Query 032523
Match_columns 139
No_of_seqs 107 out of 594
Neff 5.9
Searched_HMMs 46136
Date Fri Mar 29 02:32:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032523.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032523hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00156 histone H2AX; Provisi 100.0 1.2E-51 2.7E-56 307.4 12.8 138 2-139 2-139 (139)
2 PLN00153 histone H2A; Provisio 100.0 2.2E-49 4.8E-54 292.5 11.5 123 1-128 1-123 (129)
3 PTZ00017 histone H2A; Provisio 100.0 8.2E-49 1.8E-53 291.3 12.1 126 1-128 1-126 (134)
4 PTZ00252 histone H2A; Provisio 100.0 1.1E-48 2.4E-53 289.6 11.7 131 1-139 1-134 (134)
5 PLN00157 histone H2A; Provisio 100.0 1.2E-48 2.7E-53 289.5 11.7 125 1-128 1-125 (132)
6 KOG1756 Histone 2A [Chromatin 100.0 9.4E-47 2E-51 276.4 10.2 126 1-128 1-126 (131)
7 PLN00154 histone H2A; Provisio 100.0 6.3E-46 1.4E-50 275.7 11.6 112 15-127 24-136 (136)
8 cd00074 H2A Histone 2A; H2A is 100.0 1.7E-45 3.8E-50 268.1 11.4 110 15-124 6-115 (115)
9 smart00414 H2A Histone 2A. 100.0 5.3E-45 1.1E-49 262.3 10.1 105 21-125 1-105 (106)
10 COG5262 HTA1 Histone H2A [Chro 100.0 1.8E-44 3.9E-49 261.6 10.1 121 14-138 11-131 (132)
11 KOG1757 Histone 2A [Chromatin 100.0 6.6E-39 1.4E-43 231.2 4.9 112 16-128 17-129 (131)
12 PLN00155 histone H2A; Provisio 99.9 4.3E-22 9.3E-27 128.7 4.9 58 1-63 1-58 (58)
13 COG5247 BUR6 Class 2 transcrip 99.6 1.7E-15 3.7E-20 107.9 7.6 101 7-110 4-104 (113)
14 PF00125 Histone: Core histone 99.6 7.1E-15 1.5E-19 98.1 5.6 73 23-95 2-75 (75)
15 PLN00035 histone H4; Provision 99.4 5.3E-13 1.1E-17 95.7 6.2 89 1-94 1-93 (103)
16 KOG1659 Class 2 transcription 99.4 9.5E-13 2.1E-17 104.4 6.4 82 22-103 6-87 (224)
17 PTZ00015 histone H4; Provision 99.3 1.8E-11 3.8E-16 87.7 6.9 89 1-94 1-94 (102)
18 PF00808 CBFD_NFYB_HMF: Histon 99.2 6.1E-11 1.3E-15 77.5 6.9 64 29-92 2-65 (65)
19 smart00803 TAF TATA box bindin 99.0 2E-09 4.4E-14 71.2 6.9 64 29-93 2-65 (65)
20 COG2036 HHT1 Histones H3 and H 99.0 5.6E-10 1.2E-14 78.5 4.4 68 25-93 15-82 (91)
21 cd00076 H4 Histone H4, one of 98.9 6.6E-09 1.4E-13 72.2 5.9 72 20-94 6-77 (85)
22 COG5208 HAP5 CCAAT-binding fac 98.7 2.3E-08 5E-13 80.4 6.5 75 28-102 108-182 (286)
23 smart00417 H4 Histone H4. 98.7 2.7E-08 5.8E-13 67.6 5.7 61 30-91 14-74 (74)
24 KOG1657 CCAAT-binding factor, 98.6 4.7E-08 1E-12 79.2 3.7 84 22-105 67-150 (236)
25 cd07981 TAF12 TATA Binding Pro 98.2 5.3E-06 1.1E-10 55.6 6.9 66 30-95 2-67 (72)
26 cd07979 TAF9 TATA Binding Prot 98.1 1.3E-05 2.8E-10 58.5 6.6 61 33-94 5-65 (117)
27 KOG3467 Histone H4 [Chromatin 98.0 1.5E-05 3.3E-10 55.9 5.1 90 1-93 1-92 (103)
28 PF02969 TAF: TATA box binding 97.8 0.00014 3E-09 48.4 6.7 64 29-93 3-66 (66)
29 cd08048 TAF11 TATA Binding Pro 97.7 0.00023 4.9E-09 49.4 7.1 63 30-93 17-82 (85)
30 PLN00158 histone H2B; Provisio 97.6 0.00029 6.2E-09 51.6 7.4 61 33-93 31-91 (116)
31 smart00576 BTP Bromodomain tra 97.6 0.00023 5E-09 48.0 6.4 59 35-94 12-70 (77)
32 cd08050 TAF6 TATA Binding Prot 97.6 0.00017 3.6E-09 61.1 6.8 60 33-93 3-62 (343)
33 smart00428 H3 Histone H3. 97.4 0.00033 7.1E-09 50.5 5.4 68 26-93 26-99 (105)
34 PF04719 TAFII28: hTAFII28-lik 97.1 0.0016 3.4E-08 45.8 5.6 64 30-93 24-88 (90)
35 KOG3219 Transcription initiati 97.0 0.001 2.2E-08 52.6 4.4 65 28-93 111-176 (195)
36 KOG0869 CCAAT-binding factor, 96.8 0.0046 9.9E-08 47.6 6.5 65 29-93 32-97 (168)
37 smart00427 H2B Histone H2B. 96.7 0.007 1.5E-07 42.5 6.4 60 34-93 6-65 (89)
38 PTZ00463 histone H2B; Provisio 96.4 0.013 2.9E-07 43.0 6.4 61 33-93 32-92 (117)
39 PF15511 CENP-T: Centromere ki 96.4 0.0062 1.3E-07 53.0 5.5 72 16-87 338-414 (414)
40 KOG0871 Class 2 transcription 96.2 0.02 4.3E-07 43.7 6.6 70 25-94 8-78 (156)
41 PF09415 CENP-X: CENP-S associ 96.2 0.027 5.8E-07 37.9 6.4 61 31-91 1-64 (72)
42 PF03847 TFIID_20kDa: Transcri 96.1 0.022 4.7E-07 37.9 5.7 63 33-95 3-65 (68)
43 PF15630 CENP-S: Kinetochore c 95.9 0.059 1.3E-06 36.6 7.2 48 51-98 26-76 (76)
44 KOG1658 DNA polymerase epsilon 95.7 0.011 2.4E-07 45.4 3.1 77 27-103 57-133 (162)
45 PF02291 TFIID-31kDa: Transcri 95.4 0.077 1.7E-06 39.5 6.8 60 33-93 16-75 (129)
46 PLN00160 histone H3; Provision 95.4 0.037 8.1E-07 39.4 4.8 68 26-93 18-90 (97)
47 PTZ00018 histone H3; Provision 95.3 0.035 7.6E-07 41.8 4.7 66 27-92 60-129 (136)
48 PF07524 Bromo_TP: Bromodomain 95.3 0.093 2E-06 34.9 6.3 58 35-93 12-69 (77)
49 PLN00121 histone H3; Provision 95.0 0.032 6.9E-07 42.0 3.8 67 27-93 60-130 (136)
50 KOG0870 DNA polymerase epsilon 95.0 0.1 2.2E-06 40.6 6.5 66 27-93 8-76 (172)
51 PLN00161 histone H3; Provision 95.0 0.064 1.4E-06 40.3 5.3 68 26-93 52-124 (135)
52 KOG1744 Histone H2B [Chromatin 94.5 0.19 4.2E-06 37.4 6.7 68 23-93 34-101 (127)
53 KOG1142 Transcription initiati 94.2 0.083 1.8E-06 43.6 4.7 68 29-96 154-221 (258)
54 PLN00163 histone H4; Provision 93.2 0.039 8.4E-07 35.9 0.9 46 1-51 1-50 (59)
55 PF02269 TFIID-18kDa: Transcri 93.0 0.11 2.3E-06 36.4 3.0 63 37-99 9-71 (93)
56 cd07978 TAF13 The TATA Binding 93.0 0.66 1.4E-05 32.5 7.0 63 35-98 8-70 (92)
57 KOG1745 Histones H3 and H4 [Ch 91.5 0.2 4.4E-06 37.7 3.0 61 33-93 67-131 (137)
58 COG5094 TAF9 Transcription ini 91.0 2.1 4.6E-05 32.0 7.9 62 33-95 18-82 (145)
59 KOG3334 Transcription initiati 84.3 4.8 0.0001 30.7 6.4 56 35-94 19-77 (148)
60 COG5150 Class 2 transcription 82.2 6.3 0.00014 29.6 6.2 67 27-95 9-78 (148)
61 COG5251 TAF40 Transcription in 81.8 2.5 5.4E-05 33.3 4.1 65 29-94 115-180 (199)
62 PF02861 Clp_N: Clp amino term 76.7 2.3 5E-05 25.3 2.1 33 71-103 1-35 (53)
63 KOG2549 Transcription initiati 76.4 10 0.00022 34.6 6.9 61 32-93 14-74 (576)
64 COG5095 TAF6 Transcription ini 69.8 19 0.0004 31.3 6.6 63 30-93 6-68 (450)
65 PF15510 CENP-W: Centromere ki 69.3 11 0.00024 26.8 4.3 68 25-92 12-93 (102)
66 PF13654 AAA_32: AAA domain; P 67.7 4.7 0.0001 36.2 2.7 31 64-94 475-505 (509)
67 PF13335 Mg_chelatase_2: Magne 67.3 7 0.00015 27.2 3.0 47 47-93 42-94 (96)
68 KOG1658 DNA polymerase epsilon 65.5 13 0.00028 28.8 4.3 73 26-103 8-80 (162)
69 COG1474 CDC6 Cdc6-related prot 65.2 18 0.00039 31.0 5.7 72 27-99 184-268 (366)
70 TIGR02928 orc1/cdc6 family rep 58.2 55 0.0012 26.8 7.3 61 33-93 202-272 (365)
71 KOG4336 TBP-associated transcr 55.6 79 0.0017 27.0 7.7 85 35-120 11-102 (323)
72 PF08369 PCP_red: Proto-chloro 55.4 15 0.00032 22.3 2.6 27 65-91 18-44 (45)
73 PF12096 DUF3572: Protein of u 54.7 11 0.00025 26.3 2.3 56 33-92 22-80 (88)
74 PRK00411 cdc6 cell division co 54.4 57 0.0012 27.1 6.9 63 32-94 209-281 (394)
75 PF04604 L_biotic_typeA: Type- 53.7 9.3 0.0002 24.2 1.5 22 94-118 16-37 (51)
76 KOG3901 Transcription initiati 52.7 24 0.00053 25.6 3.7 34 64-98 41-75 (109)
77 COG1067 LonB Predicted ATP-dep 49.5 81 0.0018 29.4 7.5 34 65-98 369-402 (647)
78 COG3636 Predicted transcriptio 46.8 25 0.00055 25.2 3.0 54 50-103 21-83 (100)
79 PF12767 SAGA-Tad1: Transcript 45.5 50 0.0011 26.6 5.0 42 33-75 210-251 (252)
80 COG4430 Uncharacterized protei 43.3 31 0.00067 27.6 3.3 48 58-105 109-159 (200)
81 PF05236 TAF4: Transcription i 42.6 47 0.001 26.9 4.4 59 20-78 34-95 (264)
82 PRK11034 clpA ATP-dependent Cl 41.9 35 0.00076 32.2 4.0 41 64-104 6-46 (758)
83 TIGR00764 lon_rel lon-related 41.0 1.1E+02 0.0024 28.1 7.0 30 65-94 361-390 (608)
84 PHA02943 hypothetical protein; 40.7 61 0.0013 25.2 4.5 41 64-104 76-116 (165)
85 PF09123 DUF1931: Domain of un 39.4 18 0.00039 27.4 1.4 54 36-90 2-55 (138)
86 TIGR02639 ClpA ATP-dependent C 36.0 47 0.001 30.8 3.9 40 64-103 5-44 (731)
87 TIGR02263 benz_CoA_red_C benzo 36.0 68 0.0015 27.4 4.6 44 59-103 136-179 (380)
88 cd08045 TAF4 TATA Binding Prot 34.4 1.2E+02 0.0027 23.7 5.5 59 20-78 35-96 (212)
89 PF08539 HbrB: HbrB-like; Int 33.9 43 0.00093 25.6 2.7 83 26-124 23-106 (158)
90 smart00350 MCM minichromosome 33.1 1.2E+02 0.0027 26.8 5.9 66 28-93 416-502 (509)
91 TIGR01128 holA DNA polymerase 33.0 1.4E+02 0.003 23.7 5.7 67 31-97 112-180 (302)
92 COG5248 TAF19 Transcription in 30.0 1.6E+02 0.0036 21.6 5.1 47 52-98 29-76 (126)
93 PF09077 Phage-MuB_C: Mu B tra 28.7 26 0.00057 23.9 0.7 29 64-93 48-76 (78)
94 KOG1051 Chaperone HSP104 and r 28.5 44 0.00096 32.3 2.4 45 64-110 16-60 (898)
95 PHA02669 hypothetical protein; 27.3 94 0.002 24.5 3.6 17 52-68 12-28 (210)
96 CHL00095 clpC Clp protease ATP 27.3 69 0.0015 30.3 3.4 34 64-97 9-42 (821)
97 PRK09862 putative ATP-dependen 26.9 66 0.0014 29.0 3.1 29 65-93 462-490 (506)
98 KOG3902 Histone acetyltransfer 26.3 2.6E+02 0.0057 24.0 6.4 61 36-96 31-91 (352)
99 PF00979 Reovirus_cap: Reoviru 26.0 38 0.00082 29.5 1.3 45 56-100 103-154 (367)
100 PF04558 tRNA_synt_1c_R1: Glut 24.8 1.1E+02 0.0024 23.4 3.6 41 52-93 83-127 (164)
101 cd05031 S-100A10_like S-100A10 24.7 2E+02 0.0044 19.0 4.6 52 60-112 3-67 (94)
102 cd05029 S-100A6 S-100A6: S-100 24.4 2.3E+02 0.0049 19.0 4.8 53 60-112 5-67 (88)
103 PF13376 OmdA: Bacteriocin-pro 24.3 65 0.0014 20.3 2.0 24 82-105 4-27 (63)
104 TIGR03346 chaperone_ClpB ATP-d 24.3 95 0.0021 29.5 3.8 40 64-103 5-46 (852)
105 PRK07452 DNA polymerase III su 24.3 1.6E+02 0.0034 24.0 4.7 62 34-95 134-199 (326)
106 TIGR03190 benz_CoA_bzdN benzoy 23.9 1.5E+02 0.0032 25.3 4.6 46 57-103 130-175 (377)
107 KOG4552 Vitamin-D-receptor int 23.2 1.2E+02 0.0025 25.0 3.5 49 55-103 15-64 (272)
108 TIGR02639 ClpA ATP-dependent C 22.9 94 0.002 28.9 3.4 34 64-97 82-115 (731)
109 TIGR00368 Mg chelatase-related 22.7 85 0.0018 28.1 3.0 45 49-93 447-497 (499)
110 TIGR03345 VI_ClpV1 type VI sec 22.4 1.1E+02 0.0023 29.4 3.7 40 64-103 5-46 (852)
111 PF09377 SBDS_C: SBDS protein 22.1 2.4E+02 0.0052 20.4 4.8 30 25-54 18-47 (125)
112 KOG3902 Histone acetyltransfer 21.5 2.7E+02 0.0058 24.0 5.5 49 26-74 222-271 (352)
113 PRK05574 holA DNA polymerase I 21.4 2.9E+02 0.0063 22.3 5.7 63 31-97 147-215 (340)
114 TIGR01242 26Sp45 26S proteasom 21.3 1.2E+02 0.0026 25.4 3.5 28 66-93 334-361 (364)
115 PTZ00361 26 proteosome regulat 21.1 1.2E+02 0.0025 26.9 3.5 29 66-94 395-423 (438)
116 cd05025 S-100A1 S-100A1: S-100 20.8 2.6E+02 0.0056 18.4 4.5 51 60-111 4-67 (92)
117 TIGR03015 pepcterm_ATPase puta 20.4 1.5E+02 0.0032 23.0 3.7 47 47-93 215-264 (269)
118 COG0375 HybF Zn finger protein 20.4 86 0.0019 22.9 2.1 50 63-112 6-61 (115)
No 1
>PLN00156 histone H2AX; Provisional
Probab=100.00 E-value=1.2e-51 Score=307.44 Aligned_cols=138 Identities=89% Similarity=1.307 Sum_probs=127.4
Q ss_pred CCCCCCCCCCCCCCCCCCcCcccccCcccchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCC
Q 032523 2 SSAGSTKGGRGKPKSTKSISRSHKAGLQFPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKN 81 (139)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~s~ssragL~fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~k 81 (139)
+|.|.+++||||+++++..|+|+||+|+|||+||+|+|++.+|+.||+++|||||+||||||++||||+|+|.|++++++
T Consensus 2 ~~~~~~~~~~g~~~~~k~~srS~rAgL~FPVgRi~R~Lk~g~ya~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~ 81 (139)
T PLN00156 2 AGSGTTKGGRGKPKATKSVSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKN 81 (139)
T ss_pred CCCCCCCCCCCcccccCCcCcccccCcccchHHHHHHHhcCChhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 35677899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccchhhHHHhhhCcHHHHhhhcCceecCCccCCcccccccccccCCCCccCCccCCCC
Q 032523 82 RIVPRHIQLAVRNDEELSKLLGTVTIANGGVLPNIHQNLLPRKMGKGREDIGSASQEF 139 (139)
Q Consensus 82 rItP~hI~~AI~nD~EL~~L~~~~~Ia~ggv~P~i~~~l~~~k~~~~~~~~~~~~~~~ 139 (139)
+|+|+||++||+||+||+.||+++||++|||+|+||++|+++|.++++.+...++|++
T Consensus 82 RItPrHi~lAIrnDeEL~~Ll~~vTIa~GGV~P~i~~~l~~kk~~~~~~~~~~~~~~~ 139 (139)
T PLN00156 82 RIVPRHIQLAVRNDEELSKLLGSVTIAAGGVLPNIHQTLLPKKVGKGKGDIGSASQEF 139 (139)
T ss_pred cCcHHHHHhhccCcHHHHHHHCCCccCCCccCCCccHhhccccccccccccccccCCC
Confidence 9999999999999999999999999999999999999999999865533333446653
No 2
>PLN00153 histone H2A; Provisional
Probab=100.00 E-value=2.2e-49 Score=292.54 Aligned_cols=123 Identities=79% Similarity=1.190 Sum_probs=115.4
Q ss_pred CCCCCCCCCCCCCCCCCCCcCcccccCcccchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCC
Q 032523 1 MSSAGSTKGGRGKPKSTKSISRSHKAGLQFPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKK 80 (139)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~s~ssragL~fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~ 80 (139)
|||+| + |+..+++..|+|+||||+|||+||+|+|++++|+.||+++|+|||+||||||++||||+|+|.|+++++
T Consensus 1 m~g~~--~---~~~~~~k~~srS~ragL~FpVgRi~R~Lr~g~~a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk 75 (129)
T PLN00153 1 MAGRG--K---GKTSGKKAVSRSAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKK 75 (129)
