Query 032326
Match_columns 143
No_of_seqs 109 out of 507
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 12:37:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032326.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032326hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00157 histone H2A; Provisio 100.0 5.4E-50 1.2E-54 301.1 11.9 121 17-137 11-132 (132)
2 PLN00156 histone H2AX; Provisi 100.0 2E-49 4.3E-54 299.9 11.8 121 10-130 8-128 (139)
3 PTZ00252 histone H2A; Provisio 100.0 4.2E-49 9.1E-54 296.2 11.6 117 22-143 16-134 (134)
4 PLN00153 histone H2A; Provisio 100.0 4.7E-49 1E-53 295.0 10.9 111 20-130 13-123 (129)
5 PTZ00017 histone H2A; Provisio 100.0 1.1E-48 2.4E-53 294.7 11.6 114 18-131 14-127 (134)
6 PLN00154 histone H2A; Provisio 100.0 6.5E-47 1.4E-51 285.1 11.1 110 18-128 24-135 (136)
7 smart00414 H2A Histone 2A. 100.0 1.1E-46 2.3E-51 274.7 9.8 105 23-127 1-105 (106)
8 KOG1756 Histone 2A [Chromatin 100.0 2.5E-46 5.3E-51 278.6 10.5 120 10-129 6-125 (131)
9 cd00074 H2A Histone 2A; H2A is 100.0 9.3E-46 2E-50 273.1 11.0 109 18-126 7-115 (115)
10 COG5262 HTA1 Histone H2A [Chro 100.0 8.8E-45 1.9E-49 267.6 9.4 124 8-132 4-127 (132)
11 KOG1757 Histone 2A [Chromatin 100.0 3E-41 6.5E-46 247.5 4.1 123 8-131 3-130 (131)
12 PLN00155 histone H2A; Provisio 99.8 3.5E-21 7.6E-26 126.5 4.4 46 20-65 13-58 (58)
13 PF00125 Histone: Core histone 99.5 1.3E-14 2.8E-19 97.8 5.2 74 24-97 1-75 (75)
14 COG5247 BUR6 Class 2 transcrip 99.5 2.2E-14 4.7E-19 104.0 6.1 80 27-106 19-98 (113)
15 KOG1659 Class 2 transcription 99.3 6E-12 1.3E-16 101.5 6.2 80 26-105 8-87 (224)
16 PF00808 CBFD_NFYB_HMF: Histon 98.9 2.8E-09 6.1E-14 70.4 6.2 64 31-94 2-65 (65)
17 PTZ00015 histone H4; Provision 98.4 1.3E-06 2.9E-11 63.6 6.6 80 13-95 14-93 (102)
18 PLN00035 histone H4; Provision 98.4 1.3E-06 2.8E-11 63.8 6.3 72 22-96 22-93 (103)
19 KOG1657 CCAAT-binding factor, 98.2 2E-06 4.4E-11 70.7 4.0 82 25-106 68-149 (236)
20 smart00803 TAF TATA box bindin 98.2 8.7E-06 1.9E-10 54.5 6.4 64 31-95 2-65 (65)
21 COG5208 HAP5 CCAAT-binding fac 98.1 6.1E-06 1.3E-10 67.6 6.4 76 30-105 108-183 (286)
22 COG2036 HHT1 Histones H3 and H 98.0 8E-06 1.7E-10 58.4 4.4 67 28-95 16-82 (91)
23 cd00076 H4 Histone H4, one of 97.9 3.3E-05 7.2E-10 54.5 5.3 72 22-96 6-77 (85)
24 smart00417 H4 Histone H4. 97.4 0.00042 9.1E-09 47.8 4.9 67 23-92 7-73 (74)
25 cd08048 TAF11 TATA Binding Pro 97.3 0.0012 2.6E-08 46.5 7.0 63 32-95 17-82 (85)
26 cd07981 TAF12 TATA Binding Pro 97.3 0.0014 3E-08 44.4 6.6 66 33-98 3-68 (72)
27 PF04719 TAFII28: hTAFII28-lik 96.6 0.0058 1.3E-07 43.6 5.3 64 32-95 24-88 (90)
28 PF02969 TAF: TATA box binding 96.6 0.01 2.2E-07 40.0 6.2 64 31-95 3-66 (66)
29 KOG3219 Transcription initiati 96.5 0.0039 8.4E-08 50.1 4.5 65 30-95 111-176 (195)
30 cd07979 TAF9 TATA Binding Prot 96.5 0.0098 2.1E-07 44.0 6.3 64 35-99 5-68 (117)
31 PLN00158 histone H2B; Provisio 96.5 0.013 2.8E-07 43.6 6.9 61 35-95 31-91 (116)
32 PTZ00463 histone H2B; Provisio 96.1 0.043 9.3E-07 41.0 7.6 60 36-95 33-92 (117)
33 cd08050 TAF6 TATA Binding Prot 95.9 0.025 5.4E-07 48.5 6.6 65 37-102 5-71 (343)
34 smart00427 H2B Histone H2B. 95.7 0.044 9.6E-07 39.1 6.2 60 36-95 6-65 (89)
35 smart00576 BTP Bromodomain tra 95.3 0.085 1.8E-06 35.9 6.3 59 37-96 12-70 (77)
36 PF09415 CENP-X: CENP-S associ 95.2 0.11 2.3E-06 35.5 6.5 61 33-93 1-64 (72)
37 smart00428 H3 Histone H3. 94.0 0.19 4.2E-06 36.7 5.8 68 28-95 26-99 (105)
38 KOG3467 Histone H4 [Chromatin 92.9 0.33 7.2E-06 34.8 5.4 84 9-95 9-92 (103)
39 KOG1744 Histone H2B [Chromatin 92.7 0.86 1.9E-05 34.5 7.6 66 27-95 36-101 (127)
40 KOG0869 CCAAT-binding factor, 92.3 0.51 1.1E-05 37.1 6.1 65 31-95 32-97 (168)
41 KOG1658 DNA polymerase epsilon 92.1 0.14 3E-06 40.1 2.7 76 30-105 58-133 (162)
42 PF15630 CENP-S: Kinetochore c 91.5 0.87 1.9E-05 31.4 6.0 69 28-100 5-76 (76)
43 PF03847 TFIID_20kDa: Transcri 91.1 0.86 1.9E-05 30.7 5.5 62 36-97 4-65 (68)
44 KOG0871 Class 2 transcription 89.4 1.6 3.4E-05 34.1 6.3 69 27-96 8-78 (156)
45 PF15511 CENP-T: Centromere ki 88.5 0.81 1.8E-05 40.4 4.8 72 18-89 338-414 (414)
46 cd07978 TAF13 The TATA Binding 88.1 3.1 6.8E-05 29.5 6.8 39 63-102 31-72 (92)
47 PF02269 TFIID-18kDa: Transcri 87.0 0.69 1.5E-05 32.7 2.9 47 59-105 26-75 (93)
48 PF02291 TFIID-31kDa: Transcri 86.3 3.6 7.8E-05 31.0 6.6 59 35-97 16-77 (129)
49 KOG0870 DNA polymerase epsilon 85.7 3.1 6.6E-05 33.0 6.1 67 29-95 8-76 (172)
50 PF07524 Bromo_TP: Bromodomain 85.6 4.3 9.4E-05 27.1 6.2 56 39-95 14-69 (77)
51 PLN00161 histone H3; Provision 84.9 5.7 0.00012 30.4 7.1 68 28-95 52-124 (135)
52 PF02861 Clp_N: Clp amino term 81.7 1.6 3.5E-05 26.3 2.6 34 73-106 1-36 (53)
53 KOG1142 Transcription initiati 75.1 3.8 8.2E-05 34.4 3.6 68 32-99 155-222 (258)
54 PTZ00018 histone H3; Provision 74.8 7.8 0.00017 29.6 4.9 66 29-94 60-129 (136)
55 PLN00121 histone H3; Provision 74.0 8.5 0.00018 29.4 5.0 66 29-94 60-129 (136)
56 PLN00160 histone H3; Provision 73.7 8.4 0.00018 27.8 4.7 68 28-95 18-90 (97)
57 COG5251 TAF40 Transcription in 72.8 6.8 0.00015 31.4 4.3 64 32-96 116-180 (199)
58 KOG1745 Histones H3 and H4 [Ch 67.4 5 0.00011 30.8 2.4 61 35-95 70-131 (137)
59 PF12096 DUF3572: Protein of u 66.5 4.4 9.6E-05 28.8 1.9 55 35-94 22-80 (88)
60 COG5150 Class 2 transcription 64.1 15 0.00033 28.1 4.5 65 29-96 9-77 (148)
61 COG1474 CDC6 Cdc6-related prot 55.1 35 0.00076 29.6 5.8 75 27-102 182-269 (366)
62 PF13335 Mg_chelatase_2: Magne 54.0 19 0.00041 25.4 3.4 47 49-95 42-94 (96)
63 PRK11034 clpA ATP-dependent Cl 47.8 30 0.00064 33.1 4.5 41 66-106 6-46 (758)
64 TIGR02928 orc1/cdc6 family rep 47.8 93 0.002 25.8 7.1 47 50-96 221-273 (365)
65 PF13654 AAA_32: AAA domain; P 46.7 17 0.00037 33.0 2.7 59 31-96 447-505 (509)
66 COG3636 Predicted transcriptio 46.6 23 0.0005 25.8 2.8 54 52-105 21-83 (100)
67 PF08369 PCP_red: Proto-chloro 46.4 49 0.0011 20.3 4.0 27 67-93 18-44 (45)
68 PF04604 L_biotic_typeA: Type- 46.1 12 0.00027 24.1 1.2 22 96-120 16-37 (51)
69 TIGR02639 ClpA ATP-dependent C 43.5 37 0.0008 31.9 4.4 39 67-105 6-44 (731)
70 COG5094 TAF9 Transcription ini 43.3 1.2E+02 0.0027 23.1 6.4 61 36-97 19-82 (145)
71 KOG3334 Transcription initiati 42.9 1.2E+02 0.0027 23.5 6.5 57 37-97 19-78 (148)
72 KOG1658 DNA polymerase epsilon 42.8 46 0.00099 26.2 4.1 73 28-105 8-80 (162)
73 KOG3901 Transcription initiati 41.8 47 0.001 24.5 3.8 37 63-100 38-75 (109)
74 PRK00411 cdc6 cell division co 41.3 1.1E+02 0.0025 25.6 6.7 68 29-96 201-281 (394)
75 COG1067 LonB Predicted ATP-dep 37.3 46 0.001 31.4 4.0 38 67-104 369-406 (647)
76 PF12767 SAGA-Tad1: Transcript 33.4 70 0.0015 26.0 4.1 41 35-76 210-250 (252)
77 CHL00095 clpC Clp protease ATP 32.9 58 0.0013 31.1 4.0 33 67-99 10-42 (821)
78 KOG0787 Dehydrogenase kinase [ 32.5 14 0.0003 33.0 -0.2 60 55-117 254-315 (414)
79 PHA02669 hypothetical protein; 32.0 70 0.0015 25.7 3.7 17 54-70 12-28 (210)
80 PF15510 CENP-W: Centromere ki 31.6 1.6E+02 0.0035 21.3 5.2 66 29-94 14-93 (102)
81 KOG2549 Transcription initiati 30.1 1.1E+02 0.0024 28.6 5.2 48 48-95 27-74 (576)
82 TIGR02263 benz_CoA_red_C benzo 29.8 1.1E+02 0.0024 26.4 5.0 44 61-105 136-179 (380)
83 TIGR03346 chaperone_ClpB ATP-d 28.2 88 0.0019 30.1 4.4 40 66-105 5-46 (852)
84 cd05031 S-100A10_like S-100A10 27.8 1.7E+02 0.0037 19.7 4.8 53 62-114 3-67 (94)
85 KOG1051 Chaperone HSP104 and r 27.6 67 0.0014 31.6 3.5 46 60-107 7-55 (898)
86 TIGR03345 VI_ClpV1 type VI sec 26.9 93 0.002 30.1 4.3 40 66-105 5-46 (852)
87 COG4905 Predicted membrane pro 26.0 67 0.0015 26.4 2.7 21 55-75 71-91 (243)
88 TIGR02639 ClpA ATP-dependent C 25.5 88 0.0019 29.4 3.8 34 66-99 82-115 (731)
89 KOG4552 Vitamin-D-receptor int 25.4 1E+02 0.0022 25.7 3.7 49 58-106 16-65 (272)
90 PF04558 tRNA_synt_1c_R1: Glut 24.9 85 0.0018 24.4 3.1 42 53-95 82-127 (164)
91 PRK10865 protein disaggregatio 24.6 1.1E+02 0.0024 29.6 4.3 40 66-105 10-51 (857)
92 PHA02943 hypothetical protein; 24.0 1.9E+02 0.004 22.9 4.7 41 66-106 76-116 (165)
93 cd05025 S-100A1 S-100A1: S-100 23.5 1.8E+02 0.004 19.4 4.2 52 62-114 4-68 (92)
94 COG4430 Uncharacterized protei 23.4 83 0.0018 25.6 2.8 47 61-107 110-159 (200)
95 TIGR00764 lon_rel lon-related 22.9 1.1E+02 0.0023 28.5 3.8 31 67-97 361-391 (608)
96 CHL00095 clpC Clp protease ATP 22.1 1E+02 0.0022 29.5 3.6 40 66-105 84-125 (821)
97 COG5095 TAF6 Transcription ini 22.0 1.9E+02 0.0041 25.7 4.8 61 34-95 8-68 (450)
98 COG5248 TAF19 Transcription in 21.8 3.3E+02 0.007 20.4 5.4 52 49-100 24-76 (126)
99 PF09377 SBDS_C: SBDS protein 21.8 1.8E+02 0.0038 21.4 4.1 30 27-56 18-47 (125)
100 TIGR01128 holA DNA polymerase 21.2 3E+02 0.0065 21.9 5.7 63 34-100 113-181 (302)
101 PF09123 DUF1931: Domain of un 21.0 47 0.001 25.5 0.9 45 49-93 12-56 (138)
102 cd05026 S-100Z S-100Z: S-100Z 20.8 2.7E+02 0.0058 18.9 4.7 52 62-113 5-68 (93)
103 PF13376 OmdA: Bacteriocin-pro 20.5 93 0.002 19.9 2.1 23 84-106 4-26 (63)
No 1
>PLN00157 histone H2A; Provisional
Probab=100.00 E-value=5.4e-50 Score=301.05 Aligned_cols=121 Identities=74% Similarity=1.142 Sum_probs=113.7
Q ss_pred CCCcc-cccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326 17 GERKK-ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR 95 (143)
Q Consensus 17 ~~~~~-~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~ 95 (143)
+.+++ .|+|+||||||||+||+|||++++|+.||+.+|+|||+||||||++||||||+|+|++++++||+|+||++||+
T Consensus 11 ~~~~k~~srS~ragL~FPVgRi~R~Lk~g~~a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~ 90 (132)
T PLN00157 11 GGGKKATSRSAKAGLQFPVGRIARYLKAGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRIVPRHIQLAVR 90 (132)
T ss_pred ccCcCCcCcccccCcccchHHHHHHHhcCchhhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHhhccc
Confidence 33444 89999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccHHHHhhhcCceecCCccCCCCCccCCCCCCCCCCCCCCCC
Q 032326 96 NDDELGKLLQGVTIASGGVLPNINPVLLPKKTTSTSETPKSP 137 (143)
Q Consensus 96 nD~EL~~L~~~~~Ia~ggv~P~~~~~l~~~k~~~~~~~~~~~ 137 (143)
||+||+.||++|||++|||+|+||++|+++|.+++..++|.|
T Consensus 91 nDeEL~~Ll~~vtIa~GGV~P~i~~~ll~kk~~~~~~~~~~~ 132 (132)
T PLN00157 91 NDEELSKLLGGVTIAAGGVLPNIHSVLLPKKSGKSKGEPKDP 132 (132)
T ss_pred CcHHHHHHHcCceecCCccCCCcchhhcCCCCCCCCCCCCCC
Confidence 999999999999999999999999999999987666666653
No 2
>PLN00156 histone H2AX; Provisional
Probab=100.00 E-value=2e-49 Score=299.90 Aligned_cols=121 Identities=72% Similarity=1.088 Sum_probs=112.5
Q ss_pred CCCCCCCCCCcccccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhh
Q 032326 10 AGGRRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRH 89 (143)
Q Consensus 10 ~~~~~~~~~~~~~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~h 89 (143)
++|+++.+.++..|||+||||||||+||+|||++++|+.||+.+|||||+||||||++||||||+|+|++++++||+|+|
T Consensus 8 ~~~~g~~~~~k~~srS~rAgL~FPVgRi~R~Lk~g~ya~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrH 87 (139)
T PLN00156 8 KGGRGKPKATKSVSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRH 87 (139)
T ss_pred CCCCCcccccCCcCcccccCcccchHHHHHHHhcCChhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHH
Confidence 44555444445599999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhccHHHHhhhcCceecCCccCCCCCccCCCCCCCCC
Q 032326 90 VLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKTTST 130 (143)
Q Consensus 90 I~~AI~nD~EL~~L~~~~~Ia~ggv~P~~~~~l~~~k~~~~ 130 (143)
|++||+||+|||.||++|||++|||+|+||++|+++|+++.
