Query psy7427
Match_columns 151
No_of_seqs 155 out of 492
Neff 3.8
Searched_HMMs 46136
Date Fri Aug 16 18:03:42 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7427.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7427hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00161 histone H3; Provision 100.0 1.2E-44 2.6E-49 281.4 5.5 90 35-136 30-123 (135)
2 PTZ00018 histone H3; Provision 100.0 4.2E-44 9.2E-49 278.5 5.4 90 35-136 37-129 (136)
3 PLN00121 histone H3; Provision 100.0 6.8E-44 1.5E-48 277.3 5.2 90 35-136 37-129 (136)
4 PLN00160 histone H3; Provision 100.0 2.2E-43 4.7E-48 261.3 4.9 85 40-136 1-89 (97)
5 smart00428 H3 Histone H3. 100.0 2.8E-43 6.1E-48 263.5 5.1 90 35-136 4-98 (105)
6 KOG1745|consensus 100.0 5.3E-43 1.1E-47 272.7 5.5 92 33-136 36-130 (137)
7 COG2036 HHT1 Histones H3 and H 99.8 4.2E-20 9.1E-25 135.7 3.6 78 42-136 1-81 (91)
8 PF00125 Histone: Core histone 99.6 4.1E-16 8.9E-21 106.3 2.8 67 58-136 6-72 (75)
9 cd07981 TAF12 TATA Binding Pro 99.1 1.2E-10 2.7E-15 81.0 3.3 62 64-141 8-72 (72)
10 smart00803 TAF TATA box bindin 97.2 0.00028 6.2E-09 48.6 2.8 46 78-135 18-63 (65)
11 cd07979 TAF9 TATA Binding Prot 97.1 0.00052 1.1E-08 52.0 3.3 61 63-136 3-63 (117)
12 cd00076 H4 Histone H4, one of 97.0 0.00054 1.2E-08 50.0 3.0 62 58-136 14-75 (85)
13 PF00808 CBFD_NFYB_HMF: Histon 97.0 0.001 2.2E-08 44.6 3.8 61 61-134 3-63 (65)
14 PLN00035 histone H4; Provision 96.9 0.00073 1.6E-08 51.1 3.0 62 58-136 30-91 (103)
15 PTZ00015 histone H4; Provision 96.6 0.002 4.4E-08 48.5 3.0 62 58-136 31-92 (102)
16 PF03847 TFIID_20kDa: Transcri 96.5 0.0017 3.8E-08 45.3 2.1 58 63-136 5-62 (68)
17 smart00417 H4 Histone H4. 96.5 0.0044 9.5E-08 44.3 4.0 60 58-134 14-73 (74)
18 KOG1142|consensus 96.4 0.0075 1.6E-07 52.0 5.5 67 64-146 161-230 (258)
19 smart00576 BTP Bromodomain tra 96.3 0.0029 6.2E-08 44.2 2.1 51 78-140 22-74 (77)
20 PF15630 CENP-S: Kinetochore c 96.2 0.0033 7.1E-08 44.9 2.3 58 65-136 13-70 (76)
21 PF15511 CENP-T: Centromere ki 95.7 0.0086 1.9E-07 53.6 2.9 50 64-113 354-408 (414)
22 PF02291 TFIID-31kDa: Transcri 95.6 0.01 2.3E-07 46.1 2.8 60 64-136 15-74 (129)
23 KOG0870|consensus 95.2 0.022 4.7E-07 46.7 3.6 59 63-135 16-74 (172)
24 PF02969 TAF: TATA box binding 93.5 0.065 1.4E-06 37.4 2.5 56 67-135 9-64 (66)
25 cd08050 TAF6 TATA Binding Prot 93.2 0.09 1.9E-06 45.9 3.4 67 66-145 4-70 (343)
26 PF07524 Bromo_TP: Bromodomain 90.3 0.23 5E-06 34.2 2.3 50 79-140 23-74 (77)
27 PF10911 DUF2717: Protein of u 81.6 1.6 3.4E-05 31.8 2.8 59 47-107 2-65 (77)
28 KOG3334|consensus 79.6 1.3 2.9E-05 35.7 2.0 60 64-136 16-75 (148)
29 cd00074 H2A Histone 2A; H2A is 75.1 3.1 6.7E-05 31.8 2.8 65 59-136 19-83 (115)
30 PF05236 TAF4: Transcription i 64.3 8.8 0.00019 32.1 3.6 52 61-113 47-98 (264)
31 PF02269 TFIID-18kDa: Transcri 62.6 8.4 0.00018 28.0 2.8 61 64-136 4-64 (93)
32 cd08045 TAF4 TATA Binding Prot 58.9 19 0.00041 29.3 4.5 52 61-113 48-99 (212)
33 COG5094 TAF9 Transcription ini 48.8 12 0.00026 30.0 1.8 44 84-136 36-79 (145)
34 PF12465 Pr_beta_C: Proteasome 37.2 14 0.00031 23.2 0.5 12 36-47 9-20 (38)
35 KOG3467|consensus 35.0 23 0.00049 26.9 1.3 42 82-135 49-90 (103)
36 KOG1658|consensus 32.0 53 0.0011 27.0 3.1 62 61-136 60-122 (162)
37 KOG2389|consensus 28.2 53 0.0012 29.9 2.7 57 67-136 35-91 (353)
38 KOG4336|consensus 24.7 48 0.0011 29.8 1.8 51 80-142 23-75 (323)
39 PHA00438 hypothetical protein 23.7 79 0.0017 23.3 2.5 56 50-107 5-65 (81)
40 PRK14562 haloacid dehalogenase 22.1 86 0.0019 25.7 2.7 25 76-100 71-95 (204)
No 1
>PLN00161 histone H3; Provisional
Probab=100.00 E-value=1.2e-44 Score=281.35 Aligned_cols=90 Identities=41% Similarity=0.591 Sum_probs=86.4
Q ss_pred ccccccCCCCchhhhhhhhhhhc---cccchhhHhHHhhhhccc-CccccchHHHHHHHHHHHHHHHhhhhchhhhhhcc
Q psy7427 35 RETQVYKAGTGPERDASHRWVQT---HRVTQVLSLVREIAQDFK-TDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHA 110 (151)
Q Consensus 35 ~k~~RykPGTvALREIR~~Qkst---~rklPFqRLVREIaq~~~-~~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHA 110 (151)
++++|||||||||||||+||++| |+++||+||||||++++. +++|||++||+|||||+|+|||+||||+||||+||
T Consensus 30 kk~~r~rpGtvaLrEIR~yQkst~lLIpklPF~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHA 109 (135)
T PLN00161 30 KKPHRYRPGTVALREIRKYQKSTELLIRKLPFARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHA 109 (135)
T ss_pred CCCccCCCcchHHHHHHHHccccccccccccHHHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 56789999999999999999999 688999999999999996 58999999999999999999999999999999999
Q ss_pred CcccCCccCCCCCCCCccccCcceee
Q psy7427 111 KRGYDASASVGSTKKPAMTPQMQMII 136 (151)
Q Consensus 111 KRV~~~~~~~~~~~~tl~~~dm~l~~ 136 (151)
||| |||++||+|+.
