Query 018049
Match_columns 361
No_of_seqs 169 out of 335
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 05:42:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018049.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018049hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2389 Predicted bromodomain 100.0 8.8E-47 1.9E-51 365.8 16.0 318 10-337 10-335 (353)
2 KOG4336 TBP-associated transcr 100.0 9E-36 1.9E-40 284.7 17.7 166 30-215 6-178 (323)
3 PF10406 TAF8_C: Transcription 99.8 1.6E-21 3.5E-26 143.6 5.7 51 160-210 1-51 (51)
4 cd08049 TAF8 TATA Binding Prot 99.8 4.6E-21 1E-25 142.7 6.0 54 160-213 1-54 (54)
5 smart00576 BTP Bromodomain tra 99.8 2.6E-20 5.6E-25 147.7 10.4 75 24-98 1-75 (77)
6 PF07524 Bromo_TP: Bromodomain 99.8 4.4E-20 9.4E-25 145.9 10.4 74 24-97 1-74 (77)
7 PLN00035 histone H4; Provision 99.1 5.5E-10 1.2E-14 93.4 8.8 83 18-100 18-101 (103)
8 PTZ00015 histone H4; Provision 99.1 6.1E-10 1.3E-14 93.1 8.3 81 17-97 18-98 (102)
9 cd00076 H4 Histone H4, one of 98.8 2.1E-08 4.7E-13 81.4 7.9 74 24-97 8-81 (85)
10 cd07979 TAF9 TATA Binding Prot 98.6 7.5E-07 1.6E-11 76.3 12.1 87 33-130 5-91 (117)
11 KOG3467 Histone H4 [Chromatin 98.5 2E-07 4.4E-12 75.5 6.6 82 19-100 19-101 (103)
12 smart00803 TAF TATA box bindin 98.4 1E-06 2.2E-11 68.1 7.7 60 33-92 6-65 (65)
13 COG2036 HHT1 Histones H3 and H 98.4 1.3E-06 2.7E-11 71.9 7.3 67 31-97 21-87 (91)
14 PF02291 TFIID-31kDa: Transcri 98.3 2.7E-06 5.9E-11 74.2 8.1 61 33-93 16-76 (129)
15 smart00417 H4 Histone H4. 98.3 1.4E-06 3E-11 69.1 5.0 68 23-90 7-74 (74)
16 PF15630 CENP-S: Kinetochore c 98.1 1E-05 2.2E-10 64.5 7.7 66 28-93 4-72 (76)
17 KOG3334 Transcription initiati 98.1 5.1E-05 1.1E-09 66.9 11.0 62 33-94 17-78 (148)
18 PF02969 TAF: TATA box binding 97.8 0.00016 3.5E-09 56.2 8.5 61 32-92 6-66 (66)
19 cd07981 TAF12 TATA Binding Pro 97.4 0.0015 3.1E-08 51.4 8.8 51 43-93 16-66 (72)
20 cd08050 TAF6 TATA Binding Prot 97.3 0.0011 2.4E-08 66.3 9.4 69 33-101 3-73 (343)
21 PF00125 Histone: Core histone 97.3 0.0013 2.7E-08 51.2 7.7 61 32-92 12-73 (75)
22 PF00808 CBFD_NFYB_HMF: Histon 96.9 0.0049 1.1E-07 46.9 7.5 57 35-91 8-65 (65)
23 COG5094 TAF9 Transcription ini 96.8 0.0037 8E-08 54.1 6.8 61 33-93 18-81 (145)
24 smart00428 H3 Histone H3. 96.2 0.035 7.5E-07 47.0 8.6 53 43-96 51-103 (105)
25 cd07978 TAF13 The TATA Binding 96.1 0.034 7.3E-07 45.9 7.9 65 32-97 5-70 (92)
26 PF15511 CENP-T: Centromere ki 96.0 0.018 3.9E-07 59.2 7.1 59 28-86 354-414 (414)
27 KOG3423 Transcription initiati 95.9 0.038 8.2E-07 50.2 7.9 66 32-97 89-168 (176)
28 PF02269 TFIID-18kDa: Transcri 95.4 0.016 3.5E-07 47.8 3.6 63 35-97 7-70 (93)
29 KOG2549 Transcription initiati 95.2 0.079 1.7E-06 56.1 8.7 65 33-97 15-79 (576)
30 PLN00161 histone H3; Provision 95.0 0.096 2.1E-06 46.2 7.1 54 43-97 76-129 (135)
31 PLN00160 histone H3; Provision 94.6 0.13 2.8E-06 43.0 6.7 50 46-95 44-93 (97)
32 KOG0870 DNA polymerase epsilon 94.4 0.16 3.5E-06 46.2 7.3 73 24-97 9-81 (172)
33 PF03540 TFIID_30kDa: Transcri 94.2 0.21 4.5E-06 37.1 6.3 44 33-76 6-49 (51)
34 PLN00121 histone H3; Provision 94.2 0.24 5.2E-06 43.8 7.9 52 43-95 82-133 (136)
35 PTZ00018 histone H3; Provision 94.2 0.18 3.8E-06 44.6 6.9 53 43-96 82-134 (136)
36 cd00074 H2A Histone 2A; H2A is 93.6 0.24 5.1E-06 42.6 6.6 58 36-93 27-85 (115)
37 COG5095 TAF6 Transcription ini 92.2 0.62 1.4E-05 46.7 8.1 70 33-102 9-80 (450)
38 KOG0869 CCAAT-binding factor, 91.5 0.82 1.8E-05 41.4 7.4 76 22-97 25-102 (168)
39 KOG1142 Transcription initiati 90.0 1.2 2.7E-05 43.2 7.6 56 42-97 168-224 (258)
40 PF03847 TFIID_20kDa: Transcri 89.3 1.4 3E-05 34.5 6.1 49 45-93 16-64 (68)
41 COG5162 Transcription initiati 88.4 1.1 2.4E-05 40.8 5.7 44 33-76 92-135 (197)
42 KOG3901 Transcription initiati 86.5 2 4.3E-05 36.5 5.8 68 27-97 7-75 (109)
43 KOG0871 Class 2 transcription 85.8 2.4 5.2E-05 38.1 6.3 67 28-97 15-82 (156)
44 COG5248 TAF19 Transcription in 82.3 3.9 8.5E-05 35.0 5.8 66 30-97 10-76 (126)
45 PLN00154 histone H2A; Provisio 81.0 4.5 9.8E-05 35.8 6.0 57 36-92 45-103 (136)
46 KOG1745 Histones H3 and H4 [Ch 77.4 1.4 3.1E-05 39.0 1.7 50 46-95 85-134 (137)
47 cd08045 TAF4 TATA Binding Prot 73.4 11 0.00023 35.3 6.7 58 21-78 40-97 (212)
48 smart00427 H2B Histone H2B. 73.4 26 0.00056 29.0 8.0 49 46-94 19-67 (89)
49 KOG1744 Histone H2B [Chromatin 72.8 11 0.00023 33.2 5.9 58 34-94 46-103 (127)
50 PTZ00463 histone H2B; Provisio 72.3 25 0.00053 30.5 7.9 49 46-94 46-94 (117)
51 PLN00158 histone H2B; Provisio 68.9 36 0.00078 29.5 8.2 67 21-94 27-93 (116)
52 PF13654 AAA_32: AAA domain; P 68.2 37 0.00081 36.1 10.0 68 25-93 427-505 (509)
53 TIGR03015 pepcterm_ATPase puta 61.4 35 0.00075 31.8 7.5 65 31-95 197-267 (269)
54 PF05236 TAF4: Transcription i 61.4 16 0.00034 35.3 5.3 56 27-82 45-100 (264)
55 cd08048 TAF11 TATA Binding Pro 60.1 57 0.0012 26.5 7.5 65 26-94 17-84 (85)
56 PF09415 CENP-X: CENP-S associ 54.5 32 0.0007 27.1 5.1 58 33-91 3-65 (72)
57 COG5150 Class 2 transcription 53.7 45 0.00097 29.5 6.2 67 29-97 15-81 (148)
58 PTZ00017 histone H2A; Provisio 52.5 56 0.0012 29.0 6.7 48 45-92 44-91 (134)
59 PLN00157 histone H2A; Provisio 50.9 71 0.0015 28.3 7.1 49 44-92 42-90 (132)
60 PLN00163 histone H4; Provision 49.6 9.4 0.0002 29.2 1.2 41 18-58 18-58 (59)
61 PRK00411 cdc6 cell division co 49.1 93 0.002 30.9 8.7 50 46-95 228-283 (394)
62 TIGR00764 lon_rel lon-related 46.9 1.1E+02 0.0023 33.4 9.2 63 32-94 315-391 (608)
63 PLN00153 histone H2A; Provisio 45.6 1E+02 0.0022 27.2 7.2 56 37-92 32-88 (129)
64 PLN00156 histone H2AX; Provisi 45.1 54 0.0012 29.3 5.5 56 37-92 37-93 (139)
65 smart00414 H2A Histone 2A. 43.9 66 0.0014 27.3 5.7 49 44-92 25-73 (106)
66 PRK06585 holA DNA polymerase I 37.5 1.4E+02 0.003 29.3 7.8 66 28-94 144-210 (343)
67 PF13335 Mg_chelatase_2: Magne 34.4 1.5E+02 0.0032 24.4 6.2 46 47-92 43-94 (96)
68 KOG2389 Predicted bromodomain 32.7 29 0.00064 35.2 2.1 291 33-359 28-337 (353)
69 PRK07452 DNA polymerase III su 32.2 2.3E+02 0.005 27.4 8.3 62 31-93 135-198 (326)
70 PRK09087 hypothetical protein; 29.4 3.9E+02 0.0085 25.0 9.0 64 30-95 157-223 (226)
71 PF12767 SAGA-Tad1: Transcript 28.4 1.7E+02 0.0036 28.0 6.4 44 29-72 206-249 (252)
72 TIGR02928 orc1/cdc6 family rep 27.4 3.6E+02 0.0079 26.3 8.8 52 46-97 220-277 (365)
73 PRK05574 holA DNA polymerase I 27.1 2.6E+02 0.0056 27.0 7.6 64 30-94 150-213 (340)
74 PRK05907 hypothetical protein; 26.1 1.8E+02 0.0039 28.9 6.4 64 29-93 137-202 (311)
75 COG1224 TIP49 DNA helicase TIP 25.7 1.9E+02 0.004 30.3 6.4 70 24-94 359-432 (450)
76 TIGR02442 Cob-chelat-sub cobal 25.4 3.8E+02 0.0083 29.2 9.2 50 45-94 248-304 (633)
77 CHL00081 chlI Mg-protoporyphyr 24.8 2.1E+02 0.0046 29.1 6.7 48 46-93 267-321 (350)
78 COG1067 LonB Predicted ATP-dep 24.6 4.2E+02 0.0092 29.3 9.3 77 21-97 313-402 (647)
79 PRK00080 ruvB Holliday junctio 24.4 4.1E+02 0.0088 26.0 8.5 66 31-97 185-253 (328)
80 TIGR01128 holA DNA polymerase 23.2 3.7E+02 0.008 25.4 7.8 66 28-94 113-178 (302)
81 COG5262 HTA1 Histone H2A [Chro 22.9 2.3E+02 0.005 24.8 5.5 58 35-92 32-90 (132)
82 PRK12402 replication factor C 22.9 2.6E+02 0.0056 26.8 6.7 64 29-95 187-250 (337)
83 KOG1756 Histone 2A [Chromatin 22.2 2.6E+02 0.0057 24.7 5.8 59 35-93 33-92 (131)
84 TIGR00635 ruvB Holliday juncti 21.7 4.5E+02 0.0098 25.0 8.1 66 31-97 164-232 (305)
85 cd07648 F-BAR_FCHO The F-BAR ( 21.0 3.9E+02 0.0085 25.4 7.4 64 44-126 180-247 (261)
86 COG1466 HolA DNA polymerase II 20.9 5.5E+02 0.012 25.3 8.7 67 30-97 144-210 (334)
87 TIGR02902 spore_lonB ATP-depen 20.4 3.6E+02 0.0078 28.8 7.7 61 31-92 268-330 (531)
88 TIGR02031 BchD-ChlD magnesium 20.1 5.3E+02 0.011 28.0 8.9 49 46-94 203-258 (589)
No 1
>KOG2389 consensus Predicted bromodomain transcription factor [Transcription]
Probab=100.00 E-value=8.8e-47 Score=365.81 Aligned_cols=318 Identities=27% Similarity=0.388 Sum_probs=278.8
Q ss_pred CccCCCCCCCCCCchHHHHHHHHHHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHH
Q 018049 10 SKHQQPHTKRKFSGDDFSQAIAKVAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQ 89 (361)
Q Consensus 10 ~~~~~~~~~~~~~~def~r~lLr~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~ 89 (361)
-+.+..+.+++.+.++|++.+++++|||||+++||++...+||++|+++++.||++||++||.|++++||++||++|+++
T Consensus 10 ~q~~~~~~~~~~~~~~ya~sla~~avaQIcqslg~~~~~~sale~Ltd~~~qyvQ~lgk~a~~~~n~anR~epnl~Div~ 89 (353)
T KOG2389|consen 10 QQAEEESERSESEEAEYAFSLARVAVAQICQSLGYSSTQNSALETLTDVLQQYVQNLGKTAHRYSNLANRTEPNLFDIVL 89 (353)
T ss_pred hhhhhhcCccchhHHHHHHHHHHHHHHHHHHhcCCcccccHHHHHHHHHHHHHHHHHHhhhhhhhhhcCCCCccHHHHHH
Confidence 35667889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHcCCCCCCCCCccchhhcccchhhHHHHHHHhhcCCCCCCCCCCCCCCCCC-CCCCCcccCCCCCCCCCCCCCCCC-
Q 018049 90 GLEDLGLDQGFSGASDINHCLASSGIVRELIQYANEATDVPFAYAIPHFPVVKD-RKPKSSFLQIGEEPPIEDIPAWLP- 167 (361)
Q Consensus 90 AL~dmGi~~gf~gas~~~~~l~~S~~l~eL~~yv~~~~~ipf~~~lP~fPv~k~-~~~~psfl~~Ge~~~p~hIP~~LP- 167 (361)
||.+|+++.|+.|+++.+|||.+|+.+++|+.|..++++|||.+++|+||+.+. ..+.|+|...|..+++.|||.|||
T Consensus 90 Al~dls~s~~~~~~~~~s~~L~ds~v~rdii~~~g~~eevpF~~~lP~Fp~s~s~~k~~l~~~~~g~~pp~~~Ip~wLP~ 169 (353)
T KOG2389|consen 90 ALQDLSASLGASGSSGESHCLLDSKVLRDIIIFNGKAEEVPFKDDLPRFPVSKSVNKPFLKFGSVGAEPPGESIPIWLPP 169 (353)
T ss_pred HHHHhhhhcccccccchhHHHhhhhhHHHHHhhccccccCCCCCCCCccccccccccCCCCccccCCCCCCccccccCCC
Confidence 999999999999999999999999999999999999999999999999999987 677888988999999999999999
Q ss_pred CCCCCCCcccCCCCCCCCCChHHHHHHHHHHHhHHHHHHHHHHHHHhcCCCCccccCC--cccccccccCCCCccCCCCc
Q 018049 168 AFPDPQTYFESPSQNERASDSYTEKIELGKQQRKMEMSMVNLQRQFSESGPSSFVHGD--SSKEKKTVESNPFLSAPLHF 245 (361)
Q Consensus 168 ~FP~~HTY~~TPi~~e~~tD~~~iRe~~a~q~R~aE~AL~~L~~~~~~~~~~~~~~~~--~~~~~~~~~~npf~~~~~~~ 245 (361)
+||+.|+|..+|.++....+++.--.+.+.+.+.++.+.....+...+ .+. .++.....++|+|+.++.++
T Consensus 170 ~fp~~~~~~~s~e~~~~~~~~~~~~~~~~s~~~~~~ls~~~~~r~~v~-------k~~~~~~~~~~~s~g~~~~~~~~~~ 242 (353)
T KOG2389|consen 170 AFPDLEGCSKSPEGNVTVPKPEGRPPEKASLELRASLSEDSGGRLQVK-------KDSEEKEKPEWTSKGPKKLTRAEEI 242 (353)
T ss_pred CCCCcccCCCCccccccccCcccCchhhhhhhhhhhhhhhccccchhh-------hhhhhhcCcccccCCChhhhcchhc
Confidence 899999999999988888888766666666655555555444433333 222 22223333899999999999
Q ss_pred ccccccc--ccCChhhhhHHhhhcccccccccccccchhhhchhHHHHhh-ccccchhhhhhh-cccCCCCCeeeeeecC
Q 018049 246 EEKEVSS--VVLPAKLSKEVALQNPVAKKHVVDNHISVMETFAPALEAMK-NRFCESREEQKN-IQLDQRPPVQFKIGVG 321 (361)
Q Consensus 246 ~ek~vs~--v~~~~~~~~~~~~~~~~~~~~~~~~~~s~~e~fapa~~~~~-~~~~~~~~~~~~-~~~~~~~~v~~k~~~~ 321 (361)
|++.|+. +|.+..+.+....+|+++.+|+.. ++|++.|+.--+.+ ++.....+.+|+ ++..+-.+++|||+..
