Query 030559
Match_columns 175
No_of_seqs 154 out of 261
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 15:33:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030559.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030559hhsearch_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 7.8E-54 1.7E-58 340.3 13.9 135 1-135 1-140 (148)
2 PF02291 TFIID-31kDa: Transcri 100.0 1.2E-54 2.6E-59 340.5 8.4 124 3-126 6-129 (129)
3 cd07979 TAF9 TATA Binding Prot 100.0 2.5E-49 5.5E-54 304.9 13.6 117 9-125 1-117 (117)
4 COG5094 TAF9 Transcription ini 100.0 1.5E-46 3.3E-51 293.9 11.1 126 1-126 1-134 (145)
5 PLN00035 histone H4; Provision 99.3 1.4E-11 3.1E-16 93.9 8.4 62 14-75 34-95 (103)
6 COG2036 HHT1 Histones H3 and H 99.3 9.3E-12 2E-16 93.0 7.0 63 14-76 24-86 (91)
7 cd00076 H4 Histone H4, one of 99.3 2E-11 4.4E-16 90.1 8.3 62 14-75 18-79 (85)
8 PTZ00015 histone H4; Provision 99.3 2.5E-11 5.5E-16 92.4 8.4 66 8-75 31-96 (102)
9 smart00803 TAF TATA box bindin 99.3 2.2E-11 4.8E-16 85.4 7.3 59 14-72 7-65 (65)
10 smart00576 BTP Bromodomain tra 99.2 5.4E-11 1.2E-15 85.1 8.7 61 13-73 10-70 (77)
11 smart00417 H4 Histone H4. 99.2 5.1E-11 1.1E-15 86.1 5.9 58 13-70 17-74 (74)
12 PF15630 CENP-S: Kinetochore c 99.1 1.2E-10 2.6E-15 84.3 4.4 52 20-72 20-71 (76)
13 cd07981 TAF12 TATA Binding Pro 99.0 3.8E-09 8.2E-14 75.1 8.9 63 14-76 6-69 (72)
14 PF07524 Bromo_TP: Bromodomain 98.8 2.7E-08 5.9E-13 70.6 8.6 61 13-73 10-70 (77)
15 cd08050 TAF6 TATA Binding Prot 98.8 2.1E-08 4.5E-13 89.2 9.7 96 13-109 3-117 (343)
16 PF00125 Histone: Core histone 98.6 2.2E-07 4.8E-12 64.9 7.4 62 13-74 13-75 (75)
17 smart00428 H3 Histone H3. 98.5 8.8E-07 1.9E-11 67.9 8.6 64 12-75 36-102 (105)
18 cd00074 H2A Histone 2A; H2A is 98.3 2.2E-06 4.8E-11 66.5 6.6 62 12-73 23-85 (115)
19 PF02969 TAF: TATA box binding 98.3 5.6E-06 1.2E-10 58.6 8.0 60 13-72 7-66 (66)
20 PF00808 CBFD_NFYB_HMF: Histon 98.1 1.6E-05 3.4E-10 54.6 7.2 58 14-71 7-65 (65)
21 PTZ00018 histone H3; Provision 97.8 7.9E-05 1.7E-09 59.6 7.6 65 12-76 69-134 (136)
22 PLN00160 histone H3; Provision 97.8 0.0001 2.3E-09 55.8 7.7 65 12-76 28-94 (97)
23 PLN00161 histone H3; Provision 97.8 0.0001 2.2E-09 58.9 8.0 65 12-76 62-128 (135)
24 PLN00121 histone H3; Provision 97.8 0.00012 2.6E-09 58.5 7.5 64 12-75 69-133 (136)
25 KOG3467 Histone H4 [Chromatin 97.7 0.00014 3.1E-09 54.7 7.2 60 14-73 34-93 (103)
26 PF15511 CENP-T: Centromere ki 97.6 0.00013 2.9E-09 66.7 5.7 42 25-66 373-414 (414)
27 KOG4336 TBP-associated transcr 97.5 0.00032 6.9E-09 62.7 7.7 63 11-73 7-69 (323)
28 PF03847 TFIID_20kDa: Transcri 97.4 0.0009 2E-08 47.5 7.4 59 15-73 5-64 (68)
29 KOG2389 Predicted bromodomain 97.2 0.004 8.6E-08 56.5 10.6 64 13-76 33-96 (353)
30 KOG1142 Transcription initiati 96.9 0.0019 4.1E-08 56.5 5.7 67 13-79 158-225 (258)
31 PF13654 AAA_32: AAA domain; P 96.5 0.011 2.4E-07 55.8 8.0 64 12-75 433-507 (509)
32 KOG3423 Transcription initiati 96.0 0.047 1E-06 45.4 8.2 60 14-73 91-164 (176)
33 PF02269 TFIID-18kDa: Transcri 95.9 0.01 2.2E-07 44.2 3.8 59 15-73 7-66 (93)
34 KOG2549 Transcription initiati 95.9 0.03 6.5E-07 53.7 7.9 64 12-75 14-77 (576)
35 KOG1745 Histones H3 and H4 [Ch 95.9 0.0063 1.4E-07 48.9 2.9 64 14-77 72-136 (137)
36 smart00414 H2A Histone 2A. 95.9 0.026 5.6E-07 43.3 6.0 62 12-73 12-74 (106)
37 PF03540 TFIID_30kDa: Transcri 95.6 0.061 1.3E-06 36.5 6.3 44 14-57 7-50 (51)
38 PLN00154 histone H2A; Provisio 95.4 0.048 1E-06 43.8 6.0 62 12-73 41-104 (136)
39 PTZ00017 histone H2A; Provisio 94.8 0.073 1.6E-06 42.6 5.4 62 12-73 30-92 (134)
40 PTZ00463 histone H2B; Provisio 94.2 0.23 5E-06 39.0 6.9 63 14-76 33-96 (117)
41 PLN00158 histone H2B; Provisio 94.1 0.26 5.7E-06 38.6 7.1 62 14-75 32-94 (116)
42 cd07978 TAF13 The TATA Binding 93.8 0.52 1.1E-05 35.1 7.9 58 15-73 8-66 (92)
43 PLN00157 histone H2A; Provisio 93.7 0.15 3.2E-06 40.8 5.1 61 13-73 30-91 (132)
44 smart00427 H2B Histone H2B. 93.4 0.48 1E-05 35.6 7.1 63 14-76 6-69 (89)
45 TIGR00764 lon_rel lon-related 93.2 0.45 9.7E-06 45.8 8.4 65 12-76 315-393 (608)
46 PLN00156 histone H2AX; Provisi 93.0 0.29 6.2E-06 39.5 5.8 62 12-73 32-94 (139)
47 KOG1756 Histone 2A [Chromatin 93.0 0.31 6.8E-06 38.9 5.8 60 14-73 32-92 (131)
48 PLN00153 histone H2A; Provisio 92.7 0.31 6.6E-06 38.9 5.5 61 13-73 28-89 (129)
49 KOG0869 CCAAT-binding factor, 92.0 0.5 1.1E-05 39.1 6.0 78 13-93 40-117 (168)
50 COG5262 HTA1 Histone H2A [Chro 91.9 0.44 9.5E-06 37.8 5.4 61 13-73 30-91 (132)
51 PTZ00252 histone H2A; Provisio 91.8 0.53 1.2E-05 37.8 5.9 62 12-73 28-92 (134)
52 KOG0870 DNA polymerase epsilon 91.8 0.76 1.7E-05 38.2 6.9 76 13-90 18-93 (172)
53 PRK00411 cdc6 cell division co 90.7 1.7 3.7E-05 38.1 8.6 49 26-74 228-282 (394)
54 PRK05574 holA DNA polymerase I 89.8 1.9 4.1E-05 36.9 7.9 64 12-76 152-215 (340)
55 COG1067 LonB Predicted ATP-dep 89.8 1.1 2.3E-05 43.9 7.1 74 2-75 313-400 (647)
56 cd08045 TAF4 TATA Binding Prot 89.4 1.3 2.9E-05 36.9 6.5 61 12-72 51-117 (212)
57 TIGR00635 ruvB Holliday juncti 89.2 5.9 0.00013 33.5 10.5 81 14-96 167-252 (305)
58 TIGR03015 pepcterm_ATPase puta 89.1 2 4.3E-05 35.4 7.3 61 13-73 199-265 (269)
59 TIGR01128 holA DNA polymerase 87.4 3.5 7.5E-05 34.6 7.8 65 12-77 117-181 (302)
60 PRK07452 DNA polymerase III su 87.0 2.5 5.4E-05 36.4 6.9 61 12-73 136-198 (326)
61 PRK00080 ruvB Holliday junctio 86.9 6.7 0.00014 34.2 9.6 83 13-97 187-274 (328)
62 COG5162 Transcription initiati 86.8 3.4 7.4E-05 34.6 7.2 43 14-56 93-135 (197)
63 COG1466 HolA DNA polymerase II 86.7 2.5 5.4E-05 37.3 6.8 63 13-76 147-209 (334)
64 COG5095 TAF6 Transcription ini 86.4 2.7 5.9E-05 38.8 7.0 62 13-74 9-70 (450)
65 TIGR02902 spore_lonB ATP-depen 86.3 2.8 6.1E-05 39.6 7.4 60 13-73 270-331 (531)
66 PRK06585 holA DNA polymerase I 86.0 2.2 4.8E-05 37.1 6.1 64 12-76 148-212 (343)
67 PF05236 TAF4: Transcription i 85.9 1.5 3.2E-05 37.7 4.8 46 13-58 51-96 (264)
68 KOG1744 Histone H2B [Chromatin 85.5 3.2 7E-05 33.1 6.2 49 27-75 56-104 (127)
69 PRK05907 hypothetical protein; 83.8 2.8 6.1E-05 37.1 5.8 64 12-76 140-205 (311)
70 PRK08487 DNA polymerase III su 83.5 3.9 8.5E-05 35.8 6.6 62 12-76 141-202 (328)
71 PRK07914 hypothetical protein; 83.3 3.1 6.7E-05 36.3 5.8 63 12-76 134-196 (320)
72 TIGR02397 dnaX_nterm DNA polym 81.6 4.5 9.7E-05 34.8 6.1 58 13-72 183-240 (355)
73 PRK12402 replication factor C 81.3 4.9 0.00011 34.1 6.2 57 13-72 191-247 (337)
74 TIGR02928 orc1/cdc6 family rep 80.5 13 0.00029 32.1 8.7 49 26-74 220-274 (365)
75 PF15127 DUF4565: Protein of u 80.5 1.2 2.6E-05 33.6 1.9 28 26-53 45-72 (91)
76 PRK05629 hypothetical protein; 80.1 5.9 0.00013 34.4 6.4 62 12-75 132-193 (318)
77 cd08048 TAF11 TATA Binding Pro 79.2 18 0.00039 26.6 7.8 60 14-73 21-83 (85)
78 PRK14970 DNA polymerase III su 78.8 6.1 0.00013 34.7 6.2 58 13-72 174-231 (367)
79 PRK09111 DNA polymerase III su 77.6 6.5 0.00014 38.1 6.4 58 12-71 197-254 (598)
80 PRK13765 ATP-dependent proteas 77.5 7.4 0.00016 38.1 6.8 50 23-72 336-398 (637)
81 TIGR02030 BchI-ChlI magnesium 77.1 14 0.0003 33.2 8.0 58 26-83 254-318 (337)
82 TIGR02031 BchD-ChlD magnesium 76.6 6.4 0.00014 37.8 6.0 55 26-80 203-264 (589)
83 PRK00440 rfc replication facto 76.4 8.6 0.00019 32.3 6.2 58 12-72 167-224 (319)
84 PF13335 Mg_chelatase_2: Magne 75.7 14 0.00029 27.4 6.4 48 27-74 43-96 (96)
85 TIGR02442 Cob-chelat-sub cobal 75.2 7 0.00015 37.7 5.9 55 26-80 249-310 (633)
86 CHL00081 chlI Mg-protoporyphyr 71.8 20 0.00044 32.6 7.7 54 26-79 267-327 (350)
87 PRK00149 dnaA chromosomal repl 71.8 33 0.00073 31.3 9.2 63 9-73 279-348 (450)
88 TIGR03420 DnaA_homol_Hda DnaA 71.8 22 0.00047 28.4 7.2 58 12-71 165-225 (226)
89 PRK08691 DNA polymerase III su 70.5 17 0.00037 36.3 7.4 55 12-71 184-241 (709)
90 PRK06645 DNA polymerase III su 69.8 14 0.0003 35.2 6.4 59 12-71 193-253 (507)
91 KOG0871 Class 2 transcription 69.5 33 0.00072 28.3 7.7 67 5-73 10-78 (156)
92 PRK14955 DNA polymerase III su 69.4 14 0.0003 33.4 6.2 58 13-71 193-254 (397)
93 PF09415 CENP-X: CENP-S associ 69.2 17 0.00038 25.9 5.4 57 13-69 3-63 (72)
94 PRK04195 replication factor C 69.1 13 0.00028 34.4 6.0 57 12-71 166-222 (482)
95 PRK14964 DNA polymerase III su 68.2 14 0.00031 35.0 6.2 54 12-70 181-237 (491)
96 PRK09862 putative ATP-dependen 67.5 18 0.00039 34.5 6.7 35 40-74 458-492 (506)
97 PRK14971 DNA polymerase III su 66.5 16 0.00036 35.4 6.3 56 13-70 187-242 (614)
98 PRK14958 DNA polymerase III su 66.1 23 0.0005 33.6 7.1 53 13-70 185-240 (509)
99 TIGR00362 DnaA chromosomal rep 65.8 78 0.0017 28.3 10.2 57 14-72 276-335 (405)
100 PRK08903 DnaA regulatory inact 65.5 42 0.00092 27.2 7.8 60 11-72 162-224 (227)
101 PRK14957 DNA polymerase III su 64.7 19 0.00041 34.7 6.3 53 13-70 185-240 (546)
102 PRK14961 DNA polymerase III su 63.9 23 0.0005 31.5 6.4 55 13-72 185-242 (363)
103 PRK14962 DNA polymerase III su 63.1 25 0.00053 33.1 6.6 57 12-73 182-241 (472)
104 PRK13406 bchD magnesium chelat 61.4 33 0.00072 33.2 7.4 54 26-79 195-255 (584)
105 PRK14954 DNA polymerase III su 61.3 26 0.00057 34.2 6.7 58 13-71 193-254 (620)
106 smart00350 MCM minichromosome 59.0 16 0.00035 34.2 4.7 30 44-73 474-503 (509)
107 COG5248 TAF19 Transcription in 58.9 34 0.00073 27.0 5.7 43 29-73 30-72 (126)
108 PRK14953 DNA polymerase III su 57.8 31 0.00067 32.5 6.4 54 13-71 185-241 (486)
109 PRK13407 bchI magnesium chelat 57.6 57 0.0012 29.3 7.8 54 26-79 251-311 (334)
110 PRK09087 hypothetical protein; 57.0 84 0.0018 26.2 8.3 58 14-73 161-221 (226)
111 PRK07764 DNA polymerase III su 56.6 31 0.00067 34.9 6.4 55 13-68 186-240 (824)
112 PRK14950 DNA polymerase III su 56.5 32 0.00069 32.9 6.3 55 13-69 186-240 (585)
113 PRK14960 DNA polymerase III su 56.0 40 0.00088 33.7 7.0 53 12-69 183-238 (702)
114 PRK14959 DNA polymerase III su 55.9 34 0.00074 33.6 6.5 53 14-71 186-241 (624)
115 COG1474 CDC6 Cdc6-related prot 55.0 79 0.0017 28.7 8.3 67 7-73 187-264 (366)
116 KOG3901 Transcription initiati 54.1 46 0.001 26.0 5.7 42 29-73 30-71 (109)
117 PF07704 PSK_trans_fac: Rv0623 54.0 39 0.00085 24.4 5.1 54 48-103 12-65 (82)
118 PRK08727 hypothetical protein; 53.7 55 0.0012 27.2 6.7 62 9-72 161-229 (233)
119 PRK05563 DNA polymerase III su 53.6 60 0.0013 31.1 7.6 53 13-70 185-240 (559)
120 PRK14969 DNA polymerase III su 53.5 39 0.00085 32.1 6.3 54 13-71 185-241 (527)
121 PRK14952 DNA polymerase III su 53.2 37 0.00079 33.0 6.2 53 13-69 184-239 (584)
122 PRK08451 DNA polymerase III su 52.5 51 0.0011 31.8 6.9 53 12-69 182-237 (535)
123 PRK06305 DNA polymerase III su 52.3 44 0.00095 31.1 6.3 52 13-69 187-241 (451)
124 COG1224 TIP49 DNA helicase TIP 50.9 43 0.00093 31.7 5.9 67 9-76 360-434 (450)
125 PRK14963 DNA polymerase III su 49.6 47 0.001 31.5 6.2 55 13-70 182-236 (504)
126 PRK06647 DNA polymerase III su 48.8 52 0.0011 31.7 6.4 54 13-71 185-241 (563)
127 PRK05896 DNA polymerase III su 48.6 54 0.0012 32.2 6.5 55 13-69 185-239 (605)
128 PRK14086 dnaA chromosomal repl 47.6 95 0.0021 30.6 8.0 99 9-108 445-580 (617)
129 KOG1659 Class 2 transcription 47.0 59 0.0013 28.3 5.8 69 15-91 19-88 (224)
130 PLN03025 replication factor C 46.9 54 0.0012 28.4 5.8 53 13-68 165-217 (319)
131 KOG1942 DNA helicase, TBP-inte 46.9 51 0.0011 30.7 5.7 56 20-76 381-440 (456)
132 PF02847 MA3: MA3 domain; Int 46.9 1.1E+02 0.0023 22.0 6.8 66 11-76 17-83 (113)
133 PRK14956 DNA polymerase III su 46.4 1.6E+02 0.0034 28.2 9.1 53 12-69 186-241 (484)
134 PRK14951 DNA polymerase III su 46.3 57 0.0012 31.9 6.3 53 13-70 190-245 (618)
135 PRK14087 dnaA chromosomal repl 45.6 2.1E+02 0.0045 26.6 9.7 95 14-108 283-412 (450)
136 COG5208 HAP5 CCAAT-binding fac 44.4 40 0.00088 29.6 4.5 79 14-103 114-193 (286)
137 PRK06130 3-hydroxybutyryl-CoA 43.6 91 0.002 26.6 6.6 70 4-79 153-224 (311)
138 PRK06893 DNA replication initi 43.4 1.3E+02 0.0028 24.8 7.3 61 9-71 160-227 (229)
139 PF04719 TAFII28: hTAFII28-lik 42.2 1.4E+02 0.0031 22.2 7.5 58 15-72 29-88 (90)
140 TIGR02639 ClpA ATP-dependent C 41.9 78 0.0017 31.1 6.6 54 22-76 365-431 (731)
141 PF13702 Lysozyme_like: Lysozy 41.3 1.9E+02 0.0041 23.7 7.8 35 39-81 63-97 (160)
142 PRK14965 DNA polymerase III su 41.2 72 0.0016 30.6 6.1 53 13-70 185-240 (576)
143 PF09077 Phage-MuB_C: Mu B tra 40.6 14 0.00031 27.0 1.0 54 16-72 18-76 (78)
144 PTZ00361 26 proteosome regulat 39.7 88 0.0019 29.3 6.3 39 37-75 387-425 (438)
145 TIGR02903 spore_lon_C ATP-depe 38.9 71 0.0015 30.9 5.7 60 13-73 360-429 (615)
146 TIGR01242 26Sp45 26S proteasom 38.6 1E+02 0.0022 27.2 6.3 33 41-73 330-362 (364)
147 TIGR00153 conserved hypothetic 38.1 50 0.0011 27.2 4.0 36 63-98 58-93 (216)
148 COG1378 Predicted transcriptio 36.6 28 0.0006 30.0 2.3 37 14-50 4-40 (247)
149 COG5247 BUR6 Class 2 transcrip 36.4 2.1E+02 0.0045 22.4 7.2 68 27-102 42-109 (113)
150 PRK15485 cobalt transport prot 35.6 1.3E+02 0.0029 25.1 6.2 34 15-52 138-171 (225)
151 PF09123 DUF1931: Domain of un 34.6 15 0.00032 29.7 0.3 53 16-69 2-55 (138)