T Consensus 88 i~lAIrnDeEL~~Ll~~vTIa~GGV~P~i~~~l~~kk~~~~ 128 (139)
T PLN00156 88 IQLAVRNDEELSKLLGSVTIAAGGVLPNIHQTLLPKKVGKG 128 (139)
T ss_pred HHhhccCcHHHHHHHCCCccCCCccCCCccHhhcccccccc
Confidence 99999999999999999999999999999999999988644
No 3
>PTZ00252 histone H2A; Provisional
Probab=100.00 E-value=4.2e-49 Score=296.24 Aligned_cols=117 Identities=50% Similarity=0.856 Sum_probs=106.9
Q ss_pred cccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHh--cCCcccchhhHHHHhhccHH
Q 032326 22 ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARD--NKKNRINPRHVLLAVRNDDE 99 (143)
Q Consensus 22 ~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~--~~~krItP~hI~~AI~nD~E 99 (143)
.+||+||||||||+||+|||++++|+.||+++|||||+||||||++||||||+|+|++ ++++||+|+||++||+||+|
T Consensus 16 ~~rS~rAGL~FPVgRi~R~Lr~g~ya~RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~kk~RItPrHi~lAIrNDeE 95 (134)
T PTZ00252 16 SGRSAKAGLIFPVGRVGSLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPKRLTPRTVTLAVRHDDD 95 (134)
T ss_pred cccccccCccCchHHHHHHHHcCCcccccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccccHHHHHhhccChHH
Confidence 3499999999999999999999999999999999999999999999999999999976 67899999999999999999
Q ss_pred HHhhhcCceecCCccCCCCCccCCCCCCCCCCCCCCCCCCCCCC
Q 032326 100 LGKLLQGVTIASGGVLPNINPVLLPKKTTSTSETPKSPKSPKKA 143 (143)
Q Consensus 100 L~~L~~~~~Ia~ggv~P~~~~~l~~~k~~~~~~~~~~~~~~~~~ 143 (143)
||.||++|||++|||+|+||++|+++++.. +..|++|+|
T Consensus 96 L~~Ll~~vTIa~GGVlP~i~~~l~~k~~~~-----~~~~~~~~~ 134 (134)
T PTZ00252 96 LGSLLKNVTLSRGGVMPSLNKALAKKHKSG-----KKAKATPSA 134 (134)
T ss_pred HHHHHcCCccCCCccCCCccHhhccccccC-----CCCCCCCCC
Confidence 999999999999999999999999994432 233466664
No 4
>PLN00153 histone H2A; Provisional
Probab=100.00 E-value=4.7e-49 Score=294.98 Aligned_cols=111 Identities=78% Similarity=1.197 Sum_probs=107.0
Q ss_pred cccccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHH
Q 032326 20 KKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDE 99 (143)
Q Consensus 20 ~~~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~E 99 (143)
+..|||+||||||||+||+|||++++|+.||+++|||||+||||||++||||||+|+|++++++||+|+||++||+||+|
T Consensus 13 k~~srS~ragL~FpVgRi~R~Lr~g~~a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~nDeE 92 (129)
T PLN00153 13 KAVSRSAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVPRHIQLAIRNDEE 92 (129)
T ss_pred CccCcccccCcccchHHHHHHHhcCchhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccChHHHHhhccCcHH
Confidence 34899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhhcCceecCCccCCCCCccCCCCCCCCC
Q 032326 100 LGKLLQGVTIASGGVLPNINPVLLPKKTTST 130 (143)
Q Consensus 100 L~~L~~~~~Ia~ggv~P~~~~~l~~~k~~~~ 130 (143)
||.||++|||++|||+|+||++|+++|.+++
T Consensus 93 L~~Ll~~vTIa~GGV~P~i~~~l~~kk~~~~ 123 (129)
T PLN00153 93 LGKLLGEVTIASGGVLPNIHAVLLPKKTKGG 123 (129)
T ss_pred HHHHHCCCccCCCccCCCcchhhcCcccCCC
Confidence 9999999999999999999999999986444
No 5
>PTZ00017 histone H2A; Provisional
Probab=100.00 E-value=1.1e-48 Score=294.73 Aligned_cols=114 Identities=73% Similarity=1.165 Sum_probs=108.6
Q ss_pred CCcccccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhcc
Q 032326 18 ERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRND 97 (143)
Q Consensus 18 ~~~~~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD 97 (143)
+++..|||+||||||||+||+|||++++|+.||+.+|+|||+||||||++||||||+|+|++++++||+|+||++||+||
T Consensus 14 ~~k~~srS~ragL~FPVgRi~R~Lk~g~~a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~RItPrHi~lAI~nD 93 (134)
T PTZ00017 14 KKKPVSRSAKAGLQFPVGRVHRYLKKGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLAIRND 93 (134)
T ss_pred CcCcccccccCCcccchHHHHHHHhccchhccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHhhccCc
Confidence 33448999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhhcCceecCCccCCCCCccCCCCCCCCCC
Q 032326 98 DELGKLLQGVTIASGGVLPNINPVLLPKKTTSTS 131 (143)
Q Consensus 98 ~EL~~L~~~~~Ia~ggv~P~~~~~l~~~k~~~~~ 131 (143)
+|||.||+++||++|||+|+||++|+++|.+.+.
T Consensus 94 eEL~~Ll~~vtIa~GGV~P~i~~~l~~k~~~~~~ 127 (134)
T PTZ00017 94 EELNKLLAGVTIASGGVLPNIHKVLLPKKSKPKQ 127 (134)
T ss_pred HHHHHHHcCCcccCCccCCCccHhhccCCCCccc
Confidence 9999999999999999999999999999875544
No 6
>PLN00154 histone H2A; Provisional
Probab=100.00 E-value=6.5e-47 Score=285.14 Aligned_cols=110 Identities=56% Similarity=0.864 Sum_probs=104.1
Q ss_pred CCcc-cccccccccccchhhHHHHHhccC-cccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326 18 ERKK-ISKSVKAGLQFPVGRIARFLKKGR-YAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR 95 (143)
Q Consensus 18 ~~~~-~srs~RagL~FpVsri~r~Lr~~~-~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~ 95 (143)
.+++ .|||+||||||||+||+|+|+++. |..||+.+|||||+||||||++||||||+|+|++++++||+|+||++||+
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 3444 999999999999999999999997 46799999999999999999999999999999999999999999999999
Q ss_pred ccHHHHhhhcCceecCCccCCCCCccCCCCCCC
Q 032326 96 NDDELGKLLQGVTIASGGVLPNINPVLLPKKTT 128 (143)
Q Consensus 96 nD~EL~~L~~~~~Ia~ggv~P~~~~~l~~~k~~ 128 (143)
||+||++||+ +||++|||+|+||++|+++|.+
T Consensus 104 nDeEL~~Ll~-~TIa~GGVlP~i~~~l~~k~~~ 135 (136)
T PLN00154 104 GDEELDTLIK-GTIAGGGVIPHIHKSLINKSTK 135 (136)
T ss_pred CcHHHHHHhc-CCccCCccCCCcchhhcccccC
Confidence 9999999998 6999999999999999998764
No 7
>smart00414 H2A Histone 2A.
Probab=100.00 E-value=1.1e-46 Score=274.68 Aligned_cols=105 Identities=77% Similarity=1.209 Sum_probs=103.3
Q ss_pred ccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHh
Q 032326 23 SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGK 102 (143)
Q Consensus 23 srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~ 102 (143)
|||+||||||||+||+|||++++|++||+++|+|||+||||||++||||+|+|+|++++++||+|+||++||+||+|||+
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 032326 103 LLQGVTIASGGVLPNINPVLLPKKT 127 (143)
Q Consensus 103 L~~~~~Ia~ggv~P~~~~~l~~~k~ 127 (143)
||+++||++|||+|+||++|+++|+
T Consensus 81 L~~~vti~~ggv~p~i~~~l~~~~~ 105 (106)
T smart00414 81 LLKGVTIAQGGVLPNIHKVLLPKKT 105 (106)
T ss_pred HHcCcccCCCccCCCcchhhcccCC
Confidence 9999999999999999999999985
No 8
>KOG1756 consensus Histone 2A [Chromatin structure and dynamics]
Probab=100.00 E-value=2.5e-46 Score=278.55 Aligned_cols=120 Identities=69% Similarity=1.082 Sum_probs=111.1
Q ss_pred CCCCCCCCCCcccccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhh
Q 032326 10 AGGRRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRH 89 (143)
Q Consensus 10 ~~~~~~~~~~~~~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~h 89 (143)
+.|+...+++++.++|.|+||||||+||+|+|++++|.+||+.+|||||+||||||++||||+|+|+|+++++.||+|+|
T Consensus 6 k~gk~~~~~~~~~srs~~agl~fPvgri~r~Lr~~~~~~ri~~gapV~laavLeYL~Aeile~agnaardnkk~ri~PrH 85 (131)
T KOG1756|consen 6 KGGKAKPRAKAKSSRSSRAGLQFPVGRIHRLLRKGRYAQRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRITPRH 85 (131)
T ss_pred CCCcccchhhhhcchhhhcccccCHHHHHHHHHccchhhhccCCChHHHHHHHHHHHHHHHHHhHHHhhhcCccccChHH
Confidence 34444333444489999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhccHHHHhhhcCceecCCccCCCCCccCCCCCCCC
Q 032326 90 VLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKTTS 129 (143)
Q Consensus 90 I~~AI~nD~EL~~L~~~~~Ia~ggv~P~~~~~l~~~k~~~ 129 (143)
|++||+||+||++|+++|||++|||+|+||+.|+++|..+
T Consensus 86 ~~lAI~NDeEL~~lL~~vtIa~GGvlPnI~~~lLpKk~~~ 125 (131)
T KOG1756|consen 86 LQLAIRNDEELNKLLGKVTIAQGGVLPNIQAILLPKKTGK 125 (131)
T ss_pred HHHHHhCcHHHHHHhccceeccCCcccccchhhccccccc
Confidence 9999999999999999999999999999999999998755
No 9
>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=9.3e-46 Score=273.13 Aligned_cols=109 Identities=79% Similarity=1.207 Sum_probs=105.0
Q ss_pred CCcccccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhcc
Q 032326 18 ERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRND 97 (143)
Q Consensus 18 ~~~~~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD 97 (143)
.++++|+|+|+||+|||+||+|||+++.|+.||+++|+|||+||||||++||||+|+|.|+++++++|+|+||++||+||
T Consensus 7 ~~~~~s~s~ragL~fPV~ri~R~Lk~~~~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi~nD 86 (115)
T cd00074 7 KSKKRSRSARAGLQFPVGRIHRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAVRND 86 (115)
T ss_pred CcCccccccccCccCcHHHHHHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHHhcc
Confidence 33448999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhhcCceecCCccCCCCCccCCCCC
Q 032326 98 DELGKLLQGVTIASGGVLPNINPVLLPKK 126 (143)
Q Consensus 98 ~EL~~L~~~~~Ia~ggv~P~~~~~l~~~k 126 (143)
+|||+||+++||++|||+|+||++|+++|
T Consensus 87 ~EL~~L~~~vtI~~ggv~p~i~~~l~~~~ 115 (115)
T cd00074 87 EELNKLLKGVTIASGGVLPNIHKVLLPKK 115 (115)
T ss_pred HHHHHHHcCCcccCCccCCCcchhhcCCC
Confidence 99999999999999999999999999875
No 10
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]
Probab=100.00 E-value=8.8e-45 Score=267.60 Aligned_cols=124 Identities=67% Similarity=1.040 Sum_probs=112.9
Q ss_pred CCCCCCCCCCCCcccccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccch
Q 032326 8 KGAGGRRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINP 87 (143)
Q Consensus 8 ~~~~~~~~~~~~~~~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP 87 (143)
+||+||+. .++.-.|+|.++||+|||+||+|+|+.++|..||+++|+||++||||||++||||+|+|+|++++++||+|
T Consensus 4 ~GKGgK~a-~~r~~~s~sa~agl~fpvgrvkr~lk~~~~~~Rig~~A~Vyl~AvleYL~aEilelAgNaA~d~kkkri~P 82 (132)
T COG5262 4 GGKGGKAA-DARVSQSRSAKAGLIFPVGRVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIP 82 (132)
T ss_pred CCcCcccc-cchhccchhhhcCccccHHHHHHHHHcCccceeecCCcHHHHHHHHHHHHHHHHHHhhhhhhhcCcceech
Confidence 34455541 34445899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHhhccHHHHhhhcCceecCCccCCCCCccCCCCCCCCCCC
Q 032326 88 RHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKTTSTSE 132 (143)
Q Consensus 88 ~hI~~AI~nD~EL~~L~~~~~Ia~ggv~P~~~~~l~~~k~~~~~~ 132 (143)
+||++||+||+||++|+++|+|++|||+|+||+.|+++..++.++
T Consensus 83 rHlqlAIrnD~EL~~l~~~~tIa~GGvlp~I~~~ll~k~skK~sk 127 (132)
T COG5262 83 RHLQLAIRNDEELNKLLGDVTIAQGGVLPNINPGLLPKSSKKGSK 127 (132)
T ss_pred HHHHHHhcCcHHHHHHhhhheeecCCcccccChhhhhhhhccCCc
Confidence 999999999999999999999999999999999999987665543
No 11
>KOG1757 consensus Histone 2A [Chromatin structure and dynamics]
Probab=100.00 E-value=3e-41 Score=247.48 Aligned_cols=123 Identities=52% Similarity=0.855 Sum_probs=113.2
Q ss_pred CCCCCCCCCCCC---cc-cccccccccccchhhHHHHHhccCccc-ccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 032326 8 KGAGGRRGGGER---KK-ISKSVKAGLQFPVGRIARFLKKGRYAQ-RMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKK 82 (143)
Q Consensus 8 ~~~~~~~~~~~~---~~-~srs~RagL~FpVsri~r~Lr~~~~~~-rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~ 82 (143)
++.+||++++++ .+ .|+|.|+||||||+||+|+|+....+. ||+..+.||++|+||||++|+||||+|++.+.+.
