Query 034549
Match_columns 91
No_of_seqs 107 out of 421
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 04:01:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034549.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034549hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00153 histone H2A; Provisio 100.0 3.8E-36 8.2E-41 211.1 5.5 73 1-73 51-123 (129)
2 PLN00156 histone H2AX; Provisi 100.0 8.4E-36 1.8E-40 211.5 5.8 73 1-73 56-128 (139)
3 PTZ00017 histone H2A; Provisio 100.0 9.9E-36 2.1E-40 210.1 5.8 76 1-76 54-129 (134)
4 PLN00157 histone H2A; Provisio 100.0 1.7E-35 3.8E-40 208.5 5.6 71 1-71 53-123 (132)
5 PTZ00252 histone H2A; Provisio 100.0 3.2E-35 7E-40 207.4 5.6 72 1-72 52-125 (134)
6 PLN00154 histone H2A; Provisio 100.0 3.8E-35 8.1E-40 207.6 5.1 70 1-71 66-135 (136)
7 KOG1756 Histone 2A [Chromatin 100.0 8E-35 1.7E-39 204.2 5.0 74 1-74 54-127 (131)
8 smart00414 H2A Histone 2A. 100.0 2.6E-34 5.7E-39 195.7 5.4 70 1-70 36-105 (106)
9 COG5262 HTA1 Histone H2A [Chro 100.0 1.9E-34 4.2E-39 201.1 4.1 76 1-76 53-128 (132)
10 cd00074 H2A Histone 2A; H2A is 100.0 1.4E-32 3E-37 189.6 4.8 69 1-69 47-115 (115)
11 KOG1757 Histone 2A [Chromatin 100.0 6.8E-31 1.5E-35 182.5 1.2 72 1-73 58-129 (131)
12 PF00125 Histone: Core histone 98.9 6.6E-10 1.4E-14 69.2 2.0 40 1-40 36-75 (75)
13 COG5247 BUR6 Class 2 transcrip 97.1 0.00056 1.2E-08 47.3 3.0 45 3-47 52-96 (113)
14 smart00803 TAF TATA box bindin 96.8 0.0012 2.6E-08 41.2 2.8 38 1-38 28-65 (65)
15 KOG1659 Class 2 transcription 95.3 0.018 4E-07 44.0 3.1 44 3-46 42-85 (224)
16 PF02969 TAF: TATA box binding 95.1 0.021 4.6E-07 36.0 2.6 38 1-38 29-66 (66)
17 PF00808 CBFD_NFYB_HMF: Histon 94.6 0.036 7.9E-07 33.6 2.6 35 3-37 31-65 (65)
18 cd08050 TAF6 TATA Binding Prot 93.8 0.049 1.1E-06 43.1 2.6 39 1-39 25-63 (343)
19 COG2036 HHT1 Histones H3 and H 93.5 0.07 1.5E-06 35.7 2.6 37 2-38 46-82 (91)
20 cd07978 TAF13 The TATA Binding 92.9 0.12 2.7E-06 34.2 2.9 37 4-42 33-69 (92)
21 PF02269 TFIID-18kDa: Transcri 92.6 0.076 1.6E-06 35.1 1.6 37 6-42 30-69 (93)
22 cd07981 TAF12 TATA Binding Pro 91.5 0.19 4.1E-06 31.6 2.5 38 3-40 30-67 (72)
23 cd00076 H4 Histone H4, one of 90.3 0.29 6.2E-06 32.3 2.6 38 2-39 40-77 (85)
24 PF02861 Clp_N: Clp amino term 89.7 0.12 2.6E-06 29.2 0.4 34 16-49 1-36 (53)
25 cd08048 TAF11 TATA Binding Pro 89.4 0.42 9E-06 31.3 2.8 37 2-38 43-82 (85)
26 PLN00035 histone H4; Provision 89.2 0.38 8.3E-06 32.9 2.6 38 2-39 56-93 (103)
27 PTZ00015 histone H4; Provision 88.2 0.48 1E-05 32.3 2.6 37 2-38 57-93 (102)
28 smart00427 H2B Histone H2B. 87.0 0.59 1.3E-05 31.2 2.4 35 5-39 32-66 (89)
29 cd07979 TAF9 TATA Binding Prot 86.6 0.7 1.5E-05 31.7 2.6 37 4-40 30-66 (117)
30 smart00417 H4 Histone H4. 86.1 0.93 2E-05 29.2 2.9 35 2-36 40-74 (74)
31 PF04719 TAFII28: hTAFII28-lik 84.9 0.81 1.8E-05 30.4 2.2 37 2-38 51-88 (90)
32 PLN00158 histone H2B; Provisio 84.1 0.94 2E-05 31.7 2.4 35 5-39 58-92 (116)
33 PF04604 L_biotic_typeA: Type- 81.4 1 2.2E-05 27.4 1.5 23 39-64 16-38 (51)
34 PTZ00463 histone H2B; Provisio 76.9 2.6 5.6E-05 29.5 2.6 29 11-39 65-93 (117)
35 KOG3901 Transcription initiati 74.0 2.9 6.3E-05 29.0 2.2 35 4-42 40-74 (109)
36 smart00576 BTP Bromodomain tra 72.9 3.7 8.1E-05 25.7 2.4 35 5-39 36-70 (77)
37 PF02291 TFIID-31kDa: Transcri 72.6 2.9 6.3E-05 29.4 2.0 32 9-40 46-77 (129)
38 smart00428 H3 Histone H3. 72.0 4.5 9.8E-05 27.6 2.8 35 4-38 65-99 (105)
39 PF15630 CENP-S: Kinetochore c 69.9 7.2 0.00016 25.0 3.2 25 19-43 52-76 (76)
40 PRK11034 clpA ATP-dependent Cl 68.8 3.8 8.2E-05 36.0 2.3 41 9-49 6-46 (758)
41 TIGR02639 ClpA ATP-dependent C 67.5 4.1 8.9E-05 35.1 2.2 39 10-48 6-44 (731)
42 KOG3219 Transcription initiati 65.6 5.9 0.00013 29.9 2.5 38 2-39 139-177 (195)
43 KOG1744 Histone H2B [Chromatin 62.9 7.4 0.00016 27.6 2.4 29 10-38 73-101 (127)
44 CHL00095 clpC Clp protease ATP 58.4 6.4 0.00014 34.4 1.8 33 10-42 10-42 (821)
45 TIGR03345 VI_ClpV1 type VI sec 50.8 11 0.00023 33.6 1.9 40 9-48 5-46 (852)
46 TIGR03346 chaperone_ClpB ATP-d 49.9 13 0.00027 32.9 2.2 40 9-48 5-46 (852)
47 KOG0871 Class 2 transcription 46.5 14 0.0003 27.1 1.7 35 4-39 44-78 (156)
48 PF07524 Bromo_TP: Bromodomain 44.7 24 0.00053 21.7 2.4 30 9-38 40-69 (77)
49 PRK10865 protein disaggregatio 43.7 18 0.00038 32.2 2.2 40 9-48 10-51 (857)
50 TIGR02639 ClpA ATP-dependent C 41.2 18 0.0004 31.2 1.9 33 10-42 83-115 (731)
51 PLN00160 histone H3; Provision 41.2 28 0.0006 23.5 2.4 30 8-37 60-89 (97)
52 PF13335 Mg_chelatase_2: Magne 41.0 19 0.00041 23.6 1.6 28 11-38 67-94 (96)
53 PTZ00018 histone H3; Provision 40.0 27 0.00057 25.0 2.3 32 6-37 98-129 (136)
54 COG1067 LonB Predicted ATP-dep 38.7 23 0.0005 30.9 2.1 34 10-43 369-402 (647)
55 KOG1051 Chaperone HSP104 and r 38.5 15 0.00032 33.4 0.9 49 5-55 9-60 (898)
56 KOG1745 Histones H3 and H4 [Ch 38.1 18 0.00039 26.0 1.2 32 6-38 100-131 (137)
57 PF04823 Herpes_UL49_2: Herpes 38.0 17 0.00037 24.7 1.0 12 38-49 67-78 (96)
58 CHL00095 clpC Clp protease ATP 37.3 20 0.00044 31.4 1.6 40 9-48 84-125 (821)
59 PF08369 PCP_red: Proto-chloro 36.9 42 0.00091 19.3 2.4 26 11-36 19-44 (45)
60 PF03847 TFIID_20kDa: Transcri 36.6 40 0.00087 21.0 2.5 33 7-39 32-64 (68)
61 PLN00121 histone H3; Provision 35.8 36 0.00079 24.3 2.4 32 6-37 98-129 (136)
62 PHA02943 hypothetical protein; 32.9 58 0.0013 24.1 3.1 40 10-49 77-116 (165)
63 TIGR03346 chaperone_ClpB ATP-d 32.8 27 0.0006 30.8 1.7 33 10-42 83-115 (852)
64 KOG3334 Transcription initiati 31.6 37 0.00081 24.7 1.9 31 9-39 47-77 (148)
65 PLN00161 histone H3; Provision 30.7 66 0.0014 23.0 3.0 29 9-37 95-123 (135)
66 PF09453 HIRA_B: HIRA B motif; 30.6 17 0.00038 18.8 0.1 12 22-33 8-19 (24)
67 KOG1142 Transcription initiati 29.6 66 0.0014 25.3 3.1 34 7-40 187-220 (258)
68 COG5150 Class 2 transcription 29.3 44 0.00096 24.1 2.0 36 3-39 42-77 (148)
69 COG0542 clpA ATP-binding subun 27.7 39 0.00084 30.4 1.8 34 9-42 6-39 (786)
70 KOG0787 Dehydrogenase kinase [ 27.5 56 0.0012 27.4 2.6 55 3-60 259-315 (414)
71 KOG4412 26S proteasome regulat 25.1 48 0.001 25.5 1.6 34 26-59 71-109 (226)
72 PRK11034 clpA ATP-dependent Cl 25.0 49 0.0011 29.3 1.9 34 9-42 84-117 (758)
73 cd05031 S-100A10_like S-100A10 24.7 93 0.002 19.4 2.7 53 5-58 3-68 (94)
74 cd05025 S-100A1 S-100A1: S-100 24.2 95 0.0021 19.3 2.7 54 4-58 3-69 (92)
75 COG5248 TAF19 Transcription in 23.8 97 0.0021 21.9 2.8 36 4-42 40-75 (126)
76 COG5251 TAF40 Transcription in 23.1 84 0.0018 23.8 2.6 36 4-39 144-180 (199)
77 PRK00411 cdc6 cell division co 22.9 1E+02 0.0022 23.7 3.1 29 11-39 253-281 (394)
78 COG0375 HybF Zn finger protein 22.3 56 0.0012 22.7 1.4 49 8-56 6-60 (115)
79 COG1474 CDC6 Cdc6-related prot 22.2 67 0.0015 25.8 2.0 32 11-43 236-267 (366)
80 PHA03381 tegument protein VP22 21.7 47 0.001 26.3 1.0 18 38-55 224-245 (290)
81 TIGR02928 orc1/cdc6 family rep 21.3 70 0.0015 24.3 1.9 28 11-38 245-272 (365)
82 PF13654 AAA_32: AAA domain; P 21.2 69 0.0015 27.0 2.0 30 10-39 476-505 (509)
83 COG5094 TAF9 Transcription ini 20.9 90 0.0019 22.5 2.2 32 9-40 48-82 (145)
No 1
>PLN00153 histone H2A; Provisional
Probab=100.00 E-value=3.8e-36 Score=211.15 Aligned_cols=73 Identities=81% Similarity=1.152 Sum_probs=70.5
Q ss_pred ChHHHHHHHHHHHHHHHHHHHhcCCccccccchhhcccCcHHHHhhhcCceecCCcccCCCCccCCCCccccc
Q 034549 1 MAAVLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVRNDEELGKLLTGVTIASGGVLPNINPVLLPKKTNER 73 (91)
Q Consensus 1 LAAVLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~nD~EL~~Lf~~~tIa~gGV~P~i~~~ll~kK~~~~ 73 (91)
||||||||++||||||+|+|++++++||+||||++||+||+||++||++|||++|||+|+||++|++||++++