152 PRK14700 recombination factor 34.5 1.6E+02 0.0035 26.6 6.8 63 13-75 46-116 (300)
153 KOG1657 CCAAT-binding factor, 34.2 69 0.0015 27.8 4.4 65 15-79 80-145 (236)
154 TIGR01446 DnaD_dom DnaD and ph 34.1 1.5E+02 0.0032 20.0 5.6 29 8-39 14-42 (73)
155 TIGR00368 Mg chelatase-related 33.8 59 0.0013 30.9 4.2 35 40-74 465-499 (499)
156 PRK03992 proteasome-activating 31.8 1.5E+02 0.0031 26.9 6.2 37 38-74 336-372 (389)
157 COG0593 DnaA ATPase involved i 31.6 97 0.0021 29.0 5.2 99 8-108 242-376 (408)
158 PF08369 PCP_red: Proto-chloro 31.1 77 0.0017 20.5 3.2 26 45-70 18-44 (45)
159 PRK13531 regulatory ATPase Rav 31.1 2.6E+02 0.0057 27.0 8.0 48 26-73 223-283 (498)
160 PRK07133 DNA polymerase III su 30.8 1.4E+02 0.003 30.1 6.3 53 13-70 184-239 (725)
161 COG1460 Uncharacterized protei 30.4 92 0.002 24.4 4.1 37 7-44 77-113 (114)
162 TIGR00277 HDIG uncharacterized 28.9 1.5E+02 0.0032 19.2 4.4 33 38-73 4-36 (80)
163 PRK07003 DNA polymerase III su 28.4 2.2E+02 0.0048 29.2 7.3 53 13-70 185-240 (830)
164 TIGR01241 FtsH_fam ATP-depende 28.0 1.7E+02 0.0037 27.1 6.2 37 39-75 260-296 (495)
165 KOG0960 Mitochondrial processi 27.9 5.5E+02 0.012 24.7 10.6 125 4-131 122-269 (467)
166 PF10930 DUF2737: Protein of u 27.4 70 0.0015 22.0 2.6 23 75-101 17-39 (54)
167 PF13852 DUF4197: Protein of u 27.2 1.5E+02 0.0032 25.1 5.1 46 7-52 43-91 (202)
168 PF00493 MCM: MCM2/3/5 family 27.0 31 0.00067 30.5 1.1 30 44-73 296-325 (331)
169 PRK06620 hypothetical protein; 25.7 2.8E+02 0.0061 22.9 6.5 56 14-71 155-213 (214)
170 PRK08084 DNA replication initi 25.4 3.3E+02 0.0071 22.6 6.9 50 22-72 183-234 (235)
171 PF07766 LETM1: LETM1-like pro 25.3 2.8E+02 0.0061 24.0 6.6 71 14-89 175-245 (268)
172 KOG1757 Histone 2A [Chromatin 25.3 77 0.0017 25.2 2.8 61 13-73 34-96 (131)
173 COG5150 Class 2 transcription 25.2 3.7E+02 0.0081 21.8 7.7 70 2-73 6-77 (148)
174 PRK07994 DNA polymerase III su 24.7 2.6E+02 0.0057 27.7 7.0 51 14-69 186-239 (647)
175 CHL00176 ftsH cell division pr 24.5 2.4E+02 0.0053 27.7 6.7 37 38-74 387-423 (638)
176 TIGR02880 cbbX_cfxQ probable R 24.0 2.7E+02 0.0058 24.0 6.3 39 13-52 202-251 (284)
177 cd08054 gp6 Head-Tail Connecto 24.0 2.3E+02 0.0049 19.4 4.9 64 17-82 4-68 (91)
178 PRK06129 3-hydroxyacyl-CoA deh 23.6 3.3E+02 0.0072 23.4 6.8 68 5-78 157-226 (308)
179 KOG3902 Histone acetyltransfer 22.9 5.2E+02 0.011 23.9 8.0 61 12-72 28-88 (352)
180 PF03931 Skp1_POZ: Skp1 family 22.8 1.9E+02 0.0041 19.3 4.1 31 13-43 24-61 (62)
181 PF10431 ClpB_D2-small: C-term 22.6 2.6E+02 0.0057 19.1 5.9 25 16-40 18-43 (81)
182 KOG3219 Transcription initiati 22.5 1.6E+02 0.0035 25.1 4.4 59 14-73 117-177 (195)
183 PF03874 RNA_pol_Rpb4: RNA pol 22.4 1.2E+02 0.0025 22.5 3.3 34 8-42 83-116 (117)
184 PF09597 IGR: IGR protein moti 21.6 1.3E+02 0.0027 20.8 3.0 24 17-43 32-55 (57)
185 PF15337 Vasculin: Vascular pr 21.5 49 0.0011 25.3 1.1 22 9-30 6-27 (97)
186 PF14178 YppF: YppF-like prote 21.5 68 0.0015 22.6 1.7 21 21-41 10-30 (60)
187 PF01406 tRNA-synt_1e: tRNA sy 21.5 2.3E+02 0.005 25.5 5.5 63 13-75 34-115 (300)
188 cd05833 Ribosomal_P2 Ribosomal 21.2 1.2E+02 0.0027 23.2 3.3 30 9-39 17-46 (109)
189 COG0091 RplV Ribosomal protein 20.5 1.8E+02 0.004 22.8 4.1 54 7-67 20-77 (120)
190 PRK13610 photosystem II reacti 20.5 1.1E+02 0.0025 24.0 2.9 20 28-47 92-111 (113)
191 PTZ00112 origin recognition co 20.2 5.5E+02 0.012 27.5 8.4 63 8-73 934-1005(1164)
192 PLN00138 large subunit ribosom 20.0 2E+02 0.0044 22.2 4.3 30 9-39 17-46 (113)
No 1
>KOG3334 consensus Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=100.00 E-value=7.8e-54 Score=340.30 Aligned_cols=135 Identities=52% Similarity=0.920 Sum_probs=128.3
Q ss_pred CCCCC----CCCChhHHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030559 1 MAEGD----EDLPRDAKIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVN 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 66666 89999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCCCCcHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCCCceee-CCCCCCcch
Q 030559 77 SSFSQPPAREVLLELAKNRNKIPLPKSISAPGIPLPPEQDTLISPNYQLS-IPKKQSAQE 135 (175)
Q Consensus 77 ~~f~~pppre~LlelA~e~N~~PLP~v~~~~GirLPpe~~cLt~~Ny~l~-~p~~~~~~~ 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=1.2e-54 Score=340.46 Aligned_cols=124 Identities=58% Similarity=0.985 Sum_probs=59.0
Q ss_pred CCCCCCChhHHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccCCC
Q 030559 3 EGDEDLPRDAKIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVNSSFSQP 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 35568999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCCCceee
Q 030559 83 PAREVLLELAKNRNKIPLPKSISAPGIPLPPEQDTLISPNYQLS 126 (175)
Q Consensus 83 ppre~LlelA~e~N~~PLP~v~~~~GirLPpe~~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=2.5e-49 Score=304.90 Aligned_cols=117 Identities=60% Similarity=1.025 Sum_probs=116.0
Q ss_pred ChhHHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccCCCCcHHHH
Q 030559 9 PRDAKIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVNSSFSQPPAREVL 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 030559 89 LELAKNRNKIPLPKSISAPGIPLPPEQDTLISPNYQL 125 (175)
Q Consensus 89 lelA~e~N~~PLP~v~~~~GirLPpe~~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=1.5e-46 Score=293.94 Aligned_cols=126 Identities=44% Similarity=0.775 Sum_probs=120.3
Q ss_pred CCCCC-CCC----ChhHHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCC---CCCHHHHHHHHH
Q 030559 1 MAEGD-EDL----PRDAKIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKT---TIDCDDIKLAVQ 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 77777 444 9999999999999999999999999999999999999999999999999996 466799999999
Q ss_pred HhhccccCCCCcHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCCCceee
Q 030559 73 SKVNSSFSQPPAREVLLELAKNRNKIPLPKSISAPGIPLPPEQDTLISPNYQLS 126 (175)
Q Consensus 73 ~r~~~~f~~pppre~LlelA~e~N~~PLP~v~~~~GirLPpe~~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=99.29 E-value=1.4e-11 Score=93.93 Aligned_cols=62 Identities=23% Similarity=0.357 Sum_probs=59.6
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhh
Q 030559 14 IVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKV 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=99.29 E-value=9.3e-12 Score=93.03 Aligned_cols=63 Identities=29% Similarity=0.455 Sum_probs=60.3
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030559 14 IVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVN 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 589999999999999999999999999999999999999999999999999999999988654
No 7
>cd00076 H4 Histone H4, one of the four histones, along with H2A, H2B and H3, which forms the eukaryotic nucleosome core; along with H3, it plays a central role in nucleosome formation; histones bind to DNA and wrap the genetic material into "beads on a string" in which DNA (the string) is wrapped around small blobs of histones (the beads) at regular intervals; play a role in the inheritance of specialized chromosome structures and the control of gene activity; defects in the establishment of proper chromosome structure by histones may activate or silence genes aberrantly and thus lead to disease; the sequence of histone H4 has remained almost invariant in more than 2 billion years of evolution
Probab=99.28 E-value=2e-11 Score=90.12 Aligned_cols=62 Identities=27% Similarity=0.426 Sum_probs=59.7
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhh
Q 030559 14 IVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKV 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 69999999999999999999999999999999999999999999999999999999998744
No 8
>PTZ00015 histone H4; Provisional
Probab=99.26 E-value=2.5e-11 Score=92.38 Aligned_cols=66 Identities=18% Similarity=0.344 Sum_probs=61.6
Q ss_pred CChhHHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhh
Q 030559 8 LPRDAKIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKV 75 (175)
Q Consensus 8 ~PrDa~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 75 (175)
+|+ -.|.+|++..||.+++.++...|.+++..|..+|+.||..||+||+|+||+++||.+|++..-
T Consensus 31 I~k--~~IrRLarr~GvkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~AlKr~g 96 (102)
T PTZ00015 31 ITK--GAIRRLARRGGVKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVYALKRQG 96 (102)
T ss_pred CCH--HHHHHHHHHcCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHhcC
Confidence 454 479999999999999999999999999999999999999999999999999999999997643
No 9
>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=99.26 E-value=2.2e-11 Score=85.43 Aligned_cols=59 Identities=19% Similarity=0.328 Sum_probs=57.0
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHH
Q 030559 14 IVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQ 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 58999999999999999999999999999999999999999999999999999999973
No 10
>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=85.13 Aligned_cols=61 Identities=23% Similarity=0.462 Sum_probs=58.8
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 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 11
>smart00417 H4 Histone H4.
Probab=99.17 E-value=5.1e-11 Score=86.05 Aligned_cols=58 Identities=24% Similarity=0.387 Sum_probs=55.4
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLA 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 3699999999999999999999999999999999999999999999999999999754
No 12
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=99.08 E-value=1.2e-10 Score=84.35 Aligned_cols=52 Identities=35% Similarity=0.653 Sum_probs=44.5
Q ss_pred HhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHH
Q 030559 20 KSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQ 72 (175)
Q Consensus 20 ks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 72 (175)
...|+ .+++.++..|.|++|+|+..+..|...||+||||++|+.+||+|..+
T Consensus 20 ~~~~~-~~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~~dDV~Ll~R 71 (76)
T PF15630_consen 20 KEKGV-EVSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTINMDDVKLLAR 71 (76)
T ss_dssp CCTTS-EE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHTT
T ss_pred hccCC-ccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHHHhh
Confidence 33455 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=3.8e-09 Score=75.06 Aligned_cols=63 Identities=29% Similarity=0.443 Sum_probs=55.6
Q ss_pred HHHHHHHhC-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030559 14 IVKSLLKSM-GVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVN 76 (175)
Q Consensus 14 ~I~~ILks~-Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 76 (175)
-+..+++.. +-++++++|...|++++..|+.+|+.+|..+|+|+||+||+.+||+||++..-+
T Consensus 6 ~l~~lv~~id~~~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r~~~ 69 (72)
T cd07981 6 KLQELLKEIDPREQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLERNWN 69 (72)
T ss_pred HHHHHHHhhCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhcC
Confidence 345566665 457999999999999999999999999999999999999999999999987544
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=2.7e-08 Score=70.64 Aligned_cols=61 Identities=26% Similarity=0.522 Sum_probs=58.8
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 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=98.83 E-value=2.1e-08 Score=89.21 Aligned_cols=96 Identities=18% Similarity=0.302 Sum_probs=77.8
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc---cccCCCCc-----
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVN---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 3688899999999999999999999999999999999999999999999999999999999643 23322111
Q ss_pred -----------HHHHHHHHHhhcCCCCCCCCCCCCC
Q 030559 85 -----------REVLLELAKNRNKIPLPKSISAPGI 109 (175)
Q Consensus 85 -----------re~LlelA~e~N~~PLP~v~~~~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 133456677777 788888776543
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=98.60 E-value=2.2e-07 Score=64.86 Aligned_cols=62 Identities=21% Similarity=0.325 Sum_probs=53.7
Q ss_pred HHHHHHHHhCCCc-ccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHh
Q 030559 13 KIVKSLLKSMGVE-EYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSK 74 (175)
Q Consensus 13 ~~I~~ILks~Gv~-~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r 74 (175)
+++..|-...+.. +++..++..|-.+++-|+.+|+.+|..+|.|++|+||+..||++|++.+
T Consensus 13 r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r~~ 75 (75)
T PF00125_consen 13 RLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLAVRID 75 (75)
T ss_dssp HHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHHHT
T ss_pred eeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHHHhcC
Confidence 4445555554553 9999999999999999999999999999999999999999999999753
No 17
>smart00428 H3 Histone H3.
