Query 028993
Match_columns 200
No_of_seqs 153 out of 264
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 05:46:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028993.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028993hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3334 Transcription initiati 100.0 6.1E-53 1.3E-57 342.7 13.4 134 29-162 8-142 (148)
2 PF02291 TFIID-31kDa: Transcri 100.0 1.9E-53 4.1E-58 340.8 8.4 124 28-151 6-129 (129)
3 cd07979 TAF9 TATA Binding Prot 100.0 2.5E-48 5.3E-53 305.7 13.6 117 34-150 1-117 (117)
4 COG5094 TAF9 Transcription ini 100.0 2E-45 4.4E-50 294.1 10.8 118 34-151 14-134 (145)
5 PLN00035 histone H4; Provision 99.3 1.4E-11 3E-16 96.1 8.4 66 33-100 30-95 (103)
6 COG2036 HHT1 Histones H3 and H 99.3 1.1E-11 2.4E-16 94.7 7.0 72 28-101 15-86 (91)
7 cd00076 H4 Histone H4, one of 99.3 2E-11 4.4E-16 92.1 8.3 66 33-100 14-79 (85)
8 PTZ00015 histone H4; Provision 99.3 2.4E-11 5.2E-16 94.6 8.4 67 32-100 30-96 (102)
9 smart00803 TAF TATA box bindin 99.3 2.2E-11 4.8E-16 87.4 7.3 60 38-97 6-65 (65)
10 smart00576 BTP Bromodomain tra 99.2 7.5E-11 1.6E-15 86.2 8.7 61 38-98 10-70 (77)
11 smart00417 H4 Histone H4. 99.2 4.5E-11 9.9E-16 88.3 5.9 62 32-95 13-74 (74)
12 cd07981 TAF12 TATA Binding Pro 99.0 4E-09 8.7E-14 76.6 8.9 62 40-101 7-69 (72)
13 PF15630 CENP-S: Kinetochore c 99.0 7.2E-10 1.6E-14 82.1 5.0 58 40-97 11-71 (76)
14 cd08050 TAF6 TATA Binding Prot 98.8 2.5E-08 5.5E-13 90.5 9.8 96 38-134 3-117 (343)
15 PF07524 Bromo_TP: Bromodomain 98.8 4.2E-08 9.1E-13 71.1 8.6 61 38-98 10-70 (77)
16 PF00125 Histone: Core histone 98.5 4E-07 8.6E-12 64.9 7.4 61 38-98 13-74 (75)
17 smart00428 H3 Histone H3. 98.4 1.4E-06 3E-11 68.4 8.5 67 33-100 33-102 (105)
18 cd00074 H2A Histone 2A; H2A is 98.2 3.2E-06 6.9E-11 67.1 6.6 62 37-98 23-85 (115)
19 PF02969 TAF: TATA box binding 98.2 8.6E-06 1.9E-10 59.0 8.0 60 38-97 7-66 (66)
20 PF00808 CBFD_NFYB_HMF: Histon 98.1 1.9E-05 4.1E-10 55.4 7.1 59 38-96 6-65 (65)
21 PLN00160 histone H3; Provision 97.7 0.00018 3.8E-09 55.9 7.7 64 37-100 28-93 (97)
22 PLN00161 histone H3; Provision 97.7 0.00017 3.7E-09 59.0 8.0 65 37-101 62-128 (135)
23 PTZ00018 histone H3; Provision 97.7 0.00015 3.2E-09 59.4 7.6 65 37-101 69-134 (136)
24 KOG3467 Histone H4 [Chromatin 97.7 0.00018 3.8E-09 55.6 7.2 61 38-98 33-93 (103)
25 PLN00121 histone H3; Provision 97.6 0.00022 4.7E-09 58.4 7.5 64 37-100 69-133 (136)
26 PF15511 CENP-T: Centromere ki 97.5 0.00017 3.6E-09 67.6 5.6 58 32-91 351-414 (414)
27 KOG4336 TBP-associated transcr 97.5 0.00043 9.3E-09 63.3 7.7 63 35-97 6-68 (323)
28 PF03847 TFIID_20kDa: Transcri 97.4 0.00077 1.7E-08 49.0 7.4 59 40-98 5-64 (68)
29 KOG1142 Transcription initiati 97.2 0.0007 1.5E-08 60.5 5.6 73 32-104 152-225 (258)
30 KOG2389 Predicted bromodomain 97.0 0.0066 1.4E-07 56.4 10.7 64 38-101 33-96 (353)
31 PF13654 AAA_32: AAA domain; P 96.2 0.017 3.6E-07 55.8 7.9 66 35-100 431-507 (509)
32 KOG3423 Transcription initiati 96.0 0.04 8.6E-07 46.9 8.2 77 20-98 73-164 (176)
33 PF02269 TFIID-18kDa: Transcri 95.9 0.011 2.3E-07 45.1 3.9 59 40-98 7-66 (93)
34 KOG2549 Transcription initiati 95.9 0.032 6.9E-07 54.8 7.9 63 37-99 14-76 (576)
35 smart00414 H2A Histone 2A. 95.5 0.039 8.6E-07 43.3 5.9 62 37-98 12-74 (106)
36 PF03540 TFIID_30kDa: Transcri 95.5 0.067 1.4E-06 37.3 6.3 45 38-82 6-50 (51)
37 KOG1745 Histones H3 and H4 [Ch 95.5 0.012 2.6E-07 48.4 2.9 69 33-102 67-136 (137)
38 PLN00154 histone H2A; Provisio 95.1 0.065 1.4E-06 44.1 6.0 64 35-98 39-104 (136)
39 PTZ00017 histone H2A; Provisio 94.2 0.11 2.3E-06 42.7 5.4 63 36-98 29-92 (134)
40 PTZ00463 histone H2B; Provisio 93.7 0.3 6.4E-06 39.4 6.9 62 39-100 33-95 (117)
41 PLN00158 histone H2B; Provisio 93.7 0.33 7.1E-06 39.1 7.1 63 38-100 31-94 (116)
42 cd07978 TAF13 The TATA Binding 93.7 0.53 1.1E-05 36.0 7.9 58 40-98 8-66 (92)
43 PLN00157 histone H2A; Provisio 92.9 0.22 4.7E-06 40.8 5.1 63 36-98 28-91 (132)
44 smart00427 H2B Histone H2B. 92.9 0.58 1.3E-05 36.0 7.1 62 39-100 6-68 (89)
45 TIGR00764 lon_rel lon-related 92.4 0.61 1.3E-05 46.0 8.4 64 37-100 315-392 (608)
46 KOG1756 Histone 2A [Chromatin 92.4 0.38 8.3E-06 39.4 5.8 62 37-98 30-92 (131)
47 PLN00156 histone H2AX; Provisi 92.3 0.39 8.5E-06 39.7 5.8 63 36-98 31-94 (139)
48 PLN00153 histone H2A; Provisio 91.9 0.42 9.1E-06 39.0 5.5 63 36-98 26-89 (129)
49 KOG0869 CCAAT-binding factor, 91.4 0.58 1.3E-05 39.7 6.0 78 40-118 38-117 (168)
50 PTZ00252 histone H2A; Provisio 90.7 0.76 1.6E-05 37.8 5.9 65 34-98 25-92 (134)
51 COG5262 HTA1 Histone H2A [Chro 90.5 0.73 1.6E-05 37.5 5.5 62 37-98 29-91 (132)
52 PRK00411 cdc6 cell division co 89.9 2 4.4E-05 38.4 8.6 66 33-98 205-281 (394)
53 cd08045 TAF4 TATA Binding Prot 89.0 1.4 3E-05 37.6 6.5 61 37-97 51-117 (212)
54 KOG0870 DNA polymerase epsilon 88.8 1.8 3.9E-05 37.0 6.9 82 32-115 10-93 (172)
55 TIGR03015 pepcterm_ATPase puta 88.0 2.4 5.2E-05 35.7 7.3 61 38-98 199-265 (269)
56 TIGR00635 ruvB Holliday juncti 87.4 8.2 0.00018 33.4 10.4 81 39-121 167-252 (305)
57 PRK05574 holA DNA polymerase I 87.2 3.2 7E-05 36.2 7.8 64 37-101 152-215 (340)
58 COG5162 Transcription initiati 86.0 3.7 8E-05 35.3 7.2 54 26-81 82-135 (197)
59 PF05236 TAF4: Transcription i 85.5 1.5 3.2E-05 38.6 4.8 61 37-97 50-116 (264)
60 COG5095 TAF6 Transcription ini 85.2 3.2 6.9E-05 39.3 7.0 61 38-99 9-70 (450)
61 COG1067 LonB Predicted ATP-dep 85.0 2.5 5.3E-05 42.5 6.6 75 26-100 312-400 (647)
62 PF15127 DUF4565: Protein of u 84.6 0.99 2.1E-05 35.0 2.9 66 7-77 6-71 (91)
63 PRK00080 ruvB Holliday junctio 84.4 9.7 0.00021 33.9 9.6 81 39-121 188-273 (328)
64 TIGR02902 spore_lonB ATP-depen 83.9 4 8.7E-05 39.5 7.4 60 38-98 270-331 (531)
65 TIGR01128 holA DNA polymerase 83.7 6.4 0.00014 33.7 7.9 64 37-101 117-180 (302)
66 PRK07452 DNA polymerase III su 83.3 4.5 9.7E-05 35.6 6.9 61 37-98 136-198 (326)
67 KOG1744 Histone H2B [Chromatin 82.8 4.6 0.0001 33.0 6.2 59 39-100 46-104 (127)
68 COG1466 HolA DNA polymerase II 82.0 5.1 0.00011 36.1 6.9 63 38-101 147-209 (334)
69 PRK06585 holA DNA polymerase I 81.8 4.1 8.8E-05 36.2 6.1 64 37-101 148-212 (343)
70 TIGR02928 orc1/cdc6 family rep 79.7 14 0.0003 32.7 8.7 67 32-98 196-273 (365)
71 PRK07914 hypothetical protein; 79.3 5.1 0.00011 35.7 5.9 66 34-101 130-196 (320)
72 PRK12402 replication factor C 79.0 6.3 0.00014 34.2 6.2 58 37-97 190-247 (337)
73 PRK05907 hypothetical protein; 78.6 5.3 0.00011 36.3 5.8 63 37-100 140-204 (311)
74 PRK08487 DNA polymerase III su 78.2 7.3 0.00016 34.9 6.6 61 37-100 141-201 (328)
75 cd08048 TAF11 TATA Binding Pro 78.1 19 0.00041 27.1 7.8 59 39-97 21-82 (85)
76 TIGR02397 dnaX_nterm DNA polym 78.0 6.5 0.00014 34.5 6.1 55 38-97 183-240 (355)
77 PRK13765 ATP-dependent proteas 74.7 9.2 0.0002 38.3 6.8 50 48-97 336-398 (637)
78 PRK05629 hypothetical protein; 74.3 11 0.00023 33.6 6.5 65 34-100 128-193 (318)
79 PRK14970 DNA polymerase III su 74.0 9.5 0.00021 34.3 6.2 58 38-97 174-231 (367)
80 PRK09111 DNA polymerase III su 73.0 9.6 0.00021 37.8 6.4 58 37-96 197-254 (598)
81 PF13335 Mg_chelatase_2: Magne 71.6 18 0.0004 27.4 6.4 35 65-99 62-96 (96)
82 PRK00440 rfc replication facto 71.1 13 0.00029 31.8 6.2 58 37-97 167-224 (319)
83 PRK14955 DNA polymerase III su 71.0 14 0.00031 34.1 6.7 58 38-96 193-254 (397)
84 TIGR02442 Cob-chelat-sub cobal 70.8 9.9 0.00021 37.6 5.9 55 51-105 249-310 (633)
85 TIGR02031 BchD-ChlD magnesium 70.0 9.5 0.0002 37.5 5.6 55 51-105 203-264 (589)
86 PF09415 CENP-X: CENP-S associ 69.3 16 0.00035 26.8 5.4 57 38-94 3-63 (72)
87 PRK00149 dnaA chromosomal repl 68.9 40 0.00087 31.5 9.3 64 33-98 278-348 (450)
88 TIGR03420 DnaA_homol_Hda DnaA 66.1 32 0.0007 28.1 7.2 59 36-96 164-225 (226)
89 PRK08691 DNA polymerase III su 65.5 24 0.00051 36.2 7.4 55 37-96 184-241 (709)
90 PRK09862 putative ATP-dependen 64.1 22 0.00047 34.8 6.7 36 64-99 457-492 (506)
91 PRK04195 replication factor C 63.7 19 0.00041 34.1 6.1 57 37-96 166-222 (482)
92 PRK06645 DNA polymerase III su 62.9 21 0.00046 34.7 6.4 58 37-96 193-253 (507)
93 TIGR00362 DnaA chromosomal rep 62.7 90 0.002 28.6 10.2 100 33-133 266-401 (405)
94 COG5248 TAF19 Transcription in 62.0 26 0.00057 28.4 5.7 44 53-98 29-72 (126)
95 PRK14958 DNA polymerase III su 60.5 32 0.00069 33.4 7.1 54 37-95 184-240 (509)
96 TIGR02030 BchI-ChlI magnesium 60.4 23 0.0005 32.6 5.9 58 51-108 254-318 (337)
97 PRK14964 DNA polymerase III su 60.1 24 0.00053 34.3 6.2 54 37-95 181-237 (491)
98 PRK14971 DNA polymerase III su 59.2 26 0.00056 34.8 6.3 56 38-95 187-242 (614)
99 KOG3901 Transcription initiati 58.6 33 0.00072 27.4 5.7 42 54-98 30-71 (109)
100 PRK14961 DNA polymerase III su 57.1 34 0.00074 31.2 6.4 55 38-97 185-242 (363)
101 PRK14957 DNA polymerase III su 56.9 30 0.00064 34.1 6.3 53 38-95 185-240 (546)
102 PRK13406 bchD magnesium chelat 56.7 43 0.00093 33.3 7.4 55 50-104 194-255 (584)
103 PRK14962 DNA polymerase III su 56.1 37 0.0008 32.7 6.7 57 37-98 182-241 (472)
104 PRK08903 DnaA regulatory inact 55.7 77 0.0017 26.2 7.8 60 36-97 162-224 (227)
105 CHL00081 chlI Mg-protoporyphyr 55.1 70 0.0015 29.8 8.1 54 51-104 267-327 (350)
106 PRK14954 DNA polymerase III su 53.5 41 0.00088 33.7 6.7 58 38-96 193-254 (620)
107 COG1474 CDC6 Cdc6-related prot 52.2 88 0.0019 29.1 8.3 68 31-98 186-264 (366)
108 PRK09087 hypothetical protein; 51.9 1.1E+02 0.0023 26.2 8.3 63 34-98 152-221 (226)
109 KOG0871 Class 2 transcription 50.6 1.4E+02 0.003 25.4 8.3 67 32-101 12-80 (156)
110 PRK14953 DNA polymerase III su 50.2 47 0.001 32.0 6.4 54 38-96 185-241 (486)
111 COG1224 TIP49 DNA helicase TIP 50.1 42 0.00092 32.5 5.9 67 34-101 360-434 (450)
112 smart00350 MCM minichromosome 49.8 27 0.00059 33.5 4.7 30 69-98 474-503 (509)
113 PRK14950 DNA polymerase III su 49.6 46 0.00099 32.6 6.3 55 39-95 187-241 (585)
114 PRK14960 DNA polymerase III su 49.5 57 0.0012 33.5 7.0 53 37-94 183-238 (702)
115 PRK07764 DNA polymerase III su 49.2 46 0.00099 34.5 6.5 55 38-93 186-240 (824)
116 PRK13407 bchI magnesium chelat 49.1 64 0.0014 29.7 6.8 54 51-104 251-311 (334)
117 PRK14959 DNA polymerase III su 48.4 51 0.0011 33.2 6.5 53 39-96 186-241 (624)
118 PF04157 EAP30: EAP30/Vps36 fa 48.2 60 0.0013 27.7 6.2 33 18-50 40-73 (223)
119 PRK05563 DNA polymerase III su 48.2 66 0.0014 31.5 7.1 54 37-95 184-240 (559)
120 PRK08727 hypothetical protein; 47.6 76 0.0016 27.0 6.7 64 32-97 159-229 (233)
121 PF02847 MA3: MA3 domain; Int 47.1 1.1E+02 0.0025 22.4 6.8 66 36-101 17-83 (113)
122 PRK14086 dnaA chromosomal repl 46.2 1E+02 0.0022 31.2 8.1 101 32-133 443-580 (617)
123 PF07704 PSK_trans_fac: Rv0623 46.2 58 0.0013 24.0 5.0 54 73-128 12-65 (82)
124 PRK08451 DNA polymerase III su 46.0 71 0.0015 31.5 7.0 53 37-94 182-237 (535)
125 PRK14969 DNA polymerase III su 45.4 60 0.0013 31.6 6.3 53 39-96 186-241 (527)
126 PRK14952 DNA polymerase III su 45.1 57 0.0012 32.5 6.2 53 38-94 184-239 (584)
127 PRK06305 DNA polymerase III su 44.0 68 0.0015 30.5 6.3 52 38-94 187-241 (451)
128 PRK14087 dnaA chromosomal repl 43.5 2.2E+02 0.0048 27.1 9.7 101 33-133 273-412 (450)
129 KOG1659 Class 2 transcription 42.1 74 0.0016 28.4 5.8 70 40-117 19-89 (224)
130 KOG1942 DNA helicase, TBP-inte 41.7 65 0.0014 30.8 5.7 53 48-101 384-440 (456)
131 PRK14963 DNA polymerase III su 41.4 74 0.0016 30.9 6.2 55 38-95 182-236 (504)
132 PRK05896 DNA polymerase III su 41.3 79 0.0017 31.8 6.5 55 38-94 185-239 (605)
133 PRK06647 DNA polymerase III su 40.9 78 0.0017 31.2 6.4 54 38-96 185-241 (563)
134 KOG3902 Histone acetyltransfer 40.7 1.5E+02 0.0033 27.9 7.9 69 29-97 20-88 (352)
135 TIGR01446 DnaD_dom DnaD and ph 39.8 1.1E+02 0.0025 21.0 5.6 40 32-74 13-59 (73)
136 PRK14956 DNA polymerase III su 39.4 2.2E+02 0.0049 27.9 9.2 53 37-94 186-241 (484)
137 COG5208 HAP5 CCAAT-binding fac 38.9 53 0.0011 29.7 4.5 79 39-128 114-193 (286)
138 PLN03025 replication factor C 38.5 84 0.0018 27.9 5.8 54 37-93 164-217 (319)
139 PF04719 TAFII28: hTAFII28-lik 38.3 1.8E+02 0.0039 22.2 7.4 58 40-97 29-88 (90)
140 PRK14951 DNA polymerase III su 37.8 89 0.0019 31.4 6.3 54 37-95 189-245 (618)
141 TIGR00153 conserved hypothetic 37.7 49 0.0011 27.9 4.0 36 88-123 58-93 (216)
142 PRK06893 DNA replication initi 36.9 1.8E+02 0.0039 24.6 7.3 63 32-96 158-227 (229)
143 PTZ00361 26 proteosome regulat 36.5 1E+02 0.0022 29.5 6.3 38 62-99 387-424 (438)
144 TIGR01242 26Sp45 26S proteasom 35.6 1.2E+02 0.0026 27.5 6.3 33 66-98 330-362 (364)
145 COG1378 Predicted transcriptio 35.1 30 0.00066 30.5 2.4 37 39-75 4-40 (247)
146 TIGR00368 Mg chelatase-related 34.8 96 0.0021 30.2 5.9 35 65-99 465-499 (499)
147 PF09123 DUF1931: Domain of un 34.6 14 0.0003 30.6 0.2 54 41-94 2-55 (138)
148 PRK14965 DNA polymerase III su 33.8 1.1E+02 0.0023 30.2 6.1 53 38-95 185-240 (576)
149 TIGR02639 ClpA ATP-dependent C 33.7 1.2E+02 0.0027 30.5 6.6 51 51-101 368-431 (731)
150 TIGR02903 spore_lon_C ATP-depe 33.7 93 0.002 30.9 5.7 60 38-98 360-429 (615)
151 PF08369 PCP_red: Proto-chloro 33.5 58 0.0013 21.7 3.0 26 70-95 18-44 (45)
152 PRK06130 3-hydroxybutyryl-CoA 33.4 1.6E+02 0.0034 25.8 6.6 71 28-104 152-224 (311)
153 PF02631 RecX: RecX family; I 31.7 2.3E+02 0.0049 21.5 6.5 62 52-121 6-83 (121)
154 KOG0960 Mitochondrial processi 29.7 5.5E+02 0.012 25.3 10.6 124 29-155 122-268 (467)
155 KOG1657 CCAAT-binding factor, 29.6 89 0.0019 27.8 4.4 71 32-104 74-145 (236)
156 PRK03992 proteasome-activating 29.2 1.6E+02 0.0036 27.2 6.2 36 64-99 337-372 (389)
157 PRK13531 regulatory ATPase Rav 28.6 2.9E+02 0.0062 27.4 8.0 48 51-98 223-283 (498)
158 PF09077 Phage-MuB_C: Mu B tra 28.3 30 0.00064 26.0 1.0 59 33-97 13-76 (78)
159 PRK06620 hypothetical protein; 28.2 3.1E+02 0.0068 23.2 7.4 56 39-96 155-213 (214)
160 COG1460 Uncharacterized protei 28.1 1E+02 0.0022 24.8 4.1 37 32-69 77-113 (114)
161 PRK08084 DNA replication initi 27.9 3.6E+02 0.0078 22.9 7.7 61 34-96 166-233 (235)
162 TIGR00277 HDIG uncharacterized 26.9 1.6E+02 0.0034 19.5 4.4 33 63-98 4-36 (80)
163 COG5247 BUR6 Class 2 transcrip 26.3 3.4E+02 0.0075 21.8 7.6 69 51-127 41-109 (113)
164 cd08054 gp6 Head-Tail Connecto 26.2 1.9E+02 0.0042 20.2 5.0 64 42-107 4-68 (91)
165 COG0593 DnaA ATPase involved i 26.0 1.9E+02 0.0041 27.8 6.2 100 32-133 241-376 (408)
166 PF10930 DUF2737: Protein of u 25.9 75 0.0016 22.5 2.6 23 100-126 17-39 (54)
167 PRK13480 3'-5' exoribonuclease 24.9 1.2E+02 0.0026 27.9 4.5 103 16-119 164-275 (314)
168 TIGR01241 FtsH_fam ATP-depende 24.9 2E+02 0.0044 27.3 6.1 36 65-100 261-296 (495)
169 PRK15485 cobalt transport prot 24.9 2.7E+02 0.0059 23.8 6.4 36 38-77 136-171 (225)
170 PRK07133 DNA polymerase III su 24.7 1.9E+02 0.0042 29.8 6.3 52 39-95 185-239 (725)
171 PRK14700 recombination factor 24.6 2.9E+02 0.0064 25.5 6.9 64 37-100 45-116 (300)
172 PF13852 DUF4197: Protein of u 24.5 1.7E+02 0.0036 25.4 5.1 46 32-77 43-91 (202)
173 PF12767 SAGA-Tad1: Transcript 23.6 2E+02 0.0043 25.1 5.4 40 40-79 212-251 (252)
174 PRK07003 DNA polymerase III su 23.3 3E+02 0.0065 29.0 7.3 53 38-95 185-240 (830)
175 PRK13610 photosystem II reacti 23.1 90 0.002 25.2 2.9 20 53-72 92-111 (113)
176 PTZ00112 origin recognition co 23.1 4.2E+02 0.0092 28.9 8.4 64 32-98 933-1005(1164)
177 PF03874 RNA_pol_Rpb4: RNA pol 23.0 1.1E+02 0.0023 23.2 3.2 28 34-64 56-83 (117)
178 PF08941 USP8_interact: USP8 i 21.7 32 0.00069 29.7 0.1 40 6-66 77-116 (179)
179 PF07766 LETM1: LETM1-like pro 21.5 3.4E+02 0.0075 24.0 6.6 71 39-114 175-245 (268)
180 TIGR02881 spore_V_K stage V sp 21.2 5.2E+02 0.011 22.1 7.8 11 52-62 198-208 (261)
181 TIGR00362 DnaA chromosomal rep 21.0 6.5E+02 0.014 23.0 9.3 10 38-47 291-300 (405)
182 CHL00176 ftsH cell division pr 20.9 3E+02 0.0065 27.7 6.7 65 35-99 353-423 (638)
183 PF15337 Vasculin: Vascular pr 20.7 52 0.0011 25.8 1.1 22 34-55 6-27 (97)
184 PF00493 MCM: MCM2/3/5 family 20.3 50 0.0011 29.9 1.1 30 69-98 296-325 (331)
185 PRK07994 DNA polymerase III su 20.0 3.6E+02 0.0078 27.4 7.0 51 39-94 186-239 (647)
No 1
>KOG3334 consensus Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=100.00 E-value=6.1e-53 Score=342.67 Aligned_cols=134 Identities=54% Similarity=0.930 Sum_probs=126.6
Q ss_pred CCCCCChhHHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhccccCCCC
Q 028993 29 GDEDLPRDAKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFSQPP 108 (200)
Q Consensus 29 ~~~~~PrDa~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~F~~pP 108 (200)
+.+..||||++|+.||+++||++|||+|++|||||+|||++.||+||++||+||+|.+|++|||||||+++++++|++||
T Consensus 8 ~~~~~pkDa~~i~~iL~s~GI~eyEprVi~qlLefa~rYtt~vL~DA~vys~HA~ka~i~~eDVrlA~~~~~~~sf~~pP 87 (148)
T KOG3334|consen 8 GTKGVPKDARVIASILKSLGIQEYEPRVINQLLEFAYRYTTTVLDDAKVYSSHAKKATIDAEDVRLAIQMRVDHSFTPPP 87 (148)
T ss_pred cccCCcHHHHHHHHHHHHcCccccChHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHhccccCCCC
Confidence 44789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCCCceee-cCCccchhhhh
Q 028993 109 AREVLLELAKNRNKIPLPKSIAGRGIPLPPEQDTLISPNYQLS-IEKKESAQAAE 162 (200)
Q Consensus 109 pre~LlelA~e~N~~PLP~i~~~~GirLPper~cLt~~Ny~l~-~~k~~~~~~~~ 162 (200)
|||+|+++|.+||++|||.|..+||+||||++||||++||.++ .+|+...+..+
T Consensus 88 pRe~lL~lA~~rN~~pLp~i~~~~g~rLPpdryclt~~n~~l~~~~kk~~~~~~~ 142 (148)
T KOG3334|consen 88 PREFLLELAAERNSKPLPQIRAGPGLRLPPDRYCLTQPNYVLKNLQKKEMQQAPE 142 (148)
T ss_pred chHHHHHHHHhhccCCCCcccCCCCccCChhHHHhcCccceeecccccccccCcc
Confidence 9999999999999999999999999999999999999999999 55555444433
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=1.9e-53 Score=340.82 Aligned_cols=124 Identities=58% Similarity=0.986 Sum_probs=59.0
Q ss_pred CCCCCCChhHHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhccccCCC
Q 028993 28 EGDEDLPRDAKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFSQP 107 (200)
Q Consensus 28 ~~~~~~PrDa~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~F~~p 107 (200)
++.+.+||||++|+.||++|||++|||+|++|||||+|||+++||.||..||+||||++|+++||||||++|++++|++|
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 44558999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCCCceee
Q 028993 108 PAREVLLELAKNRNKIPLPKSIAGRGIPLPPEQDTLISPNYQLS 151 (200)
Q Consensus 108 Ppre~LlelA~e~N~~PLP~i~~~~GirLPper~cLt~~Ny~l~ 151 (200)
||||+|+++|+++|++|||.|+.+||+|||||+||||++||+||
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-48 Score=305.66 Aligned_cols=117 Identities=60% Similarity=1.027 Sum_probs=116.0
Q ss_pred ChhHHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhccccCCCCcHHHH
Q 028993 34 PRDAKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFSQPPAREVL 113 (200)
Q Consensus 34 PrDa~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~F~~pPpre~L 113 (200)
|||+++|++||+++||++||++|++||+||+|||+.+||+||..||+||||++|+++||||||++|++++|++|||||+|
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 028993 114 LELAKNRNKIPLPKSIAGRGIPLPPEQDTLISPNYQL 150 (200)
Q Consensus 114 lelA~e~N~~PLP~i~~~~GirLPper~cLt~~Ny~l 150 (200)
+++|+++|++|||+++.++|+|||||+||||++||++
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=2e-45 Score=294.13 Aligned_cols=118 Identities=45% Similarity=0.810 Sum_probs=115.3
Q ss_pred ChhHHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCC---CCCHHHHHHHHHHhhccccCCCCcH
Q 028993 34 PRDAKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKN---TIDCDDVKLAVQSKVNSSFSQPPAR 110 (200)
Q Consensus 34 PrDa~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~---tI~~eDVrLAI~~r~~~~F~~pPpr 110 (200)
|||+|+|+.||+|+||++||+.|+.||||||||||.+||+||++||+|+||. +|.++|||||+++|++++|.+||||
T Consensus 14 PrDvrlihliL~Slgi~~ye~~VplQLl~FAhRYTq~vl~Dalvya~htgrg~~a~l~veDvrLA~at~v~~~F~pppPk 93 (145)
T COG5094 14 PRDVRLIHLILRSLGIEEYEPKVPLQLLEFAHRYTQDVLEDALVYAKHTGRGHIATLGVEDVRLALATKVGRHFVPPPPK 93 (145)
T ss_pred CcchhHHHHHHHhcCchhhCccchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCcccHHHHHHHHHHHhcCCcCCCChH
Confidence 9999999999999999999999999999999999999999999999999996 5567999999999999999999999
Q ss_pred HHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCCCceee
Q 028993 111 EVLLELAKNRNKIPLPKSIAGRGIPLPPEQDTLISPNYQLS 151 (200)
Q Consensus 111 e~LlelA~e~N~~PLP~i~~~~GirLPper~cLt~~Ny~l~ 151 (200)
|+|+++|.++|+.|||.+...||+||||++||||++||.+.