T Consensus 110 kRV------------Tlm~kDm~La~ 123 (135)
T PLN00161 110 KRV------------TIMPKDMQLAR 123 (135)
T ss_pred cCc------------ccchhhHHHHH
Confidence 999 99999999997
No 2
>PTZ00018 histone H3; Provisional
Probab=100.00 E-value=4.2e-44 Score=278.45 Aligned_cols=90 Identities=59% Similarity=0.778 Sum_probs=86.9
Q ss_pred ccccccCCCCchhhhhhhhhhhc---cccchhhHhHHhhhhcccCccccchHHHHHHHHHHHHHHHhhhhchhhhhhccC
Q psy7427 35 RETQVYKAGTGPERDASHRWVQT---HRVTQVLSLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAK 111 (151)
Q Consensus 35 ~k~~RykPGTvALREIR~~Qkst---~rklPFqRLVREIaq~~~~~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAK 111 (151)
++++||+|||+||||||+||+++ |+++||+||||||+++|.+++|||++||+|||||+|+|||+||||+|+||+|||
T Consensus 37 ~~~~r~rpGt~aLrEIr~yQkst~lLI~k~pF~RLVREI~~~~~~~~rf~~~al~aLQeaaE~yLv~lfed~~lca~Hak 116 (136)
T PTZ00018 37 KKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAK 116 (136)
T ss_pred CCCcccCCchhHHHHHHHHcccchhccccccHHHHHHHHHHHcCCcceeeHHHHHHHHHHHHHHHHHHhhhhHHHHHhhc
Confidence 45789999999999999999999 688999999999999999999999999999999999999999999999999999
Q ss_pred cccCCccCCCCCCCCccccCcceee
Q psy7427 112 RGYDASASVGSTKKPAMTPQMQMII 136 (151)
Q Consensus 112 RV~~~~~~~~~~~~tl~~~dm~l~~ 136 (151)
|| |||++||+|+.
T Consensus 117 RV------------Tl~~kD~~L~~ 129 (136)
T PTZ00018 117 RV------------TIMPKDIQLAR 129 (136)
T ss_pred ce------------ecchhhHHHHH
Confidence 99 99999999986
No 3
>PLN00121 histone H3; Provisional
Probab=100.00 E-value=6.8e-44 Score=277.28 Aligned_cols=90 Identities=59% Similarity=0.778 Sum_probs=86.9
Q ss_pred ccccccCCCCchhhhhhhhhhhc---cccchhhHhHHhhhhcccCccccchHHHHHHHHHHHHHHHhhhhchhhhhhccC
Q psy7427 35 RETQVYKAGTGPERDASHRWVQT---HRVTQVLSLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAK 111 (151)
Q Consensus 35 ~k~~RykPGTvALREIR~~Qkst---~rklPFqRLVREIaq~~~~~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAK 111 (151)
++++||+|||+||||||+||+++ |+++||+||||||+++|++++|||++||+|||||+|+|||+||||+|+||+|||
T Consensus 37 ~~~~r~rpGt~aLrEIr~yQkst~lLI~k~pF~RLVREI~~~~~~~~Rf~~~Al~ALQeaaE~yLv~lfed~~lca~Hak 116 (136)
T PLN00121 37 KKPHRYRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAK 116 (136)
T ss_pred CCCcccCchhHHHHHHHHhccccccccccccHHHHHHHHHHHhCccceeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhc
Confidence 45789999999999999999999 688999999999999999999999999999999999999999999999999999
Q ss_pred cccCCccCCCCCCCCccccCcceee
Q psy7427 112 RGYDASASVGSTKKPAMTPQMQMII 136 (151)
Q Consensus 112 RV~~~~~~~~~~~~tl~~~dm~l~~ 136 (151)
|| |||++||+|+.
T Consensus 117 RV------------Tl~~kD~~L~~ 129 (136)
T PLN00121 117 RV------------TIMPKDIQLAR 129 (136)
T ss_pred ce------------ecchhhHHHHH
Confidence 99 99999999986
No 4
>PLN00160 histone H3; Provisional
Probab=100.00 E-value=2.2e-43 Score=261.30 Aligned_cols=85 Identities=44% Similarity=0.588 Sum_probs=81.9
Q ss_pred cCCCCchhhhhhhhhhhc---cccchhhHhHHhhhhccc-CccccchHHHHHHHHHHHHHHHhhhhchhhhhhccCcccC
Q psy7427 40 YKAGTGPERDASHRWVQT---HRVTQVLSLVREIAQDFK-TDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRGYD 115 (151)
Q Consensus 40 ykPGTvALREIR~~Qkst---~rklPFqRLVREIaq~~~-~~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV~~ 115 (151)
|||||+||||||+||+++ ++++||+||||||++++. .++|||++||.|||||||+|||+||||+|+||+|||||
T Consensus 1 ~rpGt~aLrEIR~yQkst~lLI~k~pF~RLVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRV-- 78 (97)
T PLN00160 1 MRPGEKALKEIKMYQKSTDLLIRRLPFARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRV-- 78 (97)
T ss_pred CCCccHHHHHHHHHccchhhhhccccHHHHHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhccc--
Confidence 799999999999999999 688999999999999996 56999999999999999999999999999999999999
Q ss_pred CccCCCCCCCCccccCcceee
Q psy7427 116 ASASVGSTKKPAMTPQMQMII 136 (151)
Q Consensus 116 ~~~~~~~~~~tl~~~dm~l~~ 136 (151)
|||++||+|+.
T Consensus 79 ----------Tl~~kD~~L~~ 89 (97)
T PLN00160 79 ----------TIMPKDMQLAR 89 (97)
T ss_pred ----------ccchhhHHHHH
Confidence 99999999986
No 5
>smart00428 H3 Histone H3.
Probab=100.00 E-value=2.8e-43 Score=263.53 Aligned_cols=90 Identities=54% Similarity=0.694 Sum_probs=86.6
Q ss_pred ccccccCCCCchhhhhhhhhhhc---cccchhhHhHHhhhhcccC--ccccchHHHHHHHHHHHHHHHhhhhchhhhhhc
Q psy7427 35 RETQVYKAGTGPERDASHRWVQT---HRVTQVLSLVREIAQDFKT--DLRFQSSAVMALQEASEAYLVGLFEDTNLCAIH 109 (151)
Q Consensus 35 ~k~~RykPGTvALREIR~~Qkst---~rklPFqRLVREIaq~~~~--~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiH 109 (151)
++++||||||+||||||+||+++ ++++||+||||||++++.+ ++|||++|+.|||||+|+|||++|||+|+||+|
T Consensus 4 ~~~~r~rpg~~aLrEIr~yQkst~lLI~k~pF~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~H 83 (105)
T smart00428 4 TKHRRYRPGQVALREIRKYQKSTDLLIRKAPFQRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIH 83 (105)
T ss_pred CCCcCCCCcchHHHHHHHHccCcccccccccHHHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35789999999999999999999 6889999999999999987 999999999999999999999999999999999
Q ss_pred cCcccCCccCCCCCCCCccccCcceee
Q psy7427 110 AKRGYDASASVGSTKKPAMTPQMQMII 136 (151)
Q Consensus 110 AKRV~~~~~~~~~~~~tl~~~dm~l~~ 136 (151)
|||| |||++||+|+.