T Consensus 243 ~~~~vs~~~kV~~~~~~~~~i~t~~~Pa~~~~~---p~l~~~a~~e~~~~k~v~~~t~d~ek~~~~~~~~~l~~~k~~~~ 319 (353)
T KOG2389|consen 243 RDQLVSAKSKVVLLNRVGAPIQTTLPPAQQPAT---PILVPQASMEPATNKPVVGATVDIEKAPFLLAEPALLVEKKTER 319 (353)
T ss_pred ccccccccccccccccCCceeeccCCCcccCCc---cccccccccccccCcccccchhhhhhchhhcccchhhhhhhccc
Confidence 9999996 999999999999999999999955 89999998877766 777777777776 7899999999999999
Q ss_pred cccccccCCCCccCCC
Q 018049 322 KKSLVKPLKSSPQNMD 337 (361)
Q Consensus 322 k~~~~~~~~~~~~~~~ 337 (361)
+.+.|.+.+.-.+++.
T Consensus 320 ~~s~~~~~~~ed~~kr 335 (353)
T KOG2389|consen 320 QFSEGPSSSREDQEKR 335 (353)
T ss_pred ccccccccchhhhhcc
Confidence 9999999999555543
No 2
>KOG4336 consensus TBP-associated transcription factor Prodos [Transcription]
Probab=100.00 E-value=9e-36 Score=284.69 Aligned_cols=166 Identities=23% Similarity=0.402 Sum_probs=142.3
Q ss_pred HHHHHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCCCCCCCCCccchhh
Q 018049 30 IAKVAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLGLDQGFSGASDINHC 109 (361)
Q Consensus 30 lLr~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmGi~~gf~gas~~~~~ 109 (361)
+|..+|+++|..+||+.++..|+++|+++++.||.+|++.+|.||+|+|||+|+..||.++|.+|||.
T Consensus 6 vl~~VV~~Ll~~~gfd~is~~aletlvell~~yi~eigrq~~n~celagRT~pT~~Dv~l~Li~mnI~------------ 73 (323)
T KOG4336|consen 6 VLAPVVSNLLKTKGFDSISNAALETLVELLQSYIREIGRQLHNYCELAGRTIPTQGDVKLTLIEMNIK------------ 73 (323)
T ss_pred HHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHHHhCCC------------
Confidence 99999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccchhhHHHHHHHhhcCCCC--CCCCCCCCCCCCC--C-CCC-CcccCCC-CCCCCCCCCCCCCCCCCCCCcccCCCCC
Q 018049 110 LASSGIVRELIQYANEATDVP--FAYAIPHFPVVKD--R-KPK-SSFLQIG-EEPPIEDIPAWLPAFPDPQTYFESPSQN 182 (361)
Q Consensus 110 l~~S~~l~eL~~yv~~~~~ip--f~~~lP~fPv~k~--~-~~~-psfl~~G-e~~~p~hIP~~LP~FP~~HTY~~TPi~~ 182 (361)
+.+|.+|.+.....- -...+|. .... + ..+ ...+..| +.++|.|||+|||+||++|||++||+|+
T Consensus 74 ------v~sL~~~~q~~~~sl~~~~~~aP~--~~~q~~ds~~~~~~~l~~gv~~php~yIpshLPpfPdpHTYi~Tpi~~ 145 (323)
T KOG4336|consen 74 ------VSSLYAYFQKQEFSLWSVLIAAPE--NQEQEEDSEQQPELLLTLGVSRPHPKYIPSHLPPFPDPHTYIKTPIYK 145 (323)
T ss_pred ------hhhhHHHHHhccchhhhccccCCC--cCCccccccccchHhhhcCCCCCCCccccccCCCCCCCcccccCCccC
Confidence 688988886543211 1233443 2221 0 011 2233444 4799999999999999999999999999
Q ss_pred CCCCChHHHHHHHHHHHhHHHHHHHHHHHHHhc
Q 018049 183 ERASDSYTEKIELGKQQRKMEMSMVNLQRQFSE 215 (361)
Q Consensus 183 e~~tD~~~iRe~~a~q~R~aE~AL~~L~~~~~~ 215 (361)
.++|||++||+++++|+|.+|+||+++..+...
T Consensus 146 ~p~tsyk~iRe~aaqe~r~~e~AL~~~~~r~~p 178 (323)
T KOG4336|consen 146 VPDTSYKAIREKAAQESRNSEKALTNYLKRNSP 178 (323)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHhcCc
Confidence 999999999999999999999999999999885
No 3
>PF10406 TAF8_C: Transcription factor TFIID complex subunit 8 C-term ; InterPro: IPR019473 This entry represents the C-terminal region of subunit 8 (also known as TAF8) of the transcription factor TFIID []. The adjacent N-terminal region generally contains a histone fold domain (IPR006565 from INTERPRO). This subunit is one of the key subunits of TFIID, being one of several general cofactors which are typically involved in gene activation to bring about the communication between gene-specific transcription factors and components of the general transcription machinery [].
Probab=99.84 E-value=1.6e-21 Score=143.59 Aligned_cols=51 Identities=37% Similarity=0.664 Sum_probs=49.7
Q ss_pred CCCCCCCCCCCCCCCcccCCCCCCCCCChHHHHHHHHHHHhHHHHHHHHHH
Q 018049 160 EDIPAWLPAFPDPQTYFESPSQNERASDSYTEKIELGKQQRKMEMSMVNLQ 210 (361)
Q Consensus 160 ~hIP~~LP~FP~~HTY~~TPi~~e~~tD~~~iRe~~a~q~R~aE~AL~~L~ 210 (361)
+|||+|||+||++|||++||+|+++++|++++|+++++|+|++|+||++|+
T Consensus 1 ~~IP~~lP~fP~~HTY~~Tp~~~~~~~d~~~~r~~~~~~~r~~e~aL~~l~ 51 (51)
T PF10406_consen 1 SHIPDWLPPFPPPHTYKRTPIYNERETDPKKIREKAAEQSRLAEKALRKLL 51 (51)
T ss_pred CCCcccCCCCCCCcccccCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHhC
Confidence 599999999999999999999999999999999999999999999999984
No 4
>cd08049 TAF8 TATA Binding Protein (TBP) Associated Factor 8. The TATA Binding Protein (TBP) Associated Factor 8 (TAF8) 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 the assembly of the preinitiation 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 TAF orthologs and paralogs. Several hypotheses are proposed for TAFs' functions, such as serving as activator-binding sites, involvement in the core-promo
Probab=99.83 E-value=4.6e-21 Score=142.65 Aligned_cols=54 Identities=41% Similarity=0.769 Sum_probs=52.2
Q ss_pred CCCCCCCCCCCCCCCcccCCCCCCCCCChHHHHHHHHHHHhHHHHHHHHHHHHH
Q 018049 160 EDIPAWLPAFPDPQTYFESPSQNERASDSYTEKIELGKQQRKMEMSMVNLQRQF 213 (361)
Q Consensus 160 ~hIP~~LP~FP~~HTY~~TPi~~e~~tD~~~iRe~~a~q~R~aE~AL~~L~~~~ 213 (361)
.|||+|||+||++|||++||+|+++++|++++|+++++|+|++|+||.+|++++
T Consensus 1 ~hIP~~LP~FP~~HTY~~Tp~~~~~~~d~~~~r~~~~~~~r~~e~aL~~l~~~~ 54 (54)
T cd08049 1 AHIPSWLPPFPDPHTYKRTPTYSERETDPKKLREELASQRRLAEKALLRLQQKT 54 (54)
T ss_pred CCCCcCCCCCCCchhhccCCCCCCCccCHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 499999999999999999999999999999999999999999999999999863
No 5
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=99.83 E-value=2.6e-20 Score=147.66 Aligned_cols=75 Identities=44% Similarity=0.722 Sum_probs=73.4
Q ss_pred hHHHHHHHHHHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCCCC
Q 018049 24 DDFSQAIAKVAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLGLDQ 98 (361)
Q Consensus 24 def~r~lLr~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmGi~~ 98 (361)
++|++.+|+++|+|||+++||++++++|+|+|+|++++||.+|++.++.||+|+||++|++.||.+||++|||+.
T Consensus 1 ~~~~~~ll~~~Vaqil~~~Gf~~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~~gi~~ 75 (77)
T smart00576 1 NELAFALLRIAVAQILESAGFDSFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALENLGISV 75 (77)
T ss_pred CHHHHHHHHHHHHHHHHHcCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhCccc
Confidence 589999999999999999999999999999999999999999999999999999999999999999999999983
No 6
>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=99.83 E-value=4.4e-20 Score=145.90 Aligned_cols=74 Identities=39% Similarity=0.688 Sum_probs=73.1
Q ss_pred hHHHHHHHHHHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCCC
Q 018049 24 DDFSQAIAKVAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLGLD 97 (361)
Q Consensus 24 def~r~lLr~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmGi~ 97 (361)
|+|++.+|+++|++||+++||++++++|||.|+|++.+||++|++.++.||+++|||+|++.||.+||++||++
T Consensus 1 ~e~~~~~l~~~va~il~~~GF~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~~~gi~ 74 (77)
T PF07524_consen 1 DEFARSLLRRSVAQILKHAGFDSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQALEEMGIS 74 (77)
T ss_pred CHHHHHHHHHHHHHHHHHcCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhCCC
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999998
No 7
>PLN00035 histone H4; Provisional
Probab=99.08 E-value=5.5e-10 Score=93.42 Aligned_cols=83 Identities=19% Similarity=0.263 Sum_probs=74.8
Q ss_pred CCCCCchHHHHHHHHHHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCCC
Q 018049 18 KRKFSGDDFSQAIAKVAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLGLD 97 (361)
Q Consensus 18 ~~~~~~def~r~lLr~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmGi~ 97 (361)
+.+....|....|-..+|..+++..|-..++..|.+.|.+++..|+.+|++.+..||+||+|.+++..||.+||+.+|-+
T Consensus 18 r~~k~~~d~i~~ipk~~IrRLARr~GvkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~Alkr~g~~ 97 (103)
T PLN00035 18 RHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGRT 97 (103)
T ss_pred HHHHHHHhhhccCCHHHHHHHHHHcCcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHcCCc
Confidence 34445556666688889999999999999999999999999999999999999999999999999999999999999988
Q ss_pred -CCC
Q 018049 98 -QGF 100 (361)
Q Consensus 98 -~gf 100 (361)
.||
T Consensus 98 lyGf 101 (103)
T PLN00035 98 LYGF 101 (103)
T ss_pred CCCC
Confidence 455
No 8
>PTZ00015 histone H4; Provisional
Probab=99.06 E-value=6.1e-10 Score=93.11 Aligned_cols=81 Identities=16% Similarity=0.265 Sum_probs=74.8
Q ss_pred CCCCCCchHHHHHHHHHHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCC
Q 018049 17 TKRKFSGDDFSQAIAKVAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLGL 96 (361)
Q Consensus 17 ~~~~~~~def~r~lLr~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmGi 96 (361)
.+.+....+..+.|...+|..|++..|-..++..|.+.+.+++..|+.+|++.+..||+||+|.+++..||.+||+..|-
T Consensus 18 kr~rk~~r~~i~gI~k~~IrRLarr~GvkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~AlKr~g~ 97 (102)
T PTZ00015 18 KRQKKVLRDNIRGITKGAIRRLARRGGVKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVYALKRQGR 97 (102)
T ss_pred hhHHHHHhhcccCCCHHHHHHHHHHcCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHhcCC
Confidence 34445556777789999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred C
Q 018049 97 D 97 (361)
Q Consensus 97 ~ 97 (361)
+
T Consensus 98 ~ 98 (102)
T PTZ00015 98 T 98 (102)
T ss_pred C
Confidence 7
No 9
>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=98.79 E-value=2.1e-08 Score=81.36 Aligned_cols=74 Identities=19% Similarity=0.311 Sum_probs=69.4
Q ss_pred hHHHHHHHHHHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCCC
Q 018049 24 DDFSQAIAKVAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLGLD 97 (361)
Q Consensus 24 def~r~lLr~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmGi~ 97 (361)
.+....+...+|..+++..|-..++..|.+.+.+++..|+.+|++.+..||+||+|.+++..||.+||+.+|-+
T Consensus 8 ~~~~~gi~k~~I~RLarr~GvkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr~g~~ 81 (85)
T cd00076 8 RDNIKGITKPAIRRLARRGGVKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRT 81 (85)
T ss_pred HHhhccCCHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHCCCC
Confidence 35555677889999999999999999999999999999999999999999999999999999999999999977
No 10
>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=98.60 E-value=7.5e-07 Score=76.31 Aligned_cols=87 Identities=21% Similarity=0.341 Sum_probs=71.4
Q ss_pred HHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCCCCCCCCCccchhhccc
Q 018049 33 VAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLGLDQGFSGASDINHCLAS 112 (361)
Q Consensus 33 ~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmGi~~gf~gas~~~~~l~~ 112 (361)
++|.+||++.|-+.+++.|...|.|++.+|..+|+..+..||+||||.+++..||.+|+...+-. .|.+..