T Consensus 94 e~llela~erN~KpLpq~~g~~g~RlPPekycLt~~~w~v~ 134 (145)
T COG5094 94 EYLLELATERNSKPLPQPDGENGIRLPPEKYCLTNLDWEVL 134 (145)
T ss_pred HHHHHHHHHhcCCCCCccCCccceecCcHHhhhcccchhhh
Confidence 99999999999999999999999999999999999999994
No 5
>PLN00035 histone H4; Provisional
Probab=99.29 E-value=1.4e-11 Score=96.15 Aligned_cols=66 Identities=21% Similarity=0.354 Sum_probs=62.0
Q ss_pred CChhHHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhh
Q 028993 33 LPRDAKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 100 (200)
Q Consensus 33 ~PrDa~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 100 (200)
+|. -.|.+|++..||.+++.++...|.+.++.|..+|+.||..||+||||+||+++||.+|++..-
T Consensus 30 ipk--~~IrRLARr~GvkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~Alkr~g 95 (103)
T PLN00035 30 ITK--PAIRRLARRGGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQG 95 (103)
T ss_pred CCH--HHHHHHHHHcCcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHcC
Confidence 665 479999999999999999999999999999999999999999999999999999999997743
No 6
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=99.27 E-value=1.1e-11 Score=94.72 Aligned_cols=72 Identities=28% Similarity=0.439 Sum_probs=65.0
Q ss_pred CCCCCCChhHHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhc
Q 028993 28 EGDEDLPRDAKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVN 101 (200)
Q Consensus 28 ~~~~~~PrDa~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 101 (200)
+....+|+ .-|.+|+++.|.++++..++..|-+.+++|+.+|.++|..||.||||+||+.+||+||++.+.-
T Consensus 15 ~~~~~Lp~--apv~Ri~r~~~~~Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~~~~~ 86 (91)
T COG2036 15 STDLLLPK--APVRRILRKAGAERVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALKRLGR 86 (91)
T ss_pred hhhhhcCc--hHHHHHHHHHhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHHHhcc
Confidence 44445665 4689999999999999999999999999999999999999999999999999999999987543
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=99.27 E-value=2e-11 Score=92.13 Aligned_cols=66 Identities=26% Similarity=0.419 Sum_probs=61.8
Q ss_pred CChhHHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhh
Q 028993 33 LPRDAKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 100 (200)
Q Consensus 33 ~PrDa~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 100 (200)
+|+ -.|.+|++..|+.+++.++...+.+.+..|..+|+.||..||+||||+||+++||.+|++..-
T Consensus 14 i~k--~~I~RLarr~GvkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr~g 79 (85)
T cd00076 14 ITK--PAIRRLARRGGVKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKRQG 79 (85)
T ss_pred CCH--HHHHHHHHHcCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHCC
Confidence 564 479999999999999999999999999999999999999999999999999999999997643
No 8
>PTZ00015 histone H4; Provisional
Probab=99.26 E-value=2.4e-11 Score=94.62 Aligned_cols=67 Identities=18% Similarity=0.333 Sum_probs=62.9
Q ss_pred CCChhHHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhh
Q 028993 32 DLPRDAKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 100 (200)
Q Consensus 32 ~~PrDa~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 100 (200)
.+|+ -.|.+|++..||.+++.++...|.++++.|..+|+.||..||+||+|+||+++||.+|++..-
T Consensus 30 gI~k--~~IrRLarr~GvkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~AlKr~g 96 (102)
T PTZ00015 30 GITK--GAIRRLARRGGVKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVYALKRQG 96 (102)
T ss_pred CCCH--HHHHHHHHHcCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHhcC
Confidence 4776 579999999999999999999999999999999999999999999999999999999997643
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=99.25 E-value=2.2e-11 Score=87.35 Aligned_cols=60 Identities=15% Similarity=0.314 Sum_probs=57.4
Q ss_pred HHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHH
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQ 97 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 97 (200)
..|.+|.++.||++.++++...|.+.++.+..+|+++|..|++||+|+|++.+||.+|++
T Consensus 6 ~~i~ria~~~Gi~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk 65 (65)
T smart00803 6 ETIKDVAESLGIGNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR 65 (65)
T ss_pred HHHHHHHHHCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence 358999999999999999999999999999999999999999999999999999999973
No 10
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=99.22 E-value=7.5e-11 Score=86.20 Aligned_cols=61 Identities=23% Similarity=0.453 Sum_probs=58.8
Q ss_pred HHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
+.|.+||++.|.+++++.++..|.|.+++|..++++.+..||+||||++++..||++|.+.
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=99.18 E-value=4.5e-11 Score=88.26 Aligned_cols=62 Identities=23% Similarity=0.386 Sum_probs=57.7
Q ss_pred CCChhHHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHH
Q 028993 32 DLPRDAKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLA 95 (200)
Q Consensus 32 ~~PrDa~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLA 95 (200)
.+|+ -.|.+|++..|+.+++..+...|.++++.|..+|+.||..|++||||+||+++||..|
T Consensus 13 gI~k--~~IrRLaRr~GvkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~~a 74 (74)
T smart00417 13 GITK--PAIRRLARRGGVKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVVYA 74 (74)
T ss_pred CCCH--HHHHHHHHHcCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHheeC
Confidence 3664 4799999999999999999999999999999999999999999999999999999754
No 12
>cd07981 TAF12 TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of the seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs function such as serving as activator-bind
Probab=98.98 E-value=4e-09 Score=76.57 Aligned_cols=62 Identities=31% Similarity=0.469 Sum_probs=54.9
Q ss_pred HHHHHHhC-CCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhc
Q 028993 40 VKSLLKSM-GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVN 101 (200)
Q Consensus 40 I~~ILks~-Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 101 (200)
+..+++.. +-.+++++|...|++++..|+.+|+.+|..+|+|+||+||+.+||+||++..-+
T Consensus 7 l~~lv~~id~~~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r~~~ 69 (72)
T cd07981 7 LQELLKEIDPREQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLERNWN 69 (72)
T ss_pred HHHHHHhhCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhcC
Confidence 44556655 458999999999999999999999999999999999999999999999987544
No 13
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=98.98 E-value=7.2e-10 Score=82.10 Aligned_cols=58 Identities=29% Similarity=0.542 Sum_probs=47.0
Q ss_pred HHHHHHhCCC---cccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHH
Q 028993 40 VKSLLKSMGV---EDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQ 97 (200)
Q Consensus 40 I~~ILks~Gv---~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 97 (200)
|.+|..+.+. ..+++.++.+|.|++|+|+..+..|...||+||||++|+.|||+|..+
T Consensus 11 v~ki~ee~~~~~~~~~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~~dDV~Ll~R 71 (76)
T PF15630_consen 11 VGKIVEEEAKEKGVEVSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTINMDDVKLLAR 71 (76)
T ss_dssp HHHHHHHCCCCTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHTT
T ss_pred HHHHHHHHHhccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHHHhh
Confidence 4445555432 249999999999999999999999999999999999999999999763
No 14
>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=98.81 E-value=2.5e-08 Score=90.53 Aligned_cols=96 Identities=19% Similarity=0.306 Sum_probs=77.8
Q ss_pred HHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhc---cccCCCCc-----
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVN---SSFSQPPA----- 109 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~---~~F~~pPp----- 109 (200)
..|..|+++.||++.++++...|.+-++.++.+|+++|..|++|++|++++++||.+|++++-- +-|....+
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 4688899999999999999999999999999999999999999999999999999999998543 22321111
Q ss_pred -----------HHHHHHHHHhhcCCCCCCCCCCCCC
Q 028993 110 -----------REVLLELAKNRNKIPLPKSIAGRGI 134 (200)
Q Consensus 110 -----------re~LlelA~e~N~~PLP~i~~~~Gi 134 (200)
.|.-+++.+-.| .|||+++...++
T Consensus 83 ~~~~~~~l~~~~D~eidl~~~i~-~~lp~~p~~~~~ 117 (343)
T cd08050 83 STGGGQELYYVEDKEIDLKDLIN-TPLPKVPLDVSV 117 (343)
T ss_pred ccCCCceEeeCCCCcccHHHhhh-cccCCCCCcccc
Confidence 133456777777 788888865444
No 15
>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=98.79 E-value=4.2e-08 Score=71.15 Aligned_cols=61 Identities=26% Similarity=0.512 Sum_probs=58.8
Q ss_pred HHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
++|..||+..|-+..++.+++.|.|++.+|..++...+..||+|+||...+..||.+|.+.
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 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=98.54 E-value=4e-07 Score=64.90 Aligned_cols=61 Identities=18% Similarity=0.314 Sum_probs=53.3
Q ss_pred HHHHHHHHhCCCc-ccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 38 KIVKSLLKSMGVE-DYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 38 ~~I~~ILks~Gv~-~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
+++..|-...+.. +++..++..|-.+++-|+.+|+++|..+|.|++|+||+..||++|+..
T Consensus 13 r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r~ 74 (75)
T PF00125_consen 13 RLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLAVRI 74 (75)
T ss_dssp HHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHHH
T ss_pred eeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHHHhc
Confidence 4444555555553 999999999999999999999999999999999999999999999975
No 17
>smart00428 H3 Histone H3.
Probab=98.43 E-value=1.4e-06 Score=68.35 Aligned_cols=67 Identities=21% Similarity=0.312 Sum_probs=60.0
Q ss_pred CChhHHHHHHHHHhCC---CcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhh
Q 028993 33 LPRDAKIVKSLLKSMG---VEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 100 (200)
Q Consensus 33 ~PrDa~~I~~ILks~G---v~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 100 (200)
+|- .++|..|..+.. --+|++.++..|-|.++.|..++++||...|.||+|.||...||+||...|.
T Consensus 33 ~pF-~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi~La~rir~ 102 (105)
T smart00428 33 APF-QRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQLARRIRG 102 (105)
T ss_pred ccH-HHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhHHHHHHHhc
Confidence 344 788999998874 2499999999999999999999999999999999999999999999987664
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=98.23 E-value=3.2e-06 Score=67.12 Aligned_cols=62 Identities=18% Similarity=0.097 Sum_probs=59.1
Q ss_pred HHHHHHHHHh-CCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 37 AKIVKSLLKS-MGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 37 a~~I~~ILks-~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
+--|+++|++ .++.+++..+...|...++.++.+||+-|..+|+|+++++|+.+||.+||..
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 5678999998 6889999999999999999999999999999999999999999999999977
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=98.22 E-value=8.6e-06 Score=59.02 Aligned_cols=60 Identities=17% Similarity=0.336 Sum_probs=50.7
Q ss_pred HHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHH
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQ 97 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 97 (200)
..|..+-.++||...++++...|.+-++--..+|+++|..|..|++|+.++.+||..|++
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 468889999999999999999999999999999999999999999999999999999874
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=98.07 E-value=1.9e-05 Score=55.42 Aligned_cols=59 Identities=20% Similarity=0.241 Sum_probs=53.7
Q ss_pred HHHHHHHHhC-CCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHH
Q 028993 38 KIVKSLLKSM-GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAV 96 (200)
Q Consensus 38 ~~I~~ILks~-Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI 96 (200)
--|.+|+|.. ++..++.+++..+...++.++..++.+|...|.+.||+||+.+||..|+
T Consensus 6 a~vkri~k~~~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~~rkti~~~Dv~~Av 65 (65)
T PF00808_consen 6 ARVKRIMKSDPDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTITYEDVAKAV 65 (65)
T ss_dssp HHHHHHHHHTSTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE-HHHHHHHH
T ss_pred HHHHHHhccCCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHC
Confidence 4588899998 8889999999999999999999999999999999999999999999885
No 21
>PLN00160 histone H3; Provisional
Probab=97.72 E-value=0.00018 Score=55.91 Aligned_cols=64 Identities=20% Similarity=0.257 Sum_probs=58.1
Q ss_pred HHHHHHHHHhCC--CcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhh
Q 028993 37 AKIVKSLLKSMG--VEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 100 (200)
Q Consensus 37 a~~I~~ILks~G--v~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 100 (200)
.++|..|..+.. --+|...++..|=|-++.|...+++|+...|-||+|-||...|++||...|.
T Consensus 28 ~RLVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~~L~~rirg 93 (97)
T PLN00160 28 ARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDMQLARRIRG 93 (97)
T ss_pred HHHHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhHHHHHHhhc
Confidence 688888888762 3599999999999999999999999999999999999999999999986654
No 22
>PLN00161 histone H3; Provisional
Probab=97.72 E-value=0.00017 Score=58.99 Aligned_cols=65 Identities=20% Similarity=0.262 Sum_probs=59.2
Q ss_pred HHHHHHHHHhCC--CcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhc
Q 028993 37 AKIVKSLLKSMG--VEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVN 101 (200)
Q Consensus 37 a~~I~~ILks~G--v~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 101 (200)
.++|..|..+.. --+|...++..|=|.++.|...+++||...|-||+|-||...||+||...|..
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 688999988863 35999999999999999999999999999999999999999999999877644
No 23
>PTZ00018 histone H3; Provisional
Probab=97.72 E-value=0.00015 Score=59.42 Aligned_cols=65 Identities=18% Similarity=0.317 Sum_probs=58.2
Q ss_pred HHHHHHHHHhCCC-cccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhc
Q 028993 37 AKIVKSLLKSMGV-EDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVN 101 (200)
Q Consensus 37 a~~I~~ILks~Gv-~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 101 (200)
.++|..|..+.+- -+|...++..|=|-++.|...+++|+...|-||+|-||...||+||...|..
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 6888888877632 3999999999999999999999999999999999999999999999876643
No 24
>KOG3467 consensus Histone H4 [Chromatin structure and dynamics]
Probab=97.69 E-value=0.00018 Score=55.61 Aligned_cols=61 Identities=23% Similarity=0.364 Sum_probs=56.4
Q ss_pred HHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
-.|.+|-+..||.++.--.-......+..|..+++.+|..|++||.|+||++.||--+++-
T Consensus 33 paIRRlARr~GVkRi~G~~yeE~~~~~k~fl~n~i~~A~~yt~HAKRKTvT~~dvv~~LKR 93 (103)
T KOG3467|consen 33 PAIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKR 93 (103)
T ss_pred HHHHHHHHhcCcchhchhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhceeeHHHHHHHHHH
Confidence 3588999999999999988889999999999999999999999999999999999888854
No 25
>PLN00121 histone H3; Provisional
Probab=97.64 E-value=0.00022 Score=58.42 Aligned_cols=64 Identities=19% Similarity=0.317 Sum_probs=58.1
Q ss_pred HHHHHHHHHhCCC-cccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhh
Q 028993 37 AKIVKSLLKSMGV-EDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 100 (200)
Q Consensus 37 a~~I~~ILks~Gv-~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 100 (200)
.++|..|..+.+- -+|...++..|=|-++.|...+++|+...|-||+|-||...||+||...|.
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 6888888888633 399999999999999999999999999999999999999999999986654
No 26
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T.
Probab=97.49 E-value=0.00017 Score=67.58 Aligned_cols=58 Identities=24% Similarity=0.367 Sum_probs=42.8
Q ss_pred CCChhHHHHHHHHHhC------CCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHH
Q 028993 32 DLPRDAKIVKSLLKSM------GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDD 91 (200)
Q Consensus 32 ~~PrDa~~I~~ILks~------Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eD 91 (200)
.+|.++ |++++... +=..++.++...|..-...|-..+..|.-.||+|||||||+.+|
T Consensus 351 ~lP~~~--vK~la~~~ak~s~~sK~kiskdal~aleqasdwfFeQl~dDL~aYA~HAgRKTIdesD 414 (414)
T PF15511_consen 351 SLPPGV--VKKLAQHFAKSSGGSKMKISKDALEALEQASDWFFEQLGDDLEAYAKHAGRKTIDESD 414 (414)
T ss_dssp -S-HHH--HHHHHHHHH-------S-B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHH
T ss_pred CCCccH--HHHHHHHHHHhhcccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCCCC
Confidence 455543 55555443 22589999999999999999999999999999999999999987
No 27
>KOG4336 consensus TBP-associated transcription factor Prodos [Transcription]
Probab=97.46 E-value=0.00043 Score=63.32 Aligned_cols=63 Identities=27% Similarity=0.401 Sum_probs=60.2
Q ss_pred hhHHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHH
Q 028993 35 RDAKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQ 97 (200)
Q Consensus 35 rDa~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 97 (200)
=++.||..||++.|.+..+.-+..-|++...-|..+|...+..|++||||...+..||.+..-
T Consensus 6 vl~~VV~~Ll~~~gfd~is~~aletlvell~~yi~eigrq~~n~celagRT~pT~~Dv~l~Li 68 (323)
T KOG4336|consen 6 VLAPVVSNLLKTKGFDSISNAALETLVELLQSYIREIGRQLHNYCELAGRTIPTQGDVKLTLI 68 (323)
T ss_pred HHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHH
Confidence 368899999999999999999999999999999999999999999999999999999999873
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=97.44 E-value=0.00077 Score=48.96 Aligned_cols=59 Identities=29% Similarity=0.434 Sum_probs=47.1
Q ss_pred HHHHHHhCCC-cccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 40 VKSLLKSMGV-EDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 40 I~~ILks~Gv-~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
+..+++..+- ...+++|...|+++|..|+.+|+..|..+|+|-|..+|+..||++.++.
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 4566666633 5799999999999999999999999999999999999999999998865
No 29
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=97.18 E-value=0.0007 Score=60.54 Aligned_cols=73 Identities=15% Similarity=0.321 Sum_probs=60.6
Q ss_pred CCChhHHHHHHHHHhC-CCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhcccc
Q 028993 32 DLPRDAKIVKSLLKSM-GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSF 104 (200)
Q Consensus 32 ~~PrDa~~I~~ILks~-Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~F 104 (200)
...---+-|+.+++.. |-+-.+++|...|+|+|..|+.+|..-|..+|+|.+..+|++-||+|.++...+..|
T Consensus 152 ~~il~k~kl~dLvqqId~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhLEr~~Nm~i 225 (258)
T KOG1142|consen 152 NPILSKRKLDDLVQQIDGTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHLERNFNMEI 225 (258)
T ss_pred CccccccchhHHHHhhcCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeeeeccccccC
Confidence 3344445556666665 556789999999999999999999999999999999999999999999988666544
No 30
>KOG2389 consensus Predicted bromodomain transcription factor [Transcription]
Probab=97.04 E-value=0.0066 Score=56.41 Aligned_cols=64 Identities=20% Similarity=0.286 Sum_probs=59.8
Q ss_pred HHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhc
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVN 101 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 101 (200)
-.+.+|..+.|...|..-+.+-|-+++.+|+.++.+.|..|++||||...+..||.+|++.-..