T ss_pred CCCCC--C---CCccccCccCcccccCcccchHHHHHHHhcCchhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 88877 2 334456789999999999999999999999999999999999999999999999999999999999999
Q ss_pred CccchhhHHHhhhCcHHHHhhhcCceecCCccCCcccccccccccCCC
Q 032523 81 NRIVPRHIQLAVRNDEELSKLLGTVTIANGGVLPNIHQNLLPRKMGKG 128 (139)
Q Consensus 81 krItP~hI~~AI~nD~EL~~L~~~~~Ia~ggv~P~i~~~l~~~k~~~~ 128 (139)
++|+|+||++||+||+||+.||+++||++|||+|+||++|+++|.+++
T Consensus 76 ~RItPrHi~lAI~nDeEL~~Ll~~vTIa~GGV~P~i~~~l~~kk~~~~ 123 (129)
T PLN00153 76 NRIVPRHIQLAIRNDEELGKLLGEVTIASGGVLPNIHAVLLPKKTKGG 123 (129)
T ss_pred CccChHHHHhhccCcHHHHHHHCCCccCCCccCCCcchhhcCcccCCC
Confidence 999999999999999999999999999999999999999999987555
No 3
>PTZ00017 histone H2A; Provisional
Probab=100.00 E-value=8.2e-49 Score=291.27 Aligned_cols=126 Identities=71% Similarity=1.074 Sum_probs=116.3
Q ss_pred CCCCCCCCCCCCCCCCCCCcCcccccCcccchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCC
Q 032523 1 MSSAGSTKGGRGKPKSTKSISRSHKAGLQFPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKK 80 (139)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~s~ssragL~fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~ 80 (139)
|||.| ++ +.|++.+++..|+|+||||+|||+||+|||++++|+.||+++|+|||+||||||++||||+|+|.|+++++
T Consensus 1 ~~~~~-~~-~~~~~~~~k~~srS~ragL~FPVgRi~R~Lk~g~~a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk 78 (134)
T PTZ00017 1 KGGKG-KT-GGGKAGKKKPVSRSAKAGLQFPVGRVHRYLKKGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKK 78 (134)
T ss_pred CCCCC-cC-CCCcccCcCcccccccCCcccchHHHHHHHhccchhccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 56665 33 23344467899999999999999999999999999999999999999999999999999999999999999
Q ss_pred CccchhhHHHhhhCcHHHHhhhcCceecCCccCCcccccccccccCCC
Q 032523 81 NRIVPRHIQLAVRNDEELSKLLGTVTIANGGVLPNIHQNLLPRKMGKG 128 (139)
Q Consensus 81 krItP~hI~~AI~nD~EL~~L~~~~~Ia~ggv~P~i~~~l~~~k~~~~ 128 (139)
++|+|+||++||+||+||+.||+++||++|||+|+||++|+++|.+++
T Consensus 79 ~RItPrHi~lAI~nDeEL~~Ll~~vtIa~GGV~P~i~~~l~~k~~~~~ 126 (134)
T PTZ00017 79 KRITPRHIQLAIRNDEELNKLLAGVTIASGGVLPNIHKVLLPKKSKPK 126 (134)
T ss_pred CeecHHHHHhhccCcHHHHHHHcCCcccCCccCCCccHhhccCCCCcc
Confidence 999999999999999999999999999999999999999999998666
No 4
>PTZ00252 histone H2A; Provisional
Probab=100.00 E-value=1.1e-48 Score=289.64 Aligned_cols=131 Identities=46% Similarity=0.763 Sum_probs=116.1
Q ss_pred CCCCCCCCCCCCCCCCCCCcCcccccCcccchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhh--c
Q 032523 1 MSSAGSTKGGRGKPKSTKSISRSHKAGLQFPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARD--N 78 (139)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~s~ssragL~fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~--~ 78 (139)
|+ ++ .++| ++.++...++|+||||+|||+||+|||++++|+.||+++|+|||+||||||++||||+|+|.|++ +
T Consensus 1 ~~-~~--~~~~-~~~~~~~~~rS~rAGL~FPVgRi~R~Lr~g~ya~RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~ 76 (134)
T PTZ00252 1 MA-TP--KQAK-KKASKSGSGRSAKAGLIFPVGRVGSLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAK 76 (134)
T ss_pred CC-Cc--cchh-hcccccccccccccCccCchHHHHHHHHcCCcccccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 44 55 5555 44444444599999999999999999999999999999999999999999999999999999966 6
Q ss_pred CCCccchhhHHHhhhCcHHHHhhhcCceecCCccCCccccccccc-ccCCCCccCCccCCCC
Q 032523 79 KKNRIVPRHIQLAVRNDEELSKLLGTVTIANGGVLPNIHQNLLPR-KMGKGREDIGSASQEF 139 (139)
Q Consensus 79 ~~krItP~hI~~AI~nD~EL~~L~~~~~Ia~ggv~P~i~~~l~~~-k~~~~~~~~~~~~~~~ 139 (139)
++++|+|+||++||+||+|||.||+++||++|||+|+||++|+++ +.++| ++|+|++
T Consensus 77 kk~RItPrHi~lAIrNDeEL~~Ll~~vTIa~GGVlP~i~~~l~~k~~~~~~----~~~~~~~ 134 (134)
T PTZ00252 77 KPKRLTPRTVTLAVRHDDDLGSLLKNVTLSRGGVMPSLNKALAKKHKSGKK----AKATPSA 134 (134)
T ss_pred CcccccHHHHHhhccChHHHHHHHcCCccCCCccCCCccHhhccccccCCC----CCCCCCC
Confidence 778999999999999999999999999999999999999999999 55555 6688874
No 5
>PLN00157 histone H2A; Provisional
Probab=100.00 E-value=1.2e-48 Score=289.55 Aligned_cols=125 Identities=81% Similarity=1.154 Sum_probs=115.9
Q ss_pred CCCCCCCCCCCCCCCCCCCcCcccccCcccchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCC
Q 032523 1 MSSAGSTKGGRGKPKSTKSISRSHKAGLQFPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKK 80 (139)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~s~ssragL~fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~ 80 (139)
|||+| ++. |++.+++..|+|+||||+|||+||+|+|++++|+.||+++|+|||+||||||++||||+|+|.|++.++
T Consensus 1 ms~~g-~~~--~~~~~~k~~srS~ragL~FPVgRi~R~Lk~g~~a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk 77 (132)
T PLN00157 1 MSGRG-KRK--GGGGGKKATSRSAKAGLQFPVGRIARYLKAGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKK 77 (132)
T ss_pred CCCCC-CCC--CCccCcCCcCcccccCcccchHHHHHHHhcCchhhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 89887 321 233566899999999999999999999999999999999999999999999999999999999999999
Q ss_pred CccchhhHHHhhhCcHHHHhhhcCceecCCccCCcccccccccccCCC
Q 032523 81 NRIVPRHIQLAVRNDEELSKLLGTVTIANGGVLPNIHQNLLPRKMGKG 128 (139)
Q Consensus 81 krItP~hI~~AI~nD~EL~~L~~~~~Ia~ggv~P~i~~~l~~~k~~~~ 128 (139)
++|+|+||++||+||+||+.||+++||++|||+|+||++|+++|.+++
T Consensus 78 ~RItPrHi~lAI~nDeEL~~Ll~~vtIa~GGV~P~i~~~ll~kk~~~~ 125 (132)
T PLN00157 78 SRIVPRHIQLAVRNDEELSKLLGGVTIAAGGVLPNIHSVLLPKKSGKS 125 (132)
T ss_pred ccccHHHHhhcccCcHHHHHHHcCceecCCccCCCcchhhcCCCCCCC
Confidence 999999999999999999999999999999999999999999987544
No 6
>KOG1756 consensus Histone 2A [Chromatin structure and dynamics]
Probab=100.00 E-value=9.4e-47 Score=276.45 Aligned_cols=126 Identities=73% Similarity=1.147 Sum_probs=120.9
Q ss_pred CCCCCCCCCCCCCCCCCCCcCcccccCcccchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCC
Q 032523 1 MSSAGSTKGGRGKPKSTKSISRSHKAGLQFPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKK 80 (139)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~s~ssragL~fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~ 80 (139)
|||++ ++||++..++...|+|.|++|||||++|+|+|++.+|..||+.+|||||+||||||++||||+|+|+|+++++
T Consensus 1 ~s~~~--k~gk~~~~~~~~~srs~~agl~fPvgri~r~Lr~~~~~~ri~~gapV~laavLeYL~Aeile~agnaardnkk 78 (131)
T KOG1756|consen 1 MSGRG--KGGKAKPRAKAKSSRSSRAGLQFPVGRIHRLLRKGRYAQRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKK 78 (131)
T ss_pred CCccC--CCCcccchhhhhcchhhhcccccCHHHHHHHHHccchhhhccCCChHHHHHHHHHHHHHHHHHhHHHhhhcCc
Confidence 77777 8888777778999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CccchhhHHHhhhCcHHHHhhhcCceecCCccCCcccccccccccCCC
Q 032523 81 NRIVPRHIQLAVRNDEELSKLLGTVTIANGGVLPNIHQNLLPRKMGKG 128 (139)
Q Consensus 81 krItP~hI~~AI~nD~EL~~L~~~~~Ia~ggv~P~i~~~l~~~k~~~~ 128 (139)
.+|+|+||++||+||+||.+|+++|+|++|||+|+||+.|+++|+.+.
T Consensus 79 ~ri~PrH~~lAI~NDeEL~~lL~~vtIa~GGvlPnI~~~lLpKk~~~~ 126 (131)
T KOG1756|consen 79 TRITPRHLQLAIRNDEELNKLLGKVTIAQGGVLPNIQAILLPKKTGKH 126 (131)
T ss_pred cccChHHHHHHHhCcHHHHHHhccceeccCCcccccchhhcccccccC
Confidence 999999999999999999999999999999999999999999998664
No 7
>PLN00154 histone H2A; Provisional
Probab=100.00 E-value=6.3e-46 Score=275.73 Aligned_cols=112 Identities=59% Similarity=0.870 Sum_probs=106.1
Q ss_pred CCCCCcCcccccCcccchHHHHHHHHhCC-CccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 15 KSTKSISRSHKAGLQFPVGRIARFLKAGK-YADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 15 ~~~~~~s~ssragL~fPvsri~R~Lk~~~-~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
.+++..|||+|++|+|||+||+|+|+++. +.+||+.+|+|||+||||||++||||||+|.|+++++++|+|+||++||+
T Consensus 24 ~~~k~~srS~rAgL~FPVgRi~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lAIr 103 (136)
T PLN00154 24 DKKKPTSRSSRAGLQFPVGRIHRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 103 (136)
T ss_pred CCcCCcCcccccCccCchHHHHHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhhcc
Confidence 45689999999999999999999999986 46899999999999999999999999999999999999999999999999
Q ss_pred CcHHHHhhhcCceecCCccCCcccccccccccCC
Q 032523 94 NDEELSKLLGTVTIANGGVLPNIHQNLLPRKMGK 127 (139)
Q Consensus 94 nD~EL~~L~~~~~Ia~ggv~P~i~~~l~~~k~~~ 127 (139)
||+||++||+ +||++|||+|+||++|+++|.+|
T Consensus 104 nDeEL~~Ll~-~TIa~GGVlP~i~~~l~~k~~~~ 136 (136)
T PLN00154 104 GDEELDTLIK-GTIAGGGVIPHIHKSLINKSTKK 136 (136)
T ss_pred CcHHHHHHhc-CCccCCccCCCcchhhcccccCC
Confidence 9999999997 69999999999999999988654
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=1.7e-45 Score=268.10 Aligned_cols=110 Identities=79% Similarity=1.184 Sum_probs=106.7
Q ss_pred CCCCCcCcccccCcccchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhhC
Q 032523 15 KSTKSISRSHKAGLQFPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRN 94 (139)
Q Consensus 15 ~~~~~~s~ssragL~fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~n 94 (139)
.+++.+|+|+|+||+|||+||+|||+++.+++||+++|+|||+||||||++||||+|+|.|++.++++|+|+||++||+|
T Consensus 6 ~~~~~~s~s~ragL~fPV~ri~R~Lk~~~~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi~n 85 (115)
T cd00074 6 KKSKKRSRSARAGLQFPVGRIHRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAVRN 85 (115)
T ss_pred cCcCccccccccCccCcHHHHHHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHHhc
Confidence 56678899999999999999999999988999999999999999999999999999999999999999999999999999
Q ss_pred cHHHHhhhcCceecCCccCCcccccccccc
Q 032523 95 DEELSKLLGTVTIANGGVLPNIHQNLLPRK 124 (139)
Q Consensus 95 D~EL~~L~~~~~Ia~ggv~P~i~~~l~~~k 124 (139)
|+|||+||+++||++|||+|+||++|+++|
T Consensus 86 D~EL~~L~~~vtI~~ggv~p~i~~~l~~~~ 115 (115)
T cd00074 86 DEELNKLLKGVTIASGGVLPNIHKVLLPKK 115 (115)
T ss_pred cHHHHHHHcCCcccCCccCCCcchhhcCCC
Confidence 999999999999999999999999999875
No 9
>smart00414 H2A Histone 2A.
Probab=100.00 E-value=5.3e-45 Score=262.28 Aligned_cols=105 Identities=79% Similarity=1.190 Sum_probs=102.9
Q ss_pred CcccccCcccchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhhCcHHHHh
Q 032523 21 SRSHKAGLQFPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEELSK 100 (139)
Q Consensus 21 s~ssragL~fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~nD~EL~~ 100 (139)
|+|+|+||+|||+||+|||++++++.||+++|+|||+||||||++||||+|+|.|++.++++|+|+||++||+||+|||+
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 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhcCceecCCccCCccccccccccc
Q 032523 101 LLGTVTIANGGVLPNIHQNLLPRKM 125 (139)
Q Consensus 101 L~~~~~Ia~ggv~P~i~~~l~~~k~ 125 (139)
||+++||++|||+|+||++|+++|.
T Consensus 81 L~~~vti~~ggv~p~i~~~l~~~~~ 105 (106)
T smart00414 81 LLKGVTIAQGGVLPNIHKVLLPKKT 105 (106)
T ss_pred HHcCcccCCCccCCCcchhhcccCC
Confidence 9999999999999999999999874
No 10
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]
Probab=100.00 E-value=1.8e-44 Score=261.64 Aligned_cols=121 Identities=71% Similarity=1.070 Sum_probs=114.3
Q ss_pred CCCCCCcCcccccCcccchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 14 PKSTKSISRSHKAGLQFPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 14 ~~~~~~~s~ssragL~fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
+..+-..|+|.+++|+|||+||+|+|+.+++..||+.+|+||++||||||++||||+|+|.|++.++++|+|+||++||+
T Consensus 11 a~~r~~~s~sa~agl~fpvgrvkr~lk~~~~~~Rig~~A~Vyl~AvleYL~aEilelAgNaA~d~kkkri~PrHlqlAIr 90 (132)
T COG5262 11 ADARVSQSRSAKAGLIFPVGRVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIPRHLQLAIR 90 (132)
T ss_pred ccchhccchhhhcCccccHHHHHHHHHcCccceeecCCcHHHHHHHHHHHHHHHHHHhhhhhhhcCcceechHHHHHHhc
Confidence 34456789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcHHHHhhhcCceecCCccCCcccccccccccCCCCccCCccCCC
Q 032523 94 NDEELSKLLGTVTIANGGVLPNIHQNLLPRKMGKGREDIGSASQE 138 (139)
Q Consensus 94 nD~EL~~L~~~~~Ia~ggv~P~i~~~l~~~k~~~~~~~~~~~~~~ 138 (139)
||+||++|+++|+|++|||+|+||+.|+++.++|. ++.+|+
T Consensus 91 nD~EL~~l~~~~tIa~GGvlp~I~~~ll~k~skK~----sk~~~~ 131 (132)
T COG5262 91 NDEELNKLLGDVTIAQGGVLPNINPGLLPKSSKKG----SKRSQE 131 (132)
T ss_pred CcHHHHHHhhhheeecCCcccccChhhhhhhhccC----Cccccc
Confidence 99999999999999999999999999999998887 666665
No 11
>KOG1757 consensus Histone 2A [Chromatin structure and dynamics]
Probab=100.00 E-value=6.6e-39 Score=231.24 Aligned_cols=112 Identities=60% Similarity=0.908 Sum_probs=105.5
Q ss_pred CCCCcCcccccCcccchHHHHHHHHhCCCcc-ccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhhC
Q 032523 16 STKSISRSHKAGLQFPVGRIARFLKAGKYAD-RVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRN 94 (139)
Q Consensus 16 ~~~~~s~ssragL~fPvsri~R~Lk~~~~~~-RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~n 94 (139)
+.+.+|+|.|+||||||+||+|.|+....+. ||+..++||++++||||++|+||||+|.+++.+.+||||+|+++||+.
