgEi---kegskVT~eHVrkAlee 1005 (1164)
T PTZ00112 934 SPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAFEN---KRGQKIVPRDITEATNQ 1005 (1164)
T ss_pred CCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHHhh---cCCCccCHHHHHHHHHH
Confidence 455666666666542 113489999998888665 6777888777654 56678999999999854
No 180
>cd05833 Ribosomal_P2 Ribosomal protein P2. This subfamily represents the eukaryotic large ribosomal protein P2. Eukaryotic P1 and P2 are functionally equivalent to the bacterial protein L7/L12, but are not homologous to L7/L12. P2 is located in the L12 stalk, with proteins P1, P0, L11, and 28S rRNA. P1 and P2 are the only proteins in the ribosome to occur as multimers, always appearing as sets of heterodimers. Recent data indicate that eukaryotes have four copies (two heterodimers), while most archaeal species contain six copies of L12p (three homodimers). Bacteria may have four or six copies of L7/L12 (two or three homodimers) depending on the species. Experiments using S. cerevisiae P1 and P2 indicate that P1 proteins are positioned more internally with limited reactivity in the C-terminal domains, while P2 proteins seem to be more externally located and are more likely to interact with other cellular components. In lower eukaryotes, P1 and P2 are further subdivided into P1A, P1B, P2
Probab=22.96 E-value=1.7e+02 Score=22.44 Aligned_cols=30 Identities=27% Similarity=0.365 Sum_probs=24.1
Q ss_pred ChhHHHHHHHHHhCCCcccChHHHHHHHHHH
Q 030548 9 PRDAKIVKSLLKSMGVEDYEPRVIHQFLELW 39 (175)
Q Consensus 9 PrDa~~I~~ILks~Gv~~yep~Vv~qLlEfa 39 (175)
...+.-|..||++.||+ +++.-+..|+.++
T Consensus 17 ~pTa~dI~~IL~AaGve-Ve~~~~~lf~~~L 46 (109)
T cd05833 17 SPSAADVKKILGSVGVE-VDDEKLNKVISEL 46 (109)
T ss_pred CCCHHHHHHHHHHcCCC-ccHHHHHHHHHHH
Confidence 55677899999999984 8988887777654
No 181
>PF10930 DUF2737: Protein of unknown function (DUF2737); InterPro: IPR020295 The proteins in this entry are uncharacterised.
Probab=22.74 E-value=94 Score=21.43 Aligned_cols=23 Identities=39% Similarity=0.654 Sum_probs=17.6
Q ss_pred hccccCCCCcHHHHHHHHHhhcCCCCC
Q 030548 75 VNSSFSQPPAREVLLELAKNRNKIPLP 101 (175)
Q Consensus 75 ~~~~f~~pppre~LlelA~e~N~~PLP 101 (175)
+..-|.+.|+||.|| +|||.|=|
T Consensus 17 ~r~r~~PmPsREELl----kRnSFpsv 39 (54)
T PF10930_consen 17 IRQRFKPMPSREELL----KRNSFPSV 39 (54)
T ss_pred HHhcCCCCCCHHHHH----hhcCCCCC
Confidence 445678889999999 58887754
No 182
>PF15337 Vasculin: Vascular protein family Vasculin-like 1
Probab=22.61 E-value=46 Score=25.49 Aligned_cols=23 Identities=30% Similarity=0.501 Sum_probs=17.4
Q ss_pred CChhHHHHHHHHHhCCCcccChH
Q 030548 8 LPRDAKIVKSLLKSMGVEDYEPR 30 (175)
Q Consensus 8 ~PrDa~~I~~ILks~Gv~~yep~ 30 (175)
+..-+..=+++||.||-++|++.
T Consensus 5 lS~SLEaEhRLLk~MGWqEy~eN 27 (97)
T PF15337_consen 5 LSSSLEAEHRLLKAMGWQEYPEN 27 (97)
T ss_pred hhhHHHHHHHHHHHhcccccCcC
Confidence 33445667899999999988753
No 183
>CHL00176 ftsH cell division protein; Validated
Probab=22.47 E-value=2.8e+02 Score=27.25 Aligned_cols=37 Identities=16% Similarity=0.259 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHh
Q 030548 38 LWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSK 74 (175)
Q Consensus 38 fayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r 74 (175)
|.-+-...++.+|...|.-.++..|+.+|+..|+...