T Consensus 51 LAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~nDeEL~~Ll~~vTIa~GGV~P~i~~~l~~kk~~~~ 123 (129)
T PLN00153 51 LAAVLEYLTAEVLELAGNAARDNKKNRIVPRHIQLAIRNDEELGKLLGEVTIASGGVLPNIHAVLLPKKTKGG 123 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCccChHHHHhhccCcHHHHHHHCCCccCCCccCCCcchhhcCcccCCC
Confidence 6999999999999999999999999999999999999999999999999999999999999999999987554
No 2
>PLN00156 histone H2AX; Provisional
Probab=100.00 E-value=8.4e-36 Score=211.52 Aligned_cols=73 Identities=77% Similarity=1.106 Sum_probs=70.6
Q ss_pred ChHHHHHHHHHHHHHHHHHHHhcCCccccccchhhcccCcHHHHhhhcCceecCCcccCCCCccCCCCccccc
Q 034549 1 MAAVLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVRNDEELGKLLTGVTIASGGVLPNINPVLLPKKTNER 73 (91)
Q Consensus 1 LAAVLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~nD~EL~~Lf~~~tIa~gGV~P~i~~~ll~kK~~~~ 73 (91)
||||||||++||||||+|+|++++++||+||||++||+||+||++||++|||++|||+||||++|++||++++
T Consensus 56 LAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi~lAIrnDeEL~~Ll~~vTIa~GGV~P~i~~~l~~kk~~~~ 128 (139)
T PLN00156 56 LSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEELSKLLGSVTIAAGGVLPNIHQTLLPKKVGKG 128 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHhhccCcHHHHHHHCCCccCCCccCCCccHhhcccccccc
Confidence 6999999999999999999999999999999999999999999999999999999999999999999988644
No 3
>PTZ00017 histone H2A; Provisional
Probab=100.00 E-value=9.9e-36 Score=210.14 Aligned_cols=76 Identities=78% Similarity=1.124 Sum_probs=72.0
Q ss_pred ChHHHHHHHHHHHHHHHHHHHhcCCccccccchhhcccCcHHHHhhhcCceecCCcccCCCCccCCCCcccccccc
Q 034549 1 MAAVLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVRNDEELGKLLTGVTIASGGVLPNINPVLLPKKTNERVAK 76 (91)
Q Consensus 1 LAAVLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~nD~EL~~Lf~~~tIa~gGV~P~i~~~ll~kK~~~~~~~ 76 (91)
||||||||++||||||+|+|++++++|||||||++||+||+||++||+++||++|||+|+||++|++||++++...
T Consensus 54 LAAVLEYLtaEILELAgNaa~d~kk~RItPrHi~lAI~nDeEL~~Ll~~vtIa~GGV~P~i~~~l~~k~~~~~~~~ 129 (134)
T PTZ00017 54 LAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLAIRNDEELNKLLAGVTIASGGVLPNIHKVLLPKKSKPKQGK 129 (134)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHhhccCcHHHHHHHcCCcccCCccCCCccHhhccCCCCccccc
Confidence 7999999999999999999999999999999999999999999999999999999999999999999988655433
No 4
>PLN00157 histone H2A; Provisional
Probab=100.00 E-value=1.7e-35 Score=208.46 Aligned_cols=71 Identities=83% Similarity=1.194 Sum_probs=69.2
Q ss_pred ChHHHHHHHHHHHHHHHHHHHhcCCccccccchhhcccCcHHHHhhhcCceecCCcccCCCCccCCCCccc
Q 034549 1 MAAVLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVRNDEELGKLLTGVTIASGGVLPNINPVLLPKKTN 71 (91)
Q Consensus 1 LAAVLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~nD~EL~~Lf~~~tIa~gGV~P~i~~~ll~kK~~ 71 (91)
||||||||++||||||+|+|++++++||+||||++||+||+||++||++|||++|||+|+||++|++||++
T Consensus 53 LAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~nDeEL~~Ll~~vtIa~GGV~P~i~~~ll~kk~~ 123 (132)
T PLN00157 53 LAAVLEYLAAEVLELAGNAARDNKKSRIVPRHIQLAVRNDEELSKLLGGVTIAAGGVLPNIHSVLLPKKSG 123 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHhhcccCcHHHHHHHcCceecCCccCCCcchhhcCCCCC
Confidence 69999999999999999999999999999999999999999999999999999999999999999998874
No 5
>PTZ00252 histone H2A; Provisional
Probab=100.00 E-value=3.2e-35 Score=207.45 Aligned_cols=72 Identities=53% Similarity=0.821 Sum_probs=67.8
Q ss_pred ChHHHHHHHHHHHHHHHHHHHh--cCCccccccchhhcccCcHHHHhhhcCceecCCcccCCCCccCCCCcccc
Q 034549 1 MAAVLEYLAAEVLELAGNAARD--NKKKKIIPRHVQLAVRNDEELGKLLTGVTIASGGVLPNINPVLLPKKTNE 72 (91)
Q Consensus 1 LAAVLEYLtaEILELA~n~A~~--~kk~rItPrhi~lAI~nD~EL~~Lf~~~tIa~gGV~P~i~~~ll~kK~~~ 72 (91)
||||||||++||||||+|+|++ ++++||+||||++||+||+||++||++|||++|||+||||++|++|++..
T Consensus 52 LAAVLEYLtaEVLELAgnaa~d~~~kk~RItPrHi~lAIrNDeEL~~Ll~~vTIa~GGVlP~i~~~l~~k~~~~ 125 (134)
T PTZ00252 52 MAAVLEYLTAELLELSVKAAAQQAKKPKRLTPRTVTLAVRHDDDLGSLLKNVTLSRGGVMPSLNKALAKKHKSG 125 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccCCcccccHHHHHhhccChHHHHHHHcCCccCCCccCCCccHhhccccccC
Confidence 6999999999999999999976 78899999999999999999999999999999999999999999984433
No 6
>PLN00154 histone H2A; Provisional
Probab=100.00 E-value=3.8e-35 Score=207.56 Aligned_cols=70 Identities=61% Similarity=0.907 Sum_probs=67.6
Q ss_pred ChHHHHHHHHHHHHHHHHHHHhcCCccccccchhhcccCcHHHHhhhcCceecCCcccCCCCccCCCCccc
Q 034549 1 MAAVLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVRNDEELGKLLTGVTIASGGVLPNINPVLLPKKTN 71 (91)
Q Consensus 1 LAAVLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~nD~EL~~Lf~~~tIa~gGV~P~i~~~ll~kK~~ 71 (91)
||||||||++||||||+|+|++++++|||||||++||+||+||++||+ +||++|||+|+||++|++||++
T Consensus 66 LAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lAIrnDeEL~~Ll~-~TIa~GGVlP~i~~~l~~k~~~ 135 (136)
T PLN00154 66 TAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIK-GTIAGGGVIPHIHKSLINKSTK 135 (136)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhhccCcHHHHHHhc-CCccCCccCCCcchhhcccccC
Confidence 689999999999999999999999999999999999999999999997 6999999999999999998764
No 7
>KOG1756 consensus Histone 2A [Chromatin structure and dynamics]
Probab=100.00 E-value=8e-35 Score=204.23 Aligned_cols=74 Identities=74% Similarity=1.075 Sum_probs=71.3
Q ss_pred ChHHHHHHHHHHHHHHHHHHHhcCCccccccchhhcccCcHHHHhhhcCceecCCcccCCCCccCCCCcccccc
Q 034549 1 MAAVLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVRNDEELGKLLTGVTIASGGVLPNINPVLLPKKTNERV 74 (91)
Q Consensus 1 LAAVLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~nD~EL~~Lf~~~tIa~gGV~P~i~~~ll~kK~~~~~ 74 (91)
||||||||++||||+|+|+|+++++.||+||||++||+||+||+.|+++|||++|||+|+||+.|++||+.+..
T Consensus 54 laavLeYL~Aeile~agnaardnkk~ri~PrH~~lAI~NDeEL~~lL~~vtIa~GGvlPnI~~~lLpKk~~~~~ 127 (131)
T KOG1756|consen 54 LAAVLEYLTAEILELAGNAARDNKKTRITPRHLQLAIRNDEELNKLLGKVTIAQGGVLPNIQAILLPKKTGKHK 127 (131)
T ss_pred HHHHHHHHHHHHHHHhHHHhhhcCccccChHHHHHHHhCcHHHHHHhccceeccCCcccccchhhcccccccCC
Confidence 68999999999999999999999999999999999999999999999999999999999999999999987644
No 8
>smart00414 H2A Histone 2A.
Probab=100.00 E-value=2.6e-34 Score=195.70 Aligned_cols=70 Identities=83% Similarity=1.189 Sum_probs=68.6
Q ss_pred ChHHHHHHHHHHHHHHHHHHHhcCCccccccchhhcccCcHHHHhhhcCceecCCcccCCCCccCCCCcc
Q 034549 1 MAAVLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVRNDEELGKLLTGVTIASGGVLPNINPVLLPKKT 70 (91)
Q Consensus 1 LAAVLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~nD~EL~~Lf~~~tIa~gGV~P~i~~~ll~kK~ 70 (91)
||||||||++||||||+|+|++++++||||+||++||+||+||++||++|||++|||+|+||++|++||+
T Consensus 36 LaAvLEYLtaEILeLagn~a~~~k~~rItp~hi~lAi~nD~EL~~L~~~vti~~ggv~p~i~~~l~~~~~ 105 (106)
T smart00414 36 LAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIRNDEELNKLLKGVTIAQGGVLPNIHKVLLPKKT 105 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCccchHHHhhhccCCHHHHHHHcCcccCCCccCCCcchhhcccCC
Confidence 6899999999999999999999999999999999999999999999999999999999999999999886
No 9
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]
Probab=100.00 E-value=1.9e-34 Score=201.08 Aligned_cols=76 Identities=76% Similarity=1.101 Sum_probs=71.7
Q ss_pred ChHHHHHHHHHHHHHHHHHHHhcCCccccccchhhcccCcHHHHhhhcCceecCCcccCCCCccCCCCcccccccc
Q 034549 1 MAAVLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVRNDEELGKLLTGVTIASGGVLPNINPVLLPKKTNERVAK 76 (91)
Q Consensus 1 LAAVLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~nD~EL~~Lf~~~tIa~gGV~P~i~~~ll~kK~~~~~~~ 76 (91)
++||||||++||||||+|+|++++++||+|||||+|||||+||+.|+++|||++|||+|||++.++++..++.+..
