Conserved Domains and Related Protein Families
Conserved Domains Detected by RPS-BLAST
Original result of RPS-BLAST against CDD database
ID Alignment Graph Length
Definition
E-value Query 92
PLN00035 103
PLN00035, PLN00035, histone H4; Provisional
4e-12 smart00417 74
smart00417, H4, Histone H4
2e-11 PTZ00015 102
PTZ00015, PTZ00015, histone H4; Provisional
6e-11 cd00076 85
cd00076, H4, Histone H4, one of the four histones,
2e-09 COG2036 91
COG2036, HHT1, Histones H3 and H4 [Chromatin struc
5e-04
>gnl|CDD|177669 PLN00035, PLN00035, histone H4; Provisional
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Score = 56.8 bits (137), Expect = 4e-12
Identities = 27/34 (79%), Positives = 31/34 (91%)
Query: 35 AGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQT 68
+GLIYEETRGVLK+ LENVIRDAVTY HA+R+T
Sbjct: 48 SGLIYEETRGVLKIFLENVIRDAVTYTEHARRKT 81
>gnl|CDD|128694 smart00417, H4, Histone H4
Back Show alignment and domain information
Score = 54.1 bits (130), Expect = 2e-11
Identities = 24/34 (70%), Positives = 29/34 (85%)
Query: 35 AGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQT 68
+GLIY+ETR VLK LENV+RDAVTY HA+R+T
Sbjct: 32 SGLIYDETRNVLKSFLENVVRDAVTYTEHARRKT 65
>gnl|CDD|185397 PTZ00015, PTZ00015, histone H4; Provisional
Back Show alignment and domain information
Score = 53.6 bits (129), Expect = 6e-11
Identities = 20/34 (58%), Positives = 26/34 (76%)
Query: 35 AGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQT 68
+G IYEE RGVLK LENV+RD+ Y +A+R+T
Sbjct: 49 SGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKT 82
>gnl|CDD|238031 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
Back Show alignment and domain information
Score = 49.4 bits (118), Expect = 2e-09
Identities = 22/33 (66%), Positives = 26/33 (78%)
Query: 36 GLIYEETRGVLKVVLENVIRDAVTYPRHAKRQT 68
G +Y+E R VLK LE+VIRDAVTY HAKR+T
Sbjct: 33 GGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKT 65
>gnl|CDD|224947 COG2036, HHT1, Histones H3 and H4 [Chromatin structure and dynamics]
Back Show alignment and domain information
Score = 35.4 bits (82), Expect = 5e-04
Identities = 13/35 (37%), Positives = 18/35 (51%)
Query: 34 FAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQT 68
+ EE + L+ LE + DAV HAKR+T
Sbjct: 37 VSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKT 71
Conserved Domains Detected by HHsearch
Original result of HHsearch against CDD database
>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
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Probab=99.95 E-value=1.2e-28 Score=164.46 Aligned_cols=72 Identities=40% Similarity=0.553 Sum_probs=66.3
Q ss_pred ccCCCCC--CchhHHhhhcc-cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhCCCC
Q psy17761 13 LRTPVSG--PPSVVWRVEVE-SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSRPHP 86 (92)
Q Consensus 13 ~~~~v~~--~~aIRrlar~G-akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g~~~ 86 (92)
++.++.| +|+|++|+++| ++|||+++|+|++++|++|+++|++||++||+||+||||+ ++||++|||+|| +|
T Consensus 7 ~~~~~~gi~k~~I~RLarr~GvkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt-~~DV~~alkr~g-~~ 81 (85)
T cd00076 7 LRDNIKGITKPAIRRLARRGGVKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVT-AMDVVYALKRQG-RT 81 (85)
T ss_pred HHHhhccCCHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCc-HHHHHHHHHHCC-CC
Confidence 4455555 48999999996 9999999999999999999999999999999999999999 999999999999 44
>PTZ00015 histone H4; Provisional
Back Show alignment and domain information
Probab=99.94 E-value=2.3e-27 Score=163.05 Aligned_cols=72 Identities=36% Similarity=0.473 Sum_probs=66.6
Q ss_pred ccCCCCCC--chhHHhhhcc-cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhCCC
Q psy17761 13 LRTPVSGP--PSVVWRVEVE-SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSRPH 85 (92)
Q Consensus 13 ~~~~v~~~--~aIRrlar~G-akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g~~ 85 (92)
++.++.+. |+|++|+++| |+|||+++|+|++++|++|+++|++||++||+||+||||+ ++||++|||+||+.