T Consensus 387 ~sgaDL~~lvneAal~a~r~~~~~It~~dl~~Ai~rv 423 (638)
T CHL00176 387 FSGADLANLLNEAAILTARRKKATITMKEIDTAIDRV 423 (638)
T ss_pred CCHHHHHHHHHHHHHHHHHhCCCCcCHHHHHHHHHHH
Confidence 4446778888888888888889999999999999764
No 184
>PF01406 tRNA-synt_1e: tRNA synthetases class I (C) catalytic domain; InterPro: IPR015803 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. Cysteinyl-tRNA synthetase (6.1.1.16 from EC) is an alpha monomer and belongs to class Ia.; GO: 0000166 nucleotide binding, 0004817 cysteine-tRNA ligase activity, 0005524 ATP binding, 0006423 cysteinyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3SP1_B 3TQO_A 3C8Z_B 1LI5_B 1LI7_B 1U0B_B.
Probab=22.29 E-value=2.1e+02 Score=25.84 Aligned_cols=63 Identities=17% Similarity=0.316 Sum_probs=42.8
Q ss_pred HHHHHHHHhCCC--------cccChHHHH-------HHHHHHHHHHHHHHHHHHHHHh----HhCCCCCCHHHHHHHHHH
Q 030548 13 KIVKSLLKSMGV--------EDYEPRVIH-------QFLELWYRYVVDVLTDAQVYSE----HAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 13 ~~I~~ILks~Gv--------~~yep~Vv~-------qLlEfayrYt~~VL~DA~~yA~----HAgR~tI~~eDVrLAI~~ 73 (175)
-++.|.|+..|. ++++++++. ...|++.+|+.+..+|...+-- +--|.|=..++|--.|+.
T Consensus 34 D~l~R~L~~~g~~V~~V~NiTDiDDKii~~A~~~g~~~~ela~~y~~~f~~dm~~Lnv~~p~~~prate~i~~ii~~i~~ 113 (300)
T PF01406_consen 34 DVLRRYLEYLGYDVTYVMNITDIDDKIIKRAREEGVSPQELARRYEEEFFEDMKALNVLPPDHYPRATEHIPEIIELIEK 113 (300)
T ss_dssp HHHHHHHHHTT-EEEEEEEEB-SSHHHHHHHHHTTS-HHHHHHHHHHHHHHHHHHTT----SEEEEGGGGHHHHHHHHHH
T ss_pred HHHHHHHHHcCCeEEEEEeccccchHHHHHHHhccCCHHHHHHHHHHHHHHHHHHcCCCCCccccchhccHHHHHHHHHH
Confidence 368888988775 799999998 4788999999999999887642 222333345666666655
Q ss_pred hh
Q 030548 74 KV 75 (175)
Q Consensus 74 r~ 75 (175)
-+
T Consensus 114 Li 115 (300)
T PF01406_consen 114 LI 115 (300)
T ss_dssp HH
T ss_pred HH
Confidence 33
No 185
>PF09597 IGR: IGR protein motif; InterPro: IPR019083 This entry is found in fungal and plant proteins and contains a conserved IGR motif. Its function is unknown.
Probab=22.11 E-value=1.2e+02 Score=20.85 Aligned_cols=24 Identities=25% Similarity=0.345 Sum_probs=20.4
Q ss_pred HHHHhCCCcccChHHHHHHHHHHHHHH
Q 030548 17 SLLKSMGVEDYEPRVIHQFLELWYRYV 43 (175)
Q Consensus 17 ~ILks~Gv~~yep~Vv~qLlEfayrYt 43 (175)
.-||++|| .++....+|.+.++|-
T Consensus 32 ~~LK~~GI---p~r~RryiL~~~ek~r 55 (57)
T PF09597_consen 32 KQLKELGI---PVRQRRYILRWREKYR 55 (57)
T ss_pred HHHHHCCC---CHHHHHHHHHHHHHHh
Confidence 46899998 7888899999999884
No 186
>PRK06129 3-hydroxyacyl-CoA dehydrogenase; Validated
Probab=22.09 E-value=3.7e+02 Score=23.10 Aligned_cols=68 Identities=12% Similarity=0.136 Sum_probs=46.6
Q ss_pred CCCCChhHHHHHHHHHhCCCc--ccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccc
Q 030548 5 DEDLPRDAKIVKSLLKSMGVE--DYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSS 78 (175)
Q Consensus 5 ~~~~PrDa~~I~~ILks~Gv~--~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~ 78 (175)
...-+..+..+..+++.+|-. .+.+..... ++.|...-++.+|..+++- ..+|.+||--++..-.++.