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 31
>PF13654 AAA_32: AAA domain; PDB: 3K1J_B.
Probab=96.24 E-value=0.017 Score=55.79 Aligned_cols=66 Identities=18% Similarity=0.450 Sum_probs=55.4
Q ss_pred hhHHHHHHHHHhCCCcccchHHHHHHHHHHHH-----------HHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhh
Q 028993 35 RDAKIVKSLLKSMGVEDYEPRVIHQFLELWYR-----------YVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 100 (200)
Q Consensus 35 rDa~~I~~ILks~Gv~~yep~Vv~qLLEfayr-----------Yt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 100 (200)
.=+++|..+.++.|.-.++..++..|++++-| ...+||.+|..||...|++.|+++||+.||+.|.
T Consensus 431 ~~~~~i~~~~~~~~L~~~~~~Av~~li~~~~R~~q~kLsl~~~~l~~ll~EA~~~A~~~~~~~I~~~~V~~Ai~~r~ 507 (509)
T PF13654_consen 431 QYARFIASICQKEGLPPFDRSAVARLIEYSARLDQDKLSLRFSWLADLLREANYWARKEGAKVITAEHVEQAIEERR 507 (509)
T ss_dssp HHHHHHHHHHHHHSS--BBHHHHHHHHHHHHHCC-SEEE--HHHHHHHHHHHHHHHHHCT-SSB-HHHHHHHHHH--
T ss_pred HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHhCCEeCCCHHHHHHHHHHHHHHHHHhCCCccCHHHHHHHHHccc
Confidence 34678889999999999999999999999988 5789999999999999999999999999999875
No 32
>KOG3423 consensus Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=96.03 E-value=0.04 Score=46.93 Aligned_cols=77 Identities=22% Similarity=0.319 Sum_probs=62.7
Q ss_pred HHHh-hhhcCCCCCCChhHHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhC--------------C
Q 028993 20 LQKA-EEMAEGDEDLPRDAKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAG--------------K 84 (200)
Q Consensus 20 ~~~~-~~m~~~~~~~PrDa~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAg--------------R 84 (200)
|-++ ..|.+=.-.+|-. |+.-.|+..|++-.++||+..+-=.+..|+++|+.||..|++..+ |
T Consensus 73 l~efl~qLddYtP~IPDa--vt~~yL~~aGf~~~D~rv~RLvsLaAQKfvSDIa~DA~Q~~k~r~~~~~~~~k~~~kdkK 150 (176)
T KOG3423|consen 73 LEEFLAQLDDYTPTIPDA--VTDHYLKKAGFQTSDPRVKRLVSLAAQKFVSDIANDALQHSKIRTKTAIGKDKKQAKDKK 150 (176)
T ss_pred HHHHHHHHhcCCCCCcHH--HHHHHHHhcCCCcCcHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccccccccccc
Confidence 4455 4455555566653 567799999999999999999999999999999999999998654 2
Q ss_pred CCCCHHHHHHHHHH
Q 028993 85 NTIDCDDVKLAVQS 98 (200)
Q Consensus 85 ~tI~~eDVrLAI~~ 98 (200)
-|++.+|+.-|+..
T Consensus 151 ~tLtmeDL~~AL~E 164 (176)
T KOG3423|consen 151 YTLTMEDLSPALAE 164 (176)
T ss_pred eeeeHHHHHHHHHH
Confidence 37899999999866
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=95.89 E-value=0.011 Score=45.05 Aligned_cols=59 Identities=14% Similarity=0.389 Sum_probs=29.4
Q ss_pred HHHHHHhCCC-cccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 40 VKSLLKSMGV-EDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 40 I~~ILks~Gv-~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
|..+|-..|= ..=.++.+..+-|++..|+.+++..|..+|...|++.|+.+|+..+++.
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 3455556654 4667888999999999999999999999999999999999999999865
No 34
>KOG2549 consensus Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=95.87 E-value=0.032 Score=54.79 Aligned_cols=63 Identities=21% Similarity=0.310 Sum_probs=59.3
Q ss_pred HHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHh
Q 028993 37 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSK 99 (200)
Q Consensus 37 a~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r 99 (200)
...|.-+.+++|++...+++...|.+-.+--+.+|.+||..|-.|+.|.+.+.+||..|+.++
T Consensus 14 ~Es~k~vAEslGi~nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~ALr~~ 76 (576)
T KOG2549|consen 14 KESVKVVAESLGITNLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYALRSL 76 (576)
T ss_pred HHHHHHHHHHhCccccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHHHhhc
Confidence 567888999999999999999999998888899999999999999999999999999999985
No 35
>smart00414 H2A Histone 2A.
Probab=95.55 E-value=0.039 Score=43.27 Aligned_cols=62 Identities=15% Similarity=0.104 Sum_probs=56.8
Q ss_pred HHHHHHHHHhCC-CcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 37 AKIVKSLLKSMG-VEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 37 a~~I~~ILks~G-v~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
+--|+++|++.. ..+++..+...|.-.++-.+.+||+-|-.+|...+++.|+..+|.+||..
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 556899999874 67999999999999999999999999999999999999999999999976
No 36
>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=95.50 E-value=0.067 Score=37.27 Aligned_cols=45 Identities=20% Similarity=0.334 Sum_probs=41.7
Q ss_pred HHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHA 82 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HA 82 (200)
.++.-+|+..|.+--+++++..+-=.+++++++|+.||..|++..
T Consensus 6 ~v~~~yL~~~G~~~~D~rv~RLvSLaaQKFisdI~~dA~q~~k~r 50 (51)
T PF03540_consen 6 EVTDYYLERSGFQTSDPRVKRLVSLAAQKFISDIANDAMQYCKIR 50 (51)
T ss_pred HHHHHHHHHCCCCCCCHhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 478889999999999999999999999999999999999999763
No 37
>KOG1745 consensus Histones H3 and H4 [Chromatin structure and dynamics]
Probab=95.46 E-value=0.012 Score=48.40 Aligned_cols=69 Identities=22% Similarity=0.348 Sum_probs=57.5
Q ss_pred CChhHHHHHHHHHhCCC-cccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhcc
Q 028993 33 LPRDAKIVKSLLKSMGV-EDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNS 102 (200)
Q Consensus 33 ~PrDa~~I~~ILks~Gv-~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~ 102 (200)
+|. .+++..|..+.-. -+|.-.++..|-|.++-|..++.+|+...|-||+|-||-..||+||.+.|..+
T Consensus 67 ~PF-qRlvrei~q~f~~dLrfqs~Ai~ALQeA~EayLv~LfEdtnlcAihAkRVTimpkdiQlArrirg~~ 136 (137)
T KOG1745|consen 67 LPF-QRLVREIAQDFKTDLRFQSSAIAALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGER 136 (137)
T ss_pred CcH-HHHhHHHHhcccccceehHHHHHHHHHHHHHHHHHhccccchhhhccceeEecccceehhhhcccCC
Confidence 455 3555555555422 37999999999999999999999999999999999999999999999887653
No 38
>PLN00154 histone H2A; Provisional
Probab=95.07 E-value=0.065 Score=44.08 Aligned_cols=64 Identities=14% Similarity=0.008 Sum_probs=58.7
Q ss_pred hhHHHHHHHHHhCC--CcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 35 RDAKIVKSLLKSMG--VEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 35 rDa~~I~~ILks~G--v~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
-=+--|+++|++-. ..+++..+...|...++-.+.+||+-|-.+|...+++.|+...|.|||..
T Consensus 39 FPVgRi~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lAIrn 104 (136)
T PLN00154 39 FPVGRIHRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 104 (136)
T ss_pred CchHHHHHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhhccC
Confidence 33677999999975 67999999999999999999999999999999999999999999999965
No 39
>PTZ00017 histone H2A; Provisional
Probab=94.23 E-value=0.11 Score=42.66 Aligned_cols=63 Identities=16% Similarity=0.081 Sum_probs=57.1
Q ss_pred hHHHHHHHHHhC-CCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 36 DAKIVKSLLKSM-GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 36 Da~~I~~ILks~-Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
-+--|+++|++. -..+++..++..|.-.++-.+.+||+-|-.+|...+++.|+..+|.+||..
T Consensus 29 PVgRi~R~Lk~g~~a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~RItPrHi~lAI~n 92 (134)
T PTZ00017 29 PVGRVHRYLKKGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLAIRN 92 (134)
T ss_pred chHHHHHHHhccchhccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHhhccC
Confidence 366799999886 456999999999999999999999999999999999999999999999965
No 40
>PTZ00463 histone H2B; Provisional
Probab=93.74 E-value=0.3 Score=39.36 Aligned_cols=62 Identities=10% Similarity=0.176 Sum_probs=52.0
Q ss_pred HHHHHHHhCCC-cccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhh
Q 028993 39 IVKSLLKSMGV-EDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 100 (200)
Q Consensus 39 ~I~~ILks~Gv-~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 100 (200)
-|.++|+..-- ...+.++..-|--|.+.....|..+|..+|.+.+|.||+..+|+.|+...+
T Consensus 33 YI~KVLKqVhPd~gIS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAvrLlL 95 (117)
T PTZ00463 33 YIFKVLKQVHPDTGISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAIRLVL 95 (117)
T ss_pred HHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHhhcc
Confidence 46666665411 135888999999999999999999999999999999999999999998755
No 41
>PLN00158 histone H2B; Provisional
Probab=93.69 E-value=0.33 Score=39.05 Aligned_cols=63 Identities=13% Similarity=0.148 Sum_probs=52.5
Q ss_pred HHHHHHHHhCCC-cccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhh
Q 028993 38 KIVKSLLKSMGV-EDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 100 (200)
Q Consensus 38 ~~I~~ILks~Gv-~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 100 (200)
..|.++||..-- ...+..+..-|--|.+.....|..+|..+|.+.+|.||+..+|+-|+...+
T Consensus 31 ~YI~kVLKQVhPd~gIS~kaM~ImnSfvnDiferIA~EAs~La~~nkr~TltsrEIqtAvrLvL 94 (116)
T PLN00158 31 IYIYKVLKQVHPDTGISSKAMSIMNSFINDIFEKIATEAGKLARYNKKPTVTSREIQTAVRLIL 94 (116)
T ss_pred HHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHHhc
Confidence 346677765411 135888889999999999999999999999999999999999999998755
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=93.67 E-value=0.53 Score=35.96 Aligned_cols=58 Identities=9% Similarity=0.327 Sum_probs=48.0
Q ss_pred HHHHHHhCCCc-ccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 40 VKSLLKSMGVE-DYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 40 I~~ILks~Gv~-~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
|..+|--.|=. .=.++.+..|=|....|..+++..|...|. .++..|+.||+..+|..
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 45566666644 557788888999999999999999999998 78888899999999954
No 43
>PLN00157 histone H2A; Provisional
Probab=92.93 E-value=0.22 Score=40.82 Aligned_cols=63 Identities=16% Similarity=0.055 Sum_probs=56.9
Q ss_pred hHHHHHHHHHhC-CCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 36 DAKIVKSLLKSM-GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 36 Da~~I~~ILks~-Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
-+--|+++|++. -..+++..++..|.-.++-.+.+||+-|-..|...+++.|+...|.+||..
T Consensus 28 PVgRi~R~Lk~g~~a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~n 91 (132)
T PLN00157 28 PVGRIARYLKAGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRIVPRHIQLAVRN 91 (132)
T ss_pred chHHHHHHHhcCchhhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHhhcccC
Confidence 367799999885 346899999999999999999999999999999999999999999999965
No 44
>smart00427 H2B Histone H2B.
Probab=92.93 E-value=0.58 Score=35.99 Aligned_cols=62 Identities=11% Similarity=0.160 Sum_probs=51.1
Q ss_pred HHHHHHHhCCC-cccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhh
Q 028993 39 IVKSLLKSMGV-EDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 100 (200)
Q Consensus 39 ~I~~ILks~Gv-~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 100 (200)
-|.++||...- ...+-++..-+--|.......|..+|..++...+|.||+..+|+.|+...+
T Consensus 6 Yi~kvLKqVhpd~giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~TltsreIqtAvrl~L 68 (89)
T smart00427 6 YIYKVLKQVHPDTGISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLSSREIQTAVRLIL 68 (89)
T ss_pred HHHHHHHHhCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHHHc
Confidence 35555554411 136788888899999999999999999999999999999999999998865
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=92.44 E-value=0.61 Score=45.97 Aligned_cols=64 Identities=14% Similarity=0.175 Sum_probs=54.2
Q ss_pred HHHHHHHHHhCC-CcccchHHHHHHHHHHH-------------HHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhh
Q 028993 37 AKIVKSLLKSMG-VEDYEPRVIHQFLELWY-------------RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 100 (200)
Q Consensus 37 a~~I~~ILks~G-v~~yep~Vv~qLLEfay-------------rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 100 (200)
+++|...++..| ...++++++..|++++. |...+|+..|..+|+..|+..|+.+||+-|++.+.
T Consensus 315 ~~~i~~~~~r~G~l~~~s~~Av~~Li~~~~R~ag~r~~lsl~~R~L~~llR~A~~iA~~~~~~~I~~ehV~~Ai~~~~ 392 (608)
T TIGR00764 315 VQFVAQEVKKDGRIPHFTRDAVEEIVREAQRRAGRKDHLTLRLRELGGLVRAAGDIAKSSGKVYVTAEHVLKAKKLAK 392 (608)
T ss_pred HHHHHHHHHHhCCCCcCCHHHHHHHHHHHHHHHhcccccCCCHHHHHHHHHHHHHHHHhcCCceecHHHHHHHHHHHH
Confidence 566777777775 66899999999999877 45678999998889888999999999999998865
No 46
>KOG1756 consensus Histone 2A [Chromatin structure and dynamics]
Probab=92.43 E-value=0.38 Score=39.39 Aligned_cols=62 Identities=13% Similarity=0.101 Sum_probs=57.0
Q ss_pred HHHHHHHHHh-CCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 37 AKIVKSLLKS-MGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 37 a~~I~~ILks-~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
+--|+++|++ -.+.+++-.++..|.-.++..+.+||+-|-..|+-.++..|...-|+|||..
T Consensus 30 vgri~r~Lr~~~~~~ri~~gapV~laavLeYL~Aeile~agnaardnkk~ri~PrH~~lAI~N 92 (131)
T KOG1756|consen 30 VGRIHRLLRKGRYAQRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRITPRHLQLAIRN 92 (131)
T ss_pred HHHHHHHHHccchhhhccCCChHHHHHHHHHHHHHHHHHhHHHhhhcCccccChHHHHHHHhC
Confidence 4478999999 5788999999999999999999999999999999999999999999999975
No 47
>PLN00156 histone H2AX; Provisional
Probab=92.30 E-value=0.39 Score=39.69 Aligned_cols=63 Identities=19% Similarity=0.096 Sum_probs=57.1
Q ss_pred hHHHHHHHHHhC-CCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 36 DAKIVKSLLKSM-GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 36 Da~~I~~ILks~-Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
-+--|+++|++. -..+++..++..|.-.++-.+.+||+-|-..|...+++.|+...|.|||..
T Consensus 31 PVgRi~R~Lk~g~ya~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi~lAIrn 94 (139)
T PLN00156 31 PVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRN 94 (139)
T ss_pred chHHHHHHHhcCChhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHhhccC
Confidence 467789999886 356899999999999999999999999999999999999999999999966
No 48
>PLN00153 histone H2A; Provisional
Probab=91.90 E-value=0.42 Score=39.03 Aligned_cols=63 Identities=17% Similarity=0.085 Sum_probs=56.6
Q ss_pred hHHHHHHHHHhC-CCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 36 DAKIVKSLLKSM-GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 36 Da~~I~~ILks~-Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
-+--|+++|++. -..+++..++..|.-.++-.+.+||+-|-..|...+++.|+...|.|||..
T Consensus 26 pVgRi~R~Lr~g~~a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~n 89 (129)
T PLN00153 26 PVGRIARYLKKGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVPRHIQLAIRN 89 (129)
T ss_pred chHHHHHHHhcCchhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccChHHHHhhccC
Confidence 366789999875 446899999999999999999999999999999999999999999999966
No 49
>KOG0869 consensus CCAAT-binding factor, subunit A (HAP3) [Transcription]
Probab=91.44 E-value=0.58 Score=39.69 Aligned_cols=78 Identities=15% Similarity=0.164 Sum_probs=62.2
Q ss_pred HHHHHHhC--CCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhccccCCCCcHHHHHHHH
Q 028993 40 VKSLLKSM--GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFSQPPAREVLLELA 117 (200)
Q Consensus 40 I~~ILks~--Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~F~~pPpre~LlelA 117 (200)
|.||+|+. .=-.++.++...+-|-+-+|.+=|-.+|..-+.--.||||+.|||-.|+.. ++|....-|-+=+|..+=
T Consensus 38 V~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~t-LGFe~Y~eplkiyL~kYR 116 (168)
T KOG0869|consen 38 VSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMST-LGFENYAEPLKIYLQKYR 116 (168)
T ss_pred HHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHHH-cCcHhHHHHHHHHHHHHH
Confidence 44455543 112588999999999999999999999999999999999999999999955 887666666677777664
Q ss_pred H
Q 028993 118 K 118 (200)
Q Consensus 118 ~ 118 (200)
.
T Consensus 117 e 117 (168)
T KOG0869|consen 117 E 117 (168)
T ss_pred H
Confidence 4
No 50
>PTZ00252 histone H2A; Provisional
Probab=90.67 E-value=0.76 Score=37.82 Aligned_cols=65 Identities=14% Similarity=0.021 Sum_probs=55.6
Q ss_pred ChhHHHHHHHHHhCC-CcccchHHHHHHHHHHHHHHHHHHHHHHHHHhh--hCCCCCCHHHHHHHHHH
Q 028993 34 PRDAKIVKSLLKSMG-VEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEH--AGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 34 PrDa~~I~~ILks~G-v~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~H--AgR~tI~~eDVrLAI~~ 98 (200)
---+--|++.|+... ..+++..++..|.-.++-.+.+||+-|-..|.. .+++.|+...|.|||..
T Consensus 25 ~FPVgRi~R~Lr~g~ya~RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~kk~RItPrHi~lAIrN 92 (134)
T PTZ00252 25 IFPVGRVGSLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPKRLTPRTVTLAVRH 92 (134)
T ss_pred cCchHHHHHHHHcCCcccccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccccHHHHHhhccC
Confidence 334677899998875 469999999999999999999999999998864 45678999999999976
No 51
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]
Probab=90.48 E-value=0.73 Score=37.52 Aligned_cols=62 Identities=18% Similarity=0.071 Sum_probs=57.0
Q ss_pred HHHHHHHHH-hCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 37 AKIVKSLLK-SMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 37 a~~I~~ILk-s~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
+--|++||| ..+..++..++...|.-.++-.+.+||+-|-..|+--+++.|..--+.|||..
T Consensus 29 vgrvkr~lk~~~~~~Rig~~A~Vyl~AvleYL~aEilelAgNaA~d~kkkri~PrHlqlAIrn 91 (132)
T COG5262 29 VGRVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIPRHLQLAIRN 91 (132)
T ss_pred HHHHHHHHHcCccceeecCCcHHHHHHHHHHHHHHHHHHhhhhhhhcCcceechHHHHHHhcC
Confidence 566899999 55788999999999999999999999999999999999999999999999965
No 52
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=89.92 E-value=2 Score=38.44 Aligned_cols=66 Identities=24% Similarity=0.349 Sum_probs=52.1
Q ss_pred CChhHHHHHHHHHh---CCC--cccchHHHHHHHHHH------HHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 33 LPRDAKIVKSLLKS---MGV--EDYEPRVIHQFLELW------YRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 33 ~PrDa~~I~~ILks---~Gv--~~yep~Vv~qLLEfa------yrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
-|-+..-+..||+. .|. ..++++++..+.+++ .|++..++..|..+|...|+.+|+.+||+-|+..
T Consensus 205 ~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~~~I~~~~v~~a~~~ 281 (394)
T PRK00411 205 PPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRKVTEEDVRKAYEK 281 (394)
T ss_pred CCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHH
Confidence 35555555555553 232 358999999999998 7888899999999999999999999999999976
No 53
>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=89.02 E-value=1.4 Score=37.63 Aligned_cols=61 Identities=18% Similarity=0.195 Sum_probs=50.9
Q ss_pred HHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCC------CCCCHHHHHHHHH
Q 028993 37 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGK------NTIDCDDVKLAVQ 97 (200)
Q Consensus 37 a~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR------~tI~~eDVrLAI~ 97 (200)
.+.|..|++..|+..++++++..|...++.|...|+.++...|+|--. ..+-..||+--+.
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 678999999999999999999999999999999999999999999622 2333466665443
No 54
>KOG0870 consensus DNA polymerase epsilon, subunit D [Transcription]
Probab=88.85 E-value=1.8 Score=36.98 Aligned_cols=82 Identities=20% Similarity=0.236 Sum_probs=59.5
Q ss_pred CCChhH--HHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhccccCCCCc
Q 028993 32 DLPRDA--KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFSQPPA 109 (200)
Q Consensus 32 ~~PrDa--~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~F~~pPp 109 (200)
.+|+-+ |+|..+|....+ .++-++...+..-|-=|+.-+..=|..+|.-++|+||+++||--|+.. ++|+-.-.|=
T Consensus 10 ~lP~AiI~rlvke~l~E~~v-sisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~E-iefs~f~~pl 87 (172)
T KOG0870|consen 10 NLPNAIITRLVKEVLPESNV-SISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALDE-IEFSSFVNPL 87 (172)
T ss_pred hccHHHHHHHHHHhCccccc-cccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHHH-hchHHHhhHH
Confidence 456521 333344443323 378899999999999999999999999999999999999999999987 5554444455
Q ss_pred HHHHHH
Q 028993 110 REVLLE 115 (200)
Q Consensus 110 re~Lle 115 (200)
++.|=.
T Consensus 88 k~~Le~ 93 (172)
T KOG0870|consen 88 KSALEA 93 (172)
T ss_pred HHHHHH
Confidence 555433
No 55
>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=88.05 E-value=2.4 Score=35.66 Aligned_cols=61 Identities=8% Similarity=0.080 Sum_probs=49.6
Q ss_pred HHHHHHHHhCCC---cccchHHHHHHHHHHHH---HHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 38 KIVKSLLKSMGV---EDYEPRVIHQFLELWYR---YVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 38 ~~I~~ILks~Gv---~~yep~Vv~qLLEfayr---Yt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
.++...|+..|. ..++++++..|.+++.- ++..++..|...|--.|.+.|+.++|+.|+..
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 456667777775 36999999999998874 77777888877777778999999999999976
No 56
>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=87.43 E-value=8.2 Score=33.41 Aligned_cols=81 Identities=15% Similarity=0.099 Sum_probs=57.1
Q ss_pred HHHHHHHhCCCcccchHHHHHHHHHHHHH---HHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhccccCCCCcHH--HH
Q 028993 39 IVKSLLKSMGVEDYEPRVIHQFLELWYRY---VVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFSQPPARE--VL 113 (200)
Q Consensus 39 ~I~~ILks~Gv~~yep~Vv~qLLEfayrY---t~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~F~~pPpre--~L 113 (200)
++..+++..|+ .++++++..|.+.+..+ +..++..+..+|...+...|+.+.|+-++.. ++..+..-++++ +|
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 33444445565 58999999999987644 4556666666776667778999999999987 666677777777 66
Q ss_pred HHHHHhhc
Q 028993 114 LELAKNRN 121 (200)
Q Consensus 114 lelA~e~N 121 (200)
..++....
T Consensus 245 ~al~~~~~ 252 (305)
T TIGR00635 245 SVLIEQFQ 252 (305)
T ss_pred HHHHHHhC
Confidence 65655443
No 57
>PRK05574 holA DNA polymerase III subunit delta; Reviewed
Probab=87.17 E-value=3.2 Score=36.22 Aligned_cols=64 Identities=14% Similarity=0.185 Sum_probs=53.2
Q ss_pred HHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhc
Q 028993 37 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVN 101 (200)
Q Consensus 37 a~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 101 (200)
..+|...+++.|+. +++++...|++...-=...+..+...++-.+|.+.|+.+||+..+....+
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 67899999999986 99999999999998777777888888887775445999999988766443
No 58
>COG5162 Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=85.99 E-value=3.7 Score=35.32 Aligned_cols=54 Identities=24% Similarity=0.300 Sum_probs=45.5
Q ss_pred hcCCCCCCChhHHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 028993 26 MAEGDEDLPRDAKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEH 81 (200)
Q Consensus 26 m~~~~~~~PrDa~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~H 81 (200)
|.+-.-.+|. + ++.--|...|..-.+++|..-|-=.++.++++|+.||-.|++.