T Consensus 53 l~AvleYL~aEilelAgNaA~d~kkkri~PrHlqlAIrnD~EL~~l~~~~tIa~GGvlp~I~~~ll~k~skK~sk~ 128 (132)
T COG5262 53 LAAVLEYLAAEILELAGNAARDNKKKRIIPRHLQLAIRNDEELNKLLGDVTIAQGGVLPNINPGLLPKSSKKGSKR 128 (132)
T ss_pred HHHHHHHHHHHHHHHhhhhhhhcCcceechHHHHHHhcCcHHHHHHhhhheeecCCcccccChhhhhhhhccCCcc
Confidence 5899999999999999999999999999999999999999999999999999999999999999999877666543
No 10
>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=99.97 E-value=1.4e-32 Score=189.55 Aligned_cols=69 Identities=87% Similarity=1.208 Sum_probs=67.4
Q ss_pred ChHHHHHHHHHHHHHHHHHHHhcCCccccccchhhcccCcHHHHhhhcCceecCCcccCCCCccCCCCc
Q 034549 1 MAAVLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVRNDEELGKLLTGVTIASGGVLPNINPVLLPKK 69 (91)
Q Consensus 1 LAAVLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~nD~EL~~Lf~~~tIa~gGV~P~i~~~ll~kK 69 (91)
||||||||++||||||+|.|++++++||||+||++||+||+||++||+++||++|||+|+||++|++||
T Consensus 47 LaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi~nD~EL~~L~~~vtI~~ggv~p~i~~~l~~~~ 115 (115)
T cd00074 47 LAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAVRNDEELNKLLKGVTIASGGVLPNIHKVLLPKK 115 (115)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHHhccHHHHHHHcCCcccCCccCCCcchhhcCCC
Confidence 689999999999999999999999999999999999999999999999999999999999999999875
No 11
>KOG1757 consensus Histone 2A [Chromatin structure and dynamics]
Probab=99.96 E-value=6.8e-31 Score=182.51 Aligned_cols=72 Identities=60% Similarity=0.911 Sum_probs=68.0
Q ss_pred ChHHHHHHHHHHHHHHHHHHHhcCCccccccchhhcccCcHHHHhhhcCceecCCcccCCCCccCCCCccccc
Q 034549 1 MAAVLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVRNDEELGKLLTGVTIASGGVLPNINPVLLPKKTNER 73 (91)
Q Consensus 1 LAAVLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~nD~EL~~Lf~~~tIa~gGV~P~i~~~ll~kK~~~~ 73 (91)
+||||||||+||||||+|++++.+.+||||||+||||+.|+||+.|++. ||++|||+||||++|+-|++++.
T Consensus 58 ~aaileYLTaEVLeLAgNasKdLKvKRitprHlqLAiRGDeELDtLIk~-TiagGgViPhihk~l~~k~~~~~ 129 (131)
T KOG1757|consen 58 SAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIKA-TIAGGGVIPHIHKSLINKKGKKK 129 (131)
T ss_pred HHHHHHHHHHHHHHHcccccccceeeeccchhheeeecCcHHHHHHHHH-hhccCccccchHHHHhccccccC
Confidence 4799999999999999999999999999999999999999999999976 89999999999999998877654
No 12
>PF00125 Histone: Core histone H2A/H2B/H3/H4 histone h2a signature histone h2b signature histone h3 signature histone h4 signature; InterPro: IPR007125 The core histones together with some other DNA binding proteins appear to form a superfamily defined by a common fold and distant sequence similarities [, ]. Some proteins contain local homology domains related to the histone fold [].; GO: 0003677 DNA binding; PDB: 2YFW_D 2YFV_B 1U35_H 2F8N_D 2PYO_D 2NQB_D 3AN2_C 3AZJ_C 3AV1_G 3AZM_G ....
Probab=98.90 E-value=6.6e-10 Score=69.24 Aligned_cols=40 Identities=60% Similarity=0.860 Sum_probs=37.9
Q ss_pred ChHHHHHHHHHHHHHHHHHHHhcCCccccccchhhcccCc
Q 034549 1 MAAVLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVRND 40 (91)
Q Consensus 1 LAAVLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~nD 40 (91)
|.+++||++.+|+|+|++.|...++++|+|+||++|+++|
T Consensus 36 L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r~~ 75 (75)
T PF00125_consen 36 LQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLAVRID 75 (75)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHHHT
T ss_pred hhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHHHhcC
Confidence 4689999999999999999999999999999999999876
No 13
>COG5247 BUR6 Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]
Probab=97.06 E-value=0.00056 Score=47.27 Aligned_cols=45 Identities=24% Similarity=0.370 Sum_probs=41.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCccccccchhhcccCcHHHHhhh
Q 034549 3 AVLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVRNDEELGKLL 47 (91)
Q Consensus 3 AVLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~nD~EL~~Lf 47 (91)
-.||++.++|..++++.||...-+|||.+||-.|+.+|+.++-|=
T Consensus 52 kalE~Fl~~iv~~s~k~aR~~~skR~t~e~lk~a~~sdekFdFL~ 96 (113)
T COG5247 52 KALEMFLTEIVGLSLKEARKKSSKRMTSEFLKRATESDEKFDFLK 96 (113)
T ss_pred HHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHhhhHHHHHHH
Confidence 469999999999999999999999999999999999999987664
No 14
>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=96.81 E-value=0.0012 Score=41.24 Aligned_cols=38 Identities=24% Similarity=0.358 Sum_probs=35.1
Q ss_pred ChHHHHHHHHHHHHHHHHHHHhcCCccccccchhhccc
Q 034549 1 MAAVLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVR 38 (91)
Q Consensus 1 LAAVLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~ 38 (91)
|+-.+||...||+.-|.+.++..+++.+|+.||.+|++
T Consensus 28 l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk 65 (65)
T smart00803 28 LAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR 65 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence 46789999999999999999999999999999999864
No 15
>KOG1659 consensus Class 2 transcription repressor NC2, alpha subunit (DRAP1) [Transcription]
Probab=95.26 E-value=0.018 Score=44.04 Aligned_cols=44 Identities=23% Similarity=0.321 Sum_probs=40.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCccccccchhhcccCcHHHHhh
Q 034549 3 AVLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVRNDEELGKL 46 (91)
Q Consensus 3 AVLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~nD~EL~~L 46 (91)
-.||.+..++|..++.+++..+-++++|.||..+|.+|+.++-|
T Consensus 42 ralElFl~~l~~~t~~~t~~~~aKt~s~~hlkq~v~~~~~FdFL 85 (224)
T KOG1659|consen 42 RALELFLESLLQKTLEITRSRGAKTVSSSHLKQAVESDPKFDFL 85 (224)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCccccCHHHHHHHHhccchhHHH
Confidence 46999999999999999999999999999999999999887554
No 16
>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=95.13 E-value=0.021 Score=36.02 Aligned_cols=38 Identities=26% Similarity=0.386 Sum_probs=31.8
Q ss_pred ChHHHHHHHHHHHHHHHHHHHhcCCccccccchhhccc
Q 034549 1 MAAVLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVR 38 (91)
Q Consensus 1 LAAVLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~ 38 (91)
||-=+||-..||++-|.+..+..+++++|+.||+.|++
T Consensus 29 La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di~~ALr 66 (66)
T PF02969_consen 29 LAEDVEYRLREIIQEALKFMRHSKRTKLTTDDINSALR 66 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHhC
Confidence 34568999999999999999999999999999998864
No 17
>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=94.59 E-value=0.036 Score=33.58 Aligned_cols=35 Identities=26% Similarity=0.217 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCccccccchhhcc
Q 034549 3 AVLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAV 37 (91)
Q Consensus 3 AVLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI 37 (91)
-..|.++.++..-|...|...+++.|+++||..|+
T Consensus 31 ~a~e~Fi~~l~~~A~~~a~~~~rkti~~~Dv~~Av 65 (65)
T PF00808_consen 31 KAAEEFIQYLAKEANEIAQRDKRKTITYEDVAKAV 65 (65)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTTSSEE-HHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHC
Confidence 35677778888888899999999999999998775
No 18
>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=93.84 E-value=0.049 Score=43.08 Aligned_cols=39 Identities=28% Similarity=0.420 Sum_probs=36.3
Q ss_pred ChHHHHHHHHHHHHHHHHHHHhcCCccccccchhhcccC
Q 034549 1 MAAVLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVRN 39 (91)
Q Consensus 1 LAAVLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~n 39 (91)
|+..+||-..+|++.|.+.++..+|+++++.||..|++.
T Consensus 25 La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~~ 63 (343)
T cd08050 25 LAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALRL 63 (343)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHH
Confidence 467899999999999999999999999999999999874
No 19
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=93.54 E-value=0.07 Score=35.70 Aligned_cols=37 Identities=27% Similarity=0.337 Sum_probs=33.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHhcCCccccccchhhccc
Q 034549 2 AAVLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVR 38 (91)
Q Consensus 2 AAVLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~ 38 (91)
.-++|-+..+|.|-|...|...+++-|++++|.+|+.