T Consensus 24 ~r~~i~gI~k~~IrRLarr~GvkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt-~~DV~~AlKr~g~~ 98 (102)
T PTZ00015 24 LRDNIRGITKGAIRRLARRGGVKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVT-AMDVVYALKRQGRT 98 (102)
T ss_pred HhhcccCCCHHHHHHHHHHcCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccc-HHHHHHHHHhcCCC
Confidence 45555663 8999999996 9999999999999999999999999999999999999999 99999999999984
>PLN00035 histone H4; Provisional
Back Show alignment and domain information
Probab=99.94 E-value=2.4e-27 Score=163.24 Aligned_cols=71 Identities=48% Similarity=0.672 Sum_probs=66.4
Q ss_pred ccCCCCC--CchhHHhhhcc-cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhCC
Q psy17761 13 LRTPVSG--PPSVVWRVEVE-SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSRP 84 (92)
Q Consensus 13 ~~~~v~~--~~aIRrlar~G-akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g~ 84 (92)
++.++.+ .|+|+||+++| |+|||+++|+|++++|++|+++|++||++||+||+||||+ ++||++|||++|+
T Consensus 23 ~~d~i~~ipk~~IrRLARr~GvkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~-~~DV~~Alkr~g~ 96 (103)
T PLN00035 23 LRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVT-AMDVVYALKRQGR 96 (103)
T ss_pred HHhhhccCCHHHHHHHHHHcCcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCc-HHHHHHHHHHcCC
Confidence 5556665 38999999996 9999999999999999999999999999999999999999 9999999999998
>KOG3467|consensus
Back Show alignment and domain information
Probab=99.94 E-value=4.5e-27 Score=160.39 Aligned_cols=74 Identities=49% Similarity=0.635 Sum_probs=69.4
Q ss_pred ccCCCCC--CchhHHhhhcc-cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhCCCCc
Q psy17761 13 LRTPVSG--PPSVVWRVEVE-SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSRPHPC 87 (92)
Q Consensus 13 ~~~~v~~--~~aIRrlar~G-akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g~~~~ 87 (92)
|+.+|+| +|+||+|+++| ++||++.+|+|++.++++|+|+++.+|++||+||+||||| +|||+|+|||||+-.+
T Consensus 23 LsDnIqgitKpaIRRlARr~GVkRi~G~~yeE~~~~~k~fl~n~i~~A~~yt~HAKRKTvT-~~dvv~~LKR~G~~~~ 99 (103)
T KOG3467|consen 23 LRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVT-AMDVVYALKRQGRTLY 99 (103)
T ss_pred HHhhccccchHHHHHHHHhcCcchhchhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhceee-HHHHHHHHHHcCceee
Confidence 6677887 59999999997 9999999999999999999999999999999999999999 9999999999997544
>smart00417 H4 Histone H4
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Probab=99.92 E-value=6.4e-26 Score=148.19 Aligned_cols=65 Identities=46% Similarity=0.672 Sum_probs=59.5
Q ss_pred ccCCCCC--CchhHHhhhcc-cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHH
Q psy17761 13 LRTPVSG--PPSVVWRVEVE-SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLR 78 (92)
Q Consensus 13 ~~~~v~~--~~aIRrlar~G-akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~a 78 (92)
++.++.| +|+|++|+++| |+|||+++|+|++++|++|+++|++||++||+||+||||+ ++||+||
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 LRDNIQGITKPAIRRLARRGGVKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVT-AMDVVYA 74 (74)
T ss_pred HHhhhcCCCHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccc-HHHheeC
Confidence 4455556 38999999996 9999999999999999999999999999999999999999 9999875
>smart00803 TAF TATA box binding protein associated factor
Back Show alignment and domain information
Probab=99.79 E-value=1.9e-19 Score=114.28 Aligned_cols=60 Identities=13% Similarity=0.128 Sum_probs=57.6
Q ss_pred CchhHHhhhc-ccccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHH
Q psy17761 20 PPSVVWRVEV-ESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAK 80 (92)
Q Consensus 20 ~~aIRrlar~-GakRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alk 80 (92)
+++|++++++ |++|||+++|+++++.+|.|+++|+++|+.|++|++|||++ ++||.+|||
T Consensus 5 ~~~i~ria~~~Gi~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt-~~DI~~Alk 65 (65)
T smart00803 5 KETIKDVAESLGIGNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLT-TSDIDSALR 65 (65)
T ss_pred HHHHHHHHHHCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeec-HHHHHHHhC
Confidence 4889999988 59999999999999999999999999999999999999999 999999986
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.