T Consensus 84 AkRv------------Tl~~kDi~La~ 98 (105)
T smart00428 84 AKRV------------TIMPKDIQLAR 98 (105)
T ss_pred hCCc------------cCcHhhHHHHH
Confidence 9999 99999999986
No 6
>KOG1745|consensus
Probab=100.00 E-value=5.3e-43 Score=272.70 Aligned_cols=92 Identities=57% Similarity=0.749 Sum_probs=88.3
Q ss_pred ccccccccCCCCchhhhhhhhhhhc---cccchhhHhHHhhhhcccCccccchHHHHHHHHHHHHHHHhhhhchhhhhhc
Q psy7427 33 KNRETQVYKAGTGPERDASHRWVQT---HRVTQVLSLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIH 109 (151)
Q Consensus 33 k~~k~~RykPGTvALREIR~~Qkst---~rklPFqRLVREIaq~~~~~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiH 109 (151)
...|++||+||+|||+|||+||+++ |+++||+||||||+++|.+|+|||+.|+.|||||+|+|||+||||+||||||
T Consensus 36 ~~~k~~r~rpg~~al~eirkyQkstdLlI~K~PFqRlvrei~q~f~~dLrfqs~Ai~ALQeA~EayLv~LfEdtnlcAih 115 (137)
T KOG1745|consen 36 RVKKPHRYRPGTVALREIRKYQKSTDLLIRKLPFQRLVREIAQDFKTDLRFQSSAIAALQEAAEAYLVGLFEDTNLCAIH 115 (137)
T ss_pred ccCccccccCchHHHHHHHHHHhhhHHHhhcCcHHHHhHHHHhcccccceehHHHHHHHHHHHHHHHHHhccccchhhhc
Confidence 3456789999999999999999999 6899999999999999999999999999999999999999999999999999
Q ss_pred cCcccCCccCCCCCCCCccccCcceee
Q psy7427 110 AKRGYDASASVGSTKKPAMTPQMQMII 136 (151)
Q Consensus 110 AKRV~~~~~~~~~~~~tl~~~dm~l~~ 136 (151)
|||| |||++||||+.
T Consensus 116 AkRV------------TimpkdiQlAr 130 (137)
T KOG1745|consen 116 AKRV------------TIMPKDIQLAR 130 (137)
T ss_pred ccee------------Eecccceehhh
Confidence 9999 99999999986
No 7
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=99.79 E-value=4.2e-20 Score=135.67 Aligned_cols=78 Identities=28% Similarity=0.324 Sum_probs=74.3
Q ss_pred CCCchhhhhhhhhhhcc---ccchhhHhHHhhhhcccCccccchHHHHHHHHHHHHHHHhhhhchhhhhhccCcccCCcc
Q psy7427 42 AGTGPERDASHRWVQTH---RVTQVLSLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRGYDASA 118 (151)
Q Consensus 42 PGTvALREIR~~Qkst~---rklPFqRLVREIaq~~~~~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV~~~~~ 118 (151)
||+++++|||+||+++. +++||+|++|+...+ ||+.+|+++|||+.|.|++.++|+++.||.||||+
T Consensus 1 ~~~~~~~~~r~~~~~~~~~Lp~apv~Ri~r~~~~~-----Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RK----- 70 (91)
T COG2036 1 PGAVGLKEIRRYQRSTDLLLPKAPVRRILRKAGAE-----RVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRK----- 70 (91)
T ss_pred CCcchHHHHHhhhhhhhhhcCchHHHHHHHHHhHH-----HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCC-----
Confidence 68999999999999994 677899999999876 99999999999999999999999999999999999
Q ss_pred CCCCCCCCccccCcceee
Q psy7427 119 SVGSTKKPAMTPQMQMII 136 (151)
Q Consensus 119 ~~~~~~~tl~~~dm~l~~ 136 (151)
|++..||+|.+
T Consensus 71 -------TV~~~DI~la~ 81 (91)
T COG2036 71 -------TVKAEDIKLAL 81 (91)
T ss_pred -------eecHHHHHHHH
Confidence 99999999987
No 8
>PF00125 Histone: Core histone H2A/H2B/H3/H4 histone h2a signature histone h2b signature histone h3 signature histone h4 signature; InterPro: IPR007125 The core histones together with some other DNA binding proteins appear to form a superfamily defined by a common fold and distant sequence similarities [, ]. Some proteins contain local homology domains related to the histone fold [].; GO: 0003677 DNA binding; PDB: 2YFW_D 2YFV_B 1U35_H 2F8N_D 2PYO_D 2NQB_D 3AN2_C 3AZJ_C 3AV1_G 3AZM_G ....
Probab=99.60 E-value=4.1e-16 Score=106.31 Aligned_cols=67 Identities=30% Similarity=0.378 Sum_probs=64.1
Q ss_pred cccchhhHhHHhhhhcccCccccchHHHHHHHHHHHHHHHhhhhchhhhhhccCcccCCccCCCCCCCCccccCcceee
Q psy7427 58 HRVTQVLSLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRGYDASASVGSTKKPAMTPQMQMII 136 (151)
Q Consensus 58 ~rklPFqRLVREIaq~~~~~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV~~~~~~~~~~~~tl~~~dm~l~~ 136 (151)
++++||.|++|||..++...+||+++|+.+||+++|+|++.+||+++.||.|+||. ||+++||++++
T Consensus 6 ~~~~~~~r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~------------tI~~~DI~~A~ 72 (75)
T PF00125_consen 6 IPKFPFSRLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRK------------TITPRDIQLAV 72 (75)
T ss_dssp SSHHHHHHHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBS------------EEGHHHHHHHH
T ss_pred cCceEEeeeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCc------------EecHHHHHHHH
Confidence 57889999999999998878999999999999999999999999999999999999 99999999875
No 9
>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=99.05 E-value=1.2e-10 Score=81.03 Aligned_cols=62 Identities=23% Similarity=0.362 Sum_probs=54.9
Q ss_pred hHhHHhhhhcccCccccchHHHHHHHHHHHHHHHhhhhchhhhhhccCcccCCccCCCCCCCCccccCcceee---eccc
Q psy7427 64 LSLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRGYDASASVGSTKKPAMTPQMQMII---WGIE 140 (151)
Q Consensus 64 qRLVREIaq~~~~~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV~~~~~~~~~~~~tl~~~dm~l~~---~~~~ 140 (151)
+.||++| .+..|+..+|..+||+.+|+|+.++++++..+|.|++|. |+..+|++|++ |++.