T Consensus 82 mDsy~PliPd-~-v~DYyl~k~Gf~~~D~rvKkLl~L~aqKFvsDiA~dayqYsrI 135 (197)
T COG5162 82 MDSYTPLIPD-S-VTDYYLEKAGFVTSDQRVKKLLSLLAQKFVSDIAVDAYQYSRI 135 (197)
T ss_pred cccCCCCccH-H-HHHHHHHhcCceeccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5555444553 3 6888899999999999999999999999999999999999875
No 59
>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=85.52 E-value=1.5 Score=38.56 Aligned_cols=61 Identities=16% Similarity=0.188 Sum_probs=34.4
Q ss_pred HHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCC------CCCHHHHHHHHH
Q 028993 37 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKN------TIDCDDVKLAVQ 97 (200)
Q Consensus 37 a~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~------tI~~eDVrLAI~ 97 (200)
.+.|..|.+.+|+..++++++..|---++.|..+|++++..+|.|--.. ..-..||+-.+.
T Consensus 50 ~~~i~~i~~~~g~~~~~~d~l~llS~A~e~rLr~lie~~~~~s~hR~~~~~~~~~~~~~sdv~~qlr 116 (264)
T PF05236_consen 50 QKRIQKIAKKHGLKSVDEDVLELLSLATEERLRNLIEKAIVLSRHRRDSSKSDPRYEIRSDVRKQLR 116 (264)
T ss_dssp HHHHHHHHHCTT--EE-TCHHHHHHHHHHHHHHHHHHHHH---------------------------
T ss_pred HHHHHHHHHHcCCcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCCCcccccchHHHHHHH
Confidence 3567888999999999999999999999999999999999999996432 122456655443
No 60
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=85.22 E-value=3.2 Score=39.25 Aligned_cols=61 Identities=21% Similarity=0.469 Sum_probs=52.1
Q ss_pred HHHHHHHHhCCCcccchHHHHHHH-HHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHh
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFL-ELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSK 99 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLL-EfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r 99 (200)
..|..+-.+.|+....+++...|. |+-|| ..+|.++|..|-.|..|..++.+||--|..++
T Consensus 9 et~KdvAeslGi~Ni~Dd~l~alamDlEYR-I~ev~qea~KFmvhSKRtvLt~dDis~ALr~l 70 (450)
T COG5095 9 ETLKDVAESLGISNIDDDALRALAMDLEYR-IKEVCQEASKFMVHSKRTVLTIDDISYALRSL 70 (450)
T ss_pred HHHHHHHHHcCCcccccHHHHHHHHhHHHH-HHHHHHHHHHHhhcccceeeeHHhHHHHHHhc
Confidence 356677888999999999988875 45555 67899999999999999999999999999884
No 61
>COG1067 LonB Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]
Probab=85.04 E-value=2.5 Score=42.47 Aligned_cols=75 Identities=15% Similarity=0.199 Sum_probs=60.6
Q ss_pred hcCCCCCCChhHHHHHHHHHhC-CCcccchHHHHHHHHHHHHHH-------------HHHHHHHHHHHhhhCCCCCCHHH
Q 028993 26 MAEGDEDLPRDAKIVKSLLKSM-GVEDYEPRVIHQFLELWYRYV-------------VDVLTDAQVYSEHAGKNTIDCDD 91 (200)
Q Consensus 26 m~~~~~~~PrDa~~I~~ILks~-Gv~~yep~Vv~qLLEfayrYt-------------~~VL~DA~~yA~HAgR~tI~~eD 91 (200)
|...+.+.-+.++++.+-+..- ++-.++..++..|...+.|++ ..++..|-.+|.-.|++-|+++|
T Consensus 312 m~~~~~nr~k~~~~~~q~v~~d~~ip~~~~~Av~~li~~a~R~Ag~~~~Ltl~~rdl~~lv~~A~~ia~~~~~~~I~ae~ 391 (647)
T COG1067 312 MPITDANRSKLVQFYVQELARDGNIPHLDKDAVEELIREAARRAGDQNKLTLRLRDLGNLVREAGDIAVSEGRKLITAED 391 (647)
T ss_pred CCCChHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhccccceeccCHHHHHHHHHHhhHHHhcCCcccCcHHH
Confidence 3333344446677776666666 999999999999999999876 46888888999999999999999
Q ss_pred HHHHHHHhh
Q 028993 92 VKLAVQSKV 100 (200)
Q Consensus 92 VrLAI~~r~ 100 (200)
|+.|++.+.
T Consensus 392 Ve~a~~~~~ 400 (647)
T COG1067 392 VEEALQKRE 400 (647)
T ss_pred HHHHHHhhh
Confidence 999998844
No 62
>PF15127 DUF4565: Protein of unknown function (DUF4565)
Probab=84.63 E-value=0.99 Score=34.96 Aligned_cols=66 Identities=18% Similarity=0.204 Sum_probs=41.6
Q ss_pred cCCCCCCChhHHHHHHhhhhcCCCCCCChhHHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHH
Q 028993 7 WGNPASFPSTVNLLQKAEEMAEGDEDLPRDAKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQV 77 (200)
Q Consensus 7 ~~~~~~~p~~~~~~~~~~~m~~~~~~~PrDa~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~ 77 (200)
--++-.||.|.++-+. -++.+..+|-+.-+ ...+.-+-..-++.+-.-+||||+|...+||.||+.
T Consensus 6 SKqtfpfptt~e~ek~---~~sEe~~mpee~~~--~~~~ee~~~~~~~~a~~vvlEyA~rLSqEIl~dAlq 71 (91)
T PF15127_consen 6 SKQTFPFPTTIESEKR---HESEESFMPEERCL--VQVSEEVKEPPSPGASPVVLEYAHRLSQEILSDALQ 71 (91)
T ss_pred cCCcCCCccHHHhhcc---CccccccCccccce--ecccccccCCCCCCCCchhHHHHHHHHHHHHHHHHH
Confidence 3455567777744332 22444466766654 112233333455666678999999999999999986
No 63
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=84.44 E-value=9.7 Score=33.88 Aligned_cols=81 Identities=16% Similarity=0.154 Sum_probs=58.6
Q ss_pred HHHHHHHhCCCcccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhccccC--CCCcHHHH
Q 028993 39 IVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFS--QPPAREVL 113 (200)
Q Consensus 39 ~I~~ILks~Gv~~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~F~--~pPpre~L 113 (200)
++.+.++..|+. ++++++..+++.+. |.+..+|..+..+|...+...|+.++|+.++.. ++..+. .+-.+++|
T Consensus 188 il~~~~~~~~~~-~~~~~~~~ia~~~~G~pR~a~~~l~~~~~~a~~~~~~~I~~~~v~~~l~~-~~~~~~~l~~~~~~~l 265 (328)
T PRK00080 188 IVKRSARILGVE-IDEEGALEIARRSRGTPRIANRLLRRVRDFAQVKGDGVITKEIADKALDM-LGVDELGLDEMDRKYL 265 (328)
T ss_pred HHHHHHHHcCCC-cCHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH-hCCCcCCCCHHHHHHH
Confidence 445555556655 89999999998884 668888888888887767789999999999965 443333 33556777
Q ss_pred HHHHHhhc
Q 028993 114 LELAKNRN 121 (200)
Q Consensus 114 lelA~e~N 121 (200)
..++...+
T Consensus 266 ~~~~~~~~ 273 (328)
T PRK00080 266 RTIIEKFG 273 (328)
T ss_pred HHHHHHcC
Confidence 66766544
No 64
>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=83.93 E-value=4 Score=39.48 Aligned_cols=60 Identities=17% Similarity=0.304 Sum_probs=47.3
Q ss_pred HHHHHHHHhCCCcccchHHHHHHHHHHH--HHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFLELWY--RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLLEfay--rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
.++...++..|+ .++++++..|..++. |++..+++.|..+|..-++..|+.+||.-++..
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 345556667775 489999988776654 778888888888887778899999999999854
No 65
>TIGR01128 holA DNA polymerase III, delta subunit. subunit around DNA forming a DNA sliding clamp.
Probab=83.67 E-value=6.4 Score=33.68 Aligned_cols=64 Identities=19% Similarity=0.312 Sum_probs=49.8
Q ss_pred HHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhc
Q 028993 37 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVN 101 (200)
Q Consensus 37 a~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 101 (200)
.++|...+++.|+. +++.++..|++.+.-=+..+..+...++-.+|.+.|+.+||+..+.....
T Consensus 117 ~~~i~~~~~~~g~~-i~~~a~~~l~~~~~~d~~~l~~el~KL~~~~~~~~It~e~I~~~~~~~~~ 180 (302)
T TIGR01128 117 PRWIQARLKKLGLR-IDPDAVQLLAELVEGNLLAIAQELEKLALYAPDGKITLEDVEEAVSDSAR 180 (302)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHhCcHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHhhhhc
Confidence 44888899999977 99999999999887656666666666666666668999999988765444
No 66
>PRK07452 DNA polymerase III subunit delta; Validated
Probab=83.34 E-value=4.5 Score=35.60 Aligned_cols=61 Identities=16% Similarity=0.226 Sum_probs=53.0
Q ss_pred HHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhh--CCCCCCHHHHHHHHHH
Q 028993 37 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHA--GKNTIDCDDVKLAVQS 98 (200)
Q Consensus 37 a~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HA--gR~tI~~eDVrLAI~~ 98 (200)
.++|...++..|++ +++++...|++.+--=...+..+...++-++ ++..|+.+||+..+..
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 68899999999988 9999999999999888888888888888885 3668999999987743
No 67
>KOG1744 consensus Histone H2B [Chromatin structure and dynamics]
Probab=82.81 E-value=4.6 Score=33.00 Aligned_cols=59 Identities=12% Similarity=0.218 Sum_probs=46.3
Q ss_pred HHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhh
Q 028993 39 IVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 100 (200)
Q Consensus 39 ~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 100 (200)
++...=-+.| .+.++..-+--|.+.....|+.+|-.||...+|.||+..+|+.|+..-+
T Consensus 46 vlk~Vhpd~g---is~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta~rLll 104 (127)
T KOG1744|consen 46 VLKQVHPDLG---ISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTAVRLLL 104 (127)
T ss_pred hhhcccCCCC---cCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHHHHHhC
Confidence 3344434455 5566666677777888999999999999999999999999999997743
No 68
>COG1466 HolA DNA polymerase III, delta subunit [DNA replication, recombination, and repair]
Probab=82.04 E-value=5.1 Score=36.09 Aligned_cols=63 Identities=19% Similarity=0.289 Sum_probs=54.6
Q ss_pred HHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhc
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVN 101 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 101 (200)
++|...++++|+. ++++++..|++-..-=...+..+-..++-.++.+.|+.+||+.++.....
T Consensus 147 ~~i~~~~~~~~l~-i~~~a~~~L~~~~~~nl~~i~~Ei~KL~l~~~~~~I~~~~V~~~v~~~~~ 209 (334)
T COG1466 147 QWIKKRAKELGLK-IDQEAIQLLLEALGGNLLAIAQEIEKLALYAGDKEITLEDVEEVVSDVAE 209 (334)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCCcCCHHHHHHHHhcccc
Confidence 5888899999977 99999999999998888888888888888888779999999999965443
No 69
>PRK06585 holA DNA polymerase III subunit delta; Reviewed
Probab=81.76 E-value=4.1 Score=36.22 Aligned_cols=64 Identities=19% Similarity=0.208 Sum_probs=51.8
Q ss_pred HHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhC-CCCCCHHHHHHHHHHhhc
Q 028993 37 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAG-KNTIDCDDVKLAVQSKVN 101 (200)
Q Consensus 37 a~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAg-R~tI~~eDVrLAI~~r~~ 101 (200)
.++|...++..|+. .++++...|++.+.-=...+..+-..++-++| ++.|+.+||+..+....+
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 46899999999987 99999999999998777777777777777765 468999999877655433
No 70
>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=79.69 E-value=14 Score=32.73 Aligned_cols=67 Identities=24% Similarity=0.237 Sum_probs=49.1
Q ss_pred CCChhHHHHHHHHHhC---C--CcccchHHHHHHHHHHH------HHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 32 DLPRDAKIVKSLLKSM---G--VEDYEPRVIHQFLELWY------RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 32 ~~PrDa~~I~~ILks~---G--v~~yep~Vv~qLLEfay------rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
.-|-+..-+..||+.. + -..++++++..+.+++. |++.+++..|..+|.-.|+..|+.+||+-|+..
T Consensus 196 f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~~a~~~~~~~it~~~v~~a~~~ 273 (365)
T TIGR02928 196 FPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVAGEIAEREGAERVTEDHVEKAQEK 273 (365)
T ss_pred eCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 3455555555555432 1 12488888888777774 788889999998888888899999999998865
No 71
>PRK07914 hypothetical protein; Reviewed
Probab=79.28 E-value=5.1 Score=35.67 Aligned_cols=66 Identities=14% Similarity=0.241 Sum_probs=51.8
Q ss_pred Chh-HHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhc
Q 028993 34 PRD-AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVN 101 (200)
Q Consensus 34 PrD-a~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 101 (200)
+++ .+||...+++.|++ .+++++..|++....-...+..+...++-+.| +.|+.+||+-.+.....
T Consensus 130 ~~~l~~wi~~~a~~~g~~-i~~~A~~~L~~~~g~dl~~l~~EleKL~~~~~-~~It~e~V~~~v~~~~~ 196 (320)
T PRK07914 130 AAERADFVRKEFRSLRVK-VDDDTVTALLDAVGSDLRELASACSQLVADTG-GAVDAAAVRRYHSGKAE 196 (320)
T ss_pred HHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHCccHHHHHHHHHHHhcCCC-CCcCHHHHHHHcCCCee
Confidence 344 67999999999988 99999999999987666666666666655555 57999999988765444
No 72
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=78.96 E-value=6.3 Score=34.22 Aligned_cols=58 Identities=12% Similarity=0.131 Sum_probs=41.6
Q ss_pred HHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHH
Q 028993 37 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQ 97 (200)
Q Consensus 37 a~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 97 (200)
..++..+++..|+. +++++...|++.+..-...++.....++ .+...|+.+||+.++.
T Consensus 190 ~~~l~~~~~~~~~~-~~~~al~~l~~~~~gdlr~l~~~l~~~~--~~~~~It~~~v~~~~~ 247 (337)
T PRK12402 190 VDVLESIAEAEGVD-YDDDGLELIAYYAGGDLRKAILTLQTAA--LAAGEITMEAAYEALG 247 (337)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHH--HcCCCCCHHHHHHHhC
Confidence 34566677778986 9999999999888655555555555444 2345799999998765
No 73
>PRK05907 hypothetical protein; Provisional
Probab=78.61 E-value=5.3 Score=36.25 Aligned_cols=63 Identities=17% Similarity=0.300 Sum_probs=52.7
Q ss_pred HHHHHHHHHhCCCcccchHHHHHHHHHH-HHHHHHHHHHHHHHHhhhC-CCCCCHHHHHHHHHHhh
Q 028993 37 AKIVKSLLKSMGVEDYEPRVIHQFLELW-YRYVVDVLTDAQVYSEHAG-KNTIDCDDVKLAVQSKV 100 (200)
Q Consensus 37 a~~I~~ILks~Gv~~yep~Vv~qLLEfa-yrYt~~VL~DA~~yA~HAg-R~tI~~eDVrLAI~~r~ 100 (200)
.+||...++..|.+ .++.++..|++.. +--...+..+-..++-++| ++.|+.+||+..+....
T Consensus 140 ~~Wi~~~~~~~g~~-i~~~a~~~L~~~~~~~nL~~l~~EleKL~ly~g~~~~It~e~V~~lv~~s~ 204 (311)
T PRK05907 140 AQLLIQRAKELGIS-CSLGLASLFVSKFPQTGLFEILSEFQKLLCQMGKKESLEASDIQSFVVKKE 204 (311)
T ss_pred HHHHHHHHHHcCCC-cCHHHHHHHHHHccCCCHHHHHHHHHHHHHhcCCCCeECHHHHHHHhcCcc
Confidence 78999999999976 9999999999977 6677788888888888866 77899999998865433
No 74
>PRK08487 DNA polymerase III subunit delta; Validated
Probab=78.25 E-value=7.3 Score=34.87 Aligned_cols=61 Identities=8% Similarity=0.124 Sum_probs=50.1
Q ss_pred HHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhh
Q 028993 37 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 100 (200)
Q Consensus 37 a~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 100 (200)
.+||...++.+|++ .+++++..|++.+.--...+-.+-..++-+.| .|+.+||...+....
T Consensus 141 ~~~i~~~~~~~g~~-i~~~a~~~L~~~~g~dl~~l~~ELeKL~ly~~--~It~edV~~~v~~~~ 201 (328)
T PRK08487 141 LELLQERAKELGLD-IDQNALNHLYFIHNEDLALAANELEKLAILNE--PITLKDIQELVFGLG 201 (328)
T ss_pred HHHHHHHHHHhCCC-CCHHHHHHHHHHhCcHHHHHHHHHHHHHHhcC--CCCHHHHHHHhcccc
Confidence 56999999999988 99999999999988777777677766666655 699999999875433
No 75
>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=78.13 E-value=19 Score=27.14 Aligned_cols=59 Identities=15% Similarity=0.234 Sum_probs=49.4
Q ss_pred HHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCC---CCCCHHHHHHHHH
Q 028993 39 IVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGK---NTIDCDDVKLAVQ 97 (200)
Q Consensus 39 ~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR---~tI~~eDVrLAI~ 97 (200)
.|.+|+...--+.+++.|+..|--++.-|+.+|.+.|+...+.-|. +-|..+.|+.|..
T Consensus 21 ~iKr~~~~~~~~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~HireA~r 82 (85)
T cd08048 21 AIKRLIQSVTGQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHLREAYR 82 (85)
T ss_pred HHHHHHHHHcCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHHHHHHH
Confidence 4566666553388999999999999999999999999999887665 7789999998875
No 76
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.
Probab=78.04 E-value=6.5 Score=34.53 Aligned_cols=55 Identities=15% Similarity=0.227 Sum_probs=38.8
Q ss_pred HHHHHHHHhCCCcccchHHHHHHHHHHHH---HHHHHHHHHHHHHhhhCCCCCCHHHHHHHHH
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFLELWYR---YVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQ 97 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLLEfayr---Yt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 97 (200)
.+|..+++..|+. +++.++..|++++.. .+...++.+..| ++ +.|+.+||+-++.
T Consensus 183 ~~l~~~~~~~g~~-i~~~a~~~l~~~~~g~~~~a~~~lekl~~~---~~-~~it~~~v~~~~~ 240 (355)
T TIGR02397 183 ERLKKILDKEGIK-IEDEALELIARAADGSLRDALSLLDQLISF---GN-GNITYEDVNELLG 240 (355)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHcCCChHHHHHHHHHHHhh---cC-CCCCHHHHHHHhC
Confidence 4667777788975 899999999998864 444444444444 34 3599999987653
No 77
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=74.74 E-value=9.2 Score=38.31 Aligned_cols=50 Identities=10% Similarity=0.125 Sum_probs=43.9
Q ss_pred CCcccchHHHHHHHHHHHHHHH-------------HHHHHHHHHHhhhCCCCCCHHHHHHHHH
Q 028993 48 GVEDYEPRVIHQFLELWYRYVV-------------DVLTDAQVYSEHAGKNTIDCDDVKLAVQ 97 (200)
Q Consensus 48 Gv~~yep~Vv~qLLEfayrYt~-------------~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 97 (200)
+...++++++..|++++.|.+. +++..|-.+|...|++.|+.+||.-|+.
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 78
>PRK05629 hypothetical protein; Validated
Probab=74.29 E-value=11 Score=33.57 Aligned_cols=65 Identities=20% Similarity=0.265 Sum_probs=49.2
Q ss_pred Chh-HHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhh
Q 028993 34 PRD-AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 100 (200)
Q Consensus 34 PrD-a~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 100 (200)
+++ .+||...+++.|.+ .+++++..|++.+-.=...+-.+-..++-+.| +.|+.+||+..+....
T Consensus 128 ~~~l~~wi~~~~~~~g~~-i~~~A~~~L~~~~g~dl~~l~~EleKL~~~~~-~~It~e~V~~~v~~~~ 193 (318)
T PRK05629 128 PRERPGWVTQEFKNHGVR-PTPDVVHALLEGVGSDLRELASAISQLVEDTQ-GNVTVEKVRAYYVGVA 193 (318)
T ss_pred HHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHCccHHHHHHHHHHHHhcCC-CCcCHHHHHHHhCCCc
Confidence 444 46999999999988 99999999999887655566666555655544 4699999988765433
No 79
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=73.96 E-value=9.5 Score=34.28 Aligned_cols=58 Identities=17% Similarity=0.198 Sum_probs=40.7
Q ss_pred HHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHH
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQ 97 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 97 (200)
.++..+++..|++ ++++++..|++.+..=...++.....++.++|+. |+.+||+..+.
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 3778888899986 9999999999987733333333334444445655 99999887653
No 80
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=73.05 E-value=9.6 Score=37.79 Aligned_cols=58 Identities=19% Similarity=0.158 Sum_probs=41.5
Q ss_pred HHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHH
Q 028993 37 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAV 96 (200)
Q Consensus 37 a~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI 96 (200)
.+++..+++..|+. +++++...|++.+.-....++.....+..| |.+.|+.+||+..+
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 45778888889977 899999999998875555555444333334 34579999998654
No 81
>PF13335 Mg_chelatase_2: Magnesium chelatase, subunit ChlI
Probab=71.63 E-value=18 Score=27.36 Aligned_cols=35 Identities=17% Similarity=0.208 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHh
Q 028993 65 YRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSK 99 (200)
Q Consensus 65 yrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r 99 (200)
.|=...||+=|.-.|+.+|...|+.++|..|+.-|
T Consensus 62 ~R~~~rilrvARTIADL~~~~~I~~~hi~EAl~yR 96 (96)
T PF13335_consen 62 ARGYHRILRVARTIADLEGSERITREHIAEALSYR 96 (96)
T ss_pred HHHHHHHHHHHHHHHhHcCCCCCCHHHHHHHHhCc
Confidence 35566788888999999999999999999998754
No 82
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=71.07 E-value=13 Score=31.81 Aligned_cols=58 Identities=9% Similarity=0.079 Sum_probs=42.6
Q ss_pred HHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHH
Q 028993 37 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQ 97 (200)
Q Consensus 37 a~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 97 (200)
..+|..+++..|+. ++++++..|++.+......++.....++.. .+.|+.++|+.++.
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 35677777788975 899999999998876666655555555543 36799999988763
No 83
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=71.01 E-value=14 Score=34.08 Aligned_cols=58 Identities=12% Similarity=0.198 Sum_probs=42.7
Q ss_pred HHHHHHHHhCCCcccchHHHHHHHHHHHH---HHHHHHHHHHHHHh-hhCCCCCCHHHHHHHH
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFLELWYR---YVVDVLTDAQVYSE-HAGKNTIDCDDVKLAV 96 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLLEfayr---Yt~~VL~DA~~yA~-HAgR~tI~~eDVrLAI 96 (200)
.+|..+++..|+. +++++...|.+++.- .+...|+.+..|+. +.+++.|+.+||+.++
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 3778888888866 999999999999875 44455555555654 3446789999997655
No 84
>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=70.75 E-value=9.9 Score=37.57 Aligned_cols=55 Identities=15% Similarity=0.204 Sum_probs=44.8
Q ss_pred ccchHHHHHHHHHHHHHH-------HHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhccccC
Q 028993 51 DYEPRVIHQFLELWYRYV-------VDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFS 105 (200)
Q Consensus 51 ~yep~Vv~qLLEfayrYt-------~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~F~ 105 (200)
.+++.++..|.+++.++. .-+++=|+.+|...||..|+.+||+.|+..-+.|-..
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 468888888888886653 4577888899999999999999999999887665443
No 85
>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea.
