Query psy15119
Match_columns 96
No_of_seqs 121 out of 577
Neff 7.0
Searched_HMMs 46136
Date Fri Aug 16 21:04:05 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy15119.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/15119hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00153 histone H2A; Provisio 100.0 2.3E-42 4.9E-47 229.4 7.6 96 1-96 1-96 (129)
2 PLN00157 histone H2A; Provisio 100.0 9.3E-42 2E-46 227.3 7.2 96 1-96 1-98 (132)
3 PTZ00017 histone H2A; Provisio 100.0 3.2E-40 6.9E-45 220.5 7.5 96 1-96 1-99 (134)
4 PLN00156 histone H2AX; Provisi 100.0 1.7E-39 3.6E-44 217.7 7.3 90 7-96 12-101 (139)
5 PLN00154 histone H2A; Provisio 100.0 7.4E-39 1.6E-43 213.8 7.4 86 11-96 25-111 (136)
6 PTZ00252 histone H2A; Provisio 100.0 1.3E-38 2.8E-43 212.1 7.3 84 13-96 13-99 (134)
7 KOG1756|consensus 100.0 1.2E-38 2.5E-43 209.9 7.1 96 1-96 1-99 (131)
8 cd00074 H2A Histone 2A; H2A is 100.0 6.6E-38 1.4E-42 205.5 7.6 88 9-96 5-92 (115)
9 smart00414 H2A Histone 2A. 100.0 3.6E-37 7.8E-42 199.6 6.4 81 16-96 1-81 (106)
10 COG5262 HTA1 Histone H2A [Chro 100.0 2.2E-36 4.7E-41 197.0 7.1 93 4-96 4-98 (132)
11 KOG1757|consensus 100.0 1.3E-33 2.7E-38 183.0 1.7 86 11-96 17-103 (131)
12 PLN00155 histone H2A; Provisio 99.9 4.2E-26 9.2E-31 132.6 4.6 58 1-58 1-58 (58)
13 COG5247 BUR6 Class 2 transcrip 99.7 2.1E-17 4.6E-22 105.6 4.6 77 20-96 19-95 (113)
14 PF00125 Histone: Core histone 99.7 5E-17 1.1E-21 98.4 5.3 73 18-90 2-75 (75)
15 PLN00035 histone H4; Provision 99.7 1.9E-16 4.1E-21 102.0 5.9 86 1-89 1-93 (103)
16 PTZ00015 histone H4; Provision 99.6 1.2E-14 2.5E-19 93.6 6.5 86 1-89 1-94 (102)
17 KOG1659|consensus 99.5 5.2E-15 1.1E-19 105.2 4.9 77 20-96 9-85 (224)
18 PF00808 CBFD_NFYB_HMF: Histon 99.5 3.2E-13 7E-18 80.0 6.6 64 24-87 2-65 (65)
19 COG2036 HHT1 Histones H3 and H 99.4 6.1E-13 1.3E-17 84.1 4.6 74 12-88 9-82 (91)
20 cd00076 H4 Histone H4, one of 99.4 1.2E-12 2.5E-17 82.0 5.3 76 11-89 2-77 (85)
21 smart00803 TAF TATA box bindin 99.3 6.2E-12 1.3E-16 75.0 6.4 64 24-88 2-65 (65)
22 smart00417 H4 Histone H4. 99.3 2.3E-12 4.9E-17 78.7 3.8 73 11-86 2-74 (74)
23 COG5208 HAP5 CCAAT-binding fac 99.0 5.8E-10 1.3E-14 80.3 4.7 74 23-96 108-181 (286)
24 KOG1657|consensus 99.0 9.7E-10 2.1E-14 80.0 5.1 76 21-96 71-146 (236)
25 KOG3467|consensus 98.8 1.3E-08 2.8E-13 63.8 5.8 86 1-89 1-93 (103)
26 cd07981 TAF12 TATA Binding Pro 98.7 1.4E-07 3E-12 57.1 6.6 66 26-91 3-68 (72)
27 cd07979 TAF9 TATA Binding Prot 98.5 3E-07 6.4E-12 60.5 6.4 60 29-89 6-65 (117)
28 PF02969 TAF: TATA box binding 98.2 7.1E-06 1.5E-10 49.1 6.3 64 24-88 3-66 (66)
29 smart00576 BTP Bromodomain tra 98.2 8.5E-06 1.8E-10 49.7 6.4 59 30-89 12-70 (77)
30 cd08050 TAF6 TATA Binding Prot 98.1 8.8E-06 1.9E-10 61.9 6.6 60 29-89 4-63 (343)
31 smart00428 H3 Histone H3. 98.0 1.9E-05 4.1E-10 51.2 5.7 68 21-88 26-99 (105)
32 cd08048 TAF11 TATA Binding Pro 97.9 9.9E-05 2.1E-09 46.1 6.8 63 25-88 17-82 (85)
33 PTZ00463 histone H2B; Provisio 97.7 0.00027 5.8E-09 46.5 7.5 60 29-88 33-92 (117)
34 KOG0869|consensus 97.7 0.00016 3.5E-09 49.8 6.2 66 23-88 31-97 (168)
35 PF15511 CENP-T: Centromere ki 97.7 7.5E-05 1.6E-09 58.2 4.7 72 11-82 338-414 (414)
36 smart00427 H2B Histone H2B. 97.6 0.00027 5.9E-09 44.5 6.1 60 29-88 6-65 (89)
37 PLN00158 histone H2B; Provisio 97.5 0.00046 1E-08 45.4 6.3 61 28-88 31-91 (116)
38 PF04719 TAFII28: hTAFII28-lik 97.4 0.0004 8.6E-09 43.9 5.2 65 24-88 23-88 (90)
39 KOG3219|consensus 97.4 0.0002 4.4E-09 50.8 4.2 66 22-88 110-176 (195)
40 KOG0871|consensus 97.3 0.0011 2.3E-08 45.4 6.4 70 20-89 8-78 (156)
41 PF15630 CENP-S: Kinetochore c 97.2 0.0014 3.1E-08 40.1 5.6 48 46-93 26-76 (76)
42 PF03847 TFIID_20kDa: Transcri 97.1 0.0026 5.6E-08 38.2 5.9 62 29-90 4-65 (68)
43 PF09415 CENP-X: CENP-S associ 97.0 0.0071 1.5E-07 36.6 6.9 61 26-86 1-64 (72)
44 KOG0870|consensus 96.9 0.0046 9.9E-08 43.0 6.1 66 22-88 8-76 (172)
45 PLN00163 histone H4; Provision 96.9 0.00031 6.8E-09 40.9 0.3 46 1-49 1-53 (59)
46 PLN00160 histone H3; Provision 96.8 0.0031 6.6E-08 40.4 4.7 68 21-88 18-90 (97)
47 KOG1658|consensus 96.8 0.00062 1.3E-08 46.8 1.2 74 23-96 58-131 (162)
48 PF02291 TFIID-31kDa: Transcri 96.7 0.0092 2E-07 40.0 6.6 60 28-88 16-75 (129)
49 PF07524 Bromo_TP: Bromodomain 96.7 0.0098 2.1E-07 35.8 6.3 58 30-88 12-69 (77)
50 PTZ00018 histone H3; Provision 96.7 0.0035 7.6E-08 42.4 4.5 66 22-87 60-129 (136)
51 PLN00161 histone H3; Provision 96.6 0.0061 1.3E-07 41.1 5.4 67 22-88 53-124 (135)
52 PLN00121 histone H3; Provision 96.6 0.0035 7.6E-08 42.4 3.9 67 22-88 60-130 (136)
53 KOG1744|consensus 96.4 0.023 5.1E-07 37.9 7.1 67 19-88 35-101 (127)
54 KOG1142|consensus 95.5 0.021 4.6E-07 42.2 3.9 69 25-93 155-223 (258)
55 PF02269 TFIID-18kDa: Transcri 95.3 0.02 4.4E-07 36.1 2.9 54 39-92 16-69 (93)
56 cd07978 TAF13 The TATA Binding 95.2 0.15 3.3E-06 32.1 6.7 62 30-92 8-69 (92)
57 KOG1745|consensus 95.1 0.016 3.6E-07 39.1 2.2 64 25-88 64-131 (137)
58 PF15510 CENP-W: Centromere ki 92.4 0.57 1.2E-05 29.8 5.3 68 21-88 13-94 (102)
59 COG5094 TAF9 Transcription ini 92.1 0.94 2E-05 30.4 6.4 60 29-89 19-81 (145)
60 COG5150 Class 2 transcription 91.5 1 2.2E-05 30.3 6.0 67 22-89 9-77 (148)
61 KOG3334|consensus 90.8 1.6 3.5E-05 29.8 6.6 56 30-89 19-77 (148)
62 KOG2549|consensus 89.0 1.7 3.8E-05 35.5 6.5 57 32-88 18-74 (576)
63 COG5251 TAF40 Transcription in 87.1 1.1 2.4E-05 31.6 3.9 65 23-88 114-179 (199)
64 PF02861 Clp_N: Clp amino term 84.0 1.3 2.8E-05 23.9 2.5 26 66-91 1-26 (53)
65 COG5095 TAF6 Transcription ini 84.0 2.9 6.2E-05 32.5 5.1 51 38-88 18-68 (450)
66 PF13335 Mg_chelatase_2: Magne 81.0 2.9 6.3E-05 26.2 3.6 48 41-88 41-94 (96)
67 PF08369 PCP_red: Proto-chloro 79.3 3 6.5E-05 22.8 2.8 27 60-86 18-44 (45)
68 KOG1658|consensus 79.1 4.2 9E-05 28.2 4.0 69 22-95 9-77 (162)
69 KOG4336|consensus 78.1 6.4 0.00014 30.1 5.1 58 30-88 11-68 (323)
70 TIGR02928 orc1/cdc6 family rep 73.5 21 0.00044 26.6 6.9 60 29-88 203-272 (365)
71 PF13654 AAA_32: AAA domain; P 72.2 6.1 0.00013 31.9 4.0 31 59-89 475-505 (509)
72 PRK00411 cdc6 cell division co 71.3 24 0.00051 26.6 6.8 67 23-89 202-281 (394)
73 KOG3901|consensus 66.3 29 0.00063 22.6 5.4 35 56-91 38-73 (109)
74 TIGR00764 lon_rel lon-related 65.6 28 0.0006 28.7 6.6 30 59-88 360-389 (608)
75 COG1067 LonB Predicted ATP-dep 63.3 20 0.00043 30.0 5.3 31 60-90 369-399 (647)
76 PF05236 TAF4: Transcription i 62.7 19 0.00041 26.3 4.7 56 18-73 37-95 (264)
77 PF12767 SAGA-Tad1: Transcript 55.5 21 0.00046 25.9 3.9 41 28-69 210-250 (252)
78 PF09123 DUF1931: Domain of un 54.1 4.8 0.0001 27.3 0.3 53 31-84 2-54 (138)
79 cd08045 TAF4 TATA Binding Prot 54.1 39 0.00084 23.9 5.0 56 18-73 38-96 (212)
80 TIGR01128 holA DNA polymerase 53.4 55 0.0012 23.5 5.8 67 27-93 113-181 (302)
81 COG1474 CDC6 Cdc6-related prot 52.5 25 0.00054 27.2 4.0 66 22-87 184-262 (366)
82 smart00350 MCM minichromosome 49.9 51 0.0011 26.4 5.5 66 23-88 416-502 (509)
83 PRK05574 holA DNA polymerase I 47.2 68 0.0015 23.5 5.5 63 27-93 148-216 (340)
84 PF12096 DUF3572: Protein of u 46.8 12 0.00025 23.5 1.1 43 41-87 38-80 (88)
85 PRK09862 putative ATP-dependen 46.7 29 0.00063 28.1 3.7 28 61-88 463-490 (506)
86 TIGR02639 ClpA ATP-dependent C 45.2 37 0.00081 28.4 4.2 33 59-91 5-37 (731)
87 CHL00095 clpC Clp protease ATP 44.7 36 0.00079 28.9 4.1 32 60-91 10-41 (821)
88 TIGR03346 chaperone_ClpB ATP-d 44.6 37 0.00081 29.0 4.2 33 59-91 5-37 (852)
89 TIGR02639 ClpA ATP-dependent C 40.8 48 0.001 27.8 4.2 33 59-91 82-114 (731)
90 TIGR00368 Mg chelatase-related 40.6 38 0.00083 27.3 3.5 47 42-88 445-497 (499)
91 COG5248 TAF19 Transcription in 40.3 1.1E+02 0.0023 20.2 5.4 52 41-92 23-75 (126)
92 PRK11034 clpA ATP-dependent Cl 39.5 52 0.0011 28.0 4.2 34 59-92 6-39 (758)
93 PF09077 Phage-MuB_C: Mu B tra 39.3 16 0.00034 22.4 0.9 29 59-88 48-76 (78)
94 PRK05629 hypothetical protein; 39.3 87 0.0019 23.2 5.0 61 28-93 129-195 (318)
95 KOG1051|consensus 39.1 50 0.0011 28.9 4.1 32 60-91 17-48 (898)
96 KOG4654|consensus 39.1 39 0.00085 24.5 3.0 41 46-90 165-205 (252)
97 PF09377 SBDS_C: SBDS protein 39.0 66 0.0014 21.0 3.9 30 20-49 18-47 (125)
98 TIGR02263 benz_CoA_red_C benzo 37.9 83 0.0018 24.2 4.9 37 54-91 136-172 (380)
99 KOG3902|consensus 37.8 1.4E+02 0.0031 23.1 5.9 52 40-91 40-91 (352)
100 TIGR03015 pepcterm_ATPase puta 37.7 72 0.0016 22.4 4.3 46 43-88 216-264 (269)
101 TIGR03345 VI_ClpV1 type VI sec 37.6 53 0.0011 28.3 4.0 32 59-90 5-36 (852)
102 PHA02943 hypothetical protein; 37.3 78 0.0017 22.1 4.1 35 59-93 76-110 (165)
103 PTZ00361 26 proteosome regulat 37.2 54 0.0012 26.1 3.8 29 61-89 395-423 (438)
104 TIGR01242 26Sp45 26S proteasom 37.2 63 0.0014 24.4 4.1 29 61-89 334-362 (364)
105 CHL00095 clpC Clp protease ATP 36.3 59 0.0013 27.7 4.1 33 59-91 84-116 (821)
106 PHA01971 hypothetical protein 34.0 37 0.0008 22.6 2.1 21 70-90 12-32 (123)
107 COG4905 Predicted membrane pro 33.0 51 0.0011 23.9 2.8 22 47-68 70-91 (243)
108 PRK07452 DNA polymerase III su 32.9 1.3E+02 0.0028 22.1 5.1 61 30-90 135-199 (326)
109 TIGR02442 Cob-chelat-sub cobal 32.9 71 0.0015 26.4 4.0 47 42-88 249-302 (633)
110 PRK06585 holA DNA polymerase I 32.9 1.1E+02 0.0024 22.7 4.8 63 28-93 145-213 (343)
111 PRK10865 protein disaggregatio 32.8 72 0.0016 27.5 4.1 33 59-91 10-42 (857)
112 PF11705 RNA_pol_3_Rpc31: DNA- 32.2 34 0.00073 24.6 1.8 9 1-9 1-9 (233)
113 COG1466 HolA DNA polymerase II 31.8 1.5E+02 0.0032 22.2 5.3 67 28-94 143-211 (334)
114 PRK07914 hypothetical protein; 31.7 1E+02 0.0022 22.8 4.4 63 26-93 129-197 (320)
115 KOG3131|consensus 31.4 41 0.00089 25.2 2.1 38 23-64 39-76 (281)
116 PRK03992 proteasome-activating 31.3 91 0.002 24.0 4.2 28 62-89 344-371 (389)
117 COG0542 clpA ATP-binding subun 31.1 82 0.0018 27.2 4.1 33 59-91 6-38 (786)
118 TIGR02030 BchI-ChlI magnesium 31.1 85 0.0019 24.0 3.9 46 42-87 254-306 (337)
119 PRK08487 DNA polymerase III su 30.4 1.6E+02 0.0034 22.0 5.2 60 28-93 138-203 (328)
120 KOG3321|consensus 29.9 20 0.00043 25.2 0.3 41 43-84 119-159 (175)
121 TIGR03346 chaperone_ClpB ATP-d 29.8 89 0.0019 26.8 4.2 33 59-91 82-114 (852)
122 TIGR02902 spore_lonB ATP-depen 29.0 87 0.0019 25.3 3.8 29 61-89 303-331 (531)
123 TIGR03191 benz_CoA_bzdO benzoy 28.9 1.2E+02 0.0027 23.8 4.6 39 51-90 153-191 (430)
124 PRK13406 bchD magnesium chelat 28.2 1.2E+02 0.0026 25.1 4.5 48 41-88 194-248 (584)
125 PRK13194 pyrrolidone-carboxyla 27.3 88 0.0019 22.3 3.2 42 22-63 112-153 (208)
126 PF03540 TFIID_30kDa: Transcri 27.0 1.3E+02 0.0027 16.9 5.5 47 24-71 2-48 (51)
127 PRK05907 hypothetical protein; 26.2 1.6E+02 0.0035 22.1 4.7 63 28-93 137-206 (311)
128 PHA02669 hypothetical protein; 26.1 71 0.0015 22.6 2.5 37 47-86 12-48 (210)
129 KOG0610|consensus 26.1 75 0.0016 25.6 2.9 30 28-58 162-195 (459)
130 PF01470 Peptidase_C15: Pyrogl 25.8 97 0.0021 21.8 3.2 44 23-66 113-156 (202)
131 TIGR03190 benz_CoA_bzdN benzoy 25.8 1.8E+02 0.0038 22.4 4.9 39 52-91 130-168 (377)
132 cd05833 Ribosomal_P2 Ribosomal 25.6 1.1E+02 0.0024 19.7 3.2 28 55-88 1-28 (109)
133 COG3636 Predicted transcriptio 25.6 92 0.002 20.0 2.7 46 45-90 21-73 (100)
134 PTZ00373 60S Acidic ribosomal 25.5 1.4E+02 0.0031 19.4 3.7 28 55-88 3-30 (112)
135 PF12213 Dpoe2NT: DNA polymera 25.3 95 0.0021 18.5 2.7 49 40-88 17-71 (73)
136 PF04558 tRNA_synt_1c_R1: Glut 25.3 1.6E+02 0.0035 20.2 4.2 41 47-89 83-128 (164)
137 PF09453 HIRA_B: HIRA B motif; 24.8 23 0.0005 16.9 -0.1 13 72-84 8-20 (24)
138 PF08672 APC2: Anaphase promot 24.8 92 0.002 17.8 2.5 12 25-36 12-23 (60)
139 KOG0480|consensus 24.5 2.7E+02 0.0059 23.9 5.9 67 22-88 555-641 (764)
140 PRK11034 clpA ATP-dependent Cl 24.4 1.3E+02 0.0029 25.6 4.2 34 59-92 84-117 (758)
141 PF13643 DUF4145: Domain of un 24.3 1.6E+02 0.0034 17.1 3.7 25 63-88 60-84 (87)
142 COG0375 HybF Zn finger protein 23.8 99 0.0021 20.3 2.7 22 58-79 6-27 (115)
143 PRK13407 bchI magnesium chelat 23.3 1.6E+02 0.0034 22.5 4.1 47 41-87 250-303 (334)
144 PLN00138 large subunit ribosom 22.8 1.3E+02 0.0029 19.5 3.2 28 55-88 1-28 (113)
145 PRK15358 pathogenicity island 22.0 87 0.0019 22.7 2.3 39 21-59 150-188 (239)
146 PTZ00454 26S protease regulato 21.3 1.6E+02 0.0034 23.0 3.9 28 62-89 358-385 (398)
147 KOG2389|consensus 20.1 4.4E+02 0.0095 20.7 6.0 73 15-88 18-92 (353)
No 1
>PLN00153 histone H2A; Provisional
Probab=100.00 E-value=2.3e-42 Score=229.44 Aligned_cols=96 Identities=77% Similarity=1.189 Sum_probs=91.7
Q ss_pred CCCCCCCCCCCccccCcccccCcccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccH
Q psy15119 1 MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIP 80 (96)
Q Consensus 1 m~~~~~~~~~~~~~~s~s~ra~l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp 80 (96)
|||+|++++.+++..|+|+|+||+|||+||+|+|++++++.||+++|||||+||||||++||||+|+|.|+++++++|+|
T Consensus 1 m~g~~~~~~~~~k~~srS~ragL~FpVgRi~R~Lr~g~~a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItP 80 (129)
T PLN00153 1 MAGRGKGKTSGKKAVSRSAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVP 80 (129)
T ss_pred CCCCCCCCccccCccCcccccCcccchHHHHHHHhcCchhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCh
Confidence 99998866656678999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhcchhcCCC
Q psy15119 81 RHLQLAIRNDEELNKL 96 (96)
Q Consensus 81 ~~i~~ai~~d~eL~~L 96 (96)
+||++||+||+||++|
T Consensus 81 rHi~lAI~nDeEL~~L 96 (129)
T PLN00153 81 RHIQLAIRNDEELGKL 96 (129)
T ss_pred HHHHhhccCcHHHHHH
Confidence 9999999999999875
No 2
>PLN00157 histone H2A; Provisional
Probab=100.00 E-value=9.3e-42 Score=227.26 Aligned_cols=96 Identities=78% Similarity=1.203 Sum_probs=91.0
Q ss_pred CCCCCC--CCCCCccccCcccccCcccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcc
Q psy15119 1 MSGRGK--GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRI 78 (96)
Q Consensus 1 m~~~~~--~~~~~~~~~s~s~ra~l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~I 78 (96)
|||+|+ +++.+++..|+|+||||+|||+||+|+|++++++.||+++|+|||+||||||++||||+|+|.|+++++++|
T Consensus 1 ms~~g~~~~~~~~~k~~srS~ragL~FPVgRi~R~Lk~g~~a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RI 80 (132)
T PLN00157 1 MSGRGKRKGGGGGKKATSRSAKAGLQFPVGRIARYLKAGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRI 80 (132)
T ss_pred CCCCCCCCCCccCcCCcCcccccCcccchHHHHHHHhcCchhhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccc
Confidence 999987 445667889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cHHHHHHHHhcchhcCCC
Q psy15119 79 IPRHLQLAIRNDEELNKL 96 (96)
Q Consensus 79 tp~~i~~ai~~d~eL~~L 96 (96)
+|+||++||+||+||++|
T Consensus 81 tPrHi~lAI~nDeEL~~L 98 (132)
T PLN00157 81 VPRHIQLAVRNDEELSKL 98 (132)
T ss_pred cHHHHhhcccCcHHHHHH
Confidence 999999999999999865
No 3
>PTZ00017 histone H2A; Provisional
Probab=100.00 E-value=3.2e-40 Score=220.51 Aligned_cols=96 Identities=76% Similarity=1.165 Sum_probs=88.6
Q ss_pred CCCCCCCC-CC--CccccCcccccCcccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCc
Q psy15119 1 MSGRGKGG-KA--KAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTR 77 (96)
Q Consensus 1 m~~~~~~~-~~--~~~~~s~s~ra~l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~ 77 (96)
|+|||+.+ ++ +++..|+|+|+||+|||+||+|+|++++++.||+++|+|||+||||||++||||+|+|.|+++++++