T Consensus 8 ~~lv~~i----d~~~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~------------tv~~~Di~l~l~r~~~~~ 71 (72)
T cd07981 8 QELLKEI----DPREQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSD------------TLEVKDVQLHLERNWNIS 71 (72)
T ss_pred HHHHHhh----CCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCC------------CCCHHHHHHHHHHhcCCC
Confidence 3455555 456899999999999999999999999999999999999 99999999998 7765
Q ss_pred c
Q psy7427 141 I 141 (151)
Q Consensus 141 ~ 141 (151)
+
T Consensus 72 ~ 72 (72)
T cd07981 72 I 72 (72)
T ss_pred C
Confidence 3
No 10
>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=97.21 E-value=0.00028 Score=48.62 Aligned_cols=46 Identities=17% Similarity=0.153 Sum_probs=43.1
Q ss_pred cccchHHHHHHHHHHHHHHHhhhhchhhhhhccCcccCCccCCCCCCCCccccCccee
Q psy7427 78 LRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRGYDASASVGSTKKPAMTPQMQMI 135 (151)
Q Consensus 78 lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV~~~~~~~~~~~~tl~~~dm~l~ 135 (151)
-|...+|..+|.+..|.++-.+.+++..++-|+||- |+.+.|+.++
T Consensus 18 ~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRk------------tlt~~DI~~A 63 (65)
T smart00803 18 GNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRT------------TLTTSDIDSA 63 (65)
T ss_pred ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC------------eecHHHHHHH
Confidence 378899999999999999999999999999999999 9999998765
No 11
>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=97.08 E-value=0.00052 Score=52.05 Aligned_cols=61 Identities=13% Similarity=0.245 Sum_probs=54.9
Q ss_pred hhHhHHhhhhcccCccccchHHHHHHHHHHHHHHHhhhhchhhhhhccCcccCCccCCCCCCCCccccCcceee
Q psy7427 63 VLSLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRGYDASASVGSTKKPAMTPQMQMII 136 (151)
Q Consensus 63 FqRLVREIaq~~~~~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV~~~~~~~~~~~~tl~~~dm~l~~ 136 (151)
..++|..|..+. +.-+++..+...|-|-++.|..++..|+...|-||+|. |+...|++|++
T Consensus 3 d~~~v~~iLk~~-Gv~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~------------tV~~eDV~lAi 63 (117)
T cd07979 3 DARVIAAILKSM-GITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKA------------NIDADDVKLAI 63 (117)
T ss_pred HHHHHHHHHHHC-CCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCC------------CCCHHHHHHHH
Confidence 357788888765 34589999999999999999999999999999999999 99999999997
No 12
>cd00076 H4 Histone H4, one of the four histones, along with H2A, H2B and H3, which forms the eukaryotic nucleosome core; along with H3, it plays a central role in nucleosome formation; histones bind to DNA and wrap the genetic material into "beads on a string" in which DNA (the string) is wrapped around small blobs of histones (the beads) at regular intervals; play a role in the inheritance of specialized chromosome structures and the control of gene activity; defects in the establishment of proper chromosome structure by histones may activate or silence genes aberrantly and thus lead to disease; the sequence of histone H4 has remained almost invariant in more than 2 billion years of evolution
Probab=97.04 E-value=0.00054 Score=49.95 Aligned_cols=62 Identities=16% Similarity=0.166 Sum_probs=55.8
Q ss_pred cccchhhHhHHhhhhcccCccccchHHHHHHHHHHHHHHHhhhhchhhhhhccCcccCCccCCCCCCCCccccCcceee
Q psy7427 58 HRVTQVLSLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRGYDASASVGSTKKPAMTPQMQMII 136 (151)
Q Consensus 58 ~rklPFqRLVREIaq~~~~~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV~~~~~~~~~~~~tl~~~dm~l~~ 136 (151)
+++.|..||+|.- .--|+..++.+.|.++.|.||-.+..|+...|-||+|- |+...|+.|++
T Consensus 14 i~k~~I~RLarr~-----GvkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RK------------TVt~~DV~~al 75 (85)
T cd00076 14 ITKPAIRRLARRG-----GVKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRK------------TVTAMDVVYAL 75 (85)
T ss_pred CCHHHHHHHHHHc-----CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC------------cCcHHHHHHHH
Confidence 5677888998743 35689999999999999999999999999999999999 99999999887
No 13
>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=97.00 E-value=0.001 Score=44.55 Aligned_cols=61 Identities=20% Similarity=0.218 Sum_probs=46.6
Q ss_pred chhhHhHHhhhhcccCccccchHHHHHHHHHHHHHHHhhhhchhhhhhccCcccCCccCCCCCCCCccccCcce
Q psy7427 61 TQVLSLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRGYDASASVGSTKKPAMTPQMQM 134 (151)
Q Consensus 61 lPFqRLVREIaq~~~~~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV~~~~~~~~~~~~tl~~~dm~l 134 (151)
+|..++ +.|...-....+...+|+.+|+.|+|.|+..|-..++-.|-+.+|- ||...|+.-
T Consensus 3 lP~a~v-kri~k~~~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~~rk------------ti~~~Dv~~ 63 (65)
T PF00808_consen 3 LPLARV-KRIMKSDPDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRK------------TITYEDVAK 63 (65)
T ss_dssp S-HHHH-HHHHHHTSTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSS------------EE-HHHHHH
T ss_pred CChHHH-HHHhccCCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCC------------ccCHHHHHH
Confidence 454442 3333333456789999999999999999999999999999999999 999998753
No 14
>PLN00035 histone H4; Provisional
Probab=96.94 E-value=0.00073 Score=51.06 Aligned_cols=62 Identities=13% Similarity=0.102 Sum_probs=55.4
Q ss_pred cccchhhHhHHhhhhcccCccccchHHHHHHHHHHHHHHHhhhhchhhhhhccCcccCCccCCCCCCCCccccCcceee
Q psy7427 58 HRVTQVLSLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRGYDASASVGSTKKPAMTPQMQMII 136 (151)
Q Consensus 58 ~rklPFqRLVREIaq~~~~~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV~~~~~~~~~~~~tl~~~dm~l~~ 136 (151)
+++.|..||.|.- .--|...+|.++|.++.|.||-.+..|+...|-||+|- |+...|+.|++
T Consensus 30 ipk~~IrRLARr~-----GvkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RK------------TV~~~DV~~Al 91 (103)
T PLN00035 30 ITKPAIRRLARRG-----GVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRK------------TVTAMDVVYAL 91 (103)
T ss_pred CCHHHHHHHHHHc-----CcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC------------cCcHHHHHHHH
Confidence 5667788888743 35689999999999999999999999999999999999 99999999887
No 15
>PTZ00015 histone H4; Provisional
Probab=96.58 E-value=0.002 Score=48.53 Aligned_cols=62 Identities=13% Similarity=0.114 Sum_probs=55.3
Q ss_pred cccchhhHhHHhhhhcccCccccchHHHHHHHHHHHHHHHhhhhchhhhhhccCcccCCccCCCCCCCCccccCcceee
Q psy7427 58 HRVTQVLSLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRGYDASASVGSTKKPAMTPQMQMII 136 (151)
Q Consensus 58 ~rklPFqRLVREIaq~~~~~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV~~~~~~~~~~~~tl~~~dm~l~~ 136 (151)
+++.|..||+|.- .--|...++.+.|.++.|.||-.+..|+..+|-||+|- |+...|+.+++
T Consensus 31 I~k~~IrRLarr~-----GvkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RK------------TVt~~DV~~Al 92 (102)
T PTZ00015 31 ITKGAIRRLARRG-----GVKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRK------------TVTAMDVVYAL 92 (102)
T ss_pred CCHHHHHHHHHHc-----CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC------------cccHHHHHHHH
Confidence 5677888888743 35689999999999999999999999999999999999 99999998886
No 16
>PF03847 TFIID_20kDa: Transcription initiation factor TFIID subunit A; InterPro: IPR003228 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription [].; GO: 0006352 transcription initiation, DNA-dependent, 0005669 transcription factor TFIID complex; PDB: 1H3O_B.
Probab=96.50 E-value=0.0017 Score=45.31 Aligned_cols=58 Identities=16% Similarity=0.213 Sum_probs=46.3
Q ss_pred hhHhHHhhhhcccCccccchHHHHHHHHHHHHHHHhhhhchhhhhhccCcccCCccCCCCCCCCccccCcceee
Q psy7427 63 VLSLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRGYDASASVGSTKKPAMTPQMQMII 136 (151)
Q Consensus 63 FqRLVREIaq~~~~~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV~~~~~~~~~~~~tl~~~dm~l~~ 136 (151)
++.||++| .+...+..++.++|.+.|++|+-+..+.+...|-|.+=- |+..+|++|++
T Consensus 5 l~~Lv~~i----Dp~~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~------------tle~~Dv~~~L 62 (68)
T PF03847_consen 5 LQELVKQI----DPNEKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSS------------TLEVKDVQLHL 62 (68)
T ss_dssp HHHHHHCC-----SS----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-S------------EE-HHHHHHHH
T ss_pred HHHHHHHc----CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCC------------CCCHHHHHHHH
Confidence 45667666 577899999999999999999999999999999999888 99999999987
No 17
>smart00417 H4 Histone H4.