T Consensus 3 g~~~gk~~~~~k~~~~k~vs~s~raGlqFpVgRihr~LK~r~t~h~rVGataavy~aaileYLTaEVLeLAgNasKdLKv 82 (131)
T KOG1757|consen 3 GGKAGKDSGKAKDSKAKAVSRSARAGLQFPVGRIHRHLKTRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKV 82 (131)
T ss_pred CccccCcccccchhhhhhhhHHHhcccccchHHHHHHHHHhcccccccchHHHHHHHHHHHHHHHHHHHHccccccccee
Confidence 446777777766 55 899999999999999999999887775 9999999999999999999999999999999999
Q ss_pred cccchhhHHHHhhccHHHHhhhcCceecCCccCCCCCccCCCCCCCCCC
Q 032326 83 NRINPRHVLLAVRNDDELGKLLQGVTIASGGVLPNINPVLLPKKTTSTS 131 (143)
Q Consensus 83 krItP~hI~~AI~nD~EL~~L~~~~~Ia~ggv~P~~~~~l~~~k~~~~~ 131 (143)
+||||+|+++||+.|+|||.|++. ||+.|||+||||.+|+.+++++.+
T Consensus 83 KRitprHlqLAiRGDeELDtLIk~-TiagGgViPhihk~l~~k~~~~~~ 130 (131)
T KOG1757|consen 83 KRITPRHLQLAIRGDEELDTLIKA-TIAGGGVIPHIHKSLINKKGKKKT 130 (131)
T ss_pred eeccchhheeeecCcHHHHHHHHH-hhccCccccchHHHHhccccccCC
Confidence 999999999999999999999987 999999999999999999876654
No 12
>PLN00155 histone H2A; Provisional
Probab=99.83 E-value=3.5e-21 Score=126.52 Aligned_cols=46 Identities=76% Similarity=1.316 Sum_probs=44.2
Q ss_pred cccccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHH
Q 032326 20 KKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYL 65 (143)
Q Consensus 20 ~~~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL 65 (143)
+..++|+|+||||||+||+|+|++++|+.||+.+|||||+||||||
T Consensus 13 k~~srS~rAgL~FPVgri~r~Lr~g~~a~Rvga~apVYlAAVLEYL 58 (58)
T PLN00155 13 KAVSRSAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYL 58 (58)
T ss_pred CccCcccccccccchHHHHHHHhcCChhhcccCCcHHHHHHHHHhC
Confidence 3489999999999999999999999999999999999999999997
No 13
>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=99.53 E-value=1.3e-14 Score=97.80 Aligned_cols=74 Identities=39% Similarity=0.587 Sum_probs=69.2
Q ss_pred cccccccccchhhHHHHHhccCccc-ccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhcc
Q 032326 24 KSVKAGLQFPVGRIARFLKKGRYAQ-RMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRND 97 (143)
Q Consensus 24 rs~RagL~FpVsri~r~Lr~~~~~~-rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD 97 (143)
++.+..+.||+.|+.+-+..+.+.. ||+..|.+||.+++||++.+|++.|++.|..+++++|+|+||++|+++|
T Consensus 1 ~~~~~~~~~~~~r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r~~ 75 (75)
T PF00125_consen 1 RTRRLIPKFPFSRLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLAVRID 75 (75)
T ss_dssp HHSHSSSHHHHHHHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHHHT
T ss_pred CcccccCceEEeeeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHHHhcC
Confidence 3567788999999999999997775 9999999999999999999999999999999999999999999999876
No 14
>COG5247 BUR6 Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]
Probab=99.52 E-value=2.2e-14 Score=104.04 Aligned_cols=80 Identities=20% Similarity=0.396 Sum_probs=76.2
Q ss_pred ccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhhhcC
Q 032326 27 KAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQG 106 (143)
Q Consensus 27 RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L~~~ 106 (143)
+-...||++|++++||-+++..+|++.+||..+..||+|+++|+.+++.+|+..+.+|||.+||..|+.+|+.|++|-.-
T Consensus 19 ~~ktrFP~ar~KkIMQ~deDiGKV~q~tPVIaskalE~Fl~~iv~~s~k~aR~~~skR~t~e~lk~a~~sdekFdFL~~~ 98 (113)
T COG5247 19 KKKTRFPIARLKKIMQLDEDIGKVGQSTPVIASKALEMFLTEIVGLSLKEARKKSSKRMTSEFLKRATESDEKFDFLKNM 98 (113)
T ss_pred hhhhcCCHHHHHHHHHhhhhhhhhhhcchHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHhhhHHHHHHHHH
Confidence 55667999999999999999999999999999999999999999999999999999999999999999999999998754
No 15
>KOG1659 consensus Class 2 transcription repressor NC2, alpha subunit (DRAP1) [Transcription]
Probab=99.28 E-value=6e-12 Score=101.46 Aligned_cols=80 Identities=19% Similarity=0.340 Sum_probs=75.6
Q ss_pred cccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhhhc
Q 032326 26 VKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQ 105 (143)
Q Consensus 26 ~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L~~ 105 (143)
.+-...||++||+++||.+++..+|.+.+||.+...||.|+.+|+..++.+++..+.++++++||..||.+|+.|++|-.
T Consensus 8 ~~~~trfp~aRiKKIMQ~dEdIGKvaqavPViisralElFl~~l~~~t~~~t~~~~aKt~s~~hlkq~v~~~~~FdFLk~ 87 (224)
T KOG1659|consen 8 KKYKTRFPPARIKKIMQSDEDIGKVAQAVPVIISRALELFLESLLQKTLEITRSRGAKTVSSSHLKQAVESDPKFDFLKE 87 (224)
T ss_pred hhhhccCCHHHHHHHHhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCccccCHHHHHHHHhccchhHHHHH
Confidence 34456799999999999999999999999999999999999999999999999999999999999999999999999875
No 16
>PF00808 CBFD_NFYB_HMF: Histone-like transcription factor (CBF/NF-Y) and archaeal histone; InterPro: IPR003958 The CCAAT-binding factor (CBF) is a mammalian transcription factor that binds to a CCAAT motif in the promoters of a wide variety of genes, including type I collagen and albumin. The factor is a heteromeric complex of A and B subunits, both of which are required for DNA-binding [, ]. The subunits can interact in the absence of DNA-binding, conserved regions in each being important in mediating this interaction. The A subunit can be split into 3 domains on the basis of sequence similarity, a non-conserved N-terminal 'A domain'; a highly-conserved central 'B domain' involved in DNA-binding; and a C-terminal 'C domain', which contains a number of glutamine and acidic residues involved in protein-protein interactions []. The A subunit shows striking similarity to the HAP3 subunit of the yeast CCAAT-binding heterotrimeric transcription factor [, ]. The Kluyveromyces lactis HAP3 protein has been predicted to contain a 4-cysteine zinc finger, which is thought to be present in similar HAP3 and CBF subunit A proteins, in which the third cysteine is replaced by a serine []. This domain is found in the CCAAT transcription factor and archaeal histones.; GO: 0043565 sequence-specific DNA binding, 0005622 intracellular; PDB: 1F1E_A 2BYM_D 2BYK_D 1HTA_A 1B67_A 1JFI_B 1KU5_B 1N1J_A 1BFM_A 1B6W_A ....
Probab=98.94 E-value=2.8e-09 Score=70.42 Aligned_cols=64 Identities=23% Similarity=0.280 Sum_probs=58.0
Q ss_pred ccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHh
Q 032326 31 QFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAV 94 (143)
Q Consensus 31 ~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI 94 (143)
.||+++|+|+|+.+....+|+.+|..+++.+.|.|+.+|...|...|...+++.|+++||..||
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 5999999999999977789999999999999999999999999999999999999999999886
No 17
>PTZ00015 histone H4; Provisional
Probab=98.37 E-value=1.3e-06 Score=63.55 Aligned_cols=80 Identities=18% Similarity=0.314 Sum_probs=65.9
Q ss_pred CCCCCCCcccccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHH
Q 032326 13 RRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLL 92 (143)
Q Consensus 13 ~~~~~~~~~~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~ 92 (143)
+++.+.-+|..+.+-.+++ ..-|.|+.+... +.|||.++-..+..+||.++.+|+.-|...|...+++.|+.+||.+
T Consensus 14 ~g~~kr~rk~~r~~i~gI~--k~~IrRLarr~G-vkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~ 90 (102)
T PTZ00015 14 KGGQKRQKKVLRDNIRGIT--KGAIRRLARRGG-VKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVY 90 (102)
T ss_pred ccchhhHHHHHhhcccCCC--HHHHHHHHHHcC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHH
Confidence 3333333445566666754 556999999885 6899999999999999999999999999999999999999999999
Q ss_pred Hhh
Q 032326 93 AVR 95 (143)
Q Consensus 93 AI~ 95 (143)
|+.
T Consensus 91 AlK 93 (102)
T PTZ00015 91 ALK 93 (102)
T ss_pred HHH
Confidence 975
No 18
>PLN00035 histone H4; Provisional
Probab=98.36 E-value=1.3e-06 Score=63.75 Aligned_cols=72 Identities=15% Similarity=0.235 Sum_probs=65.0
Q ss_pred cccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhc
Q 032326 22 ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRN 96 (143)
Q Consensus 22 ~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~n 96 (143)
..+.+-++ +|..-|.|+.+... ..|||.++-..|..+||.+..+|+.-|...|...+++.|+.+||.+|+..
T Consensus 22 ~~~d~i~~--ipk~~IrRLARr~G-vkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~Alkr 93 (103)
T PLN00035 22 VLRDNIQG--ITKPAIRRLARRGG-VKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKR 93 (103)
T ss_pred HHHhhhcc--CCHHHHHHHHHHcC-cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHH
Confidence 56667777 67777999999996 78999999999999999999999999999999999999999999999863
No 19
>KOG1657 consensus CCAAT-binding factor, subunit C (HAP5) [Transcription]
Probab=98.15 E-value=2e-06 Score=70.68 Aligned_cols=82 Identities=17% Similarity=0.219 Sum_probs=75.8
Q ss_pred ccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhhh
Q 032326 25 SVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLL 104 (143)
Q Consensus 25 s~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L~ 104 (143)
..=....||++||+++|+.+....-|+..|||.++.++|+|+.|+-..++..+.+++++.+.-.||..++.+..-+++|.
T Consensus 68 ~d~~~~~lPlaRiKkimK~dedv~mI~~Eapvl~aka~E~Fi~elt~~sw~~Tee~~rrtl~~sdia~av~~s~~fdFL~ 147 (236)
T KOG1657|consen 68 LDFKNHILPLARIKKIMKSDEDVSMITAEAPVLFAKACELFITELTLRSWVHTEENKRRTLQKSDIAAAVTQSETFDFLR 147 (236)
T ss_pred cchhhccCcHhhccccccccccccccchhHHHHHHHHHHHHHHHHHHHhhhhhcccccccchHHHHHHHhccCCCcccee
Confidence 33345679999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cC
Q 032326 105 QG 106 (143)
Q Consensus 105 ~~ 106 (143)
..
T Consensus 148 Di 149 (236)
T KOG1657|consen 148 DI 149 (236)
T ss_pred cc
Confidence 75
No 20
>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=98.15 E-value=8.7e-06 Score=54.55 Aligned_cols=64 Identities=19% Similarity=0.217 Sum_probs=59.3
Q ss_pred ccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326 31 QFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR 95 (143)
Q Consensus 31 ~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~ 95 (143)
.+|..-|.++.+.... .||+.++...|+-.+||.+.+|++-|.+.++..+++.++++||..|+.
T Consensus 2 ~~p~~~i~ria~~~Gi-~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk 65 (65)
T smart00803 2 WLPKETIKDVAESLGI-GNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR 65 (65)
T ss_pred CCCHHHHHHHHHHCCC-ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence 4788999999998864 699999999999999999999999999999999999999999999863
No 21
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]
Probab=98.14 E-value=6.1e-06 Score=67.64 Aligned_cols=76 Identities=21% Similarity=0.364 Sum_probs=71.8
Q ss_pred cccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhhhc
Q 032326 30 LQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQ 105 (143)
Q Consensus 30 L~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L~~ 105 (143)
+.+|..||+++|+.+....-|++.|||.++.+-|-|++|+.-.|+-.|..+++..+.-.||..|+...+-+++|+.
T Consensus 108 h~LPlARIkkvMKtdedVkMisaEaPvlFak~~EiFI~ELTmRAW~~ae~NkRRtLQksDia~Av~kSeMfDFLid 183 (286)
T COG5208 108 HNLPLARIKKVMKTDEDVKMISAEAPVLFAKITEIFIEELTMRAWINAEENKRRTLQKSDIAAAVKKSEMFDFLID 183 (286)
T ss_pred ccCcHHHHHHHHhcccchhheecccchHHHHHHHHHHHHHHHHHHHHHhHhhhhHHHHHHHHHHHHHHHHHhHHhh
Confidence 4599999999999999988999999999999999999999999999999999988999999999999999999995
No 22
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=98.02 E-value=8e-06 Score=58.36 Aligned_cols=67 Identities=27% Similarity=0.363 Sum_probs=60.1
Q ss_pred cccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326 28 AGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR 95 (143)
Q Consensus 28 agL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~ 95 (143)
..+-+|+.=|.|+|++.. ..||+.+|...|..++|-++.+|.+.|...|...+++.|+++||++|+.
T Consensus 16 ~~~~Lp~apv~Ri~r~~~-~~Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~ 82 (91)
T COG2036 16 TDLLLPKAPVRRILRKAG-AERVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALK 82 (91)
T ss_pred hhhhcCchHHHHHHHHHh-HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHH
Confidence 345577777999999884 4599999999999999999999999999999999999999999999975
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=97.86 E-value=3.3e-05 Score=54.49 Aligned_cols=72 Identities=18% Similarity=0.286 Sum_probs=63.0
Q ss_pred cccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhc
Q 032326 22 ISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRN 96 (143)
Q Consensus 22 ~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~n 96 (143)
.-+.+-+| +|..-|.|+.+.+. ..|||.++-.-+..+||.+..+|+.-|...|...+++.|+.+||.+|+..