Probab=70.04 E-value=9.5 Score=37.52 Aligned_cols=55 Identities=13% Similarity=0.132 Sum_probs=43.8
Q ss_pred ccchHHHHHHHHHHHHHH-------HHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhccccC
Q 028993 51 DYEPRVIHQFLELWYRYV-------VDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFS 105 (200)
Q Consensus 51 ~yep~Vv~qLLEfayrYt-------~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~F~ 105 (200)
.+++.++..|++++.++. .-++.=|+.+|...||..|+.+||+.|+..-+.|-..
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 467888888888887644 3467788889999999999999999999886665443
No 86
>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=69.26 E-value=16 Score=26.76 Aligned_cols=57 Identities=12% Similarity=0.226 Sum_probs=45.0
Q ss_pred HHHHHHHHhC---CCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCC-CCHHHHHH
Q 028993 38 KIVKSLLKSM---GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNT-IDCDDVKL 94 (200)
Q Consensus 38 ~~I~~ILks~---Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~t-I~~eDVrL 94 (200)
.+|.+||+.+ .-++.+.++...+-+++.-++.+-...|..-|+--|... |+.+|+.-
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 3678888832 235889999999999999999999999999898889888 99999864
No 87
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=68.86 E-value=40 Score=31.54 Aligned_cols=64 Identities=23% Similarity=0.280 Sum_probs=40.6
Q ss_pred CChhHHHHHHHHHhC----CCcccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 33 LPRDAKIVKSLLKSM----GVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 33 ~PrDa~~I~~ILks~----Gv~~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
-|.|......||+.. |+ .++++++..|++-+. |....+|.....||...|+. |+.+.++-++..
T Consensus 278 ~~pd~~~r~~il~~~~~~~~~-~l~~e~l~~ia~~~~~~~R~l~~~l~~l~~~~~~~~~~-it~~~~~~~l~~ 348 (450)
T PRK00149 278 EPPDLETRIAILKKKAEEEGI-DLPDEVLEFIAKNITSNVRELEGALNRLIAYASLTGKP-ITLELAKEALKD 348 (450)
T ss_pred cCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHcCcCCCHHHHHHHHHHHHHHHHhhCCC-CCHHHHHHHHHH
Confidence 466666665565553 44 489999988888766 55556677766677665543 555555555543
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=66.13 E-value=32 Score=28.06 Aligned_cols=59 Identities=17% Similarity=0.072 Sum_probs=44.7
Q ss_pred hHHHHHHHHHhCCCcccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhCCCCCCHHHHHHHH
Q 028993 36 DAKIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAV 96 (200)
Q Consensus 36 Da~~I~~ILks~Gv~~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI 96 (200)
+..++...++..|+. +++++...|...+- |+...+++++..+|.-+| ++|+.+.|+-.+
T Consensus 164 ~~~~l~~~~~~~~~~-~~~~~l~~L~~~~~gn~r~L~~~l~~~~~~~~~~~-~~i~~~~~~~~~ 225 (226)
T TIGR03420 164 KIAALQSRAARRGLQ-LPDEVADYLLRHGSRDMGSLMALLDALDRASLAAK-RKITIPFVKEVL 225 (226)
T ss_pred HHHHHHHHHHHcCCC-CCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhC-CCCCHHHHHHHh
Confidence 345555555567764 99999999999754 788999999888776666 479998887654
No 89
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=65.52 E-value=24 Score=36.16 Aligned_cols=55 Identities=22% Similarity=0.331 Sum_probs=43.4
Q ss_pred HHHHHHHHHhCCCcccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhCCCCCCHHHHHHHH
Q 028993 37 AKIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAV 96 (200)
Q Consensus 37 a~~I~~ILks~Gv~~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI 96 (200)
..++..|++..|+. +++.++..|.+.+. |++..+|..+..| |...|+.+||+..+
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 45678888999976 99999999999986 7777788777776 34568888877654
No 90
>PRK09862 putative ATP-dependent protease; Provisional
Probab=64.12 E-value=22 Score=34.76 Aligned_cols=36 Identities=17% Similarity=0.120 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHh
Q 028993 64 WYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSK 99 (200)
Q Consensus 64 ayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r 99 (200)
..|=...+|+=|+.+|+.+|+..|+.+||..|+.-|
T Consensus 457 S~Ra~~rlLrvARTiADL~g~~~V~~~hv~eAl~yR 492 (506)
T PRK09862 457 SIRAWQRLLKVARTIADIDQSDIITRQHLQEAVSYR 492 (506)
T ss_pred CHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHhh
Confidence 346677889999999999999999999999999987
No 91
>PRK04195 replication factor C large subunit; Provisional
Probab=63.72 E-value=19 Score=34.14 Aligned_cols=57 Identities=19% Similarity=0.285 Sum_probs=45.7
Q ss_pred HHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHH
Q 028993 37 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAV 96 (200)
Q Consensus 37 a~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI 96 (200)
..++..|++..|+. ++++++..|.+.+..-.+.++.+...|+. |+..|+.+||+..+
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 45667788888986 89999999999998888888888777664 56679999998554
No 92
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=62.92 E-value=21 Score=34.73 Aligned_cols=58 Identities=14% Similarity=0.112 Sum_probs=39.4
Q ss_pred HHHHHHHHHhCCCcccchHHHHHHHHHHHH---HHHHHHHHHHHHHhhhCCCCCCHHHHHHHH
Q 028993 37 AKIVKSLLKSMGVEDYEPRVIHQFLELWYR---YVVDVLTDAQVYSEHAGKNTIDCDDVKLAV 96 (200)
Q Consensus 37 a~~I~~ILks~Gv~~yep~Vv~qLLEfayr---Yt~~VL~DA~~yA~HAgR~tI~~eDVrLAI 96 (200)
..++..+++..|+. +++++...|.+.+.- .+..+|+.+..|+.- ....|+.+||+..+
T Consensus 193 ~~~L~~i~~~egi~-ie~eAL~~Ia~~s~GslR~al~~Ldkai~~~~~-~~~~It~~~V~~ll 253 (507)
T PRK06645 193 FKLLEYITKQENLK-TDIEALRIIAYKSEGSARDAVSILDQAASMSAK-SDNIISPQVINQML 253 (507)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhcc-CCCCcCHHHHHHHH
Confidence 45778888998975 899999999988764 444555555544321 13468888887543
No 93
>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=62.68 E-value=90 Score=28.60 Aligned_cols=100 Identities=21% Similarity=0.277 Sum_probs=52.6
Q ss_pred CChhHHHHHHHHHh----CCCcccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhC-------------------CCC
Q 028993 33 LPRDAKIVKSLLKS----MGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAG-------------------KNT 86 (200)
Q Consensus 33 ~PrDa~~I~~ILks----~Gv~~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAg-------------------R~t 86 (200)
-|.|......||+. .|+ .++++++..|++-.. |....+|.....||...| ++.
T Consensus 266 ~~pd~~~r~~il~~~~~~~~~-~l~~e~l~~ia~~~~~~~r~l~~~l~~l~~~a~~~~~~it~~~~~~~L~~~~~~~~~~ 344 (405)
T TIGR00362 266 EPPDLETRLAILQKKAEEEGL-ELPDEVLEFIAKNIRSNVRELEGALNRLLAYASLTGKPITLELAKEALKDLLRAKKKE 344 (405)
T ss_pred CCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHhccccCCC
Confidence 35565544444443 454 378888888777655 344455555555555444 234
Q ss_pred CCHHHHHHHHHHhhccccC----------CCCcHHHHHHHHHhhcCCCCCCCCCCCC
Q 028993 87 IDCDDVKLAVQSKVNSSFS----------QPPAREVLLELAKNRNKIPLPKSIAGRG 133 (200)
Q Consensus 87 I~~eDVrLAI~~r~~~~F~----------~pPpre~LlelA~e~N~~PLP~i~~~~G 133 (200)
|+.++|.-++....+-+.. -.-+|...|=++++.-..+|+.|-..+|
T Consensus 345 it~~~I~~~Va~~~~v~~~~l~~~~r~~~~~~~R~~amyl~~~~~~~s~~~ig~~fg 401 (405)
T TIGR00362 345 ITIENIQEVVAKYYNIKVSDLKSKKRTRNIVRPRQIAMYLAKELTDLSLPEIGRAFG 401 (405)
T ss_pred CCHHHHHHHHHHHcCCCHHHHhCCCCCcccchHHHHHHHHHHHHcCCCHHHHHHHhC
Confidence 5555555555443321111 1135666666666666666665544443
No 94
>COG5248 TAF19 Transcription initiation factor TFIID, subunit TAF13 [Transcription]
Probab=62.02 E-value=26 Score=28.40 Aligned_cols=44 Identities=18% Similarity=0.242 Sum_probs=37.6
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 53 EPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 53 ep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
-++.++.|-|+.-.|..++...|-..|. .|..++.||.+.|.+-
T Consensus 29 ~~dt~~~L~e~V~dY~~~~ctna~~~Aq--~rnK~k~eDfkfaLr~ 72 (126)
T COG5248 29 RYDTAEALHEYVLDYMSILCTNAHNMAQ--VRNKTKTEDFKFALRR 72 (126)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHH--hcccchHHHHHHHHhh
Confidence 3567899999999999999999998888 4556889999999864
No 95
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=60.52 E-value=32 Score=33.36 Aligned_cols=54 Identities=26% Similarity=0.340 Sum_probs=40.3
Q ss_pred HHHHHHHHHhCCCcccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhCCCCCCHHHHHHH
Q 028993 37 AKIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLA 95 (200)
Q Consensus 37 a~~I~~ILks~Gv~~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLA 95 (200)
..++..|++..|+. +++.+...|.+.+. |.+..+|+.+..| |...|+.+||+..
T Consensus 184 ~~~l~~il~~egi~-~~~~al~~ia~~s~GslR~al~lLdq~ia~----~~~~It~~~V~~~ 240 (509)
T PRK14958 184 AAHCQHLLKEENVE-FENAALDLLARAANGSVRDALSLLDQSIAY----GNGKVLIADVKTM 240 (509)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHcCCcHHHHHHHHHHHHhc----CCCCcCHHHHHHH
Confidence 35677899999976 89999888888875 6777777777655 4456888777744
No 96
>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=60.40 E-value=23 Score=32.61 Aligned_cols=58 Identities=14% Similarity=0.220 Sum_probs=43.8
Q ss_pred ccchHHHHHHHHHHHH-------HHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhccccCCCC
Q 028993 51 DYEPRVIHQFLELWYR-------YVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFSQPP 108 (200)
Q Consensus 51 ~yep~Vv~qLLEfayr-------Yt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~F~~pP 108 (200)
.+++.+...+.+++.. =...++.=|+.+|-..||..|+.+||+.|+..-+.|-....|
T Consensus 254 ~v~d~~~~~i~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~~dDv~~~a~~vL~HR~~~~p 318 (337)
T TIGR02030 254 TIPYDVLVKVAELCAELDVDGLRGELTLNRAAKALAAFEGRTEVTVDDIRRVAVLALRHRLRKDP 318 (337)
T ss_pred cCCHHHHHHHHHHHHHHCCCCCcHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHhCcCCc
Confidence 3677777777776653 344477888999999999999999999988887766554433
No 97
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=60.09 E-value=24 Score=34.32 Aligned_cols=54 Identities=19% Similarity=0.220 Sum_probs=39.9
Q ss_pred HHHHHHHHHhCCCcccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhCCCCCCHHHHHHH
Q 028993 37 AKIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLA 95 (200)
Q Consensus 37 a~~I~~ILks~Gv~~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLA 95 (200)
..++..|++.-|++ +++++...|++.+. |.+...|+.+..| +| +.|+.+||+..
T Consensus 181 ~~~L~~ia~~Egi~-i~~eAL~lIa~~s~GslR~alslLdqli~y---~~-~~It~e~V~~l 237 (491)
T PRK14964 181 VEHLVDIAKKENIE-HDEESLKLIAENSSGSMRNALFLLEQAAIY---SN-NKISEKSVRDL 237 (491)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHh---cC-CCCCHHHHHHH
Confidence 45677778888975 99999999999985 5555556555554 44 47999999864
No 98
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=59.23 E-value=26 Score=34.85 Aligned_cols=56 Identities=16% Similarity=0.134 Sum_probs=40.1
Q ss_pred HHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHH
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLA 95 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLA 95 (200)
.++..|++..|++ +++++...|++.+.--...++.....++.++|+. |+.++|...
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 4677788889975 9999999999988765555555555555555655 888777544
No 99
>KOG3901 consensus Transcription initiation factor IID subunit [Transcription]
Probab=58.60 E-value=33 Score=27.43 Aligned_cols=42 Identities=12% Similarity=0.364 Sum_probs=33.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 54 PRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 54 p~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
++.+..|=++.-.|..+++..|.... .|..+.+||+..+|+-
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 45677788888888888877666655 5667999999999965
No 100
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=57.15 E-value=34 Score=31.16 Aligned_cols=55 Identities=16% Similarity=0.197 Sum_probs=39.0
Q ss_pred HHHHHHHHhCCCcccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHH
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQ 97 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 97 (200)
.++..+++..|+. ++++++..+.+++. |.+..+|+.+..| |+..|+.+||+-++.
T Consensus 185 ~~L~~~~~~~g~~-i~~~al~~ia~~s~G~~R~al~~l~~~~~~----~~~~It~~~v~~~l~ 242 (363)
T PRK14961 185 NFLKYILIKESID-TDEYALKLIAYHAHGSMRDALNLLEHAINL----GKGNINIKNVTDMLG 242 (363)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHh----cCCCCCHHHHHHHHC
Confidence 3667777788854 89999988888875 4455555555444 567899999977653
No 101
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=56.94 E-value=30 Score=34.15 Aligned_cols=53 Identities=13% Similarity=0.194 Sum_probs=39.4
Q ss_pred HHHHHHHHhCCCcccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhCCCCCCHHHHHHH
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLA 95 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLA 95 (200)
+++..|++..|+. +++.++..|++++. |++...|+.+..|+ | +.|+.+||+-+
T Consensus 185 ~~L~~il~~egi~-~e~~Al~~Ia~~s~GdlR~alnlLek~i~~~---~-~~It~~~V~~~ 240 (546)
T PRK14957 185 DQLKIILAKENIN-SDEQSLEYIAYHAKGSLRDALSLLDQAISFC---G-GELKQAQIKQM 240 (546)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc---c-CCCCHHHHHHH
Confidence 3778888899974 99999999999987 46666666666553 3 56888887753
No 102
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=56.66 E-value=43 Score=33.27 Aligned_cols=55 Identities=16% Similarity=0.158 Sum_probs=44.3
Q ss_pred cccchHHHHHHHHHHHHHH-------HHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhcccc
Q 028993 50 EDYEPRVIHQFLELWYRYV-------VDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSF 104 (200)
Q Consensus 50 ~~yep~Vv~qLLEfayrYt-------~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~F 104 (200)
-.+++.++..+.+.+.++. ..+++=|+.+|...||..|+.+||+.|+..-+.|--
T Consensus 194 v~v~~~~l~~i~~~~~~~gv~S~Ra~i~llraARa~AaL~Gr~~V~~~dv~~Aa~lvL~hR~ 255 (584)
T PRK13406 194 VGPPPEAIAALCAAAAALGIASLRAPLLALRAARAAAALAGRTAVEEEDLALAARLVLAPRA 255 (584)
T ss_pred CCCCHHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHhhc
Confidence 3577888887777776654 478888999999999999999999999988665533
No 103
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=56.07 E-value=37 Score=32.68 Aligned_cols=57 Identities=16% Similarity=0.186 Sum_probs=41.6
Q ss_pred HHHHHHHHHhCCCcccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 37 AKIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 37 a~~I~~ILks~Gv~~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
..++..+++..|+. ++++++..|.+.+. |++...|+.+..|+ ++ .|+.+||+.++..
T Consensus 182 ~~~L~~i~~~egi~-i~~eal~~Ia~~s~GdlR~aln~Le~l~~~~---~~-~It~e~V~~~l~~ 241 (472)
T PRK14962 182 IKRLQEVAEAEGIE-IDREALSFIAKRASGGLRDALTMLEQVWKFS---EG-KITLETVHEALGL 241 (472)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHhCCCHHHHHHHHHHHHHhc---CC-CCCHHHHHHHHcC
Confidence 34666677777874 99999999999775 67777777665553 33 3999999887643
No 104
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=55.67 E-value=77 Score=26.25 Aligned_cols=60 Identities=12% Similarity=0.141 Sum_probs=42.6
Q ss_pred hHHHHHHHHHhCCCcccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHH
Q 028993 36 DAKIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQ 97 (200)
Q Consensus 36 Da~~I~~ILks~Gv~~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 97 (200)
+..++..+.+..|+. ++++++..|+..+. +....+|+.-..||...+ +.|+...||-+++
T Consensus 162 ~~~~l~~~~~~~~v~-l~~~al~~L~~~~~gn~~~l~~~l~~l~~~~~~~~-~~i~~~~~~~~l~ 224 (227)
T PRK08903 162 KIAALKAAAAERGLQ-LADEVPDYLLTHFRRDMPSLMALLDALDRYSLEQK-RPVTLPLLREMLA 224 (227)
T ss_pred HHHHHHHHHHHcCCC-CCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhC-CCCCHHHHHHHHh
Confidence 344455555566755 99999999999876 566667777666666656 5899888877653
No 105
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=55.06 E-value=70 Score=29.81 Aligned_cols=54 Identities=6% Similarity=0.067 Sum_probs=42.5
Q ss_pred ccchHHHHHHHHHHHH-------HHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhcccc
Q 028993 51 DYEPRVIHQFLELWYR-------YVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSF 104 (200)
Q Consensus 51 ~yep~Vv~qLLEfayr-------Yt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~F 104 (200)
.+++.++..+++++.. =..-++.-|+.+|-..||..|+.+||+.++..-+.|--
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 3677888878777764 44567788899999999999999999999887655533
No 106
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=53.52 E-value=41 Score=33.70 Aligned_cols=58 Identities=7% Similarity=0.071 Sum_probs=43.5
Q ss_pred HHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhh---C-CCCCCHHHHHHHH
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHA---G-KNTIDCDDVKLAV 96 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HA---g-R~tI~~eDVrLAI 96 (200)
.+|..+++..|++ ++++++..|++.+--....++.....++.++ | ++.|+.+||...+
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 3778888888866 8999999999999876666666655555555 2 6689988886543
No 107
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=52.25 E-value=88 Score=29.10 Aligned_cols=68 Identities=22% Similarity=0.269 Sum_probs=56.1
Q ss_pred CCCChhHHHHHHHHHhC---C--CcccchHHHHHHHHHHH------HHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 31 EDLPRDAKIVKSLLKSM---G--VEDYEPRVIHQFLELWY------RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 31 ~~~PrDa~~I~~ILks~---G--v~~yep~Vv~qLLEfay------rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
.+-|-++.=|..||+.= | -..++++|+..-..++- |++-++|.-|...|+--|+.+|+.++|+.|...
T Consensus 186 ~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A~eiAe~~~~~~v~~~~v~~a~~~ 264 (366)
T COG1474 186 VFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAEREGSRKVSEDHVREAQEE 264 (366)
T ss_pred eeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHHH
Confidence 36788999999998752 3 34788888888777765 788999999999999999999999999999433
No 108
>PRK09087 hypothetical protein; Validated
Probab=51.85 E-value=1.1e+02 Score=26.21 Aligned_cols=63 Identities=10% Similarity=0.091 Sum_probs=43.5
Q ss_pred ChhHHHHHHHH----HhCCCcccchHHHHHHHHHHHHHHHHHHH---HHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 34 PRDAKIVKSLL----KSMGVEDYEPRVIHQFLELWYRYVVDVLT---DAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 34 PrDa~~I~~IL----ks~Gv~~yep~Vv~qLLEfayrYt~~VL~---DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
|.|-..+..|| +..|+ ..+++|+..|++-+.|-..++.. ....+|...| +.|+...+|-+++.
T Consensus 152 ~pd~e~~~~iL~~~~~~~~~-~l~~ev~~~La~~~~r~~~~l~~~l~~L~~~~~~~~-~~it~~~~~~~l~~ 221 (226)
T PRK09087 152 EPDDALLSQVIFKLFADRQL-YVDPHVVYYLVSRMERSLFAAQTIVDRLDRLALERK-SRITRALAAEVLNE 221 (226)
T ss_pred CCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhC-CCCCHHHHHHHHHh
Confidence 44544444444 45676 49999999999999988777776 3334444445 45999999888864
No 109
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=50.65 E-value=1.4e+02 Score=25.38 Aligned_cols=67 Identities=16% Similarity=0.240 Sum_probs=48.8
Q ss_pred CCChhHHHHHHHHHhCCC--cccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhc
Q 028993 32 DLPRDAKIVKSLLKSMGV--EDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVN 101 (200)
Q Consensus 32 ~~PrDa~~I~~ILks~Gv--~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 101 (200)
.+|+ ..|..|+++|== -+|--++...+.+-+-.+..=|..+|...++.-.|+||..+-|--|++. ++
T Consensus 12 sLPk--Atv~KmIke~lP~d~rvakeareliincCvEFI~liSsEAneic~~e~KKTIa~EHV~KALe~-Lg 80 (156)
T KOG0871|consen 12 SLPK--ATVNKMIKEMLPKDVRVAKEARELIINCCVEFINLISSEANEICNKEAKKTIAPEHVIKALEN-LG 80 (156)
T ss_pred cCcH--HHHHHHHHHhCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcccCCHHHHHHHHHH-cc
Confidence 5565 235555555511 2456666666777777777778889999999999999999999999876 44
No 110
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=50.24 E-value=47 Score=32.05 Aligned_cols=54 Identities=19% Similarity=0.314 Sum_probs=39.9
Q ss_pred HHHHHHHHhCCCcccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhCCCCCCHHHHHHHH
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAV 96 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI 96 (200)
.++..+++..|+. +++++...|.+++. |.+...|+.+..| |...|+.++|+.++
T Consensus 185 ~~L~~i~k~egi~-id~~al~~La~~s~G~lr~al~~Ldkl~~~----~~~~It~~~V~~~l 241 (486)
T PRK14953 185 EYLKRICNEEKIE-YEEKALDLLAQASEGGMRDAASLLDQASTY----GEGKVTIKVVEEFL 241 (486)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHh----cCCCcCHHHHHHHh
Confidence 3788888899974 89999999998875 5566666666555 23468888888754
No 111
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=50.08 E-value=42 Score=32.49 Aligned_cols=67 Identities=18% Similarity=0.410 Sum_probs=52.0
Q ss_pred ChhHHHHHHHHH----hCCCcccchHHHHHHHHHH----HHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhc
Q 028993 34 PRDAKIVKSLLK----SMGVEDYEPRVIHQFLELW----YRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVN 101 (200)
Q Consensus 34 PrDa~~I~~ILk----s~Gv~~yep~Vv~qLLEfa----yrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 101 (200)
|-...-|+.||+ .-+|+ .++++...|.+.- -||+..+|.=|...|..-|++.|.++||.-|...-++
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 PYSREEIREIIRIRAKEEDIE-LSDDALEYLTDIGEETSLRYAVQLLTPASIIAKRRGSKRVEVEDVERAKELFLD 434 (450)
T ss_pred CCCHHHHHHHHHHhhhhhccc-cCHHHHHHHHhhchhhhHHHHHHhccHHHHHHHHhCCCeeehhHHHHHHHHHhh
Confidence 334455555554 23444 8899998888764 4899999999999999999999999999998876443
No 112
>smart00350 MCM minichromosome maintenance proteins.
Probab=49.81 E-value=27 Score=33.51 Aligned_cols=30 Identities=10% Similarity=0.149 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 69 VDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 69 ~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
..++.=|..+|...+|..|+.+||+.||..
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 456677888899999999999999999976
No 113
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=49.64 E-value=46 Score=32.61 Aligned_cols=55 Identities=13% Similarity=0.106 Sum_probs=36.8
Q ss_pred HHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHH
Q 028993 39 IVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLA 95 (200)
Q Consensus 39 ~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLA 95 (200)
++..+++..|+. ++++++..|++.+.--...++.....++.+ +...|+.+||+..
T Consensus 187 ~L~~~a~~egl~-i~~eal~~La~~s~Gdlr~al~~LekL~~y-~~~~It~e~V~~l 241 (585)
T PRK14950 187 HLRKIAAAEGIN-LEPGALEAIARAATGSMRDAENLLQQLATT-YGGEISLSQVQSL 241 (585)
T ss_pred HHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cCCCCCHHHHHHH
Confidence 455566667866 899999999888865444444444444444 4457999998753
No 114
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=49.50 E-value=57 Score=33.49 Aligned_cols=53 Identities=23% Similarity=0.306 Sum_probs=39.4
Q ss_pred HHHHHHHHHhCCCcccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhCCCCCCHHHHHH
Q 028993 37 AKIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKL 94 (200)
Q Consensus 37 a~~I~~ILks~Gv~~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrL 94 (200)
.+++..|++.-|+. ++++++..+.+.+. |.+..++..+..| |++.|+.+||+.