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 3588999999999999999999999886664 999999999999999999999999999999999999999999999999
Q ss_pred cHHHHhhhcCceecCCccCCcccccccccccCCC
Q 032523 95 DEELSKLLGTVTIANGGVLPNIHQNLLPRKMGKG 128 (139)
Q Consensus 95 D~EL~~L~~~~~Ia~ggv~P~i~~~l~~~k~~~~ 128 (139)
|+|||.|++ .+|+.|||+||||++|+.++.+++
T Consensus 97 DeELDtLIk-~TiagGgViPhihk~l~~k~~~~~ 129 (131)
T KOG1757|consen 97 DEELDTLIK-ATIAGGGVIPHIHKSLINKKGKKK 129 (131)
T ss_pred cHHHHHHHH-HhhccCccccchHHHHhccccccC
Confidence 999999995 589999999999999999887765
No 12
>PLN00155 histone H2A; Provisional
Probab=99.86 E-value=4.3e-22 Score=128.74 Aligned_cols=58 Identities=72% Similarity=1.202 Sum_probs=51.9
Q ss_pred CCCCCCCCCCCCCCCCCCCcCcccccCcccchHHHHHHHHhCCCccccCCchHHHHHHHHHHH
Q 032523 1 MSSAGSTKGGRGKPKSTKSISRSHKAGLQFPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYL 63 (139)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~s~ssragL~fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL 63 (139)
|||+| ||++.+++.+|+|+|++|||||+||+|+|++++++.||+.+|||||+||||||
T Consensus 1 msg~g-----~g~~~~~k~~srS~rAgL~FPVgri~r~Lr~g~~a~Rvga~apVYlAAVLEYL 58 (58)
T PLN00155 1 MAGRG-----KGKTSGKKAVSRSAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYL 58 (58)
T ss_pred CCCCC-----CCCccccCccCcccccccccchHHHHHHHhcCChhhcccCCcHHHHHHHHHhC
Confidence 88766 23445567899999999999999999999999999999999999999999997
No 13
>COG5247 BUR6 Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]
Probab=99.62 E-value=1.7e-15 Score=107.92 Aligned_cols=101 Identities=24% Similarity=0.391 Sum_probs=87.1
Q ss_pred CCCCCCCCCCCCCcCcccccCcccchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchh
Q 032523 7 TKGGRGKPKSTKSISRSHKAGLQFPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPR 86 (139)
Q Consensus 7 ~~~~~~~~~~~~~~s~ssragL~fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~ 86 (139)
.-||-|-.++.+... +-..+||++|++++|+.+++..+|+..+||.....||+|+++|+.++++.|+..+.+|||.+
T Consensus 4 Pv~N~~t~~k~n~~~---~~ktrFP~ar~KkIMQ~deDiGKV~q~tPVIaskalE~Fl~~iv~~s~k~aR~~~skR~t~e 80 (113)
T COG5247 4 PVGNMGTMPKQNSQK---KKKTRFPIARLKKIMQLDEDIGKVGQSTPVIASKALEMFLTEIVGLSLKEARKKSSKRMTSE 80 (113)
T ss_pred CCCCCCCCCCCchhh---hhhhcCCHHHHHHHHHhhhhhhhhhhcchHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHH
Confidence 345555555444333 66788999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHhhhCcHHHHhhhcCceecCC
Q 032523 87 HIQLAVRNDEELSKLLGTVTIANG 110 (139)
Q Consensus 87 hI~~AI~nD~EL~~L~~~~~Ia~g 110 (139)
||..|+.+|+.|++|-.-+.+-.+
T Consensus 81 ~lk~a~~sdekFdFL~~~~~~~~~ 104 (113)
T COG5247 81 FLKRATESDEKFDFLKNMEQFKNR 104 (113)
T ss_pred HHHHHHhhhHHHHHHHHHHHhcCC
Confidence 999999999999999865555444
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=99.55 E-value=7.1e-15 Score=98.12 Aligned_cols=73 Identities=44% Similarity=0.614 Sum_probs=68.1
Q ss_pred ccccCcccchHHHHHHHHhCCCcc-ccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhhCc
Q 032523 23 SHKAGLQFPVGRIARFLKAGKYAD-RVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRND 95 (139)
Q Consensus 23 ssragL~fPvsri~R~Lk~~~~~~-RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~nD 95 (139)
+.+..+.||+.|+.+-+....+.. ||+.+|.+||.+++||++.+|+++|++.|.+.++++|+|+||+.|++.|
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 566788999999999999887775 9999999999999999999999999999999999999999999999875
No 15
>PLN00035 histone H4; Provisional
Probab=99.40 E-value=5.3e-13 Score=95.69 Aligned_cols=89 Identities=21% Similarity=0.334 Sum_probs=79.2
Q ss_pred CCCCCCCCC----CCCCCCCCCCcCcccccCcccchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHh
Q 032523 1 MSSAGSTKG----GRGKPKSTKSISRSHKAGLQFPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAAR 76 (139)
Q Consensus 1 ~~~~~~~~~----~~~~~~~~~~~s~ssragL~fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~ 76 (139)
|||.| ++ ||||.+|..++.+.+-++ +|.+.|.|+++.. .+.|||+++-..|..+||.++.+|+..|..+|.
T Consensus 1 m~~~~--k~~~g~g~~g~kr~~k~~~d~i~~--ipk~~IrRLARr~-GvkRIS~~ay~elr~vle~~l~~I~~dav~ya~ 75 (103)
T PLN00035 1 MSGRG--KGGKGLGKGGAKRHRKVLRDNIQG--ITKPAIRRLARRG-GVKRISGLIYEETRGVLKIFLENVIRDAVTYTE 75 (103)
T ss_pred CCCCC--CCCCCCCCCcchHHHHHHHhhhcc--CCHHHHHHHHHHc-CcccchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 88888 44 455667777777777777 8888999999998 899999999999999999999999999999999
Q ss_pred hcCCCccchhhHHHhhhC
Q 032523 77 DNKKNRIVPRHIQLAVRN 94 (139)
Q Consensus 77 ~~~~krItP~hI~~AI~n 94 (139)
+.++++|+.+||.+|++.
T Consensus 76 HA~RKTV~~~DV~~Alkr 93 (103)
T PLN00035 76 HARRKTVTAMDVVYALKR 93 (103)
T ss_pred hcCCCcCcHHHHHHHHHH
Confidence 999999999999999864
No 16
>KOG1659 consensus Class 2 transcription repressor NC2, alpha subunit (DRAP1) [Transcription]
Probab=99.37 E-value=9.5e-13 Score=104.45 Aligned_cols=82 Identities=22% Similarity=0.356 Sum_probs=76.9
Q ss_pred cccccCcccchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhhCcHHHHhh
Q 032523 22 RSHKAGLQFPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEELSKL 101 (139)
Q Consensus 22 ~ssragL~fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~nD~EL~~L 101 (139)
+-.+-...||++||+++||.+++..+|...+||.+...||.|+.+|+..++.+++..+.++++++||..||.+|+.|+||
T Consensus 6 ~~~~~~trfp~aRiKKIMQ~dEdIGKvaqavPViisralElFl~~l~~~t~~~t~~~~aKt~s~~hlkq~v~~~~~FdFL 85 (224)
T KOG1659|consen 6 SFKKYKTRFPPARIKKIMQSDEDIGKVAQAVPVIISRALELFLESLLQKTLEITRSRGAKTVSSSHLKQAVESDPKFDFL 85 (224)
T ss_pred hhhhhhccCCHHHHHHHHhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCccccCHHHHHHHHhccchhHHH
Confidence 34455677999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hc
Q 032523 102 LG 103 (139)
Q Consensus 102 ~~ 103 (139)
-.
T Consensus 86 k~ 87 (224)
T KOG1659|consen 86 KE 87 (224)
T ss_pred HH
Confidence 74
No 17
>PTZ00015 histone H4; Provisional
Probab=99.26 E-value=1.8e-11 Score=87.72 Aligned_cols=89 Identities=21% Similarity=0.343 Sum_probs=75.8
Q ss_pred CCCCCCCCCC-----CCCCCCCCCcCcccccCcccchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHH
Q 032523 1 MSSAGSTKGG-----RGKPKSTKSISRSHKAGLQFPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAA 75 (139)
Q Consensus 1 ~~~~~~~~~~-----~~~~~~~~~~s~ssragL~fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A 75 (139)
||++| ++| +|++++..+..+.+-.+ +|.+.|.|+++.. .+.|||+++-..+..+||.++.+|+..|..+|
T Consensus 1 ~~~~~--k~~~~~~~~g~~kr~rk~~r~~i~g--I~k~~IrRLarr~-GvkRIS~d~y~e~r~vle~~l~~I~rdav~~a 75 (102)
T PTZ00015 1 MSGMG--KGKKSLGAKGGQKRQKKVLRDNIRG--ITKGAIRRLARRG-GVKRISGDIYEEVRGVLKAFLENVVRDSTAYT 75 (102)
T ss_pred CCCcc--cCCCccccccchhhHHHHHhhcccC--CCHHHHHHHHHHc-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 77777 333 55556666666666666 6677899999988 99999999999999999999999999999999
Q ss_pred hhcCCCccchhhHHHhhhC
Q 032523 76 RDNKKNRIVPRHIQLAVRN 94 (139)
Q Consensus 76 ~~~~~krItP~hI~~AI~n 94 (139)
.+.++++|+.+||.+|++.
T Consensus 76 eHA~RKTVt~~DV~~AlKr 94 (102)
T PTZ00015 76 EYARRKTVTAMDVVYALKR 94 (102)
T ss_pred HhcCCCcccHHHHHHHHHh
Confidence 9999999999999999853
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=99.20 E-value=6.1e-11 Score=77.52 Aligned_cols=64 Identities=22% Similarity=0.283 Sum_probs=58.2
Q ss_pred ccchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhh
Q 032523 29 QFPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAV 92 (139)
Q Consensus 29 ~fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI 92 (139)
.||+++|+|+|+......+|+.+|..+|+.+.|.|+.+|...|...|...++++|+++||..|+
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 5999999999999977789999999999999999999999999999999999999999999885
No 19
>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=98.98 E-value=2e-09 Score=71.20 Aligned_cols=64 Identities=20% Similarity=0.232 Sum_probs=61.0
Q ss_pred ccchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 29 QFPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 29 ~fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
.+|.+.|.|+.+.. +..||++++...|+..+||.+.+|+..|.+.+++.+|++++++||+.|++
T Consensus 2 ~~p~~~i~ria~~~-Gi~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk 65 (65)
T smart00803 2 WLPKETIKDVAESL-GIGNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR 65 (65)
T ss_pred CCCHHHHHHHHHHC-CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence 48999999999988 89999999999999999999999999999999999999999999999864
No 20
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=98.98 E-value=5.6e-10 Score=78.52 Aligned_cols=68 Identities=28% Similarity=0.355 Sum_probs=63.4
Q ss_pred ccCcccchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 25 KAGLQFPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 25 ragL~fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
...+-||+..|.|+|++. ...||+.+|...|..++|-++.+|.+.|...|.+.+|++|+++||++|+.
T Consensus 15 ~~~~~Lp~apv~Ri~r~~-~~~Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~ 82 (91)
T COG2036 15 STDLLLPKAPVRRILRKA-GAERVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALK 82 (91)
T ss_pred hhhhhcCchHHHHHHHHH-hHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHH
Confidence 345669999999999998 77799999999999999999999999999999999999999999999985
No 21
>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=98.85 E-value=6.6e-09 Score=72.25 Aligned_cols=72 Identities=18% Similarity=0.268 Sum_probs=64.6
Q ss_pred cCcccccCcccchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhhC
Q 032523 20 ISRSHKAGLQFPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRN 94 (139)
Q Consensus 20 ~s~ssragL~fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~n 94 (139)
+-+.+-+| +|.+.|.|+.+.. ++.|||.++-..+..+||.++.+|+..|..++.+.++++|+++||.+|++.
T Consensus 6 ~~~~~~~g--i~k~~I~RLarr~-GvkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr 77 (85)
T cd00076 6 VLRDNIKG--ITKPAIRRLARRG-GVKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKR 77 (85)
T ss_pred HHHHhhcc--CCHHHHHHHHHHc-CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHH
Confidence 33444455 7888999999998 899999999999999999999999999999999999999999999999864
No 22
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]
Probab=98.74 E-value=2.3e-08 Score=80.35 Aligned_cols=75 Identities=25% Similarity=0.376 Sum_probs=72.7
Q ss_pred cccchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhhCcHHHHhhh
Q 032523 28 LQFPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEELSKLL 102 (139)
Q Consensus 28 L~fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~nD~EL~~L~ 102 (139)
+.+|++||+++|+.+++..-|++.||+.++.+.|-|++|+...|+-.|..++|+++.-.||..|+...+-|++|+
T Consensus 108 h~LPlARIkkvMKtdedVkMisaEaPvlFak~~EiFI~ELTmRAW~~ae~NkRRtLQksDia~Av~kSeMfDFLi 182 (286)
T COG5208 108 HNLPLARIKKVMKTDEDVKMISAEAPVLFAKITEIFIEELTMRAWINAEENKRRTLQKSDIAAAVKKSEMFDFLI 182 (286)
T ss_pred ccCcHHHHHHHHhcccchhheecccchHHHHHHHHHHHHHHHHHHHHHhHhhhhHHHHHHHHHHHHHHHHHhHHh
Confidence 459999999999999999999999999999999999999999999999999999999999999999999999999
No 23
>smart00417 H4 Histone H4.
Probab=98.73 E-value=2.7e-08 Score=67.57 Aligned_cols=61 Identities=15% Similarity=0.139 Sum_probs=57.6
Q ss_pred cchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHh
Q 032523 30 FPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLA 91 (139)
Q Consensus 30 fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~A 91 (139)
+|.+.|.|+++.. ++.|||+++-..+..+||.++.+|+..|..+|.+.++++|+.+||..|
T Consensus 14 I~k~~IrRLaRr~-GvkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~~a 74 (74)
T smart00417 14 ITKPAIRRLARRG-GVKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVVYA 74 (74)
T ss_pred CCHHHHHHHHHHc-CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHheeC
Confidence 7788899999998 999999999999999999999999999999999999999999998653
No 24
>KOG1657 consensus CCAAT-binding factor, subunit C (HAP5) [Transcription]
Probab=98.57 E-value=4.7e-08 Score=79.21 Aligned_cols=84 Identities=21% Similarity=0.276 Sum_probs=77.3
Q ss_pred cccccCcccchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhhCcHHHHhh
Q 032523 22 RSHKAGLQFPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEELSKL 101 (139)
Q Consensus 22 ~ssragL~fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~nD~EL~~L 101 (139)
...=....||++||+++|+.+.....|+.+|||.++.++|+|+.|+-..++..+..++++.+.-.||..++.++.-|++|
T Consensus 67 ~~d~~~~~lPlaRiKkimK~dedv~mI~~Eapvl~aka~E~Fi~elt~~sw~~Tee~~rrtl~~sdia~av~~s~~fdFL 146 (236)
T KOG1657|consen 67 QLDFKNHILPLARIKKIMKSDEDVSMITAEAPVLFAKACELFITELTLRSWVHTEENKRRTLQKSDIAAAVTQSETFDFL 146 (236)
T ss_pred ccchhhccCcHhhccccccccccccccchhHHHHHHHHHHHHHHHHHHHhhhhhcccccccchHHHHHHHhccCCCccce
Confidence 33444678999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCc
Q 032523 102 LGTV 105 (139)
Q Consensus 102 ~~~~ 105 (139)
...+
T Consensus 147 ~Div 150 (236)
T KOG1657|consen 147 RDIV 150 (236)
T ss_pred eccc
Confidence 9543
No 25
>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=98.25 E-value=5.3e-06 Score=55.61 Aligned_cols=66 Identities=15% Similarity=0.256 Sum_probs=60.1
Q ss_pred cchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhhCc
Q 032523 30 FPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRND 95 (139)
Q Consensus 30 fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~nD 95 (139)
++-..+..++++-....|++.+|...|..++|-|+.+|++.|...|++.++++|.++||+++++.+
T Consensus 2 ~~k~~l~~lv~~id~~~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r~ 67 (72)
T cd07981 2 LTKRKLQELLKEIDPREQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLERN 67 (72)
T ss_pred CcHHHHHHHHHhhCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHh
Confidence 445678888888866789999999999999999999999999999999999999999999999765
No 26
>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=98.07 E-value=1.3e-05 Score=58.55 Aligned_cols=61 Identities=20% Similarity=0.112 Sum_probs=57.2
Q ss_pred HHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhhC
Q 032523 33 GRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRN 94 (139)
Q Consensus 33 sri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~n 94 (139)
--|+++|++. ++.+++..++..|...++-++.+|+..|...|++.++++|+.+||++||..
T Consensus 5 ~~v~~iLk~~-Gv~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~ 65 (117)
T cd07979 5 RVIAAILKSM-GITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQS 65 (117)
T ss_pred HHHHHHHHHC-CCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 3588999987 888999999999999999999999999999999999999999999999974
No 27
>KOG3467 consensus Histone H4 [Chromatin structure and dynamics]
Probab=97.98 E-value=1.5e-05 Score=55.87 Aligned_cols=90 Identities=21% Similarity=0.312 Sum_probs=77.0
Q ss_pred CCCCC--CCCCCCCCCCCCCCcCcccccCcccchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 032523 1 MSSAG--STKGGRGKPKSTKSISRSHKAGLQFPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDN 78 (139)
Q Consensus 1 ~~~~~--~~~~~~~~~~~~~~~s~ssragL~fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~ 78 (139)
||+.| .|..+||+++|..+.-+.+-.+++-|. |.|+-+.. ...||+...-.....++.-++.+++-.|...+.+.