T Consensus 5 ~~v~~iLk~~Gv~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~r~~~-~f~~~p-------- 75 (117)
T cd07979 5 RVIAAILKSMGITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQSRVDY-SFTSPP-------- 75 (117)
T ss_pred HHHHHHHHHCCCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhcc-CCCCCC--------
Confidence 57899999999999999999999999999999999999999999999999999999999986542 232211
Q ss_pred chhhHHHHHHHhhcCCCC
Q 018049 113 SGIVRELIQYANEATDVP 130 (361)
Q Consensus 113 S~~l~eL~~yv~~~~~ip 130 (361)
.-..|.+.....+.+|
T Consensus 76 --~~~~l~~~a~~~N~~p 91 (117)
T cd07979 76 --PRDFLLELAREKNSIP 91 (117)
T ss_pred --cHHHHHHHHHHhccCC
Confidence 1344666666555555
No 11
>KOG3467 consensus Histone H4 [Chromatin structure and dynamics]
Probab=98.54 E-value=2e-07 Score=75.49 Aligned_cols=82 Identities=20% Similarity=0.257 Sum_probs=75.1
Q ss_pred CCCCchHHHHHHHHHHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCCC-
Q 018049 19 RKFSGDDFSQAIAKVAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLGLD- 97 (361)
Q Consensus 19 ~~~~~def~r~lLr~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmGi~- 97 (361)
-+.+..|-...+.+.+|-.+.+..|...+.--..+....++..||+++...+..|++||.|..+++.||+.+|..||+.
T Consensus 19 HRK~LsDnIqgitKpaIRRlARr~GVkRi~G~~yeE~~~~~k~fl~n~i~~A~~yt~HAKRKTvT~~dvv~~LKR~G~~~ 98 (103)
T KOG3467|consen 19 HRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTL 98 (103)
T ss_pred HHHHHHhhccccchHHHHHHHHhcCcchhchhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhceeeHHHHHHHHHHcCcee
Confidence 3446677777788999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred CCC
Q 018049 98 QGF 100 (361)
Q Consensus 98 ~gf 100 (361)
.||
T Consensus 99 ~g~ 101 (103)
T KOG3467|consen 99 YGF 101 (103)
T ss_pred ecc
Confidence 344
No 12
>smart00803 TAF TATA box binding protein associated factor. TAFs (TATA box binding protein associated factors) are part of the transcription initiation factor TFIID multimeric protein complex. TFIID is composed of the TATA box binding protein (TBP) and a number of TAFs. The TAFs provide binding sites for many different transcriptional activators and co-activators that modulate transcription initiation by Pol II. TAF proteins adopt a histone-like fold.
Probab=98.43 E-value=1e-06 Score=68.12 Aligned_cols=60 Identities=20% Similarity=0.188 Sum_probs=57.5
Q ss_pred HHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Q 018049 33 VAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLE 92 (361)
Q Consensus 33 ~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~ 92 (361)
..|..++++.|.+.++..|.+.|.+.+..|+.++++.+..|++|++|++.+..||.+||+
T Consensus 6 ~~i~ria~~~Gi~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk 65 (65)
T smart00803 6 ETIKDVAESLGIGNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR 65 (65)
T ss_pred HHHHHHHHHCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence 568889999999999999999999999999999999999999999999999999999984
No 13
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=98.37 E-value=1.3e-06 Score=71.92 Aligned_cols=67 Identities=24% Similarity=0.301 Sum_probs=62.8
Q ss_pred HHHHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCCC
Q 018049 31 AKVAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLGLD 97 (361)
Q Consensus 31 Lr~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmGi~ 97 (361)
=...|..|++.+|=+.++.+|.+.|.++++.|+.+|+..+..||.|+||.++...||.+++..+|..
T Consensus 21 p~apv~Ri~r~~~~~Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~~~~~~ 87 (91)
T COG2036 21 PKAPVRRILRKAGAERVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALKRLGRR 87 (91)
T ss_pred CchHHHHHHHHHhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHHHhccc
Confidence 3456888899999899999999999999999999999999999999999999999999999999876
No 14
>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=98.29 E-value=2.7e-06 Score=74.16 Aligned_cols=61 Identities=21% Similarity=0.387 Sum_probs=53.2
Q ss_pred HHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Q 018049 33 VAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLED 93 (361)
Q Consensus 33 ~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~d 93 (361)
++|.+||++.|.+..++.+...|.|.+.+|..++...|+.||+||||+.++..||.+|..-
T Consensus 16 ~~i~~iL~~~Gv~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~~~DVrLAi~~ 76 (129)
T PF02291_consen 16 RVIHLILKSMGVTEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTIDADDVRLAIQS 76 (129)
T ss_dssp HHHHHHHHHTT---B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHHHH
T ss_pred HHHHHHHHHcCCcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHH
Confidence 6789999999999999999999999999999999999999999999999999999999984
No 15
>smart00417 H4 Histone H4.
Probab=98.25 E-value=1.4e-06 Score=69.08 Aligned_cols=68 Identities=18% Similarity=0.248 Sum_probs=62.6
Q ss_pred chHHHHHHHHHHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHH
Q 018049 23 GDDFSQAIAKVAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQG 90 (361)
Q Consensus 23 ~def~r~lLr~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~A 90 (361)
..|....+...+|..|++..|-..++..+.+.|.+++..|+.++++.+..||+|++|.+++..||.+|
T Consensus 7 ~~d~i~gI~k~~IrRLaRr~GvkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~~a 74 (74)
T smart00417 7 LRDNIQGITKPAIRRLARRGGVKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVVYA 74 (74)
T ss_pred HHhhhcCCCHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHheeC
Confidence 34556668889999999999999999999999999999999999999999999999999999999753
No 16
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=98.14 E-value=1e-05 Score=64.49 Aligned_cols=66 Identities=17% Similarity=0.204 Sum_probs=55.9
Q ss_pred HHHHHHHHHHHHHHhCCc---ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Q 018049 28 QAIAKVAVAQICERVGFQ---TFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLED 93 (361)
Q Consensus 28 r~lLr~aVAqIL~~~GF~---sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~d 93 (361)
.+-|.-.|++||++.+=. .+++.++..|++++-.|+.+++..+..||.||||+.++..||.+..+.
T Consensus 4 Kaal~~~v~ki~ee~~~~~~~~~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~~dDV~Ll~Rr 72 (76)
T PF15630_consen 4 KAALWYTVGKIVEEEAKEKGVEVSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTINMDDVKLLARR 72 (76)
T ss_dssp HHHHHHHHHHHHHHCCCCTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHTTT
T ss_pred HHHHHHHHHHHHHHHHhccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHHHhhc
Confidence 456778899999998522 389999999999999999999999999999999999999999987653
No 17
>KOG3334 consensus Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=98.05 E-value=5.1e-05 Score=66.92 Aligned_cols=62 Identities=21% Similarity=0.347 Sum_probs=59.6
Q ss_pred HHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHc
Q 018049 33 VAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDL 94 (361)
Q Consensus 33 ~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dm 94 (361)
++|++||++.|.+-.++-....|.|...+|...+...+.-|++||+++.+...||.+|..-.
T Consensus 17 ~~i~~iL~s~GI~eyEprVi~qlLefa~rYtt~vL~DA~vys~HA~ka~i~~eDVrlA~~~~ 78 (148)
T KOG3334|consen 17 RVIASILKSLGIQEYEPRVINQLLEFAYRYTTTVLDDAKVYSSHAKKATIDAEDVRLAIQMR 78 (148)
T ss_pred HHHHHHHHHcCccccChHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCcHHHHHHHHHHH
Confidence 67899999999999999999999999999999999999999999999999999999998853
No 18
>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=97.79 E-value=0.00016 Score=56.22 Aligned_cols=61 Identities=21% Similarity=0.208 Sum_probs=51.2
Q ss_pred HHHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Q 018049 32 KVAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLE 92 (361)
Q Consensus 32 r~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~ 92 (361)
..+|-.+.++.|+...+..+...|.+-+..-|.+|.+.+..|+.|++|+..+..||..||+
T Consensus 6 ~esvk~iAes~Gi~~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di~~ALr 66 (66)
T PF02969_consen 6 QESVKDIAESLGISNLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLTTDDINSALR 66 (66)
T ss_dssp HHHHHHHHHHTT---B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHH-
T ss_pred HHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHhC
Confidence 3567788999999999999999999999999999999999999999999999999999985
No 19
>cd07981 TAF12 TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of the seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs function such as serving as activator-bind
Probab=97.37 E-value=0.0015 Score=51.37 Aligned_cols=51 Identities=20% Similarity=0.120 Sum_probs=48.5
Q ss_pred CCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Q 018049 43 GFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLED 93 (361)
Q Consensus 43 GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~d 93 (361)
+-..+++.|.+.|.+++..|+.+++..+..+|.|+||.++...||.++|+.
T Consensus 16 ~~~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r 66 (72)
T cd07981 16 PREQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLER 66 (72)
T ss_pred CCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 346799999999999999999999999999999999999999999999987
No 20
>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=97.31 E-value=0.0011 Score=66.27 Aligned_cols=69 Identities=19% Similarity=0.230 Sum_probs=64.3
Q ss_pred HHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCCC--CCCC
Q 018049 33 VAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLGLD--QGFS 101 (361)
Q Consensus 33 ~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmGi~--~gf~ 101 (361)
..|-.|++++|.+..+..|...|.+.++.++.+|++.|..+|.|++|+..+..||.+||+..++. .||.
T Consensus 3 ~~i~~ia~~~Gi~~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~~~n~eplyG~~ 73 (343)
T cd08050 3 ESIKLIAESLGIDSLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALRLRNVEPLYGFS 73 (343)
T ss_pred hHHHHHHHHcCCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHHhCCCcccCCC
Confidence 35778899999999999999999999999999999999999999999999999999999999998 4543
No 21
>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=97.30 E-value=0.0013 Score=51.17 Aligned_cols=61 Identities=16% Similarity=0.076 Sum_probs=53.5
Q ss_pred HHHHHHHHHHhCCc-ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Q 018049 32 KVAVAQICERVGFQ-TFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLE 92 (361)
Q Consensus 32 r~aVAqIL~~~GF~-sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~ 92 (361)
.+++-.+....+.+ .++..|++.|..+++.|+.+|...+..+|.+++|.+.++.||..|++
T Consensus 12 ~r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r 73 (75)
T PF00125_consen 12 SRLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLAVR 73 (75)
T ss_dssp HHHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHH
T ss_pred eeeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHHHh
Confidence 34455555666665 89999999999999999999999999999999999999999999986
No 22
>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=96.92 E-value=0.0049 Score=46.93 Aligned_cols=57 Identities=21% Similarity=0.208 Sum_probs=49.6
Q ss_pred HHHHHHHh-CCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHH
Q 018049 35 VAQICERV-GFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGL 91 (361)
Q Consensus 35 VAqIL~~~-GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL 91 (361)
|-.|++.. +...++..|.+.++..++.|+..|+..+...|+..+|.+.+..||..|+
T Consensus 8 vkri~k~~~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~~rkti~~~Dv~~Av 65 (65)
T PF00808_consen 8 VKRIMKSDPDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTITYEDVAKAV 65 (65)
T ss_dssp HHHHHHHTSTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE-HHHHHHHH
T ss_pred HHHHhccCCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHC
Confidence 45566666 6777999999999999999999999999999999999999999999885
No 23
>COG5094 TAF9 Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=96.83 E-value=0.0037 Score=54.15 Aligned_cols=61 Identities=23% Similarity=0.296 Sum_probs=56.8
Q ss_pred HHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCH---HHHHHHHHH
Q 018049 33 VAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNV---FDIFQGLED 93 (361)
Q Consensus 33 ~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~---~DV~~AL~d 93 (361)
+.|..||.+.|.+.+++..--.|.+.+.+|-+++...+.-||+|+||+.... .||.+|+.-
T Consensus 18 rlihliL~Slgi~~ye~~VplQLl~FAhRYTq~vl~Dalvya~htgrg~~a~l~veDvrLA~at 81 (145)
T COG5094 18 RLIHLILRSLGIEEYEPKVPLQLLEFAHRYTQDVLEDALVYAKHTGRGHIATLGVEDVRLALAT 81 (145)
T ss_pred hHHHHHHHhcCchhhCccchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCcccHHHHHHHHHH
Confidence 5678899999999999999999999999999999999999999999999887 999988874
No 24
>smart00428 H3 Histone H3.