T Consensus 1 ~~~~~~~~~~~~~~~k~~srS~ragL~FPVgRi~R~Lk~g~~a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~R 80 (134)
T PTZ00017 1 KGGKGKTGGGKAGKKKPVSRSAKAGLQFPVGRVHRYLKKGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKR 80 (134)
T ss_pred CCCCCcCCCCcccCcCcccccccCCcccchHHHHHHHhccchhccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCe
Confidence 67776542 22 5667899999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccHHHHHHHHhcchhcCCC
Q psy15119 78 IIPRHLQLAIRNDEELNKL 96 (96)
Q Consensus 78 Itp~~i~~ai~~d~eL~~L 96 (96)
|+|+||++||+||+||++|
T Consensus 81 ItPrHi~lAI~nDeEL~~L 99 (134)
T PTZ00017 81 ITPRHIQLAIRNDEELNKL 99 (134)
T ss_pred ecHHHHHhhccCcHHHHHH
Confidence 9999999999999999875
No 4
>PLN00156 histone H2AX; Provisional
Probab=100.00 E-value=1.7e-39 Score=217.74 Aligned_cols=90 Identities=78% Similarity=1.172 Sum_probs=85.4
Q ss_pred CCCCCccccCcccccCcccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHH
Q psy15119 7 GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLA 86 (96)
Q Consensus 7 ~~~~~~~~~s~s~ra~l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~a 86 (96)
+++++++..|+|+|+||+|||+||+|+|++++++.||+++|||||+||||||++||||+|+|.|+++++++|+|+||++|
T Consensus 12 g~~~~~k~~srS~rAgL~FPVgRi~R~Lk~g~ya~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi~lA 91 (139)
T PLN00156 12 GKPKATKSVSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLA 91 (139)
T ss_pred CcccccCCcCcccccCcccchHHHHHHHhcCChhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHhh
Confidence 34456788899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhcchhcCCC
Q psy15119 87 IRNDEELNKL 96 (96)
Q Consensus 87 i~~d~eL~~L 96 (96)
|+||+||++|
T Consensus 92 IrnDeEL~~L 101 (139)
T PLN00156 92 VRNDEELSKL 101 (139)
T ss_pred ccCcHHHHHH
Confidence 9999999875
No 5
>PLN00154 histone H2A; Provisional
Probab=100.00 E-value=7.4e-39 Score=213.82 Aligned_cols=86 Identities=69% Similarity=0.970 Sum_probs=82.2
Q ss_pred CccccCcccccCcccchhhhhhhhhcCC-cccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhc
Q psy15119 11 KAKSKTRSSRAGLQFPVGRIHRLLRKGN-YAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRN 89 (96)
Q Consensus 11 ~~~~~s~s~ra~l~fpv~ri~r~lk~~~-~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~ 89 (96)
+++..|+|+|+||||||+||+|+|+++. +++||+.+|||||+||||||++||||+|+|.|+++++++|+|+||++||+|
T Consensus 25 ~~k~~srS~rAgL~FPVgRi~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lAIrn 104 (136)
T PLN00154 25 KKKPTSRSSRAGLQFPVGRIHRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 104 (136)
T ss_pred CcCCcCcccccCccCchHHHHHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhhccC
Confidence 4678899999999999999999999986 578999999999999999999999999999999999999999999999999
Q ss_pred chhcCCC
Q psy15119 90 DEELNKL 96 (96)
Q Consensus 90 d~eL~~L 96 (96)
|+||++|
T Consensus 105 DeEL~~L 111 (136)
T PLN00154 105 DEELDTL 111 (136)
T ss_pred cHHHHHH
Confidence 9999875
No 6
>PTZ00252 histone H2A; Provisional
Probab=100.00 E-value=1.3e-38 Score=212.05 Aligned_cols=84 Identities=55% Similarity=0.920 Sum_probs=79.0
Q ss_pred cccC-cccccCcccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHh--cCCCcccHHHHHHHHhc
Q psy15119 13 KSKT-RSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARD--NKKTRIIPRHLQLAIRN 89 (96)
Q Consensus 13 ~~~s-~s~ra~l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~--~~~k~Itp~~i~~ai~~ 89 (96)
+..+ +|+||||||||+||+|+|++++++.||+++|||||+||||||++||||+|+|.|++ +++++|+|+||++||+|
T Consensus 13 ~~~~~rS~rAGL~FPVgRi~R~Lr~g~ya~RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~kk~RItPrHi~lAIrN 92 (134)
T PTZ00252 13 KSGSGRSAKAGLIFPVGRVGSLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPKRLTPRTVTLAVRH 92 (134)
T ss_pred ccccccccccCccCchHHHHHHHHcCCcccccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccccHHHHHhhccC
Confidence 3444 99999999999999999999999999999999999999999999999999999975 67789999999999999
Q ss_pred chhcCCC
Q psy15119 90 DEELNKL 96 (96)
Q Consensus 90 d~eL~~L 96 (96)
|+||++|
T Consensus 93 DeEL~~L 99 (134)
T PTZ00252 93 DDDLGSL 99 (134)
T ss_pred hHHHHHH
Confidence 9999875
No 7
>KOG1756|consensus
Probab=100.00 E-value=1.2e-38 Score=209.93 Aligned_cols=96 Identities=88% Similarity=1.284 Sum_probs=89.2
Q ss_pred CCCCCCCCCC---CccccCcccccCcccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCc
Q psy15119 1 MSGRGKGGKA---KAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTR 77 (96)
Q Consensus 1 m~~~~~~~~~---~~~~~s~s~ra~l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~ 77 (96)
|+|++++|+. ++++.|+|.++|||||||+|+|+|+++++++||+.+|||||+||||||++||+|+|+|.|+++++.+
T Consensus 1 ~s~~~k~gk~~~~~~~~~srs~~agl~fPvgri~r~Lr~~~~~~ri~~gapV~laavLeYL~Aeile~agnaardnkk~r 80 (131)
T KOG1756|consen 1 MSGRGKGGKAKPRAKAKSSRSSRAGLQFPVGRIHRLLRKGRYAQRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTR 80 (131)
T ss_pred CCccCCCCcccchhhhhcchhhhcccccCHHHHHHHHHccchhhhccCCChHHHHHHHHHHHHHHHHHhHHHhhhcCccc
Confidence 7888776654 3566788999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccHHHHHHHHhcchhcCCC
Q psy15119 78 IIPRHLQLAIRNDEELNKL 96 (96)
Q Consensus 78 Itp~~i~~ai~~d~eL~~L 96 (96)
|+|+||++||+||+||++|
T Consensus 81 i~PrH~~lAI~NDeEL~~l 99 (131)
T KOG1756|consen 81 ITPRHLQLAIRNDEELNKL 99 (131)
T ss_pred cChHHHHHHHhCcHHHHHH
Confidence 9999999999999999875
No 8
>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=100.00 E-value=6.6e-38 Score=205.50 Aligned_cols=88 Identities=84% Similarity=1.248 Sum_probs=84.8
Q ss_pred CCCccccCcccccCcccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 9 KAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 9 ~~~~~~~s~s~ra~l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
|++++..|+|+|+||+|||+||+|||+++.+++|||++|+|||+||||||++||+|+|+|.|+++++++|+|+||++||+
T Consensus 5 k~~~~~~s~s~ragL~fPV~ri~R~Lk~~~~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi~ 84 (115)
T cd00074 5 KKKSKKRSRSARAGLQFPVGRIHRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAVR 84 (115)
T ss_pred ccCcCccccccccCccCcHHHHHHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHHh
Confidence 66678889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cchhcCCC
Q psy15119 89 NDEELNKL 96 (96)
Q Consensus 89 ~d~eL~~L 96 (96)
||+||++|
T Consensus 85 nD~EL~~L 92 (115)
T cd00074 85 NDEELNKL 92 (115)
T ss_pred ccHHHHHH
Confidence 99999865
No 9
>smart00414 H2A Histone 2A.
Probab=100.00 E-value=3.6e-37 Score=199.57 Aligned_cols=81 Identities=90% Similarity=1.319 Sum_probs=78.9
Q ss_pred CcccccCcccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhcchhcCC
Q psy15119 16 TRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNK 95 (96)
Q Consensus 16 s~s~ra~l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~eL~~ 95 (96)
|+|+|+||+|||+||+|+|++++++.||+++|+|||+||||||++||||+|+|.|+++++++|+|+||++||+||+||++
T Consensus 1 srS~ragL~fPVgRi~r~Lk~~~~~~Rv~~~A~VyLaAvLEYLtaEILeLagn~a~~~k~~rItp~hi~lAi~nD~EL~~ 80 (106)
T smart00414 1 SRSARAGLQFPVGRIHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIRNDEELNK 80 (106)
T ss_pred CccccCCccCchHHHHHHHHcCccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchHHHhhhccCCHHHHH
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999986
Q ss_pred C
Q psy15119 96 L 96 (96)
Q Consensus 96 L 96 (96)
|
T Consensus 81 L 81 (106)
T smart00414 81 L 81 (106)
T ss_pred H
Confidence 5
No 10
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]
Probab=100.00 E-value=2.2e-36 Score=197.04 Aligned_cols=93 Identities=81% Similarity=1.210 Sum_probs=84.9
Q ss_pred CCCCCCC--CccccCcccccCcccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHH
Q psy15119 4 RGKGGKA--KAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPR 81 (96)
Q Consensus 4 ~~~~~~~--~~~~~s~s~ra~l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~ 81 (96)
+||++|. .+-..|+|.++|++|||+||+|+|+.+++..||+++|+||++||||||++||+|+|+|.|+++++++|+|+
T Consensus 4 ~GKGgK~a~~r~~~s~sa~agl~fpvgrvkr~lk~~~~~~Rig~~A~Vyl~AvleYL~aEilelAgNaA~d~kkkri~Pr 83 (132)
T COG5262 4 GGKGGKAADARVSQSRSAKAGLIFPVGRVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIPR 83 (132)
T ss_pred CCcCcccccchhccchhhhcCccccHHHHHHHHHcCccceeecCCcHHHHHHHHHHHHHHHHHHhhhhhhhcCcceechH
Confidence 3455562 33455789999999999999999999899999999999999999999999999999999999999999999
Q ss_pred HHHHHHhcchhcCCC
Q psy15119 82 HLQLAIRNDEELNKL 96 (96)
Q Consensus 82 ~i~~ai~~d~eL~~L 96 (96)
||++||+||+||++|
T Consensus 84 HlqlAIrnD~EL~~l 98 (132)
T COG5262 84 HLQLAIRNDEELNKL 98 (132)
T ss_pred HHHHHhcCcHHHHHH
Confidence 999999999999976
No 11
>KOG1757|consensus
Probab=99.97 E-value=1.3e-33 Score=183.00 Aligned_cols=86 Identities=69% Similarity=0.974 Sum_probs=81.3
Q ss_pred CccccCcccccCcccchhhhhhhhhcCC-cccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhc
Q psy15119 11 KAKSKTRSSRAGLQFPVGRIHRLLRKGN-YAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRN 89 (96)
Q Consensus 11 ~~~~~s~s~ra~l~fpv~ri~r~lk~~~-~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~ 89 (96)
+.+.+|+|.|+|+||||+||+|.|+... ...||+..++||.+++||||++|+||+|+|.+++.+.++|||+|+++||+.
T Consensus 17 ~~k~vs~s~raGlqFpVgRihr~LK~r~t~h~rVGataavy~aaileYLTaEVLeLAgNasKdLKvKRitprHlqLAiRG 96 (131)
T KOG1757|consen 17 KAKAVSRSARAGLQFPVGRIHRHLKTRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 96 (131)
T ss_pred hhhhhhHHHhcccccchHHHHHHHHHhcccccccchHHHHHHHHHHHHHHHHHHHHcccccccceeeeccchhheeeecC
Confidence 4677899999999999999999999965 459999999999999999999999999999999999999999999999999
Q ss_pred chhcCCC
Q psy15119 90 DEELNKL 96 (96)
Q Consensus 90 d~eL~~L 96 (96)
|+|||+|
T Consensus 97 DeELDtL 103 (131)
T KOG1757|consen 97 DEELDTL 103 (131)
T ss_pred cHHHHHH
Confidence 9999976
No 12
>PLN00155 histone H2A; Provisional
Probab=99.92 E-value=4.2e-26 Score=132.56 Aligned_cols=58 Identities=71% Similarity=1.180 Sum_probs=54.0
Q ss_pred CCCCCCCCCCCccccCcccccCcccchhhhhhhhhcCCcccccCCChHHHHHHHHHHH
Q psy15119 1 MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYL 58 (96)
Q Consensus 1 m~~~~~~~~~~~~~~s~s~ra~l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl 58 (96)
|||+|++++..++..|+|+++||||||+||+|.|++++++.||+.+|||||+||||||
T Consensus 1 msg~g~g~~~~~k~~srS~rAgL~FPVgri~r~Lr~g~~a~Rvga~apVYlAAVLEYL 58 (58)
T PLN00155 1 MAGRGKGKTSGKKAVSRSAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYL 58 (58)
T ss_pred CCCCCCCCccccCccCcccccccccchHHHHHHHhcCChhhcccCCcHHHHHHHHHhC
Confidence 8999886665667899999999999999999999999999999999999999999996
No 13
>COG5247 BUR6 Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]
Probab=99.69 E-value=2.1e-17 Score=105.65 Aligned_cols=77 Identities=23% Similarity=0.473 Sum_probs=74.1
Q ss_pred ccCcccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhcchhcCCC
Q psy15119 20 RAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKL 96 (96)
Q Consensus 20 ra~l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~eL~~L 96 (96)
+-...||++|++++|+.+.+.++|+..+||.....||+|+.+|+.++++.|+..+.+|||.++|..|+.+|+.||+|
T Consensus 19 ~~ktrFP~ar~KkIMQ~deDiGKV~q~tPVIaskalE~Fl~~iv~~s~k~aR~~~skR~t~e~lk~a~~sdekFdFL 95 (113)
T COG5247 19 KKKTRFPIARLKKIMQLDEDIGKVGQSTPVIASKALEMFLTEIVGLSLKEARKKSSKRMTSEFLKRATESDEKFDFL 95 (113)
T ss_pred hhhhcCCHHHHHHHHHhhhhhhhhhhcchHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHhhhHHHHHH
Confidence 45678999999999999999999999999999999999999999999999999999999999999999999999986
No 14
>PF00125 Histone: Core histone H2A/H2B/H3/H4 histone h2a signature histone h2b signature histone h3 signature histone h4 signature; InterPro: IPR007125 The core histones together with some other DNA binding proteins appear to form a superfamily defined by a common fold and distant sequence similarities [, ]. Some proteins contain local homology domains related to the histone fold [].; GO: 0003677 DNA binding; PDB: 2YFW_D 2YFV_B 1U35_H 2F8N_D 2PYO_D 2NQB_D 3AN2_C 3AZJ_C 3AV1_G 3AZM_G ....
Probab=99.69 E-value=5e-17 Score=98.40 Aligned_cols=73 Identities=41% Similarity=0.589 Sum_probs=67.6
Q ss_pred ccccCcccchhhhhhhhhcCCcc-cccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhcc
Q psy15119 18 SSRAGLQFPVGRIHRLLRKGNYA-ERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRND 90 (96)
Q Consensus 18 s~ra~l~fpv~ri~r~lk~~~~~-~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d 90 (96)
+.+..+.||+.++.+-+..+.+. .||+.+|+++|.+++||++.+|++.|++.|.++++++|+|+||+.|++.|
T Consensus 2 ~~~~~~~~~~~r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r~~ 75 (75)
T PF00125_consen 2 TRRLIPKFPFSRLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLAVRID 75 (75)
T ss_dssp HSHSSSHHHHHHHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHHHT
T ss_pred cccccCceEEeeeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHHHhcC
Confidence 45678899999999999997666 59999999999999999999999999999999999999999999999875
No 15
>PLN00035 histone H4; Provisional
Probab=99.66 E-value=1.9e-16 Score=102.00 Aligned_cols=86 Identities=23% Similarity=0.346 Sum_probs=74.9
Q ss_pred CCCCCCCCC-------CCccccCcccccCcccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy15119 1 MSGRGKGGK-------AKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDN 73 (96)
Q Consensus 1 m~~~~~~~~-------~~~~~~s~s~ra~l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~ 73 (96)
|||+||++| ++++++.+.+-++ +|.+.|.|+++. ..+.|||.++...+..+||.++.+|+..|..+|+|.
T Consensus 1 m~~~~k~~~g~g~~g~kr~~k~~~d~i~~--ipk~~IrRLARr-~GvkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA 77 (103)
T PLN00035 1 MSGRGKGGKGLGKGGAKRHRKVLRDNIQG--ITKPAIRRLARR-GGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHA 77 (103)
T ss_pred CCCCCCCCCCCCCCcchHHHHHHHhhhcc--CCHHHHHHHHHH-cCcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 888887544 2555556666666 777789999999 568999999999999999999999999999999999
Q ss_pred CCCcccHHHHHHHHhc
Q psy15119 74 KKTRIIPRHLQLAIRN 89 (96)
Q Consensus 74 ~~k~Itp~~i~~ai~~ 89 (96)
+++||+++||.+|++.
T Consensus 78 ~RKTV~~~DV~~Alkr 93 (103)
T PLN00035 78 RRKTVTAMDVVYALKR 93 (103)
T ss_pred CCCcCcHHHHHHHHHH
Confidence 9999999999999873
No 16
>PTZ00015 histone H4; Provisional
Probab=99.56 E-value=1.2e-14 Score=93.61 Aligned_cols=86 Identities=22% Similarity=0.334 Sum_probs=71.6
Q ss_pred CCCCCCCCC--------CCccccCcccccCcccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy15119 1 MSGRGKGGK--------AKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARD 72 (96)
Q Consensus 1 m~~~~~~~~--------~~~~~~s~s~ra~l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~ 72 (96)
|+|+||+++ +++++..+.+-.|++. +.|.|+++. ..+.|||.++...+..+||.++.+|+..|..+|+|
T Consensus 1 ~~~~~k~~~~~~~~g~~kr~rk~~r~~i~gI~k--~~IrRLarr-~GvkRIS~d~y~e~r~vle~~l~~I~rdav~~aeH 77 (102)
T PTZ00015 1 MSGMGKGKKSLGAKGGQKRQKKVLRDNIRGITK--GAIRRLARR-GGVKRISGDIYEEVRGVLKAFLENVVRDSTAYTEY 77 (102)
T ss_pred CCCcccCCCccccccchhhHHHHHhhcccCCCH--HHHHHHHHH-cCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 677666432 2445555566666554 569999999 67899999999999999999999999999999999
Q ss_pred cCCCcccHHHHHHHHhc
Q psy15119 73 NKKTRIIPRHLQLAIRN 89 (96)
Q Consensus 73 ~~~k~Itp~~i~~ai~~ 89 (96)
.++++|+++||.+|++.