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--IRRLARRG-GVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHA 77 (103)
T ss_pred CCCcCccccccccchHHHHHHHHHhhccccchHH--HHHHHHhc-CcchhchhhHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 66554 234458899999988888888988887 88888877 88999998888899999999999999999999999
Q ss_pred CCCccchhhHHHhhh
Q 032523 79 KKNRIVPRHIQLAVR 93 (139)
Q Consensus 79 ~~krItP~hI~~AI~ 93 (139)
++++||..|+-.+.+
T Consensus 78 KRKTvT~~dvv~~LK 92 (103)
T KOG3467|consen 78 KRKTVTAMDVVYALK 92 (103)
T ss_pred hhceeeHHHHHHHHH
Confidence 999999999987765
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=97.77 E-value=0.00014 Score=48.38 Aligned_cols=64 Identities=19% Similarity=0.234 Sum_probs=49.5
Q ss_pred ccchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 29 QFPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 29 ~fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
.||..-|+.+-..- +...+++++.-.|+.=+||-+.||+..|.+..++.+|+++|++||+.|++
T Consensus 3 ~~~~esvk~iAes~-Gi~~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di~~ALr 66 (66)
T PF02969_consen 3 VFSQESVKDIAESL-GISNLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLTTDDINSALR 66 (66)
T ss_dssp ---HHHHHHHHHHT-T---B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHH-
T ss_pred cCCHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHhC
Confidence 47777777766655 67789999999999999999999999999999999999999999999874
No 29
>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=97.69 E-value=0.00023 Score=49.44 Aligned_cols=63 Identities=21% Similarity=0.391 Sum_probs=56.2
Q ss_pred cchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcC---CCccchhhHHHhhh
Q 032523 30 FPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNK---KNRIVPRHIQLAVR 93 (139)
Q Consensus 30 fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~---~krItP~hI~~AI~ 93 (139)
||-..++|++... ....|+.+..+.|+++-..|+.||+|.|...-...+ ...|.|.||+.|.+
T Consensus 17 f~k~~iKr~~~~~-~~~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~HireA~r 82 (85)
T cd08048 17 FPKAAIKRLIQSV-TGQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHLREAYR 82 (85)
T ss_pred ccHHHHHHHHHHH-cCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHHHHHHH
Confidence 8888899999977 668999999999999999999999999998876644 47899999999875
No 30
>PLN00158 histone H2B; Provisional
Probab=97.64 E-value=0.00029 Score=51.61 Aligned_cols=61 Identities=28% Similarity=0.291 Sum_probs=54.9
Q ss_pred HHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 33 GRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 33 sri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
..|++.|++..-..-|+..+.-.|...+..++.-|...|...++-+++.+|++++|+.|++
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 4699999988666789999998899999999999999999999999999999999999987
No 31
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=97.63 E-value=0.00023 Score=48.02 Aligned_cols=59 Identities=20% Similarity=0.155 Sum_probs=54.1
Q ss_pred HHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhhC
Q 032523 35 IARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRN 94 (139)
Q Consensus 35 i~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~n 94 (139)
|.++|+.. +..+++.+|...|+.++|-++.+|.+.+-+.|.+.+|+..++.||.+|+.+
T Consensus 12 Vaqil~~~-Gf~~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~ 70 (77)
T smart00576 12 VAQILESA-GFDSFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALEN 70 (77)
T ss_pred HHHHHHHc-CccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 45677776 889999999999999999999999999999999999999999999999854
No 32
>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=97.62 E-value=0.00017 Score=61.10 Aligned_cols=60 Identities=18% Similarity=0.263 Sum_probs=54.1
Q ss_pred HHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 33 GRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 33 sri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
.-|+-+.+.. +..|++++|...|+..+||.+.+|++.|.+.+++.+|++++++||+.|++
T Consensus 3 ~~i~~ia~~~-Gi~~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~ 62 (343)
T cd08050 3 ESIKLIAESL-GIDSLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALR 62 (343)
T ss_pred hHHHHHHHHc-CCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHH
Confidence 3455555554 88899999999999999999999999999999999999999999999987
No 33
>smart00428 H3 Histone H3.
Probab=97.44 E-value=0.00033 Score=50.54 Aligned_cols=68 Identities=24% Similarity=0.225 Sum_probs=57.7
Q ss_pred cCcccchHHHHHHHHhC----CC--ccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 26 AGLQFPVGRIARFLKAG----KY--ADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 26 agL~fPvsri~R~Lk~~----~~--~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
..|.+|-..+.|+.++- .. ..|++.+|...|-.+.|.++.++++.|...|.+.++.+|+|+|+++|.+
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 45667777777776543 11 3499999999999999999999999999999999999999999999854
No 34
>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=97.10 E-value=0.0016 Score=45.81 Aligned_cols=64 Identities=16% Similarity=0.268 Sum_probs=48.0
Q ss_pred cchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcC-CCccchhhHHHhhh
Q 032523 30 FPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNK-KNRIVPRHIQLAVR 93 (139)
Q Consensus 30 fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~-~krItP~hI~~AI~ 93 (139)
||-+.|++++...-...-|+....+.++++--.|+.||+|.|.......+ ...|.|.||+.|.+
T Consensus 24 ~~k~~ikkli~~~~~~qsv~~~v~i~v~g~aKvFVGEiVE~A~~Vq~~~~~~~pl~P~hlreA~r 88 (90)
T PF04719_consen 24 FNKAAIKKLINQVLGNQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGETGPLQPDHLREAYR 88 (90)
T ss_dssp --HHHHHHHHHHHHS-S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SS--HHHHHHHHH
T ss_pred CCHHHHHHHHHHHcCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHH
Confidence 88899999999873338999999999999999999999999998876533 45899999998864
No 35
>KOG3219 consensus Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=97.00 E-value=0.001 Score=52.65 Aligned_cols=65 Identities=20% Similarity=0.346 Sum_probs=55.9
Q ss_pred cccchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhc-CCCccchhhHHHhhh
Q 032523 28 LQFPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDN-KKNRIVPRHIQLAVR 93 (139)
Q Consensus 28 L~fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~-~~krItP~hI~~AI~ 93 (139)
.-||-+.|+++|..-.... |+..+.++++++-.-|+-||+|+|..+.... ....+.|.||+.|.+
T Consensus 111 s~f~Ka~iKkL~~~itg~~-v~~nv~Ia~~GiaKvFVGEvVEeAl~V~~~~~e~~PLqP~HIREA~r 176 (195)
T KOG3219|consen 111 SAFPKAQIKKLMSSITGQS-VSENVAIAMAGIAKVFVGEVVEEALDVREEWGESGPLQPKHIREAYR 176 (195)
T ss_pred hcCCHHHHHHHHHHHhCCc-cCcceeeeecchhhHhHHHHHHHHHHHHHHhccCCCCCcHHHHHHHH
Confidence 3499999999999884444 9999999999999999999999998887553 356799999999975
No 36
>KOG0869 consensus CCAAT-binding factor, subunit A (HAP3) [Transcription]
Probab=96.81 E-value=0.0046 Score=47.62 Aligned_cols=65 Identities=15% Similarity=0.222 Sum_probs=58.6
Q ss_pred ccchHHHHHHHHhCCCc-cccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 29 QFPVGRIARFLKAGKYA-DRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 29 ~fPvsri~R~Lk~~~~~-~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
-+|++-|-|+|++.-.. .+|+.+|...+--++-.|++=|.-.|...|...+|++|+.+||-+|+.
T Consensus 32 ~LPIANV~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~ 97 (168)
T KOG0869|consen 32 FLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMS 97 (168)
T ss_pred hccHHHHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHH
Confidence 38999999999988333 399999999999999899999999999999999999999999999986
No 37
>smart00427 H2B Histone H2B.
Probab=96.73 E-value=0.007 Score=42.49 Aligned_cols=60 Identities=27% Similarity=0.280 Sum_probs=54.0
Q ss_pred HHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 34 RIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 34 ri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
.|+|.|++..-..-|+..|.-.+...+..++.-|...|...++.+++.+|++++|+.|++
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 588999988666689999998899999999999999999999999999999999999986
No 38
>PTZ00463 histone H2B; Provisional
Probab=96.43 E-value=0.013 Score=42.95 Aligned_cols=61 Identities=16% Similarity=0.164 Sum_probs=53.7
Q ss_pred HHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 33 GRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 33 sri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
-.|++.|++..-..-|+..|.-.|...+.-++..|...|.+.|+-+++.+|++++|+.|++
T Consensus 32 ~YI~KVLKqVhPd~gIS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAvr 92 (117)
T PTZ00463 32 LYIFKVLKQVHPDTGISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAIR 92 (117)
T ss_pred HHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHh
Confidence 3699999988666789998988888888888888888899999989999999999999987
No 39
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T.
Probab=96.42 E-value=0.0062 Score=52.96 Aligned_cols=72 Identities=11% Similarity=0.099 Sum_probs=45.8
Q ss_pred CCCCcCcccccCcccchHHHHHHHHhC----CCc-cccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhh
Q 032523 16 STKSISRSHKAGLQFPVGRIARFLKAG----KYA-DRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRH 87 (139)
Q Consensus 16 ~~~~~s~ssragL~fPvsri~R~Lk~~----~~~-~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~h 87 (139)
++++.|+-......+|-+.|++++... .|+ .+|+.+|--.|..++|||...|-+=-.-+|.|.|||+|.+.|
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 567777777778889999999988654 344 399999999999999999999999999999999999999875
No 40
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=96.22 E-value=0.02 Score=43.73 Aligned_cols=70 Identities=19% Similarity=0.217 Sum_probs=60.8
Q ss_pred ccCcccchHHHHHHHHhCCC-ccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhhC
Q 032523 25 KAGLQFPVGRIARFLKAGKY-ADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRN 94 (139)
Q Consensus 25 ragL~fPvsri~R~Lk~~~~-~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~n 94 (139)
.-.+.+|-+-|..++++.-. ..||..++-..|-.+.=||+.-|--.|..+|....+++|.|+|+-.|..|
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 45788999999999998844 35999999988888877888888889999999999999999999999875
No 41
>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=96.16 E-value=0.027 Score=37.93 Aligned_cols=61 Identities=18% Similarity=0.202 Sum_probs=48.4
Q ss_pred chHHHHHHHHhCC--CccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCc-cchhhHHHh
Q 032523 31 PVGRIARFLKAGK--YADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNR-IVPRHIQLA 91 (139)
Q Consensus 31 Pvsri~R~Lk~~~--~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~kr-ItP~hI~~A 91 (139)
|-.-|.|+|+... ..-||+.+|...++..|+-|+.|-+-+|...|...+... |..+||+..
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 4456888998542 234999999999999999999999999999999998888 999999863
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=96.11 E-value=0.022 Score=37.94 Aligned_cols=63 Identities=13% Similarity=0.261 Sum_probs=50.3
Q ss_pred HHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhhCc
Q 032523 33 GRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRND 95 (139)
Q Consensus 33 sri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~nD 95 (139)
.++..++++-.....+..++...|..+.+-|+.+++..|...|++.+..++.+.||+..+..+
T Consensus 3 ~~l~~Lv~~iDp~~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~tle~~Dv~~~Ler~ 65 (68)
T PF03847_consen 3 RKLQELVKQIDPNEKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSSTLEVKDVQLHLERN 65 (68)
T ss_dssp HHHHHHHHCC-SS----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHHhh
Confidence 357778888767779999999999999999999999999999999999999999999887654
No 43
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=95.92 E-value=0.059 Score=36.64 Aligned_cols=48 Identities=21% Similarity=0.337 Sum_probs=36.2
Q ss_pred chHHHHHHHHHHHHHHHHHHHH---HHHhhcCCCccchhhHHHhhhCcHHH
Q 032523 51 GAPVYLSAVLEYLAAEVLELAG---NAARDNKKNRIVPRHIQLAVRNDEEL 98 (139)
Q Consensus 51 ~A~vyLaAvLEyL~~EILelAg---~~A~~~~~krItP~hI~~AI~nD~EL 98 (139)
-++-|++++.|.....+-.++. ..|++.||++|+++|+.+..+.++.|
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 4778888888888777776663 34799999999999999999999876
No 44
>KOG1658 consensus DNA polymerase epsilon, subunit C [Replication, recombination and repair]
Probab=95.67 E-value=0.011 Score=45.40 Aligned_cols=77 Identities=19% Similarity=0.226 Sum_probs=68.5
Q ss_pred CcccchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhhCcHHHHhhhc
Q 032523 27 GLQFPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEELSKLLG 103 (139)
Q Consensus 27 gL~fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~nD~EL~~L~~ 103 (139)
-+++|++||+.+++.+....-....+...++...|.++.+|-..++..+....++++.-+++..||..-+||.+|-.
T Consensus 57 l~rLpL~rik~vvkl~pdl~l~~dea~~l~a~aaelfi~~Ln~~~~~~~q~~k~kt~qr~d~D~ai~~~de~~fle~ 133 (162)
T KOG1658|consen 57 LSRLPLARIKQVVKLDPDLTLLNDEASQLIAKAAELFIQELNDVAYTTAQLRKRKTEQRRDYDTAIEAVDEFAFLEG 133 (162)
T ss_pred hhhccHHHHHhhccCCcchhhhhhHHHHHHHHHHHHHHHHHHhccchhHHHHHhhhhhhhcccccccchHHHHHHhh
Confidence 36799999999999886666666677777899999999999999999999999999999999999999999998884
No 45
>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=95.40 E-value=0.077 Score=39.50 Aligned_cols=60 Identities=20% Similarity=0.104 Sum_probs=41.5
Q ss_pred HHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 33 GRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 33 sri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
--|+-+|++. +.......++.-|--..--++.+||+-|..+|.+.++..|+..||++||.
T Consensus 16 ~~i~~iL~~~-Gv~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~~~DVrLAi~ 75 (129)
T PF02291_consen 16 RVIHLILKSM-GVTEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTIDADDVRLAIQ 75 (129)
T ss_dssp HHHHHHHHHT-T---B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHHH
T ss_pred HHHHHHHHHc-CCcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCChHHHHHHHH
Confidence 4577788877 44433444444444444446899999999999999999999999999998
No 46
>PLN00160 histone H3; Provisional
Probab=95.37 E-value=0.037 Score=39.40 Aligned_cols=68 Identities=25% Similarity=0.217 Sum_probs=57.2
Q ss_pred cCcccchHHHHHHHHhCC-----CccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 26 AGLQFPVGRIARFLKAGK-----YADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 26 agL~fPvsri~R~Lk~~~-----~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
..|.+|-..+.|+.++-. ...|...+|...|--+-|.++-.++|-+...|.+.++-+|.|.|++++.+
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 356777777777776541 23599999999999999999999999999999999999999999998854
No 47
>PTZ00018 histone H3; Provisional
Probab=95.31 E-value=0.035 Score=41.78 Aligned_cols=66 Identities=24% Similarity=0.205 Sum_probs=56.8
Q ss_pred CcccchHHHHHHHHhC----CCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhh
Q 032523 27 GLQFPVGRIARFLKAG----KYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAV 92 (139)
Q Consensus 27 gL~fPvsri~R~Lk~~----~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI 92 (139)
.|.||-..|.|++++- ....|+..+|...|--+-|.++-.++|.+...|.+.++-+|.|.|++++.
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 5667777788877654 12349999999999999999999999999999999999999999999884
No 48
>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=95.27 E-value=0.093 Score=34.94 Aligned_cols=58 Identities=19% Similarity=0.162 Sum_probs=51.0
Q ss_pred HHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 35 IARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 35 i~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
|..+++.. +...++..|...|+.+++.++.+|...+-.+|.+.+|...++.|+..|+.
T Consensus 12 va~il~~~-GF~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~ 69 (77)
T PF07524_consen 12 VAQILKHA-GFDSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQALE 69 (77)
T ss_pred HHHHHHHc-CccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 34456554 77899999999999999999999999999999999999999999998874
No 49
>PLN00121 histone H3; Provisional
Probab=95.02 E-value=0.032 Score=41.99 Aligned_cols=67 Identities=25% Similarity=0.225 Sum_probs=57.1
Q ss_pred CcccchHHHHHHHHhC----CCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 27 GLQFPVGRIARFLKAG----KYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 27 gL~fPvsri~R~Lk~~----~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
.|.||-..|.|++++- ....|+..+|...|--+-|.++-.++|.+.-.|.+.++-+|.+.|++++.+
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 5667777788777653 123499999999999999999999999999999999999999999998843
No 50
>KOG0870 consensus DNA polymerase epsilon, subunit D [Transcription]
Probab=94.99 E-value=0.1 Score=40.58 Aligned_cols=66 Identities=17% Similarity=0.283 Sum_probs=58.4
Q ss_pred CcccchHHHHHHHHhCCCcc---ccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 27 GLQFPVGRIARFLKAGKYAD---RVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 27 gL~fPvsri~R~Lk~~~~~~---RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
-|-||.+-|-|++++. ..+ -|+.+|-..|+..---|+..++--|...|+++++++|++.|+-.|+.