T Consensus 6 ~~~~~~~g--i~k~~I~RLarr~G-vkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr 77 (85)
T cd00076 6 VLRDNIKG--ITKPAIRRLARRGG-VKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKR 77 (85)
T ss_pred HHHHhhcc--CCHHHHHHHHHHcC-cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHH
Confidence 34455566 56667999999996 78999999999999999999999999999999999999999999999864
No 24
>smart00417 H4 Histone H4.
Probab=97.36 E-value=0.00042 Score=47.78 Aligned_cols=67 Identities=15% Similarity=0.181 Sum_probs=57.8
Q ss_pred ccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHH
Q 032326 23 SKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLL 92 (143)
Q Consensus 23 srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~ 92 (143)
-+.+-.| +|..-|.|+++.+. +.|||.++-..+..+||.+..+|+..|...|...+++.|+.+|+..
T Consensus 7 ~~d~i~g--I~k~~IrRLaRr~G-vkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~~ 73 (74)
T smart00417 7 LRDNIQG--ITKPAIRRLARRGG-VKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVVY 73 (74)
T ss_pred HHhhhcC--CCHHHHHHHHHHcC-cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHhee
Confidence 3445556 45556999999985 6899999999999999999999999999999999999999999864
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=97.32 E-value=0.0012 Score=46.47 Aligned_cols=63 Identities=24% Similarity=0.385 Sum_probs=54.8
Q ss_pred cchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcC---CcccchhhHHHHhh
Q 032326 32 FPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNK---KNRINPRHVLLAVR 95 (143)
Q Consensus 32 FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~---~krItP~hI~~AI~ 95 (143)
||-..++|+++.. ....+++...+.|+++-.-|+.||+|.|...-...+ ...|.|.||+.|.+
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 7777899999976 458999999999999999999999999988766644 47899999999865
No 26
>cd07981 TAF12 TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of the seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs function such as serving as activator-bind
Probab=97.27 E-value=0.0014 Score=44.45 Aligned_cols=66 Identities=14% Similarity=0.210 Sum_probs=58.5
Q ss_pred chhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccH
Q 032326 33 PVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDD 98 (143)
Q Consensus 33 pVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~ 98 (143)
+-..+..++++..-..|++.++...|..++|-|+.+|++.|...|...+++.|.++||++++....
T Consensus 3 ~k~~l~~lv~~id~~~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r~~ 68 (72)
T cd07981 3 TKRKLQELLKEIDPREQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLERNW 68 (72)
T ss_pred cHHHHHHHHHhhCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhc
Confidence 445677888877656799999999999999999999999999999999999999999999987653
No 27
>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=96.59 E-value=0.0058 Score=43.55 Aligned_cols=64 Identities=19% Similarity=0.276 Sum_probs=47.0
Q ss_pred cchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcC-CcccchhhHHHHhh
Q 032326 32 FPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNK-KNRINPRHVLLAVR 95 (143)
Q Consensus 32 FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~-~krItP~hI~~AI~ 95 (143)
||=+-|+++++.-.-.+.|+....+.++++--.|+.||+|.|.....+.+ ...|.|.||+.|.+
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 77888999999863227899999999999999999999999988765544 45899999998864
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=96.58 E-value=0.01 Score=40.02 Aligned_cols=64 Identities=17% Similarity=0.230 Sum_probs=48.9
Q ss_pred ccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326 31 QFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR 95 (143)
Q Consensus 31 ~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~ 95 (143)
.||..-|+.+-..-.. ..++..+.-.|+-=+||-+.||++-|.+..+..+++++|+.||+.|++
T Consensus 3 ~~~~esvk~iAes~Gi-~~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di~~ALr 66 (66)
T PF02969_consen 3 VFSQESVKDIAESLGI-SNLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLTTDDINSALR 66 (66)
T ss_dssp ---HHHHHHHHHHTT----B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHH-
T ss_pred cCCHHHHHHHHHHcCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHhC
Confidence 4677777776665544 468999999999999999999999999999999999999999999874
No 29
>KOG3219 consensus Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=96.53 E-value=0.0039 Score=50.14 Aligned_cols=65 Identities=23% Similarity=0.360 Sum_probs=55.5
Q ss_pred cccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcC-CcccchhhHHHHhh
Q 032326 30 LQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNK-KNRINPRHVLLAVR 95 (143)
Q Consensus 30 L~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~-~krItP~hI~~AI~ 95 (143)
.-||-+.|++||+.-. .+-|+..+.++++++-.-|+.||+|.|.......+ ...+.|.||+.|.+
T Consensus 111 s~f~Ka~iKkL~~~it-g~~v~~nv~Ia~~GiaKvFVGEvVEeAl~V~~~~~e~~PLqP~HIREA~r 176 (195)
T KOG3219|consen 111 SAFPKAQIKKLMSSIT-GQSVSENVAIAMAGIAKVFVGEVVEEALDVREEWGESGPLQPKHIREAYR 176 (195)
T ss_pred hcCCHHHHHHHHHHHh-CCccCcceeeeecchhhHhHHHHHHHHHHHHHHhccCCCCCcHHHHHHHH
Confidence 3499999999999874 44599999999999999999999999988765544 56799999999875
No 30
>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=96.51 E-value=0.0098 Score=43.96 Aligned_cols=64 Identities=19% Similarity=0.125 Sum_probs=56.4
Q ss_pred hhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHH
Q 032326 35 GRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDE 99 (143)
Q Consensus 35 sri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~E 99 (143)
--|+++|++.. ..+++..++..|.-.++-.+.+|+.-|...|...+++.|+.+||++||..--+
T Consensus 5 ~~v~~iLk~~G-v~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~r~~ 68 (117)
T cd07979 5 RVIAAILKSMG-ITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQSRVD 68 (117)
T ss_pred HHHHHHHHHCC-CCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhc
Confidence 35889999863 46899999999999999999999999999999999999999999999985443
No 31
>PLN00158 histone H2B; Provisional
Probab=96.51 E-value=0.013 Score=43.65 Aligned_cols=61 Identities=28% Similarity=0.275 Sum_probs=52.4
Q ss_pred hhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326 35 GRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR 95 (143)
Q Consensus 35 sri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~ 95 (143)
..|++.|+...-..-|+..+.-.|...+..++..|...|...++-+++..|++++|+-||+
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 3699999988766678888888888888888888888888888889999999999999987
No 32
>PTZ00463 histone H2B; Provisional
Probab=96.06 E-value=0.043 Score=40.95 Aligned_cols=60 Identities=15% Similarity=0.180 Sum_probs=48.9
Q ss_pred hHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326 36 RIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR 95 (143)
Q Consensus 36 ri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~ 95 (143)
.|++.|+.-.-..-|+..+.-.|...+.=+...|...|...|+-+++..|++++|+.|++
T Consensus 33 YI~KVLKqVhPd~gIS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAvr 92 (117)
T PTZ00463 33 YIFKVLKQVHPDTGISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAIR 92 (117)
T ss_pred HHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHh
Confidence 689999987666678888877777777777777777777778888999999999999987
No 33
>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=95.90 E-value=0.025 Score=48.50 Aligned_cols=65 Identities=20% Similarity=0.227 Sum_probs=53.7
Q ss_pred HHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh--ccHHHHh
Q 032326 37 IARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR--NDDELGK 102 (143)
Q Consensus 37 i~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~--nD~EL~~ 102 (143)
|+-+.+.- -..+++.++...|+..+||.+.+|++.|.+.++..++++++.+||+.|++ |.+-|+.
T Consensus 5 i~~ia~~~-Gi~~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~~~n~eplyG 71 (343)
T cd08050 5 IKLIAESL-GIDSLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALRLRNVEPLYG 71 (343)
T ss_pred HHHHHHHc-CCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHHhCCCcccC
Confidence 44444433 34699999999999999999999999999999999999999999999976 4444433
No 34
>smart00427 H2B Histone H2B.
Probab=95.71 E-value=0.044 Score=39.07 Aligned_cols=60 Identities=27% Similarity=0.271 Sum_probs=51.3
Q ss_pred hHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326 36 RIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR 95 (143)
Q Consensus 36 ri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~ 95 (143)
.|++.|+.-.-..-|+..+.-.|...+..+...|...|..-++-+++..|++++|+.|++
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 588888887666678888888888888888888888888888888999999999999987
No 35
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=95.32 E-value=0.085 Score=35.85 Aligned_cols=59 Identities=20% Similarity=0.192 Sum_probs=51.1
Q ss_pred HHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhc
Q 032326 37 IARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRN 96 (143)
Q Consensus 37 i~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~n 96 (143)
|.++|+... +.+++.+|.-.|+-++|-.+.+|...+-+.|...+++..++.||.+|+.+
T Consensus 12 Vaqil~~~G-f~~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~ 70 (77)
T smart00576 12 VAQILESAG-FDSFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALEN 70 (77)
T ss_pred HHHHHHHcC-ccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 445666654 46999999999999999999999999999999999999999999999754
No 36
>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=95.21 E-value=0.11 Score=35.54 Aligned_cols=61 Identities=20% Similarity=0.203 Sum_probs=47.3
Q ss_pred chhhHHHHHhccC--cccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcc-cchhhHHHH
Q 032326 33 PVGRIARFLKKGR--YAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNR-INPRHVLLA 93 (143)
Q Consensus 33 pVsri~r~Lr~~~--~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~kr-ItP~hI~~A 93 (143)
|..-|.|+|+... ..-||+.+|...++..|+.|+.|-+-+|...+.+.+... |..+||+..
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 4455778887432 223999999999999999999999999999999998888 999999874
No 37
>smart00428 H3 Histone H3.
Probab=94.01 E-value=0.19 Score=36.73 Aligned_cols=68 Identities=21% Similarity=0.203 Sum_probs=54.7
Q ss_pred cccccchhhHHHHHhc----cCc--ccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326 28 AGLQFPVGRIARFLKK----GRY--AQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR 95 (143)
Q Consensus 28 agL~FpVsri~r~Lr~----~~~--~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~ 95 (143)
..|-+|-.-|.|+.++ ... ..|++.+|...|-.+.|..+.+++|-|...|...++..|+|+|+++|.+
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 4566666666666543 211 3499999999999999999999999998888888999999999999853
No 38
>KOG3467 consensus Histone H4 [Chromatin structure and dynamics]
Probab=92.92 E-value=0.33 Score=34.82 Aligned_cols=84 Identities=19% Similarity=0.304 Sum_probs=59.8
Q ss_pred CCCCCCCCCCCcccccccccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchh
Q 032326 9 GAGGRRGGGERKKISKSVKAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPR 88 (143)
Q Consensus 9 ~~~~~~~~~~~~~~srs~RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~ 88 (143)
.++||+.-+.-+|.-+.+-.|++-|. |.|+-+.+. ..||+..---=.-.++.-++.+++-.|...+...+++.||.-
T Consensus 9 KG~~KG~AKrHRK~LsDnIqgitKpa--IRRlARr~G-VkRi~G~~yeE~~~~~k~fl~n~i~~A~~yt~HAKRKTvT~~ 85 (103)
T KOG3467|consen 9 KGLGKGGAKRHRKVLRDNIQGITKPA--IRRLARRGG-VKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAM 85 (103)
T ss_pred cccccchHHHHHHHHHhhccccchHH--HHHHHHhcC-cchhchhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhceeeHH
Confidence 33556544433445667777888887 888888875 468876554445566666778888888888888889999998
Q ss_pred hHHHHhh
Q 032326 89 HVLLAVR 95 (143)
Q Consensus 89 hI~~AI~ 95 (143)
++-.+..
T Consensus 86 dvv~~LK 92 (103)
T KOG3467|consen 86 DVVYALK 92 (103)
T ss_pred HHHHHHH
Confidence 8876654
No 39
>KOG1744 consensus Histone H2B [Chromatin structure and dynamics]
Probab=92.66 E-value=0.86 Score=34.50 Aligned_cols=66 Identities=26% Similarity=0.216 Sum_probs=47.1
Q ss_pred ccccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326 27 KAGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR 95 (143)
Q Consensus 27 RagL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~ 95 (143)
.-...++|-| .|+...-.--|+..+.-.+-+.+--+...|...|+..|+-+++..|+.++|+.|++
T Consensus 36 ~e~~s~yv~k---vlk~Vhpd~gis~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta~r 101 (127)
T KOG1744|consen 36 KESYSEYVYK---VLKQVHPDLGISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTAVR 101 (127)
T ss_pred cCceeeehhh---hhhcccCCCCcCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHHHH
Confidence 3344455544 55544333346777766666666666788888889999999999999999999875
No 40
>KOG0869 consensus CCAAT-binding factor, subunit A (HAP3) [Transcription]
Probab=92.30 E-value=0.51 Score=37.09 Aligned_cols=65 Identities=20% Similarity=0.291 Sum_probs=51.2
Q ss_pred ccchhhHHHHHhccCccc-ccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326 31 QFPVGRIARFLKKGRYAQ-RMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR 95 (143)
Q Consensus 31 ~FpVsri~r~Lr~~~~~~-rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~ 95 (143)
-+|+.-|-|+|+..--.. +|+.+|--.+--++--|++=|---|...|+..+++.|+..||-+|+.
T Consensus 32 ~LPIANV~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~ 97 (168)
T KOG0869|consen 32 FLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMS 97 (168)
T ss_pred hccHHHHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHH
Confidence 389999999999875543 89999987766555555555666666677778899999999999986
No 41
>KOG1658 consensus DNA polymerase epsilon, subunit C [Replication, recombination and repair]
Probab=92.07 E-value=0.14 Score=40.11 Aligned_cols=76 Identities=21% Similarity=0.213 Sum_probs=65.6
Q ss_pred cccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhhhc
Q 032326 30 LQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQ 105 (143)
Q Consensus 30 L~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L~~ 105 (143)
+++|..||+.+++.+....-....+...++-.-|-++.+|-..++..+...+++.+.-+++..||..-+|+.++..
