Query 032441
Match_columns 140
No_of_seqs 119 out of 578
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 14:08:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032441.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032441hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00156 histone H2AX; Provisi 100.0 3E-51 6.4E-56 306.4 12.1 135 6-140 3-139 (139)
2 PLN00153 histone H2A; Provisio 100.0 3.3E-51 7.2E-56 303.2 10.9 124 6-130 1-124 (129)
3 PLN00157 histone H2A; Provisio 100.0 3E-50 6.4E-55 299.2 11.1 124 6-130 1-126 (132)
4 PTZ00017 histone H2A; Provisio 100.0 9.2E-50 2E-54 297.4 11.2 116 16-131 13-128 (134)
5 PTZ00252 histone H2A; Provisio 100.0 2.7E-49 5.8E-54 293.9 11.0 126 11-139 5-133 (134)
6 KOG1756 Histone 2A [Chromatin 100.0 2.1E-47 4.6E-52 280.9 10.3 124 6-129 1-126 (131)
7 PLN00154 histone H2A; Provisio 100.0 5.8E-47 1.2E-51 282.3 11.2 111 16-127 24-135 (136)
8 cd00074 H2A Histone 2A; H2A is 100.0 1.7E-46 3.7E-51 274.3 11.6 110 16-125 6-115 (115)
9 COG5262 HTA1 Histone H2A [Chro 100.0 1.4E-46 3E-51 273.7 10.2 128 8-139 3-131 (132)
10 smart00414 H2A Histone 2A. 100.0 2.8E-46 6E-51 269.7 9.6 105 22-126 1-105 (106)
11 KOG1757 Histone 2A [Chromatin 100.0 6.4E-41 1.4E-45 242.6 3.6 125 1-127 1-127 (131)
12 PLN00155 histone H2A; Provisio 99.9 5.6E-23 1.2E-27 133.3 4.7 58 6-64 1-58 (58)
13 PF00125 Histone: Core histone 99.6 2E-15 4.3E-20 101.1 5.6 73 24-96 2-75 (75)
14 COG5247 BUR6 Class 2 transcrip 99.4 3.2E-13 6.9E-18 96.7 6.3 86 26-111 19-104 (113)
15 PLN00035 histone H4; Provision 99.4 2.1E-13 4.5E-18 98.1 5.3 87 6-95 1-93 (103)
16 PTZ00015 histone H4; Provision 99.2 4.7E-11 1E-15 85.8 6.8 72 20-94 22-93 (102)
17 KOG1659 Class 2 transcription 99.2 3.4E-11 7.4E-16 96.0 6.4 79 26-104 9-87 (224)
18 PF00808 CBFD_NFYB_HMF: Histon 99.2 8.7E-11 1.9E-15 77.0 6.6 64 30-93 2-65 (65)
19 COG2036 HHT1 Histones H3 and H 99.1 1.6E-10 3.4E-15 81.6 5.5 68 26-94 15-82 (91)
20 smart00803 TAF TATA box bindin 99.1 4.7E-10 1E-14 74.5 6.7 64 30-94 2-65 (65)
21 cd00076 H4 Histone H4, one of 99.0 8.9E-10 1.9E-14 76.9 5.5 70 23-95 8-77 (85)
22 smart00417 H4 Histone H4. 98.9 3.6E-09 7.7E-14 72.1 4.7 66 23-91 8-73 (74)
23 cd07981 TAF12 TATA Binding Pro 98.3 3E-06 6.6E-11 57.0 6.6 66 31-96 2-67 (72)
24 cd07979 TAF9 TATA Binding Prot 98.3 2.7E-06 5.9E-11 62.3 6.4 61 34-95 5-65 (117)
25 KOG1657 CCAAT-binding factor, 98.3 8.4E-07 1.8E-11 72.2 3.9 81 25-105 69-149 (236)
26 COG5208 HAP5 CCAAT-binding fac 98.2 2.8E-06 6.1E-11 68.7 6.5 76 29-104 108-183 (286)
27 KOG3467 Histone H4 [Chromatin 98.1 9.3E-06 2E-10 57.2 5.2 86 6-94 1-92 (103)
28 smart00576 BTP Bromodomain tra 97.9 5.6E-05 1.2E-09 51.2 6.4 59 36-95 12-70 (77)
29 cd08050 TAF6 TATA Binding Prot 97.7 9.6E-05 2.1E-09 62.7 6.7 60 34-94 3-62 (343)
30 PF02969 TAF: TATA box binding 97.7 0.00016 3.4E-09 48.3 6.2 64 30-94 3-66 (66)
31 cd08048 TAF11 TATA Binding Pro 97.5 0.00054 1.2E-08 47.7 7.1 63 31-94 17-82 (85)
32 smart00428 H3 Histone H3. 97.5 0.00032 7E-09 50.7 6.0 67 28-94 27-99 (105)
33 PLN00158 histone H2B; Provisio 97.3 0.001 2.3E-08 48.9 6.8 61 34-94 31-91 (116)
34 PTZ00463 histone H2B; Provisio 97.2 0.0029 6.2E-08 46.6 8.0 60 35-94 33-92 (117)
35 KOG0869 CCAAT-binding factor, 97.1 0.0017 3.6E-08 50.2 6.3 66 29-94 31-97 (168)
36 smart00427 H2B Histone H2B. 97.1 0.002 4.4E-08 45.3 6.0 60 35-94 6-65 (89)
37 KOG3219 Transcription initiati 96.9 0.0017 3.7E-08 51.6 4.6 66 28-94 110-176 (195)
38 PF04719 TAFII28: hTAFII28-lik 96.8 0.0031 6.6E-08 44.5 5.2 65 30-94 23-88 (90)
39 PF15511 CENP-T: Centromere ki 96.7 0.0025 5.5E-08 55.5 5.1 72 17-88 338-414 (414)
40 PF15630 CENP-S: Kinetochore c 96.7 0.011 2.3E-07 40.4 7.1 48 52-99 26-76 (76)
41 PF09415 CENP-X: CENP-S associ 96.1 0.032 6.8E-07 37.7 6.6 61 32-92 1-64 (72)
42 PF02291 TFIID-31kDa: Transcri 95.9 0.034 7.3E-07 41.5 6.7 62 33-95 15-76 (129)
43 PF07524 Bromo_TP: Bromodomain 95.9 0.038 8.3E-07 36.9 6.2 58 36-94 12-69 (77)
44 PLN00160 histone H3; Provision 95.8 0.02 4.3E-07 40.9 4.8 67 28-94 19-90 (97)
45 KOG0871 Class 2 transcription 95.8 0.04 8.6E-07 42.3 6.5 70 26-95 8-78 (156)
46 PF03847 TFIID_20kDa: Transcri 95.7 0.047 1E-06 36.4 5.9 62 35-96 4-65 (68)
47 PTZ00018 histone H3; Provision 95.7 0.022 4.8E-07 43.0 4.8 66 28-93 60-129 (136)
48 PLN00161 histone H3; Provision 95.5 0.033 7.2E-07 42.0 5.3 67 28-94 53-124 (135)
49 PLN00121 histone H3; Provision 95.4 0.021 4.6E-07 43.1 3.9 66 28-93 60-129 (136)
50 KOG0870 DNA polymerase epsilon 95.2 0.07 1.5E-06 41.6 6.2 67 27-94 7-76 (172)
51 KOG1744 Histone H2B [Chromatin 94.9 0.2 4.3E-06 37.4 7.7 64 28-94 38-101 (127)
52 KOG1658 DNA polymerase epsilon 94.3 0.034 7.4E-07 42.9 2.4 77 28-104 57-133 (162)
53 cd07978 TAF13 The TATA Binding 92.5 0.83 1.8E-05 32.1 6.9 47 52-99 24-70 (92)
54 KOG1745 Histones H3 and H4 [Ch 92.5 0.12 2.5E-06 39.1 2.7 64 31-94 64-131 (137)
55 PF02269 TFIID-18kDa: Transcri 92.0 0.16 3.5E-06 35.6 2.8 56 48-103 19-74 (93)
56 KOG1142 Transcription initiati 91.8 0.22 4.9E-06 41.2 3.9 69 29-97 153-221 (258)
57 PLN00163 histone H4; Provision 89.0 0.13 2.8E-06 33.6 0.1 44 6-52 1-50 (59)
58 KOG3334 Transcription initiati 87.6 2.8 6E-05 32.1 6.6 56 36-95 19-77 (148)
59 COG5094 TAF9 Transcription ini 83.6 6.1 0.00013 29.7 6.6 62 34-96 18-82 (145)
60 PF02861 Clp_N: Clp amino term 82.0 1.8 3.9E-05 25.9 2.8 33 72-104 1-35 (53)
61 COG5251 TAF40 Transcription in 78.7 3.8 8.3E-05 32.4 4.3 65 30-95 115-180 (199)
62 KOG2549 Transcription initiati 77.9 8 0.00017 35.5 6.6 57 38-94 18-74 (576)
63 PF15510 CENP-W: Centromere ki 75.6 11 0.00023 27.0 5.5 64 29-94 15-94 (102)
64 COG5150 Class 2 transcription 72.6 17 0.00036 27.5 6.1 67 28-96 9-78 (148)
65 PF08369 PCP_red: Proto-chloro 68.0 6.6 0.00014 24.0 2.7 27 66-92 18-44 (45)
66 KOG4336 TBP-associated transcr 65.8 30 0.00065 29.6 7.0 84 36-120 11-101 (323)
67 PF13335 Mg_chelatase_2: Magne 62.4 11 0.00024 26.3 3.3 47 48-94 42-94 (96)
68 COG5095 TAF6 Transcription ini 61.5 35 0.00077 29.7 6.7 50 45-94 19-68 (450)
69 TIGR02928 orc1/cdc6 family rep 59.7 44 0.00095 27.5 7.0 61 34-94 202-272 (365)
70 PRK00411 cdc6 cell division co 57.3 49 0.0011 27.6 6.9 68 28-95 201-281 (394)
71 COG1067 LonB Predicted ATP-dep 56.4 39 0.00085 31.5 6.6 34 66-99 369-402 (647)
72 KOG3901 Transcription initiati 55.9 22 0.00049 25.8 4.0 37 62-99 38-75 (109)
73 TIGR00764 lon_rel lon-related 53.8 44 0.00096 30.7 6.5 31 66-96 361-391 (608)
74 PF13654 AAA_32: AAA domain; P 52.9 17 0.00038 32.7 3.7 31 65-95 475-505 (509)
75 PF09123 DUF1931: Domain of un 52.0 6.9 0.00015 29.7 0.8 56 36-92 1-56 (138)
76 PF12096 DUF3572: Protein of u 51.9 12 0.00027 26.2 2.1 55 34-93 22-80 (88)
77 COG3636 Predicted transcriptio 49.9 18 0.00039 26.0 2.6 54 51-104 21-83 (100)
78 COG1474 CDC6 Cdc6-related prot 49.7 66 0.0014 27.7 6.6 73 28-101 184-269 (366)
79 PRK11034 clpA ATP-dependent Cl 43.8 36 0.00078 32.2 4.4 41 65-105 6-46 (758)
80 PF04604 L_biotic_typeA: Type- 43.7 16 0.00035 23.2 1.5 22 95-119 16-37 (51)
81 KOG1658 DNA polymerase epsilon 41.9 46 0.00099 25.9 4.0 73 27-104 8-80 (162)
82 PHA02943 hypothetical protein; 39.1 79 0.0017 24.7 4.9 41 65-105 76-116 (165)
83 TIGR02263 benz_CoA_red_C benzo 38.2 69 0.0015 27.4 5.0 44 60-104 136-179 (380)
84 smart00350 MCM minichromosome 38.0 85 0.0018 28.0 5.7 65 30-94 417-502 (509)
85 TIGR02639 ClpA ATP-dependent C 37.5 53 0.0011 30.6 4.4 40 65-104 5-44 (731)
86 PF12767 SAGA-Tad1: Transcript 36.9 64 0.0014 26.0 4.4 41 34-75 210-250 (252)
87 PF08539 HbrB: HbrB-like; Int 36.1 31 0.00067 26.4 2.3 84 26-125 22-106 (158)
88 TIGR01128 holA DNA polymerase 34.6 1.3E+02 0.0027 23.9 5.7 66 33-98 113-180 (302)
89 COG4430 Uncharacterized protei 33.4 61 0.0013 26.0 3.6 46 60-105 110-158 (200)
90 PRK05574 holA DNA polymerase I 31.0 1.3E+02 0.0029 24.3 5.4 63 32-98 147-215 (340)
91 cd08045 TAF4 TATA Binding Prot 30.9 1.4E+02 0.003 23.5 5.3 57 22-79 36-96 (212)
92 PHA02669 hypothetical protein; 30.5 69 0.0015 25.4 3.4 18 53-70 12-29 (210)
93 cd05029 S-100A6 S-100A6: S-100 30.1 1.8E+02 0.0038 19.6 5.4 54 61-114 5-68 (88)
94 cd05031 S-100A10_like S-100A10 28.6 1.8E+02 0.004 19.3 5.2 54 61-114 3-68 (94)
95 PF05236 TAF4: Transcription i 28.1 1.2E+02 0.0026 24.6 4.7 57 23-79 36-95 (264)
96 CHL00095 clpC Clp protease ATP 28.0 80 0.0017 29.9 4.0 33 66-98 10-42 (821)
97 cd05026 S-100Z S-100Z: S-100Z 26.3 2.1E+02 0.0045 19.3 5.2 53 61-113 5-69 (93)
98 TIGR03190 benz_CoA_bzdN benzoy 26.2 1.5E+02 0.0031 25.4 5.0 46 58-104 130-175 (377)
99 PF13376 OmdA: Bacteriocin-pro 25.6 64 0.0014 20.4 2.1 23 83-105 4-26 (63)
100 PRK09862 putative ATP-dependen 25.2 82 0.0018 28.5 3.4 28 67-94 463-490 (506)
101 KOG0787 Dehydrogenase kinase [ 24.9 15 0.00032 32.4 -1.3 62 52-116 252-315 (414)
102 COG5248 TAF19 Transcription in 24.8 2.6E+02 0.0057 20.6 5.4 52 48-99 24-76 (126)
103 cd05025 S-100A1 S-100A1: S-100 24.4 2.2E+02 0.0047 18.8 4.8 53 61-114 4-69 (92)
104 PF09077 Phage-MuB_C: Mu B tra 24.0 35 0.00076 23.3 0.7 28 66-94 49-76 (78)
105 PF09377 SBDS_C: SBDS protein 23.9 1.7E+02 0.0037 21.2 4.4 30 26-55 18-47 (125)
106 TIGR02639 ClpA ATP-dependent C 23.4 1E+02 0.0022 28.8 3.8 34 65-98 82-115 (731)
107 TIGR03346 chaperone_ClpB ATP-d 22.6 1E+02 0.0022 29.4 3.6 33 65-97 5-37 (852)
108 TIGR03015 pepcterm_ATPase puta 21.9 1.5E+02 0.0032 23.1 4.0 46 49-94 216-264 (269)
109 PF04558 tRNA_synt_1c_R1: Glut 21.9 1.2E+02 0.0026 23.3 3.3 40 53-94 83-127 (164)
110 KOG4552 Vitamin-D-receptor int 21.5 1.4E+02 0.003 24.6 3.7 51 55-105 14-65 (272)
111 PRK05629 hypothetical protein; 21.4 2.1E+02 0.0045 23.5 4.9 61 34-99 129-195 (318)
112 TIGR03191 benz_CoA_bzdO benzoy 21.0 1.7E+02 0.0038 25.6 4.5 43 57-100 153-195 (430)
113 TIGR03345 VI_ClpV1 type VI sec 20.9 1.3E+02 0.0029 28.8 4.1 32 65-96 5-36 (852)
114 TIGR01242 26Sp45 26S proteasom 20.5 1.4E+02 0.0031 24.9 3.9 28 67-94 334-361 (364)
115 PTZ00361 26 proteosome regulat 20.2 1.3E+02 0.0028 26.6 3.6 29 67-95 395-423 (438)
116 PRK10865 protein disaggregatio 20.2 1.6E+02 0.0034 28.3 4.4 39 65-103 10-50 (857)
No 1
>PLN00156 histone H2AX; Provisional
Probab=100.00 E-value=3e-51 Score=306.44 Aligned_cols=135 Identities=79% Similarity=1.160 Sum_probs=122.5
Q ss_pred cccCCCCCCC--CCCCCCCcCcccccccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCce
Q 032441 6 AATKGGRGRS--KDTKPVSRSHKAGLQFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNR 83 (140)
Q Consensus 6 ~~~~gk~gk~--~~~~~~s~s~ragL~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ 83 (140)
.|+..|+|++ ++++..|+|+||||||||+||+|+|++++|+.||+++|||||+||||||++||||||+|.|+++++++
T Consensus 3 ~~~~~~~~~g~~~~~k~~srS~rAgL~FPVgRi~R~Lk~g~ya~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~R 82 (139)
T PLN00156 3 GSGTTKGGRGKPKATKSVSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNR 82 (139)
T ss_pred CCCCCCCCCCcccccCCcCcccccCcccchHHHHHHHhcCChhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCc
Confidence 3455555554 45678899999999999999999999999999999999999999999999999999999999999999
Q ss_pred echhhHHHHHhccHHHHhhhcCceecCCccCCCcCccccccchhcccCCCCCCCCCC
Q 032441 84 IIPRHIQLAVKNDEEFSKLLGSVTIANGGVLPNIHQNLLPKKAAARKGEIGSVSQEF 140 (140)
Q Consensus 84 ItP~hI~~AI~nD~EL~~L~~~~~Ia~ggv~p~i~~~~~~~k~~~~~~~~~~~~~~~ 140 (140)
|+|+||++||+||+||++||++|||++|||+|+||++|+++|.++++.++...+|+|
T Consensus 83 ItPrHi~lAIrnDeEL~~Ll~~vTIa~GGV~P~i~~~l~~kk~~~~~~~~~~~~~~~ 139 (139)
T PLN00156 83 IVPRHIQLAVRNDEELSKLLGSVTIAAGGVLPNIHQTLLPKKVGKGKGDIGSASQEF 139 (139)
T ss_pred CcHHHHHhhccCcHHHHHHHCCCccCCCccCCCccHhhccccccccccccccccCCC
Confidence 999999999999999999999999999999999999999999876666666778775
No 2
>PLN00153 histone H2A; Provisional
Probab=100.00 E-value=3.3e-51 Score=303.24 Aligned_cols=124 Identities=73% Similarity=1.114 Sum_probs=115.5
Q ss_pred cccCCCCCCCCCCCCCCcCcccccccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceec
Q 032441 6 AATKGGRGRSKDTKPVSRSHKAGLQFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRII 85 (140)
Q Consensus 6 ~~~~gk~gk~~~~~~~s~s~ragL~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~It 85 (140)
|||+||+++ .+++..|+|+||||||||+||+|+|++++|+.||+++|||||+||||||++||||+|+|.|+++++++|+
T Consensus 1 m~g~~~~~~-~~~k~~srS~ragL~FpVgRi~R~Lr~g~~a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RIt 79 (129)
T PLN00153 1 MAGRGKGKT-SGKKAVSRSAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIV 79 (129)
T ss_pred CCCCCCCCc-cccCccCcccccCcccchHHHHHHHhcCchhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccC
Confidence 567788654 3456789999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhHHHHHhccHHHHhhhcCceecCCccCCCcCccccccchhccc
Q 032441 86 PRHIQLAVKNDEEFSKLLGSVTIANGGVLPNIHQNLLPKKAAARK 130 (140)
Q Consensus 86 P~hI~~AI~nD~EL~~L~~~~~Ia~ggv~p~i~~~~~~~k~~~~~ 130 (140)
|+||++||+||+||++||++|||++|||+|+||++|+++|.++++
T Consensus 80 PrHi~lAI~nDeEL~~Ll~~vTIa~GGV~P~i~~~l~~kk~~~~~ 124 (129)
T PLN00153 80 PRHIQLAIRNDEELGKLLGEVTIASGGVLPNIHAVLLPKKTKGGK 124 (129)
T ss_pred hHHHHhhccCcHHHHHHHCCCccCCCccCCCcchhhcCcccCCCc
Confidence 999999999999999999999999999999999999999875443
No 3
>PLN00157 histone H2A; Provisional
Probab=100.00 E-value=3e-50 Score=299.17 Aligned_cols=124 Identities=73% Similarity=1.108 Sum_probs=114.4
Q ss_pred cccCCC--CCCCCCCCCCCcCcccccccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCce
Q 032441 6 AATKGG--RGRSKDTKPVSRSHKAGLQFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNR 83 (140)
Q Consensus 6 ~~~~gk--~gk~~~~~~~s~s~ragL~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ 83 (140)
|||+|+ +++ .+++..|+|+||||+|||+||+|+|++++|+.||+++|+|||+||||||++||||||+|.|+++++++
T Consensus 1 ms~~g~~~~~~-~~~k~~srS~ragL~FPVgRi~R~Lk~g~~a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~R 79 (132)
T PLN00157 1 MSGRGKRKGGG-GGKKATSRSAKAGLQFPVGRIARYLKAGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSR 79 (132)
T ss_pred CCCCCCCCCCc-cCcCCcCcccccCcccchHHHHHHHhcCchhhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCcc