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 DLNLPNAIITRLVKEV-LPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALD 76 (172)
T ss_pred HhhccHHHHHHHHHHh-CccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHH
Confidence 4679999999999876 443 58889999999999999999999999999999999999999998885
No 51
>PLN00161 histone H3; Provisional
Probab=94.98 E-value=0.064 Score=40.35 Aligned_cols=68 Identities=25% Similarity=0.197 Sum_probs=56.8
Q ss_pred cCcccchHHHHHHHHhC----C-CccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 26 AGLQFPVGRIARFLKAG----K-YADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 26 agL~fPvsri~R~Lk~~----~-~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
.+|.+|-..|.|++++- . ...|+..+|...|--+-|.++-.++|-+.-.|.+.++-+|.|.|++++.+
T Consensus 52 t~lLIpklPF~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm~La~r 124 (135)
T PLN00161 52 TELLIRKLPFARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDMQLARR 124 (135)
T ss_pred cccccccccHHHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhHHHHHH
Confidence 35667777777777653 1 13599999999999999999999999999999999999999999998854
No 52
>KOG1744 consensus Histone H2B [Chromatin structure and dynamics]
Probab=94.47 E-value=0.19 Score=37.41 Aligned_cols=68 Identities=25% Similarity=0.219 Sum_probs=52.0
Q ss_pred ccccCcccchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 23 SHKAGLQFPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 23 ssragL~fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
...-...++| .|.|++..-.--|+..+.-.+.+.+--++..|+..|+..|+-.++.+|+.++|+.|++
T Consensus 34 ~~~e~~s~yv---~kvlk~Vhpd~gis~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta~r 101 (127)
T KOG1744|consen 34 RRKESYSEYV---YKVLKQVHPDLGISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTAVR 101 (127)
T ss_pred cccCceeeeh---hhhhhcccCCCCcCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHHHH
Confidence 3334445554 4466665333458888888888888888899999999999999999999999999885
No 53
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=94.21 E-value=0.083 Score=43.57 Aligned_cols=68 Identities=10% Similarity=0.187 Sum_probs=61.6
Q ss_pred ccchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhhCcH
Q 032523 29 QFPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRNDE 96 (139)
Q Consensus 29 ~fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~nD~ 96 (139)
.+-.-++..+|++-.....+.+++-.+|.-+.+-|+..|+..+...|++.+..+|..+||++.++++.
T Consensus 154 il~k~kl~dLvqqId~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhLEr~~ 221 (258)
T KOG1142|consen 154 ILSKRKLDDLVQQIDGTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHLERNF 221 (258)
T ss_pred cccccchhHHHHhhcCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeeeeccc
Confidence 35556788999988677799999999999999999999999999999999999999999999998873
No 54
>PLN00163 histone H4; Provisional
Probab=93.21 E-value=0.039 Score=35.91 Aligned_cols=46 Identities=33% Similarity=0.585 Sum_probs=35.7
Q ss_pred CCCCCCCCC----CCCCCCCCCCcCcccccCcccchHHHHHHHHhCCCccccCCc
Q 032523 1 MSSAGSTKG----GRGKPKSTKSISRSHKAGLQFPVGRIARFLKAGKYADRVGAG 51 (139)
Q Consensus 1 ~~~~~~~~~----~~~~~~~~~~~s~ssragL~fPvsri~R~Lk~~~~~~RVs~~ 51 (139)
|+|.| ++ |||++++..++.+.+-.+++-|. |.|+-+.. ...|||..
T Consensus 1 m~g~g--kggkglGkggaKRhrk~lrd~i~gItKpa--IrRLARRg-GVKRIs~~ 50 (59)
T PLN00163 1 MSGRG--KGGKGLGKGGAKRHRKVLRDNIQGITKPA--IRRLARRG-GVKRISGL 50 (59)
T ss_pred CCCCC--CCCCccCCccchhHHHHHHHhhcccchHH--HHHHHHhc-Cceeecch
Confidence 78777 44 45677788877787778877776 99988887 88999974
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=93.04 E-value=0.11 Score=36.39 Aligned_cols=63 Identities=10% Similarity=0.062 Sum_probs=18.2
Q ss_pred HHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhhCcHHHH
Q 032523 37 RFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEELS 99 (139)
Q Consensus 37 R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~nD~EL~ 99 (139)
.+|---.+...-..++..++-.++--.+.+++..|.+.|...|+++|+.+|+..++++|+.--
T Consensus 9 ~mMy~fGD~~~P~~eTv~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR~D~~Kl 71 (93)
T PF02269_consen 9 QMMYGFGDVEEPLPETVDLVEDIVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLRKDPKKL 71 (93)
T ss_dssp HHHHCTTS-SS--HHHHHHHHHHHHHHHHHHHHHHHC--------------------------
T ss_pred HHHHHcCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHhcCHHHH
Confidence 344333333444444555555555555567777777888888889999999999999997543
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=93.02 E-value=0.66 Score=32.47 Aligned_cols=63 Identities=11% Similarity=0.125 Sum_probs=40.4
Q ss_pred HHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhhCcHHH
Q 032523 35 IARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEEL 98 (139)
Q Consensus 35 i~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~nD~EL 98 (139)
|..+|---.+...-...+..+|-.++--++.+++-.|...|. .++.+|+++|+.-+|++|+.-
T Consensus 8 i~~mmy~~GD~~~P~~eTv~llE~iv~~~i~~l~~~a~~~A~-~r~~k~~~eD~~FliR~D~~K 70 (92)
T cd07978 8 IRQMMYGFGDVQNPLPETVDLLEDIVVEYIIELCHKAAEVAQ-RRRGKVKVEDLIFLLRKDPKK 70 (92)
T ss_pred HHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHHHhcCHHH
Confidence 555565443433333344444544444444666667777776 567788999999999999753
No 57
>KOG1745 consensus Histones H3 and H4 [Chromatin structure and dynamics]
Probab=91.48 E-value=0.2 Score=37.72 Aligned_cols=61 Identities=26% Similarity=0.228 Sum_probs=50.3
Q ss_pred HHHHHHHH----hCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 33 GRIARFLK----AGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 33 sri~R~Lk----~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
.++.|+.+ +-...-|+.++|...|--..|.++-.++|-+.-.|.+.++-+|.|.||++|.+
T Consensus 67 ~PFqRlvrei~q~f~~dLrfqs~Ai~ALQeA~EayLv~LfEdtnlcAihAkRVTimpkdiQlArr 131 (137)
T KOG1745|consen 67 LPFQRLVREIAQDFKTDLRFQSSAIAALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARR 131 (137)
T ss_pred CcHHHHhHHHHhcccccceehHHHHHHHHHHHHHHHHHhccccchhhhccceeEecccceehhhh
Confidence 34455554 33333499999999999999999999999999999999999999999999865
No 58
>COG5094 TAF9 Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=90.98 E-value=2.1 Score=32.03 Aligned_cols=62 Identities=19% Similarity=0.193 Sum_probs=46.8
Q ss_pred HHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccch---hhHHHhhhCc
Q 032523 33 GRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVP---RHIQLAVRND 95 (139)
Q Consensus 33 sri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP---~hI~~AI~nD 95 (139)
--|+-+|..- ..+--+..+++-|-..---.+.++|+-|.-+|++.|+..|++ +|+++|+..-
T Consensus 18 rlihliL~Sl-gi~~ye~~VplQLl~FAhRYTq~vl~Dalvya~htgrg~~a~l~veDvrLA~at~ 82 (145)
T COG5094 18 RLIHLILRSL-GIEEYEPKVPLQLLEFAHRYTQDVLEDALVYAKHTGRGHIATLGVEDVRLALATK 82 (145)
T ss_pred hHHHHHHHhc-CchhhCccchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCcccHHHHHHHHHHH
Confidence 3466666644 555555667776665556678999999999999999988888 9999999753
No 59
>KOG3334 consensus Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=84.32 E-value=4.8 Score=30.72 Aligned_cols=56 Identities=27% Similarity=0.342 Sum_probs=43.1
Q ss_pred HHHHHHhCCCccccCCchHHHHHHHHHH---HHHHHHHHHHHHHhhcCCCccchhhHHHhhhC
Q 032523 35 IARFLKAGKYADRVGAGAPVYLSAVLEY---LAAEVLELAGNAARDNKKNRIVPRHIQLAVRN 94 (139)
Q Consensus 35 i~R~Lk~~~~~~RVs~~A~vyLaAvLEy---L~~EILelAg~~A~~~~~krItP~hI~~AI~n 94 (139)
|+-+|++. =|.+.-+-.+.-.||+ .+..||+-|.-++.+.++..|..+|+++||..
T Consensus 19 i~~iL~s~----GI~eyEprVi~qlLefa~rYtt~vL~DA~vys~HA~ka~i~~eDVrlA~~~ 77 (148)
T KOG3334|consen 19 IASILKSL----GIQEYEPRVINQLLEFAYRYTTTVLDDAKVYSSHAKKATIDAEDVRLAIQM 77 (148)
T ss_pred HHHHHHHc----CccccChHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCcHHHHHHHHHH
Confidence 66677765 3444445555566665 56889999999999999999999999999974
No 60
>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=82.20 E-value=6.3 Score=29.62 Aligned_cols=67 Identities=15% Similarity=0.277 Sum_probs=46.4
Q ss_pred CcccchHHHHHHHHhCCCcc--ccCC-chHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhhCc
Q 032523 27 GLQFPVGRIARFLKAGKYAD--RVGA-GAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRND 95 (139)
Q Consensus 27 gL~fPvsri~R~Lk~~~~~~--RVs~-~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~nD 95 (139)
.+.+|-+-|..++.+- .-. -+.. .--+++-+++||+. -+--.|..+|.+..+++|.++|+-.|..|=
T Consensus 9 e~sLPKATVqKMvS~i-Lp~dl~ftKearei~in~cieFi~-~lsseAne~ce~EaKKTIa~EHviKALenL 78 (148)
T COG5150 9 ENSLPKATVQKMVSSI-LPKDLVFTKEAREIFINACIEFIN-MLSSEANEACEEEAKKTIAYEHVIKALENL 78 (148)
T ss_pred cccCcHHHHHHHHHHh-ccccccccHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhccccHHHHHHHHHhc
Confidence 5678888888877654 211 2333 34567888888764 334446677777888999999999998753
No 61
>COG5251 TAF40 Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=81.78 E-value=2.5 Score=33.28 Aligned_cols=65 Identities=17% Similarity=0.244 Sum_probs=52.8
Q ss_pred ccchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhh-cCCCccchhhHHHhhhC
Q 032523 29 QFPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARD-NKKNRIVPRHIQLAVRN 94 (139)
Q Consensus 29 ~fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~-~~~krItP~hI~~AI~n 94 (139)
-||-..|+.+.-.. ...-|+....++|.++-.-|+.||+|+|..+-.. .-.....|.|++.|++-
T Consensus 115 ~lnKt~VKKlastV-~nQtVspNi~I~l~g~~KVfvGEiIElA~~Vq~~w~~sgpl~p~h~reayr~ 180 (199)
T COG5251 115 SLNKTQVKKLASTV-ANQTVSPNIRIFLQGVGKVFVGEIIELAMIVQNKWLTSGPLIPFHKREAYRY 180 (199)
T ss_pred CCCHHHHHHHHHHH-hccccCCCeeeeeechhHHHHHHHHHHHHHHHHHhcccCCCChHHHHHHHHH
Confidence 37788888877765 7778999999999999999999999999765433 33456899999999863
No 62
>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=76.73 E-value=2.3 Score=25.31 Aligned_cols=33 Identities=30% Similarity=0.451 Sum_probs=25.5
Q ss_pred HHHHHhhcCCCccchhhHHHhhhCcH--HHHhhhc
Q 032523 71 AGNAARDNKKNRIVPRHIQLAVRNDE--ELSKLLG 103 (139)
Q Consensus 71 Ag~~A~~~~~krItP~hI~~AI~nD~--EL~~L~~ 103 (139)
|-+.|...+...|+++||-+|+-.++ .+..++.
T Consensus 1 A~~~A~~~~~~~i~~eHlL~all~~~~~~~~~il~ 35 (53)
T PF02861_consen 1 AQELARERGHQYISPEHLLLALLEDPDSIAARILK 35 (53)
T ss_dssp HHHHHHHTTBSSE-HHHHHHHHHHHTTSHHHHHHH
T ss_pred CHHHHHHcCCCcccHHHHHHHHHhhhhHHHHHHHH
Confidence 45678888999999999999987665 6677664
No 63
>KOG2549 consensus Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=76.42 E-value=10 Score=34.65 Aligned_cols=61 Identities=15% Similarity=0.232 Sum_probs=52.7
Q ss_pred hHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 32 VGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 32 vsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
-.-++ .+-+.-+...|+.+++..|+-=+||=+.||...|.+.-.+.+|.+.|-.||..|++
T Consensus 14 ~Es~k-~vAEslGi~nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~ALr 74 (576)
T KOG2549|consen 14 KESVK-VVAESLGITNLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYALR 74 (576)
T ss_pred HHHHH-HHHHHhCccccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHHHh
Confidence 33344 44445477799999999999999999999999999999999999999999999987
No 64
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=69.79 E-value=19 Score=31.31 Aligned_cols=63 Identities=19% Similarity=0.164 Sum_probs=52.7
Q ss_pred cchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 30 FPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 30 fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
+...-++..-..- +..-|..++.-.|+-=|||=+.||.+.|.+.-.+.+|..+|-.||..|.+
T Consensus 6 ws~et~KdvAesl-Gi~Ni~Dd~l~alamDlEYRI~ev~qea~KFmvhSKRtvLt~dDis~ALr 68 (450)
T COG5095 6 WSKETLKDVAESL-GISNIDDDALRALAMDLEYRIKEVCQEASKFMVHSKRTVLTIDDISYALR 68 (450)
T ss_pred ecHHHHHHHHHHc-CCcccccHHHHHHHHhHHHHHHHHHHHHHHHhhcccceeeeHHhHHHHHH
Confidence 3444455444433 66789999999999999999999999999999999999999999999986
No 65
>PF15510 CENP-W: Centromere kinetochore component W
Probab=69.32 E-value=11 Score=26.77 Aligned_cols=68 Identities=21% Similarity=0.178 Sum_probs=47.1
Q ss_pred ccCcccchHHHHHHHHhCCCccccCCchHHH--------------HHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHH
Q 032523 25 KAGLQFPVGRIARFLKAGKYADRVGAGAPVY--------------LSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQL 90 (139)
Q Consensus 25 ragL~fPvsri~R~Lk~~~~~~RVs~~A~vy--------------LaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~ 90 (139)
+..-.-|-+.++|+++...---|+...+-+. +.--.=.|+..+.|.|-.-|.+++...|.++|+..
T Consensus 12 ~ikrkaPrgfLkrv~Kr~KphlRl~~~~Dllv~~~~f~~~~~~~~vhLncLLFvhrLAEEaRtnA~EnK~~~Ik~~Hv~A 91 (102)
T PF15510_consen 12 HIKRKAPRGFLKRVFKRQKPHLRLETSGDLLVRFCPFSGWQWGGEVHLNCLLFVHRLAEEARTNACENKCGTIKKEHVLA 91 (102)
T ss_pred HHHHhCchHHHHHHHHhcCCceeecccccHHHhhcccccccccceeehhHHHHHHHHHHHHHHHHHHHhhccccHHHHHH
Confidence 3444578999999998764555777644433 11111235677888888778888888999999987
Q ss_pred hh
Q 032523 91 AV 92 (139)
Q Consensus 91 AI 92 (139)
|-
T Consensus 92 aa 93 (102)
T PF15510_consen 92 AA 93 (102)
T ss_pred HH
Confidence 75
No 66
>PF13654 AAA_32: AAA domain; PDB: 3K1J_B.
Probab=67.72 E-value=4.7 Score=36.20 Aligned_cols=31 Identities=26% Similarity=0.341 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHhhcCCCccchhhHHHhhhC
Q 032523 64 AAEVLELAGNAARDNKKNRIVPRHIQLAVRN 94 (139)
Q Consensus 64 ~~EILelAg~~A~~~~~krItP~hI~~AI~n 94 (139)
+.+||..|...|...+...|+..||+.||+.
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 3788899999999999999999999999963
No 67
>PF13335 Mg_chelatase_2: Magnesium chelatase, subunit ChlI
Probab=67.25 E-value=7 Score=27.21 Aligned_cols=47 Identities=26% Similarity=0.257 Sum_probs=36.9
Q ss_pred ccCCchHHHHHHHHHHH------HHHHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 47 RVGAGAPVYLSAVLEYL------AAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 47 RVs~~A~vyLaAvLEyL------~~EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
.++..+-.+|..+++-+ ..-||.+|..+|.-.+...|++.||..|+.
T Consensus 42 ~l~~~~~~~l~~~~~~~~lS~R~~~rilrvARTIADL~~~~~I~~~hi~EAl~ 94 (96)
T PF13335_consen 42 PLSSEAKKLLEQAAEKLNLSARGYHRILRVARTIADLEGSERITREHIAEALS 94 (96)
T ss_pred CCCHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHhHcCCCCCCHHHHHHHHh
Confidence 44555666666666654 457899999999999999999999999874
No 68
>KOG1658 consensus DNA polymerase epsilon, subunit C [Replication, recombination and repair]
Probab=65.54 E-value=13 Score=28.77 Aligned_cols=73 Identities=16% Similarity=0.170 Sum_probs=54.0
Q ss_pred cCcccchHHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhhCcHHHHhhhc
Q 032523 26 AGLQFPVGRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEELSKLLG 103 (139)
Q Consensus 26 agL~fPvsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~nD~EL~~L~~ 103 (139)
+...||++.++++-+.+-...--+.+|-+..+...|.|+.-+..+++ ..-.+..-..|+..+..|++|..+-.