T Consensus 183 ~k~L~~Il~kEgI~-id~eAL~~IA~~S~GdLRdALnLLDQaIay----g~g~IT~edV~~ 238 (702)
T PRK14960 183 TKHLGAILEKEQIA-ADQDAIWQIAESAQGSLRDALSLTDQAIAY----GQGAVHHQDVKE 238 (702)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHh----cCCCcCHHHHHH
Confidence 45777888888975 99999999888876 5666666666554 456788888865
No 115
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=49.25 E-value=46 Score=34.47 Aligned_cols=55 Identities=18% Similarity=0.168 Sum_probs=37.4
Q ss_pred HHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHH
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVK 93 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVr 93 (200)
++|..|++..|+. +++.++..|+.++.--...++.....+...++...|+.+||+
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 4788888888976 899999998888765444444444444444556667777554
No 116
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=49.14 E-value=64 Score=29.73 Aligned_cols=54 Identities=11% Similarity=0.207 Sum_probs=42.1
Q ss_pred ccchHHHHHHHHHHHHHH-------HHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhcccc
Q 028993 51 DYEPRVIHQFLELWYRYV-------VDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSF 104 (200)
Q Consensus 51 ~yep~Vv~qLLEfayrYt-------~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~F 104 (200)
.+++.++..+++.+...- .-++.-|+.+|-..||..|+.+||+-+....+.|-.
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 368888888888886533 228889999999999999999999877766555433
No 117
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=48.41 E-value=51 Score=33.21 Aligned_cols=53 Identities=17% Similarity=0.296 Sum_probs=37.7
Q ss_pred HHHHHHHhCCCcccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhCCCCCCHHHHHHHH
Q 028993 39 IVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAV 96 (200)
Q Consensus 39 ~I~~ILks~Gv~~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI 96 (200)
++..+++..|+. |+++++..|.+++. |++..+|..+ + ..|.+.|+.++|+-++
T Consensus 186 ~L~~il~~egi~-id~eal~lIA~~s~GdlR~Al~lLeql---l-~~g~~~It~d~V~~~l 241 (624)
T PRK14959 186 HLTKVLGREGVD-YDPAAVRLIARRAAGSVRDSMSLLGQV---L-ALGESRLTIDGARGVL 241 (624)
T ss_pred HHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHH---H-HhcCCCcCHHHHHHHh
Confidence 566677777865 99999999999887 5555666544 2 2366689888876554
No 118
>PF04157 EAP30: EAP30/Vps36 family; InterPro: IPR007286 EAP30 is a subunit of the ELL complex. The ELL is an 80kDa RNA polymerase II transcription factor. ELL interacts with three other proteins to form the complex known as ELL complex. The ELL complex is capable of increasing that catalytic rate of transcription elongation, but is unable to repress initiation of transcription by RNA polymerase II as is the case of ELL. EAP30 is thought to lead to the derepression of ELL's transcriptional inhibitory activity. ; PDB: 2ZME_A 3CUQ_A 1W7P_D 1U5T_B.
Probab=48.22 E-value=60 Score=27.71 Aligned_cols=33 Identities=21% Similarity=0.262 Sum_probs=20.6
Q ss_pred HHHHHh-hhhcCCCCCCChhHHHHHHHHHhCCCc
Q 028993 18 NLLQKA-EEMAEGDEDLPRDAKIVKSLLKSMGVE 50 (200)
Q Consensus 18 ~~~~~~-~~m~~~~~~~PrDa~~I~~ILks~Gv~ 50 (200)
.+++.+ .++......-|.+=.-+..++.++||.
T Consensus 40 ~~l~~fa~k~~~~i~~~~~~r~~f~~~~~~lGvd 73 (223)
T PF04157_consen 40 ELLENFARKHKSEIKSDPEFRSQFQSMCASLGVD 73 (223)
T ss_dssp HHHHHHHHHHCCCCCCSHHHHHHHHHHHHHHT--
T ss_pred HHHHHHHHHhhccccCCchHHHHHHHHHHHcCCC
Confidence 344444 445566556676656888899999985
No 119
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=48.16 E-value=66 Score=31.53 Aligned_cols=54 Identities=19% Similarity=0.310 Sum_probs=39.8
Q ss_pred HHHHHHHHHhCCCcccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhCCCCCCHHHHHHH
Q 028993 37 AKIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLA 95 (200)
Q Consensus 37 a~~I~~ILks~Gv~~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLA 95 (200)
..++..+++..|+. ++++++..|.+++. |.+..+|+.+..|+ ...|+.+||+-.
T Consensus 184 ~~~L~~i~~~egi~-i~~~al~~ia~~s~G~~R~al~~Ldq~~~~~----~~~It~~~V~~v 240 (559)
T PRK05563 184 VERLKYILDKEGIE-YEDEALRLIARAAEGGMRDALSILDQAISFG----DGKVTYEDALEV 240 (559)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc----cCCCCHHHHHHH
Confidence 34667777888985 89999998888875 67777777777763 346888877643
No 120
>PRK08727 hypothetical protein; Validated
Probab=47.58 E-value=76 Score=27.01 Aligned_cols=64 Identities=14% Similarity=0.090 Sum_probs=44.9
Q ss_pred CCChhHHHHHHHHHh----CCCcccchHHHHHHHHHHHHHHHHH---HHHHHHHHhhhCCCCCCHHHHHHHHH
Q 028993 32 DLPRDAKIVKSLLKS----MGVEDYEPRVIHQFLELWYRYVVDV---LTDAQVYSEHAGKNTIDCDDVKLAVQ 97 (200)
Q Consensus 32 ~~PrDa~~I~~ILks----~Gv~~yep~Vv~qLLEfayrYt~~V---L~DA~~yA~HAgR~tI~~eDVrLAI~ 97 (200)
.-|-|...+..||+. -|+ .++++++..|++.+.|-...+ |+....+|...+| .|+.+.|+-.++
T Consensus 159 l~~~~~e~~~~iL~~~a~~~~l-~l~~e~~~~La~~~~rd~r~~l~~L~~l~~~~~~~~~-~it~~~~~~~l~ 229 (233)
T PRK08727 159 LPVLDDVARAAVLRERAQRRGL-ALDEAAIDWLLTHGERELAGLVALLDRLDRESLAAKR-RVTVPFLRRVLE 229 (233)
T ss_pred ecCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCC-CCCHHHHHHHHh
Confidence 345556666666665 365 499999999999998655555 7766666665565 699888887664
No 121
>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=47.05 E-value=1.1e+02 Score=22.43 Aligned_cols=66 Identities=12% Similarity=0.076 Sum_probs=42.1
Q ss_pred hHHHHHHHHHhCCCcccchHHHHHHHHHHHHH-HHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhc
Q 028993 36 DAKIVKSLLKSMGVEDYEPRVIHQFLELWYRY-VVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVN 101 (200)
Q Consensus 36 Da~~I~~ILks~Gv~~yep~Vv~qLLEfayrY-t~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 101 (200)
|..=...-|+.+++..+-+.|+.++++.+-.- ...--.=+..++....++.++.+++..|....++
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 45555556677888889999999888877654 2222222233334455688999999999987554
No 122
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=46.20 E-value=1e+02 Score=31.21 Aligned_cols=101 Identities=15% Similarity=0.185 Sum_probs=61.0
Q ss_pred CCChhHHHHHHHHHhC----CCcccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhC--------------------C
Q 028993 32 DLPRDAKIVKSLLKSM----GVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAG--------------------K 84 (200)
Q Consensus 32 ~~PrDa~~I~~ILks~----Gv~~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAg--------------------R 84 (200)
.-+.|......||+.+ |+ ..+++|+..|++-+. |....+|..-..||...+ +
T Consensus 443 I~~PD~EtR~aIL~kka~~r~l-~l~~eVi~yLa~r~~rnvR~LegaL~rL~a~a~~~~~~itl~la~~vL~~~~~~~~~ 521 (617)
T PRK14086 443 VQPPELETRIAILRKKAVQEQL-NAPPEVLEFIASRISRNIRELEGALIRVTAFASLNRQPVDLGLTEIVLRDLIPEDSA 521 (617)
T ss_pred cCCCCHHHHHHHHHHHHHhcCC-CCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccccC
Confidence 3455555555555544 43 478888888888877 444445554444554433 2
Q ss_pred CCCCHHHHHHHHHHhhcccc----------CCCCcHHHHHHHHHhhcCCCCCCCCCCCC
Q 028993 85 NTIDCDDVKLAVQSKVNSSF----------SQPPAREVLLELAKNRNKIPLPKSIAGRG 133 (200)
Q Consensus 85 ~tI~~eDVrLAI~~r~~~~F----------~~pPpre~LlelA~e~N~~PLP~i~~~~G 133 (200)
..|+.++|.-++....+... .-.-+|..-|=||++.-..+|+.|-..+|
T Consensus 522 ~~it~d~I~~~Va~~f~v~~~dl~s~~R~~~i~~aRqiAMYL~r~lt~~Sl~~IG~~Fg 580 (617)
T PRK14086 522 PEITAAAIMAATADYFGLTVEDLCGTSRSRVLVTARQIAMYLCRELTDLSLPKIGQQFG 580 (617)
T ss_pred CcCCHHHHHHHHHHHhCCCHHHHhCCCCCcccchHHHHHHHHHHHHcCCCHHHHHHHhC
Confidence 24666666666655433111 11256788888888888888888876666
No 123
>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=46.18 E-value=58 Score=24.05 Aligned_cols=54 Identities=19% Similarity=0.290 Sum_probs=40.8
Q ss_pred HHHHHHHhhhCCCCCCHHHHHHHHHHhhccccCCCCcHHHHHHHHHhhcCCCCCCC
Q 028993 73 TDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFSQPPAREVLLELAKNRNKIPLPKS 128 (200)
Q Consensus 73 ~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~F~~pPpre~LlelA~e~N~~PLP~i 128 (200)
.-|..+|...|- ++ .+-|+.|++.++...-...+..+.|..+.......+++.-
T Consensus 12 ~LareLA~~tG~-s~-TeAVr~AL~~~L~~~~~~~~l~~~l~~~~~~~~~~~~~~~ 65 (82)
T PF07704_consen 12 RLARELARLTGE-SK-TEAVRRALRERLERRRRAEPLLERLAAIIRRCAAAPLPPP 65 (82)
T ss_pred HHHHHHHHHHCC-CH-HHHHHHHHHHHHHhccccccHHHHHHHHHHHhhccccCCC
Confidence 345566777776 33 4889999999998777788999999998766666666654
No 124
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=46.00 E-value=71 Score=31.54 Aligned_cols=53 Identities=28% Similarity=0.409 Sum_probs=39.7
Q ss_pred HHHHHHHHHhCCCcccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhCCCCCCHHHHHH
Q 028993 37 AKIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKL 94 (200)
Q Consensus 37 a~~I~~ILks~Gv~~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrL 94 (200)
.+++..|++..|+. +++++...|.+.+. |.+..+|+.|..|+ +..|+.++|..
T Consensus 182 ~~~L~~Il~~EGi~-i~~~Al~~Ia~~s~GdlR~alnlLdqai~~~----~~~It~~~V~~ 237 (535)
T PRK08451 182 ISHLKTILEKEGVS-YEPEALEILARSGNGSLRDTLTLLDQAIIYC----KNAITESKVAD 237 (535)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHcCCcHHHHHHHHHHHHHhc----CCCCCHHHHHH
Confidence 45677788899975 89999999988865 67777777777776 34577766653
No 125
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=45.40 E-value=60 Score=31.58 Aligned_cols=53 Identities=15% Similarity=0.341 Sum_probs=39.1
Q ss_pred HHHHHHHhCCCcccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhCCCCCCHHHHHHHH
Q 028993 39 IVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAV 96 (200)
Q Consensus 39 ~I~~ILks~Gv~~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI 96 (200)
++..|++.-|+. +++.+...|.+++. |.+..+++.|..| |...|+.+||+..+
T Consensus 186 ~L~~il~~egi~-~~~~al~~la~~s~Gslr~al~lldqai~~----~~~~I~~~~v~~~~ 241 (527)
T PRK14969 186 HLQHILEQENIP-FDATALQLLARAAAGSMRDALSLLDQAIAY----GGGTVNESEVRAML 241 (527)
T ss_pred HHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHh----cCCCcCHHHHHHHH
Confidence 667788888975 89999999888876 4666666666655 45678888777654
No 126
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=45.10 E-value=57 Score=32.46 Aligned_cols=53 Identities=13% Similarity=0.092 Sum_probs=36.5
Q ss_pred HHHHHHHHhCCCcccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhCCCCCCHHHHHH
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKL 94 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrL 94 (200)
.++..|++..|+. +++++...+++++. |.+..+|+.+..| +|...|+.++|..
T Consensus 184 ~~L~~i~~~egi~-i~~~al~~Ia~~s~GdlR~aln~Ldql~~~---~~~~~It~~~v~~ 239 (584)
T PRK14952 184 ALIARICEQEGVV-VDDAVYPLVIRAGGGSPRDTLSVLDQLLAG---AADTHVTYQRALG 239 (584)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHhc---cCCCCcCHHHHHH
Confidence 4788889999975 89999888877765 4555666655544 3455677666543
No 127
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=43.98 E-value=68 Score=30.54 Aligned_cols=52 Identities=13% Similarity=0.067 Sum_probs=35.1
Q ss_pred HHHHHHHHhCCCcccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhCCCCCCHHHHHH
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKL 94 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrL 94 (200)
.++..+++..|++ ++++++..|++.+. |.+...++....| .| +.|+.++|.-
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 3566677777876 89999999998884 5555555555444 23 3388777654
No 128
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=43.46 E-value=2.2e+02 Score=27.08 Aligned_cols=101 Identities=17% Similarity=0.183 Sum_probs=54.5
Q ss_pred CChhHHHHHHHH----HhCCCc-ccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhC-CCCCCHHHHHHHHH------
Q 028993 33 LPRDAKIVKSLL----KSMGVE-DYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAG-KNTIDCDDVKLAVQ------ 97 (200)
Q Consensus 33 ~PrDa~~I~~IL----ks~Gv~-~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAg-R~tI~~eDVrLAI~------ 97 (200)
-|.|...+..|| +..|.. .++++|+..|.+.+. |-...+|..+..+|.... +..|+.+.|+-+++
T Consensus 273 ~~pd~e~r~~iL~~~~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL~~l~~~a~~~~~~~~it~~~v~~~l~~~~~~~ 352 (450)
T PRK14087 273 QKLDNKTATAIIKKEIKNQNIKQEVTEEAINFISNYYSDDVRKIKGSVSRLNFWSQQNPEEKIITIEIVSDLFRDIPTSK 352 (450)
T ss_pred CCcCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHHHHHHHHHhcccCCCCCCHHHHHHHHhhccccc
Confidence 344544444444 345653 688888888888776 344444444444443321 13455555555544
Q ss_pred --------------Hhhcccc----------CCCCcHHHHHHHHHhhcCCCCCCCCCCCC
Q 028993 98 --------------SKVNSSF----------SQPPAREVLLELAKNRNKIPLPKSIAGRG 133 (200)
Q Consensus 98 --------------~r~~~~F----------~~pPpre~LlelA~e~N~~PLP~i~~~~G 133 (200)
...+-.. .-.-||..-|=||++.-..+||.|-..+|
T Consensus 353 ~~~~t~~~I~~~Va~~~~i~~~dl~s~~R~~~i~~~RqiamyL~r~~t~~sl~~IG~~Fg 412 (450)
T PRK14087 353 LGILNVKKIKEVVSEKYGISVNAIDGKARSKSIVTARHIAMYLTKEILNHTLAQIGEEFG 412 (450)
T ss_pred cCCCCHHHHHHHHHHHcCCCHHHHhCCCCCccccHHHHHHHHHHHHHcCCCHHHHHHHhC
Confidence 2221000 01156777777777777777777765555
No 129
>KOG1659 consensus Class 2 transcription repressor NC2, alpha subunit (DRAP1) [Transcription]
Probab=42.15 E-value=74 Score=28.39 Aligned_cols=70 Identities=17% Similarity=0.223 Sum_probs=52.3
Q ss_pred HHHHHHhC-CCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhccccCCCCcHHHHHHHH
Q 028993 40 VKSLLKSM-GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFSQPPAREVLLELA 117 (200)
Q Consensus 40 I~~ILks~-Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~F~~pPpre~LlelA 117 (200)
|..|+.+- .|-.+..-|+.-.-.-++-++.+++..+...+..-|-++|+.+-+|-||++--.| +||.++-
T Consensus 19 iKKIMQ~dEdIGKvaqavPViisralElFl~~l~~~t~~~t~~~~aKt~s~~hlkq~v~~~~~F--------dFLk~~v 89 (224)
T KOG1659|consen 19 IKKIMQSDEDIGKVAQAVPVIISRALELFLESLLQKTLEITRSRGAKTVSSSHLKQAVESDPKF--------DFLKEVV 89 (224)
T ss_pred HHHHHhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCccccCHHHHHHHHhccchh--------HHHHHHH
Confidence 44444433 4445666666666777788999999999999999999999999999999874333 5677643
No 130
>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]
Probab=41.70 E-value=65 Score=30.83 Aligned_cols=53 Identities=25% Similarity=0.467 Sum_probs=44.6
Q ss_pred CCcccchHHHHHHHHH----HHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhc
Q 028993 48 GVEDYEPRVIHQFLEL----WYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVN 101 (200)
Q Consensus 48 Gv~~yep~Vv~qLLEf----ayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~ 101 (200)
|++ +++++...|.+. .-||+..+|.-|..+|+..||+.|.++||.-....-++
T Consensus 384 ~l~-~~e~a~~~l~~~gt~tsLRy~vqLl~p~~~~ak~~g~~~i~v~dvee~~~Lf~D 440 (456)
T KOG1942|consen 384 GLQ-VEEEALDLLAEIGTSTSLRYAVQLLTPASILAKTNGRKEISVEDVEEVTELFLD 440 (456)
T ss_pred cce-ecHHHHHHHHhhccchhHHHHHHhcCHHHHHHHHcCCceeecccHHHHHHHHHh
Confidence 544 888888888874 56899999999999999999999999999887766443
No 131
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=41.40 E-value=74 Score=30.91 Aligned_cols=55 Identities=18% Similarity=0.140 Sum_probs=38.3
Q ss_pred HHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHH
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLA 95 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLA 95 (200)
.++..+++..|+. ++++++..|.+.+.-....++.....+... ...|+.++|...
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 4667778888976 899999999999876555555544444333 336888887654
No 132
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=41.26 E-value=79 Score=31.82 Aligned_cols=55 Identities=22% Similarity=0.268 Sum_probs=36.7
Q ss_pred HHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHH
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKL 94 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrL 94 (200)
.++..+++.-|+. ++++++..|++++.--...++.....++.+.|.. |+.+||..
T Consensus 185 ~~L~~il~kegi~-Is~eal~~La~lS~GdlR~AlnlLekL~~y~~~~-It~e~V~e 239 (605)
T PRK05896 185 ELLKSIAKKEKIK-IEDNAIDKIADLADGSLRDGLSILDQLSTFKNSE-IDIEDINK 239 (605)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHcCCcHHHHHHHHHHHHhhcCCC-CCHHHHHH
Confidence 3677777777865 8999999999988654444444444444445543 88877765
No 133
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=40.93 E-value=78 Score=31.22 Aligned_cols=54 Identities=11% Similarity=0.195 Sum_probs=38.2
Q ss_pred HHHHHHHHhCCCcccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhCCCCCCHHHHHHHH
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAV 96 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI 96 (200)
+++..+++..|+. +++++...|++.+. |.+...|+.+..|+ | ..|+.++|+-++
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 3667777888976 89999999999865 45555555555553 3 458888877643
No 134
>KOG3902 consensus Histone acetyltransferase PCAF/SAGA, subunit SUPT3H/SPT3 [Transcription]
Probab=40.74 E-value=1.5e+02 Score=27.87 Aligned_cols=69 Identities=14% Similarity=0.177 Sum_probs=56.2
Q ss_pred CCCCCChhHHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHH
Q 028993 29 GDEDLPRDAKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQ 97 (200)
Q Consensus 29 ~~~~~PrDa~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 97 (200)
.....|--+++=..++.+-.|.+=.++..+-.=+..+-.+.++|..|...|..+|-..|+.+|+=+-|.
T Consensus 20 tg~~~ky~veiQqmmf~sGei~~P~pett~Lved~V~gqvie~l~qa~eia~lrgsr~Itpedliflir 88 (352)
T KOG3902|consen 20 TGDIKKYRVEIQQMMFQSGEIPDPLPETTNLVEDNVRGQVIESLVQANEIADLRGSRSITPEDLIFLIR 88 (352)
T ss_pred cccchhHHHHHHHHHHHhCCCCCCcHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCccccChHHHHHHhh
Confidence 333456666666667777778888888888888899999999999999999999999999998766553
No 135
>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=39.78 E-value=1.1e+02 Score=21.04 Aligned_cols=40 Identities=23% Similarity=0.364 Sum_probs=27.5
Q ss_pred CCChhHHHHHHHHHhCCCcccchHHHHHHHHHHH-------HHHHHHHHH
Q 028993 32 DLPRDAKIVKSLLKSMGVEDYEPRVIHQFLELWY-------RYVVDVLTD 74 (200)
Q Consensus 32 ~~PrDa~~I~~ILks~Gv~~yep~Vv~qLLEfay-------rYt~~VL~D 74 (200)
.-|.+.+.|...+...| ++++|+..+++.|- +|+..||..
T Consensus 13 ls~~e~~~i~~~~~~~~---~~~evI~~ai~~a~~~~~~~~~Yi~~Il~~ 59 (73)
T TIGR01446 13 LSPFEMEDLKYWLDEFG---NSPELIKEALKEAVSNNKANYKYIDAILNN 59 (73)
T ss_pred CCHHHHHHHHHHHHHhC---CCHHHHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence 45677788888887777 56778777777664 455555554
No 136
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=39.37 E-value=2.2e+02 Score=27.90 Aligned_cols=53 Identities=13% Similarity=0.193 Sum_probs=37.7
Q ss_pred HHHHHHHHHhCCCcccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhCCCCCCHHHHHH
Q 028993 37 AKIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKL 94 (200)
Q Consensus 37 a~~I~~ILks~Gv~~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrL 94 (200)
...+..|++..|+. |+++++..+.+++. |.+-.+|+.+..++ ...|+.++|+-
T Consensus 186 ~~~L~~i~~~Egi~-~e~eAL~~Ia~~S~Gd~RdAL~lLeq~i~~~----~~~it~~~V~~ 241 (484)
T PRK14956 186 QDYSEKLCKIENVQ-YDQEGLFWIAKKGDGSVRDMLSFMEQAIVFT----DSKLTGVKIRK 241 (484)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHcCChHHHHHHHHHHHHHhC----CCCcCHHHHHH
Confidence 35677788888975 99999998888876 56666666666553 23588777754
No 137
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]
Probab=38.93 E-value=53 Score=29.67 Aligned_cols=79 Identities=16% Similarity=0.257 Sum_probs=62.9
Q ss_pred HHHHHHHhC-CCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhccccCCCCcHHHHHHHH
Q 028993 39 IVKSLLKSM-GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFSQPPAREVLLELA 117 (200)
Q Consensus 39 ~I~~ILks~-Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~F~~pPpre~LlelA 117 (200)
-|++++|.- ||.-++.+|+.-+...++.+..++--.|-.-|+...|.|+-..||--|++.--.| +||+.+.
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 355555544 7778899999999999999999999999999999999999999999999764433 5688776
Q ss_pred HhhcCCCCCCC
Q 028993 118 KNRNKIPLPKS 128 (200)
Q Consensus 118 ~e~N~~PLP~i 128 (200)
-. | |++..