Confidence 456766 333 35568899999999999999999999999999999999999999999999999999999999999999
Q ss_pred echhhHHHHHhccHHHHhhhcCceecCCccCCCcCccccccchhccc
Q 032441 84 IIPRHIQLAVKNDEEFSKLLGSVTIANGGVLPNIHQNLLPKKAAARK 130 (140)
Q Consensus 84 ItP~hI~~AI~nD~EL~~L~~~~~Ia~ggv~p~i~~~~~~~k~~~~~ 130 (140)
|+|+||++||+||+||++||++|||++|||+|+||++|+++|.++++
T Consensus 80 ItPrHi~lAI~nDeEL~~Ll~~vtIa~GGV~P~i~~~ll~kk~~~~~ 126 (132)
T PLN00157 80 IVPRHIQLAVRNDEELSKLLGGVTIAAGGVLPNIHSVLLPKKSGKSK 126 (132)
T ss_pred ccHHHHhhcccCcHHHHHHHcCceecCCccCCCcchhhcCCCCCCCC
Confidence 99999999999999999999999999999999999999999875443
No 4
>PTZ00017 histone H2A; Provisional
Probab=100.00 E-value=9.2e-50 Score=297.35 Aligned_cols=116 Identities=76% Similarity=1.178 Sum_probs=110.7
Q ss_pred CCCCCCCcCcccccccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHhc
Q 032441 16 KDTKPVSRSHKAGLQFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVKN 95 (140)
Q Consensus 16 ~~~~~~s~s~ragL~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~n 95 (140)
++++..|+|+||||+|||+||+|||++++|+.||+++|+|||+||||||++||||||+|.|+++++++|+|+||++||+|
T Consensus 13 ~~~k~~srS~ragL~FPVgRi~R~Lk~g~~a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~RItPrHi~lAI~n 92 (134)
T PTZ00017 13 GKKKPVSRSAKAGLQFPVGRVHRYLKKGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLAIRN 92 (134)
T ss_pred cCcCcccccccCCcccchHHHHHHHhccchhccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHhhccC
Confidence 35678899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cHHHHhhhcCceecCCccCCCcCccccccchhcccC
Q 032441 96 DEEFSKLLGSVTIANGGVLPNIHQNLLPKKAAARKG 131 (140)
Q Consensus 96 D~EL~~L~~~~~Ia~ggv~p~i~~~~~~~k~~~~~~ 131 (140)
|+||++||+++||++|||+|+||++|+++|.+++++
T Consensus 93 DeEL~~Ll~~vtIa~GGV~P~i~~~l~~k~~~~~~~ 128 (134)
T PTZ00017 93 DEELNKLLAGVTIASGGVLPNIHKVLLPKKSKPKQG 128 (134)
T ss_pred cHHHHHHHcCCcccCCccCCCccHhhccCCCCcccc
Confidence 999999999999999999999999999998755554
No 5
>PTZ00252 histone H2A; Provisional
Probab=100.00 E-value=2.7e-49 Score=293.93 Aligned_cols=126 Identities=44% Similarity=0.782 Sum_probs=113.0
Q ss_pred CCCCCCCCCCCC-cCcccccccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHh--cCCceechh
Q 032441 11 GRGRSKDTKPVS-RSHKAGLQFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARD--NKKNRIIPR 87 (140)
Q Consensus 11 k~gk~~~~~~~s-~s~ragL~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~--~~rk~ItP~ 87 (140)
.++|++.++..+ +|+||||||||+||+|||++++|+.||+++|+|||+||||||++||||||+|.|++ +++++|+|+
T Consensus 5 ~~~~~~~~~~~~~rS~rAGL~FPVgRi~R~Lr~g~ya~RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~kk~RItPr 84 (134)
T PTZ00252 5 KQAKKKASKSGSGRSAKAGLIFPVGRVGSLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPKRLTPR 84 (134)
T ss_pred cchhhcccccccccccccCccCchHHHHHHHHcCCcccccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccccHH
Confidence 345554444555 99999999999999999999999999999999999999999999999999999976 788999999
Q ss_pred hHHHHHhccHHHHhhhcCceecCCccCCCcCccccccchhcccCCCCCCCCC
Q 032441 88 HIQLAVKNDEEFSKLLGSVTIANGGVLPNIHQNLLPKKAAARKGEIGSVSQE 139 (140)
Q Consensus 88 hI~~AI~nD~EL~~L~~~~~Ia~ggv~p~i~~~~~~~k~~~~~~~~~~~~~~ 139 (140)
||++||+||+|||+||+++||++|||+|+||++|+++++..+++| ++|+
T Consensus 85 Hi~lAIrNDeEL~~Ll~~vTIa~GGVlP~i~~~l~~k~~~~~~~~---~~~~ 133 (134)
T PTZ00252 85 TVTLAVRHDDDLGSLLKNVTLSRGGVMPSLNKALAKKHKSGKKAK---ATPS 133 (134)
T ss_pred HHHhhccChHHHHHHHcCCccCCCccCCCccHhhccccccCCCCC---CCCC
Confidence 999999999999999999999999999999999999966555544 6775
No 6
>KOG1756 consensus Histone 2A [Chromatin structure and dynamics]
Probab=100.00 E-value=2.1e-47 Score=280.86 Aligned_cols=124 Identities=68% Similarity=1.073 Sum_probs=116.7
Q ss_pred cccCCCCCCCCCC--CCCCcCcccccccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCce
Q 032441 6 AATKGGRGRSKDT--KPVSRSHKAGLQFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNR 83 (140)
Q Consensus 6 ~~~~gk~gk~~~~--~~~s~s~ragL~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ 83 (140)
+|+++|+|+.+++ ...|+|.|+||||||++|+|+|++++|++||+.+|||||+||||||++||||+|+|+|+++++.+
T Consensus 1 ~s~~~k~gk~~~~~~~~~srs~~agl~fPvgri~r~Lr~~~~~~ri~~gapV~laavLeYL~Aeile~agnaardnkk~r 80 (131)
T KOG1756|consen 1 MSGRGKGGKAKPRAKAKSSRSSRAGLQFPVGRIHRLLRKGRYAQRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTR 80 (131)
T ss_pred CCccCCCCcccchhhhhcchhhhcccccCHHHHHHHHHccchhhhccCCChHHHHHHHHHHHHHHHHHhHHHhhhcCccc
Confidence 5788888877444 66799999999999999999999999999999999999999999999999999999999999999
Q ss_pred echhhHHHHHhccHHHHhhhcCceecCCccCCCcCccccccchhcc
Q 032441 84 IIPRHIQLAVKNDEEFSKLLGSVTIANGGVLPNIHQNLLPKKAAAR 129 (140)
Q Consensus 84 ItP~hI~~AI~nD~EL~~L~~~~~Ia~ggv~p~i~~~~~~~k~~~~ 129 (140)
|+|+||++||+||+||++|+++|||++|||+|+||+.||++|..+.
T Consensus 81 i~PrH~~lAI~NDeEL~~lL~~vtIa~GGvlPnI~~~lLpKk~~~~ 126 (131)
T KOG1756|consen 81 ITPRHLQLAIRNDEELNKLLGKVTIAQGGVLPNIQAILLPKKTGKH 126 (131)
T ss_pred cChHHHHHHHhCcHHHHHHhccceeccCCcccccchhhcccccccC
Confidence 9999999999999999999999999999999999999999987553
No 7
>PLN00154 histone H2A; Provisional
Probab=100.00 E-value=5.8e-47 Score=282.26 Aligned_cols=111 Identities=56% Similarity=0.876 Sum_probs=104.9
Q ss_pred CCCCCCCcCcccccccchhhHHHHHhhCC-CccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHh
Q 032441 16 KDTKPVSRSHKAGLQFPVGRVARFLKKGR-YAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVK 94 (140)
Q Consensus 16 ~~~~~~s~s~ragL~fPVsri~R~Lk~~~-~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~ 94 (140)
.+++..|||+|+||||||+||+|+|++++ +.+||+.+|||||+||||||++||||||+|.|+++++++|+|+||++||+
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 45568999999999999999999999997 46799999999999999999999999999999999999999999999999
Q ss_pred ccHHHHhhhcCceecCCccCCCcCccccccchh
Q 032441 95 NDEEFSKLLGSVTIANGGVLPNIHQNLLPKKAA 127 (140)
Q Consensus 95 nD~EL~~L~~~~~Ia~ggv~p~i~~~~~~~k~~ 127 (140)
||+||++||+ +||++|||+|+||++|+++|.+
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 9999999997 6999999999999999988753
No 8
>cd00074 H2A Histone 2A; H2A is a subunit of the nucleosome. The nucleosome is an octamer containing two H2A, H2B, H3, and H4 subunits. The H2A subunit performs essential roles in maintaining structural integrity of the nucleosome, chromatin condensation, and binding of specific chromatin-associated proteins.
Probab=100.00 E-value=1.7e-46 Score=274.28 Aligned_cols=110 Identities=77% Similarity=1.179 Sum_probs=106.1
Q ss_pred CCCCCCCcCcccccccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHhc
Q 032441 16 KDTKPVSRSHKAGLQFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVKN 95 (140)
Q Consensus 16 ~~~~~~s~s~ragL~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~n 95 (140)
++++++|+|+|+||+|||+||+|||+++++++||+++|+|||+||||||++||||+|+|.|+++++++|+|+||++||+|
T Consensus 6 ~~~~~~s~s~ragL~fPV~ri~R~Lk~~~~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi~n 85 (115)
T cd00074 6 KKSKKRSRSARAGLQFPVGRIHRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAVRN 85 (115)
T ss_pred cCcCccccccccCccCcHHHHHHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHHhc
Confidence 45567899999999999999999999988999999999999999999999999999999999999999999999999999
Q ss_pred cHHHHhhhcCceecCCccCCCcCccccccc
Q 032441 96 DEEFSKLLGSVTIANGGVLPNIHQNLLPKK 125 (140)
Q Consensus 96 D~EL~~L~~~~~Ia~ggv~p~i~~~~~~~k 125 (140)
|+|||+||+++||++|||+|+||++|+++|
T Consensus 86 D~EL~~L~~~vtI~~ggv~p~i~~~l~~~~ 115 (115)
T cd00074 86 DEELNKLLKGVTIASGGVLPNIHKVLLPKK 115 (115)
T ss_pred cHHHHHHHcCCcccCCccCCCcchhhcCCC
Confidence 999999999999999999999999999874
No 9
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]
Probab=100.00 E-value=1.4e-46 Score=273.68 Aligned_cols=128 Identities=66% Similarity=1.014 Sum_probs=118.5
Q ss_pred cCCCCCCC-CCCCCCCcCcccccccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceech
Q 032441 8 TKGGRGRS-KDTKPVSRSHKAGLQFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIP 86 (140)
Q Consensus 8 ~~gk~gk~-~~~~~~s~s~ragL~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP 86 (140)
++|||||. +.+...|+|.++||+|||+||+|+|+.+++..||+++|+||++||||||++||+|+|+|.|+++++++|+|
T Consensus 3 ~~GKGgK~a~~r~~~s~sa~agl~fpvgrvkr~lk~~~~~~Rig~~A~Vyl~AvleYL~aEilelAgNaA~d~kkkri~P 82 (132)
T COG5262 3 SGGKGGKAADARVSQSRSAKAGLIFPVGRVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIP 82 (132)
T ss_pred cCCcCcccccchhccchhhhcCccccHHHHHHHHHcCccceeecCCcHHHHHHHHHHHHHHHHHHhhhhhhhcCcceech
Confidence 56888884 66778899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHhccHHHHhhhcCceecCCccCCCcCccccccchhcccCCCCCCCCC
Q 032441 87 RHIQLAVKNDEEFSKLLGSVTIANGGVLPNIHQNLLPKKAAARKGEIGSVSQE 139 (140)
Q Consensus 87 ~hI~~AI~nD~EL~~L~~~~~Ia~ggv~p~i~~~~~~~k~~~~~~~~~~~~~~ 139 (140)
+||++||+||+||++|+.+|||++|||+||||+.|+++.. +|-.+.+|+
T Consensus 83 rHlqlAIrnD~EL~~l~~~~tIa~GGvlp~I~~~ll~k~s----kK~sk~~~~ 131 (132)
T COG5262 83 RHLQLAIRNDEELNKLLGDVTIAQGGVLPNINPGLLPKSS----KKGSKRSQE 131 (132)
T ss_pred HHHHHHhcCcHHHHHHhhhheeecCCcccccChhhhhhhh----ccCCccccc
Confidence 9999999999999999999999999999999999998875 445555555
No 10
>smart00414 H2A Histone 2A.
Probab=100.00 E-value=2.8e-46 Score=269.75 Aligned_cols=105 Identities=76% Similarity=1.188 Sum_probs=102.9
Q ss_pred CcCcccccccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHhccHHHHh
Q 032441 22 SRSHKAGLQFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVKNDEEFSK 101 (140)
Q Consensus 22 s~s~ragL~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~nD~EL~~ 101 (140)
|+|+|+||+|||+||+|||++++++.||+++|+|||+||||||++||||+|+|.|+++++++|+|+||++||+||+|||+
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 hhcCceecCCccCCCcCccccccch
Q 032441 102 LLGSVTIANGGVLPNIHQNLLPKKA 126 (140)
Q Consensus 102 L~~~~~Ia~ggv~p~i~~~~~~~k~ 126 (140)
||+++||++|||+|+||++|+++|+
T Consensus 81 L~~~vti~~ggv~p~i~~~l~~~~~ 105 (106)
T smart00414 81 LLKGVTIAQGGVLPNIHKVLLPKKT 105 (106)
T ss_pred HHcCcccCCCccCCCcchhhcccCC
Confidence 9999999999999999999999874
No 11
>KOG1757 consensus Histone 2A [Chromatin structure and dynamics]
Probab=100.00 E-value=6.4e-41 Score=242.62 Aligned_cols=125 Identities=53% Similarity=0.826 Sum_probs=111.3
Q ss_pred CCccccccCCCCCCC-CCCCCCCcCcccccccchhhHHHHHhhCCCcc-ccCCChHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032441 1 MSSEAAATKGGRGRS-KDTKPVSRSHKAGLQFPVGRVARFLKKGRYAQ-RVGSGSPVYLSAVLEYLAAEVLELAGNAARD 78 (140)
Q Consensus 1 ~~~~~~~~~gk~gk~-~~~~~~s~s~ragL~fPVsri~R~Lk~~~~~~-RVs~~A~vyLaAvLEyl~~EILelA~n~A~~ 78 (140)
|+|..+. .++++.+ .+.+.+|+|.|+||||||+||+|.|+....+. ||+..++||++++||||++|+||||+|.+++
T Consensus 1 m~g~~~g-k~~~~~k~~~~k~vs~s~raGlqFpVgRihr~LK~r~t~h~rVGataavy~aaileYLTaEVLeLAgNasKd 79 (131)
T KOG1757|consen 1 MAGGKAG-KDSGKAKDSKAKAVSRSARAGLQFPVGRIHRHLKTRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKD 79 (131)
T ss_pred CCCcccc-CcccccchhhhhhhhHHHhcccccchHHHHHHHHHhcccccccchHHHHHHHHHHHHHHHHHHHHccccccc
Confidence 7777443 3444333 44578999999999999999999999887765 9999999999999999999999999999999
Q ss_pred cCCceechhhHHHHHhccHHHHhhhcCceecCCccCCCcCccccccchh
Q 032441 79 NKKNRIIPRHIQLAVKNDEEFSKLLGSVTIANGGVLPNIHQNLLPKKAA 127 (140)
Q Consensus 79 ~~rk~ItP~hI~~AI~nD~EL~~L~~~~~Ia~ggv~p~i~~~~~~~k~~ 127 (140)
.+.+||||+|+++||+.|+||+.|++. ||++|||+||||++|+.++.+
T Consensus 80 LKvKRitprHlqLAiRGDeELDtLIk~-TiagGgViPhihk~l~~k~~~ 127 (131)
T KOG1757|consen 80 LKVKRITPRHLQLAIRGDEELDTLIKA-TIAGGGVIPHIHKSLINKKGK 127 (131)
T ss_pred ceeeeccchhheeeecCcHHHHHHHHH-hhccCccccchHHHHhccccc
Confidence 999999999999999999999999977 899999999999999987653
No 12
>PLN00155 histone H2A; Provisional
Probab=99.87 E-value=5.6e-23 Score=133.35 Aligned_cols=58 Identities=66% Similarity=1.087 Sum_probs=51.4
Q ss_pred cccCCCCCCCCCCCCCCcCcccccccchhhHHHHHhhCCCccccCCChHHHHHHHHHHH
Q 032441 6 AATKGGRGRSKDTKPVSRSHKAGLQFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYL 64 (140)
Q Consensus 6 ~~~~gk~gk~~~~~~~s~s~ragL~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl 64 (140)
||++||+++ .+++.+|+|+|+||||||+||+|+|++++++.||+.+|||||+||||||
T Consensus 1 msg~g~g~~-~~~k~~srS~rAgL~FPVgri~r~Lr~g~~a~Rvga~apVYlAAVLEYL 58 (58)
T PLN00155 1 MAGRGKGKT-SGKKAVSRSAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYL 58 (58)
T ss_pred CCCCCCCCc-cccCccCcccccccccchHHHHHHHhcCChhhcccCCcHHHHHHHHHhC
Confidence 456777544 3456789999999999999999999999999999999999999999997
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=99.59 E-value=2e-15 Score=101.06 Aligned_cols=73 Identities=42% Similarity=0.605 Sum_probs=68.2
Q ss_pred CcccccccchhhHHHHHhhCCCcc-ccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHhcc
Q 032441 24 SHKAGLQFPVGRVARFLKKGRYAQ-RVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVKND 96 (140)
Q Consensus 24 s~ragL~fPVsri~R~Lk~~~~~~-RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~nD 96 (140)
+.+..+.||+.|+.+-+....+.. ||+.+|.+||.+++||++.+|+++|++.|.++++++|+|+||++|++.|
T Consensus 2 ~~~~~~~~~~~r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r~~ 75 (75)
T PF00125_consen 2 TRRLIPKFPFSRLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLAVRID 75 (75)
T ss_dssp HSHSSSHHHHHHHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHHHT
T ss_pred cccccCceEEeeeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHHHhcC
Confidence 456788999999999999987775 9999999999999999999999999999999999999999999999876
No 14
>COG5247 BUR6 Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]
Probab=99.43 E-value=3.2e-13 Score=96.72 Aligned_cols=86 Identities=26% Similarity=0.432 Sum_probs=78.4
Q ss_pred ccccccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHhccHHHHhhhcC
Q 032441 26 KAGLQFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVKNDEEFSKLLGS 105 (140)
Q Consensus 26 ragL~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~nD~EL~~L~~~ 105 (140)
+-...||++|++++|+-+.+...|+..+||.....||+|+.+|+.+++..|+..+.+|||.+||..|+.+|+.|++|-..