T Consensus 46 ~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~ 82 (91)
T COG2036 46 QEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALK 82 (91)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHH
Confidence 4577888899999999999999999999999999975
No 20
>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=92.85 E-value=0.12 Score=34.24 Aligned_cols=37 Identities=24% Similarity=0.450 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCccccccchhhcccCcHH
Q 034549 4 VLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVRNDEE 42 (91)
Q Consensus 4 VLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~nD~E 42 (91)
|.+|+ .+++--|.+.|. .++.+|+++++..++++|.-
T Consensus 33 v~~~i-~~l~~~a~~~A~-~r~~k~~~eD~~FliR~D~~ 69 (92)
T cd07978 33 VVEYI-IELCHKAAEVAQ-RRRGKVKVEDLIFLLRKDPK 69 (92)
T ss_pred HHHHH-HHHHHHHHHHHH-cCCCCCCHHHHHHHHhcCHH
Confidence 44555 344555566665 57888999999999999964
No 21
>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=92.55 E-value=0.076 Score=35.07 Aligned_cols=37 Identities=22% Similarity=0.281 Sum_probs=6.2
Q ss_pred HHHHHHHHH---HHHHHHHhcCCccccccchhhcccCcHH
Q 034549 6 EYLAAEVLE---LAGNAARDNKKKKIIPRHVQLAVRNDEE 42 (91)
Q Consensus 6 EYLtaEILE---LA~n~A~~~kk~rItPrhi~lAI~nD~E 42 (91)
|+++..|.+ -|.+.|...+..+|++.++..++++|.-
T Consensus 30 ~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR~D~~ 69 (93)
T PF02269_consen 30 DIVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLRKDPK 69 (93)
T ss_dssp HHHHHHHHHHHHHHHC------------------------
T ss_pred HHHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHhcCHH
Confidence 444444444 4556666677789999999999999974
No 22
>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=91.48 E-value=0.19 Score=31.55 Aligned_cols=38 Identities=21% Similarity=0.315 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCccccccchhhcccCc
Q 034549 3 AVLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVRND 40 (91)
Q Consensus 3 AVLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~nD 40 (91)
.+.|=+..+|++.|...|+..++..|.+++|++++...
T Consensus 30 ~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r~ 67 (72)
T cd07981 30 EIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLERN 67 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHh
Confidence 34555667899999999999999999999999998754
No 23
>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=90.35 E-value=0.29 Score=32.27 Aligned_cols=38 Identities=21% Similarity=0.249 Sum_probs=33.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHhcCCccccccchhhcccC
Q 034549 2 AAVLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVRN 39 (91)
Q Consensus 2 AAVLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~n 39 (91)
..+||.+..+|+.-|...+...+++.|+..+|.+|+..
T Consensus 40 ~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr 77 (85)
T cd00076 40 RNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKR 77 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHH
Confidence 45788888999999999999999999999999998754
No 24
>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=89.67 E-value=0.12 Score=29.16 Aligned_cols=34 Identities=29% Similarity=0.420 Sum_probs=26.7
Q ss_pred HHHHHHhcCCccccccchhhcccCcH--HHHhhhcC
Q 034549 16 AGNAARDNKKKKIIPRHVQLAVRNDE--ELGKLLTG 49 (91)
Q Consensus 16 A~n~A~~~kk~rItPrhi~lAI~nD~--EL~~Lf~~ 49 (91)
|-+.|+..+...|+|.||-+|+-+|+ ....+|..
T Consensus 1 A~~~A~~~~~~~i~~eHlL~all~~~~~~~~~il~~ 36 (53)
T PF02861_consen 1 AQELARERGHQYISPEHLLLALLEDPDSIAARILKK 36 (53)
T ss_dssp HHHHHHHTTBSSE-HHHHHHHHHHHTTSHHHHHHHH
T ss_pred CHHHHHHcCCCcccHHHHHHHHHhhhhHHHHHHHHH
Confidence 45778889999999999999988765 67777753
No 25
>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=89.35 E-value=0.42 Score=31.34 Aligned_cols=37 Identities=24% Similarity=0.397 Sum_probs=30.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHhcCC---ccccccchhhccc
Q 034549 2 AAVLEYLAAEVLELAGNAARDNKK---KKIIPRHVQLAVR 38 (91)
Q Consensus 2 AAVLEYLtaEILELA~n~A~~~kk---~rItPrhi~lAI~ 38 (91)
+++---++.||.|.|..+-...+. ..|.|+||+-|.+
T Consensus 43 ~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~HireA~r 82 (85)
T cd08048 43 AGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHLREAYR 82 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHHHHHHH
Confidence 455566789999999998887655 8999999998865
No 26
>PLN00035 histone H4; Provisional
Probab=89.17 E-value=0.38 Score=32.88 Aligned_cols=38 Identities=18% Similarity=0.264 Sum_probs=34.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHhcCCccccccchhhcccC
Q 034549 2 AAVLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVRN 39 (91)
Q Consensus 2 AAVLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~n 39 (91)
..|||.+..+|+.-|...|...+++-|+..+|.+|++.
T Consensus 56 r~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~Alkr 93 (103)
T PLN00035 56 RGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKR 93 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHH
Confidence 46888888999999999999999999999999998764
No 27
>PTZ00015 histone H4; Provisional
Probab=88.24 E-value=0.48 Score=32.27 Aligned_cols=37 Identities=16% Similarity=0.218 Sum_probs=33.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHhcCCccccccchhhccc
Q 034549 2 AAVLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVR 38 (91)
Q Consensus 2 AAVLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~ 38 (91)
..|||.+..+|+.-|...|...+++-|+..+|.+|+.
T Consensus 57 r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~AlK 93 (102)
T PTZ00015 57 RGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVYALK 93 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHH
Confidence 4578888889999999999999999999999999874
No 28
>smart00427 H2B Histone H2B.
Probab=86.96 E-value=0.59 Score=31.23 Aligned_cols=35 Identities=31% Similarity=0.340 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHHHhcCCccccccchhhcccC
Q 034549 5 LEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVRN 39 (91)
Q Consensus 5 LEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~n 39 (91)
+..+...|-.-|...++.+++.-|++|+||.|++-
T Consensus 32 vnDiferIa~EAs~L~~~nkr~TltsreIqtAvrl 66 (89)
T smart00427 32 VNDIFERIAAEASKLARYNKKSTLSSREIQTAVRL 66 (89)
T ss_pred HHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHH
Confidence 33444556666778888899999999999999873
No 29
>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=86.56 E-value=0.7 Score=31.67 Aligned_cols=37 Identities=22% Similarity=0.205 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCccccccchhhcccCc
Q 034549 4 VLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVRND 40 (91)
Q Consensus 4 VLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~nD 40 (91)
.++-.+.+|+.-|...|+..+++-|+..+|.+||..-
T Consensus 30 ~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~r 66 (117)
T cd07979 30 FAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQSR 66 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence 3445577899999999999999999999999999753
No 30
>smart00417 H4 Histone H4.
Probab=86.12 E-value=0.93 Score=29.19 Aligned_cols=35 Identities=20% Similarity=0.212 Sum_probs=30.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHhcCCccccccchhhc
Q 034549 2 AAVLEYLAAEVLELAGNAARDNKKKKIIPRHVQLA 36 (91)
Q Consensus 2 AAVLEYLtaEILELA~n~A~~~kk~rItPrhi~lA 36 (91)
..|||.+..+|+.-|...+...+++.|+..+|..|
T Consensus 40 r~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~~a 74 (74)
T smart00417 40 RNVLKSFLENVVRDAVTYTEHARRKTVTAMDVVYA 74 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCcccHHHheeC
Confidence 46888888999999999999999999999888654
No 31
>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=84.94 E-value=0.81 Score=30.44 Aligned_cols=37 Identities=22% Similarity=0.352 Sum_probs=27.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHhcCC-ccccccchhhccc
Q 034549 2 AAVLEYLAAEVLELAGNAARDNKK-KKIIPRHVQLAVR 38 (91)
Q Consensus 2 AAVLEYLtaEILELA~n~A~~~kk-~rItPrhi~lAI~ 38 (91)
+++--.+..||.|.|..+..+.+. ..|.|.||+-|.+
T Consensus 51 ~g~aKvFVGEiVE~A~~Vq~~~~~~~pl~P~hlreA~r 88 (90)
T PF04719_consen 51 AGIAKVFVGEIVEEARDVQEEWGETGPLQPDHLREAYR 88 (90)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTT--SS--HHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHH
Confidence 566678899999999988886553 5999999987754
No 32
>PLN00158 histone H2B; Provisional
Probab=84.13 E-value=0.94 Score=31.69 Aligned_cols=35 Identities=34% Similarity=0.422 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHHHhcCCccccccchhhcccC
Q 034549 5 LEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVRN 39 (91)
Q Consensus 5 LEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~n 39 (91)
+..+...|-.-|...++.+++.-||+|+||.|++-
T Consensus 58 vnDiferIA~EAs~La~~nkr~TltsrEIqtAvrL 92 (116)
T PLN00158 58 INDIFEKIATEAGKLARYNKKPTVTSREIQTAVRL 92 (116)
T ss_pred HHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHH
Confidence 33444456666778888899999999999999873
No 33
>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=81.38 E-value=1 Score=27.40 Aligned_cols=23 Identities=39% Similarity=0.670 Sum_probs=18.5
Q ss_pred CcHHHHhhhcCceecCCcccCCCCcc
Q 034549 39 NDEELGKLLTGVTIASGGVLPNINPV 64 (91)
Q Consensus 39 nD~EL~~Lf~~~tIa~gGV~P~i~~~ 64 (91)
.|+||++++++. .+||++.|...
T Consensus 16 s~eELd~ilGg~---g~Gv~~Tis~e 38 (51)
T PF04604_consen 16 SDEELDQILGGA---GNGVIKTISHE 38 (51)
T ss_pred CHHHHHHHhCCC---CCCceeecccc
Confidence 599999999873 78999877543
No 34
>PTZ00463 histone H2B; Provisional
Probab=76.93 E-value=2.6 Score=29.55 Aligned_cols=29 Identities=17% Similarity=0.314 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHhcCCccccccchhhcccC
Q 034549 11 EVLELAGNAARDNKKKKIIPRHVQLAVRN 39 (91)
Q Consensus 11 EILELA~n~A~~~kk~rItPrhi~lAI~n 39 (91)
.|-.-|...++.+++.-||+|+||.|++=
T Consensus 65 rIA~EAs~La~~nkr~TltsrEIQtAvrL 93 (117)
T PTZ00463 65 KIATEASRLCKYTRRDTLSSREIQTAIRL 93 (117)
T ss_pred HHHHHHHHHHHhcCCCcCCHHHHHHHHhh
Confidence 34455677777889999999999999873
No 35
>KOG3901 consensus Transcription initiation factor IID subunit [Transcription]
Probab=74.04 E-value=2.9 Score=29.00 Aligned_cols=35 Identities=29% Similarity=0.459 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCccccccchhhcccCcHH
Q 034549 4 VLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVRNDEE 42 (91)
Q Consensus 4 VLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~nD~E 42 (91)
|+||+ .|++..|.++. ++-++.-.++..+|+.|+-
T Consensus 40 V~~Yi-~elt~~a~~~g---~rgk~~veD~~f~lRkDpk 74 (109)
T KOG3901|consen 40 VLEYI-TELTHAAMEIG---KRGKVKVEDFKFLLRKDPK 74 (109)
T ss_pred HHHHH-HHHHHHHHHhc---ccCceeHHHHHHHHHhChH
Confidence 77887 45577776665 5567778899999999963
No 36
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=72.95 E-value=3.7 Score=25.71 Aligned_cols=35 Identities=23% Similarity=0.097 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHHHHHhcCCccccccchhhcccC
Q 034549 5 LEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVRN 39 (91)
Q Consensus 5 LEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~n 39 (91)
+|=...++...+.+.|...+|+..++.+|.+|+.+
T Consensus 36 ~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~ 70 (77)
T smart00576 36 LQSYIQELGRTAHSYAELAGRTEPNLGDVVLALEN 70 (77)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 33334677777888888889999999999988754
No 37
>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=72.64 E-value=2.9 Score=29.39 Aligned_cols=32 Identities=28% Similarity=0.309 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHhcCCccccccchhhcccCc
Q 034549 9 AAEVLELAGNAARDNKKKKIIPRHVQLAVRND 40 (91)
Q Consensus 9 taEILELA~n~A~~~kk~rItPrhi~lAI~nD 40 (91)
|.+||+=|-..|...++..|+..+|++||+.-
T Consensus 46 t~~vL~DA~~ya~hA~~~~i~~~DVrLAi~~r 77 (129)
T PF02291_consen 46 TSDVLEDAQVYADHAGRSTIDADDVRLAIQSR 77 (129)
T ss_dssp HHHHHHHHHHHHHHTT-SSB-HHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHhcccccCChHHHHHHHHHH
Confidence 57899999999999999999999999999843
No 38
>smart00428 H3 Histone H3.