Probab=98.49 E-value=8.8e-07 Score=67.88 Aligned_cols=64 Identities=22% Similarity=0.337 Sum_probs=58.0
Q ss_pred HHHHHHHHHhCC---CcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhh
Q 030559 12 AKIVKSLLKSMG---VEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKV 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 2389999999999999999999999999999999999999999999987664
No 18
>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=98.29 E-value=2.2e-06 Score=66.48 Aligned_cols=62 Identities=19% Similarity=0.111 Sum_probs=58.4
Q ss_pred HHHHHHHHHh-CCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 12 AKIVKSLLKS-MGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 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 19
>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=98.28 E-value=5.6e-06 Score=58.61 Aligned_cols=60 Identities=20% Similarity=0.351 Sum_probs=50.7
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQ 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 468899999999999999999999999999999999999999999999999999999974
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=98.11 E-value=1.6e-05 Score=54.60 Aligned_cols=58 Identities=19% Similarity=0.253 Sum_probs=53.3
Q ss_pred HHHHHHHhC-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHH
Q 030559 14 IVKSLLKSM-GVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAV 71 (175)
Q Consensus 14 ~I~~ILks~-Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI 71 (175)
.|.+|+|.. |+..++.+++..+...+..|+..++.+|...|.+.||+||+.+||..|+
T Consensus 7 ~vkri~k~~~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~~rkti~~~Dv~~Av 65 (65)
T PF00808_consen 7 RVKRIMKSDPDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTITYEDVAKAV 65 (65)
T ss_dssp HHHHHHHHTSTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE-HHHHHHHH
T ss_pred HHHHHhccCCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHC
Confidence 588999999 8889999999999999999999999999999999999999999999885
No 21
>PTZ00018 histone H3; Provisional
Probab=97.83 E-value=7.9e-05 Score=59.59 Aligned_cols=65 Identities=20% Similarity=0.343 Sum_probs=57.5
Q ss_pred HHHHHHHHHhCCC-cccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030559 12 AKIVKSLLKSMGV-EEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVN 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 4788888877532 2899999999999999999999999999999999999999999999876644
No 22
>PLN00160 histone H3; Provisional
Probab=97.82 E-value=0.0001 Score=55.84 Aligned_cols=65 Identities=20% Similarity=0.283 Sum_probs=57.7
Q ss_pred HHHHHHHHHhCC--CcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030559 12 AKIVKSLLKSMG--VEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVN 76 (175)
Q Consensus 12 a~~I~~ILks~G--v~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 76 (175)
.|+|..|..+.. --+|...++..|=|-++-|...+++|+...|.||+|-||...|++||...|.+
T Consensus 28 ~RLVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~~L~~rirg~ 94 (97)
T PLN00160 28 ARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDMQLARRIRGQ 94 (97)
T ss_pred HHHHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhHHHHHHhhcc
Confidence 478888887762 24899999999999999999999999999999999999999999999876643
No 23
>PLN00161 histone H3; Provisional
Probab=97.82 E-value=0.0001 Score=58.91 Aligned_cols=65 Identities=20% Similarity=0.288 Sum_probs=58.3
Q ss_pred HHHHHHHHHhCC--CcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030559 12 AKIVKSLLKSMG--VEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVN 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 24899999999999999999999999999999999999999999999877644
No 24
>PLN00121 histone H3; Provisional
Probab=97.76 E-value=0.00012 Score=58.54 Aligned_cols=64 Identities=20% Similarity=0.344 Sum_probs=57.4
Q ss_pred HHHHHHHHHhCCC-cccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhh
Q 030559 12 AKIVKSLLKSMGV-EEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKV 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 4788888887632 399999999999999999999999999999999999999999999987664
No 25
>KOG3467 consensus Histone H4 [Chromatin structure and dynamics]
Probab=97.74 E-value=0.00014 Score=54.74 Aligned_cols=60 Identities=23% Similarity=0.381 Sum_probs=55.6
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 14 IVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 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
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T.
Probab=97.55 E-value=0.00013 Score=66.74 Aligned_cols=42 Identities=21% Similarity=0.338 Sum_probs=36.9
Q ss_pred cccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHH
Q 030559 25 EEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDD 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 27
>KOG4336 consensus TBP-associated transcription factor Prodos [Transcription]
Probab=97.54 E-value=0.00032 Score=62.68 Aligned_cols=63 Identities=25% Similarity=0.408 Sum_probs=60.1
Q ss_pred hHHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 11 DAKIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 73 (175)
Q Consensus 11 Da~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
++.||..||++.|.+..+..+..-|++...-|..+|...+..|++||||...+..||.+..-.
T Consensus 7 l~~VV~~Ll~~~gfd~is~~aletlvell~~yi~eigrq~~n~celagRT~pT~~Dv~l~Li~ 69 (323)
T KOG4336|consen 7 LAPVVSNLLKTKGFDSISNAALETLVELLQSYIREIGRQLHNYCELAGRTIPTQGDVKLTLIE 69 (323)
T ss_pred HHHHHHHHHHHhCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHHH
Confidence 678999999999999999999999999999999999999999999999999999999998743
No 28
>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=97.42 E-value=0.0009 Score=47.49 Aligned_cols=59 Identities=25% Similarity=0.428 Sum_probs=47.2
Q ss_pred HHHHHHhCCC-cccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 15 VKSLLKSMGV-EEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 73 (175)
Q Consensus 15 I~~ILks~Gv-~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
+..++++.+- ...+++|...|+++|..|+.+|+..|..+|+|-|..+|+..||++.++.
T Consensus 5 l~~Lv~~iDp~~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~tle~~Dv~~~Ler 64 (68)
T PF03847_consen 5 LQELVKQIDPNEKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSSTLEVKDVQLHLER 64 (68)
T ss_dssp HHHHHHCC-SS----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHHHH
T ss_pred HHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHHh
Confidence 5566776633 4799999999999999999999999999999999999999999998865
No 29
>KOG2389 consensus Predicted bromodomain transcription factor [Transcription]
Probab=97.20 E-value=0.004 Score=56.54 Aligned_cols=64 Identities=25% Similarity=0.308 Sum_probs=59.9
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVN 76 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 76 (175)
-.+.+|..+.|...|..-+.+-|-+++.+|+.++.+.|..|++||||......||.+|++.-..
T Consensus 33 ~avaQIcqslg~~~~~~sale~Ltd~~~qyvQ~lgk~a~~~~n~anR~epnl~Div~Al~dls~ 96 (353)
T KOG2389|consen 33 VAVAQICQSLGYSSTQNSALETLTDVLQQYVQNLGKTAHRYSNLANRTEPNLFDIVLALQDLSA 96 (353)
T ss_pred HHHHHHHHhcCCcccccHHHHHHHHHHHHHHHHHHhhhhhhhhhcCCCCccHHHHHHHHHHhhh
Confidence 3578999999999999999999999999999999999999999999999999999999998443
No 30
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=96.90 E-value=0.0019 Score=56.47 Aligned_cols=67 Identities=18% Similarity=0.372 Sum_probs=57.4
Q ss_pred HHHHHHHHhC-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhcccc
Q 030559 13 KIVKSLLKSM-GVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVNSSF 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 4455555555 556789999999999999999999999999999999999999999999988776544
No 31
>PF13654 AAA_32: AAA domain; PDB: 3K1J_B.
Probab=96.49 E-value=0.011 Score=55.78 Aligned_cols=64 Identities=17% Similarity=0.461 Sum_probs=54.7
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHH-----------HHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhh
Q 030559 12 AKIVKSLLKSMGVEEYEPRVIHQFLEVWYR-----------YVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKV 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 578899999999999999999999999988 5789999999999999999999999999999875
No 32
>KOG3423 consensus Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=95.97 E-value=0.047 Score=45.38 Aligned_cols=60 Identities=25% Similarity=0.325 Sum_probs=53.6
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhC--------------CCCCCHHHHHHHHHH
Q 030559 14 IVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAG--------------KTTIDCDDIKLAVQS 73 (175)
Q Consensus 14 ~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAg--------------R~tI~~eDVrLAI~~ 73 (175)
|+.-.|+..|+.-.++||+..+-=.|..|+++|+.||..|++..+ |-|++.+|+.-|+..
T Consensus 91 vt~~yL~~aGf~~~D~rv~RLvsLaAQKfvSDIa~DA~Q~~k~r~~~~~~~~k~~~kdkK~tLtmeDL~~AL~E 164 (176)
T KOG3423|consen 91 VTDHYLKKAGFQTSDPRVKRLVSLAAQKFVSDIANDALQHSKIRTKTAIGKDKKQAKDKKYTLTMEDLSPALAE 164 (176)
T ss_pred HHHHHHHhcCCCcCcHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccccccccccceeeeHHHHHHHHHH
Confidence 677899999999999999999999999999999999999998654 246889999999876
No 33
>PF02269 TFIID-18kDa: Transcription initiation factor IID, 18kD subunit; InterPro: IPR003195 This family includes the Spt3 yeast transcription factors and the 18 kDa subunit from human transcription initiation factor IID (TFIID-18). Determination of the crystal structure reveals an atypical histone fold [].; GO: 0006366 transcription from RNA polymerase II promoter; PDB: 1BH9_A 1BH8_A.
Probab=95.94 E-value=0.01 Score=44.18 Aligned_cols=59 Identities=15% Similarity=0.397 Sum_probs=29.8
Q ss_pred HHHHHHhCCC-cccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 15 VKSLLKSMGV-EEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 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 3455666664 4667888999999999999999999999999999999999999999875
No 34
>KOG2549 consensus Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=95.94 E-value=0.03 Score=53.70 Aligned_cols=64 Identities=20% Similarity=0.302 Sum_probs=59.1
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhh
Q 030559 12 AKIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKV 75 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 75 (175)
...++-+.+++|++...+++...|.+-..--+.+|.+||..|-.|+.|.+.+.+||-.|++++.
T Consensus 14 ~Es~k~vAEslGi~nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~ALr~~n 77 (576)
T KOG2549|consen 14 KESVKVVAESLGITNLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYALRSLN 77 (576)
T ss_pred HHHHHHHHHHhCccccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHHHhhcc
Confidence 4578889999999999999999999888888999999999999999999999999999999853
No 35
>KOG1745 consensus Histones H3 and H4 [Chromatin structure and dynamics]
Probab=95.93 E-value=0.0063 Score=48.86 Aligned_cols=64 Identities=22% Similarity=0.345 Sum_probs=53.9
Q ss_pred HHHHHHHhCCC-cccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhcc
Q 030559 14 IVKSLLKSMGV-EEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVNS 77 (175)
Q Consensus 14 ~I~~ILks~Gv-~~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 44444444311 27999999999999999999999999999999999999999999999887653
No 36
>smart00414 H2A Histone 2A.
Probab=95.88 E-value=0.026 Score=43.26 Aligned_cols=62 Identities=16% Similarity=0.119 Sum_probs=56.3
Q ss_pred HHHHHHHHHhCC-CcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 12 AKIVKSLLKSMG-VEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 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 346899999863 57999999999999999999999999999999999999999999999976
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=95.62 E-value=0.061 Score=36.54 Aligned_cols=44 Identities=20% Similarity=0.342 Sum_probs=41.2
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHh
Q 030559 14 IVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHA 57 (175)
Q Consensus 14 ~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HA 57 (175)
++.-+|+..|.+.-+++++..+-=.+.+++++|+.||..|++..
T Consensus 7 v~~~yL~~~G~~~~D~rv~RLvSLaaQKFisdI~~dA~q~~k~r 50 (51)
T PF03540_consen 7 VTDYYLERSGFQTSDPRVKRLVSLAAQKFISDIANDAMQYCKIR 50 (51)
T ss_pred HHHHHHHHCCCCCCCHhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 78899999999999999999999999999999999999999763
No 38
>PLN00154 histone H2A; Provisional
Probab=95.39 E-value=0.048 Score=43.80 Aligned_cols=62 Identities=15% Similarity=0.036 Sum_probs=56.9
Q ss_pred HHHHHHHHHhCC--CcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 12 AKIVKSLLKSMG--VEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 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 346899999964 57999999999999999999999999999999999999999999999976
No 39
>PTZ00017 histone H2A; Provisional
Probab=94.77 E-value=0.073 Score=42.64 Aligned_cols=62 Identities=19% Similarity=0.099 Sum_probs=55.7
Q ss_pred HHHHHHHHHhC-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 12 AKIVKSLLKSM-GVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 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 456899999999999999999999999999999999999999999999976
No 40
>PTZ00463 histone H2B; Provisional
Probab=94.19 E-value=0.23 Score=39.01 Aligned_cols=63 Identities=11% Similarity=0.146 Sum_probs=51.8
Q ss_pred HHHHHHHhCCC-cccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030559 14 IVKSLLKSMGV-EEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVN 76 (175)
Q Consensus 14 ~I~~ILks~Gv-~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 76 (175)
-|.++||...- ...+.++..-|--|.+.....|..+|..+|...+|.||+..+|+.|++..+-
T Consensus 33 YI~KVLKqVhPd~gIS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAvrLlLp 96 (117)
T PTZ00463 33 YIFKVLKQVHPDTGISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAIRLVLP 96 (117)
T ss_pred HHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHhhccc
Confidence 35566655311 1248889999999999999999999999999999999999999999988653
No 41
>PLN00158 histone H2B; Provisional
Probab=94.10 E-value=0.26 Score=38.64 Aligned_cols=62 Identities=15% Similarity=0.157 Sum_probs=51.4
Q ss_pred HHHHHHHhCCC-cccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhh
Q 030559 14 IVKSLLKSMGV-EEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKV 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 35666665311 124788889999999999999999999999999999999999999998865
No 42
>cd07978 TAF13 The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAFs orthologs and paralogs. Several hy
Probab=93.78 E-value=0.52 Score=35.13 Aligned_cols=58 Identities=9% Similarity=0.318 Sum_probs=48.9
Q ss_pred HHHHHHhCCCc-ccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 15 VKSLLKSMGVE-EYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 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 55566666654 457889999999999999999999999999 78888899999999964
No 43
>PLN00157 histone H2A; Provisional
Probab=93.69 E-value=0.15 Score=40.81 Aligned_cols=61 Identities=20% Similarity=0.081 Sum_probs=55.0
Q ss_pred HHHHHHHHhC-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 13 KIVKSLLKSM-GVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 73 (175)
Q Consensus 13 ~~I~~ILks~-Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
--|++.|++. -..+++..++..|.-.++-.+.+||+-|-..|...+++.|+...|.+||..
T Consensus 30 gRi~R~Lk~g~~a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~n 91 (132)
T PLN00157 30 GRIARYLKAGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRIVPRHIQLAVRN 91 (132)
T ss_pred HHHHHHHhcCchhhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHhhcccC
Confidence 4688999884 346889999999999999999999999999999999999999999999976
No 44
>smart00427 H2B Histone H2B.
Probab=93.39 E-value=0.48 Score=35.56 Aligned_cols=63 Identities=13% Similarity=0.146 Sum_probs=51.8
Q ss_pred HHHHHHHhCCC-cccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030559 14 IVKSLLKSMGV-EEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVN 76 (175)
Q Consensus 14 ~I~~ILks~Gv-~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 76 (175)
-|.++||...- ...+.++..-+--|+......|..+|..++...+|.||+..+|+.|++..+-
T Consensus 6 Yi~kvLKqVhpd~giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~TltsreIqtAvrl~Lp 69 (89)
T smart00427 6 YIYKVLKQVHPDTGISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLSSREIQTAVRLILP 69 (89)
T ss_pred HHHHHHHHhCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHHHcc
Confidence 35556665411 1367888888999999999999999999999999999999999999988663
No 45
>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=93.15 E-value=0.45 Score=45.82 Aligned_cols=65 Identities=12% Similarity=0.189 Sum_probs=54.7
Q ss_pred HHHHHHHHHhCC-CcccChHHHHHHHHHHH-------------HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030559 12 AKIVKSLLKSMG-VEEYEPRVIHQFLEVWY-------------RYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVN 76 (175)
Q Consensus 12 a~~I~~ILks~G-v~~yep~Vv~qLlEfay-------------rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 76 (175)
+++|...++..| ...+++.++..|++++. |...+|+..|..+|+..|+..|+.+||+-|++.+..