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 44678999999999999999999999999999999999999999999999999999999999999999999999998764
Q ss_pred ceecCC
Q 032441 106 VTIANG 111 (140)
Q Consensus 106 ~~Ia~g 111 (140)
.-+-.+
T Consensus 99 ~~~~~~ 104 (113)
T COG5247 99 EQFKNR 104 (113)
T ss_pred HHhcCC
Confidence 433333
No 15
>PLN00035 histone H4; Provisional
Probab=99.43 E-value=2.1e-13 Score=98.10 Aligned_cols=87 Identities=17% Similarity=0.266 Sum_probs=73.1
Q ss_pred cccCCCCCCC------CCCCCCCcCcccccccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 032441 6 AATKGGRGRS------KDTKPVSRSHKAGLQFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDN 79 (140)
Q Consensus 6 ~~~~gk~gk~------~~~~~~s~s~ragL~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~ 79 (140)
||++||+||+ ++.++..+.+-++ +|.+.|.|+++.. .+.|||+++-..|..+||.++.+|+..|..+|.|.
T Consensus 1 m~~~~k~~~g~g~~g~kr~~k~~~d~i~~--ipk~~IrRLARr~-GvkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA 77 (103)
T PLN00035 1 MSGRGKGGKGLGKGGAKRHRKVLRDNIQG--ITKPAIRRLARRG-GVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHA 77 (103)
T ss_pred CCCCCCCCCCCCCCcchHHHHHHHhhhcc--CCHHHHHHHHHHc-CcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4666776654 2333344444455 8888999999998 79999999999999999999999999999999999
Q ss_pred CCceechhhHHHHHhc
Q 032441 80 KKNRIIPRHIQLAVKN 95 (140)
Q Consensus 80 ~rk~ItP~hI~~AI~n 95 (140)
+|++|+++||.+|++.
T Consensus 78 ~RKTV~~~DV~~Alkr 93 (103)
T PLN00035 78 RRKTVTAMDVVYALKR 93 (103)
T ss_pred CCCcCcHHHHHHHHHH
Confidence 9999999999999863
No 16
>PTZ00015 histone H4; Provisional
Probab=99.20 E-value=4.7e-11 Score=85.83 Aligned_cols=72 Identities=17% Similarity=0.265 Sum_probs=64.1
Q ss_pred CCCcCcccccccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHh
Q 032441 20 PVSRSHKAGLQFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVK 94 (140)
Q Consensus 20 ~~s~s~ragL~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~ 94 (140)
+..+.+-.| +|.+.|.|+++.. ++.|||+++-..+..+||.++.+|+..|..+|.++++++|+++||.+|++
T Consensus 22 k~~r~~i~g--I~k~~IrRLarr~-GvkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~AlK 93 (102)
T PTZ00015 22 KVLRDNIRG--ITKGAIRRLARRG-GVKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVYALK 93 (102)
T ss_pred HHHhhcccC--CCHHHHHHHHHHc-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHH
Confidence 344444445 5667899999998 89999999999999999999999999999999999999999999999985
No 17
>KOG1659 consensus Class 2 transcription repressor NC2, alpha subunit (DRAP1) [Transcription]
Probab=99.19 E-value=3.4e-11 Score=95.98 Aligned_cols=79 Identities=23% Similarity=0.382 Sum_probs=74.8
Q ss_pred ccccccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHhccHHHHhhhc
Q 032441 26 KAGLQFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVKNDEEFSKLLG 104 (140)
Q Consensus 26 ragL~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~nD~EL~~L~~ 104 (140)
+-.-.||++||++||+.+....+|...+||.+...||.|+.+|+..++..++..+-++++++||..||.+|+.|++|-.
T Consensus 9 ~~~trfp~aRiKKIMQ~dEdIGKvaqavPViisralElFl~~l~~~t~~~t~~~~aKt~s~~hlkq~v~~~~~FdFLk~ 87 (224)
T KOG1659|consen 9 KYKTRFPPARIKKIMQSDEDIGKVAQAVPVIISRALELFLESLLQKTLEITRSRGAKTVSSSHLKQAVESDPKFDFLKE 87 (224)
T ss_pred hhhccCCHHHHHHHHhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCccccCHHHHHHHHhccchhHHHHH
Confidence 3456799999999999999999999999999999999999999999999999999999999999999999999999864
No 18
>PF00808 CBFD_NFYB_HMF: Histone-like transcription factor (CBF/NF-Y) and archaeal histone; InterPro: IPR003958 The CCAAT-binding factor (CBF) is a mammalian transcription factor that binds to a CCAAT motif in the promoters of a wide variety of genes, including type I collagen and albumin. The factor is a heteromeric complex of A and B subunits, both of which are required for DNA-binding [, ]. The subunits can interact in the absence of DNA-binding, conserved regions in each being important in mediating this interaction. The A subunit can be split into 3 domains on the basis of sequence similarity, a non-conserved N-terminal 'A domain'; a highly-conserved central 'B domain' involved in DNA-binding; and a C-terminal 'C domain', which contains a number of glutamine and acidic residues involved in protein-protein interactions []. The A subunit shows striking similarity to the HAP3 subunit of the yeast CCAAT-binding heterotrimeric transcription factor [, ]. The Kluyveromyces lactis HAP3 protein has been predicted to contain a 4-cysteine zinc finger, which is thought to be present in similar HAP3 and CBF subunit A proteins, in which the third cysteine is replaced by a serine []. This domain is found in the CCAAT transcription factor and archaeal histones.; GO: 0043565 sequence-specific DNA binding, 0005622 intracellular; PDB: 1F1E_A 2BYM_D 2BYK_D 1HTA_A 1B67_A 1JFI_B 1KU5_B 1N1J_A 1BFM_A 1B6W_A ....
Probab=99.18 E-value=8.7e-11 Score=77.00 Aligned_cols=64 Identities=22% Similarity=0.281 Sum_probs=58.1
Q ss_pred ccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHH
Q 032441 30 QFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAV 93 (140)
Q Consensus 30 ~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI 93 (140)
.||+++|+|+||......+|+.+|..+++.+.|.|+.+|...|...|.+.++++|+++||..|+
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 5999999999999866779999999999999999999999999999999999999999999886
No 19
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=99.10 E-value=1.6e-10 Score=81.61 Aligned_cols=68 Identities=32% Similarity=0.369 Sum_probs=64.0
Q ss_pred ccccccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHh
Q 032441 26 KAGLQFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVK 94 (140)
Q Consensus 26 ragL~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~ 94 (140)
...+-||+..|.|+|++. ...|||.+|...|..++|.++.+|.+.|...|.|.||++|+++||.+|+.
T Consensus 15 ~~~~~Lp~apv~Ri~r~~-~~~Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~ 82 (91)
T COG2036 15 STDLLLPKAPVRRILRKA-GAERVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALK 82 (91)
T ss_pred hhhhhcCchHHHHHHHHH-hHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHH
Confidence 346779999999999998 78899999999999999999999999999999999999999999999985
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=99.08 E-value=4.7e-10 Score=74.47 Aligned_cols=64 Identities=16% Similarity=0.200 Sum_probs=61.1
Q ss_pred ccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHh
Q 032441 30 QFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVK 94 (140)
Q Consensus 30 ~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~ 94 (140)
.+|.+.|.|+.+.. +..||++++...|+..+||.+.+|++.|.+.++|.+|++++++||+.|++
T Consensus 2 ~~p~~~i~ria~~~-Gi~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk 65 (65)
T smart00803 2 WLPKETIKDVAESL-GIGNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR 65 (65)
T ss_pred CCCHHHHHHHHHHC-CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence 58999999999998 88999999999999999999999999999999999999999999999863
No 21
>cd00076 H4 Histone H4, one of the four histones, along with H2A, H2B and H3, which forms the eukaryotic nucleosome core; along with H3, it plays a central role in nucleosome formation; histones bind to DNA and wrap the genetic material into "beads on a string" in which DNA (the string) is wrapped around small blobs of histones (the beads) at regular intervals; play a role in the inheritance of specialized chromosome structures and the control of gene activity; defects in the establishment of proper chromosome structure by histones may activate or silence genes aberrantly and thus lead to disease; the sequence of histone H4 has remained almost invariant in more than 2 billion years of evolution
Probab=98.99 E-value=8.9e-10 Score=76.86 Aligned_cols=70 Identities=19% Similarity=0.281 Sum_probs=63.6
Q ss_pred cCcccccccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHhc
Q 032441 23 RSHKAGLQFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVKN 95 (140)
Q Consensus 23 ~s~ragL~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~n 95 (140)
+.+-+| +|.+.|.|+.+.+ ++.|||.++-..+..+||.++.+|+..|..+|.++++++|+++||.+|++.
T Consensus 8 ~~~~~g--i~k~~I~RLarr~-GvkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr 77 (85)
T cd00076 8 RDNIKG--ITKPAIRRLARRG-GVKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKR 77 (85)
T ss_pred HHhhcc--CCHHHHHHHHHHc-CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHH
Confidence 344445 7778899999998 799999999999999999999999999999999999999999999999863
No 22
>smart00417 H4 Histone H4.
Probab=98.86 E-value=3.6e-09 Score=72.11 Aligned_cols=66 Identities=14% Similarity=0.179 Sum_probs=59.5
Q ss_pred cCcccccccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHH
Q 032441 23 RSHKAGLQFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQL 91 (140)
Q Consensus 23 ~s~ragL~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~ 91 (140)
+.+-.| +|...|.|+++.+ ++.|||+++-..+..+||.++.+|+..|..+|.+.++++|+.+||..
T Consensus 8 ~d~i~g--I~k~~IrRLaRr~-GvkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~~ 73 (74)
T smart00417 8 RDNIQG--ITKPAIRRLARRG-GVKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVVY 73 (74)
T ss_pred HhhhcC--CCHHHHHHHHHHc-CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHhee
Confidence 334445 6677899999998 89999999999999999999999999999999999999999999864
No 23
>cd07981 TAF12 TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of the seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs function such as serving as activator-bind
Probab=98.30 E-value=3e-06 Score=56.96 Aligned_cols=66 Identities=15% Similarity=0.243 Sum_probs=59.6
Q ss_pred cchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHhcc
Q 032441 31 FPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVKND 96 (140)
Q Consensus 31 fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~nD 96 (140)
++-..+..++++-....|++.+|...|..++|-++.+|++.|+..|+|.++++|.++||+++++..
T Consensus 2 ~~k~~l~~lv~~id~~~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r~ 67 (72)
T cd07981 2 LTKRKLQELLKEIDPREQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLERN 67 (72)
T ss_pred CcHHHHHHHHHhhCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHh
Confidence 344567788888766789999999999999999999999999999999999999999999999765
No 24
>cd07979 TAF9 TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. The TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAFs orthologs and paralogs. Human TAF9 has a paralogue gene (TAF9L) whi
Probab=98.27 E-value=2.7e-06 Score=62.31 Aligned_cols=61 Identities=18% Similarity=0.091 Sum_probs=57.4
Q ss_pred hhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHhc
Q 032441 34 GRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVKN 95 (140)
Q Consensus 34 sri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~n 95 (140)
--|+++|++. +..+++..++..|...++-++.+|+..|..+|+|++|++|+.+||++||..
T Consensus 5 ~~v~~iLk~~-Gv~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~ 65 (117)
T cd07979 5 RVIAAILKSM-GITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQS 65 (117)
T ss_pred HHHHHHHHHC-CCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 3588999997 788999999999999999999999999999999999999999999999974
No 25
>KOG1657 consensus CCAAT-binding factor, subunit C (HAP5) [Transcription]
Probab=98.26 E-value=8.4e-07 Score=72.20 Aligned_cols=81 Identities=19% Similarity=0.267 Sum_probs=75.9
Q ss_pred cccccccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHhccHHHHhhhc
Q 032441 25 HKAGLQFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVKNDEEFSKLLG 104 (140)
Q Consensus 25 ~ragL~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~nD~EL~~L~~ 104 (140)
.-....||++||+++||.+....-|+.+|||.++.+.|+++.|+-..++..+..++|+.+.-.||..++.+..-+++|.+
T Consensus 69 d~~~~~lPlaRiKkimK~dedv~mI~~Eapvl~aka~E~Fi~elt~~sw~~Tee~~rrtl~~sdia~av~~s~~fdFL~D 148 (236)
T KOG1657|consen 69 DFKNHILPLARIKKIMKSDEDVSMITAEAPVLFAKACELFITELTLRSWVHTEENKRRTLQKSDIAAAVTQSETFDFLRD 148 (236)
T ss_pred chhhccCcHhhccccccccccccccchhHHHHHHHHHHHHHHHHHHHhhhhhcccccccchHHHHHHHhccCCCccceec
Confidence 33467899999999999999999999999999999999999999999999999999999999999999999999999996
Q ss_pred C
Q 032441 105 S 105 (140)
Q Consensus 105 ~ 105 (140)
.
T Consensus 149 i 149 (236)
T KOG1657|consen 149 I 149 (236)
T ss_pred c
Confidence 4
No 26
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]
Probab=98.24 E-value=2.8e-06 Score=68.71 Aligned_cols=76 Identities=24% Similarity=0.377 Sum_probs=72.4
Q ss_pred cccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHhccHHHHhhhc
Q 032441 29 LQFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVKNDEEFSKLLG 104 (140)
Q Consensus 29 L~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~nD~EL~~L~~ 104 (140)
+.+|++||+++||.+.+..-|++.||+.++.+-|-+++|+.-.|+-.|..++|.++.-.||..|+...+-+++|+.
T Consensus 108 h~LPlARIkkvMKtdedVkMisaEaPvlFak~~EiFI~ELTmRAW~~ae~NkRRtLQksDia~Av~kSeMfDFLid 183 (286)
T COG5208 108 HNLPLARIKKVMKTDEDVKMISAEAPVLFAKITEIFIEELTMRAWINAEENKRRTLQKSDIAAAVKKSEMFDFLID 183 (286)
T ss_pred ccCcHHHHHHHHhcccchhheecccchHHHHHHHHHHHHHHHHHHHHHhHhhhhHHHHHHHHHHHHHHHHHhHHhh
Confidence 4599999999999998899999999999999999999999999999999999999999999999999999999985
No 27
>KOG3467 consensus Histone H4 [Chromatin structure and dynamics]
Probab=98.06 E-value=9.3e-06 Score=57.16 Aligned_cols=86 Identities=20% Similarity=0.307 Sum_probs=70.8
Q ss_pred cccCCCCCCC------CCCCCCCcCcccccccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 032441 6 AATKGGRGRS------KDTKPVSRSHKAGLQFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDN 79 (140)
Q Consensus 6 ~~~~gk~gk~------~~~~~~s~s~ragL~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~ 79 (140)
||++|++||+ ++.++.-+.+-.|++-|. |.|+-+.+ ...||+...-.....++.-++.+++-.|+.++.+.
T Consensus 1 Ms~r~~g~KG~~KG~AKrHRK~LsDnIqgitKpa--IRRlARr~-GVkRi~G~~yeE~~~~~k~fl~n~i~~A~~yt~HA 77 (103)
T KOG3467|consen 1 MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPA--IRRLARRG-GVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHA 77 (103)
T ss_pred CCCcCccccccccchHHHHHHHHHhhccccchHH--HHHHHHhc-CcchhchhhHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 4566666665 344445566677888887 88998887 78999999999999999999999999999999999
Q ss_pred CCceechhhHHHHHh
Q 032441 80 KKNRIIPRHIQLAVK 94 (140)
Q Consensus 80 ~rk~ItP~hI~~AI~ 94 (140)
++++||..||-.+..