Probab=71.97 E-value=4.5 Score=27.61 Aligned_cols=35 Identities=29% Similarity=0.336 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCccccccchhhccc
Q 034549 4 VLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVR 38 (91)
Q Consensus 4 VLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~ 38 (91)
..|...-++.|-|...|...++.-|+|++|++|.+
T Consensus 65 asE~ylv~lfeda~~~a~HAkRvTl~~kDi~La~r 99 (105)
T smart00428 65 AAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQLARR 99 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCccCcHhhHHHHHH
Confidence 34555567888898889999999999999999853
No 39
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=69.91 E-value=7.2 Score=25.03 Aligned_cols=25 Identities=24% Similarity=0.299 Sum_probs=18.5
Q ss_pred HHHhcCCccccccchhhcccCcHHH
Q 034549 19 AARDNKKKKIIPRHVQLAVRNDEEL 43 (91)
Q Consensus 19 ~A~~~kk~rItPrhi~lAI~nD~EL 43 (91)
-|+..||..|++.++.|..+.++.|
T Consensus 52 FAkHA~R~tI~~dDV~Ll~Rrn~~L 76 (76)
T PF15630_consen 52 FAKHAGRSTINMDDVKLLARRNPSL 76 (76)
T ss_dssp HHHHTT-SEE-HHHHHHHTTT-HHH
T ss_pred HHHhcCCCeecHHHHHHHhhcCCCC
Confidence 3556799999999999999998876
No 40
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=68.76 E-value=3.8 Score=36.04 Aligned_cols=41 Identities=20% Similarity=0.237 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHHhcCCccccccchhhcccCcHHHHhhhcC
Q 034549 9 AAEVLELAGNAARDNKKKKIIPRHVQLAVRNDEELGKLLTG 49 (91)
Q Consensus 9 taEILELA~n~A~~~kk~rItPrhi~lAI~nD~EL~~Lf~~ 49 (91)
+.++|+.|.+.|+..+...|+|.||-+++-+|.++..+|..
T Consensus 6 ~~~~l~~a~~~a~~~~~~~~~~~h~l~~l~~~~~~~~~~~~ 46 (758)
T PRK11034 6 LELSLNMAFARAREHRHEFMTVEHLLLALLSNPSAREALEA 46 (758)
T ss_pred HHHHHHHHHHHHHHcCCCcchHHHHHHHHHcChhHHHHHHH
Confidence 46789999999999999999999999999998878777764
No 41
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=67.54 E-value=4.1 Score=35.11 Aligned_cols=39 Identities=21% Similarity=0.308 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHhcCCccccccchhhcccCcHHHHhhhc
Q 034549 10 AEVLELAGNAARDNKKKKIIPRHVQLAVRNDEELGKLLT 48 (91)
Q Consensus 10 aEILELA~n~A~~~kk~rItPrhi~lAI~nD~EL~~Lf~ 48 (91)
.++|+.|-+.|+..+...|+|.||.+|+-.+.+...++.
T Consensus 6 ~~~L~~A~~~A~~~~h~~V~~EHLLlaLL~~~~~~~iL~ 44 (731)
T TIGR02639 6 ERILDAALEEAKKRRHEFVTLEHILLALLFDSDAIEILE 44 (731)
T ss_pred HHHHHHHHHHHHHhCCCcCcHHHHHHHHHcCchHHHHHH
Confidence 568899999999999999999999999988876656655
No 42
>KOG3219 consensus Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=65.62 E-value=5.9 Score=29.94 Aligned_cols=38 Identities=24% Similarity=0.343 Sum_probs=30.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHhcC-CccccccchhhcccC
Q 034549 2 AAVLEYLAAEVLELAGNAARDNK-KKKIIPRHVQLAVRN 39 (91)
Q Consensus 2 AAVLEYLtaEILELA~n~A~~~k-k~rItPrhi~lAI~n 39 (91)
+++=.-++.||.|+|..+....+ ..-+.|.||+-|.+-
T Consensus 139 ~GiaKvFVGEvVEeAl~V~~~~~e~~PLqP~HIREA~rr 177 (195)
T KOG3219|consen 139 AGIAKVFVGEVVEEALDVREEWGESGPLQPKHIREAYRR 177 (195)
T ss_pred cchhhHhHHHHHHHHHHHHHHhccCCCCCcHHHHHHHHH
Confidence 45566788999999998888654 578999999988763
No 43
>KOG1744 consensus Histone H2B [Chromatin structure and dynamics]
Probab=62.86 E-value=7.4 Score=27.62 Aligned_cols=29 Identities=38% Similarity=0.468 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHhcCCccccccchhhccc
Q 034549 10 AEVLELAGNAARDNKKKKIIPRHVQLAVR 38 (91)
Q Consensus 10 aEILELA~n~A~~~kk~rItPrhi~lAI~ 38 (91)
-.|...|+..|+.+++.-|+.|+|+.|++
T Consensus 73 e~iA~ea~rla~y~krstisSreiqta~r 101 (127)
T KOG1744|consen 73 ERIASEAGRLAHYNKRSTISSREIQTAVR 101 (127)
T ss_pred HHHHHHHhhhhhhcCCCcccHHHHHHHHH
Confidence 44566788889999999999999999886
No 44
>CHL00095 clpC Clp protease ATP binding subunit
Probab=58.37 E-value=6.4 Score=34.44 Aligned_cols=33 Identities=15% Similarity=0.187 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHhcCCccccccchhhcccCcHH
Q 034549 10 AEVLELAGNAARDNKKKKIIPRHVQLAVRNDEE 42 (91)
Q Consensus 10 aEILELA~n~A~~~kk~rItPrhi~lAI~nD~E 42 (91)
.++|+.|-+.|+..+...|+|.||-+|+-.+.+
T Consensus 10 ~~vL~~A~~~A~~~~h~~V~~EHLLLaLL~~~~ 42 (821)
T CHL00095 10 IKVIMLSQEEARRLGHNFVGTEQILLGLIGEGT 42 (821)
T ss_pred HHHHHHHHHHHHHhCCCcCcHHHHHHHHHhCCC
Confidence 468899999999999999999999999887644
No 45
>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=50.83 E-value=11 Score=33.58 Aligned_cols=40 Identities=20% Similarity=0.246 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHHhcCCccccccchhhcccCcH--HHHhhhc
Q 034549 9 AAEVLELAGNAARDNKKKKIIPRHVQLAVRNDE--ELGKLLT 48 (91)
Q Consensus 9 taEILELA~n~A~~~kk~rItPrhi~lAI~nD~--EL~~Lf~ 48 (91)
+.++|+.|...|+..+...|+|.||.+|+-.+. .+..+|.
T Consensus 5 a~~~L~~A~~~A~~~~h~~I~~eHLLlaLL~~~~~~~~~iL~ 46 (852)
T TIGR03345 5 SRRALEQAAALCVARGHPEVELEHWLLALLDQPDSDLAAILR 46 (852)
T ss_pred HHHHHHHHHHHHHHhCCCcccHHHHHHHHHhccCcHHHHHHH
Confidence 357889999999999999999999999987653 3445543
No 46
>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=49.86 E-value=13 Score=32.86 Aligned_cols=40 Identities=28% Similarity=0.329 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHHhcCCccccccchhhcccCcH--HHHhhhc
Q 034549 9 AAEVLELAGNAARDNKKKKIIPRHVQLAVRNDE--ELGKLLT 48 (91)
Q Consensus 9 taEILELA~n~A~~~kk~rItPrhi~lAI~nD~--EL~~Lf~ 48 (91)
+..+|+.|-..|+..+...|+|.||-+|+-.+. ....+|.
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 357889999999999999999999999988765 3444444
No 47
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=46.54 E-value=14 Score=27.08 Aligned_cols=35 Identities=29% Similarity=0.428 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCccccccchhhcccC
Q 034549 4 VLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVRN 39 (91)
Q Consensus 4 VLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~n 39 (91)
++||+ .=|---|-.+|....|+.|.|+|+.-|+.|
T Consensus 44 CvEFI-~liSsEAneic~~e~KKTIa~EHV~KALe~ 78 (156)
T KOG0871|consen 44 CVEFI-NLISSEANEICNKEAKKTIAPEHVIKALEN 78 (156)
T ss_pred HHHHH-HHHHHHHHHHHhHHhcccCCHHHHHHHHHH
Confidence 44544 223334556777788999999999998876
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=44.67 E-value=24 Score=21.70 Aligned_cols=30 Identities=17% Similarity=0.071 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHhcCCccccccchhhccc
Q 034549 9 AAEVLELAGNAARDNKKKKIIPRHVQLAVR 38 (91)
Q Consensus 9 taEILELA~n~A~~~kk~rItPrhi~lAI~ 38 (91)
..++...+-..|...+|...++.++..|..
T Consensus 40 l~~l~~~~~~~ae~~gRt~~~~~Dv~~al~ 69 (77)
T PF07524_consen 40 LQELGRTAKRYAEHAGRTEPNLQDVEQALE 69 (77)
T ss_pred HHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 366666777788788999999999988764
No 49
>PRK10865 protein disaggregation chaperone; Provisional
Probab=43.72 E-value=18 Score=32.16 Aligned_cols=40 Identities=30% Similarity=0.247 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHHhcCCccccccchhhcccCcH--HHHhhhc
Q 034549 9 AAEVLELAGNAARDNKKKKIIPRHVQLAVRNDE--ELGKLLT 48 (91)
Q Consensus 9 taEILELA~n~A~~~kk~rItPrhi~lAI~nD~--EL~~Lf~ 48 (91)
+.++|+.|...|...+...|+|.||.+|+-++. .+..++.