T Consensus 58 ~rLpL~rik~vvkl~pdl~l~~dea~~l~a~aaelfi~~Ln~~~~~~~q~~k~kt~qr~d~D~ai~~~de~~fle~ 133 (162)
T KOG1658|consen 58 SRLPLARIKQVVKLDPDLTLLNDEASQLIAKAAELFIQELNDVAYTTAQLRKRKTEQRRDYDTAIEAVDEFAFLEG 133 (162)
T ss_pred hhccHHHHHhhccCCcchhhhhhHHHHHHHHHHHHHHHHHHhccchhHHHHHhhhhhhhcccccccchHHHHHHhh
Confidence 5799999999999886554455666666888999999999999999888888899999999999999999988875
No 42
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=91.49 E-value=0.87 Score=31.36 Aligned_cols=69 Identities=26% Similarity=0.368 Sum_probs=46.1
Q ss_pred cccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHH---HHHhcCCcccchhhHHHHhhccHHH
Q 032326 28 AGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGN---AARDNKKNRINPRHVLLAVRNDDEL 100 (143)
Q Consensus 28 agL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn---~A~~~~~krItP~hI~~AI~nD~EL 100 (143)
+.|++-|++|=. +... ..=-.-++-|++|+.|-....+-.++.. .|+-.|+..|++.|+.+..+.++.|
T Consensus 5 aal~~~v~ki~e---e~~~-~~~~~~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~~dDV~Ll~Rrn~~L 76 (76)
T PF15630_consen 5 AALWYTVGKIVE---EEAK-EKGVEVSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTINMDDVKLLARRNPSL 76 (76)
T ss_dssp HHHHHHHHHHHH---HCCC-CTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHTTT-HHH
T ss_pred HHHHHHHHHHHH---HHHh-ccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHHHhhcCCCC
Confidence 445566655543 2211 1111356899999999999988888854 4677899999999999999998876
No 43
>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=91.10 E-value=0.86 Score=30.69 Aligned_cols=62 Identities=11% Similarity=0.263 Sum_probs=48.4
Q ss_pred hHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhcc
Q 032326 36 RIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRND 97 (143)
Q Consensus 36 ri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD 97 (143)
++..++++-.-...+...+--.|.-+.+=|+..+++.|...|+..+...+.+++|++....+
T Consensus 4 ~l~~Lv~~iDp~~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~tle~~Dv~~~Ler~ 65 (68)
T PF03847_consen 4 KLQELVKQIDPNEKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSSTLEVKDVQLHLERN 65 (68)
T ss_dssp HHHHHHHCC-SS----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHHHHH
T ss_pred HHHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHHhh
Confidence 56777777766678999999999999999999999999999999999999999999887643
No 44
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=89.40 E-value=1.6 Score=34.06 Aligned_cols=69 Identities=20% Similarity=0.367 Sum_probs=51.5
Q ss_pred ccccccchhhHHHHHhccCc-ccccCCCh-hHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhc
Q 032326 27 KAGLQFPVGRIARFLKKGRY-AQRMGSGA-PIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRN 96 (143)
Q Consensus 27 RagL~FpVsri~r~Lr~~~~-~~rIs~~A-~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~n 96 (143)
.-.+.+|-.-|..++++.-- ..||..++ -+++..++||+ .-|---|..+|....++.|.|+|+..|..|
T Consensus 8 dde~sLPkAtv~KmIke~lP~d~rvakeareliincCvEFI-~liSsEAneic~~e~KKTIa~EHV~KALe~ 78 (156)
T KOG0871|consen 8 DDELSLPKATVNKMIKEMLPKDVRVAKEARELIINCCVEFI-NLISSEANEICNKEAKKTIAPEHVIKALEN 78 (156)
T ss_pred cccccCcHHHHHHHHHHhCCcccccchHHHHHHHHHHHHHH-HHHHHHHHHHHhHHhcccCCHHHHHHHHHH
Confidence 34688999999999988755 45888888 56666777765 344444555677778889999999999875
No 45
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T.
Probab=88.50 E-value=0.81 Score=40.36 Aligned_cols=72 Identities=13% Similarity=0.159 Sum_probs=42.6
Q ss_pred CCcccccccccccccchhhHHHHHhcc----Cccc-ccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhh
Q 032326 18 ERKKISKSVKAGLQFPVGRIARFLKKG----RYAQ-RMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRH 89 (143)
Q Consensus 18 ~~~~~srs~RagL~FpVsri~r~Lr~~----~~~~-rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~h 89 (143)
.++|.|+-.-....+|.+-|++++..- .|++ +|+.+|.--|.-++||+...|-+==..+|...|+|.|.+.|
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 344478877788889999999986644 4554 99999999999999999999887777888888999998764
No 46
>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=88.11 E-value=3.1 Score=29.47 Aligned_cols=39 Identities=13% Similarity=0.371 Sum_probs=26.2
Q ss_pred HHHHHHHHHHH---HHHHHhcCCcccchhhHHHHhhccHHHHh
Q 032326 63 EYLAAEVLELA---GNAARDNKKNRINPRHVLLAVRNDDELGK 102 (143)
Q Consensus 63 EYL~aEILElA---gn~A~~~~~krItP~hI~~AI~nD~EL~~ 102 (143)
|+++..|.+++ ...|. .++.+|+++|+..+|++|+.=-.
T Consensus 31 ~iv~~~i~~l~~~a~~~A~-~r~~k~~~eD~~FliR~D~~Kl~ 72 (92)
T cd07978 31 DIVVEYIIELCHKAAEVAQ-RRRGKVKVEDLIFLLRKDPKKLA 72 (92)
T ss_pred HHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHHHhcCHHHHH
Confidence 34444444444 44454 46778899999999999986433
No 47
>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=86.98 E-value=0.69 Score=32.75 Aligned_cols=47 Identities=19% Similarity=0.263 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHH---HHHHHhcCCcccchhhHHHHhhccHHHHhhhc
Q 032326 59 AAVLEYLAAEVLELA---GNAARDNKKNRINPRHVLLAVRNDDELGKLLQ 105 (143)
Q Consensus 59 aAvLEYL~aEILElA---gn~A~~~~~krItP~hI~~AI~nD~EL~~L~~ 105 (143)
..+-|+++.+|.++. ...|...|.++|+++|+..++++|+.-..-+.
T Consensus 26 ~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR~D~~Kl~Rl~ 75 (93)
T PF02269_consen 26 DLVEDIVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLRKDPKKLARLR 75 (93)
T ss_dssp HHHHHHHHHHHHHHHHHHHC------------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHhcCHHHHHHHH
Confidence 334455555555555 45566667789999999999999987544443
No 48
>PF02291 TFIID-31kDa: Transcription initiation factor IID, 31kD subunit; InterPro: IPR003162 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription []. TAFII-31 protein is a transcriptional coactivator of the p53 protein [].; GO: 0006352 transcription initiation, DNA-dependent; PDB: 1TAF_A.
Probab=86.30 E-value=3.6 Score=31.02 Aligned_cols=59 Identities=25% Similarity=0.280 Sum_probs=42.1
Q ss_pred hhHHHHHhccCcccccCCChhHHHHHHHHHH---HHHHHHHHHHHHHhcCCcccchhhHHHHhhcc
Q 032326 35 GRIARFLKKGRYAQRMGSGAPIYMAAVLEYL---AAEVLELAGNAARDNKKNRINPRHVLLAVRND 97 (143)
Q Consensus 35 sri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL---~aEILElAgn~A~~~~~krItP~hI~~AI~nD 97 (143)
--|+.+|++.. |.+.-+-...-.|||. +.+||+-|-.+|...++..|+..|+++||..-
T Consensus 16 ~~i~~iL~~~G----v~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~~~DVrLAi~~r 77 (129)
T PF02291_consen 16 RVIHLILKSMG----VTEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTIDADDVRLAIQSR 77 (129)
T ss_dssp HHHHHHHHHTT-------B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHHHHT
T ss_pred HHHHHHHHHcC----CcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHH
Confidence 45778888875 3455666666667764 67788889888988999999999999999943
No 49
>KOG0870 consensus DNA polymerase epsilon, subunit D [Transcription]
Probab=85.68 E-value=3.1 Score=32.97 Aligned_cols=67 Identities=21% Similarity=0.283 Sum_probs=52.8
Q ss_pred ccccchhhHHHHHhccCc--ccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326 29 GLQFPVGRIARFLKKGRY--AQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR 95 (143)
Q Consensus 29 gL~FpVsri~r~Lr~~~~--~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~ 95 (143)
-|-||-+-|-|+.++--- .--|+..|...|+-.---|+..+...|.+.|++++++.|++.++-.|+.
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 DLNLPNAIITRLVKEVLPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALD 76 (172)
T ss_pred HhhccHHHHHHHHHHhCccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHH
Confidence 467898888877665411 1246778877777777778888899999999999999999999988875
No 50
>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=85.60 E-value=4.3 Score=27.11 Aligned_cols=56 Identities=18% Similarity=0.172 Sum_probs=46.5
Q ss_pred HHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326 39 RFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR 95 (143)
Q Consensus 39 r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~ 95 (143)
.+|+...+ ..++.+|.-.|+-+++..+.+|...+-..|...++...++.|+..|..
T Consensus 14 ~il~~~GF-~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~ 69 (77)
T PF07524_consen 14 QILKHAGF-DSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQALE 69 (77)
T ss_pred HHHHHcCc-cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 34544433 578888899999999999999999999999889999999999998874
No 51
>PLN00161 histone H3; Provisional
Probab=84.88 E-value=5.7 Score=30.37 Aligned_cols=68 Identities=21% Similarity=0.176 Sum_probs=51.6
Q ss_pred cccccchhhHHHHHhccC-----cccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326 28 AGLQFPVGRIARFLKKGR-----YAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR 95 (143)
Q Consensus 28 agL~FpVsri~r~Lr~~~-----~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~ 95 (143)
.+|-+|-.-|.|+.++-. ...|+..+|..-|--+-|.++-.++|-+.--|...++-.|.|.||+++.+
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 345566666666655421 12488888888899999999999999997777777888899999998854
No 52
>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=81.69 E-value=1.6 Score=26.32 Aligned_cols=34 Identities=32% Similarity=0.508 Sum_probs=26.4
Q ss_pred HHHHHHhcCCcccchhhHHHHhhccH--HHHhhhcC
Q 032326 73 AGNAARDNKKNRINPRHVLLAVRNDD--ELGKLLQG 106 (143)
Q Consensus 73 Agn~A~~~~~krItP~hI~~AI~nD~--EL~~L~~~ 106 (143)
|-+.|...+...|+|+||-+|+-.|+ .+..+|+.
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 44678888999999999999988766 77777753
No 53
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=75.13 E-value=3.8 Score=34.44 Aligned_cols=68 Identities=6% Similarity=0.193 Sum_probs=59.6
Q ss_pred cchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHH
Q 032326 32 FPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDE 99 (143)
Q Consensus 32 FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~E 99 (143)
+-.-+++.+|+.-.-...|..++--+|.-+-+=|+..|+..++..|+..+...|..+||++.+.++.-
T Consensus 155 l~k~kl~dLvqqId~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhLEr~~N 222 (258)
T KOG1142|consen 155 LSKRKLDDLVQQIDGTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHLERNFN 222 (258)
T ss_pred ccccchhHHHHhhcCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeeeecccc
Confidence 44567888888875556899999999999999999999999999999999999999999999887753
No 54
>PTZ00018 histone H3; Provisional
Probab=74.76 E-value=7.8 Score=29.62 Aligned_cols=66 Identities=20% Similarity=0.169 Sum_probs=52.1
Q ss_pred ccccchhhHHHHHhccC----cccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHh
Q 032326 29 GLQFPVGRIARFLKKGR----YAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAV 94 (143)
Q Consensus 29 gL~FpVsri~r~Lr~~~----~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI 94 (143)
.|.||-.-|.|+.++-. ...|+..+|...|--+-|.++-.++|-+..-|...++..|.|+||+++.
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 45566666666666432 2348889999999999999999999999777777788889999999884
No 55
>PLN00121 histone H3; Provisional
Probab=73.98 E-value=8.5 Score=29.42 Aligned_cols=66 Identities=20% Similarity=0.169 Sum_probs=51.7
Q ss_pred ccccchhhHHHHHhccC----cccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHh
Q 032326 29 GLQFPVGRIARFLKKGR----YAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAV 94 (143)
Q Consensus 29 gL~FpVsri~r~Lr~~~----~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI 94 (143)
.|.||-.-|.|+.++-. ...|+..+|..-|--+-|.++-.++|-+.--|...++..|.|+||+++.
T Consensus 60 ~lLI~k~pF~RLVREI~~~~~~~~Rf~~~Al~ALQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~ 129 (136)
T PLN00121 60 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAR 129 (136)
T ss_pred ccccccccHHHHHHHHHHHhCccceeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcceecchhhHHHHH
Confidence 55566666666655422 2348889999999999999999999999777777788889999999984
No 56
>PLN00160 histone H3; Provisional
Probab=73.73 E-value=8.4 Score=27.81 Aligned_cols=68 Identities=22% Similarity=0.188 Sum_probs=52.0
Q ss_pred cccccchhhHHHHHhccC-----cccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326 28 AGLQFPVGRIARFLKKGR-----YAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR 95 (143)
Q Consensus 28 agL~FpVsri~r~Lr~~~-----~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~ 95 (143)
..|-+|-.-+.|+.++-. ...|+..+|..-|--+-|..+-.++|-+..-|...++-.|.|+|++++.+
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 345666666666655431 22588889999999999999999999997777777888899999999853
No 57
>COG5251 TAF40 Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=72.79 E-value=6.8 Score=31.37 Aligned_cols=64 Identities=17% Similarity=0.194 Sum_probs=48.1
Q ss_pred cchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHh-cCCcccchhhHHHHhhc
Q 032326 32 FPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARD-NKKNRINPRHVLLAVRN 96 (143)
Q Consensus 32 FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~-~~~krItP~hI~~AI~n 96 (143)
||-..|+.+.-.- ..+-|+....|+|.++-.-|+.||+|||..+-.. .-.....|.|++-|++-
T Consensus 116 lnKt~VKKlastV-~nQtVspNi~I~l~g~~KVfvGEiIElA~~Vq~~w~~sgpl~p~h~reayr~ 180 (199)
T COG5251 116 LNKTQVKKLASTV-ANQTVSPNIRIFLQGVGKVFVGEIIELAMIVQNKWLTSGPLIPFHKREAYRY 180 (199)
T ss_pred CCHHHHHHHHHHH-hccccCCCeeeeeechhHHHHHHHHHHHHHHHHHhcccCCCChHHHHHHHHH
Confidence 5555666655443 4567888889999999999999999999665433 23456899999999863
No 58
>KOG1745 consensus Histones H3 and H4 [Chromatin structure and dynamics]
Probab=67.45 E-value=5 Score=30.79 Aligned_cols=61 Identities=23% Similarity=0.226 Sum_probs=45.9
Q ss_pred hhHHH-HHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326 35 GRIAR-FLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR 95 (143)
Q Consensus 35 sri~r-~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~ 95 (143)
.|+-| +.++..-..|+.++|..-|--..|.++-.++|-+.--|...++-.|.|.||++|..