T Consensus 78 KRKTvT~~dvv~~LK 92 (103)
T KOG3467|consen 78 KRKTVTAMDVVYALK 92 (103)
T ss_pred hhceeeHHHHHHHHH
Confidence 999999999987764
No 28
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=97.88 E-value=5.6e-05 Score=51.20 Aligned_cols=59 Identities=19% Similarity=0.124 Sum_probs=54.6
Q ss_pred HHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHhc
Q 032441 36 VARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVKN 95 (140)
Q Consensus 36 i~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~n 95 (140)
|.++|+.. +..+++.+|...|+.++|-++.+|.+.+-++|.+.||+..++.||.+|+.+
T Consensus 12 Vaqil~~~-Gf~~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~ 70 (77)
T smart00576 12 VAQILESA-GFDSFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALEN 70 (77)
T ss_pred HHHHHHHc-CccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 46778886 889999999999999999999999999999999999999999999999854
No 29
>cd08050 TAF6 TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and are involved in forming Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs functions such as serving as
Probab=97.71 E-value=9.6e-05 Score=62.70 Aligned_cols=60 Identities=13% Similarity=0.216 Sum_probs=54.1
Q ss_pred hhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHh
Q 032441 34 GRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVK 94 (140)
Q Consensus 34 sri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~ 94 (140)
.-|+-+.+.. +..|++++|...|+..+||.+.+|++.|.+.+++.+|++++++||+.|++
T Consensus 3 ~~i~~ia~~~-Gi~~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~ 62 (343)
T cd08050 3 ESIKLIAESL-GIDSLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALR 62 (343)
T ss_pred hHHHHHHHHc-CCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHH
Confidence 3455555554 78899999999999999999999999999999999999999999999987
No 30
>PF02969 TAF: TATA box binding protein associated factor (TAF); InterPro: IPR004823 The TATA box binding protein associated factor (TAF) is part of the transcription initiation factor TFIID multimeric protein complex. TFIID plays a central role in mediating promoter responses to various activators and repressors. It binds tightly to TAFII-250 and directly interacts with TAFII-40. TFIID is composed of TATA binding protein (TBP)and a number of TBP-associated factors (TAFS). TAF proteins adopt a histone-like fold.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus; PDB: 1TAF_B.
Probab=97.70 E-value=0.00016 Score=48.28 Aligned_cols=64 Identities=17% Similarity=0.213 Sum_probs=49.2
Q ss_pred ccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHh
Q 032441 30 QFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVK 94 (140)
Q Consensus 30 ~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~ 94 (140)
.||..-|+.+-..- +..-+++++.-.|+.=+||-+.||++.|.+..++.+|+++|++||+.|++
T Consensus 3 ~~~~esvk~iAes~-Gi~~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di~~ALr 66 (66)
T PF02969_consen 3 VFSQESVKDIAESL-GISNLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLTTDDINSALR 66 (66)
T ss_dssp ---HHHHHHHHHHT-T---B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHH-
T ss_pred cCCHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHhC
Confidence 46777777666554 66789999999999999999999999999999999999999999999874
No 31
>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=97.51 E-value=0.00054 Score=47.72 Aligned_cols=63 Identities=19% Similarity=0.374 Sum_probs=55.9
Q ss_pred cchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcC---CceechhhHHHHHh
Q 032441 31 FPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNK---KNRIIPRHIQLAVK 94 (140)
Q Consensus 31 fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~---rk~ItP~hI~~AI~ 94 (140)
||-..++|++... ....++.+..+.|+++-.-++.||.|.|...-...+ ...|.|+||+.|.+
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 7888899999987 568999999999999999999999999988866644 47899999999875
No 32
>smart00428 H3 Histone H3.
Probab=97.50 E-value=0.00032 Score=50.74 Aligned_cols=67 Identities=22% Similarity=0.231 Sum_probs=57.9
Q ss_pred ccccchhhHHHHHhhC----CC--ccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHh
Q 032441 28 GLQFPVGRVARFLKKG----RY--AQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVK 94 (140)
Q Consensus 28 gL~fPVsri~R~Lk~~----~~--~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~ 94 (140)
.|.+|-.++.|+.++- .. ..|++++|...|-.+.|.++.++++.|...|.|.++.+|+|+|+++|.+
T Consensus 27 ~lLI~k~pF~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi~La~r 99 (105)
T smart00428 27 DLLIRKAPFQRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQLARR 99 (105)
T ss_pred ccccccccHHHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhHHHHHH
Confidence 6778888888877642 11 3599999999999999999999999999999999999999999999854
No 33
>PLN00158 histone H2B; Provisional
Probab=97.31 E-value=0.001 Score=48.86 Aligned_cols=61 Identities=25% Similarity=0.280 Sum_probs=56.2
Q ss_pred hhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHh
Q 032441 34 GRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVK 94 (140)
Q Consensus 34 sri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~ 94 (140)
..|+|.|++-....-|+..|.-.|...+..+...|...|...++-+++.+|++++|+.|++
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 4699999998777799999999999999999999999999999999999999999999987
No 34
>PTZ00463 histone H2B; Provisional
Probab=97.19 E-value=0.0029 Score=46.60 Aligned_cols=60 Identities=15% Similarity=0.189 Sum_probs=55.3
Q ss_pred hHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHh
Q 032441 35 RVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVK 94 (140)
Q Consensus 35 ri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~ 94 (140)
.|++.|++-....-||..|.-.|...+.-+...|...|...|+-+++.+|++++|+.|++
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 599999998777799999999999999999999999999999999999999999999997
No 35
>KOG0869 consensus CCAAT-binding factor, subunit A (HAP3) [Transcription]
Probab=97.10 E-value=0.0017 Score=50.16 Aligned_cols=66 Identities=17% Similarity=0.226 Sum_probs=59.6
Q ss_pred cccchhhHHHHHhhCCCcc-ccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHh
Q 032441 29 LQFPVGRVARFLKKGRYAQ-RVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVK 94 (140)
Q Consensus 29 L~fPVsri~R~Lk~~~~~~-RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~ 94 (140)
--+|++-|-||||+.-... +|+.+|...+--++-.|++=|.-.|...|+..+||+|+.+||-+|+.
T Consensus 31 r~LPIANV~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~ 97 (168)
T KOG0869|consen 31 RFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMS 97 (168)
T ss_pred hhccHHHHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHH
Confidence 3589999999999985444 99999999999999888899999999999999999999999999986
No 36
>smart00427 H2B Histone H2B.
Probab=97.08 E-value=0.002 Score=45.35 Aligned_cols=60 Identities=23% Similarity=0.268 Sum_probs=55.5
Q ss_pred hHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHh
Q 032441 35 RVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVK 94 (140)
Q Consensus 35 ri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~ 94 (140)
.|+|.|++-....-|+..|.-.|...+..+...|...|...++-+++.+|++++|+.|++
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 588999998777799999999999999999999999999999999999999999999986
No 37
>KOG3219 consensus Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=96.85 E-value=0.0017 Score=51.59 Aligned_cols=66 Identities=17% Similarity=0.295 Sum_probs=56.6
Q ss_pred ccccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcC-CceechhhHHHHHh
Q 032441 28 GLQFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNK-KNRIIPRHIQLAVK 94 (140)
Q Consensus 28 gL~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~-rk~ItP~hI~~AI~ 94 (140)
..-||-+.|+++|..-.... |+..+.++++++-.-|+.||+|+|.......+ ...+.|.||+.|.+
T Consensus 110 rs~f~Ka~iKkL~~~itg~~-v~~nv~Ia~~GiaKvFVGEvVEeAl~V~~~~~e~~PLqP~HIREA~r 176 (195)
T KOG3219|consen 110 RSAFPKAQIKKLMSSITGQS-VSENVAIAMAGIAKVFVGEVVEEALDVREEWGESGPLQPKHIREAYR 176 (195)
T ss_pred HhcCCHHHHHHHHHHHhCCc-cCcceeeeecchhhHhHHHHHHHHHHHHHHhccCCCCCcHHHHHHHH
Confidence 34699999999999975444 99999999999999999999999988866543 45699999999974
No 38
>PF04719 TAFII28: hTAFII28-like protein conserved region; InterPro: IPR006809 The general transcription factor, TFIID, consists of the TATA-binding protein (TBP) associated with a series of TBP-associated factors (TAFs) that together participate in the assembly of the transcription preinitiation complex. The conserved region is found at the C terminus of most member proteins. The crystal structure of hTAFII28 with hTAFII18 shows that this region is involved in the binding of these two subunits. The conserved region contains four alpha helices and three loops arranged as in histone H3 [, ].; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005634 nucleus; PDB: 1BH9_B 1BH8_B.
Probab=96.82 E-value=0.0031 Score=44.48 Aligned_cols=65 Identities=14% Similarity=0.262 Sum_probs=47.8
Q ss_pred ccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcC-CceechhhHHHHHh
Q 032441 30 QFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNK-KNRIIPRHIQLAVK 94 (140)
Q Consensus 30 ~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~-rk~ItP~hI~~AI~ 94 (140)
.||-+.|++++..-....-|+....+.++++--.|+.||+|.|.......+ ...|.|.||+.|.+
T Consensus 23 ~~~k~~ikkli~~~~~~qsv~~~v~i~v~g~aKvFVGEiVE~A~~Vq~~~~~~~pl~P~hlreA~r 88 (90)
T PF04719_consen 23 SFNKAAIKKLINQVLGNQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGETGPLQPDHLREAYR 88 (90)
T ss_dssp ---HHHHHHHHHHHHS-S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SS--HHHHHHHHH
T ss_pred cCCHHHHHHHHHHHcCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHH
Confidence 488889999999873338999999999999999999999999988866543 45899999999864
No 39
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T.
Probab=96.72 E-value=0.0025 Score=55.51 Aligned_cols=72 Identities=13% Similarity=0.120 Sum_probs=44.9
Q ss_pred CCCCCCcCcccccccchhhHHHHHhhC----CCcc-ccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhh
Q 032441 17 DTKPVSRSHKAGLQFPVGRVARFLKKG----RYAQ-RVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRH 88 (140)
Q Consensus 17 ~~~~~s~s~ragL~fPVsri~R~Lk~~----~~~~-RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~h 88 (140)
++++.|+-.-..-.+|.+.|++++..- .|+. +|+.+|.-.|..++||+...|-+=-..||.|+|||+|.+.|
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 445566666667779999999887543 4454 99999999999999999999999888999999999999876
No 40
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=96.70 E-value=0.011 Score=40.41 Aligned_cols=48 Identities=19% Similarity=0.330 Sum_probs=36.9
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHH---HHHhcCCceechhhHHHHHhccHHH
Q 032441 52 GSPVYLSAVLEYLAAEVLELAGN---AARDNKKNRIIPRHIQLAVKNDEEF 99 (140)
Q Consensus 52 ~A~vyLaAvLEyl~~EILelA~n---~A~~~~rk~ItP~hI~~AI~nD~EL 99 (140)
-++.|++++.|-....+-.+|.. .|+|.||++|+++|+.+..+.++.|
T Consensus 26 ~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~~dDV~Ll~Rrn~~L 76 (76)
T PF15630_consen 26 VSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTINMDDVKLLARRNPSL 76 (76)
T ss_dssp E-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHTTT-HHH
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHHHhhcCCCC
Confidence 47888888888888777777643 4899999999999999999998876
No 41
>PF09415 CENP-X: CENP-S associating Centromere protein X; InterPro: IPR018552 Centromere protein X (CENP-X) is a component of the CENP-S complex. The CENP-S complex is composed of at least of CENP-S and CENP-X and is essential for the stable assembly of the outer kinetchore []. CENP-X is also a DNA-binding component of the Fanconi anemia (FA) core complex involved in DNA damage repair and genome maintenance. The FA complex is composed of CENPS, FANCA, FANCB, FANCC, FANCE, FANCF, FANCG, FANCL/PHF9, FANCM, FAAP24 and CENPX. Interacts with CENPS, FANCM and FAAP24 [, ].; PDB: 4DRB_L 4DRA_H 3V9R_D.
Probab=96.12 E-value=0.032 Score=37.72 Aligned_cols=61 Identities=15% Similarity=0.200 Sum_probs=48.3
Q ss_pred chhhHHHHHhhCCC--ccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCce-echhhHHHH
Q 032441 32 PVGRVARFLKKGRY--AQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNR-IIPRHIQLA 92 (140)
Q Consensus 32 PVsri~R~Lk~~~~--~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~-ItP~hI~~A 92 (140)
|..-|.|+|+.... .-||+.+|...++..|+-|+.|-+-+|...|...+... |..+||+..
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 45567888885422 23999999999999999999999999999999999888 999999873
No 42
>PF02291 TFIID-31kDa: Transcription initiation factor IID, 31kD subunit; InterPro: IPR003162 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription []. TAFII-31 protein is a transcriptional coactivator of the p53 protein [].; GO: 0006352 transcription initiation, DNA-dependent; PDB: 1TAF_A.
Probab=95.94 E-value=0.034 Score=41.55 Aligned_cols=62 Identities=18% Similarity=0.086 Sum_probs=42.3
Q ss_pred hhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHhc
Q 032441 33 VGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVKN 95 (140)
Q Consensus 33 Vsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~n 95 (140)
+--|+-+|++. +........+.-|--..--++.+||+-|-.+|.+++++.|+..||++||..
T Consensus 15 a~~i~~iL~~~-Gv~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~~~DVrLAi~~ 76 (129)
T PF02291_consen 15 ARVIHLILKSM-GVTEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTIDADDVRLAIQS 76 (129)
T ss_dssp HHHHHHHHHHT-T---B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHHHH
T ss_pred HHHHHHHHHHc-CCcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHH
Confidence 34578888887 433333334444444444468899999999999999999999999999973
No 43
>PF07524 Bromo_TP: Bromodomain associated; InterPro: IPR006565 This bromodomain is found in eukaryotic transcription factors and PHD domain containing proteins (IPR001965 from INTERPRO). The tandem PHD finger-bromodomain is found in many chromatin-associated proteins. It is involved in gene silencing by the human co-repressor KRAB-associated protein 1 (KAP1). The tandem PHD finger-bromodomain of KAP1 has a distinct structure that joins the two protein modules. The first helix, alpha(Z), of an atypical bromodomain forms the central hydrophobic core that anchors the other three helices of the bromodomain on one side and the zinc binding PHD finger on the other []. The Rap1 GTPase-activating protein, Sipa1, is modulated by the cellular bromodomain protein, Brd4. Brd4 belongs to the BET family and is a multifunctional protein involved in transcription, replication, the signal transduction pathway, and cell cycle progression. All of these functions are linked to its association with acetylated chromatin. It has tandem bromodomains []. The dysregulation of the Brd4-associated pathways may play an important role in breast cancer progression []. Bovine papillomavirus type 1 E2 also binds to chromosomes in a complex with Brd4. Interaction with Brd4 is additionally important for E2-mediated transcriptional regulation [, ].
Probab=95.90 E-value=0.038 Score=36.95 Aligned_cols=58 Identities=17% Similarity=0.145 Sum_probs=51.8
Q ss_pred HHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHh
Q 032441 36 VARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVK 94 (140)
Q Consensus 36 i~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~ 94 (140)
|..+|+.. +...++..|...|+.+++.++.+|...+-.+|.+.+|...++.|+..|..
T Consensus 12 va~il~~~-GF~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~ 69 (77)
T PF07524_consen 12 VAQILKHA-GFDSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQALE 69 (77)
T ss_pred HHHHHHHc-CccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 34566665 77899999999999999999999999999999999999999999998874
No 44
>PLN00160 histone H3; Provisional
Probab=95.83 E-value=0.02 Score=40.92 Aligned_cols=67 Identities=22% Similarity=0.211 Sum_probs=57.4
Q ss_pred ccccchhhHHHHHhhCC-----CccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHh
Q 032441 28 GLQFPVGRVARFLKKGR-----YAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVK 94 (140)
Q Consensus 28 gL~fPVsri~R~Lk~~~-----~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~ 94 (140)
.|.+|-.++.|+.++-. ...|...+|...|--+-|.++-.++|-+.--|.|.++-+|.|.|++++.+
T Consensus 19 ~lLI~k~pF~RLVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~~L~~r 90 (97)
T PLN00160 19 DLLIRRLPFARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDMQLARR 90 (97)
T ss_pred hhhhccccHHHHHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhHHHHHH
Confidence 67788888888876531 23599999999999999999999999998889999999999999999854
No 45
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=95.78 E-value=0.04 Score=42.26 Aligned_cols=70 Identities=19% Similarity=0.226 Sum_probs=59.1
Q ss_pred ccccccchhhHHHHHhhCCC-ccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHhc
Q 032441 26 KAGLQFPVGRVARFLKKGRY-AQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVKN 95 (140)
Q Consensus 26 ragL~fPVsri~R~Lk~~~~-~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~n 95 (140)
.-.+.+|-+-|..++++.-. ..||..+|-..|-.+-=||+.-|--.|...|....+++|.|+|+..|..|
T Consensus 8 dde~sLPkAtv~KmIke~lP~d~rvakeareliincCvEFI~liSsEAneic~~e~KKTIa~EHV~KALe~ 78 (156)
T KOG0871|consen 8 DDELSLPKATVNKMIKEMLPKDVRVAKEARELIINCCVEFINLISSEANEICNKEAKKTIAPEHVIKALEN 78 (156)
T ss_pred cccccCcHHHHHHHHHHhCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcccCCHHHHHHHHHH
Confidence 34789999999999999855 35999999887777766677778888888899999999999999999875
No 46
>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=95.70 E-value=0.047 Score=36.45 Aligned_cols=62 Identities=13% Similarity=0.259 Sum_probs=49.4
Q ss_pred hHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHhcc
Q 032441 35 RVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVKND 96 (140)
Q Consensus 35 ri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~nD 96 (140)
++..++++-.....+..++...|..+.+-|+..++..|+..|++-+..++.++||++....+
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 56677887766779999999999999999999999999999999999999999999987643
No 47
>PTZ00018 histone H3; Provisional
Probab=95.70 E-value=0.022 Score=43.01 Aligned_cols=66 Identities=23% Similarity=0.203 Sum_probs=57.4
Q ss_pred ccccchhhHHHHHhhCC----CccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHH
Q 032441 28 GLQFPVGRVARFLKKGR----YAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAV 93 (140)
Q Consensus 28 gL~fPVsri~R~Lk~~~----~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI 93 (140)
.|.||-.+|.|+.++-. ...|+..+|...|--+-|.++-.++|.+.-.|.|.++-+|.|.|++++.