T Consensus 157 ~~t~~~~~~~~~~~~~~lG~~~v~v~~~~~G~---i~nrl~~a~~~EA~~l~~~---g~~~~~~id~~~~~~~g~~ 226 (308)
T PRK06129 157 PWTAPATLARAEALYRAAGQSPVRLRREIDGF---VLNRLQGALLREAFRLVAD---GVASVDDIDAVIRDGLGLR 226 (308)
T ss_pred CCCCHHHHHHHHHHHHHcCCEEEEecCCCccH---HHHHHHHHHHHHHHHHHHc---CCCCHHHHHHHHHhccCCC
Confidence 334567788889999999953 333333332 4566666788888877765 4499999999997755554
No 187
>PF03931 Skp1_POZ: Skp1 family, tetramerisation domain; InterPro: IPR016073 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a POZ domain with a core structure consisting of beta(2)/alpha(2)/beta(2)/alpha(2) in two layers, alpha/beta. This domain is found at the N-terminal of SKP1 proteins [] as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. ; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 1LM8_C 2XAI_E 1VCB_E 3ZRC_K 3ZRF_E 3DCG_B 2C9W_C 1LQB_B 2IZV_C 1HV2_A ....
Probab=21.97 E-value=2e+02 Score=19.07 Aligned_cols=31 Identities=23% Similarity=0.448 Sum_probs=23.0
Q ss_pred HHHHHHHHhCCCc-------ccChHHHHHHHHHHHHHH
Q 030548 13 KIVKSLLKSMGVE-------DYEPRVIHQFLELWYRYV 43 (175)
Q Consensus 13 ~~I~~ILks~Gv~-------~yep~Vv~qLlEfayrYt 43 (175)
.+|..+|..+|.. .++.++....+||++.|.
T Consensus 24 ~~i~~ml~~~~~~~~~Ipl~~v~~~~L~kViewc~~H~ 61 (62)
T PF03931_consen 24 KTIKNMLEDLGDEDEPIPLPNVSSRILKKVIEWCEHHK 61 (62)
T ss_dssp HHHHHHHHCTCCCGTEEEETTS-HHHHHHHHHHHHHHH
T ss_pred HHHHHHHhhhcccccccccCccCHHHHHHHHHHHHhcC
Confidence 4678888888874 578888888888888763
No 188
>cd04411 Ribosomal_P1_P2_L12p Ribosomal protein P1, P2, and L12p. Ribosomal proteins P1 and P2 are the eukaryotic proteins that are functionally equivalent to bacterial L7/L12. L12p is the archaeal homolog. Unlike other ribosomal proteins, the archaeal L12p and eukaryotic P1 and P2 do not share sequence similarity with their bacterial counterparts. They are part of the ribosomal stalk (called the L7/L12 stalk in bacteria), along with 28S rRNA and the proteins L11 and P0 in eukaryotes (23S rRNA, L11, and L10e in archaea). In bacterial ribosomes, L7/L12 homodimers bind the extended C-terminal helix of L10 to anchor the L7/L12 molecules to the ribosome. Eukaryotic P1/P2 heterodimers and archaeal L12p homodimers are believed to bind the L10 equivalent proteins, eukaryotic P0 and archaeal L10e, in a similar fashion. P1 and P2 (L12p, L7/L12) are the only proteins in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain
Probab=21.40 E-value=1.3e+02 Score=22.98 Aligned_cols=29 Identities=28% Similarity=0.471 Sum_probs=21.3
Q ss_pred hhHHHHHHHHHhCCCcccChHHHHHHHHHH
Q 030548 10 RDAKIVKSLLKSMGVEDYEPRVIHQFLELW 39 (175)
Q Consensus 10 rDa~~I~~ILks~Gv~~yep~Vv~qLlEfa 39 (175)
..+.-|..||++.|+ ++++..+..|++++
T Consensus 17 ~ta~~I~~IL~aaGv-eVe~~~~~~~~~aL 45 (105)
T cd04411 17 LTEDKIKELLSAAGA-EIEPERVKLFLSAL 45 (105)
T ss_pred CCHHHHHHHHHHcCC-CcCHHHHHHHHHHH
Confidence 566778888999987 47777776666543
No 189
>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite.; InterPro: IPR001208 MCM proteins are DNA-dependent ATPases required for the initiation of eukaryotic DNA replication [, , ]. In eukaryotes there is a family of six proteins, MCM2 to MCM7. They were first identified in yeast where most of them have a direct role in the initiation of chromosomal DNA replication by interacting directly with autonomously replicating sequences (ARS). They were thus called minichromosome maintenance proteins, MCM proteins []. This family is also present in the archebacteria in 1 to 4 copies. Methanocaldococcus jannaschii (Methanococcus jannaschii) has four members, MJ0363, MJ0961, MJ1489 and MJECL13. The "MCM motif" contains Walker-A and Walker-B type nucleotide binding motifs. The diagnostic sequence defining the MCMs is IDEFDKM. Only Mcm2 (aka Cdc19 or Nda1) has been subjected to mutational analysis in this region, and most mutations abolish its activity []. The presence of a putative ATP-binding domain implies that these proteins may be involved in an ATP-consuming step in the initiation of DNA replication in eukaryotes. The MCM proteins bind together in a large complex []. Within this complex, individual subunits associate with different affinities, and there is a tightly associated core of Mcm4 (Cdc21), Mcm6 (Mis5) and Mcm7 []. This core complex in human MCMs has been associated with helicase activity in vitro [], leading to the suggestion that the MCM proteins are the eukaryotic replicative helicase. Schizosaccharomyces pombe (Fission yeast) MCMs, like those in metazoans, are found in the nucleus throughout the cell cycle. This is in contrast to the Saccharomyces cerevisiae (Baker's yeast) in which MCM proteins move in and out of the nucleus during each cell cycle. The assembly of the MCM complex in S. pombe is required for MCM localisation, ensuring that only intact MCM complexes remain in the nucleus [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0006260 DNA replication; PDB: 3F8T_A 3F9V_A.