T Consensus 315 ~~~i~~~~~r~G~l~~~s~~Av~~Li~~~~R~ag~r~~lsl~~R~L~~llR~A~~iA~~~~~~~I~~ehV~~Ai~~~~~ 393 (608)
T TIGR00764 315 VQFVAQEVKKDGRIPHFTRDAVEEIVREAQRRAGRKDHLTLRLRELGGLVRAAGDIAKSSGKVYVTAEHVLKAKKLAKT 393 (608)
T ss_pred HHHHHHHHHHhCCCCcCCHHHHHHHHHHHHHHHhcccccCCCHHHHHHHHHHHHHHHHhcCCceecHHHHHHHHHHHHH
Confidence 467777777775 66899999999999877 456789999988898889999999999999998653
No 46
>PLN00156 histone H2AX; Provisional
Probab=93.04 E-value=0.29 Score=39.50 Aligned_cols=62 Identities=21% Similarity=0.101 Sum_probs=55.6
Q ss_pred HHHHHHHHHhC-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 12 AKIVKSLLKSM-GVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 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 44688999885 346899999999999999999999999999999999999999999999976
No 47
>KOG1756 consensus Histone 2A [Chromatin structure and dynamics]
Probab=92.95 E-value=0.31 Score=38.92 Aligned_cols=60 Identities=17% Similarity=0.139 Sum_probs=55.6
Q ss_pred HHHHHHHh-CCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 14 IVKSLLKS-MGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 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 5778999999999999999999999999999999999999999999999975
No 48
>PLN00153 histone H2A; Provisional
Probab=92.71 E-value=0.31 Score=38.87 Aligned_cols=61 Identities=20% Similarity=0.090 Sum_probs=54.7
Q ss_pred HHHHHHHHhC-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 13 KIVKSLLKSM-GVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 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 4588889874 346889999999999999999999999999999999999999999999976
No 49
>KOG0869 consensus CCAAT-binding factor, subunit A (HAP3) [Transcription]
Probab=91.99 E-value=0.5 Score=39.11 Aligned_cols=78 Identities=17% Similarity=0.189 Sum_probs=63.1
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccCCCCcHHHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVNSSFSQPPAREVLLELA 92 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f~~pppre~LlelA 92 (175)
|+|+.+|-..| .++.++...+-|-+-.|.+=|-.+|..-..--.||||+.|||-.|+.. ++|....-|=+=+|..+=
T Consensus 40 RIMK~~lP~na--KIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~t-LGFe~Y~eplkiyL~kYR 116 (168)
T KOG0869|consen 40 RIMKKALPANA--KISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMST-LGFENYAEPLKIYLQKYR 116 (168)
T ss_pred HHHHhcCCccc--ccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHHH-cCcHhHHHHHHHHHHHHH
Confidence 45555554444 589999999999999999999999999999999999999999999965 777666666677777654
Q ss_pred H
Q 030559 93 K 93 (175)
Q Consensus 93 ~ 93 (175)
.
T Consensus 117 e 117 (168)
T KOG0869|consen 117 E 117 (168)
T ss_pred H
Confidence 4
No 50
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]
Probab=91.92 E-value=0.44 Score=37.85 Aligned_cols=61 Identities=20% Similarity=0.085 Sum_probs=55.8
Q ss_pred HHHHHHHH-hCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 13 KIVKSLLK-SMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 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 35889999 55778999999999999999999999999999999999999999999999976
No 51
>PTZ00252 histone H2A; Provisional
Probab=91.78 E-value=0.53 Score=37.78 Aligned_cols=62 Identities=15% Similarity=0.064 Sum_probs=53.4
Q ss_pred HHHHHHHHHhCC-CcccChHHHHHHHHHHHHHHHHHHHHHHHHHhH--hCCCCCCHHHHHHHHHH
Q 030559 12 AKIVKSLLKSMG-VEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEH--AGKTTIDCDDIKLAVQS 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 346888998875 468999999999999999999999999999864 45678999999999976
No 52
>KOG0870 consensus DNA polymerase epsilon, subunit D [Transcription]
Probab=91.76 E-value=0.76 Score=38.23 Aligned_cols=76 Identities=17% Similarity=0.198 Sum_probs=60.5
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccCCCCcHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVNSSFSQPPAREVLLE 90 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f~~pppre~Lle 90 (175)
|+|..+|....+ .++-++...+..-|-=|+.-+..=|..+|.-++|+||+++||--|+.. ++|+-..+|=++.|=.
T Consensus 18 rlvke~l~E~~v-sisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~E-iefs~f~~plk~~Le~ 93 (172)
T KOG0870|consen 18 RLVKEVLPESNV-SISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALDE-IEFSSFVNPLKSALEA 93 (172)
T ss_pred HHHHHhCccccc-cccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHHH-hchHHHhhHHHHHHHH
Confidence 455566665555 488999999999999999999999999999999999999999999988 5554444555555543
No 53
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=90.72 E-value=1.7 Score=38.14 Aligned_cols=49 Identities=18% Similarity=0.332 Sum_probs=44.3
Q ss_pred ccChHHHHHHHHHH------HHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHh
Q 030559 26 EYEPRVIHQFLEVW------YRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSK 74 (175)
Q Consensus 26 ~yep~Vv~qLlEfa------yrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r 74 (175)
.++++++..+.+++ .|++.+++..|..+|...|+.+|+.+||+-|+..-
T Consensus 228 ~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~~~I~~~~v~~a~~~~ 282 (394)
T PRK00411 228 VVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRKVTEEDVRKAYEKS 282 (394)
T ss_pred CCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHH
Confidence 58999999999999 78888999999999999999999999999999763
No 54
>PRK05574 holA DNA polymerase III subunit delta; Reviewed
Probab=89.80 E-value=1.9 Score=36.92 Aligned_cols=64 Identities=13% Similarity=0.176 Sum_probs=53.8
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030559 12 AKIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVN 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 57899999999995 99999999999998777888888888888876555999999988766544
No 55
>COG1067 LonB Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]
Probab=89.80 E-value=1.1 Score=43.94 Aligned_cols=74 Identities=12% Similarity=0.182 Sum_probs=60.5
Q ss_pred CCCCCCCChhHHHHHHHHHhC-CCcccChHHHHHHHHHHHHHH-------------HHHHHHHHHHHhHhCCCCCCHHHH
Q 030559 2 AEGDEDLPRDAKIVKSLLKSM-GVEEYEPRVIHQFLEVWYRYV-------------VDVLTDAQVYSEHAGKTTIDCDDI 67 (175)
Q Consensus 2 ~~~~~~~PrDa~~I~~ILks~-Gv~~yep~Vv~qLlEfayrYt-------------~~VL~DA~~yA~HAgR~tI~~eDV 67 (175)
.+.+++.-+.++.+.+-+..- ++..++..++..|...+.|++ ..++..|-.+|.-.|++-|+++||
T Consensus 313 ~~~~~nr~k~~~~~~q~v~~d~~ip~~~~~Av~~li~~a~R~Ag~~~~Ltl~~rdl~~lv~~A~~ia~~~~~~~I~ae~V 392 (647)
T COG1067 313 PITDANRSKLVQFYVQELARDGNIPHLDKDAVEELIREAARRAGDQNKLTLRLRDLGNLVREAGDIAVSEGRKLITAEDV 392 (647)
T ss_pred CCChHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhccccceeccCHHHHHHHHHHhhHHHhcCCcccCcHHHH
Confidence 334444556677777766666 999999999999999999876 467888888888889999999999
Q ss_pred HHHHHHhh
Q 030559 68 KLAVQSKV 75 (175)
Q Consensus 68 rLAI~~r~ 75 (175)
+.|++.+.
T Consensus 393 e~a~~~~~ 400 (647)
T COG1067 393 EEALQKRE 400 (647)
T ss_pred HHHHHhhh
Confidence 99999854
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=89.38 E-value=1.3 Score=36.91 Aligned_cols=61 Identities=18% Similarity=0.203 Sum_probs=50.4
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCC------CCCCHHHHHHHHH
Q 030559 12 AKIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGK------TTIDCDDIKLAVQ 72 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR------~tI~~eDVrLAI~ 72 (175)
.+.|..|++..|+..++++++..|..-++.|...|+.++...|+|--. ..+-..||+--+.
T Consensus 51 ~~~~~~i~~~~g~~~~~~d~~~lis~a~e~rlr~li~k~~~~s~hR~~~~~~~~r~~~~sdvr~qL~ 117 (212)
T cd08045 51 AKKIRKIAKKHGLKEVDEDVLDLISLALEERLRNLLEKLIEVSEHRVDSEKEDERYEITSDVRKQLR 117 (212)
T ss_pred HHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCceeecchHHHHHH
Confidence 467899999999999999999999999999999999999999999622 2233466665443
No 57
>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=89.19 E-value=5.9 Score=33.54 Aligned_cols=81 Identities=16% Similarity=0.097 Sum_probs=58.5
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHHHH---HHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccCCCCcHH--HH
Q 030559 14 IVKSLLKSMGVEEYEPRVIHQFLEVWYRY---VVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVNSSFSQPPARE--VL 88 (175)
Q Consensus 14 ~I~~ILks~Gv~~yep~Vv~qLlEfayrY---t~~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 44555556676 59999999999987644 4556666666776667778999999999987 676677777777 67
Q ss_pred HHHHHhhc
Q 030559 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 65755443
No 58
>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=89.06 E-value=2 Score=35.41 Aligned_cols=61 Identities=7% Similarity=0.071 Sum_probs=49.6
Q ss_pred HHHHHHHHhCCC---cccChHHHHHHHHHHHH---HHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 13 KIVKSLLKSMGV---EEYEPRVIHQFLEVWYR---YVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 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 67777788877777778999999999999976
No 59
>TIGR01128 holA DNA polymerase III, delta subunit. subunit around DNA forming a DNA sliding clamp.
Probab=87.38 E-value=3.5 Score=34.57 Aligned_cols=65 Identities=15% Similarity=0.273 Sum_probs=51.3
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhcc
Q 030559 12 AKIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVNS 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 35889999999995 999999999998876666666666666666776689999999887655443
No 60
>PRK07452 DNA polymerase III subunit delta; Validated
Probab=87.02 E-value=2.5 Score=36.43 Aligned_cols=61 Identities=15% Similarity=0.228 Sum_probs=53.2
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHh--CCCCCCHHHHHHHHHH
Q 030559 12 AKIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHA--GKTTIDCDDIKLAVQS 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 57899999999996 9999999999999988888888888888885 3668999999987743
No 61
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=86.95 E-value=6.7 Score=34.15 Aligned_cols=83 Identities=17% Similarity=0.142 Sum_probs=61.0
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccCC--CCcHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWY---RYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVNSSFSQ--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 4566666677874 99999999999884 668888888888887767789999999999966 4433333 355677
Q ss_pred HHHHHHhhcC
Q 030559 88 LLELAKNRNK 97 (175)
Q Consensus 88 LlelA~e~N~ 97 (175)
|..++...+.
T Consensus 265 l~~~~~~~~~ 274 (328)
T PRK00080 265 LRTIIEKFGG 274 (328)
T ss_pred HHHHHHHcCC
Confidence 7667765443
No 62
>COG5162 Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=86.77 E-value=3.4 Score=34.65 Aligned_cols=43 Identities=23% Similarity=0.305 Sum_probs=39.5
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhH
Q 030559 14 IVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEH 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 6788889999999999999999999999999999999999875
No 63
>COG1466 HolA DNA polymerase III, delta subunit [DNA replication, recombination, and repair]
Probab=86.69 E-value=2.5 Score=37.25 Aligned_cols=63 Identities=17% Similarity=0.290 Sum_probs=55.3
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVN 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 QWIKKRAKELGL-KIDQEAIQLLLEALGGNLLAIAQEIEKLALYAGDKEITLEDVEEVVSDVAE 209 (334)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCCcCCHHHHHHHHhcccc
Confidence 588999999999 599999999999998888888888888888888779999999999966443
No 64
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=86.37 E-value=2.7 Score=38.78 Aligned_cols=62 Identities=19% Similarity=0.327 Sum_probs=53.1
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHh
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSK 74 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r 74 (175)
..|+.+-.+.|+....+++...|.-=.+--..+|.++|..|-.|.+|..++.+||--|.+++
T Consensus 9 et~KdvAeslGi~Ni~Dd~l~alamDlEYRI~ev~qea~KFmvhSKRtvLt~dDis~ALr~l 70 (450)
T COG5095 9 ETLKDVAESLGISNIDDDALRALAMDLEYRIKEVCQEASKFMVHSKRTVLTIDDISYALRSL 70 (450)
T ss_pred HHHHHHHHHcCCcccccHHHHHHHHhHHHHHHHHHHHHHHHhhcccceeeeHHhHHHHHHhc
Confidence 45777888999999999998888544444468999999999999999999999999999884
No 65
>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=86.25 E-value=2.8 Score=39.60 Aligned_cols=60 Identities=18% Similarity=0.292 Sum_probs=48.5
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHH--HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWY--RYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 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 456666777887 589999988777654 778888888888887778899999999999864
No 66
>PRK06585 holA DNA polymerase III subunit delta; Reviewed
Probab=85.96 E-value=2.2 Score=37.09 Aligned_cols=64 Identities=16% Similarity=0.187 Sum_probs=52.7
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhC-CCCCCHHHHHHHHHHhhc
Q 030559 12 AKIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAG-KTTIDCDDIKLAVQSKVN 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 46899999999995 99999999999998877777777778777765 468999999877655443
No 67
>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=85.86 E-value=1.5 Score=37.75 Aligned_cols=46 Identities=17% Similarity=0.235 Sum_probs=34.1
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhC
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAG 58 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAg 58 (175)
+.|..|.+..|+..++++++..|---++.|..+|+.++..+|.|--
T Consensus 51 ~~i~~i~~~~g~~~~~~d~l~llS~A~e~rLr~lie~~~~~s~hR~ 96 (264)
T PF05236_consen 51 KRIQKIAKKHGLKSVDEDVLELLSLATEERLRNLIEKAIVLSRHRR 96 (264)
T ss_dssp HHHHHHHHCTT--EE-TCHHHHHHHHHHHHHHHHHHHHH-------
T ss_pred HHHHHHHHHcCCcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 5678899999999999999999999999999999999999999954
No 68
>KOG1744 consensus Histone H2B [Chromatin structure and dynamics]
Probab=85.46 E-value=3.2 Score=33.08 Aligned_cols=49 Identities=12% Similarity=0.140 Sum_probs=42.7
Q ss_pred cChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhh
Q 030559 27 YEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKV 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 4567777777788888999999999999999999999999999998744
No 69
>PRK05907 hypothetical protein; Provisional
Probab=83.80 E-value=2.8 Score=37.15 Aligned_cols=64 Identities=19% Similarity=0.295 Sum_probs=53.6
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHH-HHHHHHHHHHHHHHHhHhC-CCCCCHHHHHHHHHHhhc
Q 030559 12 AKIVKSLLKSMGVEEYEPRVIHQFLEVW-YRYVVDVLTDAQVYSEHAG-KTTIDCDDIKLAVQSKVN 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 9999999999977 6777788888888888866 778999999988654333
No 70
>PRK08487 DNA polymerase III subunit delta; Validated
Probab=83.51 E-value=3.9 Score=35.78 Aligned_cols=62 Identities=10% Similarity=0.133 Sum_probs=50.9
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030559 12 AKIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVN 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 56999999999996 99999999999988777777777777776755 6999999998755433
No 71
>PRK07914 hypothetical protein; Reviewed
Probab=83.28 E-value=3.1 Score=36.25 Aligned_cols=63 Identities=13% Similarity=0.237 Sum_probs=50.7
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030559 12 AKIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVN 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 67999999999996 99999999999997666667666666655555 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=81.55 E-value=4.5 Score=34.82 Aligned_cols=58 Identities=14% Similarity=0.174 Sum_probs=39.5
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQ 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 ERLKKILDKEGI-KIEDEALELIARAADGSLRDALSLLDQLISFGN-GNITYEDVNELLG 240 (355)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHcCCChHHHHHHHHHHHhhcC-CCCCHHHHHHHhC
Confidence 467778888998 499999999999886444444443333333334 3599999987653
No 73
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=81.26 E-value=4.9 Score=34.15 Aligned_cols=57 Identities=12% Similarity=0.112 Sum_probs=42.3
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQ 72 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 72 (175)
.++..+++..|++ +++++...|++.+..-...++.....++ .+...|+.+||+.++.
T Consensus 191 ~~l~~~~~~~~~~-~~~~al~~l~~~~~gdlr~l~~~l~~~~--~~~~~It~~~v~~~~~ 247 (337)
T PRK12402 191 DVLESIAEAEGVD-YDDDGLELIAYYAGGDLRKAILTLQTAA--LAAGEITMEAAYEALG 247 (337)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHH--HcCCCCCHHHHHHHhC
Confidence 4677778888985 9999999999988655555555555554 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=80.50 E-value=13 Score=32.12 Aligned_cols=49 Identities=20% Similarity=0.199 Sum_probs=41.1
Q ss_pred ccChHHHHHHHHHHH------HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHh
Q 030559 26 EYEPRVIHQFLEVWY------RYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSK 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 388888888777764 7888899999988888888999999999988663
No 75
>PF15127 DUF4565: Protein of unknown function (DUF4565)
Probab=80.46 E-value=1.2 Score=33.60 Aligned_cols=28 Identities=25% Similarity=0.186 Sum_probs=23.1
Q ss_pred ccChHHHHHHHHHHHHHHHHHHHHHHHH
Q 030559 26 EYEPRVIHQFLEVWYRYVVDVLTDAQVY 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 4455566789999999999999999853
No 76
>PRK05629 hypothetical protein; Validated
Probab=80.10 E-value=5.9 Score=34.38 Aligned_cols=62 Identities=16% Similarity=0.194 Sum_probs=48.0
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhh
Q 030559 12 AKIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKV 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 47999999999996 99999999999887656666666666655544 4699999998765433
No 77
>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=79.22 E-value=18 Score=26.56 Aligned_cols=60 Identities=15% Similarity=0.226 Sum_probs=49.6
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCC---CCCCHHHHHHHHHH
Q 030559 14 IVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGK---TTIDCDDIKLAVQS 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 4566666553368999999999999999999999999999887665 77899999988753
No 78
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=78.80 E-value=6.1 Score=34.73 Aligned_cols=58 Identities=14% Similarity=0.180 Sum_probs=41.6
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQ 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 4788888899985 9999999999988743344444444444455655 99999987654
No 79
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=77.56 E-value=6.5 Score=38.08 Aligned_cols=58 Identities=17% Similarity=0.155 Sum_probs=42.4
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHH
Q 030559 12 AKIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAV 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 46788888899985 999999999998876555555554444444 34579999998654
No 80
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=77.47 E-value=7.4 Score=38.09 Aligned_cols=50 Identities=8% Similarity=0.122 Sum_probs=43.9
Q ss_pred CCcccChHHHHHHHHHHHHHHH-------------HHHHHHHHHHhHhCCCCCCHHHHHHHHH
Q 030559 23 GVEEYEPRVIHQFLEVWYRYVV-------------DVLTDAQVYSEHAGKTTIDCDDIKLAVQ 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 3568999999999999987664 4899999999999999999999998874
No 81
>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.