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 56788888888887531 2359999999999999999999999999989999999999999999984
No 48
>PLN00161 histone H3; Provisional
Probab=95.55 E-value=0.033 Score=42.00 Aligned_cols=67 Identities=21% Similarity=0.199 Sum_probs=57.1
Q ss_pred ccccchhhHHHHHhhCC-----CccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHh
Q 032441 28 GLQFPVGRVARFLKKGR-----YAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVK 94 (140)
Q Consensus 28 gL~fPVsri~R~Lk~~~-----~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~ 94 (140)
.|.+|-.+|.|+.++-. ...|+..+|...|--+-|.++-.++|-+.-.|.|.++-+|.|.||+++.+
T Consensus 53 ~lLIpklPF~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm~La~r 124 (135)
T PLN00161 53 ELLIRKLPFARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDMQLARR 124 (135)
T ss_pred ccccccccHHHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhHHHHHH
Confidence 56678888888876531 23599999999999999999999999998889999999999999999854
No 49
>PLN00121 histone H3; Provisional
Probab=95.43 E-value=0.021 Score=43.11 Aligned_cols=66 Identities=23% Similarity=0.203 Sum_probs=57.2
Q ss_pred ccccchhhHHHHHhhCC----CccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHH
Q 032441 28 GLQFPVGRVARFLKKGR----YAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAV 93 (140)
Q Consensus 28 gL~fPVsri~R~Lk~~~----~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI 93 (140)
.|.+|-.+|.|+.++-. ...|+..+|...|--+-|.++-.++|.+.--|.|.++-+|.|.||+++.
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 67788888888876531 2359999999999999999999999999888999999999999999985
No 50
>KOG0870 consensus DNA polymerase epsilon, subunit D [Transcription]
Probab=95.22 E-value=0.07 Score=41.57 Aligned_cols=67 Identities=13% Similarity=0.271 Sum_probs=58.3
Q ss_pred cccccchhhHHHHHhhCCCcc---ccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHh
Q 032441 27 AGLQFPVGRVARFLKKGRYAQ---RVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVK 94 (140)
Q Consensus 27 agL~fPVsri~R~Lk~~~~~~---RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~ 94 (140)
.-|-||-+-|-|++++. ..+ -|+.+|-..|+..---|+..+.-.|.+.|+++++++|++.|+-.|+.
T Consensus 7 ~dl~lP~AiI~rlvke~-l~E~~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~ 76 (172)
T KOG0870|consen 7 EDLNLPNAIITRLVKEV-LPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALD 76 (172)
T ss_pred HHhhccHHHHHHHHHHh-CccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHH
Confidence 35789999999999876 444 47888988888888889999999999999999999999999998884
No 51
>KOG1744 consensus Histone H2B [Chromatin structure and dynamics]
Probab=94.89 E-value=0.2 Score=37.44 Aligned_cols=64 Identities=23% Similarity=0.219 Sum_probs=51.9
Q ss_pred ccccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHh
Q 032441 28 GLQFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVK 94 (140)
Q Consensus 28 gL~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~ 94 (140)
...++| .|.|++-...-=|+..+.-.+-+.+-.+...|+..|+..|+-+++.+|+.++|+.|++
T Consensus 38 ~~s~yv---~kvlk~Vhpd~gis~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta~r 101 (127)
T KOG1744|consen 38 SYSEYV---YKVLKQVHPDLGISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTAVR 101 (127)
T ss_pred ceeeeh---hhhhhcccCCCCcCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHHHH
Confidence 455555 4477665444458888888888888888999999999999999999999999999985
No 52
>KOG1658 consensus DNA polymerase epsilon, subunit C [Replication, recombination and repair]
Probab=94.28 E-value=0.034 Score=42.90 Aligned_cols=77 Identities=18% Similarity=0.239 Sum_probs=65.8
Q ss_pred ccccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHhccHHHHhhhc
Q 032441 28 GLQFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVKNDEEFSKLLG 104 (140)
Q Consensus 28 gL~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~nD~EL~~L~~ 104 (140)
-+++|++||+.+++......-....+...++...|-++.+|-..++..+...+++++.-+++..||..-+|+.++..
T Consensus 57 l~rLpL~rik~vvkl~pdl~l~~dea~~l~a~aaelfi~~Ln~~~~~~~q~~k~kt~qr~d~D~ai~~~de~~fle~ 133 (162)
T KOG1658|consen 57 LSRLPLARIKQVVKLDPDLTLLNDEASQLIAKAAELFIQELNDVAYTTAQLRKRKTEQRRDYDTAIEAVDEFAFLEG 133 (162)
T ss_pred hhhccHHHHHhhccCCcchhhhhhHHHHHHHHHHHHHHHHHHhccchhHHHHHhhhhhhhcccccccchHHHHHHhh
Confidence 36799999999999874444445556666788999999999999999999999999999999999999999988875
No 53
>cd07978 TAF13 The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAFs orthologs and paralogs. Several hy
Probab=92.47 E-value=0.83 Score=32.08 Aligned_cols=47 Identities=11% Similarity=0.190 Sum_probs=31.4
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHhccHHH
Q 032441 52 GSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVKNDEEF 99 (140)
Q Consensus 52 ~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~nD~EL 99 (140)
.+..+|-.++--.+.+++-.|.+.|. .++.+|+++|+..++++|+.=
T Consensus 24 eTv~llE~iv~~~i~~l~~~a~~~A~-~r~~k~~~eD~~FliR~D~~K 70 (92)
T cd07978 24 ETVDLLEDIVVEYIIELCHKAAEVAQ-RRRGKVKVEDLIFLLRKDPKK 70 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHHHhcCHHH
Confidence 34444444444444555556666666 577788999999999999764
No 54
>KOG1745 consensus Histones H3 and H4 [Chromatin structure and dynamics]
Probab=92.46 E-value=0.12 Score=39.14 Aligned_cols=64 Identities=22% Similarity=0.212 Sum_probs=51.2
Q ss_pred cchhhHHHHHh----hCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHh
Q 032441 31 FPVGRVARFLK----KGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVK 94 (140)
Q Consensus 31 fPVsri~R~Lk----~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~ 94 (140)
++-.++.|+.+ +.....|+.++|...|--..|.++-.+.|-+.--|.++++-+|.|.||++|.+
T Consensus 64 I~K~PFqRlvrei~q~f~~dLrfqs~Ai~ALQeA~EayLv~LfEdtnlcAihAkRVTimpkdiQlArr 131 (137)
T KOG1745|consen 64 IRKLPFQRLVREIAQDFKTDLRFQSSAIAALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARR 131 (137)
T ss_pred hhcCcHHHHhHHHHhcccccceehHHHHHHHHHHHHHHHHHhccccchhhhccceeEecccceehhhh
Confidence 33344455544 33333499999999999999999999999998889999999999999999865
No 55
>PF02269 TFIID-18kDa: Transcription initiation factor IID, 18kD subunit; InterPro: IPR003195 This family includes the Spt3 yeast transcription factors and the 18 kDa subunit from human transcription initiation factor IID (TFIID-18). Determination of the crystal structure reveals an atypical histone fold [].; GO: 0006366 transcription from RNA polymerase II promoter; PDB: 1BH9_A 1BH8_A.
Probab=91.96 E-value=0.16 Score=35.60 Aligned_cols=56 Identities=11% Similarity=0.074 Sum_probs=12.5
Q ss_pred ccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHhccHHHHhhh
Q 032441 48 RVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVKNDEEFSKLL 103 (140)
Q Consensus 48 RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~nD~EL~~L~ 103 (140)
.-..++..++-.++--.+.+++..|.+.|...|+++|+++|+..++++|+.-..-+
T Consensus 19 ~P~~eTv~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR~D~~Kl~Rl 74 (93)
T PF02269_consen 19 EPLPETVDLVEDIVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLRKDPKKLARL 74 (93)
T ss_dssp S--HHHHHHHHHHHHHHHHHHHHHHHC-----------------------------
T ss_pred CCcHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHhcCHHHHHHH
Confidence 33334444444444444455556666777777888999999999999997643333
No 56
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=91.85 E-value=0.22 Score=41.20 Aligned_cols=69 Identities=10% Similarity=0.171 Sum_probs=61.1
Q ss_pred cccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHhccH
Q 032441 29 LQFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVKNDE 97 (140)
Q Consensus 29 L~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~nD~ 97 (140)
-.+-.-++..++++-.....+..++..+|.-+.+-|+..|...|+..|+|-+..+|.++||++.++++.
T Consensus 153 ~il~k~kl~dLvqqId~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhLEr~~ 221 (258)
T KOG1142|consen 153 PILSKRKLDDLVQQIDGTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHLERNF 221 (258)
T ss_pred ccccccchhHHHHhhcCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeeeeccc
Confidence 345556788888887666799999999999999999999999999999999999999999999998774
No 57
>PLN00163 histone H4; Provisional
Probab=88.96 E-value=0.13 Score=33.62 Aligned_cols=44 Identities=23% Similarity=0.470 Sum_probs=29.9
Q ss_pred cccCCCCCCC------CCCCCCCcCcccccccchhhHHHHHhhCCCccccCCC
Q 032441 6 AATKGGRGRS------KDTKPVSRSHKAGLQFPVGRVARFLKKGRYAQRVGSG 52 (140)
Q Consensus 6 ~~~~gk~gk~------~~~~~~s~s~ragL~fPVsri~R~Lk~~~~~~RVs~~ 52 (140)
|+++||+||+ ++.+++.+.+-.+++-|. |.|+-+.+ ...|||..
T Consensus 1 m~g~gkggkglGkggaKRhrk~lrd~i~gItKpa--IrRLARRg-GVKRIs~~ 50 (59)
T PLN00163 1 MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPA--IRRLARRG-GVKRISGL 50 (59)
T ss_pred CCCCCCCCCccCCccchhHHHHHHHhhcccchHH--HHHHHHhc-Cceeecch
Confidence 3556666554 333445555567877776 99999887 78999875
No 58
>KOG3334 consensus Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=87.58 E-value=2.8 Score=32.09 Aligned_cols=56 Identities=25% Similarity=0.328 Sum_probs=44.7
Q ss_pred HHHHHhhCCCccccCCChHHHHHHHHHH---HHHHHHHHHHHHHHhcCCceechhhHHHHHhc
Q 032441 36 VARFLKKGRYAQRVGSGSPVYLSAVLEY---LAAEVLELAGNAARDNKKNRIIPRHIQLAVKN 95 (140)
Q Consensus 36 i~R~Lk~~~~~~RVs~~A~vyLaAvLEy---l~~EILelA~n~A~~~~rk~ItP~hI~~AI~n 95 (140)
|+-+|++.. |.+.-|-.+.-.||+ .+..||+-|.-++.|.++..|..+|+++||..
T Consensus 19 i~~iL~s~G----I~eyEprVi~qlLefa~rYtt~vL~DA~vys~HA~ka~i~~eDVrlA~~~ 77 (148)
T KOG3334|consen 19 IASILKSLG----IQEYEPRVINQLLEFAYRYTTTVLDDAKVYSSHAKKATIDAEDVRLAIQM 77 (148)
T ss_pred HHHHHHHcC----ccccChHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCcHHHHHHHHHH
Confidence 677888762 455555556666666 57789999999999999999999999999964
No 59
>COG5094 TAF9 Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=83.60 E-value=6.1 Score=29.74 Aligned_cols=62 Identities=18% Similarity=0.168 Sum_probs=47.8
Q ss_pred hhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceech---hhHHHHHhcc
Q 032441 34 GRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIP---RHIQLAVKND 96 (140)
Q Consensus 34 sri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP---~hI~~AI~nD 96 (140)
--|+-+|+.- ..+--+...|.-|-..---.+..+|+-|.-+|.+.|+..|++ +|+++|+..-
T Consensus 18 rlihliL~Sl-gi~~ye~~VplQLl~FAhRYTq~vl~Dalvya~htgrg~~a~l~veDvrLA~at~ 82 (145)
T COG5094 18 RLIHLILRSL-GIEEYEPKVPLQLLEFAHRYTQDVLEDALVYAKHTGRGHIATLGVEDVRLALATK 82 (145)
T ss_pred hHHHHHHHhc-CchhhCccchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCcccHHHHHHHHHHH
Confidence 3467677664 455556667776666666678999999999999999988888 9999999753
No 60
>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=81.98 E-value=1.8 Score=25.92 Aligned_cols=33 Identities=30% Similarity=0.432 Sum_probs=25.8
Q ss_pred HHHHHHhcCCceechhhHHHHHhccH--HHHhhhc
Q 032441 72 AGNAARDNKKNRIIPRHIQLAVKNDE--EFSKLLG 104 (140)
Q Consensus 72 A~n~A~~~~rk~ItP~hI~~AI~nD~--EL~~L~~ 104 (140)
|-+.|...+...|+|+||-+|+-.|+ .+..+++
T Consensus 1 A~~~A~~~~~~~i~~eHlL~all~~~~~~~~~il~ 35 (53)
T PF02861_consen 1 AQELARERGHQYISPEHLLLALLEDPDSIAARILK 35 (53)
T ss_dssp HHHHHHHTTBSSE-HHHHHHHHHHHTTSHHHHHHH
T ss_pred CHHHHHHcCCCcccHHHHHHHHHhhhhHHHHHHHH
Confidence 45678888999999999999987765 6677765
No 61
>COG5251 TAF40 Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=78.68 E-value=3.8 Score=32.36 Aligned_cols=65 Identities=20% Similarity=0.242 Sum_probs=52.2
Q ss_pred ccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHh-cCCceechhhHHHHHhc
Q 032441 30 QFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARD-NKKNRIIPRHIQLAVKN 95 (140)
Q Consensus 30 ~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~-~~rk~ItP~hI~~AI~n 95 (140)
-||-..|+.+.-.- ..+-|+....++|.++-.-++.||+|+|...-.. .-.....|.|++.|++-
T Consensus 115 ~lnKt~VKKlastV-~nQtVspNi~I~l~g~~KVfvGEiIElA~~Vq~~w~~sgpl~p~h~reayr~ 180 (199)
T COG5251 115 SLNKTQVKKLASTV-ANQTVSPNIRIFLQGVGKVFVGEIIELAMIVQNKWLTSGPLIPFHKREAYRY 180 (199)
T ss_pred CCCHHHHHHHHHHH-hccccCCCeeeeeechhHHHHHHHHHHHHHHHHHhcccCCCChHHHHHHHHH
Confidence 46777888877665 6778999999999999999999999999665433 23346899999999863
No 62
>KOG2549 consensus Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=77.90 E-value=8 Score=35.48 Aligned_cols=57 Identities=12% Similarity=0.253 Sum_probs=51.6
Q ss_pred HHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHh
Q 032441 38 RFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVK 94 (140)
Q Consensus 38 R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~ 94 (140)
+.+-+.-+...|+.+++..|+-=+||=+.||...|.+.-++.+|.+.|-.||..|++
T Consensus 18 k~vAEslGi~nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~ALr 74 (576)
T KOG2549|consen 18 KVVAESLGITNLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYALR 74 (576)
T ss_pred HHHHHHhCccccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHHHh
Confidence 445555577799999999999999999999999999999999999999999999987
No 63
>PF15510 CENP-W: Centromere kinetochore component W
Probab=75.61 E-value=11 Score=26.95 Aligned_cols=64 Identities=23% Similarity=0.281 Sum_probs=45.7
Q ss_pred cccchhhHHHHHhhCCCccccCCChHHH----------------HHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHH
Q 032441 29 LQFPVGRVARFLKKGRYAQRVGSGSPVY----------------LSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLA 92 (140)
Q Consensus 29 L~fPVsri~R~Lk~~~~~~RVs~~A~vy----------------LaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~A 92 (140)
-.-|-|.++|++++....-|+...+-.. |.- =.++..+.|.|-.-|.+++-..|.++|+..|
T Consensus 15 rkaPrgfLkrv~Kr~KphlRl~~~~Dllv~~~~f~~~~~~~~vhLnc--LLFvhrLAEEaRtnA~EnK~~~Ik~~Hv~Aa 92 (102)
T PF15510_consen 15 RKAPRGFLKRVFKRQKPHLRLETSGDLLVRFCPFSGWQWGGEVHLNC--LLFVHRLAEEARTNACENKCGTIKKEHVLAA 92 (102)
T ss_pred HhCchHHHHHHHHhcCCceeecccccHHHhhcccccccccceeehhH--HHHHHHHHHHHHHHHHHHhhccccHHHHHHH
Confidence 3578899999999765566886644332 111 1245678888877788888889999999887
Q ss_pred Hh
Q 032441 93 VK 94 (140)
Q Consensus 93 I~ 94 (140)
..