T Consensus 8 ~~p~~p~ekvkkiak~dPey~~te~~a~~etafatE~fvq~lv~~p~-----a~l~rLpL~rik~vvkl~pdl~l~~d 80 (162)
T KOG1658|consen 8 CSPKLPMEKVKKIAKNDPEYMDTEDDAFVETAFATEQFVQVLVHLPQ-----ASLSRLPLARIKQVVKLDPDLTLLND 80 (162)
T ss_pred hCccccHHHHHHhhcCCchhhhcccchHHHHHHHHHHHHhhhhhhhh-----hhhhhccHHHHHhhccCCcchhhhhh
Confidence 34569999999988876444345557777889999999888888655 23356677778888888888876654
No 69
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=65.19 E-value=18 Score=31.02 Aligned_cols=72 Identities=18% Similarity=0.279 Sum_probs=53.5
Q ss_pred Ccccch---HHHHHHHHhCCC----ccccCCchHHHHHHHHHHH------HHHHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 27 GLQFPV---GRIARFLKAGKY----ADRVGAGAPVYLSAVLEYL------AAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 27 gL~fPv---sri~R~Lk~~~~----~~RVs~~A~vyLaAvLEyL------~~EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
.+.||- ..+..+|.++.. ...+++++.-+.++...+- ..++|..|++.|...+...|++.|+..| .
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 EIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAEREGSRKVSEDHVREA-Q 262 (366)
T ss_pred eeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHhhCCCCcCHHHHHHH-H
Confidence 366775 778888865522 2377888887777555543 4789999999999999999999999999 3
Q ss_pred CcHHHH
Q 032523 94 NDEELS 99 (139)
Q Consensus 94 nD~EL~ 99 (139)
.+.+..
T Consensus 263 ~~~~~~ 268 (366)
T COG1474 263 EEIERD 268 (366)
T ss_pred HHhhHH
Confidence 344433
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=58.18 E-value=55 Score=26.85 Aligned_cols=61 Identities=20% Similarity=0.305 Sum_probs=41.2
Q ss_pred HHHHHHHHhCC----CccccCCchHHHHHHHHHH------HHHHHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 33 GRIARFLKAGK----YADRVGAGAPVYLSAVLEY------LAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 33 sri~R~Lk~~~----~~~RVs~~A~vyLaAvLEy------L~~EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
..+..+|+..- ...-+++++.-+++...+. .+.+++..|...|...+...|+++|++.|+.
T Consensus 202 ~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~~a~~~~~~~it~~~v~~a~~ 272 (365)
T TIGR02928 202 EELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVAGEIAEREGAERVTEDHVEKAQE 272 (365)
T ss_pred HHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 44666665431 1124666666677666552 4456778888888777888999999998764
No 71
>KOG4336 consensus TBP-associated transcription factor Prodos [Transcription]
Probab=55.60 E-value=79 Score=27.04 Aligned_cols=85 Identities=13% Similarity=0.066 Sum_probs=66.5
Q ss_pred HHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhhC----cHHHHhhhcCceec--
Q 032523 35 IARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRN----DEELSKLLGTVTIA-- 108 (139)
Q Consensus 35 i~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~n----D~EL~~L~~~~~Ia-- 108 (139)
|.-+|++. ++.-|+..|-.-|.-+|.-.+.+|...+-|++...||.--|+.||.+...+ =..|...|++-.++
T Consensus 11 V~~Ll~~~-gfd~is~~aletlvell~~yi~eigrq~~n~celagRT~pT~~Dv~l~Li~mnI~v~sL~~~~q~~~~sl~ 89 (323)
T KOG4336|consen 11 VSNLLKTK-GFDSISNAALETLVELLQSYIREIGRQLHNYCELAGRTIPTQGDVKLTLIEMNIKVSSLYAYFQKQEFSLW 89 (323)
T ss_pred HHHHHHHh-CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHHHhCCChhhhHHHHHhccchhh
Confidence 33444444 777889888888999999999999999999999999999999999877642 26788888876664
Q ss_pred -CCccCCcccccc
Q 032523 109 -NGGVLPNIHQNL 120 (139)
Q Consensus 109 -~ggv~P~i~~~l 120 (139)
.--.+|++..+-
T Consensus 90 ~~~~~aP~~~~q~ 102 (323)
T KOG4336|consen 90 SVLIAAPENQEQE 102 (323)
T ss_pred hccccCCCcCCcc
Confidence 555578777663
No 72
>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=55.40 E-value=15 Score=22.29 Aligned_cols=27 Identities=19% Similarity=0.217 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHhhcCCCccchhhHHHh
Q 032523 65 AEVLELAGNAARDNKKNRIVPRHIQLA 91 (139)
Q Consensus 65 ~EILelAg~~A~~~~~krItP~hI~~A 91 (139)
..+=..+-.+|.+.|...||++++..|
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 334445667889999999999999865
No 73
>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=54.68 E-value=11 Score=26.26 Aligned_cols=56 Identities=30% Similarity=0.456 Sum_probs=35.3
Q ss_pred HHHHHHHHhCCCcc---ccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhh
Q 032523 33 GRIARFLKAGKYAD---RVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAV 92 (139)
Q Consensus 33 sri~R~Lk~~~~~~---RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI 92 (139)
.++.|+|-...... |-...-|.||++||+||+.+=--+. ..|.. ..|.|+.+..|-
T Consensus 22 e~l~rFLa~TG~~p~~LR~~a~dp~FL~~VLdFl~~de~~l~-af~~a---~~~~p~~v~~Ar 80 (88)
T PF12096_consen 22 ERLPRFLALTGLSPDDLRAAAGDPAFLAAVLDFLLMDEAWLL-AFCDA---AGIPPEAVAAAR 80 (88)
T ss_pred HHHHHHHHHhCCCHHHHHHHccChHHHHHHHHHHHcchHHHH-HHHHH---cCcChhHHHHHH
Confidence 46677776653433 7777889999999999986532221 11222 246777776553
No 74
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=54.43 E-value=57 Score=27.15 Aligned_cols=63 Identities=16% Similarity=0.186 Sum_probs=41.3
Q ss_pred hHHHHHHHHhCC---C-ccccCCchHHHHHHHHHHH------HHHHHHHHHHHHhhcCCCccchhhHHHhhhC
Q 032523 32 VGRIARFLKAGK---Y-ADRVGAGAPVYLSAVLEYL------AAEVLELAGNAARDNKKNRIVPRHIQLAVRN 94 (139)
Q Consensus 32 vsri~R~Lk~~~---~-~~RVs~~A~vyLaAvLEyL------~~EILelAg~~A~~~~~krItP~hI~~AI~n 94 (139)
...+..+|+..- . ..-++.++.-+++...... +.+++..|...|...+...|+.+|++.|+..
T Consensus 209 ~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~~~I~~~~v~~a~~~ 281 (394)
T PRK00411 209 ADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRKVTEEDVRKAYEK 281 (394)
T ss_pred HHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHH
Confidence 466666665431 1 1246666767766655442 2356677777787788889999999988863
No 75
>PF04604 L_biotic_typeA: Type-A lantibiotic; InterPro: IPR007682 Lantibiotics are antibiotic peptides distinguished by the presence of the rare thioether amino acids lanthionine and/or methyllanthionine. They are produced by Gram-positive bacteria as gene-encoded precursor peptides and undergo post-translational modification to generate the mature peptide. Based on their structural and functional features lantibiotics are currently divided into two major groups: the flexible amphiphilic type-A and the rather rigid and globular type-B. Type-A lantibiotics act primarily by pore formation in the bacterial membrane by a mechanism involving the interaction with specific docking molecules such as the membrane precursor lipid II [].; GO: 0019748 secondary metabolic process, 0005576 extracellular region
Probab=53.67 E-value=9.3 Score=24.17 Aligned_cols=22 Identities=41% Similarity=0.753 Sum_probs=17.7
Q ss_pred CcHHHHhhhcCceecCCccCCcccc
Q 032523 94 NDEELSKLLGTVTIANGGVLPNIHQ 118 (139)
Q Consensus 94 nD~EL~~L~~~~~Ia~ggv~P~i~~ 118 (139)
.|+||+.+++.. .+||++.|-+
T Consensus 16 s~eELd~ilGg~---g~Gv~~Tis~ 37 (51)
T PF04604_consen 16 SDEELDQILGGA---GNGVIKTISH 37 (51)
T ss_pred CHHHHHHHhCCC---CCCceeeccc
Confidence 799999999774 7888887654
No 76
>KOG3901 consensus Transcription initiation factor IID subunit [Transcription]
Probab=52.72 E-value=24 Score=25.56 Aligned_cols=34 Identities=21% Similarity=0.314 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHhhc-CCCccchhhHHHhhhCcHHH
Q 032523 64 AAEVLELAGNAARDN-KKNRIVPRHIQLAVRNDEEL 98 (139)
Q Consensus 64 ~~EILelAg~~A~~~-~~krItP~hI~~AI~nD~EL 98 (139)
+..|.|+ .+.|++. ++.++.-+|+..+|+.|+-=
T Consensus 41 ~~Yi~el-t~~a~~~g~rgk~~veD~~f~lRkDpkK 75 (109)
T KOG3901|consen 41 LEYITEL-THAAMEIGKRGKVKVEDFKFLLRKDPKK 75 (109)
T ss_pred HHHHHHH-HHHHHHhcccCceeHHHHHHHHHhChHH
Confidence 3333444 3444332 45578999999999999753
No 77
>COG1067 LonB Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]
Probab=49.47 E-value=81 Score=29.42 Aligned_cols=34 Identities=18% Similarity=0.265 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHhhcCCCccchhhHHHhhhCcHHH
Q 032523 65 AEVLELAGNAARDNKKNRIVPRHIQLAVRNDEEL 98 (139)
Q Consensus 65 ~EILelAg~~A~~~~~krItP~hI~~AI~nD~EL 98 (139)
..|+..|+..|...+++.|+++|++.|+++..-.
T Consensus 369 ~~lv~~A~~ia~~~~~~~I~ae~Ve~a~~~~~~~ 402 (647)
T COG1067 369 GNLVREAGDIAVSEGRKLITAEDVEEALQKRELR 402 (647)
T ss_pred HHHHHHhhHHHhcCCcccCcHHHHHHHHHhhhhH
Confidence 4567789999999999999999999999985444
No 78
>COG3636 Predicted transcriptional regulator [Transcription]
Probab=46.80 E-value=25 Score=25.16 Aligned_cols=54 Identities=20% Similarity=0.306 Sum_probs=36.5
Q ss_pred CchHHHHHHHHHH-----HHHH--HHHHHHHHHhhcCCCccchhhHHHhhh--CcHHHHhhhc
Q 032523 50 AGAPVYLSAVLEY-----LAAE--VLELAGNAARDNKKNRIVPRHIQLAVR--NDEELSKLLG 103 (139)
Q Consensus 50 ~~A~vyLaAvLEy-----L~~E--ILelAg~~A~~~~~krItP~hI~~AI~--nD~EL~~L~~ 103 (139)
+.+.+||.++||- +++- ++..+...+.-..+..++-+||-.+.. .++.|+.++.
T Consensus 21 e~ia~yL~~~le~~d~a~i~~alg~var~~GMsqvA~~aGlsRe~LYkaLS~~GNPtf~Til~ 83 (100)
T COG3636 21 EAIAAYLNAALEEGDPALIAAALGVVARSRGMSQVARKAGLSREGLYKALSPGGNPTFDTILA 83 (100)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCHHHHHHHhCccHHHHHHHhCCCCCCcHHHHHH
Confidence 4688899999873 3222 233344444445566789999999888 5688888873
No 79
>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=45.46 E-value=50 Score=26.56 Aligned_cols=42 Identities=12% Similarity=0.092 Sum_probs=33.8
Q ss_pred HHHHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHH
Q 032523 33 GRIARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAA 75 (139)
Q Consensus 33 sri~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A 75 (139)
.||..+..+... .=|+.+++.+|...||+++.+||+-+...+
T Consensus 210 ~Rm~~ia~e~GL-~gvs~~~a~ll~~ale~~LK~lI~s~l~~~ 251 (252)
T PF12767_consen 210 KRMEQIAWEHGL-GGVSDDCANLLNLALEVHLKNLIKSCLDLV 251 (252)
T ss_pred HHHHHHHHHcCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 566666666534 789999999999999999999999876543
No 80
>COG4430 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=43.35 E-value=31 Score=27.60 Aligned_cols=48 Identities=21% Similarity=0.322 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHHH--HHHH-HhhcCCCccchhhHHHhhhCcHHHHhhhcCc
Q 032523 58 AVLEYLAAEVLEL--AGNA-ARDNKKNRIVPRHIQLAVRNDEELSKLLGTV 105 (139)
Q Consensus 58 AvLEyL~~EILel--Ag~~-A~~~~~krItP~hI~~AI~nD~EL~~L~~~~ 105 (139)
-++++.++|+.+. +|.. +-......+.|++|+.|+..++.|..+|...
T Consensus 109 ~mi~ayL~e~~~a~~aG~~~~~~~~~e~~IPeeLq~alda~palk~~f~~L 159 (200)
T COG4430 109 RMIKAYLAEAIAAEKAGRWVALKKNEELIIPEELQDALDANPALKTAFEAL 159 (200)
T ss_pred HHHHHHHHHHHHHHhcCCccCCCcccccCCcHHHHHHHhcCHHHHHHHHhc
Confidence 4555566666544 4444 2333455799999999999999999999754
No 81
>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=42.64 E-value=47 Score=26.92 Aligned_cols=59 Identities=15% Similarity=0.041 Sum_probs=32.9
Q ss_pred cCcccccCcccchHHHHHHHHhCC---CccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 032523 20 ISRSHKAGLQFPVGRIARFLKAGK---YADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDN 78 (139)
Q Consensus 20 ~s~ssragL~fPvsri~R~Lk~~~---~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~ 78 (139)
..++..-.+.|....+.+.|++-. ....|..+...||+.++|.-+.+|++-+...|.+.
T Consensus 34 ~~~~~~~~~fL~~~~L~~~i~~i~~~~g~~~~~~d~l~llS~A~e~rLr~lie~~~~~s~hR 95 (264)
T PF05236_consen 34 VVQSEKEEPFLNPSPLQKRIQKIAKKHGLKSVDEDVLELLSLATEERLRNLIEKAIVLSRHR 95 (264)
T ss_dssp ----------S-HHHHHHHHHHHHHCTT--EE-TCHHHHHHHHHHHHHHHHHHHHH------
T ss_pred hhcccccccccCHHHHHHHHHHHHHHcCCcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 334445566778877777765431 34579999999999999999999999999998763
No 82
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=41.94 E-value=35 Score=32.22 Aligned_cols=41 Identities=20% Similarity=0.250 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHhhcCCCccchhhHHHhhhCcHHHHhhhcC
Q 032523 64 AAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEELSKLLGT 104 (139)
Q Consensus 64 ~~EILelAg~~A~~~~~krItP~hI~~AI~nD~EL~~L~~~ 104 (139)
+.++|+.|.+.|...+...|+|+||-+++-.+.++..++..
T Consensus 6 ~~~~l~~a~~~a~~~~~~~~~~~h~l~~l~~~~~~~~~~~~ 46 (758)
T PRK11034 6 LELSLNMAFARAREHRHEFMTVEHLLLALLSNPSAREALEA 46 (758)
T ss_pred HHHHHHHHHHHHHHcCCCcchHHHHHHHHHcChhHHHHHHH
Confidence 56788899999999999999999999999988877777754
No 83
>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=41.03 E-value=1.1e+02 Score=28.08 Aligned_cols=30 Identities=20% Similarity=0.303 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHhhcCCCccchhhHHHhhhC
Q 032523 65 AEVLELAGNAARDNKKNRIVPRHIQLAVRN 94 (139)
Q Consensus 65 ~EILelAg~~A~~~~~krItP~hI~~AI~n 94 (139)
..|+..|...|+..+...|+.+|++.|++.
T Consensus 361 ~~llR~A~~iA~~~~~~~I~~ehV~~Ai~~ 390 (608)
T TIGR00764 361 GGLVRAAGDIAKSSGKVYVTAEHVLKAKKL 390 (608)
T ss_pred HHHHHHHHHHHHhcCCceecHHHHHHHHHH
Confidence 467777877888888889999999998763
No 84
>PHA02943 hypothetical protein; Provisional
Probab=40.72 E-value=61 Score=25.16 Aligned_cols=41 Identities=12% Similarity=0.158 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHhhcCCCccchhhHHHhhhCcHHHHhhhcC
Q 032523 64 AAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEELSKLLGT 104 (139)
Q Consensus 64 ~~EILelAg~~A~~~~~krItP~hI~~AI~nD~EL~~L~~~ 104 (139)
+.+++..-+...++.+.+-|+|.++..-|..|.|-..+|..
T Consensus 76 v~~~~Relwrlv~s~~~kfi~p~~l~~li~kd~~a~~~~ak 116 (165)
T PHA02943 76 VFEIKRELWRLVCNSRLKFITPSRLLRLIAKDTEAHNIFAK 116 (165)
T ss_pred HHHHHHHHHHHHHhccccccChHHHHHHHHhCHHHHHHHHH
Confidence 67777777888888999999999999999999999999964
No 85
>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=39.42 E-value=18 Score=27.35 Aligned_cols=54 Identities=20% Similarity=0.282 Sum_probs=34.5
Q ss_pred HHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHH
Q 032523 36 ARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQL 90 (139)
Q Consensus 36 ~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~ 90 (139)
+++++.. ..--|..+-.--+..++|--+.+++..|..-|+.++|..|.|.||-+
T Consensus 2 e~lFR~a-a~LdvdK~d~~r~~d~V~~Kl~DLl~va~~~Ak~ngRdvI~~~DLPI 55 (138)
T PF09123_consen 2 ERLFRKA-AGLDVDKNDAKRYSDFVEKKLYDLLLVAQENAKANGRDVIEPRDLPI 55 (138)
T ss_dssp HHHHHHH-HS----HHHHHHHHHHHHHHHHHCCCCHHHHHHHTT-SEE-GGGS--
T ss_pred hHHHHHH-hccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeeccccCCc
Confidence 4444443 22234444445567778888899999999999999999999999764
No 86
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=35.99 E-value=47 Score=30.84 Aligned_cols=40 Identities=23% Similarity=0.317 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHhhcCCCccchhhHHHhhhCcHHHHhhhc
Q 032523 64 AAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEELSKLLG 103 (139)
Q Consensus 64 ~~EILelAg~~A~~~~~krItP~hI~~AI~nD~EL~~L~~ 103 (139)
+..+|+.|-+.|...+...|+|+||-+++-.+++...++.