T Consensus 10 ~~~~l~~a~~~a~~~~~~~~~~~hll~~l~~~~~~~~~~~l~ 51 (857)
T PRK10865 10 FQLALADAQSLALGHDNQFIEPLHLMSALLNQEGGSVRPLLT 51 (857)
T ss_pred HHHHHHHHHHHHHHcCCCcccHHHHHHHHHhCCccHHHHHHH
Confidence 357889999999999999999999999998865 3455544
No 50
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=41.21 E-value=18 Score=31.19 Aligned_cols=33 Identities=24% Similarity=0.230 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHhcCCccccccchhhcccCcHH
Q 034549 10 AEVLELAGNAARDNKKKKIIPRHVQLAVRNDEE 42 (91)
Q Consensus 10 aEILELA~n~A~~~kk~rItPrhi~lAI~nD~E 42 (91)
.++|+.|...|...+...|++.||.+|+-.|.+
T Consensus 83 k~vL~~A~~~A~~~g~~~I~teHLLLALl~~~~ 115 (731)
T TIGR02639 83 QRVLQRALLHVKSAGKKEIGIGDILVALFDEED 115 (731)
T ss_pred HHHHHHHHHHHHHcCCCccCHHHHHHHHhcCcc
Confidence 469999999999999999999999999876643
No 51
>PLN00160 histone H3; Provisional
Probab=41.18 E-value=28 Score=23.49 Aligned_cols=30 Identities=27% Similarity=0.330 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHhcCCccccccchhhcc
Q 034549 8 LAAEVLELAGNAARDNKKKKIIPRHVQLAV 37 (91)
Q Consensus 8 LtaEILELA~n~A~~~kk~rItPrhi~lAI 37 (91)
..-.++|-+.--|...++.-|+|++++++.
T Consensus 60 yLv~lfed~~lca~HakRVTl~~kD~~L~~ 89 (97)
T PLN00160 60 HLVGLFEDSNLCAIHGKRVTIMPKDMQLAR 89 (97)
T ss_pred HHHHHHhhhHHHHHHhcccccchhhHHHHH
Confidence 334577878777778899999999999984
No 52
>PF13335 Mg_chelatase_2: Magnesium chelatase, subunit ChlI
Probab=41.00 E-value=19 Score=23.56 Aligned_cols=28 Identities=21% Similarity=0.307 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHhcCCccccccchhhccc
Q 034549 11 EVLELAGNAARDNKKKKIIPRHVQLAVR 38 (91)
Q Consensus 11 EILELA~n~A~~~kk~rItPrhi~lAI~ 38 (91)
.||-+|--+|.-.+...|++.||.-|+.
T Consensus 67 rilrvARTIADL~~~~~I~~~hi~EAl~ 94 (96)
T PF13335_consen 67 RILRVARTIADLEGSERITREHIAEALS 94 (96)
T ss_pred HHHHHHHHHHhHcCCCCCCHHHHHHHHh
Confidence 5899999999999999999999998864
No 53
>PTZ00018 histone H3; Provisional
Probab=40.00 E-value=27 Score=24.97 Aligned_cols=32 Identities=28% Similarity=0.347 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHHHhcCCccccccchhhcc
Q 034549 6 EYLAAEVLELAGNAARDNKKKKIIPRHVQLAV 37 (91)
Q Consensus 6 EYLtaEILELA~n~A~~~kk~rItPrhi~lAI 37 (91)
|...-.++|-+.--|...++.-|+|++|+|+.
T Consensus 98 E~yLv~lfed~~lca~HakRVTl~~kD~~L~~ 129 (136)
T PTZ00018 98 EAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAR 129 (136)
T ss_pred HHHHHHHhhhhHHHHHhhcceecchhhHHHHH
Confidence 44456788888777888899999999999984
No 54
>COG1067 LonB Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]
Probab=38.68 E-value=23 Score=30.91 Aligned_cols=34 Identities=24% Similarity=0.287 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHhcCCccccccchhhcccCcHHH
Q 034549 10 AEVLELAGNAARDNKKKKIIPRHVQLAVRNDEEL 43 (91)
Q Consensus 10 aEILELA~n~A~~~kk~rItPrhi~lAI~nD~EL 43 (91)
..++..|+..|...++..|++.|+..|+++....
T Consensus 369 ~~lv~~A~~ia~~~~~~~I~ae~Ve~a~~~~~~~ 402 (647)
T COG1067 369 GNLVREAGDIAVSEGRKLITAEDVEEALQKRELR 402 (647)
T ss_pred HHHHHHhhHHHhcCCcccCcHHHHHHHHHhhhhH
Confidence 4677799999999999999999999999996544
No 55
>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]
Probab=38.55 E-value=15 Score=33.42 Aligned_cols=49 Identities=27% Similarity=0.293 Sum_probs=37.7
Q ss_pred HHHHH---HHHHHHHHHHHHhcCCccccccchhhcccCcHHHHhhhcCceecCC
Q 034549 5 LEYLA---AEVLELAGNAARDNKKKKIIPRHVQLAVRNDEELGKLLTGVTIASG 55 (91)
Q Consensus 5 LEYLt---aEILELA~n~A~~~kk~rItPrhi~lAI~nD~EL~~Lf~~~tIa~g 55 (91)
-+-|| +.+|..|...|+..+..-+||.|+..++-.+. ..+|+.+-++.+
T Consensus 9 ~q~lT~~Aa~~L~~a~~~Arrrgh~qvtplH~~~~LLs~~--t~~lr~ac~~~~ 60 (898)
T KOG1051|consen 9 QQTLTEEAATVLKQAVTEARRRGHAQVTPLHVASTLLSSP--TGILRRACIKSH 60 (898)
T ss_pred HhhhCHHHHHHHHHHHHHHHHcCCCCcchHHHHHHHHcCC--chHHHHHHHhcC
Confidence 34454 45899999999999999999999999988875 466655444444
No 56
>KOG1745 consensus Histones H3 and H4 [Chromatin structure and dynamics]
Probab=38.12 E-value=18 Score=25.97 Aligned_cols=32 Identities=34% Similarity=0.516 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHHHhcCCccccccchhhccc
Q 034549 6 EYLAAEVLELAGNAARDNKKKKIIPRHVQLAVR 38 (91)
Q Consensus 6 EYLtaEILELA~n~A~~~kk~rItPrhi~lAI~ 38 (91)
-|| -.+.|-+.--|...++..|.|.+||+|.+
T Consensus 100 ayL-v~LfEdtnlcAihAkRVTimpkdiQlArr 131 (137)
T KOG1745|consen 100 AYL-VGLFEDTNLCAIHAKRVTIMPKDIQLARR 131 (137)
T ss_pred HHH-HHhccccchhhhccceeEecccceehhhh
Confidence 355 34566666667778999999999999975
No 57
>PF04823 Herpes_UL49_2: Herpesvirus UL49 tegument protein; InterPro: IPR006908 This is a family of herpesvirus UL49 tegument proteins. It was shown that interactions between herpesvirus envelope and tegument proteins may play a role in secondary envelopment during herpesvirus virion maturation.
Probab=38.01 E-value=17 Score=24.71 Aligned_cols=12 Identities=50% Similarity=0.828 Sum_probs=10.6
Q ss_pred cCcHHHHhhhcC
Q 034549 38 RNDEELGKLLTG 49 (91)
Q Consensus 38 ~nD~EL~~Lf~~ 49 (91)
++|+||+.|+..
T Consensus 67 rtneeLd~lL~~ 78 (96)
T PF04823_consen 67 RTNEELDRLLEA 78 (96)
T ss_pred CChHHHHHHHHh
Confidence 589999999985
No 58
>CHL00095 clpC Clp protease ATP binding subunit
Probab=37.28 E-value=20 Score=31.41 Aligned_cols=40 Identities=33% Similarity=0.394 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHhcCCccccccchhhcccCcHH--HHhhhc
Q 034549 9 AAEVLELAGNAARDNKKKKIIPRHVQLAVRNDEE--LGKLLT 48 (91)
Q Consensus 9 taEILELA~n~A~~~kk~rItPrhi~lAI~nD~E--L~~Lf~ 48 (91)
+.++|+.|...|...+...|+|.|+.+|+-++.+ ...+|.
T Consensus 84 ~~~vL~~A~~~A~~~~~~~I~~eHLLlALL~~~ds~a~~iL~ 125 (821)
T CHL00095 84 AKRVLEMSLEEARDLGHNYIGTEHLLLALLEEGEGVAARVLE 125 (821)
T ss_pred HHHHHHHHHHHHHHhCCCcccHHHHHHHHHhCCCchHHHHHH
Confidence 3578999999999999999999999999877644 344554
No 59
>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=36.89 E-value=42 Score=19.28 Aligned_cols=26 Identities=23% Similarity=0.215 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHhcCCccccccchhhc
Q 034549 11 EVLELAGNAARDNKKKKIIPRHVQLA 36 (91)
Q Consensus 11 EILELA~n~A~~~kk~rItPrhi~lA 36 (91)
.+=..+=..|++.+...||+.++.-|
T Consensus 19 ~~r~~~E~~Ar~~G~~~IT~e~v~~A 44 (45)
T PF08369_consen 19 KLRDAAEKYARERGYDEITVEVVDAA 44 (45)
T ss_dssp HHHHHHHHHHHHCT-SEE-HHHHHHH
T ss_pred HHHHHHHHHHHHcCCCeECHHHHHhh
Confidence 34445567889999999999998754
No 60
>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=36.56 E-value=40 Score=21.02 Aligned_cols=33 Identities=21% Similarity=0.316 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHhcCCccccccchhhcccC
Q 034549 7 YLAAEVLELAGNAARDNKKKKIIPRHVQLAVRN 39 (91)
Q Consensus 7 YLtaEILELA~n~A~~~kk~rItPrhi~lAI~n 39 (91)
=++..|++.|+..|+..+...+.+++|++.+..
T Consensus 32 dFv~~v~~~ac~lAKhR~s~tle~~Dv~~~Ler 64 (68)
T PF03847_consen 32 DFVDDVVSFACRLAKHRKSSTLEVKDVQLHLER 64 (68)
T ss_dssp HHHHHHHHHHHHHHHHTT-SEE-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhccCCCCCCHHHHHHHHHh
Confidence 345679999999999999999999999987643
No 61
>PLN00121 histone H3; Provisional
Probab=35.77 E-value=36 Score=24.27 Aligned_cols=32 Identities=28% Similarity=0.347 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHHHhcCCccccccchhhcc
Q 034549 6 EYLAAEVLELAGNAARDNKKKKIIPRHVQLAV 37 (91)
Q Consensus 6 EYLtaEILELA~n~A~~~kk~rItPrhi~lAI 37 (91)
|...-.++|-+.--|...++.-|+|++|+|+.