Probab=77.13 E-value=14 Score=33.22 Aligned_cols=58 Identities=16% Similarity=0.223 Sum_probs=44.3
Q ss_pred ccChHHHHHHHHHHHH-------HHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccCCCC
Q 030559 26 EYEPRVIHQFLEVWYR-------YVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVNSSFSQPP 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 4677777777776653 344477888999999999999999999988887766554433
No 82
>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=76.65 E-value=6.4 Score=37.82 Aligned_cols=55 Identities=15% Similarity=0.158 Sum_probs=44.7
Q ss_pred ccChHHHHHHHHHHHHHH-------HHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccC
Q 030559 26 EYEPRVIHQFLEVWYRYV-------VDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVNSSFS 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 478888888988887654 3467888899999999999999999999886665443
No 83
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=76.44 E-value=8.6 Score=32.32 Aligned_cols=58 Identities=9% Similarity=0.082 Sum_probs=43.8
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHH
Q 030559 12 AKIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQ 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 35677888889984 999999999998876666665555555544 36799999988764
No 84
>PF13335 Mg_chelatase_2: Magnesium chelatase, subunit ChlI
Probab=75.75 E-value=14 Score=27.41 Aligned_cols=48 Identities=15% Similarity=0.116 Sum_probs=36.5
Q ss_pred cChHHHHHHHHHHH------HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHh
Q 030559 27 YEPRVIHQFLEVWY------RYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSK 74 (175)
Q Consensus 27 yep~Vv~qLlEfay------rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r 74 (175)
.++.+...|-..+. |=...||+=|.-.|+.+|...|+.++|..|+.-|
T Consensus 43 l~~~~~~~l~~~~~~~~lS~R~~~rilrvARTIADL~~~~~I~~~hi~EAl~yR 96 (96)
T PF13335_consen 43 LSSEAKKLLEQAAEKLNLSARGYHRILRVARTIADLEGSERITREHIAEALSYR 96 (96)
T ss_pred CCHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHhHcCCCCCCHHHHHHHHhCc
Confidence 44454444444333 4567899999999999999999999999998754
No 85
>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=75.20 E-value=7 Score=37.73 Aligned_cols=55 Identities=11% Similarity=0.190 Sum_probs=45.3
Q ss_pred ccChHHHHHHHHHHHHHH-------HHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccC
Q 030559 26 EYEPRVIHQFLEVWYRYV-------VDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVNSSFS 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 468888888988886653 4578889999999999999999999999887765443
No 86
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=71.82 E-value=20 Score=32.56 Aligned_cols=54 Identities=11% Similarity=0.092 Sum_probs=43.3
Q ss_pred ccChHHHHHHHHHHHH-------HHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhcccc
Q 030559 26 EYEPRVIHQFLEVWYR-------YVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVNSSF 79 (175)
Q Consensus 26 ~yep~Vv~qLlEfayr-------Yt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f 79 (175)
.+++.++..+++.+.. =..-++.-|+.+|-..||..|+.+||+.++..-+.|--
T Consensus 267 ~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~pdDv~~~a~~vL~HR~ 327 (350)
T CHL00081 267 EIDYDLRVKISQICSELDVDGLRGDIVTNRAAKALAAFEGRTEVTPKDIFKVITLCLRHRL 327 (350)
T ss_pred ccCHHHHHHHHHHHHHHCCCCChHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHhC
Confidence 4778888888887764 45567788999999999999999999999887655433
No 87
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=71.82 E-value=33 Score=31.32 Aligned_cols=63 Identities=22% Similarity=0.291 Sum_probs=40.6
Q ss_pred ChhHHHHHHHHH----hCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 9 PRDAKIVKSLLK----SMGVEEYEPRVIHQFLEVWY---RYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 73 (175)
Q Consensus 9 PrDa~~I~~ILk----s~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 455544444444 4465 599999999988876 55566777777777666543 666666655554
No 88
>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=71.78 E-value=22 Score=28.44 Aligned_cols=58 Identities=16% Similarity=0.065 Sum_probs=45.0
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHH
Q 030559 12 AKIVKSLLKSMGVEEYEPRVIHQFLEVWY---RYVVDVLTDAQVYSEHAGKTTIDCDDIKLAV 71 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI 71 (175)
..++...++..|+ .+++++...|...+- |+...+++++..+|.-+| ++|+.+.|+-.+
T Consensus 165 ~~~l~~~~~~~~~-~~~~~~l~~L~~~~~gn~r~L~~~l~~~~~~~~~~~-~~i~~~~~~~~~ 225 (226)
T TIGR03420 165 IAALQSRAARRGL-QLPDEVADYLLRHGSRDMGSLMALLDALDRASLAAK-RKITIPFVKEVL 225 (226)
T ss_pred HHHHHHHHHHcCC-CCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhC-CCCCHHHHHHHh
Confidence 4555566667787 599999999999754 788999999888777666 479998887654
No 89
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=70.54 E-value=17 Score=36.31 Aligned_cols=55 Identities=20% Similarity=0.328 Sum_probs=43.5
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHH
Q 030559 12 AKIVKSLLKSMGVEEYEPRVIHQFLEVWY---RYVVDVLTDAQVYSEHAGKTTIDCDDIKLAV 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 35678889999984 99999999999986 7777778777776 34568888877654
No 90
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=69.76 E-value=14 Score=35.23 Aligned_cols=59 Identities=8% Similarity=0.013 Sum_probs=40.3
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhC--CCCCCHHHHHHHH
Q 030559 12 AKIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAG--KTTIDCDDIKLAV 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 45788889999984 89999999999886444444444444434443 3468888887543
No 91
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=69.54 E-value=33 Score=28.26 Aligned_cols=67 Identities=15% Similarity=0.241 Sum_probs=51.9
Q ss_pred CCCCChhHHHHHHHHHhCCC--cccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 5 DEDLPRDAKIVKSLLKSMGV--EEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 73 (175)
Q Consensus 5 ~~~~PrDa~~I~~ILks~Gv--~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
+-.+|+-. |..|+++|== -+|.-++...+.+-+-.++.=|..+|...++.-.|+||..+-|--|++.
T Consensus 10 e~sLPkAt--v~KmIke~lP~d~rvakeareliincCvEFI~liSsEAneic~~e~KKTIa~EHV~KALe~ 78 (156)
T KOG0871|consen 10 ELSLPKAT--VNKMIKEMLPKDVRVAKEARELIINCCVEFINLISSEANEICNKEAKKTIAPEHVIKALEN 78 (156)
T ss_pred cccCcHHH--HHHHHHHhCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcccCCHHHHHHHHHH
Confidence 34778753 4555555411 2677777888888888888889999999999999999999999999876
No 92
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=69.39 E-value=14 Score=33.38 Aligned_cols=58 Identities=10% Similarity=0.201 Sum_probs=42.7
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHH---HHHHHHHHHHh-HhCCCCCCHHHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVV---DVLTDAQVYSE-HAGKTTIDCDDIKLAV 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 4788888888984 999999999999875444 44445555553 3346789999997655
No 93
>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=69.17 E-value=17 Score=25.91 Aligned_cols=57 Identities=12% Similarity=0.223 Sum_probs=45.0
Q ss_pred HHHHHHHHhC---CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCC-CCHHHHHH
Q 030559 13 KIVKSLLKSM---GVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTT-IDCDDIKL 69 (175)
Q Consensus 13 ~~I~~ILks~---Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~t-I~~eDVrL 69 (175)
.+|.+||+.+ .-++.+.++...+-+++.-++.+-...|..-|.--|... |+.+|+.-
T Consensus 3 ~li~rll~~~f~~~~tkIs~dal~l~~eyl~iFV~EAv~Ra~~~a~~e~~~~~le~e~LEk 63 (72)
T PF09415_consen 3 ELIARLLHEHFKDDKTKISKDALKLSAEYLRIFVREAVARAAEQAEAEGDEGFLEVEHLEK 63 (72)
T ss_dssp HHHHHHHCTTSSSTT-EE-CCCHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSEE-HHHHHH
T ss_pred HHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCHHHHHH
Confidence 3688888832 235889999999999999999999999999898889888 99999864
No 94
>PRK04195 replication factor C large subunit; Provisional
Probab=69.13 E-value=13 Score=34.42 Aligned_cols=57 Identities=18% Similarity=0.276 Sum_probs=46.3
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHH
Q 030559 12 AKIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAV 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 35678888889985 99999999999998888888888877664 56679999998655
No 95
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=68.20 E-value=14 Score=35.02 Aligned_cols=54 Identities=15% Similarity=0.202 Sum_probs=40.3
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHH
Q 030559 12 AKIVKSLLKSMGVEEYEPRVIHQFLEVWY---RYVVDVLTDAQVYSEHAGKTTIDCDDIKLA 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 VEHLVDIAKKENI-EHDEESLKLIAENSSGSMRNALFLLEQAAIY---SN-NKISEKSVRDL 237 (491)
T ss_pred HHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh---cC-CCCCHHHHHHH
Confidence 3577788888998 599999999999985 5555555555544 44 47999999865
No 96
>PRK09862 putative ATP-dependent protease; Provisional
Probab=67.49 E-value=18 Score=34.50 Aligned_cols=35 Identities=17% Similarity=0.143 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHh
Q 030559 40 YRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSK 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 46677889999999999999999999999999988
No 97
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=66.50 E-value=16 Score=35.36 Aligned_cols=56 Identities=13% Similarity=0.115 Sum_probs=41.3
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLA 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 4778888899984 9999999999988765666655555555556655 888777544
No 98
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=66.06 E-value=23 Score=33.56 Aligned_cols=53 Identities=23% Similarity=0.328 Sum_probs=40.0
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWY---RYVVDVLTDAQVYSEHAGKTTIDCDDIKLA 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~-~~~~al~~ia~~s~GslR~al~lLdq~ia~----~~~~It~~~V~~~ 240 (509)
T PRK14958 185 AHCQHLLKEENVE-FENAALDLLARAANGSVRDALSLLDQSIAY----GNGKVLIADVKTM 240 (509)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHcCCcHHHHHHHHHHHHhc----CCCCcCHHHHHHH
Confidence 5677899999985 99999988888875 6677777777655 4456887777644
No 99
>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=65.78 E-value=78 Score=28.35 Aligned_cols=57 Identities=21% Similarity=0.246 Sum_probs=33.1
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHH
Q 030559 14 IVKSLLKSMGVEEYEPRVIHQFLEVWY---RYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQ 72 (175)
Q Consensus 14 ~I~~ILks~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 72 (175)
++...++..|+ .++++++..|++... |....+|.....||...|+ .|+.+.++-++.
T Consensus 276 il~~~~~~~~~-~l~~e~l~~ia~~~~~~~r~l~~~l~~l~~~a~~~~~-~it~~~~~~~L~ 335 (405)
T TIGR00362 276 ILQKKAEEEGL-ELPDEVLEFIAKNIRSNVRELEGALNRLLAYASLTGK-PITLELAKEALK 335 (405)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCC-CCCHHHHHHHHH
Confidence 34444445576 489999888887755 4555566666666655443 244444444443
No 100
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=65.54 E-value=42 Score=27.17 Aligned_cols=60 Identities=12% Similarity=0.144 Sum_probs=43.6
Q ss_pred hHHHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHH
Q 030559 11 DAKIVKSLLKSMGVEEYEPRVIHQFLEVWY---RYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQ 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 34455555667787 599999999999876 566667777666666655 6899888887653
No 101
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=64.67 E-value=19 Score=34.69 Aligned_cols=53 Identities=13% Similarity=0.157 Sum_probs=39.8
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHH---HHHHHHHHHHHHHhHhCCCCCCHHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWYR---YVVDVLTDAQVYSEHAGKTTIDCDDIKLA 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 478888889998 5999999999999874 555666665555 34 56888887753
No 102
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=63.93 E-value=23 Score=31.54 Aligned_cols=55 Identities=15% Similarity=0.186 Sum_probs=40.3
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWY---RYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQ 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 467778888897 589999999888875 4555555555444 567899999987654
No 103
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=63.11 E-value=25 Score=33.08 Aligned_cols=57 Identities=14% Similarity=0.186 Sum_probs=42.6
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 12 AKIVKSLLKSMGVEEYEPRVIHQFLEVWY---RYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 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 3467777778888 599999999999775 67777777655553 33 3999999887753
No 104
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=61.43 E-value=33 Score=33.22 Aligned_cols=54 Identities=19% Similarity=0.193 Sum_probs=45.0
Q ss_pred ccChHHHHHHHHHHHHHH-------HHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhcccc
Q 030559 26 EYEPRVIHQFLEVWYRYV-------VDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVNSSF 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 578888888888777664 478899999999999999999999999988665533
No 105
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=61.27 E-value=26 Score=34.20 Aligned_cols=58 Identities=5% Similarity=0.068 Sum_probs=44.5
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHh---C-CCCCCHHHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHA---G-KTTIDCDDIKLAV 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 4788888999984 9999999999999877776666666655555 2 6789988885543
No 106
>smart00350 MCM minichromosome maintenance proteins.
Probab=58.97 E-value=16 Score=34.20 Aligned_cols=30 Identities=7% Similarity=0.121 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 44 VDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 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 567778888999999999999999999986
No 107
>COG5248 TAF19 Transcription initiation factor TFIID, subunit TAF13 [Transcription]
Probab=58.91 E-value=34 Score=27.05 Aligned_cols=43 Identities=16% Similarity=0.217 Sum_probs=37.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 29 PRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 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 467899999999999999999998888 4555889999999865
No 108
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=57.81 E-value=31 Score=32.49 Aligned_cols=54 Identities=17% Similarity=0.311 Sum_probs=40.4
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWY---RYVVDVLTDAQVYSEHAGKTTIDCDDIKLAV 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 478889999998 599999999998885 5566666666555 24468888888754
No 109
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=57.61 E-value=57 Score=29.33 Aligned_cols=54 Identities=9% Similarity=0.198 Sum_probs=42.4
Q ss_pred ccChHHHHHHHHHHHHHH-------HHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhcccc
Q 030559 26 EYEPRVIHQFLEVWYRYV-------VDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVNSSF 79 (175)
Q Consensus 26 ~yep~Vv~qLlEfayrYt-------~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f 79 (175)
.+++.++..+++.+...- .-++.-|+.+|-..||..|+.+||+-+....+.|-.
T Consensus 251 ~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~~aA~a~A~l~Gr~~V~~~Di~~~~~~vl~hR~ 311 (334)
T PRK13407 251 KTPNTVLHDCAALCIALGSDGLRGELTLLRAARALAAFEGAEAVGRSHLRSVATMALSHRL 311 (334)
T ss_pred ccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHHcCCCeeCHHHHHHHHHHhhhhhc
Confidence 478888888888887533 238899999999999999999999877766555433
No 110
>PRK09087 hypothetical protein; Validated
Probab=57.03 E-value=84 Score=26.25 Aligned_cols=58 Identities=10% Similarity=0.080 Sum_probs=42.3
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHH---HHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 14 IVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLT---DAQVYSEHAGKTTIDCDDIKLAVQS 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 44555556687 59999999999999988877776 3334444445 45999999888865
No 111
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=56.56 E-value=31 Score=34.86 Aligned_cols=55 Identities=18% Similarity=0.164 Sum_probs=38.3
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIK 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 4788899999985 999999998888765444444444444444556667776554
No 112
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=56.46 E-value=32 Score=32.92 Aligned_cols=55 Identities=11% Similarity=0.108 Sum_probs=38.3
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKL 69 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrL 69 (175)
.++..+++..|+. ++++++..|++.+.--...++.....++.+ +...|+.+||+.