Probab=96.19 E-value=0.035 Score=47.03 Aligned_cols=53 Identities=25% Similarity=0.160 Sum_probs=48.4
Q ss_pred CCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCC
Q 018049 43 GFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLGL 96 (361)
Q Consensus 43 GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmGi 96 (361)
+| .++.+|++.|.+.++.|+.++...+...|.||+|.+....|+.+|.+--|.
T Consensus 51 ~~-R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi~La~rir~~ 103 (105)
T smart00428 51 DL-RFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQLARRIRGE 103 (105)
T ss_pred Cc-eeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhHHHHHHHhcc
Confidence 45 689999999999999999999999999999999999999999998865443
No 25
>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=96.07 E-value=0.034 Score=45.91 Aligned_cols=65 Identities=22% Similarity=0.131 Sum_probs=55.7
Q ss_pred HHHHHHHHHHhCCc-ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCCC
Q 018049 32 KVAVAQICERVGFQ-TFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLGLD 97 (361)
Q Consensus 32 r~aVAqIL~~~GF~-sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmGi~ 97 (361)
..-|.+|+-..|=. .-.+.....|-+++..||.+|+..|...|. ++|..+.+.|+..+|+.--..
T Consensus 5 ~~ei~~mmy~~GD~~~P~~eTv~llE~iv~~~i~~l~~~a~~~A~-~r~~k~~~eD~~FliR~D~~K 70 (92)
T cd07978 5 TKEIRQMMYGFGDVQNPLPETVDLLEDIVVEYIIELCHKAAEVAQ-RRRGKVKVEDLIFLLRKDPKK 70 (92)
T ss_pred HHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHHHhcCHHH
Confidence 45578899888865 456788999999999999999999999999 899999999999999864443
No 26
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T.
Probab=95.96 E-value=0.018 Score=59.25 Aligned_cols=59 Identities=19% Similarity=0.272 Sum_probs=43.1
Q ss_pred HHHHHHHHHHHHHHhCC--cccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHH
Q 018049 28 QAIAKVAVAQICERVGF--QTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFD 86 (361)
Q Consensus 28 r~lLr~aVAqIL~~~GF--~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~D 86 (361)
..+.++.+...++..|| .-++..||+.|...+..|+++||..+..||.||||.++...|
T Consensus 354 ~~~vK~la~~~ak~s~~sK~kiskdal~aleqasdwfFeQl~dDL~aYA~HAgRKTIdesD 414 (414)
T PF15511_consen 354 PGVVKKLAQHFAKSSGGSKMKISKDALEALEQASDWFFEQLGDDLEAYAKHAGRKTIDESD 414 (414)
T ss_dssp HHHHHHHHHHHH-------S-B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHH
T ss_pred ccHHHHHHHHHHHhhcccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCCCC
Confidence 34555555666665444 478999999999999999999999999999999999998876
No 27
>KOG3423 consensus Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=95.88 E-value=0.038 Score=50.22 Aligned_cols=66 Identities=14% Similarity=0.233 Sum_probs=59.7
Q ss_pred HHHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcC--------------CCCCCHHHHHHHHHHcCCC
Q 018049 32 KVAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSG--------------RAEGNVFDIFQGLEDLGLD 97 (361)
Q Consensus 32 r~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~Ag--------------RT~p~~~DV~~AL~dmGi~ 97 (361)
..++...|..+||.+..+.....+.-.++.||.+|+..+.+||..-+ +...+..|+.-||+++||+
T Consensus 89 Davt~~yL~~aGf~~~D~rv~RLvsLaAQKfvSDIa~DA~Q~~k~r~~~~~~~~k~~~kdkK~tLtmeDL~~AL~EyGin 168 (176)
T KOG3423|consen 89 DAVTDHYLKKAGFQTSDPRVKRLVSLAAQKFVSDIANDALQHSKIRTKTAIGKDKKQAKDKKYTLTMEDLSPALAEYGIN 168 (176)
T ss_pred HHHHHHHHHhcCCCcCcHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccccccccccceeeeHHHHHHHHHHhCcc
Confidence 45788999999999999999999999999999999999999998865 3456789999999999999
No 28
>PF02269 TFIID-18kDa: Transcription initiation factor IID, 18kD subunit; InterPro: IPR003195 This family includes the Spt3 yeast transcription factors and the 18 kDa subunit from human transcription initiation factor IID (TFIID-18). Determination of the crystal structure reveals an atypical histone fold [].; GO: 0006366 transcription from RNA polymerase II promoter; PDB: 1BH9_A 1BH8_A.
Probab=95.44 E-value=0.016 Score=47.77 Aligned_cols=63 Identities=19% Similarity=0.111 Sum_probs=30.9
Q ss_pred HHHHHHHhCC-cccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCCC
Q 018049 35 VAQICERVGF-QTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLGLD 97 (361)
Q Consensus 35 VAqIL~~~GF-~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmGi~ 97 (361)
|.+|+-..|= ..-.+.....+.+++..||.+|+..|..+|...||..+.+.|+..+|+.-...
T Consensus 7 I~~mMy~fGD~~~P~~eTv~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR~D~~K 70 (93)
T PF02269_consen 7 IRQMMYGFGDVEEPLPETVDLVEDIVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLRKDPKK 70 (93)
T ss_dssp CHHHHHCTTS-SS--HHHHHHHHHHHHHHHHHHHHHHHC-------------------------
T ss_pred HHHHHHHcCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHhcCHHH
Confidence 5677777775 35667888999999999999999999999999999999999999999975444
No 29
>KOG2549 consensus Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=95.22 E-value=0.079 Score=56.05 Aligned_cols=65 Identities=22% Similarity=0.205 Sum_probs=60.7
Q ss_pred HHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCCC
Q 018049 33 VAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLGLD 97 (361)
Q Consensus 33 ~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmGi~ 97 (361)
..+--+.++.|..+....|...|++-+..-|.+|++.+..|+.|+-|+..+..||..||+-.++.
T Consensus 15 Es~k~vAEslGi~nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~ALr~~nVe 79 (576)
T KOG2549|consen 15 ESVKVVAESLGITNLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYALRSLNVE 79 (576)
T ss_pred HHHHHHHHHhCccccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHHHhhcccc
Confidence 44556778899999999999999999999999999999999999999999999999999998887
No 30
>PLN00161 histone H3; Provisional
Probab=94.96 E-value=0.096 Score=46.20 Aligned_cols=54 Identities=17% Similarity=0.065 Sum_probs=49.6
Q ss_pred CCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCCC
Q 018049 43 GFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLGLD 97 (361)
Q Consensus 43 GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmGi~ 97 (361)
+| .++.+||..|.+..+.||-.+...+...|.||+|.+....|+.++.+--|..
T Consensus 76 ~~-Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm~La~rirg~~ 129 (135)
T PLN00161 76 PF-RWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDMQLARRIRGPI 129 (135)
T ss_pred Cc-EeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhHHHHHHhcccc
Confidence 45 5889999999999999999999999999999999999999999998766665
No 31
>PLN00160 histone H3; Provisional
Probab=94.62 E-value=0.13 Score=43.03 Aligned_cols=50 Identities=20% Similarity=0.057 Sum_probs=46.4
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcC
Q 018049 46 TFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLG 95 (361)
Q Consensus 46 sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmG 95 (361)
.++.+|++.|.+..+.||-.+...+...|.||+|.+..+.|+.++.+--|
T Consensus 44 Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~~L~~rirg 93 (97)
T PLN00160 44 RWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDMQLARRIRG 93 (97)
T ss_pred EeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhHHHHHHhhc
Confidence 68899999999999999999999999999999999999999998876444
No 32
>KOG0870 consensus DNA polymerase epsilon, subunit D [Transcription]
Probab=94.40 E-value=0.16 Score=46.17 Aligned_cols=73 Identities=15% Similarity=0.151 Sum_probs=64.8
Q ss_pred hHHHHHHHHHHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCCC
Q 018049 24 DDFSQAIAKVAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLGLD 97 (361)
Q Consensus 24 def~r~lLr~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmGi~ 97 (361)
..+-.+++.+.|-..|... =-+++..|+..|..-+.=|+..|...+..+|.-+.|..++..||..||.+|+..
T Consensus 9 l~lP~AiI~rlvke~l~E~-~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~Eiefs 81 (172)
T KOG0870|consen 9 LNLPNAIITRLVKEVLPES-NVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALDEIEFS 81 (172)
T ss_pred hhccHHHHHHHHHHhCccc-cccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHHHhchH
Confidence 3456677888888888765 346899999999999999999999999999999999999999999999999988
No 33
>PF03540 TFIID_30kDa: Transcription initiation factor TFIID 23-30kDa subunit; InterPro: IPR003923 Transcription initiation factor TFIID is a multimeric protein complex that plays a central role in mediating promoter responses to various activators and repressors. The complex includes TATA binding protein (TBP) and various TBP-associated factors (TAFS). TFIID a bona fide RNA polymerase II-specific TATA-binding protein-associated factor (TAF) and is essential for viability []. TFIID acts to nucleate the transcription complex, recruiting the rest of the factors through a direct interaction with TFIIB. The TBP subunit of TFIID is sufficient for TATA-element binding and TFIIB interaction, and can support basal transcription. The protein belongs to the TAF2H family.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus
Probab=94.21 E-value=0.21 Score=37.14 Aligned_cols=44 Identities=23% Similarity=0.293 Sum_probs=40.5
Q ss_pred HHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 018049 33 VAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANL 76 (361)
Q Consensus 33 ~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~ 76 (361)
.++..+|+.+||++..+.....+.-.++.||.+++..+.+|+.+
T Consensus 6 ~v~~~yL~~~G~~~~D~rv~RLvSLaaQKFisdI~~dA~q~~k~ 49 (51)
T PF03540_consen 6 EVTDYYLERSGFQTSDPRVKRLVSLAAQKFISDIANDAMQYCKI 49 (51)
T ss_pred HHHHHHHHHCCCCCCCHhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 56788999999999999999999999999999999999999865
No 34
>PLN00121 histone H3; Provisional
Probab=94.18 E-value=0.24 Score=43.79 Aligned_cols=52 Identities=25% Similarity=0.166 Sum_probs=47.9
Q ss_pred CCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcC
Q 018049 43 GFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLG 95 (361)
Q Consensus 43 GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmG 95 (361)
+| .++.+||+.|.+..+.||-.+...+...|.|+.|.+....|+.++.+--|
T Consensus 82 ~~-Rf~~~Al~ALQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~rirg 133 (136)
T PLN00121 82 DL-RFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRG 133 (136)
T ss_pred cc-eeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcceecchhhHHHHHHhcc
Confidence 56 78999999999999999999999999999999999999999998876444
No 35
>PTZ00018 histone H3; Provisional
Probab=94.16 E-value=0.18 Score=44.65 Aligned_cols=53 Identities=25% Similarity=0.145 Sum_probs=48.3
Q ss_pred CCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCC
Q 018049 43 GFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLGL 96 (361)
Q Consensus 43 GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmGi 96 (361)
+| .++.+||+.|.+..+.||-.+...+...|.||.|.+....|+.++.+--|.
T Consensus 82 ~~-rf~~~al~aLQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~rirg~ 134 (136)
T PTZ00018 82 DL-RFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGE 134 (136)
T ss_pred cc-eeeHHHHHHHHHHHHHHHHHHhhhhHHHHHhhcceecchhhHHHHHHhccc
Confidence 56 789999999999999999999999999999999999999999988764443
No 36
>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=93.61 E-value=0.24 Score=42.62 Aligned_cols=58 Identities=10% Similarity=-0.079 Sum_probs=52.2
Q ss_pred HHHHHH-hCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Q 018049 36 AQICER-VGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLED 93 (361)
Q Consensus 36 AqIL~~-~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~d 93 (361)
-.+|+. .+...++.+|.-.|+.+++.+..+|...+..+|.+.+|..+++.||.+|++.
T Consensus 27 ~R~Lk~~~~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi~n 85 (115)
T cd00074 27 HRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAVRN 85 (115)
T ss_pred HHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHHhc
Confidence 445555 6778999999999999999999999999999999999999999999988873
No 37
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=92.19 E-value=0.62 Score=46.66 Aligned_cols=70 Identities=23% Similarity=0.259 Sum_probs=62.5
Q ss_pred HHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCCC--CCCCC
Q 018049 33 VAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLGLD--QGFSG 102 (361)
Q Consensus 33 ~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmGi~--~gf~g 102 (361)
..|-.+.++.|...+...++..|.-=++--|.++++.+..|+-|+.||..+..||..||+-+++. +||.+
T Consensus 9 et~KdvAeslGi~Ni~Dd~l~alamDlEYRI~ev~qea~KFmvhSKRtvLt~dDis~ALr~lNVePLyGyd~ 80 (450)
T COG5095 9 ETLKDVAESLGISNIDDDALRALAMDLEYRIKEVCQEASKFMVHSKRTVLTIDDISYALRSLNVEPLYGYDP 80 (450)
T ss_pred HHHHHHHHHcCCcccccHHHHHHHHhHHHHHHHHHHHHHHHhhcccceeeeHHhHHHHHHhcCCCcccCCCC
Confidence 34556677889999999999999988999999999999999999999999999999999999998 45544
No 38
>KOG0869 consensus CCAAT-binding factor, subunit A (HAP3) [Transcription]
Probab=91.53 E-value=0.82 Score=41.39 Aligned_cols=76 Identities=16% Similarity=0.152 Sum_probs=60.9
Q ss_pred CchHHHHHHHHHHHHHHHHHhC--CcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCCC
Q 018049 22 SGDDFSQAIAKVAVAQICERVG--FQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLGLD 97 (361)
Q Consensus 22 ~~def~r~lLr~aVAqIL~~~G--F~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmGi~ 97 (361)
+..+.-|-+==.-|+.|++..= =--++..|-|++.+.+-+||.=+...|..-|+.-.|.++|-.||..||..+|+.
T Consensus 25 ~~reqDr~LPIANV~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~tLGFe 102 (168)
T KOG0869|consen 25 SLREQDRFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMSTLGFE 102 (168)
T ss_pred ccchhhhhccHHHHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHHHcCcH
Confidence 3444444333344666666421 224778999999999999999999999999999999999999999999999998
No 39
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=89.97 E-value=1.2 Score=43.16 Aligned_cols=56 Identities=20% Similarity=0.188 Sum_probs=50.5
Q ss_pred hCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH-cCCC
Q 018049 42 VGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLED-LGLD 97 (361)
Q Consensus 42 ~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~d-mGi~ 97 (361)
.|=....+.+-|.|.+|+..|+.+|...+..+|-|-.-..+-+.||.+.|+. ++|.