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Back Show alignment and domain information
Probab=99.76 E-value=1.2e-18 Score=117.73 Aligned_cols=66 Identities=26% Similarity=0.241 Sum_probs=59.5
Q ss_pred chhHHhhh-cccccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhCCCCc
Q psy17761 21 PSVVWRVE-VESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSRPHPC 87 (92)
Q Consensus 21 ~aIRrlar-~GakRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g~~~~ 87 (92)
+.|+||.+ .|.+|||+++++++.+++++|+++|.++|+.||+|||||||+ ++||.+|++++|.+.+
T Consensus 23 apv~Ri~r~~~~~Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~-~~DI~la~~~~~~~~~ 89 (91)
T COG2036 23 APVRRILRKAGAERVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVK-AEDIKLALKRLGRRIY 89 (91)
T ss_pred hHHHHHHHHHhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeec-HHHHHHHHHHhccccc
Confidence 45555555 579999999999999999999999999999999999999999 9999999999997643
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T
Back Show alignment and domain information
Probab=99.44 E-value=8e-14 Score=112.96 Aligned_cols=64 Identities=25% Similarity=0.259 Sum_probs=43.2
Q ss_pred CcCCccCCCCCCch-hHHhhhccc-------ccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchh
Q psy17761 9 DAHGLRTPVSGPPS-VVWRVEVES-------SVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMD 74 (92)
Q Consensus 9 ~~hg~~~~v~~~~a-IRrlar~Ga-------kRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~D 74 (92)
.+|||.|| ++|++ |++++..-+ .+||.++|++|.++++||+|++..|.-+||+|||||||. .+|
T Consensus 343 Skhgi~~P-~lP~~~vK~la~~~ak~s~~sK~kiskdal~aleqasdwfFeQl~dDL~aYA~HAgRKTId-esD 414 (414)
T PF15511_consen 343 SKHGIPYP-SLPPGVVKKLAQHFAKSSGGSKMKISKDALEALEQASDWFFEQLGDDLEAYAKHAGRKTID-ESD 414 (414)
T ss_dssp ----------S-HHHHHHHHHHHH-------S-B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE--HHH
T ss_pred CCCCCCCC-CCCccHHHHHHHHHHHhhcccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCC-CCC
Confidence 46999999 88744 555555433 499999999999999999999999999999999999999 887
>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
Back Show alignment and domain information
Probab=99.41 E-value=5.7e-13 Score=92.54 Aligned_cols=60 Identities=13% Similarity=0.125 Sum_probs=57.2
Q ss_pred hHHhhhcccccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhC
Q psy17761 23 VVWRVEVESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSR 83 (92)
Q Consensus 23 IRrlar~GakRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g 83 (92)
.++|+..|++++++++...+.+.+..|.++|++||..|++|||||||+ ++||.+|++..+
T Consensus 8 ~~iLk~~Gv~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~-~eDV~lAi~~r~ 67 (117)
T cd07979 8 AAILKSMGITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANID-ADDVKLAIQSRV 67 (117)
T ss_pred HHHHHHCCCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCC-HHHHHHHHHHHh
Confidence 478888899999999999999999999999999999999999999999 999999998865
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
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins
Back Show alignment and domain information
Probab=99.37 E-value=2.1e-12 Score=83.16 Aligned_cols=62 Identities=16% Similarity=0.088 Sum_probs=58.6
Q ss_pred hHHhhhcccccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhCCC
Q psy17761 23 VVWRVEVESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSRPH 85 (92)
Q Consensus 23 IRrlar~GakRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g~~ 85 (92)