Probab=96.47 E-value=0.0044 Score=44.25 Aligned_cols=60 Identities=13% Similarity=0.103 Sum_probs=52.5
Q ss_pred cccchhhHhHHhhhhcccCccccchHHHHHHHHHHHHHHHhhhhchhhhhhccCcccCCccCCCCCCCCccccCcce
Q psy7427 58 HRVTQVLSLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRGYDASASVGSTKKPAMTPQMQM 134 (151)
Q Consensus 58 ~rklPFqRLVREIaq~~~~~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV~~~~~~~~~~~~tl~~~dm~l 134 (151)
+++.|..||+|.= .--|+..++.+.|.++.|.||-.+..|+..+|-||+|- |+...|+..
T Consensus 14 I~k~~IrRLaRr~-----GvkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RK------------TV~~~DV~~ 73 (74)
T smart00417 14 ITKPAIRRLARRG-----GVKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRK------------TVTAMDVVY 73 (74)
T ss_pred CCHHHHHHHHHHc-----CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC------------cccHHHhee
Confidence 5677888888732 45689999999999999999999999999999999999 999988754
No 18
>KOG1142|consensus
Probab=96.36 E-value=0.0075 Score=52.03 Aligned_cols=67 Identities=18% Similarity=0.260 Sum_probs=56.4
Q ss_pred hHhHHhhhhcccCccccchHHHHHHHHHHHHHHHhhhhchhhhhhccCcccCCccCCCCCCCCccccCcceee---eccc
Q psy7427 64 LSLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRGYDASASVGSTKKPAMTPQMQMII---WGIE 140 (151)
Q Consensus 64 qRLVREIaq~~~~~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV~~~~~~~~~~~~tl~~~dm~l~~---~~~~ 140 (151)
.-||++| ..+--...++.+.|.|.|++|+-++-.-+-.+|.|.|-- ||.++|++|++ |+++
T Consensus 161 ~dLvqqI----d~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsd------------tlEvrDIqLhLEr~~Nm~ 224 (258)
T KOG1142|consen 161 DDLVQQI----DGTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSD------------TVEVRDIQLHLERNFNME 224 (258)
T ss_pred hHHHHhh----cCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccC------------ccchhheeeeeecccccc
Confidence 3555555 455667789999999999999999999999999999988 99999999999 9999
Q ss_pred cCCCcc
Q psy7427 141 IKPSQS 146 (151)
Q Consensus 141 ~~~~~~ 146 (151)
|-+.-+
T Consensus 225 iPgf~s 230 (258)
T KOG1142|consen 225 IPGFSS 230 (258)
T ss_pred CCCccc
Confidence 755433
No 19
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=96.26 E-value=0.0029 Score=44.19 Aligned_cols=51 Identities=24% Similarity=0.246 Sum_probs=46.4
Q ss_pred cccchHHHHHHHHHHHHHHHhhhhchhhhhhccCcccCCccCCCCCCCCccccCcceee--eccc
Q psy7427 78 LRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRGYDASASVGSTKKPAMTPQMQMII--WGIE 140 (151)
Q Consensus 78 lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV~~~~~~~~~~~~tl~~~dm~l~~--~~~~ 140 (151)
-+.+.+|+++|-+..|.|+..|=+.+...|-||+|. +....|+.+.+ .|+.
T Consensus 22 ~~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~------------~~~~~Dv~~Al~~~gi~ 74 (77)
T smart00576 22 DSFQESALETLTDILQSYIQELGRTAHSYAELAGRT------------EPNLGDVVLALENLGIS 74 (77)
T ss_pred cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCC------------CCCHHHHHHHHHHhCcc
Confidence 378999999999999999999999999999999999 88899999877 5554
No 20
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=96.22 E-value=0.0033 Score=44.90 Aligned_cols=58 Identities=22% Similarity=0.255 Sum_probs=47.2
Q ss_pred HhHHhhhhcccCccccchHHHHHHHHHHHHHHHhhhhchhhhhhccCcccCCccCCCCCCCCccccCcceee
Q psy7427 65 SLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRGYDASASVGSTKKPAMTPQMQMII 136 (151)
Q Consensus 65 RLVREIaq~~~~~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV~~~~~~~~~~~~tl~~~dm~l~~ 136 (151)
++|.|.+. ..+..|++..+.||=|.+=.++..+=.|.-+.|-||||- ||.+.|+.|..
T Consensus 13 ki~ee~~~--~~~~~~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~------------tI~~dDV~Ll~ 70 (76)
T PF15630_consen 13 KIVEEEAK--EKGVEVSPQFIAALTELVYKQLENLAKDLEAFAKHAGRS------------TINMDDVKLLA 70 (76)
T ss_dssp HHHHHCCC--CTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-S------------EE-HHHHHHHT
T ss_pred HHHHHHHh--ccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC------------eecHHHHHHHh
Confidence 44444332 357889999999999999999999999999999999999 99999999875
No 21
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T.
Probab=95.66 E-value=0.0086 Score=53.65 Aligned_cols=50 Identities=30% Similarity=0.440 Sum_probs=39.3
Q ss_pred hHhHHhhhhcc-----cCccccchHHHHHHHHHHHHHHHhhhhchhhhhhccCcc
Q psy7427 64 LSLVREIAQDF-----KTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRG 113 (151)
Q Consensus 64 qRLVREIaq~~-----~~~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV 113 (151)
+-+||.+++.| ....+..++||.||..|.|-|.-+|=+|.-..|-||+|.
T Consensus 354 ~~~vK~la~~~ak~s~~sK~kiskdal~aleqasdwfFeQl~dDL~aYA~HAgRK 408 (414)
T PF15511_consen 354 PGVVKKLAQHFAKSSGGSKMKISKDALEALEQASDWFFEQLGDDLEAYAKHAGRK 408 (414)
T ss_dssp HHHHHHHHHHHH-------S-B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-S
T ss_pred ccHHHHHHHHHHHhhcccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 34566666666 246899999999999999999999999999999999999
No 22
>PF02291 TFIID-31kDa: Transcription initiation factor IID, 31kD subunit; InterPro: IPR003162 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription []. TAFII-31 protein is a transcriptional coactivator of the p53 protein [].; GO: 0006352 transcription initiation, DNA-dependent; PDB: 1TAF_A.