T Consensus 168 d~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhLEr~~Nm~ 224 (258)
T KOG1142|consen 168 DGTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHLERNFNME 224 (258)
T ss_pred cCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeeeecccccc
Confidence 5566788899999999999999999999999999988888999999999987 5666
No 40
>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=89.29 E-value=1.4 Score=34.48 Aligned_cols=49 Identities=18% Similarity=0.138 Sum_probs=41.1
Q ss_pred cccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Q 018049 45 QTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLED 93 (361)
Q Consensus 45 ~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~d 93 (361)
....+.+-+.|.+++..|+.++...+...|-|-+=.++.+.||.+.|+.
T Consensus 16 ~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~tle~~Dv~~~Ler 64 (68)
T PF03847_consen 16 EKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSSTLEVKDVQLHLER 64 (68)
T ss_dssp ----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHHh
Confidence 3577899999999999999999999999999988888999999999986
No 41
>COG5162 Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=88.36 E-value=1.1 Score=40.83 Aligned_cols=44 Identities=20% Similarity=0.308 Sum_probs=39.0
Q ss_pred HHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 018049 33 VAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANL 76 (361)
Q Consensus 33 ~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~ 76 (361)
.++--.|...||.++.+..-..|.-+++.|+.+|+..+..|..+
T Consensus 92 ~v~DYyl~k~Gf~~~D~rvKkLl~L~aqKFvsDiA~dayqYsrI 135 (197)
T COG5162 92 SVTDYYLEKAGFVTSDQRVKKLLSLLAQKFVSDIAVDAYQYSRI 135 (197)
T ss_pred HHHHHHHHhcCceeccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666789999999999998999999999999999999999765
No 42
>KOG3901 consensus Transcription initiation factor IID subunit [Transcription]
Probab=86.54 E-value=2 Score=36.49 Aligned_cols=68 Identities=18% Similarity=0.146 Sum_probs=50.6
Q ss_pred HHHHHHHHHHHHHHHhCCc-ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCCC
Q 018049 27 SQAIAKVAVAQICERVGFQ-TFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLGLD 97 (361)
Q Consensus 27 ~r~lLr~aVAqIL~~~GF~-sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmGi~ 97 (361)
...+..+-+..|+-..|=+ .--+..++.|.+++..||.++.+.+ .+.+.|...-+.|+..+|+.--..
T Consensus 7 rk~lF~Kdl~~mmYgfGDd~nP~~~tv~~Le~iV~~Yi~elt~~a---~~~g~rgk~~veD~~f~lRkDpkK 75 (109)
T KOG3901|consen 7 RKHLFSKDLRSMMYGFGDDVNPYPETVDLLEDIVLEYITELTHAA---MEIGKRGKVKVEDFKFLLRKDPKK 75 (109)
T ss_pred HHHHHHHHHHHHHHhcCCCCCccHhHHHHHHHHHHHHHHHHHHHH---HHhcccCceeHHHHHHHHHhChHH
Confidence 4456667777777655533 2235678999999999999995544 555689999999999999985554
No 43
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=85.81 E-value=2.4 Score=38.06 Aligned_cols=67 Identities=19% Similarity=0.278 Sum_probs=57.5
Q ss_pred HHHHHHHHHHHHH-HhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCCC
Q 018049 28 QAIAKVAVAQICE-RVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLGLD 97 (361)
Q Consensus 28 r~lLr~aVAqIL~-~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmGi~ 97 (361)
++-+.+.|.-||- .+ .+...|-|.|.+....||..|...+...|+--.+.++.+..|..||+.+|.+
T Consensus 15 kAtv~KmIke~lP~d~---rvakeareliincCvEFI~liSsEAneic~~e~KKTIa~EHV~KALe~LgF~ 82 (156)
T KOG0871|consen 15 KATVNKMIKEMLPKDV---RVAKEARELIINCCVEFINLISSEANEICNKEAKKTIAPEHVIKALENLGFG 82 (156)
T ss_pred HHHHHHHHHHhCCccc---ccchHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcccCCHHHHHHHHHHcchH
Confidence 3455566666665 22 4566899999999999999999999999999999999999999999999998
No 44
>COG5248 TAF19 Transcription initiation factor TFIID, subunit TAF13 [Transcription]
Probab=82.31 E-value=3.9 Score=35.05 Aligned_cols=66 Identities=12% Similarity=0.039 Sum_probs=53.4
Q ss_pred HHHHHHHHHHHHhCCcc-cchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCCC
Q 018049 30 IAKVAVAQICERVGFQT-FQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLGLD 97 (361)
Q Consensus 30 lLr~aVAqIL~~~GF~s-as~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmGi~ 97 (361)
+..+-|..++-..|=.. --....+.|-+++..||..++..++..|. .|...-..|+..||++--+.
T Consensus 10 LF~KDikslmYayGDvv~P~~dt~~~L~e~V~dY~~~~ctna~~~Aq--~rnK~k~eDfkfaLr~DpkK 76 (126)
T COG5248 10 LFMKDIKSLMYAYGDVVAPRYDTAEALHEYVLDYMSILCTNAHNMAQ--VRNKTKTEDFKFALRRDPKK 76 (126)
T ss_pred HHHHHHHHHHHHhCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHH--hcccchHHHHHHHHhhChHH
Confidence 44566777777777442 23467788999999999999999999988 78888899999999986666
No 45
>PLN00154 histone H2A; Provisional
Probab=80.96 E-value=4.5 Score=35.84 Aligned_cols=57 Identities=9% Similarity=-0.175 Sum_probs=48.5
Q ss_pred HHHHHHhC-C-cccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Q 018049 36 AQICERVG-F-QTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLE 92 (361)
Q Consensus 36 AqIL~~~G-F-~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~ 92 (361)
..+|+.-. + ..+...|.--|+.+++....+|..-+-.+|.-.+++.+++.+|.+|.+
T Consensus 45 ~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lAIr 103 (136)
T PLN00154 45 HRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 103 (136)
T ss_pred HHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhhcc
Confidence 34577655 3 489999999999999888889999999999999999999999988776
No 46
>KOG1745 consensus Histones H3 and H4 [Chromatin structure and dynamics]
Probab=77.36 E-value=1.4 Score=39.03 Aligned_cols=50 Identities=26% Similarity=0.198 Sum_probs=45.7
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcC
Q 018049 46 TFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLG 95 (361)
Q Consensus 46 sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmG 95 (361)
.++..|+.+|.+..+.||-.|-..+...|-||.|.++-+.|+.+|.+-.|
T Consensus 85 rfqs~Ai~ALQeA~EayLv~LfEdtnlcAihAkRVTimpkdiQlArrirg 134 (137)
T KOG1745|consen 85 RFQSSAIAALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRG 134 (137)
T ss_pred eehHHHHHHHHHHHHHHHHHhccccchhhhccceeEecccceehhhhccc
Confidence 46678999999999999999999999999999999999999999887554
No 47
>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=73.44 E-value=11 Score=35.27 Aligned_cols=58 Identities=5% Similarity=-0.002 Sum_probs=50.6
Q ss_pred CCchHHHHHHHHHHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Q 018049 21 FSGDDFSQAIAKVAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSG 78 (361)
Q Consensus 21 ~~~def~r~lLr~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~Ag 78 (361)
....-|-...|..-|.+|+...|+..+++..++.|...++.||.+|...+...|+|-.
T Consensus 40 ~~~~fl~~~~l~~~~~~i~~~~g~~~~~~d~~~lis~a~e~rlr~li~k~~~~s~hR~ 97 (212)
T cd08045 40 KDPSFLNPSPLAKKIRKIAKKHGLKEVDEDVLDLISLALEERLRNLLEKLIEVSEHRV 97 (212)
T ss_pred chhhccCHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 3334455668889999999999999999999999999999999999999999999843
No 48
>smart00427 H2B Histone H2B.
Probab=73.43 E-value=26 Score=29.01 Aligned_cols=49 Identities=8% Similarity=0.096 Sum_probs=44.9
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHc
Q 018049 46 TFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDL 94 (361)
Q Consensus 46 sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dm 94 (361)
+++..|+..+..++...++.|+..+...+....|.+.+..+|..|.+.+
T Consensus 19 giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~TltsreIqtAvrl~ 67 (89)
T smart00427 19 GISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLSSREIQTAVRLI 67 (89)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHHH
Confidence 4677899999999999999999999999999999999999999998864
No 49
>KOG1744 consensus Histone H2B [Chromatin structure and dynamics]
Probab=72.82 E-value=11 Score=33.18 Aligned_cols=58 Identities=16% Similarity=0.227 Sum_probs=49.4
Q ss_pred HHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHc
Q 018049 34 AVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDL 94 (361)
Q Consensus 34 aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dm 94 (361)
+.-|++-..| ++..|+..+...+-..++.|+..+.++|..-+|...+..++..|++.+
T Consensus 46 vlk~Vhpd~g---is~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta~rLl 103 (127)
T KOG1744|consen 46 VLKQVHPDLG---ISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTAVRLL 103 (127)
T ss_pred hhhcccCCCC---cCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHHHHHh
Confidence 4455555555 777888888888888899999999999999999999999999999875
No 50
>PTZ00463 histone H2B; Provisional
Probab=72.33 E-value=25 Score=30.52 Aligned_cols=49 Identities=8% Similarity=0.123 Sum_probs=44.7
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHc
Q 018049 46 TFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDL 94 (361)
Q Consensus 46 sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dm 94 (361)
+++..|+..+...+...++.|+..+...|....|.+.+..||..|.+.+
T Consensus 46 gIS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAvrLl 94 (117)
T PTZ00463 46 GISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAIRLV 94 (117)
T ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHhhc
Confidence 4678899999999999999999999999999999999999999998753
No 51
>PLN00158 histone H2B; Provisional
Probab=68.88 E-value=36 Score=29.49 Aligned_cols=67 Identities=9% Similarity=0.089 Sum_probs=53.1
Q ss_pred CCchHHHHHHHHHHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHc
Q 018049 21 FSGDDFSQAIAKVAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDL 94 (361)
Q Consensus 21 ~~~def~r~lLr~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dm 94 (361)
.+..-|...+| -|+.-..| ++..|+..+..++...++.|+..+...+....|.+.+..+|..|.+.+
T Consensus 27 esy~~YI~kVL----KQVhPd~g---IS~kaM~ImnSfvnDiferIA~EAs~La~~nkr~TltsrEIqtAvrLv 93 (116)
T PLN00158 27 ETYKIYIYKVL----KQVHPDTG---ISSKAMSIMNSFINDIFEKIATEAGKLARYNKKPTVTSREIQTAVRLI 93 (116)
T ss_pred ccHHHHHHHHH----HHhCCCCC---ccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHHh
Confidence 34444444444 45555555 467899999999999999999999999999999999999999998754
No 52
>PF13654 AAA_32: AAA domain; PDB: 3K1J_B.
Probab=68.18 E-value=37 Score=36.14 Aligned_cols=68 Identities=22% Similarity=0.421 Sum_probs=55.0
Q ss_pred HHHHHHHHHHHHHHHHHhCCcccchhHHHHHHHHHHH-----------HHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Q 018049 25 DFSQAIAKVAVAQICERVGFQTFQQSALGKLADIAVR-----------YINSVGKAANFYANLSGRAEGNVFDIFQGLED 93 (361)
Q Consensus 25 ef~r~lLr~aVAqIL~~~GF~sas~sALe~Ltdl~~~-----------YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~d 93 (361)
+-.+. +-..|+.+|+..|.-..+.+|+..|.+...+ .|.+|.+.|..||...+...++..||..|++.
T Consensus 427 e~~~~-~~~~i~~~~~~~~L~~~~~~Av~~li~~~~R~~q~kLsl~~~~l~~ll~EA~~~A~~~~~~~I~~~~V~~Ai~~ 505 (509)
T PF13654_consen 427 ENIRQ-YARFIASICQKEGLPPFDRSAVARLIEYSARLDQDKLSLRFSWLADLLREANYWARKEGAKVITAEHVEQAIEE 505 (509)
T ss_dssp HHHHH-HHHHHHHHHHHHSS--BBHHHHHHHHHHHHHCC-SEEE--HHHHHHHHHHHHHHHHHCT-SSB-HHHHHHHHHH
T ss_pred HHHHH-HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHhCCEeCCCHHHHHHHHHHHHHHHHHhCCCccCHHHHHHHHHc
Confidence 33443 3478899999999999999999999887665 58899999999999999999999999999986
No 53
>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=61.42 E-value=35 Score=31.83 Aligned_cols=65 Identities=15% Similarity=0.174 Sum_probs=52.7
Q ss_pred HHHHHHHHHHHhCC---cccchhHHHHHHHHHHH---HHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcC
Q 018049 31 AKVAVAQICERVGF---QTFQQSALGKLADIAVR---YINSVGKAANFYANLSGRAEGNVFDIFQGLEDLG 95 (361)
Q Consensus 31 Lr~aVAqIL~~~GF---~sas~sALe~Ltdl~~~---YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmG 95 (361)
++..+...+...|+ ..+++.+++.|.++..- +|+.++..+-..|-..+-..++..||..++.++.
T Consensus 197 ~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~~~~a~~~~~~~i~~~~v~~~~~~~~ 267 (269)
T TIGR03015 197 TREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRLLLSAFLEEKREIGGEEVREVIAEID 267 (269)
T ss_pred HHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhh
Confidence 44556667777786 35788999999988765 8899999998888888889999999999998764
No 54
>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=61.36 E-value=16 Score=35.30 Aligned_cols=56 Identities=9% Similarity=0.131 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCC
Q 018049 27 SQAIAKVAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEG 82 (361)
Q Consensus 27 ~r~lLr~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p 82 (361)
-...|..-|..|+...|-..+.+..++.|...++.||.+|...+...|.|-..+..