T Consensus 78 A~RKTVt~~DV~~AlKr 94 (102)
T PTZ00015 78 ARRKTVTAMDVVYALKR 94 (102)
T ss_pred cCCCcccHHHHHHHHHh
Confidence 99999999999999863
No 17
>KOG1659|consensus
Probab=99.55 E-value=5.2e-15 Score=105.22 Aligned_cols=77 Identities=19% Similarity=0.397 Sum_probs=73.7
Q ss_pred ccCcccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhcchhcCCC
Q psy15119 20 RAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKL 96 (96)
Q Consensus 20 ra~l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~eL~~L 96 (96)
+-...||++||++|||.+.+.++|...+||.+...||.|+.+|+..++..+...+.||++++||+.||.+|+.||||
T Consensus 9 ~~~trfp~aRiKKIMQ~dEdIGKvaqavPViisralElFl~~l~~~t~~~t~~~~aKt~s~~hlkq~v~~~~~FdFL 85 (224)
T KOG1659|consen 9 KYKTRFPPARIKKIMQSDEDIGKVAQAVPVIISRALELFLESLLQKTLEITRSRGAKTVSSSHLKQAVESDPKFDFL 85 (224)
T ss_pred hhhccCCHHHHHHHHhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCccccCHHHHHHHHhccchhHHH
Confidence 44567999999999999999999999999999999999999999999999999999999999999999999999987
No 18
>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=99.45 E-value=3.2e-13 Score=79.99 Aligned_cols=64 Identities=20% Similarity=0.288 Sum_probs=58.3
Q ss_pred ccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHH
Q psy15119 24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAI 87 (96)
Q Consensus 24 ~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai 87 (96)
.||+++|+|+||.+....+||.+|...++.+.|.|+.+|...|...|.+.++++|+++||..|+
T Consensus 2 ~lP~a~vkri~k~~~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~~rkti~~~Dv~~Av 65 (65)
T PF00808_consen 2 SLPLARVKRIMKSDPDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTITYEDVAKAV 65 (65)
T ss_dssp SS-HHHHHHHHHHTSTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE-HHHHHHHH
T ss_pred CCChHHHHHHhccCCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHC
Confidence 5999999999999877889999999999999999999999999999999999999999999886
No 19
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=99.38 E-value=6.1e-13 Score=84.13 Aligned_cols=74 Identities=30% Similarity=0.385 Sum_probs=65.4
Q ss_pred ccccCcccccCcccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 12 AKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 12 ~~~~s~s~ra~l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
..+..++. .+-+|+..|.|+|++ ....|||.+|...|..++|-++.+|.+.|...|.|.|++||+++||++|++
T Consensus 9 ~r~~~~~~--~~~Lp~apv~Ri~r~-~~~~Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~ 82 (91)
T COG2036 9 IRRYQRST--DLLLPKAPVRRILRK-AGAERVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALK 82 (91)
T ss_pred HHhhhhhh--hhhcCchHHHHHHHH-HhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHH
Confidence 33334443 477889999999999 567899999999999999999999999999999999999999999999986
No 20
>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=99.37 E-value=1.2e-12 Score=81.96 Aligned_cols=76 Identities=17% Similarity=0.254 Sum_probs=67.2
Q ss_pred CccccCcccccCcccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhc
Q psy15119 11 KAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRN 89 (96)
Q Consensus 11 ~~~~~s~s~ra~l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~ 89 (96)
+++++-+.+-+| +|.+.|.|+.+. .++.|||.++...+..+||.++.+|+..|..+++|.++++|+++||.+|++.
T Consensus 2 r~r~~~~~~~~g--i~k~~I~RLarr-~GvkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr 77 (85)
T cd00076 2 RHRKVLRDNIKG--ITKPAIRRLARR-GGVKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKR 77 (85)
T ss_pred chhHHHHHhhcc--CCHHHHHHHHHH-cCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHH
Confidence 455666667777 555569999999 5689999999999999999999999999999999999999999999999874
No 21
>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=99.32 E-value=6.2e-12 Score=75.05 Aligned_cols=64 Identities=22% Similarity=0.251 Sum_probs=60.6
Q ss_pred ccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 24 ~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
.+|.+.|+|+.+. .+..|||.++...|+..+||.+.+|+..|.++++|++|++++++||+.|++
T Consensus 2 ~~p~~~i~ria~~-~Gi~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk 65 (65)
T smart00803 2 WLPKETIKDVAES-LGIGNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR 65 (65)
T ss_pred CCCHHHHHHHHHH-CCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence 4899999999999 577899999999999999999999999999999999999999999999874
No 22
>smart00417 H4 Histone H4.
Probab=99.30 E-value=2.3e-12 Score=78.75 Aligned_cols=73 Identities=16% Similarity=0.175 Sum_probs=63.5
Q ss_pred CccccCcccccCcccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHH
Q psy15119 11 KAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLA 86 (96)
Q Consensus 11 ~~~~~s~s~ra~l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~a 86 (96)
+++++-+.+-.|++ .+.|.|+++. .++.|||.++...+..+||.|+.+|+..|..+++|.++++|+.+||..|
T Consensus 2 r~~~~~~d~i~gI~--k~~IrRLaRr-~GvkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~~a 74 (74)
T smart00417 2 RHKKVLRDNIQGIT--KPAIRRLARR-GGVKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVVYA 74 (74)
T ss_pred chhHHHHhhhcCCC--HHHHHHHHHH-cCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHheeC
Confidence 34556666777755 5569999999 6789999999999999999999999999999999999999999998753
No 23
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]
Probab=98.99 E-value=5.8e-10 Score=80.34 Aligned_cols=74 Identities=23% Similarity=0.384 Sum_probs=71.1
Q ss_pred cccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhcchhcCCC
Q psy15119 23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKL 96 (96)
Q Consensus 23 l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~eL~~L 96 (96)
..+|++||+++||.+.+..-|++.||+.++.+.|-|++|+.-.|+-.|+.++++++...||..|++..+-+|+|
T Consensus 108 h~LPlARIkkvMKtdedVkMisaEaPvlFak~~EiFI~ELTmRAW~~ae~NkRRtLQksDia~Av~kSeMfDFL 181 (286)
T COG5208 108 HNLPLARIKKVMKTDEDVKMISAEAPVLFAKITEIFIEELTMRAWINAEENKRRTLQKSDIAAAVKKSEMFDFL 181 (286)
T ss_pred ccCcHHHHHHHHhcccchhheecccchHHHHHHHHHHHHHHHHHHHHHhHhhhhHHHHHHHHHHHHHHHHHhHH
Confidence 45999999999999999999999999999999999999999999999999999999999999999999999886
No 24
>KOG1657|consensus
Probab=98.96 E-value=9.7e-10 Score=79.96 Aligned_cols=76 Identities=20% Similarity=0.326 Sum_probs=72.7
Q ss_pred cCcccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhcchhcCCC
Q psy15119 21 AGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKL 96 (96)
Q Consensus 21 a~l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~eL~~L 96 (96)
....||++||+++||.+.....|+.+||+.++.++|+|+.|+-..++..+..++++++.-.||..++.+.+-+|+|
T Consensus 71 ~~~~lPlaRiKkimK~dedv~mI~~Eapvl~aka~E~Fi~elt~~sw~~Tee~~rrtl~~sdia~av~~s~~fdFL 146 (236)
T KOG1657|consen 71 KNHILPLARIKKIMKSDEDVSMITAEAPVLFAKACELFITELTLRSWVHTEENKRRTLQKSDIAAAVTQSETFDFL 146 (236)
T ss_pred hhccCcHhhccccccccccccccchhHHHHHHHHHHHHHHHHHHHhhhhhcccccccchHHHHHHHhccCCCccce
Confidence 3578999999999999999999999999999999999999999999999999999999999999999999999987
No 25
>KOG3467|consensus
Probab=98.82 E-value=1.3e-08 Score=63.84 Aligned_cols=86 Identities=26% Similarity=0.389 Sum_probs=75.8
Q ss_pred CCCCCCCCCC-------CccccCcccccCcccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy15119 1 MSGRGKGGKA-------KAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDN 73 (96)
Q Consensus 1 m~~~~~~~~~-------~~~~~s~s~ra~l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~ 73 (96)
|+++|+++|+ +++++-+.+-+|++-|. |.|+.+. ....||+...-.....++.-|+.+++-.|..++.|.
T Consensus 1 Ms~r~~g~KG~~KG~AKrHRK~LsDnIqgitKpa--IRRlARr-~GVkRi~G~~yeE~~~~~k~fl~n~i~~A~~yt~HA 77 (103)
T KOG3467|consen 1 MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPA--IRRLARR-GGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHA 77 (103)
T ss_pred CCCcCccccccccchHHHHHHHHHhhccccchHH--HHHHHHh-cCcchhchhhHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 7877665543 67777788889999999 9999999 567999999999999999999999999999999999
Q ss_pred CCCcccHHHHHHHHhc
Q psy15119 74 KKTRIIPRHLQLAIRN 89 (96)
Q Consensus 74 ~~k~Itp~~i~~ai~~ 89 (96)
++++||..|+-.+++.
T Consensus 78 KRKTvT~~dvv~~LKR 93 (103)
T KOG3467|consen 78 KRKTVTAMDVVYALKR 93 (103)
T ss_pred hhceeeHHHHHHHHHH
Confidence 9999999999998863
No 26
>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=98.66 E-value=1.4e-07 Score=57.13 Aligned_cols=66 Identities=17% Similarity=0.248 Sum_probs=58.9
Q ss_pred chhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhcch
Q psy15119 26 PVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDE 91 (96)
Q Consensus 26 pv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~ 91 (96)
+-..+..++++-....|++.+|...|..++|-|+.+|++.|...|+|.|+++|.++||+++++.+.
T Consensus 3 ~k~~l~~lv~~id~~~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r~~ 68 (72)
T cd07981 3 TKRKLQELLKEIDPREQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLERNW 68 (72)
T ss_pred cHHHHHHHHHhhCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhc
Confidence 345577778875556899999999999999999999999999999999999999999999998764
No 27
>cd07979 TAF9 TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. The TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAFs orthologs and paralogs. Human TAF9 has a paralogue gene (TAF9L) whi
Probab=98.55 E-value=3e-07 Score=60.52 Aligned_cols=60 Identities=18% Similarity=0.115 Sum_probs=56.5
Q ss_pred hhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhc
Q psy15119 29 RIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRN 89 (96)
Q Consensus 29 ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~ 89 (96)
-|+++|++ .++.+++..++..|..+++-++.+|+..|..+|+|.|+++|+.+||++||+.
T Consensus 6 ~v~~iLk~-~Gv~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~ 65 (117)
T cd07979 6 VIAAILKS-MGITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQS 65 (117)
T ss_pred HHHHHHHH-CCCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 48899999 5678999999999999999999999999999999999999999999999974
No 28
>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=7.1e-06 Score=49.08 Aligned_cols=64 Identities=20% Similarity=0.257 Sum_probs=49.7
Q ss_pred ccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 24 ~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
.||..-|+-+-.. -+..-++.++.-.|+.=+||-+.||+..|.+..+|++|+++|++||+.|++
T Consensus 3 ~~~~esvk~iAes-~Gi~~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di~~ALr 66 (66)
T PF02969_consen 3 VFSQESVKDIAES-LGISNLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLTTDDINSALR 66 (66)
T ss_dssp ---HHHHHHHHHH-TT---B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHH-
T ss_pred cCCHHHHHHHHHH-cCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHhC
Confidence 4777777777766 455789999999999999999999999999999999999999999999974
No 29
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=98.19 E-value=8.5e-06 Score=49.69 Aligned_cols=59 Identities=17% Similarity=0.115 Sum_probs=54.4
Q ss_pred hhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhc
Q psy15119 30 IHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRN 89 (96)
Q Consensus 30 i~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~ 89 (96)
|.++++. .++.+++.+|...|+.++|-++.+|.+.+.++|.+.||+..++.||..|+.+
T Consensus 12 Vaqil~~-~Gf~~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~ 70 (77)
T smart00576 12 VAQILES-AGFDSFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALEN 70 (77)
T ss_pred HHHHHHH-cCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 4677787 6779999999999999999999999999999999999999999999999864
No 30
>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=98.12 E-value=8.8e-06 Score=61.89 Aligned_cols=60 Identities=18% Similarity=0.252 Sum_probs=53.9
Q ss_pred hhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhc
Q psy15119 29 RIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRN 89 (96)
Q Consensus 29 ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~ 89 (96)
-|+-+.+. .+..+++.+|...|+..+||.+.+|++.|.+.++|++|++++++||+.|++.
T Consensus 4 ~i~~ia~~-~Gi~~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~~ 63 (343)
T cd08050 4 SIKLIAES-LGIDSLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALRL 63 (343)
T ss_pred HHHHHHHH-cCCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHH
Confidence 34555555 6778999999999999999999999999999999999999999999999873
No 31
>smart00428 H3 Histone H3.
Probab=98.01 E-value=1.9e-05 Score=51.18 Aligned_cols=68 Identities=25% Similarity=0.269 Sum_probs=58.9
Q ss_pred cCcccchhhhhhhhhcCC----c--ccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 21 AGLQFPVGRIHRLLRKGN----Y--AERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 21 a~l~fpv~ri~r~lk~~~----~--~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
.+|-+|-.+|.|+.++-. . ..|++.+|...|..+.|.++.++++.|...|.|.++.+|+|+|+++|..
T Consensus 26 t~lLI~k~pF~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi~La~r 99 (105)
T smart00428 26 TDLLIRKAPFQRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQLARR 99 (105)
T ss_pred cccccccccHHHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhHHHHHH
Confidence 357788888888876621 1 4699999999999999999999999999999999999999999999854
No 32
>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=97.86 E-value=9.9e-05 Score=46.13 Aligned_cols=63 Identities=25% Similarity=0.425 Sum_probs=54.8
Q ss_pred cchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCC---CcccHHHHHHHHh
Q psy15119 25 FPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKK---TRIIPRHLQLAIR 88 (96)
Q Consensus 25 fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~---k~Itp~~i~~ai~ 88 (96)
||-..++|++.. .....++.+..+.++++-..|+.||+|.|...-...+. .-|.|.||..|..
T Consensus 17 f~k~~iKr~~~~-~~~~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~HireA~r 82 (85)
T cd08048 17 FPKAAIKRLIQS-VTGQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHLREAYR 82 (85)
T ss_pred ccHHHHHHHHHH-HcCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHHHHHHH
Confidence 677779999998 45599999999999999999999999999887665544 6799999999875
No 33
>PTZ00463 histone H2B; Provisional
Probab=97.73 E-value=0.00027 Score=46.51 Aligned_cols=60 Identities=13% Similarity=0.191 Sum_probs=54.3
Q ss_pred hhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 29 RIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 29 ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
.|++.|++-....-||..|.-.+...+.-+.+-|...|...++-+++.+|++++|+.|++
T Consensus 33 YI~KVLKqVhPd~gIS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAvr 92 (117)
T PTZ00463 33 YIFKVLKQVHPDTGISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAIR 92 (117)
T ss_pred HHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHh
Confidence 689999996556778999999999999999999999999999999999999999999986
No 34
>KOG0869|consensus
Probab=97.68 E-value=0.00016 Score=49.82 Aligned_cols=66 Identities=15% Similarity=0.214 Sum_probs=59.4
Q ss_pred cccchhhhhhhhhcCC-cccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 23 LQFPVGRIHRLLRKGN-YAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 23 l~fpv~ri~r~lk~~~-~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
--+|++-|-||||+.- -..+|+.+|..-+--++--|++=|.-.|...|...+||+|+.+||-+|+.
T Consensus 31 r~LPIANV~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~ 97 (168)
T KOG0869|consen 31 RFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMS 97 (168)
T ss_pred hhccHHHHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHH
Confidence 4589999999999954 35899999999999999889999998998889899999999999999986
No 35
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T.
Probab=97.65 E-value=7.5e-05 Score=58.25 Aligned_cols=72 Identities=13% Similarity=0.114 Sum_probs=46.4
Q ss_pred CccccCcccccCcccchhhhhhhhhcC----Cc-ccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHH
Q psy15119 11 KAKSKTRSSRAGLQFPVGRIHRLLRKG----NY-AERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 82 (96)
Q Consensus 11 ~~~~~s~s~ra~l~fpv~ri~r~lk~~----~~-~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~ 82 (96)
+.++.|+-......+|.+.|++++..- .+ ..+|+.+|.-.|..++|||...+.+--..||+|.|||||.+.|
T Consensus 338 k~~k~Skhgi~~P~lP~~~vK~la~~~ak~s~~sK~kiskdal~aleqasdwfFeQl~dDL~aYA~HAgRKTIdesD 414 (414)
T PF15511_consen 338 KQKKVSKHGIPYPSLPPGVVKKLAQHFAKSSGGSKMKISKDALEALEQASDWFFEQLGDDLEAYAKHAGRKTIDESD 414 (414)
T ss_dssp --------------S-HHHHHHHHHHHH-------S-B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHH
T ss_pred cccCCCCCCCCCCCCCccHHHHHHHHHHHhhcccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCCCC
Confidence 456677777778889999999988662 22 3899999999999999999999999999999999999998875
No 36
>smart00427 H2B Histone H2B.
Probab=97.62 E-value=0.00027 Score=44.54 Aligned_cols=60 Identities=22% Similarity=0.282 Sum_probs=54.1
Q ss_pred hhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 29 RIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 29 ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
.|+|.||+-....-||..|.-.+...+..+.+-|...|...++.+++++|++++|+.|++
T Consensus 6 Yi~kvLKqVhpd~giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~TltsreIqtAvr 65 (89)
T smart00427 6 YIYKVLKQVHPDTGISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLSSREIQTAVR 65 (89)
T ss_pred HHHHHHHHhCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHH
Confidence 588999986656789999999999999999999999999999999999999999999986
No 37
>PLN00158 histone H2B; Provisional
Probab=97.52 E-value=0.00046 Score=45.37 Aligned_cols=61 Identities=23% Similarity=0.295 Sum_probs=54.9
Q ss_pred hhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 28 GRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 28 ~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
..|++.|++-....-||..|.-.+...+..+.+-|...|...++-+++.+|++++|+.|++
T Consensus 31 ~YI~kVLKQVhPd~gIS~kaM~ImnSfvnDiferIA~EAs~La~~nkr~TltsrEIqtAvr 91 (116)
T PLN00158 31 IYIYKVLKQVHPDTGISSKAMSIMNSFINDIFEKIATEAGKLARYNKKPTVTSREIQTAVR 91 (116)
T ss_pred HHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHH
Confidence 3699999996656778999999999999999999999999999999999999999999986
No 38
>PF04719 TAFII28: hTAFII28-like protein conserved region; InterPro: IPR006809 The general transcription factor, TFIID, consists of the TATA-binding protein (TBP) associated with a series of TBP-associated factors (TAFs) that together participate in the assembly of the transcription preinitiation complex. The conserved region is found at the C terminus of most member proteins. The crystal structure of hTAFII28 with hTAFII18 shows that this region is involved in the binding of these two subunits. The conserved region contains four alpha helices and three loops arranged as in histone H3 [, ].; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005634 nucleus; PDB: 1BH9_B 1BH8_B.
Probab=97.45 E-value=0.0004 Score=43.88 Aligned_cols=65 Identities=20% Similarity=0.305 Sum_probs=46.6
Q ss_pred ccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhc-CCCcccHHHHHHHHh
Q psy15119 24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDN-KKTRIIPRHLQLAIR 88 (96)
Q Consensus 24 ~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~-~~k~Itp~~i~~ai~ 88 (96)
.||=+.|++++..-....-|+....+.++++-..|+.||+|.|....... ...-|+|.||..|.+
T Consensus 23 ~~~k~~ikkli~~~~~~qsv~~~v~i~v~g~aKvFVGEiVE~A~~Vq~~~~~~~pl~P~hlreA~r 88 (90)
T PF04719_consen 23 SFNKAAIKKLINQVLGNQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGETGPLQPDHLREAYR 88 (90)
T ss_dssp ---HHHHHHHHHHHHS-S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SS--HHHHHHHHH
T ss_pred cCCHHHHHHHHHHHcCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHH
Confidence 37777899999994333899999999999999999999999998876544 345799999998864
No 39
>KOG3219|consensus
Probab=97.44 E-value=0.0002 Score=50.81 Aligned_cols=66 Identities=21% Similarity=0.336 Sum_probs=55.9
Q ss_pred CcccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCcccHHHHHHHHh
Q psy15119 22 GLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNK-KTRIIPRHLQLAIR 88 (96)
Q Consensus 22 ~l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~-~k~Itp~~i~~ai~ 88 (96)
+.-||-+.|+++|..-.. +-|+..+.++++++-.-|+-||+|.|.......+ ..-+.|.||..|.+
T Consensus 110 rs~f~Ka~iKkL~~~itg-~~v~~nv~Ia~~GiaKvFVGEvVEeAl~V~~~~~e~~PLqP~HIREA~r 176 (195)
T KOG3219|consen 110 RSAFPKAQIKKLMSSITG-QSVSENVAIAMAGIAKVFVGEVVEEALDVREEWGESGPLQPKHIREAYR 176 (195)
T ss_pred HhcCCHHHHHHHHHHHhC-CccCcceeeeecchhhHhHHHHHHHHHHHHHHhccCCCCCcHHHHHHHH
Confidence 346999999999999544 4499999999999999999999999988765544 44699999999975
No 40
>KOG0871|consensus
Probab=97.31 E-value=0.0011 Score=45.38 Aligned_cols=70 Identities=17% Similarity=0.228 Sum_probs=62.6
Q ss_pred ccCcccchhhhhhhhhcCCc-ccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhc
Q psy15119 20 RAGLQFPVGRIHRLLRKGNY-AERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRN 89 (96)
Q Consensus 20 ra~l~fpv~ri~r~lk~~~~-~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~ 89 (96)
.-.+.+|-+-|..++++.-. .-||..+|-..+-.+.=+|+.-|--.|...|....++||.|+|+..|+.+
T Consensus 8 dde~sLPkAtv~KmIke~lP~d~rvakeareliincCvEFI~liSsEAneic~~e~KKTIa~EHV~KALe~ 78 (156)
T KOG0871|consen 8 DDELSLPKATVNKMIKEMLPKDVRVAKEARELIINCCVEFINLISSEANEICNKEAKKTIAPEHVIKALEN 78 (156)
T ss_pred cccccCcHHHHHHHHHHhCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcccCCHHHHHHHHHH
Confidence 44689999999999999655 58999999999999988999999999999999999999999999999865
No 41
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=97.21 E-value=0.0014 Score=40.09 Aligned_cols=48 Identities=23% Similarity=0.335 Sum_probs=37.0
Q ss_pred ChHHHHHHHHHHHHHHHHHHHH---HHHHhcCCCcccHHHHHHHHhcchhc
Q psy15119 46 GAPVYLAAVMEYLAAEVLELAG---NAARDNKKTRIIPRHLQLAIRNDEEL 93 (96)
Q Consensus 46 ~A~v~laavLEyl~~eIlela~---~~a~~~~~k~Itp~~i~~ai~~d~eL 93 (96)
-+|.|++++.|.....+-.++. ..|+|.||++|+++|+.+..+.++.|
T Consensus 26 ~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~~dDV~Ll~Rrn~~L 76 (76)
T PF15630_consen 26 VSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTINMDDVKLLARRNPSL 76 (76)
T ss_dssp E-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHTTT-HHH
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHHHhhcCCCC
Confidence 5788888888888887777763 36899999999999999999998865
No 42
>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=97.11 E-value=0.0026 Score=38.15 Aligned_cols=62 Identities=15% Similarity=0.314 Sum_probs=49.1
Q ss_pred hhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhcc
Q psy15119 29 RIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRND 90 (96)
Q Consensus 29 ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d 90 (96)
++..++++-.....+..++...|..+.+-|+.+|+..|...|+|.+..++.+.||++.+..+
T Consensus 4 ~l~~Lv~~iDp~~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~tle~~Dv~~~Ler~ 65 (68)
T PF03847_consen 4 KLQELVKQIDPNEKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSSTLEVKDVQLHLERN 65 (68)
T ss_dssp HHHHHHHCC-SS----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHHHHH
T ss_pred HHHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHHhh
Confidence 45667777556689999999999999999999999999999999999999999999988765
No 43
>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=96.96 E-value=0.0071 Score=36.63 Aligned_cols=61 Identities=20% Similarity=0.229 Sum_probs=48.0
Q ss_pred chhhhhhhhhcC--CcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCc-ccHHHHHHH
Q psy15119 26 PVGRIHRLLRKG--NYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTR-IIPRHLQLA 86 (96)
Q Consensus 26 pv~ri~r~lk~~--~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~-Itp~~i~~a 86 (96)
|..-|.|+|+.. ...-||+.+|...++..++-|+.|.+-.|...+...|... |..+||+..