T Consensus 70 qRlvrei~q~f~~dLrfqs~Ai~ALQeA~EayLv~LfEdtnlcAihAkRVTimpkdiQlArr 131 (137)
T KOG1745|consen 70 QRLVREIAQDFKTDLRFQSSAIAALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARR 131 (137)
T ss_pred HHHhHHHHhcccccceehHHHHHHHHHHHHHHHHHhccccchhhhccceeEecccceehhhh
Confidence 33333 34445444588888888888888888888888886667777888999999999864
No 59
>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=66.51 E-value=4.4 Score=28.79 Aligned_cols=55 Identities=33% Similarity=0.462 Sum_probs=36.1
Q ss_pred hhHHHHHhccCccc---ccCCChhHHHHHHHHHHHHH-HHHHHHHHHHhcCCcccchhhHHHHh
Q 032326 35 GRIARFLKKGRYAQ---RMGSGAPIYMAAVLEYLAAE-VLELAGNAARDNKKNRINPRHVLLAV 94 (143)
Q Consensus 35 sri~r~Lr~~~~~~---rIs~~A~VyLaAvLEYL~aE-ILElAgn~A~~~~~krItP~hI~~AI 94 (143)
.++.|+|-...... |-..+-|.||++||+||+.+ -.-++.-. ...|.|+.+..|-
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 ERLPRFLALTGLSPDDLRAAAGDPAFLAAVLDFLLMDEAWLLAFCD-----AAGIPPEAVAAAR 80 (88)
T ss_pred HHHHHHHHHhCCCHHHHHHHccChHHHHHHHHHHHcchHHHHHHHH-----HcCcChhHHHHHH
Confidence 56777777666664 66677799999999999865 22222111 1356777776653
No 60
>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=64.08 E-value=15 Score=28.09 Aligned_cols=65 Identities=22% Similarity=0.392 Sum_probs=41.6
Q ss_pred ccccchhhHHHHHhccCccc--ccCCCh-hHHHHHHHHHHHHHHHHHHHH-HHHhcCCcccchhhHHHHhhc
Q 032326 29 GLQFPVGRIARFLKKGRYAQ--RMGSGA-PIYMAAVLEYLAAEVLELAGN-AARDNKKNRINPRHVLLAVRN 96 (143)
Q Consensus 29 gL~FpVsri~r~Lr~~~~~~--rIs~~A-~VyLaAvLEYL~aEILElAgn-~A~~~~~krItP~hI~~AI~n 96 (143)
.+.+|-.-|...+-+. +-. -+...| -+|+-+++||+. +|-.-.| +|.+..++.|.++|+-.|..|
T Consensus 9 e~sLPKATVqKMvS~i-Lp~dl~ftKearei~in~cieFi~--~lsseAne~ce~EaKKTIa~EHviKALen 77 (148)
T COG5150 9 ENSLPKATVQKMVSSI-LPKDLVFTKEAREIFINACIEFIN--MLSSEANEACEEEAKKTIAYEHVIKALEN 77 (148)
T ss_pred cccCcHHHHHHHHHHh-ccccccccHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHhccccHHHHHHHHHh
Confidence 4567777676654433 222 223334 788999999874 3333334 444556788999999999876
No 61
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=55.11 E-value=35 Score=29.60 Aligned_cols=75 Identities=19% Similarity=0.246 Sum_probs=53.1
Q ss_pred ccccccch---hhHHHHHhccCc----ccccCCChhHHHHHHHHHHH------HHHHHHHHHHHHhcCCcccchhhHHHH
Q 032326 27 KAGLQFPV---GRIARFLKKGRY----AQRMGSGAPIYMAAVLEYLA------AEVLELAGNAARDNKKNRINPRHVLLA 93 (143)
Q Consensus 27 RagL~FpV---sri~r~Lr~~~~----~~rIs~~A~VyLaAvLEYL~------aEILElAgn~A~~~~~krItP~hI~~A 93 (143)
...+.||. ..+..+|+++.. ...++.++.-+.++.-.+-. -+||..|++.|...+...|++.|+..|
T Consensus 182 ~~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A~eiAe~~~~~~v~~~~v~~a 261 (366)
T COG1474 182 PSEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAEREGSRKVSEDHVREA 261 (366)
T ss_pred cceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHhhCCCCcCHHHHHHH
Confidence 33477887 667777665433 23667777777665555443 679999999999999999999999999
Q ss_pred hhccHHHHh
Q 032326 94 VRNDDELGK 102 (143)
Q Consensus 94 I~nD~EL~~ 102 (143)
..+.|...
T Consensus 262 -~~~~~~~~ 269 (366)
T COG1474 262 -QEEIERDV 269 (366)
T ss_pred -HHHhhHHH
Confidence 44444433
No 62
>PF13335 Mg_chelatase_2: Magnesium chelatase, subunit ChlI
Probab=54.04 E-value=19 Score=25.36 Aligned_cols=47 Identities=23% Similarity=0.249 Sum_probs=36.2
Q ss_pred ccCCChhHHHHHHHHHH------HHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326 49 RMGSGAPIYMAAVLEYL------AAEVLELAGNAARDNKKNRINPRHVLLAVR 95 (143)
Q Consensus 49 rIs~~A~VyLaAvLEYL------~aEILElAgn~A~~~~~krItP~hI~~AI~ 95 (143)
.++..+-.+|-.+++-+ ..-||.+|-..|.-.+...|++.||..|+.
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 45556666666655544 345999999999999999999999999874
No 63
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=47.81 E-value=30 Score=33.08 Aligned_cols=41 Identities=22% Similarity=0.302 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhhhcC
Q 032326 66 AAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQG 106 (143)
Q Consensus 66 ~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L~~~ 106 (143)
+.++|+.|.+.|...+...|+|+||-+++-.+.++..+|..
T Consensus 6 ~~~~l~~a~~~a~~~~~~~~~~~h~l~~l~~~~~~~~~~~~ 46 (758)
T PRK11034 6 LELSLNMAFARAREHRHEFMTVEHLLLALLSNPSAREALEA 46 (758)
T ss_pred HHHHHHHHHHHHHHcCCCcchHHHHHHHHHcChhHHHHHHH
Confidence 56788899999999999999999999999998888777764
No 64
>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=47.80 E-value=93 Score=25.76 Aligned_cols=47 Identities=26% Similarity=0.313 Sum_probs=32.8
Q ss_pred cCCChhHHHHHHHHH------HHHHHHHHHHHHHHhcCCcccchhhHHHHhhc
Q 032326 50 MGSGAPIYMAAVLEY------LAAEVLELAGNAARDNKKNRINPRHVLLAVRN 96 (143)
Q Consensus 50 Is~~A~VyLaAvLEY------L~aEILElAgn~A~~~~~krItP~hI~~AI~n 96 (143)
+...+.-+++...+. ..-+++..|...|...+...|+++|++.|+..
T Consensus 221 ~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~~a~~~~~~~it~~~v~~a~~~ 273 (365)
T TIGR02928 221 LDDGVIPLCAALAAQEHGDARKAIDLLRVAGEIAEREGAERVTEDHVEKAQEK 273 (365)
T ss_pred CChhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 555565566665542 33457777877777777888999999987653
No 65
>PF13654 AAA_32: AAA domain; PDB: 3K1J_B.
Probab=46.72 E-value=17 Score=33.04 Aligned_cols=59 Identities=24% Similarity=0.363 Sum_probs=35.4
Q ss_pred ccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhc
Q 032326 31 QFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRN 96 (143)
Q Consensus 31 ~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~n 96 (143)
.|.-+=|.++|+.. .|.+++ .|+..+..| .+||..|...|+..+...|+..||+.||..
T Consensus 447 ~~~~~Av~~li~~~---~R~~q~---kLsl~~~~l-~~ll~EA~~~A~~~~~~~I~~~~V~~Ai~~ 505 (509)
T PF13654_consen 447 PFDRSAVARLIEYS---ARLDQD---KLSLRFSWL-ADLLREANYWARKEGAKVITAEHVEQAIEE 505 (509)
T ss_dssp -BBHHHHHHHHHHH---HHCC-S---EEE--HHHH-HHHHHHHHHHHHHCT-SSB-HHHHHHHHHH
T ss_pred CCCHHHHHHHHHHH---HHHhCC---EeCCCHHHH-HHHHHHHHHHHHHhCCCccCHHHHHHHHHc
Confidence 34445555555433 233333 334444433 678888888899899999999999999974
No 66
>COG3636 Predicted transcriptional regulator [Transcription]
Probab=46.65 E-value=23 Score=25.78 Aligned_cols=54 Identities=19% Similarity=0.295 Sum_probs=35.1
Q ss_pred CChhHHHHHHHHH-----HHHH--HHHHHHHHHHhcCCcccchhhHHHHhh--ccHHHHhhhc
Q 032326 52 SGAPIYMAAVLEY-----LAAE--VLELAGNAARDNKKNRINPRHVLLAVR--NDDELGKLLQ 105 (143)
Q Consensus 52 ~~A~VyLaAvLEY-----L~aE--ILElAgn~A~~~~~krItP~hI~~AI~--nD~EL~~L~~ 105 (143)
+.+.+||.++||- |.+- ++..+++.++-..+..++-+||..+.+ .++.|+.++.
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 4568899999874 3322 233333333334456788999999988 5677777764
No 67
>PF08369 PCP_red: Proto-chlorophyllide reductase 57 kD subunit; InterPro: IPR013580 This domain is found in bacteria and plant chloroplast proteins. It often appears at the C-terminal of nitrogenase component 1 type oxidoreductases (IPR000510 from INTERPRO) and sometimes independently in bacterial proteins such as the proto-chlorophyllide reductase subunit B of the cyanobacterium Synechocystis. This domain is also associated with chlorophyllide reductase subunit Z, converts chlorophylls (Chl) into bacteriochlorophylls (BChl) by reducing ring B of the tetrapyrrole.; GO: 0016491 oxidoreductase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process, 0055114 oxidation-reduction process; PDB: 2KRU_A 2L09_A.
Probab=46.45 E-value=49 Score=20.30 Aligned_cols=27 Identities=22% Similarity=0.166 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHhcCCcccchhhHHHH
Q 032326 67 AEVLELAGNAARDNKKNRINPRHVLLA 93 (143)
Q Consensus 67 aEILElAgn~A~~~~~krItP~hI~~A 93 (143)
..+=..+-..|++.|...||+.++..|
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 444555567899999999999999865
No 68
>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=46.09 E-value=12 Score=24.07 Aligned_cols=22 Identities=36% Similarity=0.717 Sum_probs=17.9
Q ss_pred ccHHHHhhhcCceecCCccCCCCCc
Q 032326 96 NDDELGKLLQGVTIASGGVLPNINP 120 (143)
Q Consensus 96 nD~EL~~L~~~~~Ia~ggv~P~~~~ 120 (143)
.|+||+.+++.. .+||++.|-.
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 799999999873 7888887643
No 69
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=43.49 E-value=37 Score=31.90 Aligned_cols=39 Identities=23% Similarity=0.381 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhhhc
Q 032326 67 AEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQ 105 (143)
Q Consensus 67 aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L~~ 105 (143)
.++|+.|-++|...+...|+|+||-+++-.+++...++.
T Consensus 6 ~~~L~~A~~~A~~~~h~~V~~EHLLlaLL~~~~~~~iL~ 44 (731)
T TIGR02639 6 ERILDAALEEAKKRRHEFVTLEHILLALLFDSDAIEILE 44 (731)
T ss_pred HHHHHHHHHHHHHhCCCcCcHHHHHHHHHcCchHHHHHH
Confidence 567889999999999999999999999998877666665
No 70
>COG5094 TAF9 Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=43.33 E-value=1.2e+02 Score=23.12 Aligned_cols=61 Identities=20% Similarity=0.196 Sum_probs=40.9
Q ss_pred hHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccch---hhHHHHhhcc
Q 032326 36 RIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINP---RHVLLAVRND 97 (143)
Q Consensus 36 ri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP---~hI~~AI~nD 97 (143)
-|+-+|+.-.. .--+...|+-|.-.----+..+|+=|.-.|...|+..|++ +|+++|+..-
T Consensus 19 lihliL~Slgi-~~ye~~VplQLl~FAhRYTq~vl~Dalvya~htgrg~~a~l~veDvrLA~at~ 82 (145)
T COG5094 19 LIHLILRSLGI-EEYEPKVPLQLLEFAHRYTQDVLEDALVYAKHTGRGHIATLGVEDVRLALATK 82 (145)
T ss_pred HHHHHHHhcCc-hhhCccchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCcccHHHHHHHHHHH
Confidence 35666654421 2333444544443333457889999998998888888888 9999999864
No 71
>KOG3334 consensus Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=42.86 E-value=1.2e+02 Score=23.50 Aligned_cols=57 Identities=28% Similarity=0.318 Sum_probs=44.6
Q ss_pred HHHHHhccCcccccCCChhHHHHHHHHHH---HHHHHHHHHHHHHhcCCcccchhhHHHHhhcc
Q 032326 37 IARFLKKGRYAQRMGSGAPIYMAAVLEYL---AAEVLELAGNAARDNKKNRINPRHVLLAVRND 97 (143)
Q Consensus 37 i~r~Lr~~~~~~rIs~~A~VyLaAvLEYL---~aEILElAgn~A~~~~~krItP~hI~~AI~nD 97 (143)
|+.+|++.. |.+.-|-.+.-.|||- +..||+-|.-++...++..|+-+|+++||..-
T Consensus 19 i~~iL~s~G----I~eyEprVi~qlLefa~rYtt~vL~DA~vys~HA~ka~i~~eDVrlA~~~~ 78 (148)
T KOG3334|consen 19 IASILKSLG----IQEYEPRVINQLLEFAYRYTTTVLDDAKVYSSHAKKATIDAEDVRLAIQMR 78 (148)
T ss_pred HHHHHHHcC----ccccChHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCcHHHHHHHHHHH
Confidence 666777663 5667777777778874 45688889888888889999999999999753
No 72
>KOG1658 consensus DNA polymerase epsilon, subunit C [Replication, recombination and repair]
Probab=42.78 E-value=46 Score=26.19 Aligned_cols=73 Identities=15% Similarity=0.166 Sum_probs=52.1
Q ss_pred cccccchhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhhhc
Q 032326 28 AGLQFPVGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQ 105 (143)
Q Consensus 28 agL~FpVsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L~~ 105 (143)
+...||+++++++=+.+....--+..+-+-.+..-|.|+.-+..+++ ..-.|..-.-|+..+..|++|..+-.
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 34569999999988776543334556666788899999888888665 23346677777788888887766554
No 73
>KOG3901 consensus Transcription initiation factor IID subunit [Transcription]
Probab=41.84 E-value=47 Score=24.52 Aligned_cols=37 Identities=19% Similarity=0.303 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHHHhc-CCcccchhhHHHHhhccHHH
Q 032326 63 EYLAAEVLELAGNAARDN-KKNRINPRHVLLAVRNDDEL 100 (143)
Q Consensus 63 EYL~aEILElAgn~A~~~-~~krItP~hI~~AI~nD~EL 100 (143)
++++.+|-|+ .+.|++. ++.++.-+|+..+|+.|+-=
T Consensus 38 ~iV~~Yi~el-t~~a~~~g~rgk~~veD~~f~lRkDpkK 75 (109)
T KOG3901|consen 38 DIVLEYITEL-THAAMEIGKRGKVKVEDFKFLLRKDPKK 75 (109)
T ss_pred HHHHHHHHHH-HHHHHHhcccCceeHHHHHHHHHhChHH
Confidence 3444445555 4444443 34578899999999999753
No 74
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=41.34 E-value=1.1e+02 Score=25.58 Aligned_cols=68 Identities=19% Similarity=0.224 Sum_probs=40.9
Q ss_pred ccccc---hhhHHHHHhccC---c-ccccCCChhHHHHHHHHHH------HHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326 29 GLQFP---VGRIARFLKKGR---Y-AQRMGSGAPIYMAAVLEYL------AAEVLELAGNAARDNKKNRINPRHVLLAVR 95 (143)
Q Consensus 29 gL~Fp---Vsri~r~Lr~~~---~-~~rIs~~A~VyLaAvLEYL------~aEILElAgn~A~~~~~krItP~hI~~AI~ 95 (143)
.+.|| ...+..+|+..- . ..-++..+.-+++...... .-+++..|+..|...+...|+.+|++.|+.