T Consensus 45 ~~~~L~~~i~~i~~~~g~~~~~~d~l~llS~A~e~rLr~lie~~~~~s~hR~~~~~ 100 (264)
T PF05236_consen 45 NPSPLQKRIQKIAKKHGLKSVDEDVLELLSLATEERLRNLIEKAIVLSRHRRDSSK 100 (264)
T ss_dssp -HHHHHHHHHHHHHCTT--EE-TCHHHHHHHHHHHHHHHHHHHHH-----------
T ss_pred CHHHHHHHHHHHHHHcCCcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccC
Confidence 34588888999999999888999999999999999999999999999998555543
No 55
>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=60.13 E-value=57 Score=26.55 Aligned_cols=65 Identities=17% Similarity=0.183 Sum_probs=50.6
Q ss_pred HHHHHHHHHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCC--CCC-CHHHHHHHHHHc
Q 018049 26 FSQAIAKVAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGR--AEG-NVFDIFQGLEDL 94 (361)
Q Consensus 26 f~r~lLr~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgR--T~p-~~~DV~~AL~dm 94 (361)
|....+++.|.+++. +++++.....|..+..-|+.+|...|....+.-+. +.| .+.+|..|++.+
T Consensus 17 f~k~~iKr~~~~~~~----~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~HireA~rrl 84 (85)
T cd08048 17 FPKAAIKRLIQSVTG----QSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHLREAYRRL 84 (85)
T ss_pred ccHHHHHHHHHHHcC----CCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHHHHHHHHh
Confidence 344455565555544 78899999999999999999999999999988777 344 478888888765
No 56
>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=54.55 E-value=32 Score=27.12 Aligned_cols=58 Identities=17% Similarity=0.112 Sum_probs=46.9
Q ss_pred HHHHHHHHHhCCc----ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCC-CCHHHHHHHH
Q 018049 33 VAVAQICERVGFQ----TFQQSALGKLADIAVRYINSVGKAANFYANLSGRAE-GNVFDIFQGL 91 (361)
Q Consensus 33 ~aVAqIL~~~GF~----sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~-p~~~DV~~AL 91 (361)
..|+.||+ ..|. .++..|+..+++.+.-|+.+-...+..-++..|.+. ....|+...+
T Consensus 3 ~li~rll~-~~f~~~~tkIs~dal~l~~eyl~iFV~EAv~Ra~~~a~~e~~~~~le~e~LEki~ 65 (72)
T PF09415_consen 3 ELIARLLH-EHFKDDKTKISKDALKLSAEYLRIFVREAVARAAEQAEAEGDEGFLEVEHLEKIL 65 (72)
T ss_dssp HHHHHHHC-TTSSSTT-EE-CCCHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSEE-HHHHHHHC
T ss_pred HHHHHHHH-HHhcCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence 35788888 7775 688899999999999999999999999999999888 8888887654
No 57
>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=53.70 E-value=45 Score=29.45 Aligned_cols=67 Identities=18% Similarity=0.257 Sum_probs=58.5
Q ss_pred HHHHHHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCCC
Q 018049 29 AIAKVAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLGLD 97 (361)
Q Consensus 29 ~lLr~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmGi~ 97 (361)
+-.+..|..||-. . -.+...|-+.|.+....||.-|...+...|+--...++.+..|+.||++++..
T Consensus 15 ATVqKMvS~iLp~-d-l~ftKearei~in~cieFi~~lsseAne~ce~EaKKTIa~EHviKALenLef~ 81 (148)
T COG5150 15 ATVQKMVSSILPK-D-LVFTKEAREIFINACIEFINMLSSEANEACEEEAKKTIAYEHVIKALENLEFE 81 (148)
T ss_pred HHHHHHHHHhccc-c-ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHhccHH
Confidence 5566778888763 2 23567899999999999999999999999999999999999999999999988
No 58
>PTZ00017 histone H2A; Provisional
Probab=52.48 E-value=56 Score=29.01 Aligned_cols=48 Identities=15% Similarity=-0.053 Sum_probs=43.7
Q ss_pred cccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Q 018049 45 QTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLE 92 (361)
Q Consensus 45 ~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~ 92 (361)
..+...|.--|+-+++....+|...+-.+|.-.+++.+++.+|.+|.+
T Consensus 44 ~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~RItPrHi~lAI~ 91 (134)
T PTZ00017 44 KRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLAIR 91 (134)
T ss_pred ccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHhhcc
Confidence 378888999999999999999999999999999999999999988876
No 59
>PLN00157 histone H2A; Provisional
Probab=50.89 E-value=71 Score=28.28 Aligned_cols=49 Identities=14% Similarity=-0.097 Sum_probs=42.7
Q ss_pred CcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Q 018049 44 FQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLE 92 (361)
Q Consensus 44 F~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~ 92 (361)
..++...|.--|+.+++....+|...+-..|.-.+++.+++.++.+|..
T Consensus 42 a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~ 90 (132)
T PLN00157 42 ATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRIVPRHIQLAVR 90 (132)
T ss_pred hhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHhhccc
Confidence 3477888888999999888889999999999999999999999987765
No 60
>PLN00163 histone H4; Provisional
Probab=49.56 E-value=9.4 Score=29.21 Aligned_cols=41 Identities=17% Similarity=0.200 Sum_probs=32.2
Q ss_pred CCCCCchHHHHHHHHHHHHHHHHHhCCcccchhHHHHHHHH
Q 018049 18 KRKFSGDDFSQAIAKVAVAQICERVGFQTFQQSALGKLADI 58 (361)
Q Consensus 18 ~~~~~~def~r~lLr~aVAqIL~~~GF~sas~sALe~Ltdl 58 (361)
+-+....|....|.+-+|..+....|...++....|...++
T Consensus 18 Rhrk~lrd~i~gItKpaIrRLARRgGVKRIs~~iY~e~R~v 58 (59)
T PLN00163 18 RHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRTV 58 (59)
T ss_pred hHHHHHHHhhcccchHHHHHHHHhcCceeecchhhHhHhcc
Confidence 33455666777899999999999999999998877776554
No 61
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=49.05 E-value=93 Score=30.89 Aligned_cols=50 Identities=18% Similarity=0.197 Sum_probs=43.7
Q ss_pred ccchhHHHHHHHHH------HHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcC
Q 018049 46 TFQQSALGKLADIA------VRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLG 95 (361)
Q Consensus 46 sas~sALe~Ltdl~------~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmG 95 (361)
.++..+++.+...+ .+++.+++..+..+|...++..++..||..|+..+.
T Consensus 228 ~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~~~I~~~~v~~a~~~~~ 283 (394)
T PRK00411 228 VVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRKVTEEDVRKAYEKSE 283 (394)
T ss_pred CCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHHH
Confidence 57889999999988 667778888888899988999999999999999874
No 62
>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=46.88 E-value=1.1e+02 Score=33.44 Aligned_cols=63 Identities=21% Similarity=0.184 Sum_probs=51.6
Q ss_pred HHHHHHHHHHhC-CcccchhHHHHHHHHHH-------------HHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHc
Q 018049 32 KVAVAQICERVG-FQTFQQSALGKLADIAV-------------RYINSVGKAANFYANLSGRAEGNVFDIFQGLEDL 94 (361)
Q Consensus 32 r~aVAqIL~~~G-F~sas~sALe~Ltdl~~-------------~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dm 94 (361)
-..|++.|+..| +...+.+|++.|.+-.. +.|..|.+.+..+|...+...++..||..|++..
T Consensus 315 ~~~i~~~~~r~G~l~~~s~~Av~~Li~~~~R~ag~r~~lsl~~R~L~~llR~A~~iA~~~~~~~I~~ehV~~Ai~~~ 391 (608)
T TIGR00764 315 VQFVAQEVKKDGRIPHFTRDAVEEIVREAQRRAGRKDHLTLRLRELGGLVRAAGDIAKSSGKVYVTAEHVLKAKKLA 391 (608)
T ss_pred HHHHHHHHHHhCCCCcCCHHHHHHHHHHHHHHHhcccccCCCHHHHHHHHHHHHHHHHhcCCceecHHHHHHHHHHH
Confidence 457777777774 77889999999976544 6688888888888888899999999999998864
No 63
>PLN00153 histone H2A; Provisional
Probab=45.62 E-value=1e+02 Score=27.21 Aligned_cols=56 Identities=13% Similarity=-0.078 Sum_probs=45.2
Q ss_pred HHHHHhC-CcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Q 018049 37 QICERVG-FQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLE 92 (361)
Q Consensus 37 qIL~~~G-F~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~ 92 (361)
..|+.-. ..++...|.--|+.+++....+|...+-..|.-.+++.+++.++.+|..
T Consensus 32 R~Lr~g~~a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~ 88 (129)
T PLN00153 32 RYLKKGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVPRHIQLAIR 88 (129)
T ss_pred HHHhcCchhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccChHHHHhhcc
Confidence 3444433 3477888889999999888889999999999999999999999887765
No 64
>PLN00156 histone H2AX; Provisional
Probab=45.05 E-value=54 Score=29.25 Aligned_cols=56 Identities=11% Similarity=-0.063 Sum_probs=45.3
Q ss_pred HHHHHhCC-cccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Q 018049 37 QICERVGF-QTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLE 92 (361)
Q Consensus 37 qIL~~~GF-~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~ 92 (361)
..|+.-.| .++...|.--|+.+++.-..+|...+-..|.-.+++.+++.++.+|.+
T Consensus 37 R~Lk~g~ya~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi~lAIr 93 (139)
T PLN00156 37 RFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
T ss_pred HHHhcCChhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHhhcc
Confidence 44554333 377888888999998888888988888889999999999999988775
No 65
>smart00414 H2A Histone 2A.
Probab=43.91 E-value=66 Score=27.26 Aligned_cols=49 Identities=12% Similarity=-0.080 Sum_probs=43.8
Q ss_pred CcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Q 018049 44 FQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLE 92 (361)
Q Consensus 44 F~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~ 92 (361)
..+++.+|.--|+.+++....+|...+-.+|.-.++...++.|+..|..
T Consensus 25 ~~Rv~~~A~VyLaAvLEYLtaEILeLagn~a~~~k~~rItp~hi~lAi~ 73 (106)
T smart00414 25 AKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIR 73 (106)
T ss_pred ccccccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchHHHhhhcc
Confidence 3478888999999999999999999999999999999999999988766
No 66
>PRK06585 holA DNA polymerase III subunit delta; Reviewed
Probab=37.49 E-value=1.4e+02 Score=29.28 Aligned_cols=66 Identities=11% Similarity=-0.013 Sum_probs=51.9
Q ss_pred HHHHHHHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcC-CCCCCHHHHHHHHHHc
Q 018049 28 QAIAKVAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSG-RAEGNVFDIFQGLEDL 94 (361)
Q Consensus 28 r~lLr~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~Ag-RT~p~~~DV~~AL~dm 94 (361)
..-+...|.+.|+..|.. +++.|++.|.+.+..=+..+.......+..++ ...++..||...+...
T Consensus 144 ~~~l~~~i~~~~~~~g~~-i~~~a~~~L~~~~g~dl~~l~~EleKL~ly~~~~~~It~edV~~lv~~~ 210 (343)
T PRK06585 144 ERDLARLIDDELAEAGLR-ITPDARALLVALLGGDRLASRNEIEKLALYAHGKGEITLDDVRAVVGDA 210 (343)
T ss_pred HHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHhCCc
Confidence 345567789999999999 79999999999998877777777777776654 4678899987766543
No 67
>PF13335 Mg_chelatase_2: Magnesium chelatase, subunit ChlI
Probab=34.41 E-value=1.5e+02 Score=24.37 Aligned_cols=46 Identities=20% Similarity=0.167 Sum_probs=36.6
Q ss_pred cchhHHHHHHHHHHHH------HHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Q 018049 47 FQQSALGKLADIAVRY------INSVGKAANFYANLSGRAEGNVFDIFQGLE 92 (361)
Q Consensus 47 as~sALe~Ltdl~~~Y------I~~L~~~a~~yAe~AgRT~p~~~DV~~AL~ 92 (361)
.++.+...|..++..+ +..|.+-+...|.+.+...+...||..||.
T Consensus 43 l~~~~~~~l~~~~~~~~lS~R~~~rilrvARTIADL~~~~~I~~~hi~EAl~ 94 (96)
T PF13335_consen 43 LSSEAKKLLEQAAEKLNLSARGYHRILRVARTIADLEGSERITREHIAEALS 94 (96)
T ss_pred CCHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHhHcCCCCCCHHHHHHHHh
Confidence 4455666666665544 668888999999999999999999999885
No 68
>KOG2389 consensus Predicted bromodomain transcription factor [Transcription]
Probab=32.74 E-value=29 Score=35.23 Aligned_cols=291 Identities=13% Similarity=0.061 Sum_probs=145.8
Q ss_pred HHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCCC-CCCCC----Cccch
Q 018049 33 VAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLGLD-QGFSG----ASDIN 107 (361)
Q Consensus 33 ~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmGi~-~gf~g----as~~~ 107 (361)
.+++.+.-+.+++++.-+++... =+..|--.+..|-+..||+-..+.-+ .|-. ..|.. ..+..