T Consensus 1 p~~li~rll~~~f~~~~tkIs~dal~l~~eyl~iFV~EAv~Ra~~~a~~e~~~~~le~e~LEki 64 (72)
T PF09415_consen 1 PPELIARLLHEHFKDDKTKISKDALKLSAEYLRIFVREAVARAAEQAEAEGDEGFLEVEHLEKI 64 (72)
T ss_dssp -CHHHHHHHCTTSSSTT-EE-CCCHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSEE-HHHHHHH
T ss_pred ChHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCHHHHHHH
Confidence 445577788752 2458999999999999999999999999999999999888 999999864
No 44
>KOG0870|consensus
Probab=96.86 E-value=0.0046 Score=43.02 Aligned_cols=66 Identities=18% Similarity=0.274 Sum_probs=57.9
Q ss_pred CcccchhhhhhhhhcCCcc---cccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 22 GLQFPVGRIHRLLRKGNYA---ERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 22 ~l~fpv~ri~r~lk~~~~~---~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
-|-||-+-|-|+.|+ ... --|+.+|-..++..---|+..+..-|...|+++++++|++.|+-.|+.
T Consensus 8 dl~lP~AiI~rlvke-~l~E~~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~ 76 (172)
T KOG0870|consen 8 DLNLPNAIITRLVKE-VLPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALD 76 (172)
T ss_pred HhhccHHHHHHHHHH-hCccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHH
Confidence 478999999988887 333 358889999999999999999999999999999999999999998875
No 45
>PLN00163 histone H4; Provisional
Probab=96.86 E-value=0.00031 Score=40.91 Aligned_cols=46 Identities=37% Similarity=0.568 Sum_probs=35.0
Q ss_pred CCCCCCCCC-------CCccccCcccccCcccchhhhhhhhhcCCcccccCCChHH
Q psy15119 1 MSGRGKGGK-------AKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPV 49 (96)
Q Consensus 1 m~~~~~~~~-------~~~~~~s~s~ra~l~fpv~ri~r~lk~~~~~~ris~~A~v 49 (96)
|+|+||++| ++++++.+.+-.+++-|. |.|+.+. ....|||.....
T Consensus 1 m~g~gkggkglGkggaKRhrk~lrd~i~gItKpa--IrRLARR-gGVKRIs~~iY~ 53 (59)
T PLN00163 1 MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPA--IRRLARR-GGVKRISGLIYE 53 (59)
T ss_pred CCCCCCCCCccCCccchhHHHHHHHhhcccchHH--HHHHHHh-cCceeecchhhH
Confidence 887777544 366666777788999998 9999999 567999986443
No 46
>PLN00160 histone H3; Provisional
Probab=96.82 E-value=0.0031 Score=40.38 Aligned_cols=68 Identities=26% Similarity=0.238 Sum_probs=58.1
Q ss_pred cCcccchhhhhhhhhcCC-----cccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 21 AGLQFPVGRIHRLLRKGN-----YAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 21 a~l~fpv~ri~r~lk~~~-----~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
.+|-+|-.+|.|+.++-. ...|...+|...|--+-|.++-.++|.+...|.|.++-+|.|.|++++..
T Consensus 18 t~lLI~k~pF~RLVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~~L~~r 90 (97)
T PLN00160 18 TDLLIRRLPFARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDMQLARR 90 (97)
T ss_pred hhhhhccccHHHHHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhHHHHHH
Confidence 357778888888876631 23789999999999999999999999999999999999999999999854
No 47
>KOG1658|consensus
Probab=96.76 E-value=0.00062 Score=46.84 Aligned_cols=74 Identities=20% Similarity=0.246 Sum_probs=64.5
Q ss_pred cccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhcchhcCCC
Q psy15119 23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKL 96 (96)
Q Consensus 23 l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~eL~~L 96 (96)
.++|++||+.+++-+-...-....+...++...|-|+.++-..++..+...+++++.-+++..||..-+|+.+|
T Consensus 58 ~rLpL~rik~vvkl~pdl~l~~dea~~l~a~aaelfi~~Ln~~~~~~~q~~k~kt~qr~d~D~ai~~~de~~fl 131 (162)
T KOG1658|consen 58 SRLPLARIKQVVKLDPDLTLLNDEASQLIAKAAELFIQELNDVAYTTAQLRKRKTEQRRDYDTAIEAVDEFAFL 131 (162)
T ss_pred hhccHHHHHhhccCCcchhhhhhHHHHHHHHHHHHHHHHHHhccchhHHHHHhhhhhhhcccccccchHHHHHH
Confidence 67999999999999766566666777777889999999999999999999999999999999999988887654
No 48
>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=96.72 E-value=0.0092 Score=39.96 Aligned_cols=60 Identities=22% Similarity=0.171 Sum_probs=42.1
Q ss_pred hhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 28 GRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 28 ~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
--|+-+|++.. ..-....++.-|.-..--++.+||+.|-.+|.|.+++.|+..||++||.
T Consensus 16 ~~i~~iL~~~G-v~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~~~DVrLAi~ 75 (129)
T PF02291_consen 16 RVIHLILKSMG-VTEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTIDADDVRLAIQ 75 (129)
T ss_dssp HHHHHHHHHTT----B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHHH
T ss_pred HHHHHHHHHcC-CcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCChHHHHHHHH
Confidence 44778888853 3333444444455555557889999999999999999999999999998
No 49
>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=96.72 E-value=0.0098 Score=35.84 Aligned_cols=58 Identities=14% Similarity=0.138 Sum_probs=51.6
Q ss_pred hhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 30 IHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 30 i~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
|..+++. .+...++.+|...|+.+++.++.+|...+-.+|.+.||...++.|+..|+.
T Consensus 12 va~il~~-~GF~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~ 69 (77)
T PF07524_consen 12 VAQILKH-AGFDSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQALE 69 (77)
T ss_pred HHHHHHH-cCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 3456666 566899999999999999999999999999999999999999999999885
No 50
>PTZ00018 histone H3; Provisional
Probab=96.69 E-value=0.0035 Score=42.35 Aligned_cols=66 Identities=24% Similarity=0.235 Sum_probs=57.7
Q ss_pred CcccchhhhhhhhhcCC----cccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHH
Q psy15119 22 GLQFPVGRIHRLLRKGN----YAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAI 87 (96)
Q Consensus 22 ~l~fpv~ri~r~lk~~~----~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai 87 (96)
+|.+|-..|.|+.++-. ...|+..+|...|--+-|.++-.++|.+...|.|.++.+|.|.|++++.
T Consensus 60 ~lLI~k~pF~RLVREI~~~~~~~~rf~~~al~aLQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~ 129 (136)
T PTZ00018 60 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAR 129 (136)
T ss_pred hhccccccHHHHHHHHHHHcCCcceeeHHHHHHHHHHHHHHHHHHhhhhHHHHHhhcceecchhhHHHHH
Confidence 56688888888887631 2479999999999999999999999999999999999999999999984
No 51
>PLN00161 histone H3; Provisional
Probab=96.64 E-value=0.0061 Score=41.13 Aligned_cols=67 Identities=27% Similarity=0.241 Sum_probs=57.5
Q ss_pred CcccchhhhhhhhhcCC-----cccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 22 GLQFPVGRIHRLLRKGN-----YAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 22 ~l~fpv~ri~r~lk~~~-----~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
+|-+|-..|.|+.++-. ...|+..+|...|--+-|.++-.++|.+.-.|.|.++-+|.|.|++++..
T Consensus 53 ~lLIpklPF~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm~La~r 124 (135)
T PLN00161 53 ELLIRKLPFARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDMQLARR 124 (135)
T ss_pred ccccccccHHHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhHHHHHH
Confidence 56678888888876631 23789999999999999999999999999999999999999999999854
No 52
>PLN00121 histone H3; Provisional
Probab=96.59 E-value=0.0035 Score=42.36 Aligned_cols=67 Identities=25% Similarity=0.254 Sum_probs=58.0
Q ss_pred CcccchhhhhhhhhcCC----cccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 22 GLQFPVGRIHRLLRKGN----YAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 22 ~l~fpv~ri~r~lk~~~----~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
+|.+|-..|.|+.++-. ...|+..+|...|--+-|.++-.++|.+.-.|.|.++-+|.|.|++++..
T Consensus 60 ~lLI~k~pF~RLVREI~~~~~~~~Rf~~~Al~ALQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~r 130 (136)
T PLN00121 60 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARR 130 (136)
T ss_pred ccccccccHHHHHHHHHHHhCccceeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcceecchhhHHHHHH
Confidence 56688888888877632 24799999999999999999999999999999999999999999999843
No 53
>KOG1744|consensus
Probab=96.45 E-value=0.023 Score=37.94 Aligned_cols=67 Identities=19% Similarity=0.216 Sum_probs=53.2
Q ss_pred cccCcccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 19 SRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 19 ~ra~l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
..-+..++|-+ .+++-...--|+..|.-.+.+.+-.+...|+..|+..|+-+++.+|+.++|+.|+.
T Consensus 35 ~~e~~s~yv~k---vlk~Vhpd~gis~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta~r 101 (127)
T KOG1744|consen 35 RKESYSEYVYK---VLKQVHPDLGISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTAVR 101 (127)
T ss_pred ccCceeeehhh---hhhcccCCCCcCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHHHH
Confidence 33345666644 66663323448888999999999889999999999999999999999999999875
No 54
>KOG1142|consensus
Probab=95.47 E-value=0.021 Score=42.23 Aligned_cols=69 Identities=10% Similarity=0.231 Sum_probs=59.7
Q ss_pred cchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhcchhc
Q psy15119 25 FPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEEL 93 (96)
Q Consensus 25 fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~eL 93 (96)
+-.-.++-++++-.....+..++..+|.-+.+-|+..|...+...|+|.+..+|..+||++.++++.-+
T Consensus 155 l~k~kl~dLvqqId~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhLEr~~Nm 223 (258)
T KOG1142|consen 155 LSKRKLDDLVQQIDGTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHLERNFNM 223 (258)
T ss_pred ccccchhHHHHhhcCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeeeeccccc
Confidence 334567778887555688999999999999999999999999999999999999999999999887543
No 55
>PF02269 TFIID-18kDa: Transcription initiation factor IID, 18kD subunit; InterPro: IPR003195 This family includes the Spt3 yeast transcription factors and the 18 kDa subunit from human transcription initiation factor IID (TFIID-18). Determination of the crystal structure reveals an atypical histone fold [].; GO: 0006366 transcription from RNA polymerase II promoter; PDB: 1BH9_A 1BH8_A.
Probab=95.30 E-value=0.02 Score=36.07 Aligned_cols=54 Identities=15% Similarity=0.119 Sum_probs=16.1
Q ss_pred cccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhcchh
Q psy15119 39 YAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEE 92 (96)
Q Consensus 39 ~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~e 92 (96)
+...-..++...+-.++--.+.+++..|...|...|+++|+++|+..++++|+.
T Consensus 16 D~~~P~~eTv~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR~D~~ 69 (93)
T PF02269_consen 16 DVEEPLPETVDLVEDIVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLRKDPK 69 (93)
T ss_dssp S-SS--HHHHHHHHHHHHHHHHHHHHHHHC------------------------
T ss_pred CCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHhcCHH
Confidence 334444555555555555555666667777888888899999999999999963
No 56
>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=95.21 E-value=0.15 Score=32.11 Aligned_cols=62 Identities=13% Similarity=0.156 Sum_probs=37.9
Q ss_pred hhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhcchh
Q psy15119 30 IHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEE 92 (96)
Q Consensus 30 i~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~e 92 (96)
|..+|---.+...-..++...+-.++--++.+++-.|...|. .++.+|+++|+..++++|+.
T Consensus 8 i~~mmy~~GD~~~P~~eTv~llE~iv~~~i~~l~~~a~~~A~-~r~~k~~~eD~~FliR~D~~ 69 (92)
T cd07978 8 IRQMMYGFGDVQNPLPETVDLLEDIVVEYIIELCHKAAEVAQ-RRRGKVKVEDLIFLLRKDPK 69 (92)
T ss_pred HHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHHHhcCHH
Confidence 334443333333334444555555444455556666666666 56777899999999999973
No 57
>KOG1745|consensus
Probab=95.12 E-value=0.016 Score=39.14 Aligned_cols=64 Identities=25% Similarity=0.243 Sum_probs=52.3
Q ss_pred cchhhhhhhhh----cCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 25 FPVGRIHRLLR----KGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 25 fpv~ri~r~lk----~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
++=.++.|+.+ +....-|+.++|...|--..|.++-.+.|.+.-.|.|.++-||.|.||++|..
T Consensus 64 I~K~PFqRlvrei~q~f~~dLrfqs~Ai~ALQeA~EayLv~LfEdtnlcAihAkRVTimpkdiQlArr 131 (137)
T KOG1745|consen 64 IRKLPFQRLVREIAQDFKTDLRFQSSAIAALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARR 131 (137)
T ss_pred hhcCcHHHHhHHHHhcccccceehHHHHHHHHHHHHHHHHHhccccchhhhccceeEecccceehhhh
Confidence 33344455444 43345899999999999999999999999998899999999999999999865
No 58
>PF15510 CENP-W: Centromere kinetochore component W
Probab=92.39 E-value=0.57 Score=29.80 Aligned_cols=68 Identities=18% Similarity=0.189 Sum_probs=48.8
Q ss_pred cCcccchhhhhhhhhcCCcccccCCChHHH--------------HHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHH
Q psy15119 21 AGLQFPVGRIHRLLRKGNYAERVGAGAPVY--------------LAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLA 86 (96)
Q Consensus 21 a~l~fpv~ri~r~lk~~~~~~ris~~A~v~--------------laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~a 86 (96)
-.-.-|-|.++|+++.-.-+-|+..++-.. +.--.=.|+..+.|.|-..|.+++...|.++|+..|
T Consensus 13 ikrkaPrgfLkrv~Kr~KphlRl~~~~Dllv~~~~f~~~~~~~~vhLncLLFvhrLAEEaRtnA~EnK~~~Ik~~Hv~Aa 92 (102)
T PF15510_consen 13 IKRKAPRGFLKRVFKRQKPHLRLETSGDLLVRFCPFSGWQWGGEVHLNCLLFVHRLAEEARTNACENKCGTIKKEHVLAA 92 (102)
T ss_pred HHHhCchHHHHHHHHhcCCceeecccccHHHhhcccccccccceeehhHHHHHHHHHHHHHHHHHHHhhccccHHHHHHH
Confidence 334578999999999867778887655443 111112356677888888888888899999999876
Q ss_pred Hh
Q psy15119 87 IR 88 (96)
Q Consensus 87 i~ 88 (96)
-+
T Consensus 93 aK 94 (102)
T PF15510_consen 93 AK 94 (102)
T ss_pred HH
Confidence 53
No 59
>COG5094 TAF9 Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=92.12 E-value=0.94 Score=30.40 Aligned_cols=60 Identities=25% Similarity=0.260 Sum_probs=49.1
Q ss_pred hhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccH---HHHHHHHhc
Q psy15119 29 RIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIP---RHLQLAIRN 89 (96)
Q Consensus 29 ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp---~~i~~ai~~ 89 (96)
-|+-+|+. ....--+...|.-|-..---.+..+++-|.-+|++.|+..|++ +|+++|+..
T Consensus 19 lihliL~S-lgi~~ye~~VplQLl~FAhRYTq~vl~Dalvya~htgrg~~a~l~veDvrLA~at 81 (145)
T COG5094 19 LIHLILRS-LGIEEYEPKVPLQLLEFAHRYTQDVLEDALVYAKHTGRGHIATLGVEDVRLALAT 81 (145)
T ss_pred HHHHHHHh-cCchhhCccchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCcccHHHHHHHHHH
Confidence 36667766 5556667778888877777789999999999999999988877 999999864
No 60
>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=91.46 E-value=1 Score=30.31 Aligned_cols=67 Identities=16% Similarity=0.245 Sum_probs=42.8
Q ss_pred CcccchhhhhhhhhcCCcc-cccCCCh-HHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhc
Q psy15119 22 GLQFPVGRIHRLLRKGNYA-ERVGAGA-PVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRN 89 (96)
Q Consensus 22 ~l~fpv~ri~r~lk~~~~~-~ris~~A-~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~ 89 (96)
...+|-+-+....-+.-.. --+..+| -+++-+++||+- -+--.|...|.+..+++|.|+|+-.|+.|
T Consensus 9 e~sLPKATVqKMvS~iLp~dl~ftKearei~in~cieFi~-~lsseAne~ce~EaKKTIa~EHviKALen 77 (148)
T COG5150 9 ENSLPKATVQKMVSSILPKDLVFTKEAREIFINACIEFIN-MLSSEANEACEEEAKKTIAYEHVIKALEN 77 (148)
T ss_pred cccCcHHHHHHHHHHhccccccccHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhccccHHHHHHHHHh
Confidence 4667777777666553211 2233344 455666666553 34445666777778899999999999875
No 61
>KOG3334|consensus
Probab=90.85 E-value=1.6 Score=29.82 Aligned_cols=56 Identities=23% Similarity=0.317 Sum_probs=43.3
Q ss_pred hhhhhhcCCcccccCCChHHHHHHHHHH---HHHHHHHHHHHHHHhcCCCcccHHHHHHHHhc
Q psy15119 30 IHRLLRKGNYAERVGAGAPVYLAAVMEY---LAAEVLELAGNAARDNKKTRIIPRHLQLAIRN 89 (96)
Q Consensus 30 i~r~lk~~~~~~ris~~A~v~laavLEy---l~~eIlela~~~a~~~~~k~Itp~~i~~ai~~ 89 (96)
|+-+|++.. |.+.-|-.+.-.||+ .+..||+.|-=++.|.++.+|..+|+++|+..
T Consensus 19 i~~iL~s~G----I~eyEprVi~qlLefa~rYtt~vL~DA~vys~HA~ka~i~~eDVrlA~~~ 77 (148)
T KOG3334|consen 19 IASILKSLG----IQEYEPRVINQLLEFAYRYTTTVLDDAKVYSSHAKKATIDAEDVRLAIQM 77 (148)
T ss_pred HHHHHHHcC----ccccChHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCcHHHHHHHHHH
Confidence 667777732 445555556666666 56678999999999999999999999999974
No 62
>KOG2549|consensus
Probab=88.97 E-value=1.7 Score=35.54 Aligned_cols=57 Identities=19% Similarity=0.287 Sum_probs=50.9
Q ss_pred hhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 32 RLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 32 r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
+.+-+.-+...++.+++..|+-=+||=+.||...|.+.-.+++|.+.|-.||..|++
T Consensus 18 k~vAEslGi~nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~ALr 74 (576)
T KOG2549|consen 18 KVVAESLGITNLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYALR 74 (576)
T ss_pred HHHHHHhCccccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHHHh
Confidence 344444667889999999999999999999999999999999999999999999987
No 63
>COG5251 TAF40 Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=87.08 E-value=1.1 Score=31.56 Aligned_cols=65 Identities=20% Similarity=0.264 Sum_probs=51.9
Q ss_pred cccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhc-CCCcccHHHHHHHHh
Q psy15119 23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDN-KKTRIIPRHLQLAIR 88 (96)
Q Consensus 23 l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~-~~k~Itp~~i~~ai~ 88 (96)
..||-..|+.+.-. ...+-|+....+++.++-.-|+.||+|+|...-..- ..--+.|.|+..|+.