T Consensus 93 aK 94 (102)
T PF15510_consen 93 AK 94 (102)
T ss_pred HH
Confidence 53
No 64
>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=72.64 E-value=17 Score=27.51 Aligned_cols=67 Identities=16% Similarity=0.283 Sum_probs=44.3
Q ss_pred ccccchhhHHHHHhhCCCcc--ccCCC-hHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHhcc
Q 032441 28 GLQFPVGRVARFLKKGRYAQ--RVGSG-SPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVKND 96 (140)
Q Consensus 28 gL~fPVsri~R~Lk~~~~~~--RVs~~-A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~nD 96 (140)
.+.+|-+-|...+.+. +-. -+..+ --+++-+++||+.. +--.|...|.+..+++|.|+||-.|..|=
T Consensus 9 e~sLPKATVqKMvS~i-Lp~dl~ftKearei~in~cieFi~~-lsseAne~ce~EaKKTIa~EHviKALenL 78 (148)
T COG5150 9 ENSLPKATVQKMVSSI-LPKDLVFTKEAREIFINACIEFINM-LSSEANEACEEEAKKTIAYEHVIKALENL 78 (148)
T ss_pred cccCcHHHHHHHHHHh-ccccccccHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHhccccHHHHHHHHHhc
Confidence 5678888887766554 222 22333 35677888888642 23345556667788999999999998753
No 65
>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=68.04 E-value=6.6 Score=23.95 Aligned_cols=27 Identities=19% Similarity=0.209 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHhcCCceechhhHHHH
Q 032441 66 AEVLELAGNAARDNKKNRIIPRHIQLA 92 (140)
Q Consensus 66 ~EILelA~n~A~~~~rk~ItP~hI~~A 92 (140)
..+=..+-.+|.+.|...||++++..|
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 444455667899999999999999875
No 66
>KOG4336 consensus TBP-associated transcription factor Prodos [Transcription]
Probab=65.83 E-value=30 Score=29.64 Aligned_cols=84 Identities=11% Similarity=0.052 Sum_probs=67.2
Q ss_pred HHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHhc----cHHHHhhhcCceec--
Q 032441 36 VARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVKN----DEEFSKLLGSVTIA-- 109 (140)
Q Consensus 36 i~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~n----D~EL~~L~~~~~Ia-- 109 (140)
|.-+|++. ++.-|+..|-.-|.-.|.-.+.+|.+.+-|++...||.--|+-||.+...+ =.+|...|++-.++
T Consensus 11 V~~Ll~~~-gfd~is~~aletlvell~~yi~eigrq~~n~celagRT~pT~~Dv~l~Li~mnI~v~sL~~~~q~~~~sl~ 89 (323)
T KOG4336|consen 11 VSNLLKTK-GFDSISNAALETLVELLQSYIREIGRQLHNYCELAGRTIPTQGDVKLTLIEMNIKVSSLYAYFQKQEFSLW 89 (323)
T ss_pred HHHHHHHh-CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHHHhCCChhhhHHHHHhccchhh
Confidence 44556665 677899989899999999999999999999999999999999999988763 36788888876664
Q ss_pred -CCccCCCcCcc
Q 032441 110 -NGGVLPNIHQN 120 (140)
Q Consensus 110 -~ggv~p~i~~~ 120 (140)
.--.+|++..+
T Consensus 90 ~~~~~aP~~~~q 101 (323)
T KOG4336|consen 90 SVLIAAPENQEQ 101 (323)
T ss_pred hccccCCCcCCc
Confidence 44446776665
No 67
>PF13335 Mg_chelatase_2: Magnesium chelatase, subunit ChlI
Probab=62.36 E-value=11 Score=26.31 Aligned_cols=47 Identities=26% Similarity=0.253 Sum_probs=37.8
Q ss_pred ccCCChHHHHHHHHHHH------HHHHHHHHHHHHHhcCCceechhhHHHHHh
Q 032441 48 RVGSGSPVYLSAVLEYL------AAEVLELAGNAARDNKKNRIIPRHIQLAVK 94 (140)
Q Consensus 48 RVs~~A~vyLaAvLEyl------~~EILelA~n~A~~~~rk~ItP~hI~~AI~ 94 (140)
.++..+-.+|-.+++-+ ..-||.+|-..|.-.+...|++.||..|+.
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 45566667766666654 347999999999999999999999999974
No 68
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=61.52 E-value=35 Score=29.75 Aligned_cols=50 Identities=20% Similarity=0.183 Sum_probs=47.0
Q ss_pred CccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHh
Q 032441 45 YAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVK 94 (140)
Q Consensus 45 ~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~ 94 (140)
+..-|..++.-.|+-=|||=+.||.+.|.+.-.+.+|...|-.||..|.+
T Consensus 19 Gi~Ni~Dd~l~alamDlEYRI~ev~qea~KFmvhSKRtvLt~dDis~ALr 68 (450)
T COG5095 19 GISNIDDDALRALAMDLEYRIKEVCQEASKFMVHSKRTVLTIDDISYALR 68 (450)
T ss_pred CCcccccHHHHHHHHhHHHHHHHHHHHHHHHhhcccceeeeHHhHHHHHH
Confidence 56688999999999999999999999999999999999999999999987
No 69
>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=59.74 E-value=44 Score=27.54 Aligned_cols=61 Identities=20% Similarity=0.298 Sum_probs=40.7
Q ss_pred hhHHHHHhhCC----CccccCCChHHHHHHHHHH------HHHHHHHHHHHHHHhcCCceechhhHHHHHh
Q 032441 34 GRVARFLKKGR----YAQRVGSGSPVYLSAVLEY------LAAEVLELAGNAARDNKKNRIIPRHIQLAVK 94 (140)
Q Consensus 34 sri~R~Lk~~~----~~~RVs~~A~vyLaAvLEy------l~~EILelA~n~A~~~~rk~ItP~hI~~AI~ 94 (140)
..+..+|+..- ...-++.++.-+++...+. .+-+++..|...|...+...|+++|++.|+.
T Consensus 202 ~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~~a~~~~~~~it~~~v~~a~~ 272 (365)
T TIGR02928 202 EELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVAGEIAEREGAERVTEDHVEKAQE 272 (365)
T ss_pred HHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 34556665431 1123666666677666652 3456777888888888888999999998764
No 70
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=57.32 E-value=49 Score=27.62 Aligned_cols=68 Identities=16% Similarity=0.238 Sum_probs=43.2
Q ss_pred ccccc---hhhHHHHHhhCC---C-ccccCCChHHHHHHHHHHH------HHHHHHHHHHHHHhcCCceechhhHHHHHh
Q 032441 28 GLQFP---VGRVARFLKKGR---Y-AQRVGSGSPVYLSAVLEYL------AAEVLELAGNAARDNKKNRIIPRHIQLAVK 94 (140)
Q Consensus 28 gL~fP---Vsri~R~Lk~~~---~-~~RVs~~A~vyLaAvLEyl------~~EILelA~n~A~~~~rk~ItP~hI~~AI~ 94 (140)
-+.|| ...+..+|+..- . ..-++.++.-+++...... +-+++..|...|...+...|+++|++.|+.
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 355666665431 1 1246666767776665442 235567777778778888999999999886
Q ss_pred c
Q 032441 95 N 95 (140)
Q Consensus 95 n 95 (140)
.
T Consensus 281 ~ 281 (394)
T PRK00411 281 K 281 (394)
T ss_pred H
Confidence 3
No 71
>COG1067 LonB Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]
Probab=56.42 E-value=39 Score=31.54 Aligned_cols=34 Identities=18% Similarity=0.250 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHhcCCceechhhHHHHHhccHHH
Q 032441 66 AEVLELAGNAARDNKKNRIIPRHIQLAVKNDEEF 99 (140)
Q Consensus 66 ~EILelA~n~A~~~~rk~ItP~hI~~AI~nD~EL 99 (140)
..|+..|+..|...+++.|+++|++.|+++..-.
T Consensus 369 ~~lv~~A~~ia~~~~~~~I~ae~Ve~a~~~~~~~ 402 (647)
T COG1067 369 GNLVREAGDIAVSEGRKLITAEDVEEALQKRELR 402 (647)
T ss_pred HHHHHHhhHHHhcCCcccCcHHHHHHHHHhhhhH
Confidence 3677789999999999999999999999995444
No 72
>KOG3901 consensus Transcription initiation factor IID subunit [Transcription]
Probab=55.91 E-value=22 Score=25.84 Aligned_cols=37 Identities=16% Similarity=0.291 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHHHhc-CCceechhhHHHHHhccHHH
Q 032441 62 EYLAAEVLELAGNAARDN-KKNRIIPRHIQLAVKNDEEF 99 (140)
Q Consensus 62 Eyl~~EILelA~n~A~~~-~rk~ItP~hI~~AI~nD~EL 99 (140)
++++..|.++ .+.|+.. ++-++.-+|+..+|+.|+-=
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 4555554 44578999999999999753
No 73
>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=53.76 E-value=44 Score=30.68 Aligned_cols=31 Identities=23% Similarity=0.289 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHhcCCceechhhHHHHHhcc
Q 032441 66 AEVLELAGNAARDNKKNRIIPRHIQLAVKND 96 (140)
Q Consensus 66 ~EILelA~n~A~~~~rk~ItP~hI~~AI~nD 96 (140)
..|+..|...|...+...|+.+|++.|++.-
T Consensus 361 ~~llR~A~~iA~~~~~~~I~~ehV~~Ai~~~ 391 (608)
T TIGR00764 361 GGLVRAAGDIAKSSGKVYVTAEHVLKAKKLA 391 (608)
T ss_pred HHHHHHHHHHHHhcCCceecHHHHHHHHHHH
Confidence 4677778777888888999999999987643
No 74
>PF13654 AAA_32: AAA domain; PDB: 3K1J_B.
Probab=52.88 E-value=17 Score=32.69 Aligned_cols=31 Identities=26% Similarity=0.343 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHhcCCceechhhHHHHHhc
Q 032441 65 AAEVLELAGNAARDNKKNRIIPRHIQLAVKN 95 (140)
Q Consensus 65 ~~EILelA~n~A~~~~rk~ItP~hI~~AI~n 95 (140)
+.+||..|...|...+...|+.+||+.||+.
T Consensus 475 l~~ll~EA~~~A~~~~~~~I~~~~V~~Ai~~ 505 (509)
T PF13654_consen 475 LADLLREANYWARKEGAKVITAEHVEQAIEE 505 (509)
T ss_dssp HHHHHHHHHHHHHHCT-SSB-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhCCCccCHHHHHHHHHc
Confidence 3688899999999999999999999999964
No 75
>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=51.95 E-value=6.9 Score=29.69 Aligned_cols=56 Identities=21% Similarity=0.315 Sum_probs=37.6
Q ss_pred HHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHH
Q 032441 36 VARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLA 92 (140)
Q Consensus 36 i~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~A 92 (140)
++++++.. ..--|..+-.--+..++|--+.+++..|...|+.+||..|.|.||-+.
T Consensus 1 fe~lFR~a-a~LdvdK~d~~r~~d~V~~Kl~DLl~va~~~Ak~ngRdvI~~~DLPIT 56 (138)
T PF09123_consen 1 FERLFRKA-AGLDVDKNDAKRYSDFVEKKLYDLLLVAQENAKANGRDVIEPRDLPIT 56 (138)
T ss_dssp HHHHHHHH-HS----HHHHHHHHHHHHHHHHHCCCCHHHHHHHTT-SEE-GGGS---
T ss_pred ChHHHHHH-hccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeeccccCCcc
Confidence 35566665 333555666667788888888999999999999999999999997543
No 76
>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=51.86 E-value=12 Score=26.18 Aligned_cols=55 Identities=31% Similarity=0.467 Sum_probs=36.0
Q ss_pred hhHHHHHhhCCCcc---ccCCChHHHHHHHHHHHHHHH-HHHHHHHHHhcCCceechhhHHHHH
Q 032441 34 GRVARFLKKGRYAQ---RVGSGSPVYLSAVLEYLAAEV-LELAGNAARDNKKNRIIPRHIQLAV 93 (140)
Q Consensus 34 sri~R~Lk~~~~~~---RVs~~A~vyLaAvLEyl~~EI-LelA~n~A~~~~rk~ItP~hI~~AI 93 (140)
.++.|+|-...... |-...-|.||++||+||+.+= .-++. |.. ..|.|+.+-.|-
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 ERLPRFLALTGLSPDDLRAAAGDPAFLAAVLDFLLMDEAWLLAF--CDA---AGIPPEAVAAAR 80 (88)
T ss_pred HHHHHHHHHhCCCHHHHHHHccChHHHHHHHHHHHcchHHHHHH--HHH---cCcChhHHHHHH
Confidence 45677776654433 777888999999999998642 22222 222 246788877664
No 77
>COG3636 Predicted transcriptional regulator [Transcription]
Probab=49.88 E-value=18 Score=26.03 Aligned_cols=54 Identities=22% Similarity=0.329 Sum_probs=36.3
Q ss_pred CChHHHHHHHHHH-----HHHH--HHHHHHHHHHhcCCceechhhHHHHHh--ccHHHHhhhc
Q 032441 51 SGSPVYLSAVLEY-----LAAE--VLELAGNAARDNKKNRIIPRHIQLAVK--NDEEFSKLLG 104 (140)
Q Consensus 51 ~~A~vyLaAvLEy-----l~~E--ILelA~n~A~~~~rk~ItP~hI~~AI~--nD~EL~~L~~ 104 (140)
+.+.+||.++||- +++- ++..+.+.++-..+..++-++|..+.+ .+|.|+.++.
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 4678899999873 3332 223344445555556689999999998 4588888774
No 78
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=49.70 E-value=66 Score=27.68 Aligned_cols=73 Identities=18% Similarity=0.252 Sum_probs=53.4
Q ss_pred ccccch---hhHHHHHhhCCC----ccccCCChHHHHHHHHHHH------HHHHHHHHHHHHHhcCCceechhhHHHHHh
Q 032441 28 GLQFPV---GRVARFLKKGRY----AQRVGSGSPVYLSAVLEYL------AAEVLELAGNAARDNKKNRIIPRHIQLAVK 94 (140)
Q Consensus 28 gL~fPV---sri~R~Lk~~~~----~~RVs~~A~vyLaAvLEyl------~~EILelA~n~A~~~~rk~ItP~hI~~AI~ 94 (140)
.+.||. ..++.+|+++.- ...++.++..+.++...+- +-+||..|++.|...+...|+++|+..| .
T Consensus 184 ~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A~eiAe~~~~~~v~~~~v~~a-~ 262 (366)
T COG1474 184 EIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAEREGSRKVSEDHVREA-Q 262 (366)
T ss_pred eeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHhhCCCCcCHHHHHHH-H
Confidence 477876 677777765422 2377777777777655554 4689999999999999999999999999 3
Q ss_pred ccHHHHh
Q 032441 95 NDEEFSK 101 (140)
Q Consensus 95 nD~EL~~ 101 (140)
.+.|...
T Consensus 263 ~~~~~~~ 269 (366)
T COG1474 263 EEIERDV 269 (366)
T ss_pred HHhhHHH
Confidence 4444433
No 79
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=43.76 E-value=36 Score=32.24 Aligned_cols=41 Identities=20% Similarity=0.241 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHHhcCCceechhhHHHHHhccHHHHhhhcC
Q 032441 65 AAEVLELAGNAARDNKKNRIIPRHIQLAVKNDEEFSKLLGS 105 (140)
Q Consensus 65 ~~EILelA~n~A~~~~rk~ItP~hI~~AI~nD~EL~~L~~~ 105 (140)
+.++|+.|.+.|...+...|+|+||-+++-.+.++..+|..
T Consensus 6 ~~~~l~~a~~~a~~~~~~~~~~~h~l~~l~~~~~~~~~~~~ 46 (758)
T PRK11034 6 LELSLNMAFARAREHRHEFMTVEHLLLALLSNPSAREALEA 46 (758)
T ss_pred HHHHHHHHHHHHHHcCCCcchHHHHHHHHHcChhHHHHHHH
Confidence 56788899999999999999999999999988777777653
No 80
>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=43.68 E-value=16 Score=23.20 Aligned_cols=22 Identities=36% Similarity=0.745 Sum_probs=17.2
Q ss_pred ccHHHHhhhcCceecCCccCCCcCc
Q 032441 95 NDEEFSKLLGSVTIANGGVLPNIHQ 119 (140)
Q Consensus 95 nD~EL~~L~~~~~Ia~ggv~p~i~~ 119 (140)
.|+||++++... .+||++-|-.
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 699999999872 7888876543
No 81
>KOG1658 consensus DNA polymerase epsilon, subunit C [Replication, recombination and repair]
Probab=41.95 E-value=46 Score=25.86 Aligned_cols=73 Identities=16% Similarity=0.172 Sum_probs=51.9
Q ss_pred cccccchhhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHhccHHHHhhhc
Q 032441 27 AGLQFPVGRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVKNDEEFSKLLG 104 (140)
Q Consensus 27 agL~fPVsri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~nD~EL~~L~~ 104 (140)
+...||++.++++-+......--+.+|-+..+...|.|+..+..++. ..-.+..-.-|+..+..|++|..+..
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 45679999999998887443345667777889999999888887554 23345666677777777777765554
No 82
>PHA02943 hypothetical protein; Provisional
Probab=39.08 E-value=79 Score=24.65 Aligned_cols=41 Identities=12% Similarity=0.146 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHHhcCCceechhhHHHHHhccHHHHhhhcC
Q 032441 65 AAEVLELAGNAARDNKKNRIIPRHIQLAVKNDEEFSKLLGS 105 (140)
Q Consensus 65 ~~EILelA~n~A~~~~rk~ItP~hI~~AI~nD~EL~~L~~~ 105 (140)
+.+++..-.....+++.+-|+|.++..-|..|.|-..+|..
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 56666777777778899999999999999999999999975
No 83
>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=38.16 E-value=69 Score=27.44 Aligned_cols=44 Identities=23% Similarity=0.210 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHhccHHHHhhhc
Q 032441 60 VLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVKNDEEFSKLLG 104 (140)
Q Consensus 60 vLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~nD~EL~~L~~ 104 (140)
.++|+..|+-++.-..-+..|+ +|+++.|+.||+.-.+...+++
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 3889999998888777666665 6999999999997777666664
No 84
>smart00350 MCM minichromosome maintenance proteins.
Probab=37.97 E-value=85 Score=27.96 Aligned_cols=65 Identities=9% Similarity=0.157 Sum_probs=46.9
Q ss_pred ccchhhHHHHHhhCCC--ccccCCChHHHHHHHHHHHH-------------------HHHHHHHHHHHHhcCCceechhh
Q 032441 30 QFPVGRVARFLKKGRY--AQRVGSGSPVYLSAVLEYLA-------------------AEVLELAGNAARDNKKNRIIPRH 88 (140)
Q Consensus 30 ~fPVsri~R~Lk~~~~--~~RVs~~A~vyLaAvLEyl~-------------------~EILelA~n~A~~~~rk~ItP~h 88 (140)
.++...+.+++.-.+. ..++++++..||......+= .-++.+|-..|+-.++..++++|
T Consensus 417 ~~~~~~l~~yi~~ar~~~~P~ls~~~~~~i~~~y~~~R~~~~~~~~~~~~~~t~R~l~sliRla~A~A~l~~r~~V~~~D 496 (509)
T smart00350 417 PISQEFLRKYIAYAREKIKPKLSEEAAEKLVKAYVDLRKEDSQSEARSSIPITVRQLESIIRLSEAHAKMRLSDVVEEAD 496 (509)
T ss_pred cCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHhcccccccccccccCcCHHHHHHHHHHHHHHHHHcCCCccCHHH
Confidence 5777888888865543 34788888877766443322 34667777778888899999999
Q ss_pred HHHHHh
Q 032441 89 IQLAVK 94 (140)
Q Consensus 89 I~~AI~ 94 (140)
++.||.
T Consensus 497 v~~ai~ 502 (509)
T smart00350 497 VEEAIR 502 (509)
T ss_pred HHHHHH
Confidence 999984
No 85
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=37.47 E-value=53 Score=30.61 Aligned_cols=40 Identities=23% Similarity=0.304 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHhcCCceechhhHHHHHhccHHHHhhhc
Q 032441 65 AAEVLELAGNAARDNKKNRIIPRHIQLAVKNDEEFSKLLG 104 (140)
Q Consensus 65 ~~EILelA~n~A~~~~rk~ItP~hI~~AI~nD~EL~~L~~ 104 (140)
+.++|+.|-+.|...+...|+|+||-+|+-.+++...++.