-++++..|++++++.+-+.+.++++.|+.++++.+..|++||||++++ ..||.+||+.+|.+
T Consensus 13 aqil~~~Gf~~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~-~~Dv~~Al~~~gi~ 74 (77)
T smart00576 13 AQILESAGFDSFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPN-LGDVVLALENLGIS 74 (77)
T ss_pred HHHHHHcCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCC-HHHHHHHHHHhCcc
Confidence 467778899999999999999999999999999999999999999999 99999999999864
subdomain of archael histone-like transcription factors
>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
Back Show alignment and domain information
Probab=99.34 E-value=4e-12 Score=81.43 Aligned_cols=62 Identities=15% Similarity=0.106 Sum_probs=54.7
Q ss_pred chhHHhhhcc--cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhC
Q psy17761 21 PSVVWRVEVE--SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSR 83 (92)
Q Consensus 21 ~aIRrlar~G--akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g 83 (92)
..+.-|.+.. -.|+++++.+++.+++++|+++|+.+|+.+|+|+|||||+ +.||.++|+|.-
T Consensus 5 ~~l~~lv~~id~~~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~-~~Di~l~l~r~~ 68 (72)
T cd07981 5 RKLQELLKEIDPREQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLE-VKDVQLHLERNW 68 (72)
T ss_pred HHHHHHHHhhCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCC-HHHHHHHHHHhc
Confidence 3444455543 5799999999999999999999999999999999999999 999999999864
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
>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
Back Show alignment and domain information
Probab=99.06 E-value=4.3e-10 Score=88.98 Aligned_cols=65 Identities=17% Similarity=0.197 Sum_probs=59.4
Q ss_pred hhHHhhhc-ccccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhCCCCc
Q psy17761 22 SVVWRVEV-ESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSRPHPC 87 (92)
Q Consensus 22 aIRrlar~-GakRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g~~~~ 87 (92)
+|+.+++. |++|+|+++..++...++.++.+|+++|+.+++|++|||++ ++||.+||+..+..|.
T Consensus 4 ~i~~ia~~~Gi~~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~-~~Di~~Al~~~n~epl 69 (343)
T cd08050 4 SIKLIAESLGIDSLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLT-TSDVNHALRLRNVEPL 69 (343)
T ss_pred HHHHHHHHcCCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCC-HHHHHHHHHHhCCCcc
Confidence 45555555 89999999999999999999999999999999999999999 9999999999877764
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
>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 [, ]
Back Show alignment and domain information
Probab=99.03 E-value=5.3e-10 Score=70.07 Aligned_cols=60 Identities=20% Similarity=0.181 Sum_probs=54.0
Q ss_pred chhHHhhhcc-c-----ccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHh
Q psy17761 21 PSVVWRVEVE-S-----SVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKT 81 (92)
Q Consensus 21 ~aIRrlar~G-a-----kRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr 81 (92)
+.|.++.+.- . .|||.++++.+..++|.|+.+|+.+|..+|.|++|+|++ +.||.+|++.
T Consensus 9 ~~~~r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~-~~DI~~A~r~ 74 (75)
T PF00125_consen 9 FPFSRLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTIT-PRDIQLAVRI 74 (75)
T ss_dssp HHHHHHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEG-HHHHHHHHHH
T ss_pred eEEeeeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEec-HHHHHHHHhc
Confidence 5677776663 2 399999999999999999999999999999999999999 9999999874
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 ....