T Consensus 114 t~lnKt~VKKlast-V~nQtVspNi~I~l~g~~KVfvGEiIElA~~Vq~~w~~sgpl~p~h~reayr 179 (199)
T COG5251 114 TSLNKTQVKKLAST-VANQTVSPNIRIFLQGVGKVFVGEIIELAMIVQNKWLTSGPLIPFHKREAYR 179 (199)
T ss_pred cCCCHHHHHHHHHH-HhccccCCCeeeeeechhHHHHHHHHHHHHHHHHHhcccCCCChHHHHHHHH
Confidence 45777888888877 567899999999999999999999999996653322 233578999998875
No 64
>PF02861 Clp_N: Clp amino terminal domain; InterPro: IPR004176 This short domain is found in one or two copies at the amino terminus of ClpA and ClpB proteins from bacteria and eukaryotes. The function of these domains is uncertain but they may form a protein binding site []. The proteins are thought to be subunits of ATP-dependent proteases which act as chaperones to target the proteases to substrates.; GO: 0019538 protein metabolic process; PDB: 3FH2_A 3ZRJ_A 3ZRI_A 1QVR_C 3FES_C 2Y1R_F 3PXG_D 2Y1Q_A 3PXI_C 2K77_A ....
Probab=84.01 E-value=1.3 Score=23.85 Aligned_cols=26 Identities=38% Similarity=0.509 Sum_probs=20.2
Q ss_pred HHHHHHhcCCCcccHHHHHHHHhcch
Q psy15119 66 AGNAARDNKKTRIIPRHLQLAIRNDE 91 (96)
Q Consensus 66 a~~~a~~~~~k~Itp~~i~~ai~~d~ 91 (96)
|-+.|...+...|+|+||-.|+-.++
T Consensus 1 A~~~A~~~~~~~i~~eHlL~all~~~ 26 (53)
T PF02861_consen 1 AQELARERGHQYISPEHLLLALLEDP 26 (53)
T ss_dssp HHHHHHHTTBSSE-HHHHHHHHHHHT
T ss_pred CHHHHHHcCCCcccHHHHHHHHHhhh
Confidence 44678888999999999999976654
No 65
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=83.97 E-value=2.9 Score=32.51 Aligned_cols=51 Identities=24% Similarity=0.188 Sum_probs=46.8
Q ss_pred CcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 38 NYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 38 ~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
-+..-|..++.-.|+-=|||=+.||.+.|.+.-.|++|..+|..||..|+.
T Consensus 18 lGi~Ni~Dd~l~alamDlEYRI~ev~qea~KFmvhSKRtvLt~dDis~ALr 68 (450)
T COG5095 18 LGISNIDDDALRALAMDLEYRIKEVCQEASKFMVHSKRTVLTIDDISYALR 68 (450)
T ss_pred cCCcccccHHHHHHHHhHHHHHHHHHHHHHHHhhcccceeeeHHhHHHHHH
Confidence 445778889999999999999999999999999999999999999999986
No 66
>PF13335 Mg_chelatase_2: Magnesium chelatase, subunit ChlI
Probab=80.99 E-value=2.9 Score=26.22 Aligned_cols=48 Identities=23% Similarity=0.234 Sum_probs=39.2
Q ss_pred cccCCChHHHHHHHHHHHH------HHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 41 ERVGAGAPVYLAAVMEYLA------AEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 41 ~ris~~A~v~laavLEyl~------~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
..++..+..+|..+++-+- .-||..|...|.-.+...|++.||..|+.
T Consensus 41 ~~l~~~~~~~l~~~~~~~~lS~R~~~rilrvARTIADL~~~~~I~~~hi~EAl~ 94 (96)
T PF13335_consen 41 CPLSSEAKKLLEQAAEKLNLSARGYHRILRVARTIADLEGSERITREHIAEALS 94 (96)
T ss_pred cCCCHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHhHcCCCCCCHHHHHHHHh
Confidence 4566777777777777653 45899999999999999999999999874
No 67
>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=79.35 E-value=3 Score=22.78 Aligned_cols=27 Identities=19% Similarity=0.166 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHhcCCCcccHHHHHHH
Q psy15119 60 AEVLELAGNAARDNKKTRIIPRHLQLA 86 (96)
Q Consensus 60 ~eIlela~~~a~~~~~k~Itp~~i~~a 86 (96)
..+=..+-.+|.+.|...||++++..|
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 344455567899999999999999865
No 68
>KOG1658|consensus
Probab=79.11 E-value=4.2 Score=28.20 Aligned_cols=69 Identities=13% Similarity=0.189 Sum_probs=51.4
Q ss_pred CcccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhcchhcCC
Q psy15119 22 GLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNK 95 (96)
Q Consensus 22 ~l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~eL~~ 95 (96)
...||++.++++-+.+-...--+..|-+..+..-|.|+.-...++. ....++.-..|+..+..|++|..
T Consensus 9 ~p~~p~ekvkkiak~dPey~~te~~a~~etafatE~fvq~lv~~p~-----a~l~rLpL~rik~vvkl~pdl~l 77 (162)
T KOG1658|consen 9 SPKLPMEKVKKIAKNDPEYMDTEDDAFVETAFATEQFVQVLVHLPQ-----ASLSRLPLARIKQVVKLDPDLTL 77 (162)
T ss_pred CccccHHHHHHhhcCCchhhhcccchHHHHHHHHHHHHhhhhhhhh-----hhhhhccHHHHHhhccCCcchhh
Confidence 4679999999999986543445567777888899999888877554 23356677788888888887754
No 69
>KOG4336|consensus
Probab=78.10 E-value=6.4 Score=30.11 Aligned_cols=58 Identities=14% Similarity=0.122 Sum_probs=49.9
Q ss_pred hhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 30 IHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 30 i~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
|.-++++ .++.-|+..|-.-|.-.+.-.+.+|...+-+++.+.||.--|+.||.+.+.
T Consensus 11 V~~Ll~~-~gfd~is~~aletlvell~~yi~eigrq~~n~celagRT~pT~~Dv~l~Li 68 (323)
T KOG4336|consen 11 VSNLLKT-KGFDSISNAALETLVELLQSYIREIGRQLHNYCELAGRTIPTQGDVKLTLI 68 (323)
T ss_pred HHHHHHH-hCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHH
Confidence 4455555 567789999999999999999999999999999999999999999998764
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=73.54 E-value=21 Score=26.58 Aligned_cols=60 Identities=22% Similarity=0.320 Sum_probs=39.5
Q ss_pred hhhhhhhcCC----cccccCCChHHHHHHHHHH------HHHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 29 RIHRLLRKGN----YAERVGAGAPVYLAAVMEY------LAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 29 ri~r~lk~~~----~~~ris~~A~v~laavLEy------l~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
.+..+++... ...-++.++.-+++...+. .+.+++..|...|...+...|+++|++.|+.
T Consensus 203 e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~~a~~~~~~~it~~~v~~a~~ 272 (365)
T TIGR02928 203 ELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVAGEIAEREGAERVTEDHVEKAQE 272 (365)
T ss_pred HHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 3555665421 1123566666676666542 3455777888888777888999999998765
No 71
>PF13654 AAA_32: AAA domain; PDB: 3K1J_B.
Probab=72.15 E-value=6.1 Score=31.92 Aligned_cols=31 Identities=29% Similarity=0.323 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHhcCCCcccHHHHHHHHhc
Q psy15119 59 AAEVLELAGNAARDNKKTRIIPRHLQLAIRN 89 (96)
Q Consensus 59 ~~eIlela~~~a~~~~~k~Itp~~i~~ai~~ 89 (96)
+.++|..|..+|...+...|+.+||+.||+.
T Consensus 475 l~~ll~EA~~~A~~~~~~~I~~~~V~~Ai~~ 505 (509)
T PF13654_consen 475 LADLLREANYWARKEGAKVITAEHVEQAIEE 505 (509)
T ss_dssp HHHHHHHHHHHHHHCT-SSB-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhCCCccCHHHHHHHHHc
Confidence 4778888999999999999999999999964
No 72
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=71.34 E-value=24 Score=26.60 Aligned_cols=67 Identities=18% Similarity=0.290 Sum_probs=42.0
Q ss_pred cccc---hhhhhhhhhcCC---c-ccccCCChHHHHHHHHHH------HHHHHHHHHHHHHHhcCCCcccHHHHHHHHhc
Q psy15119 23 LQFP---VGRIHRLLRKGN---Y-AERVGAGAPVYLAAVMEY------LAAEVLELAGNAARDNKKTRIIPRHLQLAIRN 89 (96)
Q Consensus 23 l~fp---v~ri~r~lk~~~---~-~~ris~~A~v~laavLEy------l~~eIlela~~~a~~~~~k~Itp~~i~~ai~~ 89 (96)
+.|| ...+..+++... . ..-++.++.-+++..... .+.+++..|...|...+...|+++|+..|+..
T Consensus 202 i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~~~I~~~~v~~a~~~ 281 (394)
T PRK00411 202 IYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRKVTEEDVRKAYEK 281 (394)
T ss_pred eecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHH
Confidence 4554 355555655421 1 124566666666665533 12355677777788788889999999988863
No 73
>KOG3901|consensus
Probab=66.34 E-value=29 Score=22.55 Aligned_cols=35 Identities=17% Similarity=0.310 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHHHhcC-CCcccHHHHHHHHhcch
Q psy15119 56 EYLAAEVLELAGNAARDNK-KTRIIPRHLQLAIRNDE 91 (96)
Q Consensus 56 Eyl~~eIlela~~~a~~~~-~k~Itp~~i~~ai~~d~ 91 (96)
++++.+|.++ .+.|...| +-++.-+|+..+|+.|+
T Consensus 38 ~iV~~Yi~el-t~~a~~~g~rgk~~veD~~f~lRkDp 73 (109)
T KOG3901|consen 38 DIVLEYITEL-THAAMEIGKRGKVKVEDFKFLLRKDP 73 (109)
T ss_pred HHHHHHHHHH-HHHHHHhcccCceeHHHHHHHHHhCh
Confidence 3444445555 45555544 44788999999999996
No 74
>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=65.63 E-value=28 Score=28.71 Aligned_cols=30 Identities=20% Similarity=0.321 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 59 AAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 59 ~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
+..|+..|...|...+...|+++|++.|++
T Consensus 360 L~~llR~A~~iA~~~~~~~I~~ehV~~Ai~ 389 (608)
T TIGR00764 360 LGGLVRAAGDIAKSSGKVYVTAEHVLKAKK 389 (608)
T ss_pred HHHHHHHHHHHHHhcCCceecHHHHHHHHH
Confidence 345777787788888889999999999876
No 75
>COG1067 LonB Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]
Probab=63.35 E-value=20 Score=30.04 Aligned_cols=31 Identities=16% Similarity=0.289 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHhcCCCcccHHHHHHHHhcc
Q psy15119 60 AEVLELAGNAARDNKKTRIIPRHLQLAIRND 90 (96)
Q Consensus 60 ~eIlela~~~a~~~~~k~Itp~~i~~ai~~d 90 (96)
..++..|+..|...+++-|+++|++.|+++.
T Consensus 369 ~~lv~~A~~ia~~~~~~~I~ae~Ve~a~~~~ 399 (647)
T COG1067 369 GNLVREAGDIAVSEGRKLITAEDVEEALQKR 399 (647)
T ss_pred HHHHHHhhHHHhcCCcccCcHHHHHHHHHhh
Confidence 3466688899998899999999999999874
No 76
>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=62.74 E-value=19 Score=26.33 Aligned_cols=56 Identities=14% Similarity=0.065 Sum_probs=32.2
Q ss_pred ccccCcccchhhhhhhhhcC---CcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy15119 18 SSRAGLQFPVGRIHRLLRKG---NYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDN 73 (96)
Q Consensus 18 s~ra~l~fpv~ri~r~lk~~---~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~ 73 (96)
+....+-|....+.+.|++- .....++.+...+|+.++|.-+.+|++.+...|.|-
T Consensus 37 ~~~~~~fL~~~~L~~~i~~i~~~~g~~~~~~d~l~llS~A~e~rLr~lie~~~~~s~hR 95 (264)
T PF05236_consen 37 SEKEEPFLNPSPLQKRIQKIAKKHGLKSVDEDVLELLSLATEERLRNLIEKAIVLSRHR 95 (264)
T ss_dssp -------S-HHHHHHHHHHHHHCTT--EE-TCHHHHHHHHHHHHHHHHHHHHH------
T ss_pred ccccccccCHHHHHHHHHHHHHHcCCcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 33445667776666666542 234679999999999999999999999999988763
No 77
>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=55.46 E-value=21 Score=25.86 Aligned_cols=41 Identities=10% Similarity=0.122 Sum_probs=33.1
Q ss_pred hhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHH
Q psy15119 28 GRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNA 69 (96)
Q Consensus 28 ~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~ 69 (96)
.|+..+..+... .=|+.+++.+|.-.||+++.+|++-+...
T Consensus 210 ~Rm~~ia~e~GL-~gvs~~~a~ll~~ale~~LK~lI~s~l~~ 250 (252)
T PF12767_consen 210 KRMEQIAWEHGL-GGVSDDCANLLNLALEVHLKNLIKSCLDL 250 (252)
T ss_pred HHHHHHHHHcCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 566666666444 77999999999999999999999877653
No 78
>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=54.12 E-value=4.8 Score=27.32 Aligned_cols=53 Identities=26% Similarity=0.303 Sum_probs=34.6
Q ss_pred hhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHH
Q psy15119 31 HRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQ 84 (96)
Q Consensus 31 ~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~ 84 (96)
+++++. ...-=|..+-.--+..+++--+.+++..|...|+.+|+..|.|.|+-
T Consensus 2 e~lFR~-aa~LdvdK~d~~r~~d~V~~Kl~DLl~va~~~Ak~ngRdvI~~~DLP 54 (138)
T PF09123_consen 2 ERLFRK-AAGLDVDKNDAKRYSDFVEKKLYDLLLVAQENAKANGRDVIEPRDLP 54 (138)
T ss_dssp HHHHHH-HHS----HHHHHHHHHHHHHHHHHCCCCHHHHHHHTT-SEE-GGGS-
T ss_pred hHHHHH-HhccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeeccccCC
Confidence 455555 22234445555566778888888888889999999999999999874
No 79
>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=54.12 E-value=39 Score=23.91 Aligned_cols=56 Identities=13% Similarity=0.064 Sum_probs=41.0
Q ss_pred ccccCcccchhhhhhhhhcC---CcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy15119 18 SSRAGLQFPVGRIHRLLRKG---NYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDN 73 (96)
Q Consensus 18 s~ra~l~fpv~ri~r~lk~~---~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~ 73 (96)
+..-...|....+.+.|..- ....-|+.+...+|+.++|..+..|++.+...+.|-
T Consensus 38 ~~~~~~fl~~~~l~~~~~~i~~~~g~~~~~~d~~~lis~a~e~rlr~li~k~~~~s~hR 96 (212)
T cd08045 38 SQKDPSFLNPSPLAKKIRKIAKKHGLKEVDEDVLDLISLALEERLRNLLEKLIEVSEHR 96 (212)
T ss_pred ccchhhccCHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34445666666665555441 122378999999999999999999999998888764
No 80
>TIGR01128 holA DNA polymerase III, delta subunit. subunit around DNA forming a DNA sliding clamp.
Probab=53.44 E-value=55 Score=23.46 Aligned_cols=67 Identities=13% Similarity=0.131 Sum_probs=39.0
Q ss_pred hhhhhhhhhcC--CcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhcchhc
Q psy15119 27 VGRIHRLLRKG--NYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEEL 93 (96)
Q Consensus 27 v~ri~r~lk~~--~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~eL 93 (96)
...+..|+++. .....|+.+|..+|...+..=+..+.-..-+.+--.+.+.||.+||+..+..+.+.
T Consensus 113 ~~~~~~~i~~~~~~~g~~i~~~a~~~l~~~~~~d~~~l~~el~KL~~~~~~~~It~e~I~~~~~~~~~~ 181 (302)
T TIGR01128 113 EQELPRWIQARLKKLGLRIDPDAVQLLAELVEGNLLAIAQELEKLALYAPDGKITLEDVEEAVSDSARF 181 (302)
T ss_pred HHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCcHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHhhhhcC
Confidence 34455555542 13457999999999887764333222222222222233469999999888766554
No 81
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=52.54 E-value=25 Score=27.17 Aligned_cols=66 Identities=21% Similarity=0.291 Sum_probs=50.7
Q ss_pred Ccccch---hhhhhhhhcCC----cccccCCChHHHHHHHHHH------HHHHHHHHHHHHHHhcCCCcccHHHHHHHH
Q psy15119 22 GLQFPV---GRIHRLLRKGN----YAERVGAGAPVYLAAVMEY------LAAEVLELAGNAARDNKKTRIIPRHLQLAI 87 (96)
Q Consensus 22 ~l~fpv---~ri~r~lk~~~----~~~ris~~A~v~laavLEy------l~~eIlela~~~a~~~~~k~Itp~~i~~ai 87 (96)
.+.||. ..+.-+|++.. ....++.++..+.++..-+ ...+++..|++.|...+..+|++.|+..|.
T Consensus 184 ~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A~eiAe~~~~~~v~~~~v~~a~ 262 (366)
T COG1474 184 EIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAEREGSRKVSEDHVREAQ 262 (366)
T ss_pred eeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHH
Confidence 477886 67777776643 2367777777777755544 346799999999999999999999999993
No 82
>smart00350 MCM minichromosome maintenance proteins.
Probab=49.88 E-value=51 Score=26.37 Aligned_cols=66 Identities=12% Similarity=0.141 Sum_probs=47.6
Q ss_pred cccchhhhhhhhhcCC--cccccCCChHHHHHHHHHHHH-------------------HHHHHHHHHHHHhcCCCcccHH
Q psy15119 23 LQFPVGRIHRLLRKGN--YAERVGAGAPVYLAAVMEYLA-------------------AEVLELAGNAARDNKKTRIIPR 81 (96)
Q Consensus 23 l~fpv~ri~r~lk~~~--~~~ris~~A~v~laavLEyl~-------------------~eIlela~~~a~~~~~k~Itp~ 81 (96)
..++...+.+++.-.+ ....++.++..|+......+= ..++.+|-..|+-.++..|+++
T Consensus 416 ~~~~~~~l~~yi~~ar~~~~P~ls~~~~~~i~~~y~~~R~~~~~~~~~~~~~~t~R~l~sliRla~A~A~l~~r~~V~~~ 495 (509)
T smart00350 416 VPISQEFLRKYIAYAREKIKPKLSEEAAEKLVKAYVDLRKEDSQSEARSSIPITVRQLESIIRLSEAHAKMRLSDVVEEA 495 (509)
T ss_pred ccCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHhcccccccccccccCcCHHHHHHHHHHHHHHHHHcCCCccCHH
Confidence 3567777777775533 246788888888866433321 4567778778888899999999
Q ss_pred HHHHHHh
Q psy15119 82 HLQLAIR 88 (96)
Q Consensus 82 ~i~~ai~ 88 (96)
|++.||.
T Consensus 496 Dv~~ai~ 502 (509)
T smart00350 496 DVEEAIR 502 (509)
T ss_pred HHHHHHH
Confidence 9999985
No 83
>PRK05574 holA DNA polymerase III subunit delta; Reviewed
Probab=47.17 E-value=68 Score=23.45 Aligned_cols=63 Identities=19% Similarity=0.183 Sum_probs=36.3
Q ss_pred hhhhhhhhhcC--CcccccCCChHHHHHHHHHH----HHHHHHHHHHHHHHhcCCCcccHHHHHHHHhcchhc
Q psy15119 27 VGRIHRLLRKG--NYAERVGAGAPVYLAAVMEY----LAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEEL 93 (96)
Q Consensus 27 v~ri~r~lk~~--~~~~ris~~A~v~laavLEy----l~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~eL 93 (96)
-..+..|+++. .....|+.+|..+|...+.. +..|+-.++. ++. +.+ ||.++|+..+..+.+.
T Consensus 148 ~~~~~~~i~~~~~~~g~~i~~~a~~~L~~~~~~d~~~l~~El~KL~l-~~~--~~~-It~~~I~~~i~~~~~~ 216 (340)
T PRK05574 148 EAELPQWIQQRLKQQGLQIDAAALQLLAERVEGNLLALAQELEKLAL-LYP--DGK-ITLEDVEEAVPDSARF 216 (340)
T ss_pred HHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCchHHHHHHHHHHHHh-hcC--CCC-CCHHHHHHHHhhhhcC
Confidence 34444444331 12357888999888876653 3333333332 211 233 9999999888766543
No 84
>PF12096 DUF3572: Protein of unknown function (DUF3572); InterPro: IPR021955 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 100 amino acids in length.
Probab=46.77 E-value=12 Score=23.55 Aligned_cols=43 Identities=30% Similarity=0.404 Sum_probs=28.4
Q ss_pred cccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHH
Q psy15119 41 ERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAI 87 (96)
Q Consensus 41 ~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai 87 (96)
-|-...-|.||++||+|++.+=--+. ..|... -|.|+.+-.|-
T Consensus 38 LR~~a~dp~FL~~VLdFl~~de~~l~-af~~a~---~~~p~~v~~Ar 80 (88)
T PF12096_consen 38 LRAAAGDPAFLAAVLDFLLMDEAWLL-AFCDAA---GIPPEAVAAAR 80 (88)
T ss_pred HHHHccChHHHHHHHHHHHcchHHHH-HHHHHc---CcChhHHHHHH
Confidence 56677889999999999997632111 233332 35677776654
No 85
>PRK09862 putative ATP-dependent protease; Provisional
Probab=46.75 E-value=29 Score=28.13 Aligned_cols=28 Identities=29% Similarity=0.349 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 61 EVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 61 eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
-|++.|...|.-.++..|+++||..|+.