T Consensus 5 a~~~L~~A~~~A~~~~h~~V~~EHLLlaLL~~~~~~~iL~ 44 (731)
T TIGR02639 5 LERILDAALEEAKKRRHEFVTLEHILLALLFDSDAIEILE 44 (731)
T ss_pred HHHHHHHHHHHHHHhCCCcCcHHHHHHHHHcCchHHHHHH
Confidence 4567889999999999999999999999988776555554
No 86
>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=36.89 E-value=64 Score=26.02 Aligned_cols=41 Identities=12% Similarity=0.091 Sum_probs=33.5
Q ss_pred hhHHHHHhhCCCccccCCChHHHHHHHHHHHHHHHHHHHHHH
Q 032441 34 GRVARFLKKGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNA 75 (140)
Q Consensus 34 sri~R~Lk~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~ 75 (140)
.||..+..+... .=|+.+++.+|...||+++.+||+-+...
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 566666666644 78999999999999999999999987654
No 87
>PF08539 HbrB: HbrB-like; InterPro: IPR013745 HbrB is involved in hyphal growth and polarity [].
Probab=36.10 E-value=31 Score=26.41 Aligned_cols=84 Identities=19% Similarity=0.280 Sum_probs=50.6
Q ss_pred ccccccchhhHHHHHhhCCCccccCCChHHH-HHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHhccHHHHhhhc
Q 032441 26 KAGLQFPVGRVARFLKKGRYAQRVGSGSPVY-LSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVKNDEEFSKLLG 104 (140)
Q Consensus 26 ragL~fPVsri~R~Lk~~~~~~RVs~~A~vy-LaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~nD~EL~~L~~ 104 (140)
..++.+|+..+.++++.- ...+++...+.+ +...-|.|..-..-+.-.. .....|.-|..|..
T Consensus 22 g~~l~~~iEdlN~lv~~~-i~~~~~~~~~~~~~~dl~elL~tg~~~L~~~l---------------~~~~~~~~l~rL~e 85 (158)
T PF08539_consen 22 GERLRLPIEDLNELVRFH-IKLCIQSFPPSYFLEDLEELLTTGMYILENQL---------------NEVPDNRLLKRLVE 85 (158)
T ss_pred CCCCCcCHHHHHHHHHHH-HHHhhcccchHHHHHHHHHHHHHHHHHHHHHH---------------hhcchhHHHHHHHH
Confidence 346778898888887653 333555544442 2233333333333222111 22234566777787
Q ss_pred CceecCCccCCCcCccccccc
Q 032441 105 SVTIANGGVLPNIHQNLLPKK 125 (140)
Q Consensus 105 ~~~Ia~ggv~p~i~~~~~~~k 125 (140)
-|.+..+.|+|++...++|-.
T Consensus 86 iW~~Ff~~VlP~lqavFlPLq 106 (158)
T PF08539_consen 86 IWQFFFTQVLPYLQAVFLPLQ 106 (158)
T ss_pred HHHHHhcchHHHHHHHHhhhH
Confidence 888889999999998888876
No 88
>TIGR01128 holA DNA polymerase III, delta subunit. subunit around DNA forming a DNA sliding clamp.
Probab=34.56 E-value=1.3e+02 Score=23.93 Aligned_cols=66 Identities=12% Similarity=0.168 Sum_probs=38.9
Q ss_pred hhhHHHHHhhC--CCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHhccHH
Q 032441 33 VGRVARFLKKG--RYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVKNDEE 98 (140)
Q Consensus 33 Vsri~R~Lk~~--~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~nD~E 98 (140)
...+.+|+++. .....|+.++..||...+..=+..+.-.--..+.-.+.+.||.+||+..+..+.+
T Consensus 113 ~~~~~~~i~~~~~~~g~~i~~~a~~~l~~~~~~d~~~l~~el~KL~~~~~~~~It~e~I~~~~~~~~~ 180 (302)
T TIGR01128 113 EQELPRWIQARLKKLGLRIDPDAVQLLAELVEGNLLAIAQELEKLALYAPDGKITLEDVEEAVSDSAR 180 (302)
T ss_pred HHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCcHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHhhhhc
Confidence 44555566542 1244799999999988876533333222222222223336999999988875544
No 89
>COG4430 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.44 E-value=61 Score=26.03 Aligned_cols=46 Identities=20% Similarity=0.312 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHH--HHHHH-HhcCCceechhhHHHHHhccHHHHhhhcC
Q 032441 60 VLEYLAAEVLEL--AGNAA-RDNKKNRIIPRHIQLAVKNDEEFSKLLGS 105 (140)
Q Consensus 60 vLEyl~~EILel--A~n~A-~~~~rk~ItP~hI~~AI~nD~EL~~L~~~ 105 (140)
++++.++|+.+- +|..+ -......+.|++|+.|+..++.|..+|..
T Consensus 110 mi~ayL~e~~~a~~aG~~~~~~~~~e~~IPeeLq~alda~palk~~f~~ 158 (200)
T COG4430 110 MIKAYLAEAIAAEKAGRWVALKKNEELIIPEELQDALDANPALKTAFEA 158 (200)
T ss_pred HHHHHHHHHHHHHhcCCccCCCcccccCCcHHHHHHHhcCHHHHHHHHh
Confidence 455555555543 34432 22234569999999999999999999975
No 90
>PRK05574 holA DNA polymerase III subunit delta; Reviewed
Probab=30.97 E-value=1.3e+02 Score=24.33 Aligned_cols=63 Identities=16% Similarity=0.194 Sum_probs=36.5
Q ss_pred chhhHHHHHhhCC--CccccCCChHHHHHHHHHH----HHHHHHHHHHHHHHhcCCceechhhHHHHHhccHH
Q 032441 32 PVGRVARFLKKGR--YAQRVGSGSPVYLSAVLEY----LAAEVLELAGNAARDNKKNRIIPRHIQLAVKNDEE 98 (140)
Q Consensus 32 PVsri~R~Lk~~~--~~~RVs~~A~vyLaAvLEy----l~~EILelA~n~A~~~~rk~ItP~hI~~AI~nD~E 98 (140)
+-..+..|+++.- ....|+.+|..||...+.. +..||-.++.- .+...||.++|+..+..+.+
T Consensus 147 ~~~~~~~~i~~~~~~~g~~i~~~a~~~L~~~~~~d~~~l~~El~KL~l~----~~~~~It~~~I~~~i~~~~~ 215 (340)
T PRK05574 147 KEAELPQWIQQRLKQQGLQIDAAALQLLAERVEGNLLALAQELEKLALL----YPDGKITLEDVEEAVPDSAR 215 (340)
T ss_pred CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCchHHHHHHHHHHHHhh----cCCCCCCHHHHHHHHhhhhc
Confidence 3344455553321 1337899999998877654 33344444422 22223999999988776543
No 91
>cd08045 TAF4 TATA Binding Protein (TBP) Associated Factor 4 (TAF4) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 4 (TAF4) is one of several TAFs that bind TBP and are involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryote. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAF orthologs and paralogs. Several hypotheses are
Probab=30.93 E-value=1.4e+02 Score=23.47 Aligned_cols=57 Identities=19% Similarity=0.138 Sum_probs=42.4
Q ss_pred CcCcccccccchhhHHHHHh----hCCCccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 032441 22 SRSHKAGLQFPVGRVARFLK----KGRYAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDN 79 (140)
Q Consensus 22 s~s~ragL~fPVsri~R~Lk----~~~~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~ 79 (140)
.++....+.|....+.+.|. +.. ..-|+.+...||+.++|..+..|++.....+.+-
T Consensus 36 ~~~~~~~~fl~~~~l~~~~~~i~~~~g-~~~~~~d~~~lis~a~e~rlr~li~k~~~~s~hR 96 (212)
T cd08045 36 ARSQKDPSFLNPSPLAKKIRKIAKKHG-LKEVDEDVLDLISLALEERLRNLLEKLIEVSEHR 96 (212)
T ss_pred ccccchhhccCHHHHHHHHHHHHHHcC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34445566777766665554 442 2278999999999999999999999998887663
No 92
>PHA02669 hypothetical protein; Provisional
Probab=30.48 E-value=69 Score=25.38 Aligned_cols=18 Identities=28% Similarity=0.403 Sum_probs=15.2
Q ss_pred hHHHHHHHHHHHHHHHHH
Q 032441 53 SPVYLSAVLEYLAAEVLE 70 (140)
Q Consensus 53 A~vyLaAvLEyl~~EILe 70 (140)
|.+||+++.-||+.||--
T Consensus 12 avi~LTgAaiYlLiEiGL 29 (210)
T PHA02669 12 AVIYLTGAAIYLLIEIGL 29 (210)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 678999999999988743
No 93
>cd05029 S-100A6 S-100A6: S-100A6 domain found in proteins similar to S100A6. S100A6 is a member of the S100 domain family within EF-hand Ca2+-binding proteins superfamily. Note that the S-100 hierarchy, to which this S-100A6 group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100 proteins exhibit unique patterns of tissue- and cell type-specific expression and have been implicated in the Ca2+-dependent regulation of diverse physiological processes, including cell cycle regulation, differentiation, growth, and metabolic control . S100A6 is normally expressed in the G1 phase of the cell cycle in neuronal cells. The function of S100A6 remains unclear, but evidence suggests that it is involved in cell cycle regulation and exocytosis. S100A6 may also be involved in tumorigenesis; the protein is overexpressed in several tumors. Ca2+ binding to S100A6 leads to a conformational change in the protein, which exposes a hydrophobic surface for interact
Probab=30.12 E-value=1.8e+02 Score=19.64 Aligned_cols=54 Identities=13% Similarity=0.227 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHHHHHhcC-CceechhhHHHHHh---------ccHHHHhhhcCceecCCccC
Q 032441 61 LEYLAAEVLELAGNAARDNK-KNRIIPRHIQLAVK---------NDEEFSKLLGSVTIANGGVL 114 (140)
Q Consensus 61 LEyl~~EILelA~n~A~~~~-rk~ItP~hI~~AI~---------nD~EL~~L~~~~~Ia~ggv~ 114 (140)
||--+..|+++=-.++.++| .-.|+..++...+. .++|+..+++.......|.+
T Consensus 5 ~e~~~~~~i~~F~~y~~~~~~~g~Is~~EL~~~l~~~~~lg~k~t~~ev~~m~~~~D~d~dG~I 68 (88)
T cd05029 5 LDQAIGLLVAIFHKYSGREGDKNTLSKKELKELIQKELTIGSKLQDAEIAKLMEDLDRNKDQEV 68 (88)
T ss_pred HHHHHHHHHHHHHHHHccCCCCCEECHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhcCCCCCCC
Confidence 45555666677677777666 67899999999884 45788888876555555543
No 94
>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=28.64 E-value=1.8e+02 Score=19.35 Aligned_cols=54 Identities=13% Similarity=0.190 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHHHHHHhcC-CceechhhHHHHHh-----------ccHHHHhhhcCceecCCccC
Q 032441 61 LEYLAAEVLELAGNAARDNK-KNRIIPRHIQLAVK-----------NDEEFSKLLGSVTIANGGVL 114 (140)
Q Consensus 61 LEyl~~EILelA~n~A~~~~-rk~ItP~hI~~AI~-----------nD~EL~~L~~~~~Ia~ggv~ 114 (140)
||+...++.+.=......++ ...|+..++..++. .++++..++........|.+
T Consensus 3 ~~~~~~~l~~~F~~~D~~dg~dG~Is~~El~~~l~~~~g~~lg~~~s~~ei~~~~~~~D~~~dg~I 68 (94)
T cd05031 3 LEHAMESLILTFHRYAGKDGDKNTLSRKELKKLMEKELSEFLKNQKDPMAVDKIMKDLDQNRDGKV 68 (94)
T ss_pred HHHHHHHHHHHHHHHhccCCCCCeECHHHHHHHHHHHhHHHhhccccHHHHHHHHHHhCCCCCCcC
Confidence 45555554443223333244 47899999998765 34678888876545555544
No 95
>PF05236 TAF4: Transcription initiation factor TFIID component TAF4 family; InterPro: IPR007900 Accurate transcription initiation at protein-coding genes by RNA polymerase II requires the assembly of a multiprotein complex around the mRNA start site. Transcription factor TFIID is one of the general factors involved in this process. Yeast TFIID comprises the TATA binding protein and 14 TBP-associated factors (TAFIIs), nine of which contain histone-fold domains (IPR007124 from INTERPRO). The C-terminal region of the TFIID-specific yeast TAF4 (yTAF4) containing the HFD shares strong sequence similarity with Drosophila (d)TAF4 and human TAF4. A structure/function analysis of yTAF4 demonstrates that the HFD, a short conserved C-terminal domain (CCTD), and the region separating them are all required for yTAF4 function. This region of similarity is found in Transcription initiation factor TFIID component TAF4 []. ; GO: 0006352 transcription initiation, DNA-dependent, 0005669 transcription factor TFIID complex; PDB: 1H3O_C.
Probab=28.08 E-value=1.2e+02 Score=24.56 Aligned_cols=57 Identities=18% Similarity=0.045 Sum_probs=32.8
Q ss_pred cCcccccccchhhHHHHHhhCC---CccccCCChHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 032441 23 RSHKAGLQFPVGRVARFLKKGR---YAQRVGSGSPVYLSAVLEYLAAEVLELAGNAARDN 79 (140)
Q Consensus 23 ~s~ragL~fPVsri~R~Lk~~~---~~~RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~ 79 (140)
++....+.|....+.+.|++-. ....|..+...||+.++|.-+.+|++-+...|++-
T Consensus 36 ~~~~~~~fL~~~~L~~~i~~i~~~~g~~~~~~d~l~llS~A~e~rLr~lie~~~~~s~hR 95 (264)
T PF05236_consen 36 QSEKEEPFLNPSPLQKRIQKIAKKHGLKSVDEDVLELLSLATEERLRNLIEKAIVLSRHR 95 (264)
T ss_dssp --------S-HHHHHHHHHHHHHCTT--EE-TCHHHHHHHHHHHHHHHHHHHHH------
T ss_pred cccccccccCHHHHHHHHHHHHHHcCCcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3445566778877777775431 34578999999999999999999999998888763
No 96
>CHL00095 clpC Clp protease ATP binding subunit
Probab=28.03 E-value=80 Score=29.92 Aligned_cols=33 Identities=21% Similarity=0.230 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHhcCCceechhhHHHHHhccHH
Q 032441 66 AEVLELAGNAARDNKKNRIIPRHIQLAVKNDEE 98 (140)
Q Consensus 66 ~EILelA~n~A~~~~rk~ItP~hI~~AI~nD~E 98 (140)
.++++.|-..|...+...|+|+||-+++-.+++
T Consensus 10 ~~vL~~A~~~A~~~~h~~V~~EHLLLaLL~~~~ 42 (821)
T CHL00095 10 IKVIMLSQEEARRLGHNFVGTEQILLGLIGEGT 42 (821)
T ss_pred HHHHHHHHHHHHHhCCCcCcHHHHHHHHHhCCC
Confidence 467788999999999999999999999876654
No 97
>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=26.26 E-value=2.1e+02 Score=19.26 Aligned_cols=53 Identities=8% Similarity=0.119 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHHHHHhcCCc-eechhhHHHHHhc-----------cHHHHhhhcCceecCCcc
Q 032441 61 LEYLAAEVLELAGNAARDNKKN-RIIPRHIQLAVKN-----------DEEFSKLLGSVTIANGGV 113 (140)
Q Consensus 61 LEyl~~EILelA~n~A~~~~rk-~ItP~hI~~AI~n-----------D~EL~~L~~~~~Ia~ggv 113 (140)
||.=+.+|.+.=-.++...+.. +|+..++...+.. +.+++.++........|.
T Consensus 5 le~a~~~~~~~F~~~dd~dgdg~~Is~~EL~~ll~~~~~~~~~~~~~~~~v~~i~~elD~n~dG~ 69 (93)
T cd05026 5 LEGAMDTLIRIFHNYSGKEGDRYKLSKGELKELLQRELTDFLSSQKDPMLVDKIMNDLDSNKDNE 69 (93)
T ss_pred HHHHHHHHHHHHHHHHccCCCCCEECHHHHHHHHHHHhHHhcccccCHHHHHHHHHHhCCCCCCC
Confidence 4555555555555556445554 7999999999843 357888888655555453
No 98
>TIGR03190 benz_CoA_bzdN benzoyl-CoA reductase, bzd-type, N subunit. Members of this family are the N subunit of one of two related types of four-subunit ATP-dependent benzoyl-CoA reductase. This enzyme system catalyzes the dearomatization of benzoyl-CoA, a common intermediate in pathways for the degradation for a number of different aromatic compounds, such as phenol and toluene.
Probab=26.19 E-value=1.5e+02 Score=25.40 Aligned_cols=46 Identities=20% Similarity=0.042 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHhccHHHHhhhc
Q 032441 58 SAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVKNDEEFSKLLG 104 (140)
Q Consensus 58 aAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~nD~EL~~L~~ 104 (140)
...++|+..|+-++.-..-...|+ +|+.+.|+.||..-.+...+++
T Consensus 130 ~~~~~y~~~el~~l~~~LE~~~G~-~i~~e~L~~ai~~~n~~r~~~~ 175 (377)
T TIGR03190 130 PHARKAHYAEVQRFRVFLQTLTGK-EITDDMLRDALAVCDENRRLLR 175 (377)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCC-CCCHHHHHHHHHHHHHHHHHHH
Confidence 556788888888887666655565 6999999999997777655553
No 99
>PF13376 OmdA: Bacteriocin-protection, YdeI or OmpD-Associated
Probab=25.57 E-value=64 Score=20.43 Aligned_cols=23 Identities=17% Similarity=0.362 Sum_probs=20.8
Q ss_pred eechhhHHHHHhccHHHHhhhcC
Q 032441 83 RIIPRHIQLAVKNDEEFSKLLGS 105 (140)
Q Consensus 83 ~ItP~hI~~AI~nD~EL~~L~~~ 105 (140)
.+.|.||..++..|++.+..|..