T Consensus 186 ~~L~~~a~~egl~-i~~eal~~La~~s~Gdlr~al~~LekL~~y-~~~~It~e~V~~ 240 (585)
T PRK14950 186 AHLRKIAAAEGIN-LEPGALEAIARAATGSMRDAENLLQQLATT-YGGEISLSQVQS 240 (585)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cCCCCCHHHHHH
Confidence 3556667777885 999999999988865455555544445544 445799999875
No 113
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=55.98 E-value=40 Score=33.72 Aligned_cols=53 Identities=21% Similarity=0.302 Sum_probs=40.0
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHH
Q 030559 12 AKIVKSLLKSMGVEEYEPRVIHQFLEVWY---RYVVDVLTDAQVYSEHAGKTTIDCDDIKL 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 TKHLGAILEKEQI-AADQDAIWQIAESAQGSLRDALSLTDQAIAY----GQGAVHHQDVKE 238 (702)
T ss_pred HHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh----cCCCcCHHHHHH
Confidence 4577888999998 599999999998876 5666666666554 456688888865
No 114
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=55.93 E-value=34 Score=33.62 Aligned_cols=53 Identities=17% Similarity=0.295 Sum_probs=38.2
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHH
Q 030559 14 IVKSLLKSMGVEEYEPRVIHQFLEVWY---RYVVDVLTDAQVYSEHAGKTTIDCDDIKLAV 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 HLTKVLGREGV-DYDPAAVRLIARRAAGSVRDSMSLLGQV---L-ALGESRLTIDGARGVL 241 (624)
T ss_pred HHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHH---H-HhcCCCcCHHHHHHHh
Confidence 56677778887 499999999999887 5566666544 2 2366688888876543
No 115
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=55.04 E-value=79 Score=28.72 Aligned_cols=67 Identities=19% Similarity=0.272 Sum_probs=53.4
Q ss_pred CCChhHHHHHHHHHhC---C--CcccChHHHHHHHHHHH------HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 7 DLPRDAKIVKSLLKSM---G--VEEYEPRVIHQFLEVWY------RYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 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 4567777788888642 2 23688888887777765 788999999999999999999999999999433
No 116
>KOG3901 consensus Transcription initiation factor IID subunit [Transcription]
Probab=54.09 E-value=46 Score=25.95 Aligned_cols=42 Identities=12% Similarity=0.362 Sum_probs=32.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 29 PRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 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 45677888888888888876666555 5667999999999975
No 117
>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=54.00 E-value=39 Score=24.35 Aligned_cols=54 Identities=17% Similarity=0.291 Sum_probs=41.0
Q ss_pred HHHHHHHhHhCCCCCCHHHHHHHHHHhhccccCCCCcHHHHHHHHHhhcCCCCCCC
Q 030559 48 TDAQVYSEHAGKTTIDCDDIKLAVQSKVNSSFSQPPAREVLLELAKNRNKIPLPKS 103 (175)
Q Consensus 48 ~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f~~pppre~LlelA~e~N~~PLP~v 103 (175)
.-|..+|...|- +++ +-|+.|++.++...-...++.+.|..+.......+++.-
T Consensus 12 ~LareLA~~tG~-s~T-eAVr~AL~~~L~~~~~~~~l~~~l~~~~~~~~~~~~~~~ 65 (82)
T PF07704_consen 12 RLARELARLTGE-SKT-EAVRRALRERLERRRRAEPLLERLAAIIRRCAAAPLPPP 65 (82)
T ss_pred HHHHHHHHHHCC-CHH-HHHHHHHHHHHHhccccccHHHHHHHHHHHhhccccCCC
Confidence 345566777776 443 889999999998777778999999998776777776654
No 118
>PRK08727 hypothetical protein; Validated
Probab=53.75 E-value=55 Score=27.19 Aligned_cols=62 Identities=15% Similarity=0.133 Sum_probs=43.2
Q ss_pred ChhHHHHHHHHHh----CCCcccChHHHHHHHHHHHHHHHHH---HHHHHHHHhHhCCCCCCHHHHHHHHH
Q 030559 9 PRDAKIVKSLLKS----MGVEEYEPRVIHQFLEVWYRYVVDV---LTDAQVYSEHAGKTTIDCDDIKLAVQ 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 3444455555554 476 599999999999998655555 7766666665565 699888887664
No 119
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=53.59 E-value=60 Score=31.07 Aligned_cols=53 Identities=19% Similarity=0.308 Sum_probs=40.1
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWY---RYVVDVLTDAQVYSEHAGKTTIDCDDIKLA 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~~ia~~s~G~~R~al~~Ldq~~~~~----~~~It~~~V~~v 240 (559)
T PRK05563 185 ERLKYILDKEGIE-YEDEALRLIARAAEGGMRDALSILDQAISFG----DGKVTYEDALEV 240 (559)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc----cCCCCHHHHHHH
Confidence 5677788889984 99999999888875 67777777777763 346888877643
No 120
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=53.49 E-value=39 Score=32.08 Aligned_cols=54 Identities=13% Similarity=0.332 Sum_probs=39.9
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWY---RYVVDVLTDAQVYSEHAGKTTIDCDDIKLAV 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 3667788888984 99999999988876 4666666666655 45678888777654
No 121
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=53.20 E-value=37 Score=32.98 Aligned_cols=53 Identities=15% Similarity=0.107 Sum_probs=37.2
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWY---RYVVDVLTDAQVYSEHAGKTTIDCDDIKL 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 ALIARICEQEGV-VVDDAVYPLVIRAGGGSPRDTLSVLDQLLAG---AADTHVTYQRALG 239 (584)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHhc---cCCCCcCHHHHHH
Confidence 478899999998 489999888888765 4555666655544 3455677666643
No 122
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=52.47 E-value=51 Score=31.77 Aligned_cols=53 Identities=25% Similarity=0.394 Sum_probs=40.1
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHH
Q 030559 12 AKIVKSLLKSMGVEEYEPRVIHQFLEVWY---RYVVDVLTDAQVYSEHAGKTTIDCDDIKL 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 ISHLKTILEKEGV-SYEPEALEILARSGNGSLRDTLTLLDQAIIYC----KNAITESKVAD 237 (535)
T ss_pred HHHHHHHHHHcCC-CCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhc----CCCCCHHHHHH
Confidence 4577888899998 499999999998865 67777777777776 34577766653
No 123
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=52.29 E-value=44 Score=31.08 Aligned_cols=52 Identities=12% Similarity=0.069 Sum_probs=36.1
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWY---RYVVDVLTDAQVYSEHAGKTTIDCDDIKL 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 4667777888985 89999999999884 5555555555444 34 3388877654
No 124
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=50.90 E-value=43 Score=31.70 Aligned_cols=67 Identities=16% Similarity=0.407 Sum_probs=52.5
Q ss_pred ChhHHHHHHHHH----hCCCcccChHHHHHHHHHH----HHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030559 9 PRDAKIVKSLLK----SMGVEEYEPRVIHQFLEVW----YRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVN 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 4466 48999999888764 5899999999999999999999999999998876443
No 125
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=49.63 E-value=47 Score=31.46 Aligned_cols=55 Identities=16% Similarity=0.137 Sum_probs=39.8
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLA 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 5677888899985 899999999999886666665555444333 336888887654
No 126
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=48.84 E-value=52 Score=31.70 Aligned_cols=54 Identities=13% Similarity=0.207 Sum_probs=38.7
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWY---RYVVDVLTDAQVYSEHAGKTTIDCDDIKLAV 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~~~egi~-id~eAl~lLa~~s~GdlR~alslLdklis~~---~-~~It~e~V~~ll 241 (563)
T PRK06647 185 NMLKKVCLEDQIK-YEDEALKWIAYKSTGSVRDAYTLFDQVVSFS---D-SDITLEQIRSKM 241 (563)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHhhc---C-CCCCHHHHHHHh
Confidence 4677888888985 99999999999876 45555555555553 4 458888877643
No 127
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=48.60 E-value=54 Score=32.18 Aligned_cols=55 Identities=22% Similarity=0.254 Sum_probs=38.0
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKL 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 ELLKSIAKKEKI-KIEDNAIDKIADLADGSLRDGLSILDQLSTFKNSE-IDIEDINK 239 (605)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHcCCcHHHHHHHHHHHHhhcCCC-CCHHHHHH
Confidence 477888888887 49999999999988654444444444444455543 88877765
No 128
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=47.58 E-value=95 Score=30.62 Aligned_cols=99 Identities=16% Similarity=0.213 Sum_probs=58.6
Q ss_pred ChhHHHHHHHHH----hCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCC--------------------CC
Q 030559 9 PRDAKIVKSLLK----SMGVEEYEPRVIHQFLEVWY---RYVVDVLTDAQVYSEHAGK--------------------TT 61 (175)
Q Consensus 9 PrDa~~I~~ILk----s~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR--------------------~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 344444444444 4466 589999999998877 4444455544445544332 23
Q ss_pred CCHHHHHHHHHHhhcccc----------CCCCcHHHHHHHHHhhcCCCCCCCCCCCC
Q 030559 62 IDCDDIKLAVQSKVNSSF----------SQPPAREVLLELAKNRNKIPLPKSISAPG 108 (175)
Q Consensus 62 I~~eDVrLAI~~r~~~~f----------~~pppre~LlelA~e~N~~PLP~v~~~~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 555666555544333111 01256777788888888888887766666
No 129
>KOG1659 consensus Class 2 transcription repressor NC2, alpha subunit (DRAP1) [Transcription]
Probab=47.05 E-value=59 Score=28.26 Aligned_cols=69 Identities=17% Similarity=0.237 Sum_probs=52.7
Q ss_pred HHHHHHhC-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccCCCCcHHHHHHH
Q 030559 15 VKSLLKSM-GVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVNSSFSQPPAREVLLEL 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 3345666677777777788999999999999999999999999999999884333 557763
No 130
>PLN03025 replication factor C subunit; Provisional
Probab=46.93 E-value=54 Score=28.43 Aligned_cols=53 Identities=13% Similarity=0.176 Sum_probs=37.4
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIK 68 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVr 68 (175)
.++..+++.-|+ .+++.++..|++.+..=.+.++...... +.|...|+.++|.
T Consensus 165 ~~L~~i~~~egi-~i~~~~l~~i~~~~~gDlR~aln~Lq~~--~~~~~~i~~~~v~ 217 (319)
T PLN03025 165 GRLMKVVEAEKV-PYVPEGLEAIIFTADGDMRQALNNLQAT--HSGFGFVNQENVF 217 (319)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHH--HhcCCCCCHHHHH
Confidence 466778888898 4999999999998885555554444422 2355678888875
No 131
>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]
Probab=46.92 E-value=51 Score=30.73 Aligned_cols=56 Identities=21% Similarity=0.429 Sum_probs=46.4
Q ss_pred HhCCCcccChHHHHHHHHH----HHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030559 20 KSMGVEEYEPRVIHQFLEV----WYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVN 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 QVEGL-QVEEEALDLLAEIGTSTSLRYAVQLLTPASILAKTNGRKEISVEDVEEVTELFLD 440 (456)
T ss_pred hhhcc-eecHHHHHHHHhhccchhHHHHHHhcCHHHHHHHHcCCceeecccHHHHHHHHHh
Confidence 34466 4899998888874 56899999999999999999999999999887766443
No 132
>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=46.88 E-value=1.1e+02 Score=22.05 Aligned_cols=66 Identities=12% Similarity=0.083 Sum_probs=40.5
Q ss_pred hHHHHHHHHHhCCCcccChHHHHHHHHHHHHH-HHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhc
Q 030559 11 DAKIVKSLLKSMGVEEYEPRVIHQFLEVWYRY-VVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVN 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 44444555677888888888888888777543 2222222223334455788999999999987654
No 133
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=46.36 E-value=1.6e+02 Score=28.23 Aligned_cols=53 Identities=15% Similarity=0.205 Sum_probs=38.6
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHH
Q 030559 12 AKIVKSLLKSMGVEEYEPRVIHQFLEVWY---RYVVDVLTDAQVYSEHAGKTTIDCDDIKL 69 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrL 69 (175)
...+..|++..|+ .|+++++..+.+++. |.+..+|+.+..++ ...|+.++|+-
T Consensus 186 ~~~L~~i~~~Egi-~~e~eAL~~Ia~~S~Gd~RdAL~lLeq~i~~~----~~~it~~~V~~ 241 (484)
T PRK14956 186 QDYSEKLCKIENV-QYDQEGLFWIAKKGDGSVRDMLSFMEQAIVFT----DSKLTGVKIRK 241 (484)
T ss_pred HHHHHHHHHHcCC-CCCHHHHHHHHHHcCChHHHHHHHHHHHHHhC----CCCcCHHHHHH
Confidence 3567788888898 599999999998886 56666666666552 23588877754
No 134
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=46.26 E-value=57 Score=31.95 Aligned_cols=53 Identities=13% Similarity=0.239 Sum_probs=38.2
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWY---RYVVDVLTDAQVYSEHAGKTTIDCDDIKLA 70 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLA 70 (175)
.++..+++.-|+ .+++.+...|.+.+. |.+..++..+..| |...|+.++|+-.
T Consensus 190 ~~L~~i~~~egi-~ie~~AL~~La~~s~GslR~al~lLdq~ia~----~~~~It~~~V~~~ 245 (618)
T PRK14951 190 EHLTQVLAAENV-PAEPQALRLLARAARGSMRDALSLTDQAIAF----GSGQLQEAAVRQM 245 (618)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh----cCCCcCHHHHHHH
Confidence 567788888998 599999999999876 4555555555555 3456888887654
No 135
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=45.58 E-value=2.1e+02 Score=26.62 Aligned_cols=95 Identities=15% Similarity=0.188 Sum_probs=53.7
Q ss_pred HHHHHHHhCCCc-ccChHHHHHHHHHHHH---HHHHHHHHHHHHHhHhC-CCCCCHHHHHHHHHHhhcc-----------
Q 030559 14 IVKSLLKSMGVE-EYEPRVIHQFLEVWYR---YVVDVLTDAQVYSEHAG-KTTIDCDDIKLAVQSKVNS----------- 77 (175)
Q Consensus 14 ~I~~ILks~Gv~-~yep~Vv~qLlEfayr---Yt~~VL~DA~~yA~HAg-R~tI~~eDVrLAI~~r~~~----------- 77 (175)
++...++..|.. .++++|+..|.+.+.. -...+|..+..+|...+ +..|+.+.|+-+++.-...
T Consensus 283 iL~~~~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL~~l~~~a~~~~~~~~it~~~v~~~l~~~~~~~~~~~t~~~I~ 362 (450)
T PRK14087 283 IIKKEIKNQNIKQEVTEEAINFISNYYSDDVRKIKGSVSRLNFWSQQNPEEKIITIEIVSDLFRDIPTSKLGILNVKKIK 362 (450)
T ss_pred HHHHHHHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHHHHHHHHHhcccCCCCCCHHHHHHHHhhccccccCCCCHHHHH
Confidence 344444556753 6999999999988874 44444555544444331 2456666666665431110
Q ss_pred -----ccC----------C----CCcHHHHHHHHHhhcCCCCCCCCCCCC
Q 030559 78 -----SFS----------Q----PPAREVLLELAKNRNKIPLPKSISAPG 108 (175)
Q Consensus 78 -----~f~----------~----pppre~LlelA~e~N~~PLP~v~~~~G 108 (175)
.|. . ..||..-|=||++.-..+||.|-..+|
T Consensus 363 ~~Va~~~~i~~~dl~s~~R~~~i~~~RqiamyL~r~~t~~sl~~IG~~Fg 412 (450)
T PRK14087 363 EVVSEKYGISVNAIDGKARSKSIVTARHIAMYLTKEILNHTLAQIGEEFG 412 (450)
T ss_pred HHHHHHcCCCHHHHhCCCCCccccHHHHHHHHHHHHHcCCCHHHHHHHhC
Confidence 111 0 146666666777777777776655554
No 136
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]
Probab=44.37 E-value=40 Score=29.64 Aligned_cols=79 Identities=16% Similarity=0.250 Sum_probs=63.0
Q ss_pred HHHHHHHhC-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccCCCCcHHHHHHHH
Q 030559 14 IVKSLLKSM-GVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVNSSFSQPPAREVLLELA 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 7777889999999999999999999999999999999999999999999764433 6688776
Q ss_pred HhhcCCCCCCC
Q 030559 93 KNRNKIPLPKS 103 (175)
Q Consensus 93 ~e~N~~PLP~v 103 (175)
-.. |++..