T Consensus 98 E~yLv~lfed~~lca~HakRVTl~~kD~~L~~ 129 (136)
T PLN00121 98 EAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAR 129 (136)
T ss_pred HHHHHHHHhhhHHHHHHhcceecchhhHHHHH
Confidence 44445678888777778899999999999984
No 62
>PHA02943 hypothetical protein; Provisional
Probab=32.88 E-value=58 Score=24.11 Aligned_cols=40 Identities=15% Similarity=0.148 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHhcCCccccccchhhcccCcHHHHhhhcC
Q 034549 10 AEVLELAGNAARDNKKKKIIPRHVQLAVRNDEELGKLLTG 49 (91)
Q Consensus 10 aEILELA~n~A~~~kk~rItPrhi~lAI~nD~EL~~Lf~~ 49 (91)
.+++---...-+.++.+.|+|..+..-|..|.|-..+|..
T Consensus 77 ~~~~Relwrlv~s~~~kfi~p~~l~~li~kd~~a~~~~ak 116 (165)
T PHA02943 77 FEIKRELWRLVCNSRLKFITPSRLLRLIAKDTEAHNIFAK 116 (165)
T ss_pred HHHHHHHHHHHHhccccccChHHHHHHHHhCHHHHHHHHH
Confidence 3444444455567889999999999999999999999975
No 63
>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=32.83 E-value=27 Score=30.79 Aligned_cols=33 Identities=27% Similarity=0.370 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHhcCCccccccchhhcccCcHH
Q 034549 10 AEVLELAGNAARDNKKKKIIPRHVQLAVRNDEE 42 (91)
Q Consensus 10 aEILELA~n~A~~~kk~rItPrhi~lAI~nD~E 42 (91)
.++|+.|...|...+...|.+.||-+|+-.|.+
T Consensus 83 ~~vLe~A~~~A~~~g~~~I~teHLLlALl~e~~ 115 (852)
T TIGR03346 83 NRLLNLAEKLAQKRGDEFISSEHLLLALLDDKG 115 (852)
T ss_pred HHHHHHHHHHHHHcCCCcccHHHHHHHHHcCCc
Confidence 479999999999988999999999999987754
No 64
>KOG3334 consensus Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=31.58 E-value=37 Score=24.71 Aligned_cols=31 Identities=29% Similarity=0.283 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHhcCCccccccchhhcccC
Q 034549 9 AAEVLELAGNAARDNKKKKIIPRHVQLAVRN 39 (91)
Q Consensus 9 taEILELA~n~A~~~kk~rItPrhi~lAI~n 39 (91)
|..||+-|.-.+...++.-|.-.++++||+.
T Consensus 47 tt~vL~DA~vys~HA~ka~i~~eDVrlA~~~ 77 (148)
T KOG3334|consen 47 TTTVLDDAKVYSSHAKKATIDAEDVRLAIQM 77 (148)
T ss_pred HHHHHHHHHHHHHhccCCCCcHHHHHHHHHH
Confidence 5689999988999999999999999999975
No 65
>PLN00161 histone H3; Provisional
Probab=30.67 E-value=66 Score=23.02 Aligned_cols=29 Identities=28% Similarity=0.362 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHhcCCccccccchhhcc
Q 034549 9 AAEVLELAGNAARDNKKKKIIPRHVQLAV 37 (91)
Q Consensus 9 taEILELA~n~A~~~kk~rItPrhi~lAI 37 (91)
.-.++|-+.--|...++.-|.|++|+|+.
T Consensus 95 LV~lFeda~lcaiHAkRVTlm~kDm~La~ 123 (135)
T PLN00161 95 LVHLFEDCNLCAIHAKRVTIMPKDMQLAR 123 (135)
T ss_pred HHHHHHHHHHHHHHhcCcccchhhHHHHH
Confidence 34577888777778899999999999884
No 66
>PF09453 HIRA_B: HIRA B motif; InterPro: IPR019015 The HirA B (Histone regulatory homologue A binding) motif is the essential binding interface between IPR011494 from INTERPRO and ASF1a, of approx. 40 residues. It forms an antiparallel beta-hairpin that binds perpendicular to the strands of the beta-sandwich of ASF1a N-terminal core domain, via beta-sheet, salt bridge and van der Waals interactions []. The two histone chaperone proteins, HIRA and ASF1a, form a heterodimer with histones H3 and H4. HIRA is the human orthologue of Hir proteins known to silence histone gene expression and create transcriptionally silent heterochromatin in yeast, flies, plants and humans. The HIR complex is composed of HIR1, HIR2, HIR3 and HPC2, and interacts with ASF1. The HIR complex cooperates with ASF1 to promote replication-independent chromatin assembly. The HIR complex is also required for the periodic repression of three of the four histone gene loci during cell cycle as well as for autogenous regulation of the HTA1-HTB1 locus by H2A and H2B. DNA-binding by the HIR complex may repress transcription by inhibiting nucleosome remodeling by the SWI/SNF complex. The HIR complex may also be required for transcriptional silencing of centromeric, telomeric and mating-type loci in the absence of CAF-1. ; GO: 0003682 chromatin binding, 0006355 regulation of transcription, DNA-dependent, 0016568 chromatin modification, 0005634 nucleus; PDB: 2I32_E.
Probab=30.61 E-value=17 Score=18.82 Aligned_cols=12 Identities=33% Similarity=0.625 Sum_probs=7.1
Q ss_pred hcCCccccccch
Q 034549 22 DNKKKKIIPRHV 33 (91)
Q Consensus 22 ~~kk~rItPrhi 33 (91)
.++|+||+|--|
T Consensus 8 k~GKkRi~P~li 19 (24)
T PF09453_consen 8 KDGKKRIAPTLI 19 (24)
T ss_dssp TTS-EEEE-EE-
T ss_pred cCCceEeccEEe
Confidence 478999999655
No 67
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=29.57 E-value=66 Score=25.34 Aligned_cols=34 Identities=15% Similarity=0.301 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHHhcCCccccccchhhcccCc
Q 034549 7 YLAAEVLELAGNAARDNKKKKIIPRHVQLAVRND 40 (91)
Q Consensus 7 YLtaEILELA~n~A~~~kk~rItPrhi~lAI~nD 40 (91)
=++..|...|+..|+..+...|-.++|+|.+.++
T Consensus 187 dFV~sii~~sC~LAKHRKsdtlEvrDIqLhLEr~ 220 (258)
T KOG1142|consen 187 DFVSSIIHRSCKLAKHRKSDTVEVRDIQLHLERN 220 (258)
T ss_pred HHHHHHHHHHHHHHHhcccCccchhheeeeeecc
Confidence 3456688889999999999999999999998876
No 68
>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=29.35 E-value=44 Score=24.11 Aligned_cols=36 Identities=31% Similarity=0.407 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCccccccchhhcccC
Q 034549 3 AVLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVRN 39 (91)
Q Consensus 3 AVLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~n 39 (91)
+.+||+.- +--.|..+|....++.|.|+|+--|+.|
T Consensus 42 ~cieFi~~-lsseAne~ce~EaKKTIa~EHviKALen 77 (148)
T COG5150 42 ACIEFINM-LSSEANEACEEEAKKTIAYEHVIKALEN 77 (148)
T ss_pred HHHHHHHH-HHHHHHHHHHHHHhccccHHHHHHHHHh
Confidence 45565532 1223445556667899999999999876
No 69
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=27.74 E-value=39 Score=30.36 Aligned_cols=34 Identities=32% Similarity=0.486 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHhcCCccccccchhhcccCcHH
Q 034549 9 AAEVLELAGNAARDNKKKKIIPRHVQLAVRNDEE 42 (91)
Q Consensus 9 taEILELA~n~A~~~kk~rItPrhi~lAI~nD~E 42 (91)
+.++|+.|...|+..+...|+|+||.+++-.+.+
T Consensus 6 ~~~~l~~a~~~a~~~~h~~~~~eHll~~ll~~~~ 39 (786)
T COG0542 6 AQKALELAQELARMRRHEYVTPEHLLLALLDQPK 39 (786)
T ss_pred HHHHHHHHHHHHHHhCCCcccHHHHHHHHHcCCc
Confidence 3578999999999999999999999999987654
No 70
>KOG0787 consensus Dehydrogenase kinase [Signal transduction mechanisms]
Probab=27.55 E-value=56 Score=27.35 Aligned_cols=55 Identities=22% Similarity=0.241 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCcccc-ccchhhccc-CcHHHHhhhcCceecCCcccCC
Q 034549 3 AVLEYLAAEVLELAGNAARDNKKKKII-PRHVQLAVR-NDEELGKLLTGVTIASGGVLPN 60 (91)
Q Consensus 3 AVLEYLtaEILELA~n~A~~~kk~rIt-Prhi~lAI~-nD~EL~~Lf~~~tIa~gGV~P~ 60 (91)
..|+|+..|++.=|..+..+.....=. +..|...|. +|++|-=.+.+ .+|||.+.