T Consensus 5 a~~~L~~A~~~A~~~~h~~V~~EHLLlaLL~~~~~~~iL~ 44 (731)
T TIGR02639 5 LERILDAALEEAKKRRHEFVTLEHILLALLFDSDAIEILE 44 (731)
T ss_pred HHHHHHHHHHHHHHhCCCcCcHHHHHHHHHcCchHHHHHH
Confidence 3567889999999999999999999999988776555554
No 87
>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=35.96 E-value=68 Score=27.41 Aligned_cols=44 Identities=23% Similarity=0.214 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhhCcHHHHhhhc
Q 032523 59 VLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEELSKLLG 103 (139)
Q Consensus 59 vLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~nD~EL~~L~~ 103 (139)
.++|+..|+-++.-..-+..|+ .|+++.|+.||+.-.+...+++
T Consensus 136 ~~~Y~~~el~~l~~~LE~~~G~-~it~e~L~~aI~~~N~~R~~~~ 179 (380)
T TIGR02263 136 GGEFYTAELNELCEGLEHLSGK-KITDDAIRASIAVFNDNRKLIQ 179 (380)
T ss_pred HHHHHHHHHHHHHHHHHHHHCC-CCCHHHHHHHHHHHHHHHHHHH
Confidence 3888888888888776666665 7999999999998777666664
No 88
>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=34.45 E-value=1.2e+02 Score=23.69 Aligned_cols=59 Identities=17% Similarity=0.074 Sum_probs=43.4
Q ss_pred cCcccccCcccchHHHHHHHHhC---CCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 032523 20 ISRSHKAGLQFPVGRIARFLKAG---KYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDN 78 (139)
Q Consensus 20 ~s~ssragL~fPvsri~R~Lk~~---~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~ 78 (139)
..++..-.+.|....+.+.|..- ....-|+++...||+.++|-.+..|++.....+.+.
T Consensus 35 ~~~~~~~~~fl~~~~l~~~~~~i~~~~g~~~~~~d~~~lis~a~e~rlr~li~k~~~~s~hR 96 (212)
T cd08045 35 RARSQKDPSFLNPSPLAKKIRKIAKKHGLKEVDEDVLDLISLALEERLRNLLEKLIEVSEHR 96 (212)
T ss_pred cccccchhhccCHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34455556677776666555433 122378999999999999999999999999888663
No 89
>PF08539 HbrB: HbrB-like; InterPro: IPR013745 HbrB is involved in hyphal growth and polarity [].
Probab=33.93 E-value=43 Score=25.56 Aligned_cols=83 Identities=18% Similarity=0.282 Sum_probs=48.7
Q ss_pred cCcccchHHHHHHHHhCCCccccCCchHH-HHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhhCcHHHHhhhcC
Q 032523 26 AGLQFPVGRIARFLKAGKYADRVGAGAPV-YLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEELSKLLGT 104 (139)
Q Consensus 26 agL~fPvsri~R~Lk~~~~~~RVs~~A~v-yLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~nD~EL~~L~~~ 104 (139)
.++.+|+.-+-++++.- ...+++...+. ++...-|.|..-+.-+.... .....|.-|..|..-
T Consensus 23 ~~l~~~iEdlN~lv~~~-i~~~~~~~~~~~~~~dl~elL~tg~~~L~~~l---------------~~~~~~~~l~rL~ei 86 (158)
T PF08539_consen 23 ERLRLPIEDLNELVRFH-IKLCIQSFPPSYFLEDLEELLTTGMYILENQL---------------NEVPDNRLLKRLVEI 86 (158)
T ss_pred CCCCcCHHHHHHHHHHH-HHHhhcccchHHHHHHHHHHHHHHHHHHHHHH---------------hhcchhHHHHHHHHH
Confidence 35668887777776542 22244444333 23334444444333333222 222345566777777
Q ss_pred ceecCCccCCcccccccccc
Q 032523 105 VTIANGGVLPNIHQNLLPRK 124 (139)
Q Consensus 105 ~~Ia~ggv~P~i~~~l~~~k 124 (139)
|.+..+.|+|.++..++|-.
T Consensus 87 W~~Ff~~VlP~lqavFlPLq 106 (158)
T PF08539_consen 87 WQFFFTQVLPYLQAVFLPLQ 106 (158)
T ss_pred HHHHhcchHHHHHHHHhhhH
Confidence 78889999999999988876
No 90
>smart00350 MCM minichromosome maintenance proteins.
Probab=33.06 E-value=1.2e+02 Score=26.83 Aligned_cols=66 Identities=11% Similarity=0.175 Sum_probs=45.3
Q ss_pred cccchHHHHHHHHhCCC--ccccCCchHHHHHHHHHHHH-------------------HHHHHHHHHHHhhcCCCccchh
Q 032523 28 LQFPVGRIARFLKAGKY--ADRVGAGAPVYLSAVLEYLA-------------------AEVLELAGNAARDNKKNRIVPR 86 (139)
Q Consensus 28 L~fPvsri~R~Lk~~~~--~~RVs~~A~vyLaAvLEyL~-------------------~EILelAg~~A~~~~~krItP~ 86 (139)
..++...+.+++.-.+. ..++++++.-||......+= ..++.+|--.|+-..+..++++
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 35777888888765543 35788887777655433321 3456677777777888888888
Q ss_pred hHHHhhh
Q 032523 87 HIQLAVR 93 (139)
Q Consensus 87 hI~~AI~ 93 (139)
|++.||.
T Consensus 496 Dv~~ai~ 502 (509)
T smart00350 496 DVEEAIR 502 (509)
T ss_pred HHHHHHH
Confidence 8888874
No 91
>TIGR01128 holA DNA polymerase III, delta subunit. subunit around DNA forming a DNA sliding clamp.
Probab=32.95 E-value=1.4e+02 Score=23.68 Aligned_cols=67 Identities=16% Similarity=0.180 Sum_probs=40.3
Q ss_pred chHHHHHHHHhC--CCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhhCcHH
Q 032523 31 PVGRIARFLKAG--KYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEE 97 (139)
Q Consensus 31 Pvsri~R~Lk~~--~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~nD~E 97 (139)
....+.+|+++. .....|+.++..||...++.=+..+.-..-+.+.-.+.+.||.+||+..+..+.+
T Consensus 112 ~~~~~~~~i~~~~~~~g~~i~~~a~~~l~~~~~~d~~~l~~el~KL~~~~~~~~It~e~I~~~~~~~~~ 180 (302)
T TIGR01128 112 KEQELPRWIQARLKKLGLRIDPDAVQLLAELVEGNLLAIAQELEKLALYAPDGKITLEDVEEAVSDSAR 180 (302)
T ss_pred CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCcHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHhhhhc
Confidence 345566666553 2345899999999888776433333222222222223336999999988775544
No 92
>COG5248 TAF19 Transcription initiation factor TFIID, subunit TAF13 [Transcription]
Probab=30.02 E-value=1.6e+02 Score=21.59 Aligned_cols=47 Identities=21% Similarity=0.204 Sum_probs=32.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhh-cCCCccchhhHHHhhhCcHHH
Q 032523 52 APVYLSAVLEYLAAEVLELAGNAARD-NKKNRIVPRHIQLAVRNDEEL 98 (139)
Q Consensus 52 A~vyLaAvLEyL~~EILelAg~~A~~-~~~krItP~hI~~AI~nD~EL 98 (139)
++.-.-+.=||++..+.+++-|.++- ..+....-+|+..|.+.|+.=
T Consensus 29 ~~dt~~~L~e~V~dY~~~~ctna~~~Aq~rnK~k~eDfkfaLr~DpkK 76 (126)
T COG5248 29 RYDTAEALHEYVLDYMSILCTNAHNMAQVRNKTKTEDFKFALRRDPKK 76 (126)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHHHhhChHH
Confidence 44445566677777777777666544 234467889999999999753
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=28.69 E-value=26 Score=23.88 Aligned_cols=29 Identities=28% Similarity=0.347 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 64 AAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 64 ~~EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
+...|.+|...|...+.. |+..||..|-.
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 356678999999888875 99999998863
No 94
>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]
Probab=28.47 E-value=44 Score=32.35 Aligned_cols=45 Identities=24% Similarity=0.329 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHhhcCCCccchhhHHHhhhCcHHHHhhhcCceecCC
Q 032523 64 AAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEELSKLLGTVTIANG 110 (139)
Q Consensus 64 ~~EILelAg~~A~~~~~krItP~hI~~AI~nD~EL~~L~~~~~Ia~g 110 (139)
++.+|..|..+|+..+...+||.|+-.++-.++ ..++..+.+..+
T Consensus 16 Aa~~L~~a~~~Arrrgh~qvtplH~~~~LLs~~--t~~lr~ac~~~~ 60 (898)
T KOG1051|consen 16 AATVLKQAVTEARRRGHAQVTPLHVASTLLSSP--TGILRRACIKSH 60 (898)
T ss_pred HHHHHHHHHHHHHHcCCCCcchHHHHHHHHcCC--chHHHHHHHhcC
Confidence 467899999999999999999999999988776 455555555554
No 95
>PHA02669 hypothetical protein; Provisional
Probab=27.33 E-value=94 Score=24.52 Aligned_cols=17 Identities=35% Similarity=0.507 Sum_probs=14.7
Q ss_pred hHHHHHHHHHHHHHHHH
Q 032523 52 APVYLSAVLEYLAAEVL 68 (139)
Q Consensus 52 A~vyLaAvLEyL~~EIL 68 (139)
|.+||+++.=||+.||-
T Consensus 12 avi~LTgAaiYlLiEiG 28 (210)
T PHA02669 12 AVIYLTGAAIYLLIEIG 28 (210)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 67899999999988874
No 96
>CHL00095 clpC Clp protease ATP binding subunit
Probab=27.31 E-value=69 Score=30.27 Aligned_cols=34 Identities=24% Similarity=0.256 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHhhcCCCccchhhHHHhhhCcHH
Q 032523 64 AAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEE 97 (139)
Q Consensus 64 ~~EILelAg~~A~~~~~krItP~hI~~AI~nD~E 97 (139)
+.++++.|...|...+...|+|+||-+++-.+++
T Consensus 9 a~~vL~~A~~~A~~~~h~~V~~EHLLLaLL~~~~ 42 (821)
T CHL00095 9 AIKVIMLSQEEARRLGHNFVGTEQILLGLIGEGT 42 (821)
T ss_pred HHHHHHHHHHHHHHhCCCcCcHHHHHHHHHhCCC
Confidence 3567788999999999999999999999876644
No 97
>PRK09862 putative ATP-dependent protease; Provisional
Probab=26.87 E-value=66 Score=29.01 Aligned_cols=29 Identities=28% Similarity=0.357 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 65 AEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 65 ~EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
.-||..|...|.-.++..|++.||..|+.
T Consensus 462 ~rlLrvARTiADL~g~~~V~~~hv~eAl~ 490 (506)
T PRK09862 462 QRLLKVARTIADIDQSDIITRQHLQEAVS 490 (506)
T ss_pred HHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 45788888889999999999999999997
No 98
>KOG3902 consensus Histone acetyltransferase PCAF/SAGA, subunit SUPT3H/SPT3 [Transcription]
Probab=26.33 E-value=2.6e+02 Score=24.04 Aligned_cols=61 Identities=13% Similarity=0.089 Sum_probs=43.2
Q ss_pred HHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhhCcH
Q 032523 36 ARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRNDE 96 (139)
Q Consensus 36 ~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~nD~ 96 (139)
..+|-......+-.-.+.+....++-==+.|+|-.|...|...+..-|||+|+-.-|..|.
T Consensus 31 Qqmmf~sGei~~P~pett~Lved~V~gqvie~l~qa~eia~lrgsr~Itpedliflir~Dr 91 (352)
T KOG3902|consen 31 QQMMFQSGEIPDPLPETTNLVEDNVRGQVIESLVQANEIADLRGSRSITPEDLIFLIRHDR 91 (352)
T ss_pred HHHHHHhCCCCCCcHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCccccChHHHHHHhhccH
Confidence 3344333244444445555555555555678888899999999999999999999999884
No 99
>PF00979 Reovirus_cap: Reovirus outer capsid protein, Sigma 3; InterPro: IPR000153 Reoviruses are double-stranded RNA viruses that lack a membrane envelope. Their capsid is organised in two concentric icosahedral layers: an inner core and an outer capsid layer. The outer capsid is made up of the major proteins mu1 and sigma3, and the minor protein sigma1. The inner core structure is composed of the major core proteins lambda1 and sigma2, core spike protein lambda2, and minor core proteins lambda3 and mu2. The inner core encases the 10 segments of double-stranded RNA (dsRNA) which comprise the genome [].; GO: 0005198 structural molecule activity, 0019058 viral infectious cycle; PDB: 1FN9_A 1JMU_I.
Probab=26.01 E-value=38 Score=29.49 Aligned_cols=45 Identities=20% Similarity=0.233 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCCccch-------hhHHHhhhCcHHHHh
Q 032523 56 LSAVLEYLAAEVLELAGNAARDNKKNRIVP-------RHIQLAVRNDEELSK 100 (139)
Q Consensus 56 LaAvLEyL~~EILelAg~~A~~~~~krItP-------~hI~~AI~nD~EL~~ 100 (139)
.++.|..++..|.+.....++......+.+ +-+..-+.-|+|||.
T Consensus 103 yav~L~~~~d~v~~a~~~~~~~~~~~~v~~~~~~~~tEs~~~D~~idpdfWt 154 (367)
T PF00979_consen 103 YAVWLHEIADHVDEADQREVDEPGGSRVAPNDIVVRTESIRSDVAIDPDFWT 154 (367)
T ss_dssp HHHHHHHHHCTS-HHHHHHHHHC-EEEEE--GGGSSTTSTTT-TT-----TT
T ss_pred HHHHHHHHHhhcChhhcccccccccccccccceeeccccccccccccccccc
Confidence 466788888888899999998888888888 445555555666653
No 100
>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=24.84 E-value=1.1e+02 Score=23.42 Aligned_cols=41 Identities=24% Similarity=0.242 Sum_probs=25.2
Q ss_pred hHHHHHHHHHHHHHHHH----HHHHHHHhhcCCCccchhhHHHhhh
Q 032523 52 APVYLSAVLEYLAAEVL----ELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 52 A~vyLaAvLEyL~~EIL----elAg~~A~~~~~krItP~hI~~AI~ 93 (139)
+..=|.|+++||-..-- +..-+.+..-| -.|||++|+.+|.
T Consensus 83 t~~Ql~AA~~Yl~~~~~~~~d~~~Fe~~cGVG-V~VT~E~I~~~V~ 127 (164)
T PF04558_consen 83 TNLQLDAALKYLKSNPSEPIDVAEFEKACGVG-VVVTPEQIEAAVE 127 (164)
T ss_dssp SHHHHHHHHHHHHHHGG-G--HHHHHHTTTTT-----HHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCCCCCCCHHHHHHHcCCC-eEECHHHHHHHHH
Confidence 46668999999987544 33334333333 3699999999886
No 101
>cd05031 S-100A10_like S-100A10_like: S-100A10 domain found in proteins similar to S100A10. S100A10 is a member of the S100 family of EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100A1_like group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100 proteins are expressed exclusively in vertebrates, and are implicated in intracellular and extracellular regulatory activities. A unique feature of S100A10 is that it contains mutation in both of the calcium binding sites, making it calcium insensitive. S100A10 has been detected in brain, heart, gastrointestinal tract, kidney, liver, lung, spleen, testes, epidermis, aorta, and thymus. Structural data supports the homo- and hetero-dimeric as well as hetero-tetrameric nature of the protein. S100A10 has multiple binding partners in its calcium free state and is therefore involved in many diverse biological functions.
Probab=24.70 E-value=2e+02 Score=19.05 Aligned_cols=52 Identities=12% Similarity=0.182 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHHHhh-cC-CCccchhhHHHhhh-----------CcHHHHhhhcCceecCCcc
Q 032523 60 LEYLAAEVLELAGNAARD-NK-KNRIVPRHIQLAVR-----------NDEELSKLLGTVTIANGGV 112 (139)
Q Consensus 60 LEyL~~EILelAg~~A~~-~~-~krItP~hI~~AI~-----------nD~EL~~L~~~~~Ia~ggv 112 (139)
||+...++.+ +-..-.. .+ ...|+..++..++. .++++..++........|.
T Consensus 3 ~~~~~~~l~~-~F~~~D~~dg~dG~Is~~El~~~l~~~~g~~lg~~~s~~ei~~~~~~~D~~~dg~ 67 (94)
T cd05031 3 LEHAMESLIL-TFHRYAGKDGDKNTLSRKELKKLMEKELSEFLKNQKDPMAVDKIMKDLDQNRDGK 67 (94)
T ss_pred HHHHHHHHHH-HHHHHhccCCCCCeECHHHHHHHHHHHhHHHhhccccHHHHHHHHHHhCCCCCCc
Confidence 4555555444 3333333 44 47899999997764 3467788886544444443
No 102
>cd05029 S-100A6 S-100A6: S-100A6 domain found in proteins similar to S100A6. S100A6 is a member of the S100 domain family within EF-hand Ca2+-binding proteins superfamily. Note that the S-100 hierarchy, to which this S-100A6 group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100 proteins exhibit unique patterns of tissue- and cell type-specific expression and have been implicated in the Ca2+-dependent regulation of diverse physiological processes, including cell cycle regulation, differentiation, growth, and metabolic control . S100A6 is normally expressed in the G1 phase of the cell cycle in neuronal cells. The function of S100A6 remains unclear, but evidence suggests that it is involved in cell cycle regulation and exocytosis. S100A6 may also be involved in tumorigenesis; the protein is overexpressed in several tumors. Ca2+ binding to S100A6 leads to a conformational change in the protein, which exposes a hydrophobic surface for interact
Probab=24.38 E-value=2.3e+02 Score=19.02 Aligned_cols=53 Identities=13% Similarity=0.233 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHHHHhhcC-CCccchhhHHHhhh---------CcHHHHhhhcCceecCCcc
Q 032523 60 LEYLAAEVLELAGNAARDNK-KNRIVPRHIQLAVR---------NDEELSKLLGTVTIANGGV 112 (139)
Q Consensus 60 LEyL~~EILelAg~~A~~~~-~krItP~hI~~AI~---------nD~EL~~L~~~~~Ia~ggv 112 (139)
||--+..|+++=-.++.+.| ...|+..++...+. .++|+..+++.......|.