T Consensus 463 rlLrvARTiADL~g~~~V~~~hv~eAl~ 490 (506)
T PRK09862 463 RLLKVARTIADIDQSDIITRQHLQEAVS 490 (506)
T ss_pred HHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 4788888999999999999999999986
No 86
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=45.20 E-value=37 Score=28.42 Aligned_cols=33 Identities=21% Similarity=0.297 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHhcCCCcccHHHHHHHHhcch
Q psy15119 59 AAEVLELAGNAARDNKKTRIIPRHLQLAIRNDE 91 (96)
Q Consensus 59 ~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~ 91 (96)
+..++..|..+|...+...|+|+||-+++-.++
T Consensus 5 a~~~L~~A~~~A~~~~h~~V~~EHLLlaLL~~~ 37 (731)
T TIGR02639 5 LERILDAALEEAKKRRHEFVTLEHILLALLFDS 37 (731)
T ss_pred HHHHHHHHHHHHHHhCCCcCcHHHHHHHHHcCc
Confidence 346778888999999999999999999987654
No 87
>CHL00095 clpC Clp protease ATP binding subunit
Probab=44.70 E-value=36 Score=28.92 Aligned_cols=32 Identities=16% Similarity=0.199 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHhcCCCcccHHHHHHHHhcch
Q psy15119 60 AEVLELAGNAARDNKKTRIIPRHLQLAIRNDE 91 (96)
Q Consensus 60 ~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~ 91 (96)
.+++..|..+|...+...|+|+|+-+++-.++
T Consensus 10 ~~vL~~A~~~A~~~~h~~V~~EHLLLaLL~~~ 41 (821)
T CHL00095 10 IKVIMLSQEEARRLGHNFVGTEQILLGLIGEG 41 (821)
T ss_pred HHHHHHHHHHHHHhCCCcCcHHHHHHHHHhCC
Confidence 45677888999999999999999999987654
No 88
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=44.58 E-value=37 Score=29.01 Aligned_cols=33 Identities=30% Similarity=0.358 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHhcCCCcccHHHHHHHHhcch
Q psy15119 59 AAEVLELAGNAARDNKKTRIIPRHLQLAIRNDE 91 (96)
Q Consensus 59 ~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~ 91 (96)
+..+++.|..+|...+...|+|+||-+++-.++
T Consensus 5 a~~vL~~A~~~A~~~~h~~V~~EHLLlaLl~~~ 37 (852)
T TIGR03346 5 FQEALQAAQSLALGRDHQQIEPEHLLKALLDQE 37 (852)
T ss_pred HHHHHHHHHHHHHHcCCCcccHHHHHHHHHhCC
Confidence 456778898999999999999999999987654
No 89
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=40.82 E-value=48 Score=27.76 Aligned_cols=33 Identities=21% Similarity=0.172 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHhcCCCcccHHHHHHHHhcch
Q psy15119 59 AAEVLELAGNAARDNKKTRIIPRHLQLAIRNDE 91 (96)
Q Consensus 59 ~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~ 91 (96)
+.++++.|..+|...+...|+++||-+|+-.++
T Consensus 82 lk~vL~~A~~~A~~~g~~~I~teHLLLALl~~~ 114 (731)
T TIGR02639 82 VQRVLQRALLHVKSAGKKEIGIGDILVALFDEE 114 (731)
T ss_pred HHHHHHHHHHHHHHcCCCccCHHHHHHHHhcCc
Confidence 356788888888888999999999999987653
No 90
>TIGR00368 Mg chelatase-related protein. The N-terminal end matches very strongly a pfam Mg_chelatase domain.
Probab=40.60 E-value=38 Score=27.31 Aligned_cols=47 Identities=23% Similarity=0.261 Sum_probs=35.5
Q ss_pred ccCCChHHHHHHHHHHH------HHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 42 RVGAGAPVYLAAVMEYL------AAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 42 ris~~A~v~laavLEyl------~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
.++..+..+|..+.+-+ ..-|+..|...|.-.+...|+++||..|+.
T Consensus 445 ~l~~~~~~~l~~a~~~~~lS~R~~~rilrvArTiAdL~g~~~i~~~hv~eA~~ 497 (499)
T TIGR00368 445 KLSAIDANDLEGALNKLGLSSRATHRILKVARTIADLKEEKNISREHLAEAIE 497 (499)
T ss_pred CCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHh
Confidence 34555555555555543 345899999999999999999999999984
No 91
>COG5248 TAF19 Transcription initiation factor TFIID, subunit TAF13 [Transcription]
Probab=40.29 E-value=1.1e+02 Score=20.20 Aligned_cols=52 Identities=21% Similarity=0.182 Sum_probs=34.5
Q ss_pred cccCCChHHHHHHHHHHHHHHHHHHHHHHHHhc-CCCcccHHHHHHHHhcchh
Q psy15119 41 ERVGAGAPVYLAAVMEYLAAEVLELAGNAARDN-KKTRIIPRHLQLAIRNDEE 92 (96)
Q Consensus 41 ~ris~~A~v~laavLEyl~~eIlela~~~a~~~-~~k~Itp~~i~~ai~~d~e 92 (96)
+-+-.-++.-..+.=||+..++.+++.|.++-. .+....-+|...|++.|+.
T Consensus 23 GDvv~P~~dt~~~L~e~V~dY~~~~ctna~~~Aq~rnK~k~eDfkfaLr~Dpk 75 (126)
T COG5248 23 GDVVAPRYDTAEALHEYVLDYMSILCTNAHNMAQVRNKTKTEDFKFALRRDPK 75 (126)
T ss_pred CCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHHHhhChH
Confidence 334444555556666788888777776654432 3445678999999998863
No 92
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=39.53 E-value=52 Score=28.04 Aligned_cols=34 Identities=24% Similarity=0.283 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHhcCCCcccHHHHHHHHhcchh
Q psy15119 59 AAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEE 92 (96)
Q Consensus 59 ~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~e 92 (96)
+.++++.|.+.|...+...|+|+|+-+++-.+.+
T Consensus 6 ~~~~l~~a~~~a~~~~~~~~~~~h~l~~l~~~~~ 39 (758)
T PRK11034 6 LELSLNMAFARAREHRHEFMTVEHLLLALLSNPS 39 (758)
T ss_pred HHHHHHHHHHHHHHcCCCcchHHHHHHHHHcChh
Confidence 4567888999999999999999999999877654
No 93
>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=39.34 E-value=16 Score=22.38 Aligned_cols=29 Identities=24% Similarity=0.346 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 59 AAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 59 ~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
+...|.+|...|...+.. |+..||..|-+
T Consensus 48 l~ktLrlA~m~A~g~g~~-i~~~~i~~A~~ 76 (78)
T PF09077_consen 48 LTKTLRLAAMFAKGEGEA-ITADHIRAAWK 76 (78)
T ss_dssp HHHHHGGGT-TT-TTS---SSHHHHHHHHT
T ss_pred HHHHHHHHHHHhccCCCc-CCHHHHHHHHH
Confidence 455678888888877766 99999998864
No 94
>PRK05629 hypothetical protein; Validated
Probab=39.28 E-value=87 Score=23.18 Aligned_cols=61 Identities=13% Similarity=0.067 Sum_probs=38.6
Q ss_pred hhhhhhhhcC--CcccccCCChHHHHHHHHH----HHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhcchhc
Q psy15119 28 GRIHRLLRKG--NYAERVGAGAPVYLAAVME----YLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEEL 93 (96)
Q Consensus 28 ~ri~r~lk~~--~~~~ris~~A~v~laavLE----yl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~eL 93 (96)
..+.+|+++. .....|+.+|..||...++ .+-.||=+++. .. ...||.+||+..+....+.
T Consensus 129 ~~l~~wi~~~~~~~g~~i~~~A~~~L~~~~g~dl~~l~~EleKL~~----~~-~~~It~e~V~~~v~~~~~~ 195 (318)
T PRK05629 129 RERPGWVTQEFKNHGVRPTPDVVHALLEGVGSDLRELASAISQLVE----DT-QGNVTVEKVRAYYVGVAEV 195 (318)
T ss_pred HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHCccHHHHHHHHHHHHh----cC-CCCcCHHHHHHHhCCCccc
Confidence 4445555542 1346899999988887654 34444544442 22 3469999999888766554
No 95
>KOG1051|consensus
Probab=39.15 E-value=50 Score=28.87 Aligned_cols=32 Identities=25% Similarity=0.346 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHhcCCCcccHHHHHHHHhcch
Q psy15119 60 AEVLELAGNAARDNKKTRIIPRHLQLAIRNDE 91 (96)
Q Consensus 60 ~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~ 91 (96)
+.+|..|..+|+..|.--+||.|+-.++-.++
T Consensus 17 a~~L~~a~~~Arrrgh~qvtplH~~~~LLs~~ 48 (898)
T KOG1051|consen 17 ATVLKQAVTEARRRGHAQVTPLHVASTLLSSP 48 (898)
T ss_pred HHHHHHHHHHHHHcCCCCcchHHHHHHHHcCC
Confidence 45899999999999999999999998876553
No 96
>KOG4654|consensus
Probab=39.14 E-value=39 Score=24.49 Aligned_cols=41 Identities=17% Similarity=0.281 Sum_probs=29.7
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhcc
Q psy15119 46 GAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRND 90 (96)
Q Consensus 46 ~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d 90 (96)
+|-+++.+++|||...|-.- |.-+.-...+.+.+...|+.+
T Consensus 165 ~AL~ni~aiiehfnpKiedy----aavnhi~qlsadeV~eVikae 205 (252)
T KOG4654|consen 165 GALNNILAIIEHFNPKIEDY----AAVNHIPQLSADEVEEVIKAE 205 (252)
T ss_pred HHHHHHHHHHHhcCchhhhH----HHhcccccccHHHHHHHHHHh
Confidence 46789999999999988743 333344567888888887654
No 97
>PF09377 SBDS_C: SBDS protein C-terminal domain; InterPro: IPR018978 This entry represents the C-terminal domain of proteins that are highly conserved in species ranging from archaea to vertebrates and plants []. The family contains several Shwachman-Bodian-Diamond syndrome (SBDS, OMIM 260400) proteins from both mouse and humans. Shwachman-Diamond syndrome is an autosomal recessive disorder with clinical features that include pancreatic exocrine insufficiency, haematological dysfunction and skeletal abnormalities. It is characterised by bone marrow failure and leukemia predisposition. Members of this family play a role in RNA metabolism [, ]. In yeast Sdo1 is involved in the biogenesis of the 60S ribosomal subunit and translational activation of ribosomes. Together with the EF-2-like GTPase RIA1 (EfI1), it triggers the GTP-dependent release of TIF6 from 60S pre-ribosomes in the cytoplasm, thereby activating ribosomes for translation competence by allowing 80S ribosome assembly and facilitating TIF6 recycling to the nucleus, where it is required for 60S rRNA processing and nuclear export. This data links defective late 60S subunit maturation to an inherited bone marrow failure syndrome associated with leukemia predisposition []. A number of uncharacterised hydrophilic proteins of about 30 kDa share regions of similarity. These include, Mouse protein 22A3. Saccharomyces cerevisiae chromosome XII hypothetical protein YLR022c. Caenorhabditis elegans hypothetical protein W06E11.4. Methanocaldococcus jannaschii (Methanococcus jannaschii) hypothetical protein MJ0592. ; GO: 0042254 ribosome biogenesis; PDB: 2KDO_A 2L9N_A 2WBM_B 1P9Q_C 1T95_A.
Probab=39.04 E-value=66 Score=20.99 Aligned_cols=30 Identities=17% Similarity=0.390 Sum_probs=20.3
Q ss_pred ccCcccchhhhhhhhhcCCcccccCCChHH
Q psy15119 20 RAGLQFPVGRIHRLLRKGNYAERVGAGAPV 49 (96)
Q Consensus 20 ra~l~fpv~ri~r~lk~~~~~~ris~~A~v 49 (96)
+.+..+|+++|++.|++-.++-....+|-.
T Consensus 18 ~T~rP~p~~~IE~Am~e~~~~v~p~ksak~ 47 (125)
T PF09377_consen 18 RTNRPYPPTRIEKAMKEAHFSVDPNKSAKQ 47 (125)
T ss_dssp TTTBTT-HHHHHHHHHHTTS-SSTTS-HHH
T ss_pred CCCCCCCHHHHHHHHHhCCcccCCCCCHHH
Confidence 457899999999999886665555555544
No 98
>TIGR02263 benz_CoA_red_C benzoyl-CoA reductase, subunit C. This model describes C subunit of benzoyl-CoA reductase, a 4-subunit enzyme. Many aromatic compounds are metabolized by way of benzoyl-CoA. This enzyme acts under anaerobic conditions.
Probab=37.91 E-value=83 Score=24.23 Aligned_cols=37 Identities=19% Similarity=0.150 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhcch
Q psy15119 54 VMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDE 91 (96)
Q Consensus 54 vLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~ 91 (96)
.++|+..|+-++....-+..| ++||++.|+.||..-.
T Consensus 136 ~~~Y~~~el~~l~~~LE~~~G-~~it~e~L~~aI~~~N 172 (380)
T TIGR02263 136 GGEFYTAELNELCEGLEHLSG-KKITDDAIRASIAVFN 172 (380)
T ss_pred HHHHHHHHHHHHHHHHHHHHC-CCCCHHHHHHHHHHHH
Confidence 388888888888776666656 5689999999987543
No 99
>KOG3902|consensus
Probab=37.80 E-value=1.4e+02 Score=23.08 Aligned_cols=52 Identities=19% Similarity=0.117 Sum_probs=36.6
Q ss_pred ccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhcch
Q psy15119 40 AERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDE 91 (96)
Q Consensus 40 ~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~ 91 (96)
...-.-.+.+....++-==+.|++-.+...+...|..-|||+|+-.-|..|.
T Consensus 40 i~~P~pett~Lved~V~gqvie~l~qa~eia~lrgsr~Itpedliflir~Dr 91 (352)
T KOG3902|consen 40 IPDPLPETTNLVEDNVRGQVIESLVQANEIADLRGSRSITPEDLIFLIRHDR 91 (352)
T ss_pred CCCCcHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCccccChHHHHHHhhccH
Confidence 3443334444444444444567777888888889999999999998888873
No 100
>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=37.65 E-value=72 Score=22.44 Aligned_cols=46 Identities=15% Similarity=-0.025 Sum_probs=28.6
Q ss_pred cCCChHHHHHHHHH---HHHHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 43 VGAGAPVYLAAVME---YLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 43 is~~A~v~laavLE---yl~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
++..+...+..... +.+..+...+...|...+.+.|++++|+.++.
T Consensus 216 ~~~~~~~~i~~~s~G~p~~i~~l~~~~~~~a~~~~~~~i~~~~v~~~~~ 264 (269)
T TIGR03015 216 FSEGAFDAIHRFSRGIPRLINILCDRLLLSAFLEEKREIGGEEVREVIA 264 (269)
T ss_pred cCHHHHHHHHHHcCCcccHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 44444444444322 12444555555666667888999999999986
No 101
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=37.56 E-value=53 Score=28.27 Aligned_cols=32 Identities=19% Similarity=0.202 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHhcCCCcccHHHHHHHHhcc
Q psy15119 59 AAEVLELAGNAARDNKKTRIIPRHLQLAIRND 90 (96)
Q Consensus 59 ~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d 90 (96)
+.++++.|...|...+...|+|+||-+++-.+
T Consensus 5 a~~~L~~A~~~A~~~~h~~I~~eHLLlaLL~~ 36 (852)
T TIGR03345 5 SRRALEQAAALCVARGHPEVELEHWLLALLDQ 36 (852)
T ss_pred HHHHHHHHHHHHHHhCCCcccHHHHHHHHHhc
Confidence 45677889999999999999999999998655
No 102
>PHA02943 hypothetical protein; Provisional
Probab=37.28 E-value=78 Score=22.07 Aligned_cols=35 Identities=20% Similarity=0.135 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHhcCCCcccHHHHHHHHhcchhc
Q psy15119 59 AAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEEL 93 (96)
Q Consensus 59 ~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~eL 93 (96)
+.++...-.....+++.+-|+|.++-.-|..|.|-
T Consensus 76 v~~~~Relwrlv~s~~~kfi~p~~l~~li~kd~~a 110 (165)
T PHA02943 76 VFEIKRELWRLVCNSRLKFITPSRLLRLIAKDTEA 110 (165)
T ss_pred HHHHHHHHHHHHHhccccccChHHHHHHHHhCHHH
Confidence 67777777788888999999999999999999874
No 103
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=37.22 E-value=54 Score=26.07 Aligned_cols=29 Identities=14% Similarity=0.195 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHhcCCCcccHHHHHHHHhc
Q psy15119 61 EVLELAGNAARDNKKTRIIPRHLQLAIRN 89 (96)
Q Consensus 61 eIlela~~~a~~~~~k~Itp~~i~~ai~~ 89 (96)
.|+..|+..|...++..|+.+|+..|+..
T Consensus 395 ~i~~eA~~~Alr~~r~~Vt~~D~~~A~~~ 423 (438)
T PTZ00361 395 AICTEAGLLALRERRMKVTQADFRKAKEK 423 (438)
T ss_pred HHHHHHHHHHHHhcCCccCHHHHHHHHHH
Confidence 34555667777778889999999999865
No 104
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=37.18 E-value=63 Score=24.40 Aligned_cols=29 Identities=14% Similarity=0.126 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHhcCCCcccHHHHHHHHhc
Q psy15119 61 EVLELAGNAARDNKKTRIIPRHLQLAIRN 89 (96)
Q Consensus 61 eIlela~~~a~~~~~k~Itp~~i~~ai~~ 89 (96)
.++..|+..|...++..|+.+|+..|+..
T Consensus 334 ~l~~~A~~~a~~~~~~~i~~~d~~~a~~~ 362 (364)
T TIGR01242 334 AICTEAGMFAIREERDYVTMDDFIKAVEK 362 (364)
T ss_pred HHHHHHHHHHHHhCCCccCHHHHHHHHHH
Confidence 34555666666678889999999999863
No 105
>CHL00095 clpC Clp protease ATP binding subunit
Probab=36.34 E-value=59 Score=27.69 Aligned_cols=33 Identities=36% Similarity=0.395 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHhcCCCcccHHHHHHHHhcch
Q psy15119 59 AAEVLELAGNAARDNKKTRIIPRHLQLAIRNDE 91 (96)
Q Consensus 59 ~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~ 91 (96)
+.++++.|...|...+...|+++|+-+|+-.++
T Consensus 84 ~~~vL~~A~~~A~~~~~~~I~~eHLLlALL~~~ 116 (821)
T CHL00095 84 AKRVLEMSLEEARDLGHNYIGTEHLLLALLEEG 116 (821)
T ss_pred HHHHHHHHHHHHHHhCCCcccHHHHHHHHHhCC
Confidence 346777888888888888999999999987654
No 106
>PHA01971 hypothetical protein
Probab=33.99 E-value=37 Score=22.60 Aligned_cols=21 Identities=29% Similarity=0.537 Sum_probs=15.8
Q ss_pred HHhcCCCcccHHHHHHHHhcc
Q psy15119 70 ARDNKKTRIIPRHLQLAIRND 90 (96)
Q Consensus 70 a~~~~~k~Itp~~i~~ai~~d 90 (96)
++.....||||+||+..|...
T Consensus 12 ~kg~~aPRvT~~~Ie~~I~~e 32 (123)
T PHA01971 12 AKGLTAPRITPQHIESIIASE 32 (123)
T ss_pred HhccCCCcCCHHHHHHHhhhe
Confidence 344567899999999888643
No 107
>COG4905 Predicted membrane protein [Function unknown]
Probab=32.97 E-value=51 Score=23.92 Aligned_cols=22 Identities=27% Similarity=0.511 Sum_probs=18.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q psy15119 47 APVYLAAVMEYLAAEVLELAGN 68 (96)
Q Consensus 47 A~v~laavLEyl~~eIlela~~ 68 (96)
-++++..|+||+++-|||.--|
T Consensus 70 fsi~ivTv~Eyvt~~ILEa~Fn 91 (243)
T COG4905 70 FSIFIVTVLEYVTGFILEAIFN 91 (243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHc
Confidence 3578899999999999987643
No 108
>PRK07452 DNA polymerase III subunit delta; Validated
Probab=32.91 E-value=1.3e+02 Score=22.07 Aligned_cols=61 Identities=13% Similarity=0.153 Sum_probs=36.4
Q ss_pred hhhhhhcC--CcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHh--cCCCcccHHHHHHHHhcc
Q psy15119 30 IHRLLRKG--NYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARD--NKKTRIIPRHLQLAIRND 90 (96)
Q Consensus 30 i~r~lk~~--~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~--~~~k~Itp~~i~~ai~~d 90 (96)
+.+|+++. .....|+.+|..+|+..+..=+..+.-.--+.+-- .+..+||+++|+..+...
T Consensus 135 l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~dl~~l~~EleKL~ly~~~~~~~It~~~V~~~v~~~ 199 (326)
T PRK07452 135 LKQLVERTAQELGVKLTPEAAELLAEAVGNDSRRLYNELEKLALYAENSTKPISAEEVKALVSNT 199 (326)
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHHHhCccHHHHHHHHHHHHHhccCCCCccCHHHHHHHhccC
Confidence 45555552 13467999999998887664333222222222222 235679999999887643
No 109
>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=32.90 E-value=71 Score=26.40 Aligned_cols=47 Identities=11% Similarity=0.133 Sum_probs=31.8
Q ss_pred ccCCChHHHHHHHHHHHH-------HHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 42 RVGAGAPVYLAAVMEYLA-------AEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 42 ris~~A~v~laavLEyl~-------~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
.|+..+.-||+.+..-+- .-++..|-..|.-.|+..|+++||+.|+.