T Consensus 186 pr~---p~n~~ 193 (286)
T COG5208 186 PRN---PFNHL 193 (286)
T ss_pred cCC---Ccccc
Confidence 533 55543
No 137
>PRK06130 3-hydroxybutyryl-CoA dehydrogenase; Validated
Probab=43.60 E-value=91 Score=26.62 Aligned_cols=70 Identities=19% Similarity=0.218 Sum_probs=47.2
Q ss_pred CCCCCChhHHHHHHHHHhCCCc--ccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhcccc
Q 030559 4 GDEDLPRDAKIVKSLLKSMGVE--EYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVNSSF 79 (175)
Q Consensus 4 ~~~~~PrDa~~I~~ILks~Gv~--~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f 79 (175)
+.+.-+.+...+..++..+|.. .++++.... ++.|+...++.+|..+.+..| ++.+||..|+..-.++-+
T Consensus 153 g~~t~~~~~~~v~~l~~~~G~~~v~~~~d~~G~---i~nr~~~~~~~Ea~~l~~~g~---~~~~~id~~~~~~~g~~~ 224 (311)
T PRK06130 153 GDKTSPQTVATTMALLRSIGKRPVLVKKDIPGF---IANRIQHALAREAISLLEKGV---ASAEDIDEVVKWSLGIRL 224 (311)
T ss_pred CCCCCHHHHHHHHHHHHHcCCEEEEEcCCCCCc---HHHHHHHHHHHHHHHHHHcCC---CCHHHHHHHHHhcCCCCc
Confidence 3344577889999999999964 333333322 455555667888887765544 799999999975555443
No 138
>PRK06893 DNA replication initiation factor; Validated
Probab=43.35 E-value=1.3e+02 Score=24.83 Aligned_cols=61 Identities=16% Similarity=0.108 Sum_probs=39.9
Q ss_pred ChhHHHHHHHHH----hCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHH
Q 030559 9 PRDAKIVKSLLK----SMGVEEYEPRVIHQFLEVWY---RYVVDVLTDAQVYSEHAGKTTIDCDDIKLAV 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 444444444554 5676 599999999999998 4555555554323333344 69999888765
No 139
>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=42.16 E-value=1.4e+02 Score=22.20 Aligned_cols=58 Identities=17% Similarity=0.305 Sum_probs=40.4
Q ss_pred HHHHHHhC-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCC-CCCCHHHHHHHHH
Q 030559 15 VKSLLKSM-GVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGK-TTIDCDDIKLAVQ 72 (175)
Q Consensus 15 I~~ILks~-Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR-~tI~~eDVrLAI~ 72 (175)
|.+|+... |=..+++.++..+--++.-|+.+|.+.|+...+--+. ..|....++-|.+
T Consensus 29 ikkli~~~~~~qsv~~~v~i~v~g~aKvFVGEiVE~A~~Vq~~~~~~~pl~P~hlreA~r 88 (90)
T PF04719_consen 29 IKKLINQVLGNQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGETGPLQPDHLREAYR 88 (90)
T ss_dssp HHHHHHHHHS-S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SS--HHHHHHHHH
T ss_pred HHHHHHHHcCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHH
Confidence 44444443 4247999999999999999999999999998876554 3688888888864
No 140
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=41.94 E-value=78 Score=31.10 Aligned_cols=54 Identities=22% Similarity=0.318 Sum_probs=40.1
Q ss_pred CCCcccChHHHHHHHHHHHHHHH---------HHHHHHHHHHhHh----CCCCCCHHHHHHHHHHhhc
Q 030559 22 MGVEEYEPRVIHQFLEVWYRYVV---------DVLTDAQVYSEHA----GKTTIDCDDIKLAVQSKVN 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 455 5999999999999999974 4666665544322 2456999999999987554
No 141
>PF13702 Lysozyme_like: Lysozyme-like
Probab=41.35 E-value=1.9e+02 Score=23.75 Aligned_cols=35 Identities=29% Similarity=0.347 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccCC
Q 030559 39 WYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVNSSFSQ 81 (175)
Q Consensus 39 ayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f~~ 81 (175)
.-++...-+.+++..|+..|- +||++|||+ +.|..
T Consensus 63 SI~~Gv~~fa~~l~~a~~~~~-----~di~~alQa---YNfG~ 97 (160)
T PF13702_consen 63 SIKQGVKYFADNLKKAKEKGP-----DDIKTALQA---YNFGS 97 (160)
T ss_pred HHHHHHHHHHHHHHHHHhcCc-----ccHHHHhhh---hcCCc
Confidence 335666666777666665554 999999998 55654
No 142
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=41.18 E-value=72 Score=30.62 Aligned_cols=53 Identities=9% Similarity=0.129 Sum_probs=39.3
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWY---RYVVDVLTDAQVYSEHAGKTTIDCDDIKLA 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 566677776666643 24888877643
No 143
>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=40.56 E-value=14 Score=26.98 Aligned_cols=54 Identities=20% Similarity=0.329 Sum_probs=36.2
Q ss_pred HHHHHhCCCcccChHHHHHHHHHHH-----HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHH
Q 030559 16 KSLLKSMGVEEYEPRVIHQFLEVWY-----RYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQ 72 (175)
Q Consensus 16 ~~ILks~Gv~~yep~Vv~qLlEfay-----rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 72 (175)
..|++.-||+ ++++...|.+.+. |-.+..|.-|..+|.-.|.. |+.++|+.|-+
T Consensus 18 ~Ai~~AWgI~--d~~~~~~l~~I~~k~GaLR~l~ktLrlA~m~A~g~g~~-i~~~~i~~A~~ 76 (78)
T PF09077_consen 18 KAIAKAWGIT--DKEERKLLQSIAEKPGALRQLTKTLRLAAMFAKGEGEA-ITADHIRAAWK 76 (78)
T ss_dssp THHHHSSSSS--SSHHHHHHHTTSSS-S-HHHHHHHHGGGT-TT-TTS---SSHHHHHHHHT
T ss_pred HHHHHHhCCC--CHHHHHHHHHHcccccHHHHHHHHHHHHHHHhccCCCc-CCHHHHHHHHH
Confidence 4578888995 5555555555544 56777777777777777766 99999998853
No 144
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=39.66 E-value=88 Score=29.28 Aligned_cols=39 Identities=13% Similarity=0.132 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhh
Q 030559 37 EVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKV 75 (175)
Q Consensus 37 EfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 75 (175)
.|.-.-...|+.+|-..|-..|+..|+.+|++.|+...+
T Consensus 387 g~sgAdI~~i~~eA~~~Alr~~r~~Vt~~D~~~A~~~v~ 425 (438)
T PTZ00361 387 ELSGADIKAICTEAGLLALRERRMKVTQADFRKAKEKVL 425 (438)
T ss_pred CCCHHHHHHHHHHHHHHHHHhcCCccCHHHHHHHHHHHH
Confidence 344455667889999999999999999999999997743
No 145
>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=38.88 E-value=71 Score=30.95 Aligned_cols=60 Identities=25% Similarity=0.233 Sum_probs=44.1
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHH--HHHHHHHHHHHHHHhHh--------CCCCCCHHHHHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWY--RYVVDVLTDAQVYSEHA--------GKTTIDCDDIKLAVQS 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 489999988888753 77888999998775221 2347999999999976
No 146
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=38.56 E-value=1e+02 Score=27.20 Aligned_cols=33 Identities=18% Similarity=0.267 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 41 RYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 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 147
>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=38.12 E-value=50 Score=27.21 Aligned_cols=36 Identities=31% Similarity=0.421 Sum_probs=31.4
Q ss_pred CHHHHHHHHHHhhccccCCCCcHHHHHHHHHhhcCC
Q 030559 63 DCDDIKLAVQSKVNSSFSQPPAREVLLELAKNRNKI 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 368999999999999999999999999998876543
No 148
>COG1378 Predicted transcriptional regulators [Transcription]
Probab=36.57 E-value=28 Score=30.00 Aligned_cols=37 Identities=19% Similarity=0.283 Sum_probs=32.1
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHH
Q 030559 14 IVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDA 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 149
>COG5247 BUR6 Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]
Probab=36.44 E-value=2.1e+02 Score=22.39 Aligned_cols=68 Identities=9% Similarity=0.087 Sum_probs=51.7
Q ss_pred cChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccCCCCcHHHHHHHHHhhcCCCCCC
Q 030559 27 YEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVNSSFSQPPAREVLLELAKNRNKIPLPK 102 (175)
Q Consensus 27 yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f~~pppre~LlelA~e~N~~PLP~ 102 (175)
+..-++.-.-.-++-+..+|......-|+.-+-+.|+++=++-|+++--. -+||.++-.-+|..+-|.
T Consensus 42 V~q~tPVIaskalE~Fl~~iv~~s~k~aR~~~skR~t~e~lk~a~~sdek--------FdFL~~~~~~~~~~~~~e 109 (113)
T COG5247 42 VGQSTPVIASKALEMFLTEIVGLSLKEARKKSSKRMTSEFLKRATESDEK--------FDFLKNMEQFKNRETQPE 109 (113)
T ss_pred hhhcchHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHhhhHH--------HHHHHHHHHhcCCCCCcc
Confidence 44444444445555688899999999998888899999999999988433 277999988888887664
No 150
>PRK15485 cobalt transport protein CbiQ; Provisional
Probab=35.55 E-value=1.3e+02 Score=25.06 Aligned_cols=34 Identities=21% Similarity=0.410 Sum_probs=28.3
Q ss_pred HHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHH
Q 030559 15 VKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQV 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 44568888884 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=34.58 E-value=15 Score=29.73 Aligned_cols=53 Identities=17% Similarity=0.337 Sum_probs=39.0
Q ss_pred HHHHHhC-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHH
Q 030559 16 KSLLKSM-GVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKL 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 55 67788889999999999999999999999999999988777544
No 152
>PRK14700 recombination factor protein RarA; Provisional
Probab=34.50 E-value=1.6e+02 Score=26.58 Aligned_cols=63 Identities=11% Similarity=0.149 Sum_probs=45.9
Q ss_pred HHHHHHHHh---CCC--cccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhh
Q 030559 13 KIVKSLLKS---MGV--EEYEPRVIHQFLEVWY---RYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKV 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 566677764 231 1589999999999996 88888888877544333333599999999998763
No 153
>KOG1657 consensus CCAAT-binding factor, subunit C (HAP5) [Transcription]
Probab=34.22 E-value=69 Score=27.79 Aligned_cols=65 Identities=20% Similarity=0.245 Sum_probs=53.3
Q ss_pred HHHHHHhC-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhcccc
Q 030559 15 VKSLLKSM-GVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVNSSF 79 (175)
Q Consensus 15 I~~ILks~-Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f 79 (175)
|+.|+|.- .+.-+..+++.++.--++.+..++-..|-.++.-.+|+++...||--|+..-..+.|
T Consensus 80 iKkimK~dedv~mI~~Eapvl~aka~E~Fi~elt~~sw~~Tee~~rrtl~~sdia~av~~s~~fdF 145 (236)
T KOG1657|consen 80 IKKIMKSDEDVSMITAEAPVLFAKACELFITELTLRSWVHTEENKRRTLQKSDIAAAVTQSETFDF 145 (236)
T ss_pred ccccccccccccccchhHHHHHHHHHHHHHHHHHHHhhhhhcccccccchHHHHHHHhccCCCccc
Confidence 55566655 666789999999999999999999988989999999999999999888876554555
No 154
>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=34.10 E-value=1.5e+02 Score=19.97 Aligned_cols=29 Identities=24% Similarity=0.338 Sum_probs=15.5
Q ss_pred CChhHHHHHHHHHhCCCcccChHHHHHHHHHH
Q 030559 8 LPRDAKIVKSLLKSMGVEEYEPRVIHQFLEVW 39 (175)
Q Consensus 8 ~PrDa~~I~~ILks~Gv~~yep~Vv~qLlEfa 39 (175)
-|.+.+.|...+...| ++++++..+++.|
T Consensus 14 s~~e~~~i~~~~~~~~---~~~evI~~ai~~a 42 (73)
T TIGR01446 14 SPFEMEDLKYWLDEFG---NSPELIKEALKEA 42 (73)
T ss_pred CHHHHHHHHHHHHHhC---CCHHHHHHHHHHH
Confidence 3455555555555554 3455555555554
No 155
>TIGR00368 Mg chelatase-related protein. The N-terminal end matches very strongly a pfam Mg_chelatase domain.
Probab=33.77 E-value=59 Score=30.88 Aligned_cols=35 Identities=14% Similarity=0.205 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHh
Q 030559 40 YRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSK 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 35678899999999999999999999999999754
No 156
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=31.84 E-value=1.5e+02 Score=26.88 Aligned_cols=37 Identities=14% Similarity=0.182 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHh
Q 030559 38 VWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSK 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 3445667788888888888899999999999999773
No 157
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=31.62 E-value=97 Score=29.00 Aligned_cols=99 Identities=22% Similarity=0.309 Sum_probs=64.1
Q ss_pred CChhHHHHHHHHHh----CCCcccChHHHHHHHHHHHHHHHHH---HHHHHHHHhHhCC-------------------CC
Q 030559 8 LPRDAKIVKSLLKS----MGVEEYEPRVIHQFLEVWYRYVVDV---LTDAQVYSEHAGK-------------------TT 61 (175)
Q Consensus 8 ~PrDa~~I~~ILks----~Gv~~yep~Vv~qLlEfayrYt~~V---L~DA~~yA~HAgR-------------------~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 466 589999998888877654443 3344444444443 5
Q ss_pred CCHHHHHHHHHHhhccccC----------CCCcHHHHHHHHHhhcCCCCCCCCCCCC
Q 030559 62 IDCDDIKLAVQSKVNSSFS----------QPPAREVLLELAKNRNKIPLPKSISAPG 108 (175)
Q Consensus 62 I~~eDVrLAI~~r~~~~f~----------~pppre~LlelA~e~N~~PLP~v~~~~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 7777777776554332111 1368888899999999999998877777
No 158
>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=31.13 E-value=77 Score=20.52 Aligned_cols=26 Identities=23% Similarity=0.345 Sum_probs=18.4
Q ss_pred HHHH-HHHHHHhHhCCCCCCHHHHHHH
Q 030559 45 DVLT-DAQVYSEHAGKTTIDCDDIKLA 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 159
>PRK13531 regulatory ATPase RavA; Provisional
Probab=31.09 E-value=2.6e+02 Score=26.99 Aligned_cols=48 Identities=15% Similarity=0.110 Sum_probs=34.8
Q ss_pred ccChHHHHHHHHHHH-------------HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 26 EYEPRVIHQFLEVWY-------------RYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 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 223456777888999999999999999976543
No 160
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=30.81 E-value=1.4e+02 Score=30.12 Aligned_cols=53 Identities=9% Similarity=0.260 Sum_probs=35.9
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVWY---RYVVDVLTDAQVYSEHAGKTTIDCDDIKLA 70 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLA 70 (175)
.++..+++..|+ .+++++...|+..+. |.+..+|..+..|+ ...|+.++|+.+
T Consensus 184 ~~L~~il~kegI-~id~eAl~~LA~lS~GslR~AlslLekl~~y~----~~~It~e~V~el 239 (725)
T PRK07133 184 SRLEFILEKENI-SYEKNALKLIAKLSSGSLRDALSIAEQVSIFG----NNKITLKNVEEL 239 (725)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc----cCCCCHHHHHHH
Confidence 356667778898 489999988888885 55555555555442 334888877653
No 161
>COG1460 Uncharacterized protein conserved in archaea [Function unknown]
Probab=30.37 E-value=92 Score=24.45 Aligned_cols=37 Identities=19% Similarity=0.298 Sum_probs=32.2
Q ss_pred CCChhHHHHHHHHHhCCCcccChHHHHHHHHHHHHHHH
Q 030559 7 DLPRDAKIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVV 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 47888888999999999864 99999999999998864
No 162
>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=28.91 E-value=1.5e+02 Score=19.20 Aligned_cols=33 Identities=12% Similarity=0.109 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 38 VWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 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 457788888888888887765 567777776644
No 163
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=28.36 E-value=2.2e+02 Score=29.25 Aligned_cols=53 Identities=13% Similarity=0.241 Sum_probs=38.8
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHH---HHHHHHHHHHHHHHHhHhCCCCCCHHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVW---YRYVVDVLTDAQVYSEHAGKTTIDCDDIKLA 70 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfa---yrYt~~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 SHLERILGEERI-AFEPQALRLLARAAQGSMRDALSLTDQAIAYS----ANEVTETAVSGM 240 (830)
T ss_pred HHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc----cCCcCHHHHHHH
Confidence 456778888898 49999999999887 467777777777654 235777776543
No 164
>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=27.14 Aligned_cols=37 Identities=22% Similarity=0.305 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhh
Q 030559 39 WYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKV 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 3355667777887777667888999999999998754
No 165
>KOG0960 consensus Mitochondrial processing peptidase, beta subunit, and related enzymes (insulinase superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=27.89 E-value=5.5e+02 Score=24.67 Aligned_cols=125 Identities=18% Similarity=0.214 Sum_probs=81.3
Q ss_pred CCCCCChhHHHHHHHHHhCCCc----ccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhC----C---------CCCCHHH
Q 030559 4 GDEDLPRDAKIVKSLLKSMGVE----EYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAG----K---------TTIDCDD 66 (175)
Q Consensus 4 ~~~~~PrDa~~I~~ILks~Gv~----~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAg----R---------~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 456677777777777788888877665555544 2 5688999
Q ss_pred HHHHHHHh-----hccccCCCCcHHHHHHHHHhhcCCCCCCCCCCCC-CCCCCCCCCCCCCCceeeCCCCC
Q 030559 67 IKLAVQSK-----VNSSFSQPPAREVLLELAKNRNKIPLPKSISAPG-IPLPPEQDTLISPNYQLSIPKKQ 131 (175)
Q Consensus 67 VrLAI~~r-----~~~~f~~pppre~LlelA~e~N~~PLP~v~~~~G-irLPpe~~cLt~~Ny~l~~p~~~ 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 98888651 111223458889999999988865 332222222 2233333 45666666543333
No 166
>PF10930 DUF2737: Protein of unknown function (DUF2737); InterPro: IPR020295 The proteins in this entry are uncharacterised.