Probab=21.31 E-value=45 Score=29.53 Aligned_cols=30 Identities=10% Similarity=0.159 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030548 44 VDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 73 (175)
Q Consensus 44 ~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
..++.=|...|+...|.+|+.+||+.||..
T Consensus 296 eSLIRLseA~AKl~lr~~V~~~Dv~~Ai~L 325 (331)
T PF00493_consen 296 ESLIRLSEAHAKLRLRDEVTEEDVEEAIRL 325 (331)
T ss_dssp CHHHHHHHHHHHCTTSSECSHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhccCceeHHHHHHHHHH
Confidence 456677777888888999999999999976
No 190
>smart00544 MA3 Domain in DAP-5, eIF4G, MA-3 and other proteins. Highly alpha-helical. May contain repeats and/or regions similar to MIF4G domains Ponting (TIBS) "Novel eIF4G domain homologues" in press
Probab=20.55 E-value=3.3e+02 Score=19.51 Aligned_cols=67 Identities=10% Similarity=0.022 Sum_probs=41.4
Q ss_pred hhHHHHHHHHHhCCCcccChHHHHHHHHHHHHHH-HHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030548 10 RDAKIVKSLLKSMGVEDYEPRVIHQFLELWYRYV-VDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVN 76 (175)
Q Consensus 10 rDa~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt-~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 76 (175)
+|..-...-|+.+++..|...++..++..+-.-. ...-.=+..++....++.++.+++..|+...++
T Consensus 16 ~D~~ea~~~l~~L~~~~~~~~vv~~~i~~~le~~~~~~~~~~~Ll~~L~~~~~~~~~~~~~~f~~~~~ 83 (113)
T smart00544 16 GDTDEAVHCLLELKLPEQHHEVVKVLLTCALEEKRTYREMYSVLLSRLCQANVISTKQFEKGFWRLLE 83 (113)
T ss_pred CCHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCccHHHHHHHHHHHHHHcCCcCHHHHHHHHHHHHh
Confidence 4555555666777877788888888877765331 111111112223334677999999999988654
No 191
>KOG3219 consensus Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=20.36 E-value=1.9e+02 Score=24.68 Aligned_cols=59 Identities=19% Similarity=0.269 Sum_probs=49.5
Q ss_pred HHHHHHHhC-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCC-CCCHHHHHHHHHH
Q 030548 14 IVKSLLKSM-GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKN-TIDCDDVKLAVQS 73 (175)
Q Consensus 14 ~I~~ILks~-Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~-tI~~eDVrLAI~~ 73 (175)
.|++|+.+. | +.+++.|+..+--++.-|+.+|.+.|+...+.-|.. -+-...||-|...
T Consensus 117 ~iKkL~~~itg-~~v~~nv~Ia~~GiaKvFVGEvVEeAl~V~~~~~e~~PLqP~HIREA~rr 177 (195)
T KOG3219|consen 117 QIKKLMSSITG-QSVSENVAIAMAGIAKVFVGEVVEEALDVREEWGESGPLQPKHIREAYRR 177 (195)
T ss_pred HHHHHHHHHhC-CccCcceeeeecchhhHhHHHHHHHHHHHHHHhccCCCCCcHHHHHHHHH
Confidence 467777776 5 449999999999999999999999999999888764 5778899988854
Done!