T Consensus 249 ~is~~~~~~l~~~~~~~~i~s~Ra~i~~~r~Ara~AaL~gr~~V~~~Dv~~A~~ 302 (633)
T TIGR02442 249 RISDSLIRFISELCIEFGVDGHRADIVMARAARALAALDGRRRVTAEDVREAAE 302 (633)
T ss_pred CCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHH
Confidence 455555556555443332 22566677778888999999999998764
No 110
>PRK06585 holA DNA polymerase III subunit delta; Reviewed
Probab=32.85 E-value=1.1e+02 Score=22.65 Aligned_cols=63 Identities=21% Similarity=0.221 Sum_probs=39.9
Q ss_pred hhhhhhhhcC--CcccccCCChHHHHHHHHHH----HHHHHHHHHHHHHHhcCCCcccHHHHHHHHhcchhc
Q psy15119 28 GRIHRLLRKG--NYAERVGAGAPVYLAAVMEY----LAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEEL 93 (96)
Q Consensus 28 ~ri~r~lk~~--~~~~ris~~A~v~laavLEy----l~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~eL 93 (96)
..+.+|+++. .....|+.+|..+|+..++. +..||-+++. ++ .+...||.+||+..+....+.
T Consensus 145 ~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~dl~~l~~EleKL~l-y~--~~~~~It~edV~~lv~~~~e~ 213 (343)
T PRK06585 145 RDLARLIDDELAEAGLRITPDARALLVALLGGDRLASRNEIEKLAL-YA--HGKGEITLDDVRAVVGDASAL 213 (343)
T ss_pred HHHHHHHHHHHHHCCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHHH-hc--CCCCCCCHHHHHHHhCCcccc
Confidence 3445555442 13468999999999987765 3334444442 22 234579999999888766554
No 111
>PRK10865 protein disaggregation chaperone; Provisional
Probab=32.82 E-value=72 Score=27.46 Aligned_cols=33 Identities=30% Similarity=0.208 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHhcCCCcccHHHHHHHHhcch
Q psy15119 59 AAEVLELAGNAARDNKKTRIIPRHLQLAIRNDE 91 (96)
Q Consensus 59 ~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~ 91 (96)
+.++++.|...|...+...|+|+||-+++-.++
T Consensus 10 ~~~~l~~a~~~a~~~~~~~~~~~hll~~l~~~~ 42 (857)
T PRK10865 10 FQLALADAQSLALGHDNQFIEPLHLMSALLNQE 42 (857)
T ss_pred HHHHHHHHHHHHHHcCCCcccHHHHHHHHHhCC
Confidence 445678888999999999999999999997664
No 112
>PF11705 RNA_pol_3_Rpc31: DNA-directed RNA polymerase III subunit Rpc31; InterPro: IPR024661 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA polymerase III-specific, and form the functionally distinct groups: (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in Saccharomyces cerevisiae and Homo sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain []. This entry represents the Rpc31 subunit.
Probab=32.15 E-value=34 Score=24.57 Aligned_cols=9 Identities=67% Similarity=1.029 Sum_probs=6.1
Q ss_pred CCCCCCCCC
Q psy15119 1 MSGRGKGGK 9 (96)
Q Consensus 1 m~~~~~~~~ 9 (96)
|||||.++.
T Consensus 1 MSgRGggrg 9 (233)
T PF11705_consen 1 MSGRGGGRG 9 (233)
T ss_pred CCCCCCCCC
Confidence 998875433
No 113
>COG1466 HolA DNA polymerase III, delta subunit [DNA replication, recombination, and repair]
Probab=31.79 E-value=1.5e+02 Score=22.22 Aligned_cols=67 Identities=10% Similarity=0.094 Sum_probs=44.1
Q ss_pred hhhhhhhhcC--CcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhcchhcC
Q psy15119 28 GRIHRLLRKG--NYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELN 94 (96)
Q Consensus 28 ~ri~r~lk~~--~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~eL~ 94 (96)
..+.+|++.. ...-+|+.+|.-||+..++.=+..|.-.-.+.+--.+.+.|+-++|+.+|....+.+
T Consensus 143 ~~l~~~i~~~~~~~~l~i~~~a~~~L~~~~~~nl~~i~~Ei~KL~l~~~~~~I~~~~V~~~v~~~~~~~ 211 (334)
T COG1466 143 AELPQWIKKRAKELGLKIDQEAIQLLLEALGGNLLAIAQEIEKLALYAGDKEITLEDVEEVVSDVAEFN 211 (334)
T ss_pred HHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCCcCCHHHHHHHHhccccCC
Confidence 4456666552 145799999999999988854444433333333333444999999999998766543
No 114
>PRK07914 hypothetical protein; Reviewed
Probab=31.72 E-value=1e+02 Score=22.84 Aligned_cols=63 Identities=14% Similarity=0.105 Sum_probs=39.7
Q ss_pred chhhhhhhhhcCC--cccccCCChHHHHHHHHH----HHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhcchhc
Q psy15119 26 PVGRIHRLLRKGN--YAERVGAGAPVYLAAVME----YLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEEL 93 (96)
Q Consensus 26 pv~ri~r~lk~~~--~~~ris~~A~v~laavLE----yl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~eL 93 (96)
+-..+.+|+++.. ....|+.+|.-+|...++ .+..|+-.+ +-..+ ..||.++|+..+....+.
T Consensus 129 ~~~~l~~wi~~~a~~~g~~i~~~A~~~L~~~~g~dl~~l~~EleKL----~~~~~-~~It~e~V~~~v~~~~~~ 197 (320)
T PRK07914 129 KAAERADFVRKEFRSLRVKVDDDTVTALLDAVGSDLRELASACSQL----VADTG-GAVDAAAVRRYHSGKAEV 197 (320)
T ss_pred CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHCccHHHHHHHHHHH----hcCCC-CCcCHHHHHHHcCCCeec
Confidence 3455566666632 345789999888888664 333333333 22223 569999999988776654
No 115
>KOG3131|consensus
Probab=31.37 E-value=41 Score=25.23 Aligned_cols=38 Identities=13% Similarity=0.209 Sum_probs=26.0
Q ss_pred cccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHH
Q psy15119 23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLE 64 (96)
Q Consensus 23 l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIle 64 (96)
-..|+..+++.|.+... .+- -+-|+.++||-|-.....
T Consensus 39 ~~v~~~~fq~klensr~--kle--~S~Fl~~~lEqLq~~l~~ 76 (281)
T KOG3131|consen 39 PDVNVEKFQPKLENSRT--KLE--QSDFLLVALEQLQQQLEG 76 (281)
T ss_pred ccccHHHHHHHHHHHHH--HHH--HHHHHHHHHHHHhHHHhh
Confidence 34677778999888543 232 345888999988877733
No 116
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=31.33 E-value=91 Score=24.02 Aligned_cols=28 Identities=21% Similarity=0.216 Sum_probs=20.7
Q ss_pred HHHHHHHHHHhcCCCcccHHHHHHHHhc
Q psy15119 62 VLELAGNAARDNKKTRIIPRHLQLAIRN 89 (96)
Q Consensus 62 Ilela~~~a~~~~~k~Itp~~i~~ai~~ 89 (96)
++..|+..|-..++..|+.+|+..|+..
T Consensus 344 l~~eA~~~a~~~~~~~i~~~d~~~A~~~ 371 (389)
T PRK03992 344 ICTEAGMFAIRDDRTEVTMEDFLKAIEK 371 (389)
T ss_pred HHHHHHHHHHHcCCCCcCHHHHHHHHHH
Confidence 3444555565667788999999999864
No 117
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=31.07 E-value=82 Score=27.17 Aligned_cols=33 Identities=36% Similarity=0.511 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHhcCCCcccHHHHHHHHhcch
Q psy15119 59 AAEVLELAGNAARDNKKTRIIPRHLQLAIRNDE 91 (96)
Q Consensus 59 ~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~ 91 (96)
+.+++..|...|...+...|+++||-+++-.++
T Consensus 6 ~~~~l~~a~~~a~~~~h~~~~~eHll~~ll~~~ 38 (786)
T COG0542 6 AQKALELAQELARMRRHEYVTPEHLLLALLDQP 38 (786)
T ss_pred HHHHHHHHHHHHHHhCCCcccHHHHHHHHHcCC
Confidence 456788888999988999999999999987665
No 118
>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=31.05 E-value=85 Score=23.97 Aligned_cols=46 Identities=13% Similarity=0.074 Sum_probs=28.8
Q ss_pred ccCCChHHHHHHHHHHHHHH-------HHHHHHHHHHhcCCCcccHHHHHHHH
Q psy15119 42 RVGAGAPVYLAAVMEYLAAE-------VLELAGNAARDNKKTRIIPRHLQLAI 87 (96)
Q Consensus 42 ris~~A~v~laavLEyl~~e-------Ilela~~~a~~~~~k~Itp~~i~~ai 87 (96)
.|++...-|++.+..-+-.+ ++..|-..|--+|+..++|+||+.++
T Consensus 254 ~v~d~~~~~i~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~~dDv~~~a 306 (337)
T TIGR02030 254 TIPYDVLVKVAELCAELDVDGLRGELTLNRAAKALAAFEGRTEVTVDDIRRVA 306 (337)
T ss_pred cCCHHHHHHHHHHHHHHCCCCCcHHHHHHHHHHHHHHHcCCCCCCHHHHHHHH
Confidence 34455555555544443221 34455556677899999999999765
No 119
>PRK08487 DNA polymerase III subunit delta; Validated
Probab=30.36 E-value=1.6e+02 Score=21.99 Aligned_cols=60 Identities=18% Similarity=0.098 Sum_probs=38.1
Q ss_pred hhhhhhhhcC--CcccccCCChHHHHHHHHH----HHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhcchhc
Q psy15119 28 GRIHRLLRKG--NYAERVGAGAPVYLAAVME----YLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEEL 93 (96)
Q Consensus 28 ~ri~r~lk~~--~~~~ris~~A~v~laavLE----yl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~eL 93 (96)
..+.+|+++. .....|+.+|..+|...++ .+..||=+++.- .+ +||++||+..+....+.
T Consensus 138 ~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~dl~~l~~ELeKL~ly----~~--~It~edV~~~v~~~~e~ 203 (328)
T PRK08487 138 REALELLQERAKELGLDIDQNALNHLYFIHNEDLALAANELEKLAIL----NE--PITLKDIQELVFGLGSV 203 (328)
T ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCcHHHHHHHHHHHHHHh----cC--CCCHHHHHHHhcccccc
Confidence 3345555442 1346899999999988654 444455444432 12 79999999988665543
No 120
>KOG3321|consensus
Probab=29.94 E-value=20 Score=25.18 Aligned_cols=41 Identities=24% Similarity=0.307 Sum_probs=30.6
Q ss_pred cCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHH
Q psy15119 43 VGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQ 84 (96)
Q Consensus 43 is~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~ 84 (96)
+-.-++..+...|||+...+.+-.+..|.--....| |.||+
T Consensus 119 l~~~tgsTl~tfleYI~rn~pegV~mq~~~tele~i-p~~lk 159 (175)
T KOG3321|consen 119 LYSVTGSTLDTFLEYIQRNLPEGVGMQAKFTELEEI-PLHLK 159 (175)
T ss_pred HhhcCchHHHHHHHHHHhhChhhhcceeceeecccc-hHhHh
Confidence 445678888899999999999988876654444444 77777
No 121
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=29.81 E-value=89 Score=26.78 Aligned_cols=33 Identities=30% Similarity=0.386 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHhcCCCcccHHHHHHHHhcch
Q psy15119 59 AAEVLELAGNAARDNKKTRIIPRHLQLAIRNDE 91 (96)
Q Consensus 59 ~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~ 91 (96)
+.++++.|...|...+...|.+.||-+|+-.++
T Consensus 82 ~~~vLe~A~~~A~~~g~~~I~teHLLlALl~e~ 114 (852)
T TIGR03346 82 LNRLLNLAEKLAQKRGDEFISSEHLLLALLDDK 114 (852)
T ss_pred HHHHHHHHHHHHHHcCCCcccHHHHHHHHHcCC
Confidence 456788888888888888999999999987664
No 122
>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=29.05 E-value=87 Score=25.33 Aligned_cols=29 Identities=21% Similarity=0.424 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHhcCCCcccHHHHHHHHhc
Q psy15119 61 EVLELAGNAARDNKKTRIIPRHLQLAIRN 89 (96)
Q Consensus 61 eIlela~~~a~~~~~k~Itp~~i~~ai~~ 89 (96)
.+++.|...|...++..|+.+||+.++.+
T Consensus 303 nll~~Aa~~A~~~~~~~It~~dI~~vl~~ 331 (531)
T TIGR02902 303 NIVQLAAGIALGEGRKRILAEDIEWVAEN 331 (531)
T ss_pred HHHHHHHHHHhhCCCcEEcHHHHHHHhCC
Confidence 45666666676677889999999999864
No 123
>TIGR03191 benz_CoA_bzdO benzoyl-CoA reductase, bzd-type, O subunit. Members of this family are the O subunit of one of two related types of four-subunit ATP-dependent benzoyl-CoA reductase. This enzyme system catalyzes the dearomatization of benzoyl-CoA, a common intermediate in pathways for the degradation for a number of different aromatic compounds, such as phenol and toluene.
Probab=28.93 E-value=1.2e+02 Score=23.84 Aligned_cols=39 Identities=15% Similarity=0.194 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhcc
Q psy15119 51 LAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRND 90 (96)
Q Consensus 51 laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d 90 (96)
-...++|+..|+-++.-..-+..| ++|+.+.|+.||+|.
T Consensus 153 ~~~~~~Y~~~ql~~l~~~LEe~tG-~kit~e~L~eaI~n~ 191 (430)
T TIGR03191 153 TDARLDYVANQLHDGIEFVEKASG-RKCDDELFIKAIKNE 191 (430)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHhC-CCCCHHHHHHHHHHH
Confidence 355678888888776655555555 569999999999854
No 124
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=28.20 E-value=1.2e+02 Score=25.10 Aligned_cols=48 Identities=27% Similarity=0.131 Sum_probs=32.8
Q ss_pred cccCCChHHHHHHHHHHHHH-------HHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 41 ERVGAGAPVYLAAVMEYLAA-------EVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 41 ~ris~~A~v~laavLEyl~~-------eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
-.|+....-|++.+...+-. -++..|...|--.|+..|+++||..|+.
T Consensus 194 v~v~~~~l~~i~~~~~~~gv~S~Ra~i~llraARa~AaL~Gr~~V~~~dv~~Aa~ 248 (584)
T PRK13406 194 VGPPPEAIAALCAAAAALGIASLRAPLLALRAARAAAALAGRTAVEEEDLALAAR 248 (584)
T ss_pred CCCCHHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 34555555555544444432 3677777888888999999999998874
No 125
>PRK13194 pyrrolidone-carboxylate peptidase; Provisional
Probab=27.26 E-value=88 Score=22.32 Aligned_cols=42 Identities=21% Similarity=0.237 Sum_probs=35.3
Q ss_pred CcccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHH
Q psy15119 22 GLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVL 63 (96)
Q Consensus 22 ~l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIl 63 (96)
..++|+..+-+.+++...--.+|.+|--|++-.+=|......
T Consensus 112 ~ttlp~~~l~~~l~~~gip~~~S~dAG~ylCN~iyY~sL~~~ 153 (208)
T PRK13194 112 FATLPTREIVEELKKNGIPAVLSYSAGTYLCNYVMYLTLHHS 153 (208)
T ss_pred cCCCCHHHHHHHHHhcCCCcEEeCCCccchhHHHHHHHHHHH
Confidence 357999988888888777799999999999999999776554
No 126
>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=27.02 E-value=1.3e+02 Score=16.94 Aligned_cols=47 Identities=6% Similarity=0.035 Sum_probs=34.2
Q ss_pred ccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15119 24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAAR 71 (96)
Q Consensus 24 ~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~ 71 (96)
.+|=+-+..+|... +..--.....-.++=+.+=|+++|+.-|..+++
T Consensus 2 ~IPD~v~~~yL~~~-G~~~~D~rv~RLvSLaaQKFisdI~~dA~q~~k 48 (51)
T PF03540_consen 2 TIPDEVTDYYLERS-GFQTSDPRVKRLVSLAAQKFISDIANDAMQYCK 48 (51)
T ss_pred CCCHHHHHHHHHHC-CCCCCCHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46777788888883 444444455556677889999999999888775
No 127
>PRK05907 hypothetical protein; Provisional
Probab=26.24 E-value=1.6e+02 Score=22.14 Aligned_cols=63 Identities=17% Similarity=0.172 Sum_probs=40.1
Q ss_pred hhhhhhhhcC--CcccccCCChHHHHHHHH-----HHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhcchhc
Q psy15119 28 GRIHRLLRKG--NYAERVGAGAPVYLAAVM-----EYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEEL 93 (96)
Q Consensus 28 ~ri~r~lk~~--~~~~ris~~A~v~laavL-----Eyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~eL 93 (96)
..+.+|+.+. .....++.+|.-+|..-. ..+..||=+++. ++ ..+.+||+++|+..+....|.
T Consensus 137 ~~L~~Wi~~~~~~~g~~i~~~a~~~L~~~~~~~nL~~l~~EleKL~l-y~--g~~~~It~e~V~~lv~~s~e~ 206 (311)
T PRK05907 137 KRIAQLLIQRAKELGISCSLGLASLFVSKFPQTGLFEILSEFQKLLC-QM--GKKESLEASDIQSFVVKKEAA 206 (311)
T ss_pred HHHHHHHHHHHHHcCCCcCHHHHHHHHHHccCCCHHHHHHHHHHHHH-hc--CCCCeECHHHHHHHhcCcccc
Confidence 4566777653 134688888877777644 334444444442 21 346789999999988776654
No 128
>PHA02669 hypothetical protein; Provisional
Probab=26.08 E-value=71 Score=22.61 Aligned_cols=37 Identities=38% Similarity=0.513 Sum_probs=22.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHH
Q psy15119 47 APVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLA 86 (96)
Q Consensus 47 A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~a 86 (96)
|.+||+++.-||+.||- +|..-| +++.|+...--++|
T Consensus 12 avi~LTgAaiYlLiEiG-LAaERa--nKrsRvK~nMRkLa 48 (210)
T PHA02669 12 AVIYLTGAAIYLLIEIG-LAAERA--NKRSRVKANMRKLA 48 (210)
T ss_pred HHHHHHHHHHHHHHHHH-HHHHHh--hhHHHHHHHHHHHH
Confidence 67899999999999974 333322 23444444444444
No 129
>KOG0610|consensus
Probab=26.05 E-value=75 Score=25.64 Aligned_cols=30 Identities=37% Similarity=0.614 Sum_probs=22.3
Q ss_pred hhhhhhhhcCCcccccCCChHHHHHH----HHHHH
Q psy15119 28 GRIHRLLRKGNYAERVGAGAPVYLAA----VMEYL 58 (96)
Q Consensus 28 ~ri~r~lk~~~~~~ris~~A~v~laa----vLEyl 58 (96)
|-++.+.|. +-..+.+++++-|-+| +||||
T Consensus 162 GdL~~Lrqk-Qp~~~fse~~aRFYaAEvl~ALEYL 195 (459)
T KOG0610|consen 162 GDLHSLRQK-QPGKRFSESAARFYAAEVLLALEYL 195 (459)
T ss_pred ccHHHHHhh-CCCCccchhhHHHHHHHHHHHHHHH
Confidence 667777777 7789999988876655 55665
No 130
>PF01470 Peptidase_C15: Pyroglutamyl peptidase This is family C15 in the peptidase classification. ; InterPro: IPR000816 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to MEROPS peptidase family C15 (pyroglutamyl peptidase I, clan CF). The type example being pyroglutamyl peptidase I of Bacillus amyloliquefaciens. Pyroglutamyl/pyrrolidone carboxyl peptidase (Pcp or PYRase) is an exopeptidase that hydrolytically removes the pGlu from pGlu-peptides or pGlu-proteins [, ]. PYRase has been found in prokaryotes and eukaryotes where at least two different classes have been characterised: the first containing bacterial and animal type I PYRases, and the second containing animal type II and serum PYRases. Type I and bacterial PYRases are soluble enzymes, while type II PYRases are membrane-bound. The primary application of PYRase has been its utilisation for protein or peptide sequencing, and bacterial diagnosis []. The conserved residues Cys-144 and His-168 have been identified by inhibition and mutagenesis studies [, ].; GO: 0006508 proteolysis; PDB: 1A2Z_A 1IU8_A 3RNZ_A 3RO0_D 1AUG_D 2EBJ_A 3LAC_A 1X12_B 1Z8X_B 1X10_C ....
Probab=25.84 E-value=97 Score=21.76 Aligned_cols=44 Identities=20% Similarity=0.269 Sum_probs=30.6
Q ss_pred cccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHH
Q psy15119 23 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELA 66 (96)
Q Consensus 23 l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela 66 (96)
.++|+..+-+-|++...--.+|.+|--||+-.+=|......+..