T Consensus 186 pr-~--p~n~~ 193 (286)
T COG5208 186 PR-N--PFNHL 193 (286)
T ss_pred cC-C--Ccccc
Confidence 53 3 55543
No 138
>PLN03025 replication factor C subunit; Provisional
Probab=38.46 E-value=84 Score=27.87 Aligned_cols=54 Identities=15% Similarity=0.169 Sum_probs=36.4
Q ss_pred HHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHH
Q 028993 37 AKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVK 93 (200)
Q Consensus 37 a~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVr 93 (200)
..++..|++.-|+. ++++++..|++.+..=.+.++..-... +.|...|+.++|.
T Consensus 164 ~~~L~~i~~~egi~-i~~~~l~~i~~~~~gDlR~aln~Lq~~--~~~~~~i~~~~v~ 217 (319)
T PLN03025 164 LGRLMKVVEAEKVP-YVPEGLEAIIFTADGDMRQALNNLQAT--HSGFGFVNQENVF 217 (319)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHH--HhcCCCCCHHHHH
Confidence 34566777778875 899999999988875444444444422 2355678888875
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=38.29 E-value=1.8e+02 Score=22.24 Aligned_cols=58 Identities=17% Similarity=0.308 Sum_probs=40.6
Q ss_pred HHHHHHhC-CCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCC-CCCCHHHHHHHHH
Q 028993 40 VKSLLKSM-GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGK-NTIDCDDVKLAVQ 97 (200)
Q Consensus 40 I~~ILks~-Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR-~tI~~eDVrLAI~ 97 (200)
|.+|+... |=+.+++.++..+.-++.-|+.+|.+.|+...+--+. ..|....|+-|.+
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 4367999999999999999999999999998875553 3788888888864
No 140
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=37.82 E-value=89 Score=31.38 Aligned_cols=54 Identities=15% Similarity=0.231 Sum_probs=38.2
Q ss_pred HHHHHHHHHhCCCcccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhCCCCCCHHHHHHH
Q 028993 37 AKIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLA 95 (200)
Q Consensus 37 a~~I~~ILks~Gv~~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLA 95 (200)
..++..|++.-|+. +++++...|++.+. |.+..++..+..| |...|+.++|+-.
T Consensus 189 ~~~L~~i~~~egi~-ie~~AL~~La~~s~GslR~al~lLdq~ia~----~~~~It~~~V~~~ 245 (618)
T PRK14951 189 LEHLTQVLAAENVP-AEPQALRLLARAARGSMRDALSLTDQAIAF----GSGQLQEAAVRQM 245 (618)
T ss_pred HHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHh----cCCCcCHHHHHHH
Confidence 35677788888975 89999999998876 4555555555555 3456888887653
No 141
>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=37.72 E-value=49 Score=27.90 Aligned_cols=36 Identities=28% Similarity=0.413 Sum_probs=31.6
Q ss_pred CHHHHHHHHHHhhccccCCCCcHHHHHHHHHhhcCC
Q 028993 88 DCDDVKLAVQSKVNSSFSQPPAREVLLELAKNRNKI 123 (200)
Q Consensus 88 ~~eDVrLAI~~r~~~~F~~pPpre~LlelA~e~N~~ 123 (200)
.+|+|+--|...+...|..|-.|+.++.++.....+
T Consensus 58 eaD~i~~~i~~~L~~~fitP~dReDi~~L~~~lD~I 93 (216)
T TIGR00153 58 EADEIKREIRLNLEKGAFLPNDRRDLLELAELLDEI 93 (216)
T ss_pred HHHHHHHHHHHhCcccccCcCcHHHHHHHHHHHHHH
Confidence 468999999999999999999999999999876654
No 142
>PRK06893 DNA replication initiation factor; Validated
Probab=36.89 E-value=1.8e+02 Score=24.57 Aligned_cols=63 Identities=16% Similarity=0.064 Sum_probs=41.8
Q ss_pred CCChhHHHHHHHHH----hCCCcccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhCCCCCCHHHHHHHH
Q 028993 32 DLPRDAKIVKSLLK----SMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAV 96 (200)
Q Consensus 32 ~~PrDa~~I~~ILk----s~Gv~~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI 96 (200)
.-|.|-.....||+ ..|+ ..+++|+..|+..+. |....++......+-..|| .|+.+.||-++
T Consensus 158 l~~pd~e~~~~iL~~~a~~~~l-~l~~~v~~~L~~~~~~d~r~l~~~l~~l~~~~~~~~~-~it~~~v~~~L 227 (229)
T PRK06893 158 LNDLTDEQKIIVLQRNAYQRGI-ELSDEVANFLLKRLDRDMHTLFDALDLLDKASLQAQR-KLTIPFVKEIL 227 (229)
T ss_pred CCCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhcCC-CCCHHHHHHHh
Confidence 34556666666665 4564 599999999999998 4555566654323333344 69999888765
No 143
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=36.54 E-value=1e+02 Score=29.52 Aligned_cols=38 Identities=16% Similarity=0.117 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHh
Q 028993 62 ELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSK 99 (200)
Q Consensus 62 EfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r 99 (200)
.|.-.-...|+.+|-..|-..|+..|+.+|++.|+...
T Consensus 387 g~sgAdI~~i~~eA~~~Alr~~r~~Vt~~D~~~A~~~v 424 (438)
T PTZ00361 387 ELSGADIKAICTEAGLLALRERRMKVTQADFRKAKEKV 424 (438)
T ss_pred CCCHHHHHHHHHHHHHHHHHhcCCccCHHHHHHHHHHH
Confidence 34444456788899999999999999999999999764
No 144
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=35.55 E-value=1.2e+02 Score=27.48 Aligned_cols=33 Identities=18% Similarity=0.280 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 66 RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 66 rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
+-...+..+|...|-..++..|+.+|+..|+..
T Consensus 330 ~dl~~l~~~A~~~a~~~~~~~i~~~d~~~a~~~ 362 (364)
T TIGR01242 330 ADLKAICTEAGMFAIREERDYVTMDDFIKAVEK 362 (364)
T ss_pred HHHHHHHHHHHHHHHHhCCCccCHHHHHHHHHH
Confidence 445577778888887789999999999999864
No 145
>COG1378 Predicted transcriptional regulators [Transcription]
Probab=35.11 E-value=30 Score=30.50 Aligned_cols=37 Identities=19% Similarity=0.294 Sum_probs=32.2
Q ss_pred HHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHH
Q 028993 39 IVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDA 75 (200)
Q Consensus 39 ~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA 75 (200)
-+...|+++|.+.||-+|-..|+.+-.--+.+|++.+
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 4678999999999999999999998887777777765
No 146
>TIGR00368 Mg chelatase-related protein. The N-terminal end matches very strongly a pfam Mg_chelatase domain.
Probab=34.77 E-value=96 Score=30.18 Aligned_cols=35 Identities=14% Similarity=0.202 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHh
Q 028993 65 YRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSK 99 (200)
Q Consensus 65 yrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r 99 (200)
.|-...||+=|+-+|+..|+..|+.+||..|++-|
T Consensus 465 ~R~~~rilrvArTiAdL~g~~~i~~~hv~eA~~~r 499 (499)
T TIGR00368 465 SRATHRILKVARTIADLKEEKNISREHLAEAIEYR 499 (499)
T ss_pred chHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHhcC
Confidence 45678899999999999999999999999999754
No 147
>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=34.57 E-value=14 Score=30.64 Aligned_cols=54 Identities=17% Similarity=0.276 Sum_probs=39.2
Q ss_pred HHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHH
Q 028993 41 KSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKL 94 (200)
Q Consensus 41 ~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrL 94 (200)
.++++..+--++.-.=...++||..+-..++|.-|..-|+..||..|..-|+=+
T Consensus 2 e~lFR~aa~LdvdK~d~~r~~d~V~~Kl~DLl~va~~~Ak~ngRdvI~~~DLPI 55 (138)
T PF09123_consen 2 ERLFRKAAGLDVDKNDAKRYSDFVEKKLYDLLLVAQENAKANGRDVIEPRDLPI 55 (138)
T ss_dssp HHHHHHHHS----HHHHHHHHHHHHHHHHHCCCCHHHHHHHTT-SEE-GGGS--
T ss_pred hHHHHHHhccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeeccccCCc
Confidence 456666633446677788999999999999999999999999999988877544
No 148
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=33.83 E-value=1.1e+02 Score=30.19 Aligned_cols=53 Identities=11% Similarity=0.142 Sum_probs=39.0
Q ss_pred HHHHHHHHhCCCcccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhCCCCCCHHHHHHH
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLA 95 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLA 95 (200)
.++..|++..|++ +++++...|.+.+. |++..+|+.+..|.. ..|+.+||...
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 4677788888976 99999999888876 566777776666643 24888877643
No 149
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=33.73 E-value=1.2e+02 Score=30.46 Aligned_cols=51 Identities=22% Similarity=0.330 Sum_probs=38.1
Q ss_pred ccchHHHHHHHHHHHHHHHH---------HHHHHHHHHhhh----CCCCCCHHHHHHHHHHhhc
Q 028993 51 DYEPRVIHQFLELWYRYVVD---------VLTDAQVYSEHA----GKNTIDCDDVKLAVQSKVN 101 (200)
Q Consensus 51 ~yep~Vv~qLLEfayrYt~~---------VL~DA~~yA~HA----gR~tI~~eDVrLAI~~r~~ 101 (200)
.|+++++..+++++.||..+ ++.+|....... .+..|+.+||.-++...++
T Consensus 368 ~i~~~al~~~~~ls~ryi~~r~~P~kai~lld~a~a~~~~~~~~~~~~~v~~~~i~~~i~~~tg 431 (731)
T TIGR02639 368 KYSDEALEAAVELSARYINDRFLPDKAIDVIDEAGASFRLRPKAKKKANVSVKDIENVVAKMAH 431 (731)
T ss_pred ccCHHHHHHHHHhhhcccccccCCHHHHHHHHHhhhhhhcCcccccccccCHHHHHHHHHHHhC
Confidence 59999999999999999744 566665543322 2356999999999987543
No 150
>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=33.71 E-value=93 Score=30.89 Aligned_cols=60 Identities=27% Similarity=0.228 Sum_probs=42.8
Q ss_pred HHHHHHHHhCCCcccchHHHHHHHHHHH--HHHHHHHHHHHHHHhhh--------CCCCCCHHHHHHHHHH
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFLELWY--RYVVDVLTDAQVYSEHA--------GKNTIDCDDVKLAVQS 98 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLLEfay--rYt~~VL~DA~~yA~HA--------gR~tI~~eDVrLAI~~ 98 (200)
.++..+++..|+. +++++...|.++.. |.+..+|.++..|+.+. ++..|+.+||+-+++.
T Consensus 360 ~Il~~~a~~~~v~-ls~eal~~L~~ys~~gRraln~L~~~~~~~~~~~~~~~~~~~~~~I~~edv~~~l~~ 429 (615)
T TIGR02903 360 LIVLNAAEKINVH-LAAGVEELIARYTIEGRKAVNILADVYGYALYRAAEAGKENDKVTITQDDVYEVIQI 429 (615)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHCCCcHHHHHHHHHHHHHHHHHHHHHhccCCCCeeECHHHHHHHhCC
Confidence 3445555556654 88999888888753 77788899998775221 2347999999999976
No 151
>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=33.46 E-value=58 Score=21.66 Aligned_cols=26 Identities=27% Similarity=0.377 Sum_probs=18.3
Q ss_pred HHHH-HHHHHHhhhCCCCCCHHHHHHH
Q 028993 70 DVLT-DAQVYSEHAGKNTIDCDDVKLA 95 (200)
Q Consensus 70 ~VL~-DA~~yA~HAgR~tI~~eDVrLA 95 (200)
..++ .+-.||...|...|+.+.|.-|
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 4457999999999999998765
No 152
>PRK06130 3-hydroxybutyryl-CoA dehydrogenase; Validated
Probab=33.44 E-value=1.6e+02 Score=25.76 Aligned_cols=71 Identities=17% Similarity=0.206 Sum_probs=47.3
Q ss_pred CCCCCCChhHHHHHHHHHhCCCc--ccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhcccc
Q 028993 28 EGDEDLPRDAKIVKSLLKSMGVE--DYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSF 104 (200)
Q Consensus 28 ~~~~~~PrDa~~I~~ILks~Gv~--~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~F 104 (200)
.+...-+.....+..+|+.+|.. .++++..-. ++.|+...++.+|..+.+..| ++.+||..|+..-.++-+
T Consensus 152 ~g~~t~~~~~~~v~~l~~~~G~~~v~~~~d~~G~---i~nr~~~~~~~Ea~~l~~~g~---~~~~~id~~~~~~~g~~~ 224 (311)
T PRK06130 152 RGDKTSPQTVATTMALLRSIGKRPVLVKKDIPGF---IANRIQHALAREAISLLEKGV---ASAEDIDEVVKWSLGIRL 224 (311)
T ss_pred CCCCCCHHHHHHHHHHHHHcCCEEEEEcCCCCCc---HHHHHHHHHHHHHHHHHHcCC---CCHHHHHHHHHhcCCCCc
Confidence 44444578889999999999964 233332222 445555567888887765544 799999999975555443
No 153
>PF02631 RecX: RecX family; InterPro: IPR003783 RecX is a putative bacterial regulatory protein []. The gene encoding RecX is found downstream of recA, and it is suggested that the RecX protein might be regulator of RecA activity by interaction with the RecA protein or filament [].; GO: 0006282 regulation of DNA repair; PDB: 3DFG_A 3D5L_B 3C1D_B 3E3V_A.
Probab=31.68 E-value=2.3e+02 Score=21.54 Aligned_cols=62 Identities=18% Similarity=0.249 Sum_probs=34.0
Q ss_pred cchHHHHHHHHHHH--------HHHHHHHHHHHHHHhh--------hCCCCCCHHHHHHHHHHhhccccCCCCcHHHHHH
Q 028993 52 YEPRVIHQFLELWY--------RYVVDVLTDAQVYSEH--------AGKNTIDCDDVKLAVQSKVNSSFSQPPAREVLLE 115 (200)
Q Consensus 52 yep~Vv~qLLEfay--------rYt~~VL~DA~~yA~H--------AgR~tI~~eDVrLAI~~r~~~~F~~pPpre~Lle 115 (200)
|++.++.+.++.+. +|+...+........+ -.++.|+.+.|.-|+. .-...+.+.+
T Consensus 6 ~~~e~I~~vi~~l~~~gyidD~~ya~~~v~~~~~~~~~G~~~I~~~L~~kGi~~~~i~~~l~--------~~~~~e~a~~ 77 (121)
T PF02631_consen 6 FSEEAIEEVIDRLKELGYIDDERYAESYVRSRLRRKGKGPRRIRQKLKQKGIDREIIEEALE--------EYDEEEEALE 77 (121)
T ss_dssp --HHHHHHHHHHHHHTTSS-HHHHHHHHHHHHHHHTT--HHHHHHHHHHTT--HHHHHHHHT--------CS-HHHHHHH
T ss_pred CCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHhcccccccHHHHHHHHHHHCCChHHHHHHHH--------HhhHHHHHHH
Confidence 67778888877774 5666665555432221 1236799999988886 1233444666
Q ss_pred HHHhhc
Q 028993 116 LAKNRN 121 (200)
Q Consensus 116 lA~e~N 121 (200)
++..+=
T Consensus 78 ~~~kk~ 83 (121)
T PF02631_consen 78 LAEKKY 83 (121)
T ss_dssp HHHHHH
T ss_pred HHHHHH
Confidence 666553
No 154
>KOG0960 consensus Mitochondrial processing peptidase, beta subunit, and related enzymes (insulinase superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=29.74 E-value=5.5e+02 Score=25.28 Aligned_cols=124 Identities=19% Similarity=0.240 Sum_probs=79.7
Q ss_pred CCCCCChhHHHHHHHHHhCCCc----ccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhC----C---------CCCCHHH
Q 028993 29 GDEDLPRDAKIVKSLLKSMGVE----DYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAG----K---------NTIDCDD 91 (200)
Q Consensus 29 ~~~~~PrDa~~I~~ILks~Gv~----~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAg----R---------~tI~~eD 91 (200)
..+.+|+-+.++..||.+...+ +-|-+|+..=|+-...+..+|+=|=..-.-.-| + +.|+..|
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 3457999999999999988654 456677777777777778888777665444443 2 4789999
Q ss_pred HHHHHHH-----hhccccCCCCcHHHHHHHHHhhcCCCCCCCCCCCC-CCCCCCCCCCCCCCceeecCCc
Q 028993 92 VKLAVQS-----KVNSSFSQPPAREVLLELAKNRNKIPLPKSIAGRG-IPLPPEQDTLISPNYQLSIEKK 155 (200)
Q Consensus 92 VrLAI~~-----r~~~~F~~pPpre~LlelA~e~N~~PLP~i~~~~G-irLPper~cLt~~Ny~l~~~k~ 155 (200)
++--|.. |+=-.-.+.-.-|.|.++|...+-- ||.....-+ .+.||-+ .|+..+++.-.+-
T Consensus 202 L~~yi~thY~~~RmVlaaaGgV~He~lv~la~k~fg~-~~~~~~~~~~~~~~~~~--FtgsEvR~rdd~l 268 (467)
T KOG0960|consen 202 LKDYINTHYKASRMVLAAAGGVKHEELVKLAEKYFGD-LSKLQTGDKVPLVPPAR--FTGSEVRVRDDDL 268 (467)
T ss_pred HHHHHHhcccCccEEEEecCCcCHHHHHHHHHHHcCC-CcccccCcCCCCCCCcc--ccCceeeecCCCC
Confidence 9988865 1111223558889999999988764 332222222 2233333 4566666653333
No 155
>KOG1657 consensus CCAAT-binding factor, subunit C (HAP5) [Transcription]
Probab=29.60 E-value=89 Score=27.79 Aligned_cols=71 Identities=20% Similarity=0.234 Sum_probs=55.6
Q ss_pred CCChhHHHHHHHHHhC-CCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhcccc
Q 028993 32 DLPRDAKIVKSLLKSM-GVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSF 104 (200)
Q Consensus 32 ~~PrDa~~I~~ILks~-Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~F 104 (200)
.+|.+. |+.|+|.- .+.-+..+++.++.--++-+..++-..|-.+++-.+|+++...||--|+..-..+.|
T Consensus 74 ~lPlaR--iKkimK~dedv~mI~~Eapvl~aka~E~Fi~elt~~sw~~Tee~~rrtl~~sdia~av~~s~~fdF 145 (236)
T KOG1657|consen 74 ILPLAR--IKKIMKSDEDVSMITAEAPVLFAKACELFITELTLRSWVHTEENKRRTLQKSDIAAAVTQSETFDF 145 (236)
T ss_pred cCcHhh--ccccccccccccccchhHHHHHHHHHHHHHHHHHHHhhhhhcccccccchHHHHHHHhccCCCccc
Confidence 455532 45555554 667899999999999999999999999999999999999999998888866444444
No 156
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=29.18 E-value=1.6e+02 Score=27.17 Aligned_cols=36 Identities=11% Similarity=0.159 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHh
Q 028993 64 WYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSK 99 (200)
Q Consensus 64 ayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r 99 (200)
.-.-...++.+|..+|-..++..|+.+|+.-|+...
T Consensus 337 sgadl~~l~~eA~~~a~~~~~~~i~~~d~~~A~~~~ 372 (389)
T PRK03992 337 SGADLKAICTEAGMFAIRDDRTEVTMEDFLKAIEKV 372 (389)
T ss_pred CHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHH
Confidence 335667788888888888889999999999999763
No 157
>PRK13531 regulatory ATPase RavA; Provisional
Probab=28.60 E-value=2.9e+02 Score=27.37 Aligned_cols=48 Identities=17% Similarity=0.135 Sum_probs=33.4
Q ss_pred ccchHHHHHHHHHHH-------------HHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 51 DYEPRVIHQFLELWY-------------RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 51 ~yep~Vv~qLLEfay-------------rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
.+++.|...++++.. |=...++.=|+.+|-..||..|+.+||++|.-.
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 455666555555543 223456677888899999999999999976543
No 158
>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=28.31 E-value=30 Score=25.97 Aligned_cols=59 Identities=19% Similarity=0.293 Sum_probs=37.9
Q ss_pred CChhHHHHHHHHHhCCCcccchHHHHHHHHHHH-----HHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHH
Q 028993 33 LPRDAKIVKSLLKSMGVEDYEPRVIHQFLELWY-----RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQ 97 (200)
Q Consensus 33 ~PrDa~~I~~ILks~Gv~~yep~Vv~qLLEfay-----rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~ 97 (200)
.+.|+ ..|++.-||+ ++++...|.+.+. |-.+..|.-|..+|.-.|.. |+.++|+.|-+
T Consensus 13 ~~~Di---~Ai~~AWgI~--d~~~~~~l~~I~~k~GaLR~l~ktLrlA~m~A~g~g~~-i~~~~i~~A~~ 76 (78)
T PF09077_consen 13 KKADI---KAIAKAWGIT--DKEERKLLQSIAEKPGALRQLTKTLRLAAMFAKGEGEA-ITADHIRAAWK 76 (78)
T ss_dssp SGGGT---THHHHSSSSS--SSHHHHHHHTTSSS-S-HHHHHHHHGGGT-TT-TTS---SSHHHHHHHHT
T ss_pred CHHHH---HHHHHHhCCC--CHHHHHHHHHHcccccHHHHHHHHHHHHHHHhccCCCc-CCHHHHHHHHH
Confidence 34454 4578888985 4555555555544 56777777777777777766 99999998853
No 159
>PRK06620 hypothetical protein; Validated
Probab=28.25 E-value=3.1e+02 Score=23.15 Aligned_cols=56 Identities=13% Similarity=0.119 Sum_probs=34.8
Q ss_pred HHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHH---HHHHHHhhhCCCCCCHHHHHHHH
Q 028993 39 IVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLT---DAQVYSEHAGKNTIDCDDVKLAV 96 (200)
Q Consensus 39 ~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~---DA~~yA~HAgR~tI~~eDVrLAI 96 (200)
++.+.++.-|+. .+++|+..|++-+.|=+..++. ....+|...+ ..|+.+-++-++
T Consensus 155 ~l~k~~~~~~l~-l~~ev~~~L~~~~~~d~r~l~~~l~~l~~~~~~~~-~~it~~~~~~~l 213 (214)
T PRK06620 155 LIFKHFSISSVT-ISRQIIDFLLVNLPREYSKIIEILENINYFALISK-RKITISLVKEVL 213 (214)
T ss_pred HHHHHHHHcCCC-CCHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHcC-CCCCHHHHHHHh
Confidence 333444445654 9999999999998865555443 3333344434 468888777654
No 160
>COG1460 Uncharacterized protein conserved in archaea [Function unknown]
Probab=28.15 E-value=1e+02 Score=24.82 Aligned_cols=37 Identities=19% Similarity=0.285 Sum_probs=32.8
Q ss_pred CCChhHHHHHHHHHhCCCcccchHHHHHHHHHHHHHHH
Q 028993 32 DLPRDAKIVKSLLKSMGVEDYEPRVIHQFLELWYRYVV 69 (200)
Q Consensus 32 ~~PrDa~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~ 69 (200)
-+|+|--=+..||.+-|..- +++.+.+++|+..+|..
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 58999999999999999875 99999999999999864
No 161
>PRK08084 DNA replication initiation factor; Provisional
Probab=27.86 E-value=3.6e+02 Score=22.89 Aligned_cols=61 Identities=15% Similarity=0.081 Sum_probs=36.4
Q ss_pred ChhHHHHHHHHHh----CCCcccchHHHHHHHHHHHHHH---HHHHHHHHHHHhhhCCCCCCHHHHHHHH
Q 028993 34 PRDAKIVKSLLKS----MGVEDYEPRVIHQFLELWYRYV---VDVLTDAQVYSEHAGKNTIDCDDVKLAV 96 (200)
Q Consensus 34 PrDa~~I~~ILks----~Gv~~yep~Vv~qLLEfayrYt---~~VL~DA~~yA~HAgR~tI~~eDVrLAI 96 (200)
|.|-.....||+. .|+ .++++|+..|+.-+.+=+ ..+|.... .+..+.++.|+.+-+|-++
T Consensus 166 ~~~~~~~~~~l~~~a~~~~~-~l~~~v~~~L~~~~~~d~r~l~~~l~~l~-~~~l~~~~~it~~~~k~~l 233 (235)
T PRK08084 166 PLSDEEKLQALQLRARLRGF-ELPEDVGRFLLKRLDREMRTLFMTLDQLD-RASITAQRKLTIPFVKEIL 233 (235)
T ss_pred CCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHhhcCCHHHHHHHHHHHH-HHHHhcCCCCCHHHHHHHH
Confidence 4433333444444 464 499999999999988544 44444432 2222344458888887765
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=26.91 E-value=1.6e+02 Score=19.49 Aligned_cols=33 Identities=12% Similarity=0.110 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 63 LWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 63 fayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
+.++++..|+.-|..+|++.| ++.+++.+|.-.