T Consensus 5 ~e~~~~~~i~~F~~y~~~~~~~g~Is~~EL~~~l~~~~~lg~k~t~~ev~~m~~~~D~d~dG~ 67 (88)
T cd05029 5 LDQAIGLLVAIFHKYSGREGDKNTLSKKELKELIQKELTIGSKLQDAEIAKLMEDLDRNKDQE 67 (88)
T ss_pred HHHHHHHHHHHHHHHHccCCCCCEECHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhcCCCCCC
Confidence 44455566666666766545 66899999888774 4577888887655444443
No 103
>PF13376 OmdA: Bacteriocin-protection, YdeI or OmpD-Associated
Probab=24.35 E-value=65 Score=20.33 Aligned_cols=24 Identities=17% Similarity=0.371 Sum_probs=21.0
Q ss_pred ccchhhHHHhhhCcHHHHhhhcCc
Q 032523 82 RIVPRHIQLAVRNDEELSKLLGTV 105 (139)
Q Consensus 82 rItP~hI~~AI~nD~EL~~L~~~~ 105 (139)
...|.||..++..|++.+..|...
T Consensus 4 ~~vP~dl~~aL~~~p~a~~~f~~l 27 (63)
T PF13376_consen 4 VEVPEDLEAALEANPEAKEFFESL 27 (63)
T ss_pred CCCCHHHHHHHHCCHHHHHHHHHC
Confidence 468999999999999999999653
No 104
>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=24.29 E-value=95 Score=29.52 Aligned_cols=40 Identities=28% Similarity=0.336 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHhhcCCCccchhhHHHhhhCcH--HHHhhhc
Q 032523 64 AAEVLELAGNAARDNKKNRIVPRHIQLAVRNDE--ELSKLLG 103 (139)
Q Consensus 64 ~~EILelAg~~A~~~~~krItP~hI~~AI~nD~--EL~~L~~ 103 (139)
+..+|+.|-..|...+...|+|+||-+++-.++ .+..++.
T Consensus 5 a~~vL~~A~~~A~~~~h~~V~~EHLLlaLl~~~~g~a~~iL~ 46 (852)
T TIGR03346 5 FQEALQAAQSLALGRDHQQIEPEHLLKALLDQEGGLARRLLQ 46 (852)
T ss_pred HHHHHHHHHHHHHHcCCCcccHHHHHHHHHhCCccHHHHHHH
Confidence 456788999999999999999999999987765 2344443
No 105
>PRK07452 DNA polymerase III subunit delta; Validated
Probab=24.28 E-value=1.6e+02 Score=24.00 Aligned_cols=62 Identities=11% Similarity=0.123 Sum_probs=37.5
Q ss_pred HHHHHHHhC--CCccccCCchHHHHHHHHHHHHHHHHHHHHHHHhh--cCCCccchhhHHHhhhCc
Q 032523 34 RIARFLKAG--KYADRVGAGAPVYLSAVLEYLAAEVLELAGNAARD--NKKNRIVPRHIQLAVRND 95 (139)
Q Consensus 34 ri~R~Lk~~--~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~A~~--~~~krItP~hI~~AI~nD 95 (139)
.+.+|+++. .....|+.+|.-+|...+..=+..+.-.--+.+-- .+..+||++||+..+...
T Consensus 134 ~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~dl~~l~~EleKL~ly~~~~~~~It~~~V~~~v~~~ 199 (326)
T PRK07452 134 GLKQLVERTAQELGVKLTPEAAELLAEAVGNDSRRLYNELEKLALYAENSTKPISAEEVKALVSNT 199 (326)
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHHHHhCccHHHHHHHHHHHHHhccCCCCccCHHHHHHHhccC
Confidence 356666553 23448999999998887665333222222222222 235679999999887643
No 106
>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=23.92 E-value=1.5e+02 Score=25.30 Aligned_cols=46 Identities=20% Similarity=0.046 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcCCCccchhhHHHhhhCcHHHHhhhc
Q 032523 57 SAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEELSKLLG 103 (139)
Q Consensus 57 aAvLEyL~~EILelAg~~A~~~~~krItP~hI~~AI~nD~EL~~L~~ 103 (139)
...++|+..|+-++.-..-...|+ .|+.+.|+.||..-.+...+++
T Consensus 130 ~~~~~y~~~el~~l~~~LE~~~G~-~i~~e~L~~ai~~~n~~r~~~~ 175 (377)
T TIGR03190 130 PHARKAHYAEVQRFRVFLQTLTGK-EITDDMLRDALAVCDENRRLLR 175 (377)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCC-CCCHHHHHHHHHHHHHHHHHHH
Confidence 456778888887777666555554 7999999999997777655553
No 107
>KOG4552 consensus Vitamin-D-receptor interacting protein complex component [Transcription]
Probab=23.18 E-value=1.2e+02 Score=24.98 Aligned_cols=49 Identities=24% Similarity=0.248 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcC-CCccchhhHHHhhhCcHHHHhhhc
Q 032523 55 YLSAVLEYLAAEVLELAGNAARDNK-KNRIVPRHIQLAVRNDEELSKLLG 103 (139)
Q Consensus 55 yLaAvLEyL~~EILelAg~~A~~~~-~krItP~hI~~AI~nD~EL~~L~~ 103 (139)
.++.=||.+..||+|.+.+--+..- +..=+-.-|++-+..|+||..|++
T Consensus 15 ~~~dDlE~i~kelie~l~~~~~qk~l~~gE~v~il~Ll~~kd~ef~~llk 64 (272)
T KOG4552|consen 15 ESADDLEHIVKELIETLINRDKQKMLKNGETVNILKLLDSKDDEFKTLLK 64 (272)
T ss_pred HHhhHHHHHHHHHHHHHHhhhHHHHHhcchHHHHHHHHHhccHHHHHHHH
Confidence 3455688999999998866443311 011133778888999999988885
No 108
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=22.94 E-value=94 Score=28.90 Aligned_cols=34 Identities=24% Similarity=0.214 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHhhcCCCccchhhHHHhhhCcHH
Q 032523 64 AAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEE 97 (139)
Q Consensus 64 ~~EILelAg~~A~~~~~krItP~hI~~AI~nD~E 97 (139)
+.++|+.|..+|...+...|.++||-+|+-.|.+
T Consensus 82 lk~vL~~A~~~A~~~g~~~I~teHLLLALl~~~~ 115 (731)
T TIGR02639 82 VQRVLQRALLHVKSAGKKEIGIGDILVALFDEED 115 (731)
T ss_pred HHHHHHHHHHHHHHcCCCccCHHHHHHHHhcCcc
Confidence 4678899999999999999999999999876643
No 109
>TIGR00368 Mg chelatase-related protein. The N-terminal end matches very strongly a pfam Mg_chelatase domain.
Probab=22.71 E-value=85 Score=28.13 Aligned_cols=45 Identities=22% Similarity=0.245 Sum_probs=33.2
Q ss_pred CCchHHHHHHHHHHH------HHHHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 49 GAGAPVYLSAVLEYL------AAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 49 s~~A~vyLaAvLEyL------~~EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
+..+..+|..+++-+ ..-||.+|...|.-.+...|++.||..|+.
T Consensus 447 ~~~~~~~l~~a~~~~~lS~R~~~rilrvArTiAdL~g~~~i~~~hv~eA~~ 497 (499)
T TIGR00368 447 SAIDANDLEGALNKLGLSSRATHRILKVARTIADLKEEKNISREHLAEAIE 497 (499)
T ss_pred CHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHh
Confidence 344444444444433 356889999999999999999999999974
No 110
>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=22.37 E-value=1.1e+02 Score=29.37 Aligned_cols=40 Identities=20% Similarity=0.248 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHhhcCCCccchhhHHHhhhCcH--HHHhhhc
Q 032523 64 AAEVLELAGNAARDNKKNRIVPRHIQLAVRNDE--ELSKLLG 103 (139)
Q Consensus 64 ~~EILelAg~~A~~~~~krItP~hI~~AI~nD~--EL~~L~~ 103 (139)
+.++++.|...|...+...|+|+||-+++-.++ .+..++.
T Consensus 5 a~~~L~~A~~~A~~~~h~~I~~eHLLlaLL~~~~~~~~~iL~ 46 (852)
T TIGR03345 5 SRRALEQAAALCVARGHPEVELEHWLLALLDQPDSDLAAILR 46 (852)
T ss_pred HHHHHHHHHHHHHHhCCCcccHHHHHHHHHhccCcHHHHHHH
Confidence 457788999999999999999999999987653 3444443
No 111
>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=22.10 E-value=2.4e+02 Score=20.36 Aligned_cols=30 Identities=17% Similarity=0.326 Sum_probs=20.7
Q ss_pred ccCcccchHHHHHHHHhCCCccccCCchHH
Q 032523 25 KAGLQFPVGRIARFLKAGKYADRVGAGAPV 54 (139)
Q Consensus 25 ragL~fPvsri~R~Lk~~~~~~RVs~~A~v 54 (139)
+.+..+|+++|++.|++..++-....+|-.
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 457789999999999988776666665544
No 112
>KOG3902 consensus Histone acetyltransferase PCAF/SAGA, subunit SUPT3H/SPT3 [Transcription]
Probab=21.52 E-value=2.7e+02 Score=24.00 Aligned_cols=49 Identities=14% Similarity=0.067 Sum_probs=27.7
Q ss_pred cCcccchHH-HHHHHHhCCCccccCCchHHHHHHHHHHHHHHHHHHHHHH
Q 032523 26 AGLQFPVGR-IARFLKAGKYADRVGAGAPVYLSAVLEYLAAEVLELAGNA 74 (139)
Q Consensus 26 agL~fPvsr-i~R~Lk~~~~~~RVs~~A~vyLaAvLEyL~~EILelAg~~ 74 (139)
+.+++.-++ +.+|+--...-.|...++...|+-.-=..++.|.+.|...
T Consensus 222 aSFt~RkgkrFRdwld~s~ld~rp~~~~mdILayLafEtVa~Lvd~ALlv 271 (352)
T KOG3902|consen 222 ASFTCRKGKRFRDWLDLSALDLRPPTDTMDILAYLAFETVAALVDYALLV 271 (352)
T ss_pred hhhhhhcchhHHhhhCCchhccCCCccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444 8888866555558888777655543333444455555443
No 113
>PRK05574 holA DNA polymerase III subunit delta; Reviewed
Probab=21.40 E-value=2.9e+02 Score=22.25 Aligned_cols=63 Identities=19% Similarity=0.207 Sum_probs=37.4
Q ss_pred chHHHHHHHHhC--CCccccCCchHHHHHHHHHH----HHHHHHHHHHHHHhhcCCCccchhhHHHhhhCcHH
Q 032523 31 PVGRIARFLKAG--KYADRVGAGAPVYLSAVLEY----LAAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEE 97 (139)
Q Consensus 31 Pvsri~R~Lk~~--~~~~RVs~~A~vyLaAvLEy----L~~EILelAg~~A~~~~~krItP~hI~~AI~nD~E 97 (139)
+-..+..|+++. .....|+.+|..||...+.. +..||-.++. -.+...||.++|+..+..+.+
T Consensus 147 ~~~~~~~~i~~~~~~~g~~i~~~a~~~L~~~~~~d~~~l~~El~KL~l----~~~~~~It~~~I~~~i~~~~~ 215 (340)
T PRK05574 147 KEAELPQWIQQRLKQQGLQIDAAALQLLAERVEGNLLALAQELEKLAL----LYPDGKITLEDVEEAVPDSAR 215 (340)
T ss_pred CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCchHHHHHHHHHHHHh----hcCCCCCCHHHHHHHHhhhhc
Confidence 445555666433 13347999999998877653 3334444442 222223999999988775543
No 114
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=21.28 E-value=1.2e+02 Score=25.36 Aligned_cols=28 Identities=18% Similarity=0.146 Sum_probs=21.0
Q ss_pred HHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 66 EVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 66 EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
.++..|+..|...++..|+.+|+..|+.
T Consensus 334 ~l~~~A~~~a~~~~~~~i~~~d~~~a~~ 361 (364)
T TIGR01242 334 AICTEAGMFAIREERDYVTMDDFIKAVE 361 (364)
T ss_pred HHHHHHHHHHHHhCCCccCHHHHHHHHH
Confidence 4445566666667788999999999985
No 115
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=21.11 E-value=1.2e+02 Score=26.87 Aligned_cols=29 Identities=14% Similarity=0.177 Sum_probs=22.6
Q ss_pred HHHHHHHHHHhhcCCCccchhhHHHhhhC
Q 032523 66 EVLELAGNAARDNKKNRIVPRHIQLAVRN 94 (139)
Q Consensus 66 EILelAg~~A~~~~~krItP~hI~~AI~n 94 (139)
.|+..|+..|...++..|+.+|+..|+..
T Consensus 395 ~i~~eA~~~Alr~~r~~Vt~~D~~~A~~~ 423 (438)
T PTZ00361 395 AICTEAGLLALRERRMKVTQADFRKAKEK 423 (438)
T ss_pred HHHHHHHHHHHHhcCCccCHHHHHHHHHH
Confidence 44555667777778889999999999865
No 116
>cd05025 S-100A1 S-100A1: S-100A1 domain found in proteins similar to S100A1. S100A1 is a calcium-binding protein belonging to a large S100 vertebrate-specific protein family within the EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100A1 group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. As is the case with many other members of S100 protein family, S100A1 is implicated in intracellular and extracellular regulatory activities, including interaction with myosin-associated twitchin kinase, actin-capping protein CapZ, sinapsin I, and tubulin. Structural data suggests that S100A1 proteins exist within cells as antiparallel homodimers, while heterodimers with S100A4 and S100B also has been reported. Upon binding calcium S100A1 changes conformation to expose a hydrophobic cleft which is the interaction site of S100A1 with its more that 20 known target proteins.
Probab=20.79 E-value=2.6e+02 Score=18.40 Aligned_cols=51 Identities=10% Similarity=0.240 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHHHHh-hcCCC-ccchhhHHHhhhC-----------cHHHHhhhcCceecCCc
Q 032523 60 LEYLAAEVLELAGNAAR-DNKKN-RIVPRHIQLAVRN-----------DEELSKLLGTVTIANGG 111 (139)
Q Consensus 60 LEyL~~EILelAg~~A~-~~~~k-rItP~hI~~AI~n-----------D~EL~~L~~~~~Ia~gg 111 (139)
||+-+.+|.+ +-..-. ..+.. .|+..++..++.. ++++..++........|
T Consensus 4 ~e~~~~~l~~-~F~~fDd~dg~G~~Is~~El~~~l~~~lg~~~~~~~s~~~v~~i~~~~D~d~~G 67 (92)
T cd05025 4 LETAMETLIN-VFHAHSGKEGDKYKLSKKELKDLLQTELSDFLDAQKDADAVDKIMKELDENGDG 67 (92)
T ss_pred HHHHHHHHHH-HHHHHhcccCCCCeECHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHCCCCCC
Confidence 5666644444 555553 55666 6999999988852 46677888644333333
No 117
>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=20.41 E-value=1.5e+02 Score=23.04 Aligned_cols=47 Identities=13% Similarity=-0.024 Sum_probs=30.4
Q ss_pred ccCCchHHHHHHHHH---HHHHHHHHHHHHHHhhcCCCccchhhHHHhhh
Q 032523 47 RVGAGAPVYLSAVLE---YLAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
Q Consensus 47 RVs~~A~vyLaAvLE---yL~~EILelAg~~A~~~~~krItP~hI~~AI~ 93 (139)
.++.++...|..+-. +.+..+...+...|...+.+.|++++|+.++.
T Consensus 215 ~~~~~~~~~i~~~s~G~p~~i~~l~~~~~~~a~~~~~~~i~~~~v~~~~~ 264 (269)
T TIGR03015 215 VFSEGAFDAIHRFSRGIPRLINILCDRLLLSAFLEEKREIGGEEVREVIA 264 (269)
T ss_pred CcCHHHHHHHHHHcCCcccHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 355555544444433 23455566666666667778999999999985
No 118
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=20.37 E-value=86 Score=22.92 Aligned_cols=50 Identities=24% Similarity=0.320 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHHhhcCCCccchhhHHHhh---hCcHHHHhhhc---CceecCCcc
Q 032523 63 LAAEVLELAGNAARDNKKNRIVPRHIQLAV---RNDEELSKLLG---TVTIANGGV 112 (139)
Q Consensus 63 L~~EILelAg~~A~~~~~krItP~hI~~AI---~nD~EL~~L~~---~~~Ia~ggv 112 (139)
|+..|++++...|.+++-++|+.-.++.-- =+-+.|.+-|. ..||+.|..
T Consensus 6 la~aii~~i~~~A~~~~a~~V~~V~l~IG~ls~v~~~~l~FaFev~~egT~aega~ 61 (115)
T COG0375 6 LAQAIIELIEEQAEKHGAKRVTAVWLEIGELSCVEPEALRFAFEVVAEGTIAEGAE 61 (115)
T ss_pred HHHHHHHHHHHHHHHcCCceEEEEEEEEcceeccCHHHHHHHHHHHhccCcccCCE
Confidence 567899999999999998887776666432 24455666664 567777653
Done!