T Consensus 201 ~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~~~I~~~~v~~a~~ 280 (394)
T PRK00411 201 EIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRKVTEEDVRKAYE 280 (394)
T ss_pred eeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHH
Confidence 34554 355555555331 1 1235566666665555331 124566666677777788999999998887
Q ss_pred c
Q 032326 96 N 96 (143)
Q Consensus 96 n 96 (143)
.
T Consensus 281 ~ 281 (394)
T PRK00411 281 K 281 (394)
T ss_pred H
Confidence 4
No 75
>COG1067 LonB Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]
Probab=37.25 E-value=46 Score=31.37 Aligned_cols=38 Identities=18% Similarity=0.202 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhhh
Q 032326 67 AEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLL 104 (143)
Q Consensus 67 aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L~ 104 (143)
..|+..|+..|...++..|+++|++.|+++.......+
T Consensus 369 ~~lv~~A~~ia~~~~~~~I~ae~Ve~a~~~~~~~e~~l 406 (647)
T COG1067 369 GNLVREAGDIAVSEGRKLITAEDVEEALQKRELREGQL 406 (647)
T ss_pred HHHHHHhhHHHhcCCcccCcHHHHHHHHHhhhhHHHHH
Confidence 45677888899888999999999999999965554433
No 76
>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=33.40 E-value=70 Score=26.00 Aligned_cols=41 Identities=7% Similarity=0.063 Sum_probs=33.6
Q ss_pred hhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHH
Q 032326 35 GRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNA 76 (143)
Q Consensus 35 sri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~ 76 (143)
.||..+..+..+ .-|+.+++-+|...||+++.+||+-+...
T Consensus 210 ~Rm~~ia~e~GL-~gvs~~~a~ll~~ale~~LK~lI~s~l~~ 250 (252)
T PF12767_consen 210 KRMEQIAWEHGL-GGVSDDCANLLNLALEVHLKNLIKSCLDL 250 (252)
T ss_pred HHHHHHHHHcCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 566666766666 67899999999999999999999887653
No 77
>CHL00095 clpC Clp protease ATP binding subunit
Probab=32.92 E-value=58 Score=31.10 Aligned_cols=33 Identities=21% Similarity=0.333 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHhcCCcccchhhHHHHhhccHH
Q 032326 67 AEVLELAGNAARDNKKNRINPRHVLLAVRNDDE 99 (143)
Q Consensus 67 aEILElAgn~A~~~~~krItP~hI~~AI~nD~E 99 (143)
.++|+.|-.+|...+...|+|+||-+++-.+++
T Consensus 10 ~~vL~~A~~~A~~~~h~~V~~EHLLLaLL~~~~ 42 (821)
T CHL00095 10 IKVIMLSQEEARRLGHNFVGTEQILLGLIGEGT 42 (821)
T ss_pred HHHHHHHHHHHHHhCCCcCcHHHHHHHHHhCCC
Confidence 457888999999999999999999999987654
No 78
>KOG0787 consensus Dehydrogenase kinase [Signal transduction mechanisms]
Probab=32.52 E-value=14 Score=33.04 Aligned_cols=60 Identities=20% Similarity=0.291 Sum_probs=40.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhcCCc-ccchhhHHHHhh-ccHHHHhhhcCceecCCccCCC
Q 032326 55 PIYMAAVLEYLAAEVLELAGNAARDNKKN-RINPRHVLLAVR-NDDELGKLLQGVTIASGGVLPN 117 (143)
Q Consensus 55 ~VyLaAvLEYL~aEILElAgn~A~~~~~k-rItP~hI~~AI~-nD~EL~~L~~~~~Ia~ggv~P~ 117 (143)
.||+=..|+|++-||+.=|..+..+.... .-.+..|...|. +|++|.-.+.| -+|||.+.
T Consensus 254 ~vyvPshL~ymlfElfKNamrATve~h~~~~~~~ppI~V~V~~gdeDl~ikISD---rGGGV~~~ 315 (414)
T KOG0787|consen 254 TVYVPSHLYYMLFELFKNAMRATVEHHGDDGDELPPIKVTVAKGDEDLLIKISD---RGGGVPHR 315 (414)
T ss_pred ccccchHHHHHHHHHHHHHHHHHHHHhccCCCCCCCeEEEEecCCcceEEEEec---CCCCcChh
Confidence 47899999999999999999988775432 222555666555 66666544444 24555443
No 79
>PHA02669 hypothetical protein; Provisional
Probab=32.03 E-value=70 Score=25.67 Aligned_cols=17 Identities=35% Similarity=0.483 Sum_probs=14.3
Q ss_pred hhHHHHHHHHHHHHHHH
Q 032326 54 APIYMAAVLEYLAAEVL 70 (143)
Q Consensus 54 A~VyLaAvLEYL~aEIL 70 (143)
+.+||+++.=||+.||=
T Consensus 12 avi~LTgAaiYlLiEiG 28 (210)
T PHA02669 12 AVIYLTGAAIYLLIEIG 28 (210)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 57899999999988863
No 80
>PF15510 CENP-W: Centromere kinetochore component W
Probab=31.60 E-value=1.6e+02 Score=21.31 Aligned_cols=66 Identities=24% Similarity=0.321 Sum_probs=40.7
Q ss_pred ccccchhhHHHHHhccCcccccCCChhHH--HH----------HHHHH--HHHHHHHHHHHHHHhcCCcccchhhHHHHh
Q 032326 29 GLQFPVGRIARFLKKGRYAQRMGSGAPIY--MA----------AVLEY--LAAEVLELAGNAARDNKKNRINPRHVLLAV 94 (143)
Q Consensus 29 gL~FpVsri~r~Lr~~~~~~rIs~~A~Vy--La----------AvLEY--L~aEILElAgn~A~~~~~krItP~hI~~AI 94 (143)
.-..|-+.++|+++...---|+...+-+. +. .-|.+ |+..+-|-|-.-|.+++...|.++|+..|-
T Consensus 14 krkaPrgfLkrv~Kr~KphlRl~~~~Dllv~~~~f~~~~~~~~vhLncLLFvhrLAEEaRtnA~EnK~~~Ik~~Hv~Aaa 93 (102)
T PF15510_consen 14 KRKAPRGFLKRVFKRQKPHLRLETSGDLLVRFCPFSGWQWGGEVHLNCLLFVHRLAEEARTNACENKCGTIKKEHVLAAA 93 (102)
T ss_pred HHhCchHHHHHHHHhcCCceeecccccHHHhhcccccccccceeehhHHHHHHHHHHHHHHHHHHHhhccccHHHHHHHH
Confidence 33468888999988654434665443222 00 11122 345566667666778888889999998764
No 81
>KOG2549 consensus Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=30.14 E-value=1.1e+02 Score=28.60 Aligned_cols=48 Identities=21% Similarity=0.321 Sum_probs=44.9
Q ss_pred cccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326 48 QRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR 95 (143)
Q Consensus 48 ~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~ 95 (143)
..|...+.-.|+-=+||=+.||...|...-+..++.+.|-.||+.|++
T Consensus 27 ~nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~ALr 74 (576)
T KOG2549|consen 27 TNLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYALR 74 (576)
T ss_pred cccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHHHh
Confidence 578999999999999999999999999988888999999999999987
No 82
>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=29.76 E-value=1.1e+02 Score=26.37 Aligned_cols=44 Identities=23% Similarity=0.215 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhhhc
Q 032326 61 VLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQ 105 (143)
Q Consensus 61 vLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L~~ 105 (143)
.++|+..|+-++.-..-...|+ .||.+.|+.||..-.+...+++
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 4899999999988766555555 6999999999998877777665
No 83
>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=28.16 E-value=88 Score=30.07 Aligned_cols=40 Identities=30% Similarity=0.430 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHhcCCcccchhhHHHHhhccHH--HHhhhc
Q 032326 66 AAEVLELAGNAARDNKKNRINPRHVLLAVRNDDE--LGKLLQ 105 (143)
Q Consensus 66 ~aEILElAgn~A~~~~~krItP~hI~~AI~nD~E--L~~L~~ 105 (143)
+..+|+.|-.+|...+...|+|+||-+++-.+++ ...++.
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 3567889999999999999999999999887763 444444
No 84
>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=27.76 E-value=1.7e+02 Score=19.68 Aligned_cols=53 Identities=13% Similarity=0.177 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHHHHHHhcC-CcccchhhHHHHhh-----------ccHHHHhhhcCceecCCcc
Q 032326 62 LEYLAAEVLELAGNAARDNK-KNRINPRHVLLAVR-----------NDDELGKLLQGVTIASGGV 114 (143)
Q Consensus 62 LEYL~aEILElAgn~A~~~~-~krItP~hI~~AI~-----------nD~EL~~L~~~~~Ia~ggv 114 (143)
||+...++.+.=......++ ...|+...|..++. .++++..++..+.....|.
T Consensus 3 ~~~~~~~l~~~F~~~D~~dg~dG~Is~~El~~~l~~~~g~~lg~~~s~~ei~~~~~~~D~~~dg~ 67 (94)
T cd05031 3 LEHAMESLILTFHRYAGKDGDKNTLSRKELKKLMEKELSEFLKNQKDPMAVDKIMKDLDQNRDGK 67 (94)
T ss_pred HHHHHHHHHHHHHHHhccCCCCCeECHHHHHHHHHHHhHHHhhccccHHHHHHHHHHhCCCCCCc
Confidence 56666665553333333254 57899999998765 3467888887544444443
No 85
>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]
Probab=27.61 E-value=67 Score=31.60 Aligned_cols=46 Identities=26% Similarity=0.335 Sum_probs=36.6
Q ss_pred HHHHHHHHH---HHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhhhcCc
Q 032326 60 AVLEYLAAE---VLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQGV 107 (143)
Q Consensus 60 AvLEYL~aE---ILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L~~~~ 107 (143)
.+-|.||.| +|..|..+|+..++.-+||.|+-.++-.++ ..++..+
T Consensus 7 t~~q~lT~~Aa~~L~~a~~~Arrrgh~qvtplH~~~~LLs~~--t~~lr~a 55 (898)
T KOG1051|consen 7 TVQQTLTEEAATVLKQAVTEARRRGHAQVTPLHVASTLLSSP--TGILRRA 55 (898)
T ss_pred chHhhhCHHHHHHHHHHHHHHHHcCCCCcchHHHHHHHHcCC--chHHHHH
Confidence 445666655 899999999999999999999999988776 4555543
No 86
>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=26.89 E-value=93 Score=30.08 Aligned_cols=40 Identities=23% Similarity=0.326 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHHhcCCcccchhhHHHHhhccH--HHHhhhc
Q 032326 66 AAEVLELAGNAARDNKKNRINPRHVLLAVRNDD--ELGKLLQ 105 (143)
Q Consensus 66 ~aEILElAgn~A~~~~~krItP~hI~~AI~nD~--EL~~L~~ 105 (143)
+.++|+.|-..|...+...|+|+||-+++-.++ .+..++.
T Consensus 5 a~~~L~~A~~~A~~~~h~~I~~eHLLlaLL~~~~~~~~~iL~ 46 (852)
T TIGR03345 5 SRRALEQAAALCVARGHPEVELEHWLLALLDQPDSDLAAILR 46 (852)
T ss_pred HHHHHHHHHHHHHHhCCCcccHHHHHHHHHhccCcHHHHHHH
Confidence 356788999999999999999999999987663 3445554
No 87
>COG4905 Predicted membrane protein [Function unknown]
Probab=26.02 E-value=67 Score=26.42 Aligned_cols=21 Identities=38% Similarity=0.600 Sum_probs=18.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHH
Q 032326 55 PIYMAAVLEYLAAEVLELAGN 75 (143)
Q Consensus 55 ~VyLaAvLEYL~aEILElAgn 75 (143)
+++++.|+||+++-|||.--|
T Consensus 71 si~ivTv~Eyvt~~ILEa~Fn 91 (243)
T COG4905 71 SIFIVTVLEYVTGFILEAIFN 91 (243)
T ss_pred HHHHHHHHHHHHHHHHHHHHc
Confidence 567999999999999998755
No 88
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=25.55 E-value=88 Score=29.43 Aligned_cols=34 Identities=21% Similarity=0.287 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHhcCCcccchhhHHHHhhccHH
Q 032326 66 AAEVLELAGNAARDNKKNRINPRHVLLAVRNDDE 99 (143)
Q Consensus 66 ~aEILElAgn~A~~~~~krItP~hI~~AI~nD~E 99 (143)
+.++|+.|..+|...+...|.+.||-+|+-.|.+
T Consensus 82 lk~vL~~A~~~A~~~g~~~I~teHLLLALl~~~~ 115 (731)
T TIGR02639 82 VQRVLQRALLHVKSAGKKEIGIGDILVALFDEED 115 (731)
T ss_pred HHHHHHHHHHHHHHcCCCccCHHHHHHHHhcCcc
Confidence 3568899999999999999999999999887644
No 89
>KOG4552 consensus Vitamin-D-receptor interacting protein complex component [Transcription]
Probab=25.38 E-value=1e+02 Score=25.66 Aligned_cols=49 Identities=29% Similarity=0.245 Sum_probs=34.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcC-CcccchhhHHHHhhccHHHHhhhcC
Q 032326 58 MAAVLEYLAAEVLELAGNAARDNK-KNRINPRHVLLAVRNDDELGKLLQG 106 (143)
Q Consensus 58 LaAvLEYL~aEILElAgn~A~~~~-~krItP~hI~~AI~nD~EL~~L~~~ 106 (143)
++-=||.+..||+|.+.|.-+..- +..=+-..|++-+..|+||..|++-
T Consensus 16 ~~dDlE~i~kelie~l~~~~~qk~l~~gE~v~il~Ll~~kd~ef~~llkl 65 (272)
T KOG4552|consen 16 SADDLEHIVKELIETLINRDKQKMLKNGETVNILKLLDSKDDEFKTLLKL 65 (272)
T ss_pred HhhHHHHHHHHHHHHHHhhhHHHHHhcchHHHHHHHHHhccHHHHHHHHH
Confidence 445589999999999876543310 1112347889999999999988863
No 90
>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=24.89 E-value=85 Score=24.37 Aligned_cols=42 Identities=19% Similarity=0.180 Sum_probs=25.5
Q ss_pred ChhHHHHHHHHHHHHHHH----HHHHHHHHhcCCcccchhhHHHHhh
Q 032326 53 GAPIYMAAVLEYLAAEVL----ELAGNAARDNKKNRINPRHVLLAVR 95 (143)
Q Consensus 53 ~A~VyLaAvLEYL~aEIL----ElAgn~A~~~~~krItP~hI~~AI~ 95 (143)
.+..=+.|+++||-..-- +-..+.++.-| -.|||++|+.+|.