Probab=95.58 E-value=0.01 Score=46.08 Aligned_cols=60 Identities=20% Similarity=0.295 Sum_probs=50.3
Q ss_pred hHhHHhhhhcccCccccchHHHHHHHHHHHHHHHhhhhchhhhhhccCcccCCccCCCCCCCCccccCcceee
Q psy7427 64 LSLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRGYDASASVGSTKKPAMTPQMQMII 136 (151)
Q Consensus 64 qRLVREIaq~~~~~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV~~~~~~~~~~~~tl~~~dm~l~~ 136 (151)
.|+|..|..+.+- -.|+..++.-|=|-+-.|..++++|+...|-||+|. ++...|++|++
T Consensus 15 a~~i~~iL~~~Gv-~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~------------~i~~~DVrLAi 74 (129)
T PF02291_consen 15 ARVIHLILKSMGV-TEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRS------------TIDADDVRLAI 74 (129)
T ss_dssp HHHHHHHHHHTT----B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-S------------SB-HHHHHHHH
T ss_pred HHHHHHHHHHcCC-cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc------------cCChHHHHHHH
Confidence 6888888887752 348999999999999999999999999999999999 99999999988
No 23
>KOG0870|consensus
Probab=95.22 E-value=0.022 Score=46.72 Aligned_cols=59 Identities=19% Similarity=0.247 Sum_probs=53.5
Q ss_pred hhHhHHhhhhcccCccccchHHHHHHHHHHHHHHHhhhhchhhhhhccCcccCCccCCCCCCCCccccCccee
Q psy7427 63 VLSLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRGYDASASVGSTKKPAMTPQMQMI 135 (151)
Q Consensus 63 FqRLVREIaq~~~~~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV~~~~~~~~~~~~tl~~~dm~l~ 135 (151)
..|||+|...+. +.-.+.+|+.||++||--|+.-|-..++-.|--.+|- |++..|+-=.
T Consensus 16 I~rlvke~l~E~--~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rK------------t~sadDVl~a 74 (172)
T KOG0870|consen 16 ITRLVKEVLPES--NVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRK------------TISADDVLKA 74 (172)
T ss_pred HHHHHHHhCccc--cccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccC------------cccHHHHHHH
Confidence 679999999876 6789999999999999999999999999999999999 9999886433
No 24
>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=93.53 E-value=0.065 Score=37.41 Aligned_cols=56 Identities=23% Similarity=0.265 Sum_probs=42.9
Q ss_pred HHhhhhcccCccccchHHHHHHHHHHHHHHHhhhhchhhhhhccCcccCCccCCCCCCCCccccCccee
Q psy7427 67 VREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRGYDASASVGSTKKPAMTPQMQMI 135 (151)
Q Consensus 67 VREIaq~~~~~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV~~~~~~~~~~~~tl~~~dm~l~ 135 (151)
|+-|++..+- -....++..+|.+-+|.-|-.+.+++..++.|+||- .|.+.|+..+
T Consensus 9 vk~iAes~Gi-~~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~------------~Lt~~Di~~A 64 (66)
T PF02969_consen 9 VKDIAESLGI-SNLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRT------------KLTTDDINSA 64 (66)
T ss_dssp HHHHHHHTT----B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-S------------SB-HHHHHHH
T ss_pred HHHHHHHcCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC------------CCCHHHHHHH
Confidence 5556665432 236789999999999999999999999999999999 9999998643
No 25
>cd08050 TAF6 TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and are involved in forming Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs functions such as serving as
Probab=93.19 E-value=0.09 Score=45.86 Aligned_cols=67 Identities=16% Similarity=0.160 Sum_probs=55.6
Q ss_pred hHHhhhhcccCccccchHHHHHHHHHHHHHHHhhhhchhhhhhccCcccCCccCCCCCCCCccccCcceeeeccccCCCc
Q psy7427 66 LVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRGYDASASVGSTKKPAMTPQMQMIIWGIEIKPSQ 145 (151)
Q Consensus 66 LVREIaq~~~~~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV~~~~~~~~~~~~tl~~~dm~l~~~~~~~~~~~ 145 (151)
.|+.|+.... --+...+|..+|-+-+|.++-.+.++|..++.|+||- ||.+.|+++++-...+.|.-
T Consensus 4 ~i~~ia~~~G-i~~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~------------~l~~~Di~~Al~~~n~eply 70 (343)
T cd08050 4 SIKLIAESLG-IDSLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRR------------KLTTSDVNHALRLRNVEPLY 70 (343)
T ss_pred HHHHHHHHcC-CCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC------------cCCHHHHHHHHHHhCCCccc
Confidence 4667776543 2378899999999999999999999999999999999 99999999998444445543
No 26
>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=90.35 E-value=0.23 Score=34.17 Aligned_cols=50 Identities=24% Similarity=0.242 Sum_probs=43.8
Q ss_pred ccchHHHHHHHHHHHHHHHhhhhchhhhhhccCcccCCccCCCCCCCCccccCcceee--eccc
Q psy7427 79 RFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRGYDASASVGSTKKPAMTPQMQMII--WGIE 140 (151)
Q Consensus 79 Rfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV~~~~~~~~~~~~tl~~~dm~l~~--~~~~ 140 (151)
..+.+||+.|-+.++.||..|-..+...|-|+.|- .....|+.+++ .|+.
T Consensus 23 ~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt------------~~~~~Dv~~al~~~gi~ 74 (77)
T PF07524_consen 23 SASPSALDTLTDILQRYLQELGRTAKRYAEHAGRT------------EPNLQDVEQALEEMGIS 74 (77)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCC------------CCCHHHHHHHHHHhCCC
Confidence 58899999999999999999999999999999998 66678887766 5553
No 27
>PF10911 DUF2717: Protein of unknown function (DUF2717); InterPro: IPR020121 The proteins in this entry are uncharacterised.