>PLN00163 histone H4; Provisional
Back Show alignment and domain information
Probab=98.92 E-value=2.3e-10 Score=72.50 Aligned_cols=34 Identities=41% Similarity=0.619 Sum_probs=29.1
Q ss_pred ccCCCCC--CchhHHhhhcc-cccchhhHHHHHHHHH
Q psy17761 13 LRTPVSG--PPSVVWRVEVE-SSVFAGLIYEETRGVL 46 (92)
Q Consensus 13 ~~~~v~~--~~aIRrlar~G-akRIS~~iy~elr~vL 46 (92)
++.++.+ +||||+||++| |||||+++|+|+|++|
T Consensus 23 lrd~i~gItKpaIrRLARRgGVKRIs~~iY~e~R~vl 59 (59)
T PLN00163 23 LRDNIQGITKPAIRRLARRGGVKRISGLIYEETRTVL 59 (59)
T ss_pred HHHhhcccchHHHHHHHHhcCceeecchhhHhHhccC
Confidence 4555566 49999999997 9999999999999875
>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
Back Show alignment and domain information
Probab=98.75 E-value=3.4e-08 Score=61.04 Aligned_cols=57 Identities=12% Similarity=0.046 Sum_probs=49.6
Q ss_pred hhHHhhhc--ccccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHH
Q psy17761 22 SVVWRVEV--ESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRA 79 (92)
Q Consensus 22 aIRrlar~--GakRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~al 79 (92)
-|+++.+. +..+||.++.+.+..+.+.|++.+..+|...|++.+||||+ .+||..|+
T Consensus 7 ~vkri~k~~~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~~rkti~-~~Dv~~Av 65 (65)
T PF00808_consen 7 RVKRIMKSDPDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTIT-YEDVAKAV 65 (65)
T ss_dssp HHHHHHHHTSTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE--HHHHHHHH
T ss_pred HHHHHhccCCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccC-HHHHHHHC
Confidence 45666555 48899999999999999999999999999999999999999 99999875
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 ....
>PF07524 Bromo_TP: Bromodomain associated; InterPro: IPR006565 This bromodomain is found in eukaryotic transcription factors and PHD domain containing proteins (IPR001965 from INTERPRO)
Back Show alignment and domain information
Probab=98.72 E-value=6.9e-08 Score=61.52 Aligned_cols=61 Identities=15% Similarity=0.072 Sum_probs=57.6
Q ss_pred HHhhhcccccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhCCC
Q psy17761 24 VWRVEVESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSRPH 85 (92)
Q Consensus 24 Rrlar~GakRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g~~ 85 (92)
.++...|.+.+++.+-+.+.+++..|++++.+.+..|++|++|.... ..||.++|+..|.+
T Consensus 14 ~il~~~GF~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~-~~Dv~~al~~~gi~ 74 (77)
T PF07524_consen 14 QILKHAGFDSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPN-LQDVEQALEEMGIS 74 (77)
T ss_pred HHHHHcCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCC-HHHHHHHHHHhCCC
Confidence 46777899999999999999999999999999999999999999999 99999999999975
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 [, ].
>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
Back Show alignment and domain information
Probab=98.64 E-value=1.2e-07 Score=60.72 Aligned_cols=60 Identities=20% Similarity=0.147 Sum_probs=50.1
Q ss_pred CchhHHhhhc-ccccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHH
Q psy17761 20 PPSVVWRVEV-ESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAK 80 (92)
Q Consensus 20 ~~aIRrlar~-GakRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alk 80 (92)
+-+|+-++.. |+.-+++++...+.+-++..+.+|+.+|..+..|++|++.+ ++||-.|||
T Consensus 6 ~esvk~iAes~Gi~~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt-~~Di~~ALr 66 (66)
T PF02969_consen 6 QESVKDIAESLGISNLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLT-TDDINSALR 66 (66)
T ss_dssp HHHHHHHHHHTT---B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB--HHHHHHHH-
T ss_pred HHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCC-HHHHHHHhC
Confidence 4578888888 89999999999999999999999999999999999999999 999999996
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.
>smart00428 H3 Histone H3
Back Show alignment and domain information
Probab=98.62 E-value=9.8e-08 Score=66.05 Aligned_cols=51 Identities=20% Similarity=0.135 Sum_probs=47.8
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhCC
Q psy17761 33 VFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSRP 84 (92)
Q Consensus 33 RIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g~ 84 (92)
|+++++.+++.++.|.|+.++.+||...|.||+|+|++ +.|+.++.+--|.