T Consensus 4 ~~~~H~~~v~~~a~~la~~~~---~~~~~l~~AalL 36 (80)
T TIGR00277 4 NVLQHSLEVAKLAEALARELG---LDVELARRGALL 36 (80)
T ss_pred hHHHHHHHHHHHHHHHHHHcC---CCHHHHHHHHHH
Confidence 456788888888888887765 577777777643
No 163
>COG5247 BUR6 Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]
Probab=26.28 E-value=3.4e+02 Score=21.77 Aligned_cols=69 Identities=9% Similarity=0.081 Sum_probs=52.6
Q ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhccccCCCCcHHHHHHHHHhhcCCCCCC
Q 028993 51 DYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFSQPPAREVLLELAKNRNKIPLPK 127 (200)
Q Consensus 51 ~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~F~~pPpre~LlelA~e~N~~PLP~ 127 (200)
.+..-++.-.-.-++-+..+|.......|+.-+-+.|+++=++-|+++--. -+||.++-.-+|..+-|.
T Consensus 41 KV~q~tPVIaskalE~Fl~~iv~~s~k~aR~~~skR~t~e~lk~a~~sdek--------FdFL~~~~~~~~~~~~~e 109 (113)
T COG5247 41 KVGQSTPVIASKALEMFLTEIVGLSLKEARKKSSKRMTSEFLKRATESDEK--------FDFLKNMEQFKNRETQPE 109 (113)
T ss_pred hhhhcchHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHhhhHH--------HHHHHHHHHhcCCCCCcc
Confidence 444444444555566688899999999998888899999999999988333 377888888888887654
No 164
>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=26.18 E-value=1.9e+02 Score=20.22 Aligned_cols=64 Identities=13% Similarity=0.086 Sum_probs=38.0
Q ss_pred HHHHhCCCc-ccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhccccCCC
Q 028993 42 SLLKSMGVE-DYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFSQP 107 (200)
Q Consensus 42 ~ILks~Gv~-~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~F~~p 107 (200)
.+=+.++|. +.++..+..|++-|..|+..-+..-..... .......+++++||...+.+.|...
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 344455774 455777777777776666544322211100 1223456899999999888777655
No 165
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=25.98 E-value=1.9e+02 Score=27.76 Aligned_cols=100 Identities=19% Similarity=0.278 Sum_probs=64.2
Q ss_pred CCChhHHHHHHHHHh----CCCcccchHHHHHHHHHHHHHHHHH---HHHHHHHHhhhC-------------------CC
Q 028993 32 DLPRDAKIVKSLLKS----MGVEDYEPRVIHQFLELWYRYVVDV---LTDAQVYSEHAG-------------------KN 85 (200)
Q Consensus 32 ~~PrDa~~I~~ILks----~Gv~~yep~Vv~qLLEfayrYt~~V---L~DA~~yA~HAg-------------------R~ 85 (200)
--|.|......||.. .|+ ..+++|...|+.-.++=+.++ |.....||...| .+
T Consensus 241 I~~Pd~e~r~aiL~kka~~~~~-~i~~ev~~~la~~~~~nvReLegaL~~l~~~a~~~~~~iTi~~v~e~L~~~~~~~~~ 319 (408)
T COG0593 241 IEPPDDETRLAILRKKAEDRGI-EIPDEVLEFLAKRLDRNVRELEGALNRLDAFALFTKRAITIDLVKEILKDLLRAGEK 319 (408)
T ss_pred eCCCCHHHHHHHHHHHHHhcCC-CCCHHHHHHHHHHhhccHHHHHHHHHHHHHHHHhcCccCcHHHHHHHHHHhhccccc
Confidence 456666666666655 243 488888888877776544433 333344444433 35
Q ss_pred CCCHHHHHHHHHHhhccccC----------CCCcHHHHHHHHHhhcCCCCCCCCCCCC
Q 028993 86 TIDCDDVKLAVQSKVNSSFS----------QPPAREVLLELAKNRNKIPLPKSIAGRG 133 (200)
Q Consensus 86 tI~~eDVrLAI~~r~~~~F~----------~pPpre~LlelA~e~N~~PLP~i~~~~G 133 (200)
|+.++|.-++....+-... -.-||..-|=||++.=...||.|-..+|
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 8888887777654332111 1268888999999999999999877777
No 166
>PF10930 DUF2737: Protein of unknown function (DUF2737); InterPro: IPR020295 The proteins in this entry are uncharacterised.
Probab=25.92 E-value=75 Score=22.52 Aligned_cols=23 Identities=39% Similarity=0.654 Sum_probs=18.0
Q ss_pred hccccCCCCcHHHHHHHHHhhcCCCCC
Q 028993 100 VNSSFSQPPAREVLLELAKNRNKIPLP 126 (200)
Q Consensus 100 ~~~~F~~pPpre~LlelA~e~N~~PLP 126 (200)
+.+-|.+.|+||.|| +||+.|-|
T Consensus 17 ~r~r~~PmPsREELl----kRnSFpsv 39 (54)
T PF10930_consen 17 IRQRFKPMPSREELL----KRNSFPSV 39 (54)
T ss_pred HHhcCCCCCCHHHHH----hhcCCCCC
Confidence 445678889999999 58887754
No 167
>PRK13480 3'-5' exoribonuclease YhaM; Provisional
Probab=24.94 E-value=1.2e+02 Score=27.85 Aligned_cols=103 Identities=16% Similarity=0.193 Sum_probs=55.9
Q ss_pred hHHHHHHhhhhcCCCCCCChhHHHHHHHHHhCC-CcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHH
Q 028993 16 TVNLLQKAEEMAEGDEDLPRDAKIVKSLLKSMG-VEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKL 94 (200)
Q Consensus 16 ~~~~~~~~~~m~~~~~~~PrDa~~I~~ILks~G-v~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrL 94 (200)
|+++++.+..++.--..+=||.-+...||-+.| +.+|+-.+....-+ --+...-|.--+....+++.+-.++.+++.+
T Consensus 164 tl~v~~~~~~l~~~y~~~n~dll~agalLHDiGKi~E~~~~~~~~yT~-eG~LlGHi~lg~~~i~~~~~~l~~~~e~~~~ 242 (314)
T PRK13480 164 VVSMLRLAKSICDLYPSLNKDLLYAGIILHDLGKVIELSGPVSTTYTL-EGNLLGHISIMVNEIAKAADELQIDGEEVLI 242 (314)
T ss_pred HHHHHHHHHHHHHhccccCHHHHHHHHHHHHhhhHHHhcCCCccCccc-cCEeccHHHHHHHHHHHHHHHcCCCHHHHHH
Confidence 677888888887654457799999999999999 55555322100000 0011111222233344455544566666655
Q ss_pred HHHHhhcc----ccCCC----CcHHHHHHHHHh
Q 028993 95 AVQSKVNS----SFSQP----PAREVLLELAKN 119 (200)
Q Consensus 95 AI~~r~~~----~F~~p----Ppre~LlelA~e 119 (200)
-..+.+.| .|++| .+-.+++.+|..
T Consensus 243 L~H~ILSHHG~~E~GSPv~P~t~EA~iLh~~D~ 275 (314)
T PRK13480 243 LQHMVLSHHGKAEWGSPKPPLVKEAEILHYIDN 275 (314)
T ss_pred HHhhhhccCCccccCCCCCCCCHHHHHHHHHHh
Confidence 54555554 35544 233445554443
No 168
>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=24.91 E-value=2e+02 Score=27.31 Aligned_cols=36 Identities=17% Similarity=0.317 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhh
Q 028993 65 YRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 100 (200)
Q Consensus 65 yrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 100 (200)
-.-...++.+|...|...++..|+.+|++.|++...
T Consensus 261 gadl~~l~~eA~~~a~~~~~~~i~~~~l~~a~~~~~ 296 (495)
T TIGR01241 261 GADLANLLNEAALLAARKNKTEITMNDIEEAIDRVI 296 (495)
T ss_pred HHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHh
Confidence 345567777787777667888999999999998644
No 169
>PRK15485 cobalt transport protein CbiQ; Provisional
Probab=24.88 E-value=2.7e+02 Score=23.78 Aligned_cols=36 Identities=22% Similarity=0.385 Sum_probs=29.1
Q ss_pred HHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHH
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQV 77 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~ 77 (200)
.-+-..|+.+|+. +....++.++|||.--+++++..
T Consensus 136 ~~l~~~L~~l~vP----~~~~~~~~l~~Rfi~~l~~e~~~ 171 (225)
T PRK15485 136 PQLIKLLKRAHIP----RLLTEQILLTWRFIFILLEEAAA 171 (225)
T ss_pred HHHHHHHHHcCCC----HHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445578888875 57899999999999999999854
No 170
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=24.75 E-value=1.9e+02 Score=29.76 Aligned_cols=52 Identities=15% Similarity=0.301 Sum_probs=34.2
Q ss_pred HHHHHHHhCCCcccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhCCCCCCHHHHHHH
Q 028993 39 IVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLA 95 (200)
Q Consensus 39 ~I~~ILks~Gv~~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLA 95 (200)
++..+++..|+. +++++...|+.++. |.+..+|..+..|+ ...|+.++|+.+
T Consensus 185 ~L~~il~kegI~-id~eAl~~LA~lS~GslR~AlslLekl~~y~----~~~It~e~V~el 239 (725)
T PRK07133 185 RLEFILEKENIS-YEKNALKLIAKLSSGSLRDALSIAEQVSIFG----NNKITLKNVEEL 239 (725)
T ss_pred HHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc----cCCCCHHHHHHH
Confidence 555666677865 88888888888874 55555555555442 334888877653
No 171
>PRK14700 recombination factor protein RarA; Provisional
Probab=24.56 E-value=2.9e+02 Score=25.54 Aligned_cols=64 Identities=11% Similarity=0.132 Sum_probs=45.4
Q ss_pred HHHHHHHHHh---CCC--cccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhh
Q 028993 37 AKIVKSLLKS---MGV--EDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKV 100 (200)
Q Consensus 37 a~~I~~ILks---~Gv--~~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~ 100 (200)
..++.+.|++ .|- -.++++++..|.+++- |.+-.+|+-|...+...+...|+.++|+-+++.+.
T Consensus 45 ~~il~ral~~~~~~~~~~~~i~~~al~~ia~~a~GDaR~aLN~LE~a~~~~~~~~~~~it~~~~~~~~~~~~ 116 (300)
T PRK14700 45 QKLIEKALSQDEVLAKHKFKIDDGLYNAMHNYNEGDCRKILNLLERMFLISTRGDEIYLNKELFDQAVGETS 116 (300)
T ss_pred HHHHHHHHHhhhccCCcCCCcCHHHHHHHHHhcCCHHHHHHHHHHHHHhhccccCCCccCHHHHHHHHhHHH
Confidence 3456666654 231 2589999999999986 88888888877544333334599999999987753
No 172
>PF13852 DUF4197: Protein of unknown function (DUF4197)
Probab=24.49 E-value=1.7e+02 Score=25.37 Aligned_cols=46 Identities=17% Similarity=0.175 Sum_probs=35.9
Q ss_pred CCChhHHHHHHHHHhCCCcccchHHHHHHHHHHH---HHHHHHHHHHHH
Q 028993 32 DLPRDAKIVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQV 77 (200)
Q Consensus 32 ~~PrDa~~I~~ILks~Gv~~yep~Vv~qLLEfay---rYt~~VL~DA~~ 77 (200)
.+|..++-+..+|++.|...+-++++..|-+-|+ .-+..|+.||+.
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 355667777754
No 173
>PF12767 SAGA-Tad1: Transcriptional regulator of RNA polII, SAGA, subunit; InterPro: IPR024738 The yeast Spt-Ada-Gcn5-Acetyl (SAGA) transferase complex is a multifunctional coactivator involved in multiple cellular processes [], including regulation of transcription by RNA polymerase II [, ]. It is formed of five major modular subunits and shows a high degree of structural conservation to human TFTC and STAGA []. This entry represents Ada1 (known as Tada1 in higher eukaryotes), one of the subunits that constitute the SAGA core. It also functions as a component of the SALSA and SLIK complexes. ; GO: 0070461 SAGA-type complex
Probab=23.55 E-value=2e+02 Score=25.08 Aligned_cols=40 Identities=3% Similarity=-0.043 Sum_probs=34.2
Q ss_pred HHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028993 40 VKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYS 79 (200)
Q Consensus 40 I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA 79 (200)
|..|....|..-++.++++.|+--++-|..+||.-....+
T Consensus 212 m~~ia~e~GL~gvs~~~a~ll~~ale~~LK~lI~s~l~~~ 251 (252)
T PF12767_consen 212 MEQIAWEHGLGGVSDDCANLLNLALEVHLKNLIKSCLDLV 251 (252)
T ss_pred HHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 4456677799999999999999999999999999876553
No 174
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=23.27 E-value=3e+02 Score=29.03 Aligned_cols=53 Identities=17% Similarity=0.256 Sum_probs=38.2
Q ss_pred HHHHHHHHhCCCcccchHHHHHHHHHH---HHHHHHHHHHHHHHHhhhCCCCCCHHHHHHH
Q 028993 38 KIVKSLLKSMGVEDYEPRVIHQFLELW---YRYVVDVLTDAQVYSEHAGKNTIDCDDVKLA 95 (200)
Q Consensus 38 ~~I~~ILks~Gv~~yep~Vv~qLLEfa---yrYt~~VL~DA~~yA~HAgR~tI~~eDVrLA 95 (200)
.++..|++.-|+. |+++++..|.+++ .|.+..+|..+..|+ ...|+.++|+-.
T Consensus 185 ~~L~~Il~~EgI~-id~eAL~lIA~~A~GsmRdALsLLdQAia~~----~~~It~~~V~~~ 240 (830)
T PRK07003 185 SHLERILGEERIA-FEPQALRLLARAAQGSMRDALSLTDQAIAYS----ANEVTETAVSGM 240 (830)
T ss_pred HHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc----cCCcCHHHHHHH
Confidence 3567777778875 8999999998887 467777777777654 335777777643
No 175
>PRK13610 photosystem II reaction center protein Psb28; Provisional
Probab=23.09 E-value=90 Score=25.17 Aligned_cols=20 Identities=15% Similarity=0.341 Sum_probs=17.7
Q ss_pred chHHHHHHHHHHHHHHHHHH
Q 028993 53 EPRVIHQFLELWYRYVVDVL 72 (200)
Q Consensus 53 ep~Vv~qLLEfayrYt~~VL 72 (200)
+++--..+|.|++||+.++.
T Consensus 92 s~~~WdRFMRFMeRYA~~~~ 111 (113)
T PRK13610 92 SEEAFERFMRFASRYANSLS 111 (113)
T ss_pred CHHHHHHHHHHHHHHHHHhc
Confidence 78888999999999998874
No 176
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=23.07 E-value=4.2e+02 Score=28.94 Aligned_cols=64 Identities=14% Similarity=0.054 Sum_probs=47.9
Q ss_pred CCChhHHHHHHHHHhC---CCcccchHHHHHHHHHHH------HHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 32 DLPRDAKIVKSLLKSM---GVEDYEPRVIHQFLELWY------RYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 32 ~~PrDa~~I~~ILks~---Gv~~yep~Vv~qLLEfay------rYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
+-|=++.-+..||+.- +-.-++++|+..+.+++. |.+-++|.-|... ++...|+.+||+.|+..
T Consensus 933 F~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAgEi---kegskVT~eHVrkAlee 1005 (1164)
T PTZ00112 933 FSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAFEN---KRGQKIVPRDITEATNQ 1005 (1164)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHHhh---cCCCccCHHHHHHHHHH
Confidence 5677888788887652 113589999999988665 6777888777654 45668999999999854
No 177
>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=22.97 E-value=1.1e+02 Score=23.23 Aligned_cols=28 Identities=29% Similarity=0.380 Sum_probs=12.0
Q ss_pred ChhHHHHHHHHHhCCCcccchHHHHHHHHHH
Q 028993 34 PRDAKIVKSLLKSMGVEDYEPRVIHQFLELW 64 (200)
Q Consensus 34 PrDa~~I~~ILks~Gv~~yep~Vv~qLLEfa 64 (200)
+.+++-+...|+..| ..+.-+.|++.++
T Consensus 56 ~e~~~~l~~~L~~~~---L~~~E~~qi~Nl~ 83 (117)
T PF03874_consen 56 PESIKELREELKKFG---LTEFEILQIINLR 83 (117)
T ss_dssp HHHHHHHHHHHTTST---S-HHHHHHHHHH-
T ss_pred HHHHHHHHHHHhccc---CCHHHHHHHhcCC
Confidence 344455555555555 2333344444443
No 178
>PF08941 USP8_interact: USP8 interacting; InterPro: IPR015036 This protein interacts with the UBP deubiquitinating enzyme USP8. ; GO: 0016881 acid-amino acid ligase activity, 0031386 protein tag, 0016567 protein ubiquitination; PDB: 2FZP_A 2GWF_B 2OGB_A.
Probab=21.67 E-value=32 Score=29.70 Aligned_cols=40 Identities=25% Similarity=0.535 Sum_probs=28.2
Q ss_pred ccCCCCCCChhHHHHHHhhhhcCCCCCCChhHHHHHHHHHhCCCcccchHHHHHHHHHHHH
Q 028993 6 KWGNPASFPSTVNLLQKAEEMAEGDEDLPRDAKIVKSLLKSMGVEDYEPRVIHQFLELWYR 66 (200)
Q Consensus 6 ~~~~~~~~p~~~~~~~~~~~m~~~~~~~PrDa~~I~~ILks~Gv~~yep~Vv~qLLEfayr 66 (200)
.||-=-|+|+++ ||. +|++-|.+.| +....++.|+|.||+
T Consensus 77 rWGgmISTPD~~--Lq~----------------~ir~~L~~sg---CP~hi~~~l~e~~hE 116 (179)
T PF08941_consen 77 RWGGMISTPDSV--LQA----------------MIRRSLSESG---CPMHILNELMENCHE 116 (179)
T ss_dssp -GGGEESS--HH--HHH----------------HHHHHHHHTT-----CCCHHHHHHTTSG
T ss_pred cccCcccCccHH--HHH----------------HHHHHHHhcC---CCHHHHHHHHHHhhh
Confidence 577777888887 765 5778888888 778899999998875
No 179
>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=21.54 E-value=3.4e+02 Score=24.01 Aligned_cols=71 Identities=13% Similarity=0.205 Sum_probs=44.0
Q ss_pred HHHHHHHhCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHhhccccCCCCcHHHHH
Q 028993 39 IVKSLLKSMGVEDYEPRVIHQFLELWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSKVNSSFSQPPAREVLL 114 (200)
Q Consensus 39 ~I~~ILks~Gv~~yep~Vv~qLLEfayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r~~~~F~~pPpre~Ll 114 (200)
-+..+.+.+|+..|.+... |.--..+++..|..|=.....- |=..++.++++.|+..|.-... .-+++.|.
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 3677888899998877654 4555677777777776666655 8788999999999999875322 34556554
No 180
>TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.
Probab=21.25 E-value=5.2e+02 Score=22.06 Aligned_cols=11 Identities=9% Similarity=0.060 Sum_probs=4.4
Q ss_pred cchHHHHHHHH
Q 028993 52 YEPRVIHQFLE 62 (200)
Q Consensus 52 yep~Vv~qLLE 62 (200)
+++++...|++
T Consensus 198 l~~~a~~~l~~ 208 (261)
T TIGR02881 198 LTEEAKWKLRE 208 (261)
T ss_pred cCHHHHHHHHH
Confidence 44444443333
No 181
>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=20.99 E-value=6.5e+02 Score=23.02 Aligned_cols=10 Identities=10% Similarity=0.424 Sum_probs=4.3
Q ss_pred HHHHHHHHhC
Q 028993 38 KIVKSLLKSM 47 (200)
Q Consensus 38 ~~I~~ILks~ 47 (200)
.++..|.+..
T Consensus 291 e~l~~ia~~~ 300 (405)
T TIGR00362 291 EVLEFIAKNI 300 (405)
T ss_pred HHHHHHHHhc
Confidence 3344444443
No 182
>CHL00176 ftsH cell division protein; Validated
Probab=20.86 E-value=3e+02 Score=27.72 Aligned_cols=65 Identities=17% Similarity=0.235 Sum_probs=41.4
Q ss_pred hhHHHHHHHHHhCCC-cccchHH-HHHHHH----HHHHHHHHHHHHHHHHHhhhCCCCCCHHHHHHHHHHh
Q 028993 35 RDAKIVKSLLKSMGV-EDYEPRV-IHQFLE----LWYRYVVDVLTDAQVYSEHAGKNTIDCDDVKLAVQSK 99 (200)
Q Consensus 35 rDa~~I~~ILks~Gv-~~yep~V-v~qLLE----fayrYt~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~r 99 (200)
.|..--..||+.+-- ..+.+++ ...|.+ |.-+-...++.+|...|.-.|+..|+.+|+..|+...
T Consensus 353 Pd~~~R~~IL~~~l~~~~~~~d~~l~~lA~~t~G~sgaDL~~lvneAal~a~r~~~~~It~~dl~~Ai~rv 423 (638)
T CHL00176 353 PDREGRLDILKVHARNKKLSPDVSLELIARRTPGFSGADLANLLNEAAILTARRKKATITMKEIDTAIDRV 423 (638)
T ss_pred CCHHHHHHHHHHHHhhcccchhHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhCCCCcCHHHHHHHHHHH
Confidence 345555555554411 2233333 233333 3445778888888888877889999999999999754
No 183
>PF15337 Vasculin: Vascular protein family Vasculin-like 1
Probab=20.72 E-value=52 Score=25.85 Aligned_cols=22 Identities=27% Similarity=0.463 Sum_probs=16.8
Q ss_pred ChhHHHHHHHHHhCCCcccchH
Q 028993 34 PRDAKIVKSLLKSMGVEDYEPR 55 (200)
Q Consensus 34 PrDa~~I~~ILks~Gv~~yep~ 55 (200)
.--+..=+||||.||-++|++.
T Consensus 6 S~SLEaEhRLLk~MGWqEy~eN 27 (97)
T PF15337_consen 6 SSSLEAEHRLLKAMGWQEYPEN 27 (97)
T ss_pred hhHHHHHHHHHHHhcccccCcC
Confidence 3345667899999999988753
No 184
>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=20.29 E-value=50 Score=29.89 Aligned_cols=30 Identities=10% Similarity=0.159 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHhhhCCCCCCHHHHHHHHHH
Q 028993 69 VDVLTDAQVYSEHAGKNTIDCDDVKLAVQS 98 (200)
Q Consensus 69 ~~VL~DA~~yA~HAgR~tI~~eDVrLAI~~ 98 (200)
..++.=|...|+...|.+|+.+||+.||..
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 566677777888888999999999999976
No 185
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=20.03 E-value=3.6e+02 Score=27.41 Aligned_cols=51 Identities=20% Similarity=0.351 Sum_probs=30.3
Q ss_pred HHHHHHHhCCCcccchHHHHHHHHHHH---HHHHHHHHHHHHHHhhhCCCCCCHHHHHH
Q 028993 39 IVKSLLKSMGVEDYEPRVIHQFLELWY---RYVVDVLTDAQVYSEHAGKNTIDCDDVKL 94 (200)
Q Consensus 39 ~I~~ILks~Gv~~yep~Vv~qLLEfay---rYt~~VL~DA~~yA~HAgR~tI~~eDVrL 94 (200)
.+..|++.-|+. +++.++..|..++. |.+..++..|..+ |...|+.++|+.
T Consensus 186 ~L~~il~~e~i~-~e~~aL~~Ia~~s~Gs~R~Al~lldqaia~----~~~~it~~~v~~ 239 (647)
T PRK07994 186 QLEHILQAEQIP-FEPRALQLLARAADGSMRDALSLTDQAIAS----GNGQVTTDDVSA 239 (647)
T ss_pred HHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHHh----cCCCcCHHHHHH
Confidence 556666667864 88888888877766 4444555444433 223355555543
Done!