T Consensus 4 ~~vP~dl~~aL~~~p~a~~~f~~ 26 (63)
T PF13376_consen 4 VEVPEDLEAALEANPEAKEFFES 26 (63)
T ss_pred CCCCHHHHHHHHCCHHHHHHHHH
Confidence 46899999999999999999975
No 100
>PRK09862 putative ATP-dependent protease; Provisional
Probab=25.17 E-value=82 Score=28.51 Aligned_cols=28 Identities=29% Similarity=0.368 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHhcCCceechhhHHHHHh
Q 032441 67 EVLELAGNAARDNKKNRIIPRHIQLAVK 94 (140)
Q Consensus 67 EILelA~n~A~~~~rk~ItP~hI~~AI~ 94 (140)
.||+.|...|.-.++..|+++||..|+.
T Consensus 463 rlLrvARTiADL~g~~~V~~~hv~eAl~ 490 (506)
T PRK09862 463 RLLKVARTIADIDQSDIITRQHLQEAVS 490 (506)
T ss_pred HHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 6788888889889999999999999997
No 101
>KOG0787 consensus Dehydrogenase kinase [Signal transduction mechanisms]
Probab=24.87 E-value=15 Score=32.42 Aligned_cols=62 Identities=23% Similarity=0.287 Sum_probs=40.8
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHhc-CCceechhhHHHHHh-ccHHHHhhhcCceecCCccCCC
Q 032441 52 GSPVYLSAVLEYLAAEVLELAGNAARDN-KKNRIIPRHIQLAVK-NDEEFSKLLGSVTIANGGVLPN 116 (140)
Q Consensus 52 ~A~vyLaAvLEyl~~EILelA~n~A~~~-~rk~ItP~hI~~AI~-nD~EL~~L~~~~~Ia~ggv~p~ 116 (140)
...||+---|+|++-||++-|..+.... +...--+.+|...|. +|++|--.+.| .+|||.+.
T Consensus 252 ~~~vyvPshL~ymlfElfKNamrATve~h~~~~~~~ppI~V~V~~gdeDl~ikISD---rGGGV~~~ 315 (414)
T KOG0787|consen 252 SFTVYVPSHLYYMLFELFKNAMRATVEHHGDDGDELPPIKVTVAKGDEDLLIKISD---RGGGVPHR 315 (414)
T ss_pred cCccccchHHHHHHHHHHHHHHHHHHHHhccCCCCCCCeEEEEecCCcceEEEEec---CCCCcChh
Confidence 3447888999999999999998886654 333333666666655 55555444444 56676543
No 102
>COG5248 TAF19 Transcription initiation factor TFIID, subunit TAF13 [Transcription]
Probab=24.83 E-value=2.6e+02 Score=20.60 Aligned_cols=52 Identities=19% Similarity=0.153 Sum_probs=35.8
Q ss_pred ccCCChHHHHHHHHHHHHHHHHHHHHHHHHhc-CCceechhhHHHHHhccHHH
Q 032441 48 RVGSGSPVYLSAVLEYLAAEVLELAGNAARDN-KKNRIIPRHIQLAVKNDEEF 99 (140)
Q Consensus 48 RVs~~A~vyLaAvLEyl~~EILelA~n~A~~~-~rk~ItP~hI~~AI~nD~EL 99 (140)
-+-..++.-.-+.=||+...+.++.-|.++-+ .+....-+|+..|.+.|+-=
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 44444555556666788888888776665443 34457889999999999753
No 103
>cd05025 S-100A1 S-100A1: S-100A1 domain found in proteins similar to S100A1. S100A1 is a calcium-binding protein belonging to a large S100 vertebrate-specific protein family within the EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100A1 group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. As is the case with many other members of S100 protein family, S100A1 is implicated in intracellular and extracellular regulatory activities, including interaction with myosin-associated twitchin kinase, actin-capping protein CapZ, sinapsin I, and tubulin. Structural data suggests that S100A1 proteins exist within cells as antiparallel homodimers, while heterodimers with S100A4 and S100B also has been reported. Upon binding calcium S100A1 changes conformation to expose a hydrophobic cleft which is the interaction site of S100A1 with its more that 20 known target proteins.
Probab=24.36 E-value=2.2e+02 Score=18.82 Aligned_cols=53 Identities=9% Similarity=0.216 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHHHHHHH-hcCCc-eechhhHHHHHhc-----------cHHHHhhhcCceecCCccC
Q 032441 61 LEYLAAEVLELAGNAAR-DNKKN-RIIPRHIQLAVKN-----------DEEFSKLLGSVTIANGGVL 114 (140)
Q Consensus 61 LEyl~~EILelA~n~A~-~~~rk-~ItP~hI~~AI~n-----------D~EL~~L~~~~~Ia~ggv~ 114 (140)
||+-..+|.+ +-+.-. ..+.. .|+..++..++.. ++++..+|+.......|.+
T Consensus 4 ~e~~~~~l~~-~F~~fDd~dg~G~~Is~~El~~~l~~~lg~~~~~~~s~~~v~~i~~~~D~d~~G~I 69 (92)
T cd05025 4 LETAMETLIN-VFHAHSGKEGDKYKLSKKELKDLLQTELSDFLDAQKDADAVDKIMKELDENGDGEV 69 (92)
T ss_pred HHHHHHHHHH-HHHHHhcccCCCCeECHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHCCCCCCcC
Confidence 5666544444 555553 55666 6999999999852 4678888875444444443
No 104
>PF09077 Phage-MuB_C: Mu B transposition protein, C terminal ; InterPro: IPR009084 Bacteriophage Mu can integrate into the host bacterial genome and replicate via transposition. Mu requires the activity of four proteins for DNA transposition. Two of these proteins are the phage-encoded A and B transposition proteins, while the other two are host-specified accessory factors HU and IHF. These four proteins can form nucleoprotein complexes (transposomes), which enable strand transfer. The stable protein-DNA intermediate is subsequently disassembled prior to DNA replication by host proteins. The Mu B transposition protein is an ATP-dependent, DNA-binding protein required for target capture and immunity, as well as for activating transpososome function []. The C-terminal domain of the B transposition protein is believed to be involved in both DNA-binding and protein-protein contacts with the Mu A transposition protein. The structure of the C-terminal domain consists of four helices in an irregular array [].; GO: 0003677 DNA binding, 0006313 transposition, DNA-mediated; PDB: 1F6V_A.
Probab=24.01 E-value=35 Score=23.34 Aligned_cols=28 Identities=32% Similarity=0.373 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHhcCCceechhhHHHHHh
Q 032441 66 AEVLELAGNAARDNKKNRIIPRHIQLAVK 94 (140)
Q Consensus 66 ~EILelA~n~A~~~~rk~ItP~hI~~AI~ 94 (140)
...|.+|...|..++.. |+..||+.|-.
T Consensus 49 ~ktLrlA~m~A~g~g~~-i~~~~i~~A~~ 76 (78)
T PF09077_consen 49 TKTLRLAAMFAKGEGEA-ITADHIRAAWK 76 (78)
T ss_dssp HHHHGGGT-TT-TTS---SSHHHHHHHHT
T ss_pred HHHHHHHHHHhccCCCc-CCHHHHHHHHH
Confidence 45668888888887776 99999999864
No 105
>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=23.89 E-value=1.7e+02 Score=21.18 Aligned_cols=30 Identities=10% Similarity=0.336 Sum_probs=21.3
Q ss_pred ccccccchhhHHHHHhhCCCccccCCChHH
Q 032441 26 KAGLQFPVGRVARFLKKGRYAQRVGSGSPV 55 (140)
Q Consensus 26 ragL~fPVsri~R~Lk~~~~~~RVs~~A~v 55 (140)
+.+..+|+++|++.|++..++-....+|-.
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 457899999999999998776566665554
No 106
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=23.37 E-value=1e+02 Score=28.75 Aligned_cols=34 Identities=24% Similarity=0.201 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHhcCCceechhhHHHHHhccHH
Q 032441 65 AAEVLELAGNAARDNKKNRIIPRHIQLAVKNDEE 98 (140)
Q Consensus 65 ~~EILelA~n~A~~~~rk~ItP~hI~~AI~nD~E 98 (140)
+.++|+.|..+|...+...|.++||-+|+-.|.+
T Consensus 82 lk~vL~~A~~~A~~~g~~~I~teHLLLALl~~~~ 115 (731)
T TIGR02639 82 VQRVLQRALLHVKSAGKKEIGIGDILVALFDEED 115 (731)
T ss_pred HHHHHHHHHHHHHHcCCCccCHHHHHHHHhcCcc
Confidence 4578888989999999999999999999876643
No 107
>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=22.56 E-value=1e+02 Score=29.39 Aligned_cols=33 Identities=27% Similarity=0.344 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHhcCCceechhhHHHHHhccH
Q 032441 65 AAEVLELAGNAARDNKKNRIIPRHIQLAVKNDE 97 (140)
Q Consensus 65 ~~EILelA~n~A~~~~rk~ItP~hI~~AI~nD~ 97 (140)
+..+++.|-..|...+...|+|+||-+++-.++
T Consensus 5 a~~vL~~A~~~A~~~~h~~V~~EHLLlaLl~~~ 37 (852)
T TIGR03346 5 FQEALQAAQSLALGRDHQQIEPEHLLKALLDQE 37 (852)
T ss_pred HHHHHHHHHHHHHHcCCCcccHHHHHHHHHhCC
Confidence 456788999999999999999999999987765
No 108
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=21.92 E-value=1.5e+02 Score=23.09 Aligned_cols=46 Identities=11% Similarity=-0.026 Sum_probs=29.1
Q ss_pred cCCChHHHHHHHHH---HHHHHHHHHHHHHHHhcCCceechhhHHHHHh
Q 032441 49 VGSGSPVYLSAVLE---YLAAEVLELAGNAARDNKKNRIIPRHIQLAVK 94 (140)
Q Consensus 49 Vs~~A~vyLaAvLE---yl~~EILelA~n~A~~~~rk~ItP~hI~~AI~ 94 (140)
++..+...|..+-. +.+..+...+...|...+.+.|++++|+.++.
T Consensus 216 ~~~~~~~~i~~~s~G~p~~i~~l~~~~~~~a~~~~~~~i~~~~v~~~~~ 264 (269)
T TIGR03015 216 FSEGAFDAIHRFSRGIPRLINILCDRLLLSAFLEEKREIGGEEVREVIA 264 (269)
T ss_pred cCHHHHHHHHHHcCCcccHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 44444444444333 13445555666666667888999999999985
No 109
>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=21.88 E-value=1.2e+02 Score=23.29 Aligned_cols=40 Identities=25% Similarity=0.263 Sum_probs=24.5
Q ss_pred hHHHHHHHHHHHHHHHH----HHHHHHHHhcCC-ceechhhHHHHHh
Q 032441 53 SPVYLSAVLEYLAAEVL----ELAGNAARDNKK-NRIIPRHIQLAVK 94 (140)
Q Consensus 53 A~vyLaAvLEyl~~EIL----elA~n~A~~~~r-k~ItP~hI~~AI~ 94 (140)
+..=|.|+++|+-..-- +...+.+ +|. -.|||++|+.+|.
T Consensus 83 t~~Ql~AA~~Yl~~~~~~~~d~~~Fe~~--cGVGV~VT~E~I~~~V~ 127 (164)
T PF04558_consen 83 TNLQLDAALKYLKSNPSEPIDVAEFEKA--CGVGVVVTPEQIEAAVE 127 (164)
T ss_dssp SHHHHHHHHHHHHHHGG-G--HHHHHHT--TTTT----HHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCCCCCCCHHHHHHH--cCCCeEECHHHHHHHHH
Confidence 46778999999987644 2222322 343 3699999999986
No 110
>KOG4552 consensus Vitamin-D-receptor interacting protein complex component [Transcription]
Probab=21.49 E-value=1.4e+02 Score=24.58 Aligned_cols=51 Identities=24% Similarity=0.232 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCC-ceechhhHHHHHhccHHHHhhhcC
Q 032441 55 VYLSAVLEYLAAEVLELAGNAARDNKK-NRIIPRHIQLAVKNDEEFSKLLGS 105 (140)
Q Consensus 55 vyLaAvLEyl~~EILelA~n~A~~~~r-k~ItP~hI~~AI~nD~EL~~L~~~ 105 (140)
..++.=||-+..||+|.+.|--++.-- ..=+-.-|++-+..|.||..|++-
T Consensus 14 L~~~dDlE~i~kelie~l~~~~~qk~l~~gE~v~il~Ll~~kd~ef~~llkl 65 (272)
T KOG4552|consen 14 LESADDLEHIVKELIETLINRDKQKMLKNGETVNILKLLDSKDDEFKTLLKL 65 (272)
T ss_pred HHHhhHHHHHHHHHHHHHHhhhHHHHHhcchHHHHHHHHHhccHHHHHHHHH
Confidence 344556888899999988665433211 112347788888999999888863
No 111
>PRK05629 hypothetical protein; Validated
Probab=21.42 E-value=2.1e+02 Score=23.50 Aligned_cols=61 Identities=11% Similarity=0.066 Sum_probs=38.3
Q ss_pred hhHHHHHhhCC--CccccCCChHHHHHHHHHH----HHHHHHHHHHHHHHhcCCceechhhHHHHHhccHHH
Q 032441 34 GRVARFLKKGR--YAQRVGSGSPVYLSAVLEY----LAAEVLELAGNAARDNKKNRIIPRHIQLAVKNDEEF 99 (140)
Q Consensus 34 sri~R~Lk~~~--~~~RVs~~A~vyLaAvLEy----l~~EILelA~n~A~~~~rk~ItP~hI~~AI~nD~EL 99 (140)
..+.+|+++.- ....|+.+|.-||...++. +-.||=+|+. .. ...||.+||+..+....|.
T Consensus 129 ~~l~~wi~~~~~~~g~~i~~~A~~~L~~~~g~dl~~l~~EleKL~~----~~-~~~It~e~V~~~v~~~~~~ 195 (318)
T PRK05629 129 RERPGWVTQEFKNHGVRPTPDVVHALLEGVGSDLRELASAISQLVE----DT-QGNVTVEKVRAYYVGVAEV 195 (318)
T ss_pred HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHCccHHHHHHHHHHHHh----cC-CCCcCHHHHHHHhCCCccc
Confidence 44455554321 2348999999888876543 4445555542 12 2469999999988766553
No 112
>TIGR03191 benz_CoA_bzdO benzoyl-CoA reductase, bzd-type, O subunit. Members of this family are the O subunit of one of two related types of four-subunit ATP-dependent benzoyl-CoA reductase. This enzyme system catalyzes the dearomatization of benzoyl-CoA, a common intermediate in pathways for the degradation for a number of different aromatic compounds, such as phenol and toluene.
Probab=20.98 E-value=1.7e+02 Score=25.63 Aligned_cols=43 Identities=16% Similarity=0.181 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCceechhhHHHHHhccHHHH
Q 032441 57 LSAVLEYLAAEVLELAGNAARDNKKNRIIPRHIQLAVKNDEEFS 100 (140)
Q Consensus 57 LaAvLEyl~~EILelA~n~A~~~~rk~ItP~hI~~AI~nD~EL~ 100 (140)
-...++|+..|+-++.-..-+..|+ +|+.+.|+.||+|..+-.
T Consensus 153 ~~~~~~Y~~~ql~~l~~~LEe~tG~-kit~e~L~eaI~n~nr~~ 195 (430)
T TIGR03191 153 TDARLDYVANQLHDGIEFVEKASGR-KCDDELFIKAIKNEMRST 195 (430)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHHHH
Confidence 3456788888888877555555565 699999999999765433
No 113
>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=20.90 E-value=1.3e+02 Score=28.77 Aligned_cols=32 Identities=19% Similarity=0.171 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHhcCCceechhhHHHHHhcc
Q 032441 65 AAEVLELAGNAARDNKKNRIIPRHIQLAVKND 96 (140)
Q Consensus 65 ~~EILelA~n~A~~~~rk~ItP~hI~~AI~nD 96 (140)
+.++++.|...|...+...|+|+||-+|+-.+
T Consensus 5 a~~~L~~A~~~A~~~~h~~I~~eHLLlaLL~~ 36 (852)
T TIGR03345 5 SRRALEQAAALCVARGHPEVELEHWLLALLDQ 36 (852)
T ss_pred HHHHHHHHHHHHHHhCCCcccHHHHHHHHHhc
Confidence 45778899999999999999999999998765
No 114
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=20.50 E-value=1.4e+02 Score=24.94 Aligned_cols=28 Identities=18% Similarity=0.148 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHhcCCceechhhHHHHHh
Q 032441 67 EVLELAGNAARDNKKNRIIPRHIQLAVK 94 (140)
Q Consensus 67 EILelA~n~A~~~~rk~ItP~hI~~AI~ 94 (140)
.++..|+..|...++..|+.+|+..|+.
T Consensus 334 ~l~~~A~~~a~~~~~~~i~~~d~~~a~~ 361 (364)
T TIGR01242 334 AICTEAGMFAIREERDYVTMDDFIKAVE 361 (364)
T ss_pred HHHHHHHHHHHHhCCCccCHHHHHHHHH
Confidence 4444556666667888999999999985
No 115
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=20.23 E-value=1.3e+02 Score=26.64 Aligned_cols=29 Identities=14% Similarity=0.179 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHhcCCceechhhHHHHHhc
Q 032441 67 EVLELAGNAARDNKKNRIIPRHIQLAVKN 95 (140)
Q Consensus 67 EILelA~n~A~~~~rk~ItP~hI~~AI~n 95 (140)
.|+..|+..|...++..|+.+|+..|+..
T Consensus 395 ~i~~eA~~~Alr~~r~~Vt~~D~~~A~~~ 423 (438)
T PTZ00361 395 AICTEAGLLALRERRMKVTQADFRKAKEK 423 (438)
T ss_pred HHHHHHHHHHHHhcCCccCHHHHHHHHHH
Confidence 44555666677778889999999999964
No 116
>PRK10865 protein disaggregation chaperone; Provisional
Probab=20.15 E-value=1.6e+02 Score=28.27 Aligned_cols=39 Identities=28% Similarity=0.220 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHhcCCceechhhHHHHHhccHH--HHhhh
Q 032441 65 AAEVLELAGNAARDNKKNRIIPRHIQLAVKNDEE--FSKLL 103 (140)
Q Consensus 65 ~~EILelA~n~A~~~~rk~ItP~hI~~AI~nD~E--L~~L~ 103 (140)
+.++|+.|...|...+...|+|+||-+++-.++. +..++
T Consensus 10 ~~~~l~~a~~~a~~~~~~~~~~~hll~~l~~~~~~~~~~~l 50 (857)
T PRK10865 10 FQLALADAQSLALGHDNQFIEPLHLMSALLNQEGGSVRPLL 50 (857)
T ss_pred HHHHHHHHHHHHHHcCCCcccHHHHHHHHHhCCccHHHHHH
Confidence 4567788989999999999999999999987653 44444
Done!