T Consensus 259 shL~ymlfElfKNamrATve~h~~~~~~~ppI~V~V~~gdeDl~ikISD---rGGGV~~~ 315 (414)
T KOG0787|consen 259 SHLYYMLFELFKNAMRATVEHHGDDGDELPPIKVTVAKGDEDLLIKISD---RGGGVPHR 315 (414)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhccCCCCCCCeEEEEecCCcceEEEEec---CCCCcChh
Confidence 369999999999998888776543332 555555554 56554322323 45677553
No 71
>KOG4412 consensus 26S proteasome regulatory complex, subunit PSMD10 [Posttranslational modification, protein turnover, chaperones]
Probab=25.10 E-value=48 Score=25.53 Aligned_cols=34 Identities=29% Similarity=0.383 Sum_probs=26.7
Q ss_pred ccccccchhhcccCcHHHHhhhcC----c-eecCCcccC
Q 034549 26 KKIIPRHVQLAVRNDEELGKLLTG----V-TIASGGVLP 59 (91)
Q Consensus 26 ~rItPrhi~lAI~nD~EL~~Lf~~----~-tIa~gGV~P 59 (91)
..-||-||..++.||+-...|+.. + .+.+||+.|
T Consensus 71 aGWtPlhia~s~g~~evVk~Ll~r~~advna~tn~G~T~ 109 (226)
T KOG4412|consen 71 AGWTPLHIAASNGNDEVVKELLNRSGADVNATTNGGQTC 109 (226)
T ss_pred cCCchhhhhhhcCcHHHHHHHhcCCCCCcceecCCCcce
Confidence 467899999999999999888863 2 356677765
No 72
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=24.99 E-value=49 Score=29.28 Aligned_cols=34 Identities=18% Similarity=0.219 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHhcCCccccccchhhcccCcHH
Q 034549 9 AAEVLELAGNAARDNKKKKIIPRHVQLAVRNDEE 42 (91)
Q Consensus 9 taEILELA~n~A~~~kk~rItPrhi~lAI~nD~E 42 (91)
..++|+.|...|+..+...|++.||.+|+..+.+
T Consensus 84 ~~~~l~~a~~~~~~~~~~~i~~~~ll~a~~~~~~ 117 (758)
T PRK11034 84 FQRVLQRAVFHVQSSGRSEVTGANVLVAIFSEQE 117 (758)
T ss_pred HHHHHHHHHHHHHHcCCCcccHHHHHHHHhcCCc
Confidence 3578999999999988899999999999987644
No 73
>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=93 Score=19.45 Aligned_cols=53 Identities=9% Similarity=0.164 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHHHHHHh-cC-Cccccccchhhccc-----------CcHHHHhhhcCceecCCccc
Q 034549 5 LEYLAAEVLELAGNAARD-NK-KKKIIPRHVQLAVR-----------NDEELGKLLTGVTIASGGVL 58 (91)
Q Consensus 5 LEYLtaEILELA~n~A~~-~k-k~rItPrhi~lAI~-----------nD~EL~~Lf~~~tIa~gGV~ 58 (91)
||+...++.+ +-....+ ++ .-.|+...+.-+++ .+++++.+|..+...+.|.+
T Consensus 3 ~~~~~~~l~~-~F~~~D~~dg~dG~Is~~El~~~l~~~~g~~lg~~~s~~ei~~~~~~~D~~~dg~I 68 (94)
T cd05031 3 LEHAMESLIL-TFHRYAGKDGDKNTLSRKELKKLMEKELSEFLKNQKDPMAVDKIMKDLDQNRDGKV 68 (94)
T ss_pred HHHHHHHHHH-HHHHHhccCCCCCeECHHHHHHHHHHHhHHHhhccccHHHHHHHHHHhCCCCCCcC
Confidence 5666666665 4444443 54 57899999987754 35778899876655555554
No 74
>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=24.24 E-value=95 Score=19.28 Aligned_cols=54 Identities=13% Similarity=0.232 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHHHHHHH-hcCCc-cccccchhhccc-----------CcHHHHhhhcCceecCCccc
Q 034549 4 VLEYLAAEVLELAGNAAR-DNKKK-KIIPRHVQLAVR-----------NDEELGKLLTGVTIASGGVL 58 (91)
Q Consensus 4 VLEYLtaEILELA~n~A~-~~kk~-rItPrhi~lAI~-----------nD~EL~~Lf~~~tIa~gGV~ 58 (91)
=||+-..++.+ +-+... ..+.. .|+...+..+++ .++++..+|..+.....|.+
T Consensus 3 ~~e~~~~~l~~-~F~~fDd~dg~G~~Is~~El~~~l~~~lg~~~~~~~s~~~v~~i~~~~D~d~~G~I 69 (92)
T cd05025 3 ELETAMETLIN-VFHAHSGKEGDKYKLSKKELKDLLQTELSDFLDAQKDADAVDKIMKELDENGDGEV 69 (92)
T ss_pred hHHHHHHHHHH-HHHHHhcccCCCCeECHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHCCCCCCcC
Confidence 36777655554 556664 56666 599999988875 35678888876555555544
No 75
>COG5248 TAF19 Transcription initiation factor TFIID, subunit TAF13 [Transcription]
Probab=23.80 E-value=97 Score=21.86 Aligned_cols=36 Identities=31% Similarity=0.446 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCccccccchhhcccCcHH
Q 034549 4 VLEYLAAEVLELAGNAARDNKKKKIIPRHVQLAVRNDEE 42 (91)
Q Consensus 4 VLEYLtaEILELA~n~A~~~kk~rItPrhi~lAI~nD~E 42 (91)
|+.|+ .+++--|.+.|...++.+ -.++-.|++.|+-
T Consensus 40 V~dY~-~~~ctna~~~Aq~rnK~k--~eDfkfaLr~Dpk 75 (126)
T COG5248 40 VLDYM-SILCTNAHNMAQVRNKTK--TEDFKFALRRDPK 75 (126)
T ss_pred HHHHH-HHHHHHHHHHHHhcccch--HHHHHHHHhhChH
Confidence 55565 445555667777555544 5788899998853
No 76
>COG5251 TAF40 Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=23.11 E-value=84 Score=23.77 Aligned_cols=36 Identities=28% Similarity=0.253 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHHHHHHhcC-CccccccchhhcccC
Q 034549 4 VLEYLAAEVLELAGNAARDNK-KKKIIPRHVQLAVRN 39 (91)
Q Consensus 4 VLEYLtaEILELA~n~A~~~k-k~rItPrhi~lAI~n 39 (91)
|---+..||+|||..+-..-. .....|.|++-|++-
T Consensus 144 ~~KVfvGEiIElA~~Vq~~w~~sgpl~p~h~reayr~ 180 (199)
T COG5251 144 VGKVFVGEIIELAMIVQNKWLTSGPLIPFHKREAYRY 180 (199)
T ss_pred hhHHHHHHHHHHHHHHHHHhcccCCCChHHHHHHHHH
Confidence 334467899999977665432 357889999988864
No 77
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=22.90 E-value=1e+02 Score=23.74 Aligned_cols=29 Identities=24% Similarity=0.327 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHhcCCccccccchhhcccC
Q 034549 11 EVLELAGNAARDNKKKKIIPRHVQLAVRN 39 (91)
Q Consensus 11 EILELA~n~A~~~kk~rItPrhi~lAI~n 39 (91)
.+|..|+..|...+...|++.|+..|+..
T Consensus 253 ~ll~~a~~~a~~~~~~~I~~~~v~~a~~~ 281 (394)
T PRK00411 253 DLLRRAGLIAEREGSRKVTEEDVRKAYEK 281 (394)
T ss_pred HHHHHHHHHHHHcCCCCcCHHHHHHHHHH
Confidence 34566666677777889999999988764
No 78
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=22.26 E-value=56 Score=22.70 Aligned_cols=49 Identities=24% Similarity=0.313 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHHHhcCCccccccchhhcccCcHH---HHh---hhcCceecCCc
Q 034549 8 LAAEVLELAGNAARDNKKKKIIPRHVQLAVRNDEE---LGK---LLTGVTIASGG 56 (91)
Q Consensus 8 LtaEILELA~n~A~~~kk~rItPrhi~lAI~nD~E---L~~---Lf~~~tIa~gG 56 (91)
|+-.++++..+.|++++-++|+--.+.+.-..+-+ |.. .+...||+.|.
T Consensus 6 la~aii~~i~~~A~~~~a~~V~~V~l~IG~ls~v~~~~l~FaFev~~egT~aega 60 (115)
T COG0375 6 LAQAIIELIEEQAEKHGAKRVTAVWLEIGELSCVEPEALRFAFEVVAEGTIAEGA 60 (115)
T ss_pred HHHHHHHHHHHHHHHcCCceEEEEEEEEcceeccCHHHHHHHHHHHhccCcccCC
Confidence 45679999999999999999888887766655433 322 23355777764
No 79
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=22.21 E-value=67 Score=25.77 Aligned_cols=32 Identities=28% Similarity=0.420 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHhcCCccccccchhhcccCcHHH
Q 034549 11 EVLELAGNAARDNKKKKIIPRHVQLAVRNDEEL 43 (91)
Q Consensus 11 EILELA~n~A~~~kk~rItPrhi~lAI~nD~EL 43 (91)
.+|..|++.|...+...|++.|+..| +.+.|.
T Consensus 236 dilr~A~eiAe~~~~~~v~~~~v~~a-~~~~~~ 267 (366)
T COG1474 236 DILRRAGEIAEREGSRKVSEDHVREA-QEEIER 267 (366)
T ss_pred HHHHHHHHHHHhhCCCCcCHHHHHHH-HHHhhH
Confidence 58999999999999999999999999 444443
No 80
>PHA03381 tegument protein VP22; Provisional
Probab=21.67 E-value=47 Score=26.32 Aligned_cols=18 Identities=50% Similarity=0.844 Sum_probs=14.0
Q ss_pred cCcHHHHhhhcC----ceecCC
Q 034549 38 RNDEELGKLLTG----VTIASG 55 (91)
Q Consensus 38 ~nD~EL~~Lf~~----~tIa~g 55 (91)
+||+||+.|++. |||..|
T Consensus 224 rtnEeLd~fL~~AvIRITVcEG 245 (290)
T PHA03381 224 RNDEELNDLLGATNIRIIVCEG 245 (290)
T ss_pred CchHHHHHHHhhceEEEEeecc
Confidence 689999999984 455555
No 81
>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=21.31 E-value=70 Score=24.28 Aligned_cols=28 Identities=25% Similarity=0.449 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHhcCCccccccchhhccc
Q 034549 11 EVLELAGNAARDNKKKKIIPRHVQLAVR 38 (91)
Q Consensus 11 EILELA~n~A~~~kk~rItPrhi~lAI~ 38 (91)
.+|..|+..|...++..|++.|+.-|+.
T Consensus 245 ~~l~~a~~~a~~~~~~~it~~~v~~a~~ 272 (365)
T TIGR02928 245 DLLRVAGEIAEREGAERVTEDHVEKAQE 272 (365)
T ss_pred HHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 4677777778777888999999997754
No 82
>PF13654 AAA_32: AAA domain; PDB: 3K1J_B.
Probab=21.20 E-value=69 Score=26.99 Aligned_cols=30 Identities=33% Similarity=0.392 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHhcCCccccccchhhcccC
Q 034549 10 AEVLELAGNAARDNKKKKIIPRHVQLAVRN 39 (91)
Q Consensus 10 aEILELA~n~A~~~kk~rItPrhi~lAI~n 39 (91)
.++|.-|...|+..+...|+..||+.||..
T Consensus 476 ~~ll~EA~~~A~~~~~~~I~~~~V~~Ai~~ 505 (509)
T PF13654_consen 476 ADLLREANYWARKEGAKVITAEHVEQAIEE 505 (509)
T ss_dssp HHHHHHHHHHHHHCT-SSB-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhCCCccCHHHHHHHHHc
Confidence 568888888998899999999999999864
No 83
>COG5094 TAF9 Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=20.93 E-value=90 Score=22.50 Aligned_cols=32 Identities=28% Similarity=0.297 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHhcCCccccc---cchhhcccCc
Q 034549 9 AAEVLELAGNAARDNKKKKIIP---RHVQLAVRND 40 (91)
Q Consensus 9 taEILELA~n~A~~~kk~rItP---rhi~lAI~nD 40 (91)
|..|||=|.-.|...++.-|++ ++++||+..-
T Consensus 48 Tq~vl~Dalvya~htgrg~~a~l~veDvrLA~at~ 82 (145)
T COG5094 48 TQDVLEDALVYAKHTGRGHIATLGVEDVRLALATK 82 (145)
T ss_pred HHHHHHHHHHHHHhcCCCccCcccHHHHHHHHHHH
Confidence 5678888988999999999999 9999998753
Done!