Probab=27.37 E-value=70 Score=22.04 Aligned_cols=23 Identities=39% Similarity=0.654 Sum_probs=17.8
Q ss_pred hccccCCCCcHHHHHHHHHhhcCCCCC
Q 030559 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 445578889999999 58887754
No 167
>PF13852 DUF4197: Protein of unknown function (DUF4197)
Probab=27.18 E-value=1.5e+02 Score=25.10 Aligned_cols=46 Identities=17% Similarity=0.182 Sum_probs=36.4
Q ss_pred CCChhHHHHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHH
Q 030559 7 DLPRDAKIVKSLLKSMGVEEYEPRVIHQFLEVWY---RYVVDVLTDAQV 52 (175)
Q Consensus 7 ~~PrDa~~I~~ILks~Gv~~yep~Vv~qLlEfay---rYt~~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 6899999999999999998777777777765555 355677777763
No 168
>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=27.05 E-value=31 Score=30.54 Aligned_cols=30 Identities=7% Similarity=0.131 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 44 VDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 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 567777888888889999999999999976
No 169
>PRK06620 hypothetical protein; Validated
Probab=25.72 E-value=2.8e+02 Score=22.90 Aligned_cols=56 Identities=11% Similarity=0.087 Sum_probs=36.3
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHH---HHHhHhCCCCCCHHHHHHHH
Q 030559 14 IVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQ---VYSEHAGKTTIDCDDIKLAV 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 44444555676 49999999999998865555544333 3334334 468888777654
No 170
>PRK08084 DNA replication initiation factor; Provisional
Probab=25.35 E-value=3.3e+02 Score=22.59 Aligned_cols=50 Identities=12% Similarity=0.089 Sum_probs=32.3
Q ss_pred CCCcccChHHHHHHHHHHHHHHHHHHHHHHHH--HhHhCCCCCCHHHHHHHHH
Q 030559 22 MGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVY--SEHAGKTTIDCDDIKLAVQ 72 (175)
Q Consensus 22 ~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~y--A~HAgR~tI~~eDVrLAI~ 72 (175)
.|+ .++++|+..|+.-+.|=+..++.=-..+ +..+.+..||.+-+|-++.
T Consensus 183 ~~~-~l~~~v~~~L~~~~~~d~r~l~~~l~~l~~~~l~~~~~it~~~~k~~l~ 234 (235)
T PRK08084 183 RGF-ELPEDVGRFLLKRLDREMRTLFMTLDQLDRASITAQRKLTIPFVKEILK 234 (235)
T ss_pred cCC-CCCHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHc
Confidence 576 5999999999999985444443333322 2223445599888887653
No 171
>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=25.29 E-value=2.8e+02 Score=23.99 Aligned_cols=71 Identities=13% Similarity=0.201 Sum_probs=44.2
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccCCCCcHHHHH
Q 030559 14 IVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVNSSFSQPPAREVLL 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 3667888889998877654 4555677777787777766666 8888999999999999875332 34555554
No 172
>KOG1757 consensus Histone 2A [Chromatin structure and dynamics]
Probab=25.25 E-value=77 Score=25.18 Aligned_cols=61 Identities=15% Similarity=0.059 Sum_probs=45.8
Q ss_pred HHHHHHHHhC--CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 13 KIVKSLLKSM--GVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 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 3577777764 334777777888888888889999988777666656677888888888854
No 173
>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=25.24 E-value=3.7e+02 Score=21.81 Aligned_cols=70 Identities=19% Similarity=0.327 Sum_probs=52.3
Q ss_pred CCCCCCCChhH--HHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 2 AEGDEDLPRDA--KIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 73 (175)
Q Consensus 2 ~~~~~~~PrDa--~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 73 (175)
++.+..+|+-. ..|..||-.-- -|.-++..-+..-+-.+..=+-.+|...++.-.++||..+-|--|+..
T Consensus 6 ~dDe~sLPKATVqKMvS~iLp~dl--~ftKearei~in~cieFi~~lsseAne~ce~EaKKTIa~EHviKALen 77 (148)
T COG5150 6 NDDENSLPKATVQKMVSSILPKDL--VFTKEAREIFINACIEFINMLSSEANEACEEEAKKTIAYEHVIKALEN 77 (148)
T ss_pred ccccccCcHHHHHHHHHHhccccc--cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHh
Confidence 34566788743 45666665543 377777777777777777778888999999999999999999888765
No 174
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=24.71 E-value=2.6e+02 Score=27.67 Aligned_cols=51 Identities=18% Similarity=0.348 Sum_probs=32.6
Q ss_pred HHHHHHHhCCCcccChHHHHHHHHHHH---HHHHHHHHHHHHHHhHhCCCCCCHHHHHH
Q 030559 14 IVKSLLKSMGVEEYEPRVIHQFLEVWY---RYVVDVLTDAQVYSEHAGKTTIDCDDIKL 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 56677777788 589999888888876 4555555554433 223366555543
No 175
>CHL00176 ftsH cell division protein; Validated
Probab=24.53 E-value=2.4e+02 Score=27.67 Aligned_cols=37 Identities=19% Similarity=0.258 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHh
Q 030559 38 VWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSK 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 4446778888999888878889999999999999764
No 176
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=24.03 E-value=2.7e+02 Score=24.00 Aligned_cols=39 Identities=15% Similarity=0.242 Sum_probs=27.0
Q ss_pred HHHHHHHHhCCCcccChHHHHHHHHHH-----------HHHHHHHHHHHHH
Q 030559 13 KIVKSLLKSMGVEEYEPRVIHQFLEVW-----------YRYVVDVLTDAQV 52 (175)
Q Consensus 13 ~~I~~ILks~Gv~~yep~Vv~qLlEfa-----------yrYt~~VL~DA~~ 52 (175)
.++...++..|. .+++.+...|.+++ -|.+..+++.|..
T Consensus 202 ~I~~~~l~~~~~-~l~~~a~~~L~~~l~~~~~~~~~GN~R~lrn~ve~~~~ 251 (284)
T TIGR02880 202 VIAGLMLKEQQY-RFSAEAEEAFADYIALRRTQPHFANARSIRNAIDRARL 251 (284)
T ss_pred HHHHHHHHHhcc-ccCHHHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHH
Confidence 466677777775 58888888887764 3666777776654
No 177
>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=23.96 E-value=2.3e+02 Score=19.37 Aligned_cols=64 Identities=13% Similarity=0.091 Sum_probs=37.4
Q ss_pred HHHHhCCCc-ccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccccCCC
Q 030559 17 SLLKSMGVE-EYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVNSSFSQP 82 (175)
Q Consensus 17 ~ILks~Gv~-~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~f~~p 82 (175)
.+=+.++|. +.+...+..|++-|..|+..-+..-..... .......+++++||...+.+.|...
T Consensus 4 ~~K~~Lrid~d~dD~~i~~li~aA~~~i~~~~g~~~~~~~--~~~~~~~~~~~~Ail~l~~~~Y~nR 68 (91)
T cd08054 4 EAKAHLRIDHDDDDALIELLIDAAEEYIENYTGRDLDEQT--ADAEEVPALIKLAVLLLVAHLYENR 68 (91)
T ss_pred HHHhHcCCCCCCCHHHHHHHHHHHHHHHHHHhCCchhhcC--CccccCCHHHHHHHHHHHHHHHhCc
Confidence 344455674 455677777777766666543322111100 1123456899999999888877655
No 178
>PRK06129 3-hydroxyacyl-CoA dehydrogenase; Validated
Probab=23.63 E-value=3.3e+02 Score=23.38 Aligned_cols=68 Identities=15% Similarity=0.144 Sum_probs=47.1
Q ss_pred CCCCChhHHHHHHHHHhCCCc--ccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHHhhccc
Q 030559 5 DEDLPRDAKIVKSLLKSMGVE--EYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQSKVNSS 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 344567788888999999954 343333333 4566666788888887765 4489999999997755544
No 179
>KOG3902 consensus Histone acetyltransferase PCAF/SAGA, subunit SUPT3H/SPT3 [Transcription]
Probab=22.95 E-value=5.2e+02 Score=23.89 Aligned_cols=61 Identities=15% Similarity=0.234 Sum_probs=48.5
Q ss_pred HHHHHHHHHhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHH
Q 030559 12 AKIVKSLLKSMGVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQ 72 (175)
Q Consensus 12 a~~I~~ILks~Gv~~yep~Vv~qLlEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 72 (175)
+++=..++.+-.|.+=.++..+-.=+..+-.+.++|..|...|..+|-..|+.+|+=+-|.
T Consensus 28 veiQqmmf~sGei~~P~pett~Lved~V~gqvie~l~qa~eia~lrgsr~Itpedliflir 88 (352)
T KOG3902|consen 28 VEIQQMMFQSGEIPDPLPETTNLVEDNVRGQVIESLVQANEIADLRGSRSITPEDLIFLIR 88 (352)
T ss_pred HHHHHHHHHhCCCCCCcHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCccccChHHHHHHhh
Confidence 3333344455556777888888888889999999999999999999999999999876654
No 180
>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=22.79 E-value=1.9e+02 Score=19.26 Aligned_cols=31 Identities=23% Similarity=0.414 Sum_probs=23.3
Q ss_pred HHHHHHHHhCCCc-------ccChHHHHHHHHHHHHHH
Q 030559 13 KIVKSLLKSMGVE-------EYEPRVIHQFLEVWYRYV 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 181
>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=22.63 E-value=2.6e+02 Score=19.10 Aligned_cols=25 Identities=32% Similarity=0.533 Sum_probs=19.4
Q ss_pred HHHHHhCCCc-ccChHHHHHHHHHHH
Q 030559 16 KSLLKSMGVE-EYEPRVIHQFLEVWY 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 3445568997 899999999999886
No 182
>KOG3219 consensus Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=22.45 E-value=1.6e+02 Score=25.13 Aligned_cols=59 Identities=20% Similarity=0.259 Sum_probs=49.2
Q ss_pred HHHHHHHhC-CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHhHhCCC-CCCHHHHHHHHHH
Q 030559 14 IVKSLLKSM-GVEEYEPRVIHQFLEVWYRYVVDVLTDAQVYSEHAGKT-TIDCDDIKLAVQS 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 QIKKLMSSITGQS-VSENVAIAMAGIAKVFVGEVVEEALDVREEWGESGPLQPKHIREAYRR 177 (195)
T ss_pred HHHHHHHHHhCCc-cCcceeeeecchhhHhHHHHHHHHHHHHHHhccCCCCCcHHHHHHHHH
Confidence 466666666 544 9999999999999999999999999999888764 5788999988854
No 183
>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=22.40 E-value=1.2e+02 Score=22.45 Aligned_cols=34 Identities=15% Similarity=0.412 Sum_probs=17.8
Q ss_pred CChhHHHHHHHHHhCCCcccChHHHHHHHHHHHHH
Q 030559 8 LPRDAKIVKSLLKSMGVEEYEPRVIHQFLEVWYRY 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 45555555555555553 45555555555555443
No 184
>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=21.57 E-value=1.3e+02 Score=20.76 Aligned_cols=24 Identities=25% Similarity=0.318 Sum_probs=20.3
Q ss_pred HHHHhCCCcccChHHHHHHHHHHHHHH
Q 030559 17 SLLKSMGVEEYEPRVIHQFLEVWYRYV 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 6888889999999884
No 185
>PF15337 Vasculin: Vascular protein family Vasculin-like 1
Probab=21.52 E-value=49 Score=25.30 Aligned_cols=22 Identities=32% Similarity=0.477 Sum_probs=17.0
Q ss_pred ChhHHHHHHHHHhCCCcccChH
Q 030559 9 PRDAKIVKSLLKSMGVEEYEPR 30 (175)
Q Consensus 9 PrDa~~I~~ILks~Gv~~yep~ 30 (175)
---...=+++||.||-++|.+.
T Consensus 6 S~SLEaEhRLLk~MGWqEy~eN 27 (97)
T PF15337_consen 6 SSSLEAEHRLLKAMGWQEYPEN 27 (97)
T ss_pred hhHHHHHHHHHHHhcccccCcC
Confidence 3445667899999999988754
No 186
>PF14178 YppF: YppF-like protein
Probab=21.50 E-value=68 Score=22.56 Aligned_cols=21 Identities=24% Similarity=0.464 Sum_probs=17.1
Q ss_pred hCCCcccChHHHHHHHHHHHH
Q 030559 21 SMGVEEYEPRVIHQFLEVWYR 41 (175)
Q Consensus 21 s~Gv~~yep~Vv~qLlEfayr 41 (175)
-+-...|+|.-.+.||||+.+
T Consensus 10 F~~~k~y~p~~~NeLLDFar~ 30 (60)
T PF14178_consen 10 FMQKKKYEPEDMNELLDFARK 30 (60)
T ss_pred HHHHhccCcccHHHHHHHHHH
Confidence 334568999999999999975
No 187
>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=21.49 E-value=2.3e+02 Score=25.54 Aligned_cols=63 Identities=16% Similarity=0.303 Sum_probs=42.8
Q ss_pred HHHHHHHHhCCC--------cccChHHHH-------HHHHHHHHHHHHHHHHHHHHHh----HhCCCCCCHHHHHHHHHH
Q 030559 13 KIVKSLLKSMGV--------EEYEPRVIH-------QFLEVWYRYVVDVLTDAQVYSE----HAGKTTIDCDDIKLAVQS 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 468888888775 799999987 4789999999999999987642 222333345666666655
Q ss_pred hh
Q 030559 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 188
>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=21.16 E-value=1.2e+02 Score=23.17 Aligned_cols=30 Identities=27% Similarity=0.375 Sum_probs=23.6
Q ss_pred ChhHHHHHHHHHhCCCcccChHHHHHHHHHH
Q 030559 9 PRDAKIVKSLLKSMGVEEYEPRVIHQFLEVW 39 (175)
Q Consensus 9 PrDa~~I~~ILks~Gv~~yep~Vv~qLlEfa 39 (175)
...+.=|..||++.|| ++++.-+..|+.++
T Consensus 17 ~pTa~dI~~IL~AaGv-eVe~~~~~lf~~~L 46 (109)
T cd05833 17 SPSAADVKKILGSVGV-EVDDEKLNKVISEL 46 (109)
T ss_pred CCCHHHHHHHHHHcCC-CccHHHHHHHHHHH
Confidence 4566778999999998 58888887776554
No 189
>COG0091 RplV Ribosomal protein L22 [Translation, ribosomal structure and biogenesis]
Probab=20.48 E-value=1.8e+02 Score=22.81 Aligned_cols=54 Identities=26% Similarity=0.369 Sum_probs=39.9
Q ss_pred CCChhHHHHHHHHHhCCCcccChHHHHHHHHHH----HHHHHHHHHHHHHHHhHhCCCCCCHHHH
Q 030559 7 DLPRDAKIVKSLLKSMGVEEYEPRVIHQFLEVW----YRYVVDVLTDAQVYSEHAGKTTIDCDDI 67 (175)
Q Consensus 7 ~~PrDa~~I~~ILks~Gv~~yep~Vv~qLlEfa----yrYt~~VL~DA~~yA~HAgR~tI~~eDV 67 (175)
.-|+.++.|...++-+-+. ++... |+|. -++...+|+-|..-|+|. +.+|.|++
T Consensus 20 iSpkk~r~Va~~IrG~~v~----~A~~~-L~~~pkKaa~~v~KvL~sA~aNAe~n--~gLd~d~L 77 (120)
T COG0091 20 ISPKKARLVADLIRGKKVA----EALAI-LEFVPKKAAKLVKKVLESAIANAENN--KGLDPDKL 77 (120)
T ss_pred CChHHHHHHHHHHcCCcHH----HHHHH-HHhChHHHHHHHHHHHHHHHhhHHhc--cCCChHHE
Confidence 4589999999999988653 33433 6664 478889999999999985 45666653
No 190
>PRK13610 photosystem II reaction center protein Psb28; Provisional
Probab=20.46 E-value=1.1e+02 Score=23.97 Aligned_cols=20 Identities=15% Similarity=0.310 Sum_probs=17.3
Q ss_pred ChHHHHHHHHHHHHHHHHHH
Q 030559 28 EPRVIHQFLEVWYRYVVDVL 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 67778899999999998874
No 191
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=20.21 E-value=5.5e+02 Score=27.47 Aligned_cols=63 Identities=16% Similarity=0.087 Sum_probs=45.1
Q ss_pred CChhHHHHHHHHHhC---CCcccChHHHHHHHHHHH------HHHHHHHHHHHHHHhHhCCCCCCHHHHHHHHHH
Q 030559 8 LPRDAKIVKSLLKSM---GVEEYEPRVIHQFLEVWY------RYVVDVLTDAQVYSEHAGKTTIDCDDIKLAVQS 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 355666666666542 113489999988888665 6778888877654 55668999999999854
No 192
>PLN00138 large subunit ribosomal protein LP2; Provisional
Probab=20.04 E-value=2e+02 Score=22.18 Aligned_cols=30 Identities=23% Similarity=0.254 Sum_probs=22.9
Q ss_pred ChhHHHHHHHHHhCCCcccChHHHHHHHHHH
Q 030559 9 PRDAKIVKSLLKSMGVEEYEPRVIHQFLEVW 39 (175)
Q Consensus 9 PrDa~~I~~ILks~Gv~~yep~Vv~qLlEfa 39 (175)
...+.=|..||++.|| ++++.-+..|..++
T Consensus 17 ~pta~dI~~IL~AaGv-evd~~~~~~f~~~L 46 (113)
T PLN00138 17 CPSAEDLKDILGSVGA-DADDDRIELLLSEV 46 (113)
T ss_pred CCCHHHHHHHHHHcCC-cccHHHHHHHHHHH
Confidence 4566778999999998 48888777776554
Done!