T Consensus 28 ~sla~~avaQIcqslg~~~~~~s------ale~Ltd~~~qyvQ~lgk~a~~~~n~------anR~epnl~Div~Al~dls 95 (353)
T KOG2389|consen 28 FSLARVAVAQICQSLGYSSTQNS------ALETLTDVLQQYVQNLGKTAHRYSNL------ANRTEPNLFDIVLALQDLS 95 (353)
T ss_pred HHHHHHHHHHHHHhcCCcccccH------HHHHHHHHHHHHHHHHHhhhhhhhhh------cCCCCccHHHHHHHHHHhh
Confidence 45566666666666665555444 34555566677888888877765431 1111 11100 00111
Q ss_pred ----hhcccchhhHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCcccCCCCC--CCCCCCC-CCCCCCCCCCCcccCC-
Q 018049 108 ----HCLASSGIVRELIQYANEATDVPFAYAIPHFPVVKDRKPKSSFLQIGEE--PPIEDIP-AWLPAFPDPQTYFESP- 179 (361)
Q Consensus 108 ----~~l~~S~~l~eL~~yv~~~~~ipf~~~lP~fPv~k~~~~~psfl~~Ge~--~~p~hIP-~~LP~FP~~HTY~~TP- 179 (361)
-|...+ .-..|.+-.--.+-+-|.--.+.-|.. ++.|.|...+.. +-+++.- .-.| |+.|-...+|
T Consensus 96 ~s~~~~~~~~-~s~~L~ds~v~rdii~~~g~~eevpF~---~~lP~Fp~s~s~~k~~l~~~~~g~~p--p~~~Ip~wLP~ 169 (353)
T KOG2389|consen 96 ASLGASGSSG-ESHCLLDSKVLRDIIIFNGKAEEVPFK---DDLPRFPVSKSVNKPFLKFGSVGAEP--PGESIPIWLPP 169 (353)
T ss_pred hhcccccccc-hhHHHhhhhhHHHHHhhccccccCCCC---CCCCccccccccccCCCCccccCCCC--CCccccccCCC
Confidence 111111 112333311111112221112222232 236777766552 2222210 1123 6777777777
Q ss_pred CCCCCCCCh---HHHHHHHHHHHhHHHHHHHHHHHHHhcCCCCccccCCcccccccccCCCCccCCCCccccccccccCC
Q 018049 180 SQNERASDS---YTEKIELGKQQRKMEMSMVNLQRQFSESGPSSFVHGDSSKEKKTVESNPFLSAPLHFEEKEVSSVVLP 256 (361)
Q Consensus 180 i~~e~~tD~---~~iRe~~a~q~R~aE~AL~~L~~~~~~~~~~~~~~~~~~~~~~~~~~npf~~~~~~~~ek~vs~v~~~ 256 (361)
.+++...-. +..........+.-|++-.-+-.++.. ..++ ...+...|-=...|.|-- +.+...+.+
T Consensus 170 ~fp~~~~~~~s~e~~~~~~~~~~~~~~~~s~~~~~~ls~------~~~~---r~~v~k~~~~~~~~~~~s-~g~~~~~~~ 239 (353)
T KOG2389|consen 170 AFPDLEGCSKSPEGNVTVPKPEGRPPEKASLELRASLSE------DSGG---RLQVKKDSEEKEKPEWTS-KGPKKLTRA 239 (353)
T ss_pred CCCCcccCCCCccccccccCcccCchhhhhhhhhhhhhh------hccc---cchhhhhhhhhcCccccc-CCChhhhcc
Confidence 666543322 333334444566666665444444443 1111 122223331112223322 222222222
Q ss_pred hhhhhHHhhhccccccccc---ccccchhhhchhHHHHhhccccchhhhhhhcccCCCCCeeeeeecCcccccccCCCCc
Q 018049 257 AKLSKEVALQNPVAKKHVV---DNHISVMETFAPALEAMKNRFCESREEQKNIQLDQRPPVQFKIGVGKKSLVKPLKSSP 333 (361)
Q Consensus 257 ~~~~~~~~~~~~~~~~~~~---~~~~s~~e~fapa~~~~~~~~~~~~~~~~~~~~~~~~~v~~k~~~~k~~~~~~~~~~~ 333 (361)
. +....|....--+. .-.++|-.++.||.+.+...+.-+. .+.+-+..|.|--+..|.|+..+.+.....
T Consensus 240 ~----~~~~~~vs~~~kV~~~~~~~~~i~t~~~Pa~~~~~p~l~~~a---~~e~~~~k~v~~~t~d~ek~~~~~~~~~l~ 312 (353)
T KOG2389|consen 240 E----EIRDQLVSAKSKVVLLNRVGAPIQTTLPPAQQPATPILVPQA---SMEPATNKPVVGATVDIEKAPFLLAEPALL 312 (353)
T ss_pred h----hcccccccccccccccccCCceeeccCCCcccCCcccccccc---ccccccCcccccchhhhhhchhhcccchhh
Confidence 2 22233322211111 4578899999999999996665555 456778899999999999999999999999
Q ss_pred cCCCCCCCCCcccccccchhhhhccc
Q 018049 334 QNMDGGKIDPWFCKENENDERKGDLK 359 (361)
Q Consensus 334 ~~~~~~~~~~~~~~~~~~d~~k~r~~ 359 (361)
+.+..+...+.- .....||+.+|++
T Consensus 313 ~~k~~~~~~s~~-~~~~~ed~~kr~k 337 (353)
T KOG2389|consen 313 VEKKTERQFSEG-PSSSREDQEKRPK 337 (353)
T ss_pred hhhhcccccccc-cccchhhhhcchh
Confidence 988766555554 4445577777764
No 69
>PRK07452 DNA polymerase III subunit delta; Validated
Probab=32.17 E-value=2.3e+02 Score=27.44 Aligned_cols=62 Identities=11% Similarity=0.040 Sum_probs=52.3
Q ss_pred HHHHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHc--CCCCCCHHHHHHHHHH
Q 018049 31 AKVAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLS--GRAEGNVFDIFQGLED 93 (361)
Q Consensus 31 Lr~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~A--gRT~p~~~DV~~AL~d 93 (361)
+..-|.+.++..|.. +++.|++.|.+.+..=+..+...+...+..+ .+..++..||......
T Consensus 135 l~~~i~~~~~~~g~~-i~~~a~~~L~~~~g~dl~~l~~EleKL~ly~~~~~~~It~~~V~~~v~~ 198 (326)
T PRK07452 135 LKQLVERTAQELGVK-LTPEAAELLAEAVGNDSRRLYNELEKLALYAENSTKPISAEEVKALVSN 198 (326)
T ss_pred HHHHHHHHHHHcCCC-CCHHHHHHHHHHhCccHHHHHHHHHHHHHhccCCCCccCHHHHHHHhcc
Confidence 667788999999999 8899999999999988888888888888774 3667899999876654
No 70
>PRK09087 hypothetical protein; Validated
Probab=29.39 E-value=3.9e+02 Score=24.97 Aligned_cols=64 Identities=8% Similarity=-0.038 Sum_probs=47.8
Q ss_pred HHHHHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHH---HHHHHHHHcCCCCCCHHHHHHHHHHcC
Q 018049 30 IAKVAVAQICERVGFQTFQQSALGKLADIAVRYINSVGK---AANFYANLSGRAEGNVFDIFQGLEDLG 95 (361)
Q Consensus 30 lLr~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~---~a~~yAe~AgRT~p~~~DV~~AL~dmG 95 (361)
.+..++-+.++..|+. +++.+++.|..-+.+=+..+-. ....++...+|. ++...+..+|++++
T Consensus 157 ~~~~iL~~~~~~~~~~-l~~ev~~~La~~~~r~~~~l~~~l~~L~~~~~~~~~~-it~~~~~~~l~~~~ 223 (226)
T PRK09087 157 LLSQVIFKLFADRQLY-VDPHVVYYLVSRMERSLFAAQTIVDRLDRLALERKSR-ITRALAAEVLNEMG 223 (226)
T ss_pred HHHHHHHHHHHHcCCC-CCHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhCCC-CCHHHHHHHHHhhc
Confidence 4445556666677886 7889999999888887777775 555666666665 78889999998764
No 71
>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=28.38 E-value=1.7e+02 Score=27.99 Aligned_cols=44 Identities=11% Similarity=-0.023 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHH
Q 018049 29 AIAKVAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANF 72 (361)
Q Consensus 29 ~lLr~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~ 72 (361)
..|+.=+-.+|...|.+.++..|.+.|.-.++.||.+|...+-.
T Consensus 206 ~~L~~Rm~~ia~e~GL~gvs~~~a~ll~~ale~~LK~lI~s~l~ 249 (252)
T PF12767_consen 206 QSLRKRMEQIAWEHGLGGVSDDCANLLNLALEVHLKNLIKSCLD 249 (252)
T ss_pred HHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 35666678899999999999999999999999999999988754
No 72
>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=27.35 E-value=3.6e+02 Score=26.29 Aligned_cols=52 Identities=15% Similarity=0.095 Sum_probs=42.1
Q ss_pred ccchhHHHHHHHHHH------HHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCCC
Q 018049 46 TFQQSALGKLADIAV------RYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLGLD 97 (361)
Q Consensus 46 sas~sALe~Ltdl~~------~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmGi~ 97 (361)
.+...+++.+.+++. ++..++++.+..+|...++..++..||..|+..+..+
T Consensus 220 ~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~~a~~~~~~~it~~~v~~a~~~~~~~ 277 (365)
T TIGR02928 220 VLDDGVIPLCAALAAQEHGDARKAIDLLRVAGEIAEREGAERVTEDHVEKAQEKIEKD 277 (365)
T ss_pred CCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHH
Confidence 367788888877763 6777888888888888889999999999999887443
No 73
>PRK05574 holA DNA polymerase III subunit delta; Reviewed
Probab=27.13 E-value=2.6e+02 Score=26.98 Aligned_cols=64 Identities=17% Similarity=0.104 Sum_probs=50.2
Q ss_pred HHHHHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHc
Q 018049 30 IAKVAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDL 94 (361)
Q Consensus 30 lLr~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dm 94 (361)
-+...|.+.|+..|.. +++.|++.|.+.+..=+..+-..+...+..++=...+..||...+-..
T Consensus 150 ~~~~~i~~~~~~~g~~-i~~~a~~~L~~~~~~d~~~l~~El~KL~l~~~~~~It~~~I~~~i~~~ 213 (340)
T PRK05574 150 ELPQWIQQRLKQQGLQ-IDAAALQLLAERVEGNLLALAQELEKLALLYPDGKITLEDVEEAVPDS 213 (340)
T ss_pred HHHHHHHHHHHHcCCC-CCHHHHHHHHHHhCchHHHHHHHHHHHHhhcCCCCCCHHHHHHHHhhh
Confidence 4556788999999998 788999999999887777777777777777643338999988776653
No 74
>PRK05907 hypothetical protein; Provisional
Probab=26.07 E-value=1.8e+02 Score=28.90 Aligned_cols=64 Identities=8% Similarity=-0.073 Sum_probs=53.2
Q ss_pred HHHHHHHHHHHHHhCCcccchhHHHHHHHHH-HHHHHHHHHHHHHHHHHcC-CCCCCHHHHHHHHHH
Q 018049 29 AIAKVAVAQICERVGFQTFQQSALGKLADIA-VRYINSVGKAANFYANLSG-RAEGNVFDIFQGLED 93 (361)
Q Consensus 29 ~lLr~aVAqIL~~~GF~sas~sALe~Ltdl~-~~YI~~L~~~a~~yAe~Ag-RT~p~~~DV~~AL~d 93 (361)
.-|..-|.+.++..|.. +++.|++.|.+.+ ..-|..+.......+..+| +..++..||.....+
T Consensus 137 ~~L~~Wi~~~~~~~g~~-i~~~a~~~L~~~~~~~nL~~l~~EleKL~ly~g~~~~It~e~V~~lv~~ 202 (311)
T PRK05907 137 KRIAQLLIQRAKELGIS-CSLGLASLFVSKFPQTGLFEILSEFQKLLCQMGKKESLEASDIQSFVVK 202 (311)
T ss_pred HHHHHHHHHHHHHcCCC-cCHHHHHHHHHHccCCCHHHHHHHHHHHHHhcCCCCeECHHHHHHHhcC
Confidence 45678889999999998 7889999999988 5888899999988888855 777888888776554
No 75
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=25.67 E-value=1.9e+02 Score=30.29 Aligned_cols=70 Identities=20% Similarity=0.238 Sum_probs=57.2
Q ss_pred hHHHHHHHHHHHHHHHHHhCCcccchhHHHHHHHH----HHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHc
Q 018049 24 DDFSQAIAKVAVAQICERVGFQTFQQSALGKLADI----AVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDL 94 (361)
Q Consensus 24 def~r~lLr~aVAqIL~~~GF~sas~sALe~Ltdl----~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dm 94 (361)
.-|.+.-++.+|..=++..+.. .+.+|||.|+++ -.+|-.+|..-+...|...|+..+...||..|.+.+
T Consensus 359 ~py~~~EireIi~iRa~ee~i~-l~~~Ale~L~~ig~etSLRYa~qLL~pa~iiA~~rg~~~V~~~dVe~a~~lF 432 (450)
T COG1224 359 RPYSREEIREIIRIRAKEEDIE-LSDDALEYLTDIGEETSLRYAVQLLTPASIIAKRRGSKRVEVEDVERAKELF 432 (450)
T ss_pred CCCCHHHHHHHHHHhhhhhccc-cCHHHHHHHHhhchhhhHHHHHHhccHHHHHHHHhCCCeeehhHHHHHHHHH
Confidence 3445555666666777888888 577899999987 568999999999999999999999999999998864
No 76
>TIGR02442 Cob-chelat-sub cobaltochelatase subunit. A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.
Probab=25.41 E-value=3.8e+02 Score=29.21 Aligned_cols=50 Identities=18% Similarity=0.245 Sum_probs=40.5
Q ss_pred cccchhHHHHHHHHHHHH-------HHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHc
Q 018049 45 QTFQQSALGKLADIAVRY-------INSVGKAANFYANLSGRAEGNVFDIFQGLEDL 94 (361)
Q Consensus 45 ~sas~sALe~Ltdl~~~Y-------I~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dm 94 (361)
-.++..+++.|.+++..+ ...+.+.++.+|-+.||+.++..||..|++..
T Consensus 248 V~is~~~~~~l~~~~~~~~i~s~Ra~i~~~r~Ara~AaL~gr~~V~~~Dv~~A~~lv 304 (633)
T TIGR02442 248 VRISDSLIRFISELCIEFGVDGHRADIVMARAARALAALDGRRRVTAEDVREAAELV 304 (633)
T ss_pred CCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHHH
Confidence 345777888888887665 24577889999999999999999999888763
No 77
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=24.75 E-value=2.1e+02 Score=29.10 Aligned_cols=48 Identities=23% Similarity=0.204 Sum_probs=36.6
Q ss_pred ccchhHHHHHHHHHHHH-------HHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Q 018049 46 TFQQSALGKLADIAVRY-------INSVGKAANFYANLSGRAEGNVFDIFQGLED 93 (361)
Q Consensus 46 sas~sALe~Ltdl~~~Y-------I~~L~~~a~~yAe~AgRT~p~~~DV~~AL~d 93 (361)
.++...++.+++++... -.-+.+.++.+|-+.||..++..||..+...