Probab=81.61 E-value=1.6 Score=31.84 Aligned_cols=59 Identities=19% Similarity=0.274 Sum_probs=45.1
Q ss_pred hhhhhhhhhhcc--ccchhhHhHHhhhh-cccCccccchHHHHHHHHH--HHHHHHhhhhchhhhh
Q psy7427 47 ERDASHRWVQTH--RVTQVLSLVREIAQ-DFKTDLRFQSSAVMALQEA--SEAYLVGLFEDTNLCA 107 (151)
Q Consensus 47 LREIR~~Qkst~--rklPFqRLVREIaq-~~~~~lRfq~~AL~ALQEA--AEayLV~LFEdsnLcA 107 (151)
|.+|.||...+. +-+| |.+.|-.+ .|+.++-.++..+.+|+.+ +|+||.++.+..+.|+
T Consensus 2 L~~I~h~l~np~DiP~ip--ra~aeyLqvrfN~~yl~~sG~i~~lr~~G~SE~~I~Gfl~Gl~~As 65 (77)
T PF10911_consen 2 LKPIQHLLDNPDDIPDIP--RAAAEYLQVRFNAAYLMASGIISALRKQGWSESYILGFLAGLQYAS 65 (77)
T ss_pred cchHHHHhcCCcccCCcc--HHHHHHHHHHhcHHHHHHhhhHHHHHHccccHHHHHHHHHHHHHHH
Confidence 678888888773 4444 77777666 3667777788888888865 7999999999988873
No 28
>KOG3334|consensus
Probab=79.61 E-value=1.3 Score=35.65 Aligned_cols=60 Identities=15% Similarity=0.295 Sum_probs=48.2
Q ss_pred hHhHHhhhhcccCccccchHHHHHHHHHHHHHHHhhhhchhhhhhccCcccCCccCCCCCCCCccccCcceee
Q psy7427 64 LSLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRGYDASASVGSTKKPAMTPQMQMII 136 (151)
Q Consensus 64 qRLVREIaq~~~~~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV~~~~~~~~~~~~tl~~~dm~l~~ 136 (151)
.+++-.|..+++ ---|....+.-|=|-|=.|.+++++|+.+.+-||++- +|...|++|++
T Consensus 16 a~~i~~iL~s~G-I~eyEprVi~qlLefa~rYtt~vL~DA~vys~HA~ka------------~i~~eDVrlA~ 75 (148)
T KOG3334|consen 16 ARVIASILKSLG-IQEYEPRVINQLLEFAYRYTTTVLDDAKVYSSHAKKA------------TIDAEDVRLAI 75 (148)
T ss_pred HHHHHHHHHHcC-ccccChHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC------------CCcHHHHHHHH
Confidence 355555555543 1236677888888889999999999999999999998 99999999987
No 29
>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=75.11 E-value=3.1 Score=31.81 Aligned_cols=65 Identities=15% Similarity=0.074 Sum_probs=51.6
Q ss_pred ccchhhHhHHhhhhcccCccccchHHHHHHHHHHHHHHHhhhhchhhhhhccCcccCCccCCCCCCCCccccCcceee
Q psy7427 59 RVTQVLSLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRGYDASASVGSTKKPAMTPQMQMII 136 (151)
Q Consensus 59 rklPFqRLVREIaq~~~~~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV~~~~~~~~~~~~tl~~~dm~l~~ 136 (151)
+.+|..|+-|=+-. -....|...+|...|-..-|.+.-.++|-+.-.|-|+||. +|.++|++|++
T Consensus 19 L~fPV~ri~R~Lk~-~~~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~k------------rItp~hi~lAi 83 (115)
T cd00074 19 LQFPVGRIHRYLKK-GRYAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKK------------RITPRHLQLAV 83 (115)
T ss_pred ccCcHHHHHHHHHc-CccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCC------------eEcHHHHHHHH
Confidence 34565554443322 1223789999999999999999999999999999999999 99999999987
No 30
>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=64.30 E-value=8.8 Score=32.12 Aligned_cols=52 Identities=17% Similarity=0.195 Sum_probs=35.8
Q ss_pred chhhHhHHhhhhcccCccccchHHHHHHHHHHHHHHHhhhhchhhhhhccCcc
Q psy7427 61 TQVLSLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRG 113 (151)
Q Consensus 61 lPFqRLVREIaq~~~~~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV 113 (151)
-|+++-+++|+.... ...+..+.+..|=-|+|.+|-+|.|++...|.|....
T Consensus 47 ~~L~~~i~~i~~~~g-~~~~~~d~l~llS~A~e~rLr~lie~~~~~s~hR~~~ 98 (264)
T PF05236_consen 47 SPLQKRIQKIAKKHG-LKSVDEDVLELLSLATEERLRNLIEKAIVLSRHRRDS 98 (264)
T ss_dssp HHHHHHHHHHHHCTT---EE-TCHHHHHHHHHHHHHHHHHHHHH---------
T ss_pred HHHHHHHHHHHHHcC-CcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 368888999987665 4568899999999999999999999999999998776
No 31
>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=62.63 E-value=8.4 Score=28.00 Aligned_cols=61 Identities=10% Similarity=0.141 Sum_probs=30.9
Q ss_pred hHhHHhhhhcccCccccchHHHHHHHHHHHHHHHhhhhchhhhhhccCcccCCccCCCCCCCCccccCcceee
Q psy7427 64 LSLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRGYDASASVGSTKKPAMTPQMQMII 136 (151)
Q Consensus 64 qRLVREIaq~~~~~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV~~~~~~~~~~~~tl~~~dm~l~~ 136 (151)
..=++++.-.|+..-.=..+.+..+.+..-.|++.+...|.-+|...++- .+.+.|+.+++
T Consensus 4 ~~eI~~mMy~fGD~~~P~~eTv~lvE~iv~~~i~~l~~~A~~~a~~rg~~------------~i~~eDl~F~l 64 (93)
T PF02269_consen 4 SKEIRQMMYGFGDVEEPLPETVDLVEDIVREYIIELCQEAMEVAQRRGSK------------KIKVEDLLFLL 64 (93)
T ss_dssp CCCCHHHHHCTTS-SS--HHHHHHHHHHHHHHHHHHHHHHHC-------------------------------
T ss_pred HHHHHHHHHHcCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhccccC------------cCcHHHHHHHH
Confidence 33455566666655555678889999999999999999999999988777 77888887776
No 32
>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=58.85 E-value=19 Score=29.30 Aligned_cols=52 Identities=17% Similarity=0.164 Sum_probs=44.1
Q ss_pred chhhHhHHhhhhcccCccccchHHHHHHHHHHHHHHHhhhhchhhhhhccCcc
Q psy7427 61 TQVLSLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRG 113 (151)
Q Consensus 61 lPFqRLVREIaq~~~~~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV 113 (151)
.|+++-++.|+...+.. -+..+.+..|-.|+|.||-+|.++.-.++-|....
T Consensus 48 ~~l~~~~~~i~~~~g~~-~~~~d~~~lis~a~e~rlr~li~k~~~~s~hR~~~ 99 (212)
T cd08045 48 SPLAKKIRKIAKKHGLK-EVDEDVLDLISLALEERLRNLLEKLIEVSEHRVDS 99 (212)
T ss_pred HHHHHHHHHHHHHcCCC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence 35788888888865433 68999999999999999999999999999996554
No 33
>COG5094 TAF9 Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=48.78 E-value=12 Score=29.96 Aligned_cols=44 Identities=23% Similarity=0.306 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHHHhhhhchhhhhhccCcccCCccCCCCCCCCccccCcceee
Q psy7427 84 AVMALQEASEAYLVGLFEDTNLCAIHAKRGYDASASVGSTKKPAMTPQMQMII 136 (151)
Q Consensus 84 AL~ALQEAAEayLV~LFEdsnLcAiHAKRV~~~~~~~~~~~~tl~~~dm~l~~ 136 (151)
...-|=|-|--|-.+++||+.+.|-|+.|-.-|++ -+.|++|++
T Consensus 36 VplQLl~FAhRYTq~vl~Dalvya~htgrg~~a~l---------~veDvrLA~ 79 (145)
T COG5094 36 VPLQLLEFAHRYTQDVLEDALVYAKHTGRGHIATL---------GVEDVRLAL 79 (145)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCcc---------cHHHHHHHH
Confidence 33445566778999999999999999999855554 446666665
No 34
>PF12465 Pr_beta_C: Proteasome beta subunits C terminal ; InterPro: IPR024689 This domain is found in the C terminus of beta-type subunits of the proteasome, a multimeric complex that degrades proteins into peptides as part of the MHC class I-mediated Ag-presenting pathway []. This domain is approximately 40 amino acids in length. It is found in association with PF00227 from PFAM. It contains a conserved GTT sequence motif and a single completely conserved residue Y that may be functionally important.; PDB: 3UN8_H 2GPL_V 3E47_H 3OEV_H 3SDK_V 3BDM_H 3GPJ_H 3DY3_H 3NZW_H 3OEU_V ....
Probab=37.24 E-value=14 Score=23.23 Aligned_cols=12 Identities=25% Similarity=0.318 Sum_probs=3.8
Q ss_pred cccccCCCCchh
Q psy7427 36 ETQVYKAGTGPE 47 (151)
Q Consensus 36 k~~RykPGTvAL 47 (151)
..++|+|||.|.