T Consensus 113 t~lp~~~l~~~l~~~gip~~~S~dAG~YlCN~~~Y~sl~~~~~~ 156 (202)
T PF01470_consen 113 TTLPVRALVEALREAGIPVEISNDAGRYLCNYIYYRSLHHAERR 156 (202)
T ss_dssp -BS-HHHHHHHHHHTT--EEEES---SSHHHHHHHHHHHHHHHH
T ss_pred cCCCHHHHHHHHHHcCCCCcccCChhhhHHHHHHHHHHHHHhhc
Confidence 57999999888888667789999999999988888887765543
No 131
>TIGR03190 benz_CoA_bzdN benzoyl-CoA reductase, bzd-type, N subunit. Members of this family are the N subunit of one of two related types of four-subunit ATP-dependent benzoyl-CoA reductase. This enzyme system catalyzes the dearomatization of benzoyl-CoA, a common intermediate in pathways for the degradation for a number of different aromatic compounds, such as phenol and toluene.
Probab=25.77 E-value=1.8e+02 Score=22.37 Aligned_cols=39 Identities=15% Similarity=-0.042 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHhcch
Q psy15119 52 AAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDE 91 (96)
Q Consensus 52 aavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~ 91 (96)
...++|+..|+-++.-..-+..| ++|+.+.|+.||..-.
T Consensus 130 ~~~~~y~~~el~~l~~~LE~~~G-~~i~~e~L~~ai~~~n 168 (377)
T TIGR03190 130 PHARKAHYAEVQRFRVFLQTLTG-KEITDDMLRDALAVCD 168 (377)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHC-CCCCHHHHHHHHHHHH
Confidence 45677888888777766555545 5689999999987543
No 132
>cd05833 Ribosomal_P2 Ribosomal protein P2. This subfamily represents the eukaryotic large ribosomal protein P2. Eukaryotic P1 and P2 are functionally equivalent to the bacterial protein L7/L12, but are not homologous to L7/L12. P2 is located in the L12 stalk, with proteins P1, P0, L11, and 28S rRNA. P1 and P2 are the only proteins in the ribosome to occur as multimers, always appearing as sets of heterodimers. Recent data indicate that eukaryotes have four copies (two heterodimers), while most archaeal species contain six copies of L12p (three homodimers). Bacteria may have four or six copies of L7/L12 (two or three homodimers) depending on the species. Experiments using S. cerevisiae P1 and P2 indicate that P1 proteins are positioned more internally with limited reactivity in the C-terminal domains, while P2 proteins seem to be more externally located and are more likely to interact with other cellular components. In lower eukaryotes, P1 and P2 are further subdivided into P1A, P1B, P2
Probab=25.60 E-value=1.1e+02 Score=19.66 Aligned_cols=28 Identities=18% Similarity=0.185 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 55 MEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 55 LEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
++|+.+++|- .-.|+..||.++|+..++
T Consensus 1 MkyvaAylL~------~l~g~~~pTa~dI~~IL~ 28 (109)
T cd05833 1 MKYVAAYLLA------VLGGNASPSAADVKKILG 28 (109)
T ss_pred CHHHHHHHHH------HHcCCCCCCHHHHHHHHH
Confidence 4677777662 223555788888886654
No 133
>COG3636 Predicted transcriptional regulator [Transcription]
Probab=25.57 E-value=92 Score=20.00 Aligned_cols=46 Identities=15% Similarity=0.169 Sum_probs=27.2
Q ss_pred CChHHHHHHHHHHHHHHH-------HHHHHHHHHhcCCCcccHHHHHHHHhcc
Q psy15119 45 AGAPVYLAAVMEYLAAEV-------LELAGNAARDNKKTRIIPRHLQLAIRND 90 (96)
Q Consensus 45 ~~A~v~laavLEyl~~eI-------lela~~~a~~~~~k~Itp~~i~~ai~~d 90 (96)
+.+.+||.++||--=.+. +..+...++-..+.-++-++|-.+++.+
T Consensus 21 e~ia~yL~~~le~~d~a~i~~alg~var~~GMsqvA~~aGlsRe~LYkaLS~~ 73 (100)
T COG3636 21 EAIAAYLNAALEEGDPALIAAALGVVARSRGMSQVARKAGLSREGLYKALSPG 73 (100)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCHHHHHHHhCccHHHHHHHhCCC
Confidence 457888888887433222 2222222222233458899999998854
No 134
>PTZ00373 60S Acidic ribosomal protein P2; Provisional
Probab=25.46 E-value=1.4e+02 Score=19.40 Aligned_cols=28 Identities=14% Similarity=0.185 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 55 MEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 55 LEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
++|+.+++|- .-.|+..||..+|+..++
T Consensus 3 MkyvaAYlL~------~lgG~~~pTaddI~kIL~ 30 (112)
T PTZ00373 3 MKYVAAYLMC------VLGGNENPTKKEVKNVLS 30 (112)
T ss_pred hHHHHHHHHH------HHcCCCCCCHHHHHHHHH
Confidence 5777777762 233555688888886654
No 135
>PF12213 Dpoe2NT: DNA polymerases epsilon N terminal; InterPro: IPR024639 This domain is found in the N-terminal of DNA polymerase epsilon subunit B proteins. It contains a single completely conserved phenylalanine residue that may be functionally important. It forms a primarily alpha helical structure in which four helices are arranged in two hairpins with connecting loops containing beta strands which form a short parallel sheet. DNA polymerase epsilon is required in DNA replication for synthesis of the leading strand. The N-terminal domain has close structural relation to AAA+ protein C-terminal domains [].; PDB: 2V6Z_M.
Probab=25.34 E-value=95 Score=18.53 Aligned_cols=49 Identities=20% Similarity=0.268 Sum_probs=28.2
Q ss_pred ccccCCChHHHHHHHHHHHHHH----HHHHHHHHHHh--cCCCcccHHHHHHHHh
Q psy15119 40 AERVGAGAPVYLAAVMEYLAAE----VLELAGNAARD--NKKTRIIPRHLQLAIR 88 (96)
Q Consensus 40 ~~ris~~A~v~laavLEyl~~e----Ilela~~~a~~--~~~k~Itp~~i~~ai~ 88 (96)
+.-+..+|..||+..|+-+-.+ +++.-.+.-.. .....|.-++|+.||+
T Consensus 17 Gl~Lr~eA~~~l~~~l~~~~~~e~e~~l~~Ii~~v~kq~Lss~~v~~~~ie~Av~ 71 (73)
T PF12213_consen 17 GLSLRSEASKYLAEQLQSLSEEEREDWLDKIIDAVQKQPLSSSIVDKEHIESAVK 71 (73)
T ss_dssp T-EE-HHHHHHHHHHTTTS-TTTHHHHHHHHHHHHTTS--SSSEE-HHHHHHHHH
T ss_pred cceecHHHHHHHHHHHccCCHHHHHHHHHHHHHHHhcCCCCCCccCHHHHHHHHH
Confidence 3567788999998887554332 23333232222 2456899999999986
No 136
>PF04558 tRNA_synt_1c_R1: Glutaminyl-tRNA synthetase, non-specific RNA binding region part 1 ; InterPro: IPR007639 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This is a domain found N-terminal to the catalytic domain of glutaminyl-tRNA synthetase (6.1.1.18 from EC) in eukaryotes but not in Escherichia coli. This domain is thought to bind RNA in a non-specific manner, enhancing interactions between the tRNA and enzyme, but is not essential for enzyme function [].; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm; PDB: 3TL4_X.
Probab=25.33 E-value=1.6e+02 Score=20.23 Aligned_cols=41 Identities=15% Similarity=0.242 Sum_probs=24.4
Q ss_pred hHHHHHHHHHHHHHHHH----HHHHHHHHhcCC-CcccHHHHHHHHhc
Q psy15119 47 APVYLAAVMEYLAAEVL----ELAGNAARDNKK-TRIIPRHLQLAIRN 89 (96)
Q Consensus 47 A~v~laavLEyl~~eIl----ela~~~a~~~~~-k~Itp~~i~~ai~~ 89 (96)
+..=+.|+++|+-..-- +...+ +.+|. -.|||++|+.+|..
T Consensus 83 t~~Ql~AA~~Yl~~~~~~~~d~~~Fe--~~cGVGV~VT~E~I~~~V~~ 128 (164)
T PF04558_consen 83 TNLQLDAALKYLKSNPSEPIDVAEFE--KACGVGVVVTPEQIEAAVEK 128 (164)
T ss_dssp SHHHHHHHHHHHHHHGG-G--HHHHH--HTTTTT----HHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCCCCCCCHHHHH--HHcCCCeEECHHHHHHHHHH
Confidence 56778899999988644 11122 23343 47999999998863
No 137
>PF09453 HIRA_B: HIRA B motif; InterPro: IPR019015 The HirA B (Histone regulatory homologue A binding) motif is the essential binding interface between IPR011494 from INTERPRO and ASF1a, of approx. 40 residues. It forms an antiparallel beta-hairpin that binds perpendicular to the strands of the beta-sandwich of ASF1a N-terminal core domain, via beta-sheet, salt bridge and van der Waals interactions []. The two histone chaperone proteins, HIRA and ASF1a, form a heterodimer with histones H3 and H4. HIRA is the human orthologue of Hir proteins known to silence histone gene expression and create transcriptionally silent heterochromatin in yeast, flies, plants and humans. The HIR complex is composed of HIR1, HIR2, HIR3 and HPC2, and interacts with ASF1. The HIR complex cooperates with ASF1 to promote replication-independent chromatin assembly. The HIR complex is also required for the periodic repression of three of the four histone gene loci during cell cycle as well as for autogenous regulation of the HTA1-HTB1 locus by H2A and H2B. DNA-binding by the HIR complex may repress transcription by inhibiting nucleosome remodeling by the SWI/SNF complex. The HIR complex may also be required for transcriptional silencing of centromeric, telomeric and mating-type loci in the absence of CAF-1. ; GO: 0003682 chromatin binding, 0006355 regulation of transcription, DNA-dependent, 0016568 chromatin modification, 0005634 nucleus; PDB: 2I32_E.
Probab=24.85 E-value=23 Score=16.94 Aligned_cols=13 Identities=31% Similarity=0.547 Sum_probs=6.6
Q ss_pred hcCCCcccHHHHH
Q psy15119 72 DNKKTRIIPRHLQ 84 (96)
Q Consensus 72 ~~~~k~Itp~~i~ 84 (96)
.+|++||+|--|.
T Consensus 8 k~GKkRi~P~lis 20 (24)
T PF09453_consen 8 KDGKKRIAPTLIS 20 (24)
T ss_dssp TTS-EEEE-EE--
T ss_pred cCCceEeccEEee
Confidence 4588899886543
No 138
>PF08672 APC2: Anaphase promoting complex (APC) subunit 2; InterPro: IPR014786 The anaphase-promoting complex (APC) or cyclosome is a multi-subunit E3 protein ubiquitin ligase that regulates important events in mitosis such as the initiation of anaphase and exit from telophase. The APC, in conjunction with other enzymes, assembles multi-ubiquitin chains on a variety of regulatory proteins, thereby targeting them for proteolysis by the 26S proteasome. Anaphase is initiated when the APC triggers the destruction of securin, thereby allowing the protease, separase, to disrupt sister-chromatid cohesion. Securin ubiquitination by the APC is inhibited by cyclin-dependent kinase 1 (Cdk1)-dependent phosphorylation []. Forkhead Box M1 (FoxM1), which is a transcription factor that is over-expressed in many cancers, is degraded in late mitosis and early G1 phase by the APC/cyclosome (APC/C) E3 ubiquitin ligase []. The APC/C targets mitotic cyclins for destruction in mitosis and G1 phase and is then inactivated at S phase. It thereby generates alternating states of high and low cyclin-Cdk activity, which is required for the alternation of mitosis and DNA replication []. The APC/C is composed of at least 13 subunits that stay tightly associated throughout the cell cycle: APC1, APC2, APC4, APC5, APC9, APC11, CDC16, CDC23, CDC26, CDC27, DOC1, MND2 and SWM1[], []. In fission yeast the 13 subunits are known as: Apc1, Apc2, Nuc2, Apc4, Apc5, Cut9, Apc8, Apc10, Apc11, Hcn1, Apc13, Apc14 and Apc15 []. This entry represents a C-terminal domain found in APC subunit 2. ; PDB: 1LDD_A.
Probab=24.82 E-value=92 Score=17.84 Aligned_cols=12 Identities=42% Similarity=0.946 Sum_probs=10.7
Q ss_pred cchhhhhhhhhc
Q psy15119 25 FPVGRIHRLLRK 36 (96)
Q Consensus 25 fpv~ri~r~lk~ 36 (96)
+|+.|||..||-
T Consensus 12 l~l~RIh~mLkm 23 (60)
T PF08672_consen 12 LPLDRIHSMLKM 23 (60)
T ss_dssp EEHHHHHHHHHH
T ss_pred CCHHHHHHHHHh
Confidence 799999999887
No 139
>KOG0480|consensus
Probab=24.51 E-value=2.7e+02 Score=23.93 Aligned_cols=67 Identities=12% Similarity=0.241 Sum_probs=42.7
Q ss_pred CcccchhhhhhhhhcCC-cccccCCChHHHHHHHHHHH-------------------HHHHHHHHHHHHHhcCCCcccHH
Q psy15119 22 GLQFPVGRIHRLLRKGN-YAERVGAGAPVYLAAVMEYL-------------------AAEVLELAGNAARDNKKTRIIPR 81 (96)
Q Consensus 22 ~l~fpv~ri~r~lk~~~-~~~ris~~A~v~laavLEyl-------------------~~eIlela~~~a~~~~~k~Itp~ 81 (96)
...||...+.++++=.+ ..+++|..|.-+|..-..-| ++.++.|+-..|+-..+..|||+
T Consensus 555 ~~~~~~e~vrkYi~yAR~~~P~ls~ea~~~lve~Y~~lR~~~~~~~~~~s~~ITvRqLESlIRLsEA~Ar~~~~devt~~ 634 (764)
T KOG0480|consen 555 VCVYTLEQVRKYIRYARNFKPKLSKEASEMLVEKYKGLRQRDAQGNNRSSYRITVRQLESLIRLSEARARVECRDEVTKE 634 (764)
T ss_pred cccccHHHHHHHHHHHHhcCccccHHHHHHHHHHHHHHHHhhccccCcccccccHHHHHHHHHHHHHHHhhhhhhhccHH
Confidence 35899999998886543 45888888877665422211 22344555555666666777777
Q ss_pred HHHHHHh
Q psy15119 82 HLQLAIR 88 (96)
Q Consensus 82 ~i~~ai~ 88 (96)
|+..|+.
T Consensus 635 ~v~ea~e 641 (764)
T KOG0480|consen 635 DVEEAVE 641 (764)
T ss_pred HHHHHHH
Confidence 7776653
No 140
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=24.39 E-value=1.3e+02 Score=25.63 Aligned_cols=34 Identities=18% Similarity=0.218 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHhcCCCcccHHHHHHHHhcchh
Q psy15119 59 AAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEE 92 (96)
Q Consensus 59 ~~eIlela~~~a~~~~~k~Itp~~i~~ai~~d~e 92 (96)
+.++++.|...|...+...|++.|+-.|+-.+++
T Consensus 84 ~~~~l~~a~~~~~~~~~~~i~~~~ll~a~~~~~~ 117 (758)
T PRK11034 84 FQRVLQRAVFHVQSSGRSEVTGANVLVAIFSEQE 117 (758)
T ss_pred HHHHHHHHHHHHHHcCCCcccHHHHHHHHhcCCc
Confidence 4678888888888888889999999999876643
No 141
>PF13643 DUF4145: Domain of unknown function (DUF4145)
Probab=24.27 E-value=1.6e+02 Score=17.11 Aligned_cols=25 Identities=20% Similarity=0.282 Sum_probs=15.0
Q ss_pred HHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 63 LELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 63 lela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
+...||.|-|. ...+++++...++.
T Consensus 60 iR~~GN~aaH~-~~~~~~~da~~~l~ 84 (87)
T PF13643_consen 60 IRKIGNDAAHE-EKEITEEDAEDALE 84 (87)
T ss_pred HHHHHHHHhCC-CCCCCHHHHHHHHH
Confidence 44456666664 45667777766653
No 142
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=23.85 E-value=99 Score=20.29 Aligned_cols=22 Identities=27% Similarity=0.442 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHhcCCCccc
Q psy15119 58 LAAEVLELAGNAARDNKKTRII 79 (96)
Q Consensus 58 l~~eIlela~~~a~~~~~k~It 79 (96)
++..|++++...|.+++.++|+
T Consensus 6 la~aii~~i~~~A~~~~a~~V~ 27 (115)
T COG0375 6 LAQAIIELIEEQAEKHGAKRVT 27 (115)
T ss_pred HHHHHHHHHHHHHHHcCCceEE
Confidence 4567888888999888866443
No 143
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=23.26 E-value=1.6e+02 Score=22.53 Aligned_cols=47 Identities=19% Similarity=0.041 Sum_probs=31.9
Q ss_pred cccCCChHHHHHHHHHHHHH-----H--HHHHHHHHHHhcCCCcccHHHHHHHH
Q psy15119 41 ERVGAGAPVYLAAVMEYLAA-----E--VLELAGNAARDNKKTRIIPRHLQLAI 87 (96)
Q Consensus 41 ~ris~~A~v~laavLEyl~~-----e--Ilela~~~a~~~~~k~Itp~~i~~ai 87 (96)
-.|+....-|++.+...+-. + ++..|--.|-.+|+..|+|+||+.+.
T Consensus 250 V~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~~aA~a~A~l~Gr~~V~~~Di~~~~ 303 (334)
T PRK13407 250 LKTPNTVLHDCAALCIALGSDGLRGELTLLRAARALAAFEGAEAVGRSHLRSVA 303 (334)
T ss_pred cccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHHcCCCeeCHHHHHHHH
Confidence 45566666666666555431 1 45566667778899999999997654
No 144
>PLN00138 large subunit ribosomal protein LP2; Provisional
Probab=22.75 E-value=1.3e+02 Score=19.46 Aligned_cols=28 Identities=21% Similarity=0.094 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 55 MEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 55 LEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
++|+.+++|- .-.|...||.++|...+.
T Consensus 1 mkyvaAyll~------~l~g~~~pta~dI~~IL~ 28 (113)
T PLN00138 1 MKVVAAYLLA------VLGGNTCPSAEDLKDILG 28 (113)
T ss_pred ChHHHHHHHH------HhcCCCCCCHHHHHHHHH
Confidence 4677777662 233555688888886654
No 145
>PRK15358 pathogenicity island 2 effector protein SseF; Provisional
Probab=22.03 E-value=87 Score=22.72 Aligned_cols=39 Identities=18% Similarity=0.271 Sum_probs=25.1
Q ss_pred cCcccchhhhhhhhhcCCcccccCCChHHHHHHHHHHHH
Q psy15119 21 AGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLA 59 (96)
Q Consensus 21 a~l~fpv~ri~r~lk~~~~~~ris~~A~v~laavLEyl~ 59 (96)
-|+|||+---+.+--.-....-|.+-.-..+.+||+|-.
T Consensus 150 ig~qfplpaa~niaasl~mg~vits~sltaigavldyc~ 188 (239)
T PRK15358 150 LPLQFPLPAAENIAASLDMGSVITSVSLTAIGAVLDYCL 188 (239)
T ss_pred eeccccCchHHHHHHHhhccceeehhhHHHHHHHHHHHH
Confidence 378999977776665533333444445556778888864
No 146
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=21.32 E-value=1.6e+02 Score=23.02 Aligned_cols=28 Identities=18% Similarity=0.355 Sum_probs=20.6
Q ss_pred HHHHHHHHHHhcCCCcccHHHHHHHHhc
Q psy15119 62 VLELAGNAARDNKKTRIIPRHLQLAIRN 89 (96)
Q Consensus 62 Ilela~~~a~~~~~k~Itp~~i~~ai~~ 89 (96)
|+..|+..|-..++..|+.+|+..|+..
T Consensus 358 l~~eA~~~A~r~~~~~i~~~df~~A~~~ 385 (398)
T PTZ00454 358 ICQEAGMQAVRKNRYVILPKDFEKGYKT 385 (398)
T ss_pred HHHHHHHHHHHcCCCccCHHHHHHHHHH
Confidence 4444555555667789999999999864
No 147
>KOG2389|consensus
Probab=20.08 E-value=4.4e+02 Score=20.69 Aligned_cols=73 Identities=15% Similarity=0.134 Sum_probs=53.3
Q ss_pred cCcccccCcccchhhhh--hhhhcCCcccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHh
Q psy15119 15 KTRSSRAGLQFPVGRIH--RLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88 (96)
Q Consensus 15 ~s~s~ra~l~fpv~ri~--r~lk~~~~~~ris~~A~v~laavLEyl~~eIlela~~~a~~~~~k~Itp~~i~~ai~ 88 (96)
++.+.-+..-|.++++. .+-+. -...-....|-..|++++.-++.++-+.|-.++...||..-.--||-.|++
T Consensus 18 ~~~~~~~~ya~sla~~avaQIcqs-lg~~~~~~sale~Ltd~~~qyvQ~lgk~a~~~~n~anR~epnl~Div~Al~ 92 (353)
T KOG2389|consen 18 RSESEEAEYAFSLARVAVAQICQS-LGYSSTQNSALETLTDVLQQYVQNLGKTAHRYSNLANRTEPNLFDIVLALQ 92 (353)
T ss_pred ccchhHHHHHHHHHHHHHHHHHHh-cCCcccccHHHHHHHHHHHHHHHHHHhhhhhhhhhcCCCCccHHHHHHHHH
Confidence 33344445666665543 44444 233455567889999999999999999999999999998888888888875
Done!