T Consensus 82 kt~~Ql~AA~~Yl~~~~~~~~d~~~Fe~~cGVG-V~VT~E~I~~~V~ 127 (164)
T PF04558_consen 82 KTNLQLDAALKYLKSNPSEPIDVAEFEKACGVG-VVVTPEQIEAAVE 127 (164)
T ss_dssp -SHHHHHHHHHHHHHHGG-G--HHHHHHTTTTT-----HHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHCCCCCCCHHHHHHHcCCC-eEECHHHHHHHHH
Confidence 356778999999988633 33334443333 3699999999986
No 91
>PRK10865 protein disaggregation chaperone; Provisional
Probab=24.62 E-value=1.1e+02 Score=29.60 Aligned_cols=40 Identities=25% Similarity=0.267 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHhcCCcccchhhHHHHhhccHH--HHhhhc
Q 032326 66 AAEVLELAGNAARDNKKNRINPRHVLLAVRNDDE--LGKLLQ 105 (143)
Q Consensus 66 ~aEILElAgn~A~~~~~krItP~hI~~AI~nD~E--L~~L~~ 105 (143)
+.++|+.|...|...+...|+++||-+++-+++. +..++.
T Consensus 10 ~~~~l~~a~~~a~~~~~~~~~~~hll~~l~~~~~~~~~~~l~ 51 (857)
T PRK10865 10 FQLALADAQSLALGHDNQFIEPLHLMSALLNQEGGSVRPLLT 51 (857)
T ss_pred HHHHHHHHHHHHHHcCCCcccHHHHHHHHHhCCccHHHHHHH
Confidence 3567888989999999999999999999988763 555554
No 92
>PHA02943 hypothetical protein; Provisional
Probab=24.03 E-value=1.9e+02 Score=22.91 Aligned_cols=41 Identities=15% Similarity=0.175 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHHHhhhcC
Q 032326 66 AAEVLELAGNAARDNKKNRINPRHVLLAVRNDDELGKLLQG 106 (143)
Q Consensus 66 ~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL~~L~~~ 106 (143)
+.+++.--...-++++.+-|+|..+..-|..|.|-+.+|..
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 45555555555667788899999999999999999999975
No 93
>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=23.47 E-value=1.8e+02 Score=19.39 Aligned_cols=52 Identities=12% Similarity=0.228 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHHHHH-hcCCc-ccchhhHHHHhhc-----------cHHHHhhhcCceecCCcc
Q 032326 62 LEYLAAEVLELAGNAAR-DNKKN-RINPRHVLLAVRN-----------DDELGKLLQGVTIASGGV 114 (143)
Q Consensus 62 LEYL~aEILElAgn~A~-~~~~k-rItP~hI~~AI~n-----------D~EL~~L~~~~~Ia~ggv 114 (143)
||+-..+|.+ +-+.-. ..+.. .|+...+..++.. ++++..+|+.+-....|.
T Consensus 4 ~e~~~~~l~~-~F~~fDd~dg~G~~Is~~El~~~l~~~lg~~~~~~~s~~~v~~i~~~~D~d~~G~ 68 (92)
T cd05025 4 LETAMETLIN-VFHAHSGKEGDKYKLSKKELKDLLQTELSDFLDAQKDADAVDKIMKELDENGDGE 68 (92)
T ss_pred HHHHHHHHHH-HHHHHhcccCCCCeECHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHCCCCCCc
Confidence 6777655555 555553 55666 5999999998852 567888887543333333
No 94
>COG4430 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.38 E-value=83 Score=25.59 Aligned_cols=47 Identities=15% Similarity=0.227 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHH--HHHH-HhcCCcccchhhHHHHhhccHHHHhhhcCc
Q 032326 61 VLEYLAAEVLELA--GNAA-RDNKKNRINPRHVLLAVRNDDELGKLLQGV 107 (143)
Q Consensus 61 vLEYL~aEILElA--gn~A-~~~~~krItP~hI~~AI~nD~EL~~L~~~~ 107 (143)
++++-++|+++.. |..+ -.....-+.|++|+.|+..++.|..+|...
T Consensus 110 mi~ayL~e~~~a~~aG~~~~~~~~~e~~IPeeLq~alda~palk~~f~~L 159 (200)
T COG4430 110 MIKAYLAEAIAAEKAGRWVALKKNEELIIPEELQDALDANPALKTAFEAL 159 (200)
T ss_pred HHHHHHHHHHHHHhcCCccCCCcccccCCcHHHHHHHhcCHHHHHHHHhc
Confidence 4444455555433 4432 222345689999999999999999999763
No 95
>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=22.94 E-value=1.1e+02 Score=28.46 Aligned_cols=31 Identities=26% Similarity=0.358 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHhcCCcccchhhHHHHhhcc
Q 032326 67 AEVLELAGNAARDNKKNRINPRHVLLAVRND 97 (143)
Q Consensus 67 aEILElAgn~A~~~~~krItP~hI~~AI~nD 97 (143)
..|+..|...|...+...|+.+|++.|+..-
T Consensus 361 ~~llR~A~~iA~~~~~~~I~~ehV~~Ai~~~ 391 (608)
T TIGR00764 361 GGLVRAAGDIAKSSGKVYVTAEHVLKAKKLA 391 (608)
T ss_pred HHHHHHHHHHHHhcCCceecHHHHHHHHHHH
Confidence 4577777777877788899999999987744
No 96
>CHL00095 clpC Clp protease ATP binding subunit
Probab=22.12 E-value=1e+02 Score=29.46 Aligned_cols=40 Identities=38% Similarity=0.531 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHhcCCcccchhhHHHHhhccHH--HHhhhc
Q 032326 66 AAEVLELAGNAARDNKKNRINPRHVLLAVRNDDE--LGKLLQ 105 (143)
Q Consensus 66 ~aEILElAgn~A~~~~~krItP~hI~~AI~nD~E--L~~L~~ 105 (143)
+.++|+.|...|...+...|++.||-+|+-.+++ ...++.
T Consensus 84 ~~~vL~~A~~~A~~~~~~~I~~eHLLlALL~~~ds~a~~iL~ 125 (821)
T CHL00095 84 AKRVLEMSLEEARDLGHNYIGTEHLLLALLEEGEGVAARVLE 125 (821)
T ss_pred HHHHHHHHHHHHHHhCCCcccHHHHHHHHHhCCCchHHHHHH
Confidence 3567888888888888889999999999987654 334454
No 97
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=21.99 E-value=1.9e+02 Score=25.72 Aligned_cols=61 Identities=18% Similarity=0.142 Sum_probs=48.3
Q ss_pred hhhHHHHHhccCcccccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHHhh
Q 032326 34 VGRIARFLKKGRYAQRMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLAVR 95 (143)
Q Consensus 34 Vsri~r~Lr~~~~~~rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~AI~ 95 (143)
..-++.+-+.-. ...|..++.-.|+-=|||=+.||.+.|...-..+++...|-.||..|.+
T Consensus 8 ~et~KdvAeslG-i~Ni~Dd~l~alamDlEYRI~ev~qea~KFmvhSKRtvLt~dDis~ALr 68 (450)
T COG5095 8 KETLKDVAESLG-ISNIDDDALRALAMDLEYRIKEVCQEASKFMVHSKRTVLTIDDISYALR 68 (450)
T ss_pred HHHHHHHHHHcC-CcccccHHHHHHHHhHHHHHHHHHHHHHHHhhcccceeeeHHhHHHHHH
Confidence 334444433332 2467888889999999999999999999988888999999999999876
No 98
>COG5248 TAF19 Transcription initiation factor TFIID, subunit TAF13 [Transcription]
Probab=21.81 E-value=3.3e+02 Score=20.42 Aligned_cols=52 Identities=19% Similarity=0.144 Sum_probs=35.7
Q ss_pred ccCCChhHHHHHHHHHHHHHHHHHHHHHHHhc-CCcccchhhHHHHhhccHHH
Q 032326 49 RMGSGAPIYMAAVLEYLAAEVLELAGNAARDN-KKNRINPRHVLLAVRNDDEL 100 (143)
Q Consensus 49 rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~-~~krItP~hI~~AI~nD~EL 100 (143)
-+-+-++--.-+.=||+..++.+++-|+++-. .+...--+++..|.+.|+-=
T Consensus 24 Dvv~P~~dt~~~L~e~V~dY~~~~ctna~~~Aq~rnK~k~eDfkfaLr~DpkK 76 (126)
T COG5248 24 DVVAPRYDTAEALHEYVLDYMSILCTNAHNMAQVRNKTKTEDFKFALRRDPKK 76 (126)
T ss_pred CCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHHHhhChHH
Confidence 34444444456677888888888887765442 33456778999999999754
No 99
>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=21.79 E-value=1.8e+02 Score=21.37 Aligned_cols=30 Identities=17% Similarity=0.349 Sum_probs=21.6
Q ss_pred ccccccchhhHHHHHhccCcccccCCChhH
Q 032326 27 KAGLQFPVGRIARFLKKGRYAQRMGSGAPI 56 (143)
Q Consensus 27 RagL~FpVsri~r~Lr~~~~~~rIs~~A~V 56 (143)
+.+..+|+++|++.|++-.++-....+|--
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 457789999999999998887666666643
No 100
>TIGR01128 holA DNA polymerase III, delta subunit. subunit around DNA forming a DNA sliding clamp.
Probab=21.18 E-value=3e+02 Score=21.93 Aligned_cols=63 Identities=21% Similarity=0.267 Sum_probs=37.5
Q ss_pred hhhHHHHHhcc--CcccccCCChhHHHHHHHHH----HHHHHHHHHHHHHHhcCCcccchhhHHHHhhccHHH
Q 032326 34 VGRIARFLKKG--RYAQRMGSGAPIYMAAVLEY----LAAEVLELAGNAARDNKKNRINPRHVLLAVRNDDEL 100 (143)
Q Consensus 34 Vsri~r~Lr~~--~~~~rIs~~A~VyLaAvLEY----L~aEILElAgn~A~~~~~krItP~hI~~AI~nD~EL 100 (143)
...+.+|+++. .....|+..+.-||+..++. +..||=.++. -.+...||.++|+..+..+.+.
T Consensus 113 ~~~~~~~i~~~~~~~g~~i~~~a~~~l~~~~~~d~~~l~~el~KL~~----~~~~~~It~e~I~~~~~~~~~~ 181 (302)
T TIGR01128 113 EQELPRWIQARLKKLGLRIDPDAVQLLAELVEGNLLAIAQELEKLAL----YAPDGKITLEDVEEAVSDSARF 181 (302)
T ss_pred HHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCcHHHHHHHHHHHHHh----hCCCCCCCHHHHHHHHhhhhcC
Confidence 44555565542 12347899999888877764 2223333332 2223369999999888766553
No 101
>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=21.00 E-value=47 Score=25.52 Aligned_cols=45 Identities=18% Similarity=0.275 Sum_probs=29.9
Q ss_pred ccCCChhHHHHHHHHHHHHHHHHHHHHHHHhcCCcccchhhHHHH
Q 032326 49 RMGSGAPIYMAAVLEYLAAEVLELAGNAARDNKKNRINPRHVLLA 93 (143)
Q Consensus 49 rIs~~A~VyLaAvLEYL~aEILElAgn~A~~~~~krItP~hI~~A 93 (143)
-|..+-.-=+..+++--+.++|+.|-..|+.|++--|.|.||-+.
T Consensus 12 dvdK~d~~r~~d~V~~Kl~DLl~va~~~Ak~ngRdvI~~~DLPIT 56 (138)
T PF09123_consen 12 DVDKNDAKRYSDFVEKKLYDLLLVAQENAKANGRDVIEPRDLPIT 56 (138)
T ss_dssp ---HHHHHHHHHHHHHHHHHCCCCHHHHHHHTT-SEE-GGGS---
T ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeeccccCCcc
Confidence 334444444667777778889999999999999999999997653
No 102
>cd05026 S-100Z S-100Z: S-100Z domain found in proteins similar to S100Z. S100Z is a member of the S100 domain family within the EF-hand Ca2+-binding proteins superfamily. Note that the S-100 hierarchy, to which this S-100Z 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. S100Z is normally expressed in various tissues, with its highest level of expression being in spleen and leukocytes. The function of S100Z remains unclear. Preliminary structural data suggests that S100Z is homodimer, however a heterodimer with S100P has been reported. S100Z is capable of binding calcium ions. When calcium binds to S110Z, the protein experiences a conformational change, which exposes hydrophobic surfac
Probab=20.79 E-value=2.7e+02 Score=18.91 Aligned_cols=52 Identities=8% Similarity=0.118 Sum_probs=34.3
Q ss_pred HHHHHHHHHHHHHHHHHhcCCc-ccchhhHHHHhhc-----------cHHHHhhhcCceecCCc
Q 032326 62 LEYLAAEVLELAGNAARDNKKN-RINPRHVLLAVRN-----------DDELGKLLQGVTIASGG 113 (143)
Q Consensus 62 LEYL~aEILElAgn~A~~~~~k-rItP~hI~~AI~n-----------D~EL~~L~~~~~Ia~gg 113 (143)
||.=+.+|.+.=-..+...+.. .|+...|...+.+ +.+++.+++.+-....|
T Consensus 5 le~a~~~~~~~F~~~dd~dgdg~~Is~~EL~~ll~~~~~~~~~~~~~~~~v~~i~~elD~n~dG 68 (93)
T cd05026 5 LEGAMDTLIRIFHNYSGKEGDRYKLSKGELKELLQRELTDFLSSQKDPMLVDKIMNDLDSNKDN 68 (93)
T ss_pred HHHHHHHHHHHHHHHHccCCCCCEECHHHHHHHHHHHhHHhcccccCHHHHHHHHHHhCCCCCC
Confidence 5666666666555666445554 6999999998843 35788888765444434
No 103
>PF13376 OmdA: Bacteriocin-protection, YdeI or OmpD-Associated
Probab=20.48 E-value=93 Score=19.88 Aligned_cols=23 Identities=13% Similarity=0.200 Sum_probs=20.9
Q ss_pred ccchhhHHHHhhccHHHHhhhcC
Q 032326 84 RINPRHVLLAVRNDDELGKLLQG 106 (143)
Q Consensus 84 rItP~hI~~AI~nD~EL~~L~~~ 106 (143)
.+.|.+|..++..|++.+..|..
T Consensus 4 ~~vP~dl~~aL~~~p~a~~~f~~ 26 (63)
T PF13376_consen 4 VEVPEDLEAALEANPEAKEFFES 26 (63)
T ss_pred CCCCHHHHHHHHCCHHHHHHHHH
Confidence 46899999999999999999976
Done!