T Consensus 267 ~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~pdDv~~~a~~ 321 (350)
T CHL00081 267 EIDYDLRVKISQICSELDVDGLRGDIVTNRAAKALAAFEGRTEVTPKDIFKVITL 321 (350)
T ss_pred ccCHHHHHHHHHHHHHHCCCCChHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 35666667676666553 2357788999999999999999999877654
No 78
>COG1067 LonB Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]
Probab=24.63 E-value=4.2e+02 Score=29.33 Aligned_cols=77 Identities=17% Similarity=0.141 Sum_probs=60.5
Q ss_pred CCchHHHHHHHHHHHHHHHHHhCCcccchhHHHHHHHHHHHH-------------HHHHHHHHHHHHHHcCCCCCCHHHH
Q 018049 21 FSGDDFSQAIAKVAVAQICERVGFQTFQQSALGKLADIAVRY-------------INSVGKAANFYANLSGRAEGNVFDI 87 (361)
Q Consensus 21 ~~~def~r~lLr~aVAqIL~~~GF~sas~sALe~Ltdl~~~Y-------------I~~L~~~a~~yAe~AgRT~p~~~DV 87 (361)
+-.++-...+++..+-.+++..+--.++.+|++.|...+.++ |-+|.+.+...|...|+.-.+..||
T Consensus 313 ~~~~~nr~k~~~~~~q~v~~d~~ip~~~~~Av~~li~~a~R~Ag~~~~Ltl~~rdl~~lv~~A~~ia~~~~~~~I~ae~V 392 (647)
T COG1067 313 PITDANRSKLVQFYVQELARDGNIPHLDKDAVEELIREAARRAGDQNKLTLRLRDLGNLVREAGDIAVSEGRKLITAEDV 392 (647)
T ss_pred CCChHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhccccceeccCHHHHHHHHHHhhHHHhcCCcccCcHHHH
Confidence 345666777776666666776577788999999998888776 6677788888888889999999999
Q ss_pred HHHHHHcCCC
Q 018049 88 FQGLEDLGLD 97 (361)
Q Consensus 88 ~~AL~dmGi~ 97 (361)
..|+...-..
T Consensus 393 e~a~~~~~~~ 402 (647)
T COG1067 393 EEALQKRELR 402 (647)
T ss_pred HHHHHhhhhH
Confidence 9999974333
No 79
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=24.43 E-value=4.1e+02 Score=26.00 Aligned_cols=66 Identities=17% Similarity=0.162 Sum_probs=49.9
Q ss_pred HHHHHHHHHHHhCCcccchhHHHHHHHHHH---HHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCCC
Q 018049 31 AKVAVAQICERVGFQTFQQSALGKLADIAV---RYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLGLD 97 (361)
Q Consensus 31 Lr~aVAqIL~~~GF~sas~sALe~Ltdl~~---~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmGi~ 97 (361)
+..++...+...|.. +++.+++.|..... +.+..++..+..|+...+...++..++..++..+++.
T Consensus 185 ~~~il~~~~~~~~~~-~~~~~~~~ia~~~~G~pR~a~~~l~~~~~~a~~~~~~~I~~~~v~~~l~~~~~~ 253 (328)
T PRK00080 185 LEKIVKRSARILGVE-IDEEGALEIARRSRGTPRIANRLLRRVRDFAQVKGDGVITKEIADKALDMLGVD 253 (328)
T ss_pred HHHHHHHHHHHcCCC-cCHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhCCC
Confidence 444555666666777 67888988887763 4567777777788877777789999999999998777
No 80
>TIGR01128 holA DNA polymerase III, delta subunit. subunit around DNA forming a DNA sliding clamp.
Probab=23.16 E-value=3.7e+02 Score=25.36 Aligned_cols=66 Identities=11% Similarity=0.125 Sum_probs=48.3
Q ss_pred HHHHHHHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHc
Q 018049 28 QAIAKVAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDL 94 (361)
Q Consensus 28 r~lLr~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dm 94 (361)
..-+...|.++++..|.+ +++.|++.|.+.+..=+..+...+...+..++-...+..||...+...
T Consensus 113 ~~~~~~~i~~~~~~~g~~-i~~~a~~~l~~~~~~d~~~l~~el~KL~~~~~~~~It~e~I~~~~~~~ 178 (302)
T TIGR01128 113 EQELPRWIQARLKKLGLR-IDPDAVQLLAELVEGNLLAIAQELEKLALYAPDGKITLEDVEEAVSDS 178 (302)
T ss_pred HHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHhCcHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHhhh
Confidence 445667789999999998 788999999888876566665556555555544468888888777643
No 81
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]
Probab=22.93 E-value=2.3e+02 Score=24.81 Aligned_cols=58 Identities=10% Similarity=-0.103 Sum_probs=46.5
Q ss_pred HHHHHH-HhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Q 018049 35 VAQICE-RVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLE 92 (361)
Q Consensus 35 VAqIL~-~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~ 92 (361)
|-.+|+ ..+-..+...|.-.|+-++.-.+.+|..-+..-|.--+-+.+++..+.+|.+
T Consensus 32 vkr~lk~~~~~~Rig~~A~Vyl~AvleYL~aEilelAgNaA~d~kkkri~PrHlqlAIr 90 (132)
T COG5262 32 VKRLLKKGNYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIPRHLQLAIR 90 (132)
T ss_pred HHHHHHcCccceeecCCcHHHHHHHHHHHHHHHHHHhhhhhhhcCcceechHHHHHHhc
Confidence 344566 3444578888998999888888888888888888888999999999888876
No 82
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=22.86 E-value=2.6e+02 Score=26.82 Aligned_cols=64 Identities=17% Similarity=0.130 Sum_probs=47.5
Q ss_pred HHHHHHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcC
Q 018049 29 AIAKVAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLG 95 (361)
Q Consensus 29 ~lLr~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmG 95 (361)
.-+...+.++|...|.. +++.|++.|......-++.+...+..++. +...++..||..++.+..
T Consensus 187 ~~~~~~l~~~~~~~~~~-~~~~al~~l~~~~~gdlr~l~~~l~~~~~--~~~~It~~~v~~~~~~~~ 250 (337)
T PRK12402 187 DELVDVLESIAEAEGVD-YDDDGLELIAYYAGGDLRKAILTLQTAAL--AAGEITMEAAYEALGDVG 250 (337)
T ss_pred HHHHHHHHHHHHHcCCC-CCHHHHHHHHHHcCCCHHHHHHHHHHHHH--cCCCCCHHHHHHHhCCCC
Confidence 34566777888889987 78899999998887777777777776662 334688888877766543
No 83
>KOG1756 consensus Histone 2A [Chromatin structure and dynamics]
Probab=22.18 E-value=2.6e+02 Score=24.71 Aligned_cols=59 Identities=10% Similarity=-0.030 Sum_probs=43.7
Q ss_pred HHHHHHH-hCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Q 018049 35 VAQICER-VGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLED 93 (361)
Q Consensus 35 VAqIL~~-~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~d 93 (361)
|..+|+. ..-..+...|.-.|.-+++.-..+|...+-..|.-.+++.+++..+.+|+.+
T Consensus 33 i~r~Lr~~~~~~ri~~gapV~laavLeYL~Aeile~agnaardnkk~ri~PrH~~lAI~N 92 (131)
T KOG1756|consen 33 IHRLLRKGRYAQRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRITPRHLQLAIRN 92 (131)
T ss_pred HHHHHHccchhhhccCCChHHHHHHHHHHHHHHHHHhHHHhhhcCccccChHHHHHHHhC
Confidence 4555665 2223566667667776666666788888888899999999999999999873
No 84
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=21.74 E-value=4.5e+02 Score=24.98 Aligned_cols=66 Identities=17% Similarity=0.102 Sum_probs=47.1
Q ss_pred HHHHHHHHHHHhCCcccchhHHHHHHHHHHH---HHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCCC
Q 018049 31 AKVAVAQICERVGFQTFQQSALGKLADIAVR---YINSVGKAANFYANLSGRAEGNVFDIFQGLEDLGLD 97 (361)
Q Consensus 31 Lr~aVAqIL~~~GF~sas~sALe~Ltdl~~~---YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmGi~ 97 (361)
++.++...+...+.. +++.+++.|...... .+..++..+..+|...+....+..++..++..+++.
T Consensus 164 ~~~il~~~~~~~~~~-~~~~al~~ia~~~~G~pR~~~~ll~~~~~~a~~~~~~~it~~~v~~~l~~l~~~ 232 (305)
T TIGR00635 164 LAEIVSRSAGLLNVE-IEPEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRDIALKALEMLMID 232 (305)
T ss_pred HHHHHHHHHHHhCCC-cCHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHhCCC
Confidence 444445566666775 778899999887544 355666666677776676778999999999986555
No 85
>cd07648 F-BAR_FCHO The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of FCH domain Only proteins. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Proteins in this group have been named FCH domain Only (FCHO) proteins. Vertebrates have two members, FCHO1 and FCHO2. These proteins contain an F-BAR domain and a C-terminal domain of unknown function named SAFF which is also present in endophilin interacting protein 1. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation in the form of long tubules.
Probab=21.00 E-value=3.9e+02 Score=25.37 Aligned_cols=64 Identities=14% Similarity=0.235 Sum_probs=47.9
Q ss_pred CcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCC----HHHHHHHHHHcCCCCCCCCCccchhhcccchhhHHH
Q 018049 44 FQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGN----VFDIFQGLEDLGLDQGFSGASDINHCLASSGIVREL 119 (361)
Q Consensus 44 F~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~----~~DV~~AL~dmGi~~gf~gas~~~~~l~~S~~l~eL 119 (361)
|..--+.+++.|-++=...|..|-.....|+++-.-+.+. ..++..++..+.+. .+|
T Consensus 180 ~~~~m~~~~~~~Q~lEe~Ri~~~k~~l~~y~~~~~~~~~~~~~~~e~~~~~~~~id~~-------------------~Di 240 (261)
T cd07648 180 FETKMTDSCKRFQEIEESHLRQMKEFLASYAEVLSENHSAVGQVHEEFKRQVDELTVD-------------------KLL 240 (261)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHhCCHH-------------------HHH
Confidence 7777778888899999999999999999999997666663 34455555544444 788
Q ss_pred HHHHhhc
Q 018049 120 IQYANEA 126 (361)
Q Consensus 120 ~~yv~~~ 126 (361)
..|++..
T Consensus 241 ~~fv~~~ 247 (261)
T cd07648 241 RQFVESK 247 (261)
T ss_pred HHHHHcC
Confidence 8898753
No 86
>COG1466 HolA DNA polymerase III, delta subunit [DNA replication, recombination, and repair]
Probab=20.89 E-value=5.5e+02 Score=25.33 Aligned_cols=67 Identities=13% Similarity=0.110 Sum_probs=58.0
Q ss_pred HHHHHHHHHHHHhCCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCCC
Q 018049 30 IAKVAVAQICERVGFQTFQQSALGKLADIAVRYINSVGKAANFYANLSGRAEGNVFDIFQGLEDLGLD 97 (361)
Q Consensus 30 lLr~aVAqIL~~~GF~sas~sALe~Ltdl~~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dmGi~ 97 (361)
-+...|.+.+++.|-. +++.|++.|...+..=+..+.......+-.++-..++..||..+..+..-.
T Consensus 144 ~l~~~i~~~~~~~~l~-i~~~a~~~L~~~~~~nl~~i~~Ei~KL~l~~~~~~I~~~~V~~~v~~~~~~ 210 (334)
T COG1466 144 ELPQWIKKRAKELGLK-IDQEAIQLLLEALGGNLLAIAQEIEKLALYAGDKEITLEDVEEVVSDVAEF 210 (334)
T ss_pred HHHHHHHHHHHHcCCC-CCHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCCcCCHHHHHHHHhccccC
Confidence 4567889999999998 788999999999999999999999998888887799999999888775443
No 87
>TIGR02902 spore_lonB ATP-dependent protease LonB. Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.
Probab=20.39 E-value=3.6e+02 Score=28.76 Aligned_cols=61 Identities=23% Similarity=0.114 Sum_probs=41.6
Q ss_pred HHHHHHHHHHHhCCcccchhHHHHHHHHH--HHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Q 018049 31 AKVAVAQICERVGFQTFQQSALGKLADIA--VRYINSVGKAANFYANLSGRAEGNVFDIFQGLE 92 (361)
Q Consensus 31 Lr~aVAqIL~~~GF~sas~sALe~Ltdl~--~~YI~~L~~~a~~yAe~AgRT~p~~~DV~~AL~ 92 (361)
+...+-+.|+..|+. ++..|++.|..-. .+.+.++.+.+..+|...+|...+..||..++.
T Consensus 268 i~~Il~~~a~k~~i~-is~~al~~I~~y~~n~Rel~nll~~Aa~~A~~~~~~~It~~dI~~vl~ 330 (531)
T TIGR02902 268 IKEIAKNAAEKIGIN-LEKHALELIVKYASNGREAVNIVQLAAGIALGEGRKRILAEDIEWVAE 330 (531)
T ss_pred HHHHHHHHHHHcCCC-cCHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCcEEcHHHHHHHhC
Confidence 344455667778875 6778888765433 255666667776677767787888888877765
No 88
>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea.
Probab=20.10 E-value=5.3e+02 Score=27.97 Aligned_cols=49 Identities=24% Similarity=0.120 Sum_probs=38.2
Q ss_pred ccchhHHHHHHHHHHHH-------HHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHc
Q 018049 46 TFQQSALGKLADIAVRY-------INSVGKAANFYANLSGRAEGNVFDIFQGLEDL 94 (361)
Q Consensus 46 sas~sALe~Ltdl~~~Y-------I~~L~~~a~~yAe~AgRT~p~~~DV~~AL~dm 94 (361)
.++...++.|++++..+ -..+.+.++.+|-+.||+.++..||..+....
T Consensus 203 ~i~~~~~~~l~~~~~~~gv~s~Ra~i~~~r~ArA~Aal~gr~~V~~~Dv~~a~~lv 258 (589)
T TIGR02031 203 TISAEQVKELVLTAASLGISGHRADLFAVRAAKAHAALHGRTEVTEEDLKLAVELV 258 (589)
T ss_pred cCCHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Confidence 35666777777776554 23567889999999999999999999888763
Done!