T Consensus 9 ~~Ykf~~GTTaV 20 (38)
T PF12465_consen 9 GSYKFKRGTTAV 20 (38)
T ss_dssp S-----TT-S-E
T ss_pred cccccCCCceee
Confidence 468999999885
No 35
>KOG3467|consensus
Probab=35.02 E-value=23 Score=26.87 Aligned_cols=42 Identities=14% Similarity=0.130 Sum_probs=32.7
Q ss_pred hHHHHHHHHHHHHHHHhhhhchhhhhhccCcccCCccCCCCCCCCccccCccee
Q psy7427 82 SSAVMALQEASEAYLVGLFEDTNLCAIHAKRGYDASASVGSTKKPAMTPQMQMI 135 (151)
Q Consensus 82 ~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV~~~~~~~~~~~~tl~~~dm~l~ 135 (151)
.-..+-...++..||-+...++...+-||||- |+.--|+--+
T Consensus 49 G~~yeE~~~~~k~fl~n~i~~A~~yt~HAKRK------------TvT~~dvv~~ 90 (103)
T KOG3467|consen 49 GLIYEETRGVLKVFLENVIRDAVTYTEHAKRK------------TVTAMDVVYA 90 (103)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhc------------eeeHHHHHHH
Confidence 33345566788889999999999999999999 8777665443
No 36
>KOG1658|consensus
Probab=32.04 E-value=53 Score=26.98 Aligned_cols=62 Identities=16% Similarity=0.227 Sum_probs=48.2
Q ss_pred chhhHhHHhhhhcccCccccc-hHHHHHHHHHHHHHHHhhhhchhhhhhccCcccCCccCCCCCCCCccccCcceee
Q psy7427 61 TQVLSLVREIAQDFKTDLRFQ-SSAVMALQEASEAYLVGLFEDTNLCAIHAKRGYDASASVGSTKKPAMTPQMQMII 136 (151)
Q Consensus 61 lPFqRLVREIaq~~~~~lRfq-~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV~~~~~~~~~~~~tl~~~dm~l~~ 136 (151)
+|.+| |++|. ...++++|- .+|+.++-.|||.|+-.|=-+++-|+--.||+ |+..+|.-.++
T Consensus 60 LpL~r-ik~vv-kl~pdl~l~~dea~~l~a~aaelfi~~Ln~~~~~~~q~~k~k------------t~qr~d~D~ai 122 (162)
T KOG1658|consen 60 LPLAR-IKQVV-KLDPDLTLLNDEASQLIAKAAELFIQELNDVAYTTAQLRKRK------------TEQRRDYDTAI 122 (162)
T ss_pred ccHHH-HHhhc-cCCcchhhhhhHHHHHHHHHHHHHHHHHHhccchhHHHHHhh------------hhhhhcccccc
Confidence 44444 23333 245788884 56667889999999999999999999999999 99999887765
No 37
>KOG2389|consensus
Probab=28.22 E-value=53 Score=29.93 Aligned_cols=57 Identities=19% Similarity=0.181 Sum_probs=46.0
Q ss_pred HHhhhhcccCccccchHHHHHHHHHHHHHHHhhhhchhhhhhccCcccCCccCCCCCCCCccccCcceee
Q psy7427 67 VREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRGYDASASVGSTKKPAMTPQMQMII 136 (151)
Q Consensus 67 VREIaq~~~~~lRfq~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV~~~~~~~~~~~~tl~~~dm~l~~ 136 (151)
|-.|++.+. --.++.+|++-|+-.+--|+-+|=.++-..+-||+|+ --+..|+-+.+
T Consensus 35 vaQIcqslg-~~~~~~sale~Ltd~~~qyvQ~lgk~a~~~~n~anR~------------epnl~Div~Al 91 (353)
T KOG2389|consen 35 VAQICQSLG-YSSTQNSALETLTDVLQQYVQNLGKTAHRYSNLANRT------------EPNLFDIVLAL 91 (353)
T ss_pred HHHHHHhcC-CcccccHHHHHHHHHHHHHHHHHHhhhhhhhhhcCCC------------CccHHHHHHHH
Confidence 556666553 2357888999999999999999999999999999999 66666766655
No 38
>KOG4336|consensus
Probab=24.68 E-value=48 Score=29.84 Aligned_cols=51 Identities=14% Similarity=0.184 Sum_probs=41.1
Q ss_pred cchHHHHHHHHHHHHHHHhhhhchhhhhhccCcccCCccCCCCCCCCccccCcceee--eccccC
Q psy7427 80 FQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRGYDASASVGSTKKPAMTPQMQMII--WGIEIK 142 (151)
Q Consensus 80 fq~~AL~ALQEAAEayLV~LFEdsnLcAiHAKRV~~~~~~~~~~~~tl~~~dm~l~~--~~~~~~ 142 (151)
....|++-|=|+.-.|+-.+|+.+-..+-|++|- -..+.|+.|.+ +||.+.
T Consensus 23 is~~aletlvell~~yi~eigrq~~n~celagRT------------~pT~~Dv~l~Li~mnI~v~ 75 (323)
T KOG4336|consen 23 ISNAALETLVELLQSYIREIGRQLHNYCELAGRT------------IPTQGDVKLTLIEMNIKVS 75 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc------------CCcHHHHHHHHHHhCCChh
Confidence 4456777777778889999999999999999998 67778888777 677653
No 39
>PHA00438 hypothetical protein
Probab=23.69 E-value=79 Score=23.32 Aligned_cols=56 Identities=21% Similarity=0.243 Sum_probs=37.3
Q ss_pred hhhhhhhc--cccchhhHhHHhhhhc-ccCccccchHHHHHHHHH--HHHHHHhhhhchhhhh
Q psy7427 50 ASHRWVQT--HRVTQVLSLVREIAQD-FKTDLRFQSSAVMALQEA--SEAYLVGLFEDTNLCA 107 (151)
Q Consensus 50 IR~~Qkst--~rklPFqRLVREIaq~-~~~~lRfq~~AL~ALQEA--AEayLV~LFEdsnLcA 107 (151)
|.+++..+ ++..| |-+.|-.+- |+..+-.++..+.+|.++ +|+|+.++.-..+.|+
T Consensus 5 I~~~l~np~DiPdvp--raa~eyLqvrfNasYl~~sG~i~~lR~~G~SE~~IaGfl~Gl~yAs 65 (81)
T PHA00438 5 IKHLLENPNDIPDVP--RAAAEYLQVRFNASYLEQSGEIRLLRQAGYSEAFIAGFLAGLQYAS 65 (81)
T ss_pred HHHHhcCCccccccc--HHHHHHHHHHHhHHHHHHhhhHHHHHHcCCcHHHHHHHHHHHHHHH
Confidence 44555544 23333 666666652 455566677777888776 7999999998888875
No 40
>PRK14562 haloacid dehalogenase superfamily protein; Provisional
Probab=22.10 E-value=86 Score=25.68 Aligned_cols=25 Identities=36% Similarity=0.313 Sum_probs=20.7
Q ss_pred CccccchHHHHHHHHHHHHHHHhhh
Q psy7427 76 TDLRFQSSAVMALQEASEAYLVGLF 100 (151)
Q Consensus 76 ~~lRfq~~AL~ALQEAAEayLV~LF 100 (151)
++++|....-.|+||-+||...-.|
T Consensus 71 ~~~~y~~~~~~~lQEyvEA~~f~~~ 95 (204)
T PRK14562 71 PELYYAGYVGTALQEYVEALLVYSL 95 (204)
T ss_pred chhhhhhhcchHHHHHHHHHHHHHH
Confidence 5788888888999999999766544
Done!