T Consensus 53 R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~-~kDi~La~rir~~ 103 (105)
T smart00428 53 RFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIM-PKDIQLARRIRGE 103 (105)
T ss_pred eeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCc-HhhHHHHHHHhcc
Confidence 99999999999999999999999999999999999999 9999999854443
>cd00074 H2A Histone 2A; H2A is a subunit of the nucleosome
Back Show alignment and domain information
Probab=98.59 E-value=1.1e-07 Score=66.41 Aligned_cols=58 Identities=12% Similarity=-0.003 Sum_probs=52.3
Q ss_pred hHHhhh-cccccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHh
Q psy17761 23 VVWRVE-VESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKT 81 (92)
Q Consensus 23 IRrlar-~GakRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr 81 (92)
-|+|++ ++++|||+++...+..+||.+..+|++-|..++++++||+|+ ++||.+|.+.
T Consensus 27 ~R~Lk~~~~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krIt-p~hi~lAi~n 85 (115)
T cd00074 27 HRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRIT-PRHLQLAVRN 85 (115)
T ss_pred HHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEc-HHHHHHHHhc
Confidence 355554 459999999999999999999999999999999999999999 9999999864
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.
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C
Back Show alignment and domain information
Probab=98.51 E-value=1.8e-07 Score=61.28 Aligned_cols=48 Identities=23% Similarity=0.263 Sum_probs=42.0
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHh
Q psy17761 33 VFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKT 81 (92)
Q Consensus 33 RIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr 81 (92)
.+|..+...+.+..=.+++.+++|...+|+||||+||+ .+||.+.++|
T Consensus 25 ~~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~-~dDV~Ll~Rr 72 (76)
T PF15630_consen 25 EVSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTIN-MDDVKLLARR 72 (76)
T ss_dssp EE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE--HHHHHHHTTT
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeec-HHHHHHHhhc
Confidence 58889999999999999999999999999999999999 9999998865
>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 []
Back Show alignment and domain information
Probab=98.25 E-value=3.3e-06 Score=60.11 Aligned_cols=61 Identities=20% Similarity=0.202 Sum_probs=49.5
Q ss_pred CchhH----HhhhcccccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHh
Q psy17761 20 PPSVV----WRVEVESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKT 81 (92)
Q Consensus 20 ~~aIR----rlar~GakRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr 81 (92)
|.+.| +|+..|+.--..-+..-+-+..-.|..+|+.||..|++||+|++++ .+||.+|.+-
T Consensus 12 PrDa~~i~~iL~~~Gv~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~-~~DVrLAi~~ 76 (129)
T PF02291_consen 12 PRDARVIHLILKSMGVTEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTID-ADDVRLAIQS 76 (129)
T ss_dssp -HHHHHHHHHHHHTT---B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB--HHHHHHHHHH
T ss_pred ChHHHHHHHHHHHcCCcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCC-hHHHHHHHHH
Confidence 45555 7888899988899999999999999999999999999999999999 9999999983
TAFII-31 protein is a transcriptional coactivator of the p53 protein [].; GO: 0006352 transcription initiation, DNA-dependent; PDB: 1TAF_A.
>KOG0869|consensus
Back Show alignment and domain information
Probab=97.93 E-value=2.4e-05 Score=58.21 Aligned_cols=63 Identities=13% Similarity=-0.052 Sum_probs=57.0
Q ss_pred hhHHhhhcc--cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhCCC
Q psy17761 22 SVVWRVEVE--SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSRPH 85 (92)
Q Consensus 22 aIRrlar~G--akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g~~ 85 (92)
-.|++++.= --.||.|+.+-+.+..-+|+.=|--+|-.-|...+||||+ .+|+..||..+|..
T Consensus 38 V~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIn-gdDllwAm~tLGFe 102 (168)
T KOG0869|consen 38 VSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTIN-GDDLLWAMSTLGFE 102 (168)
T ss_pred HHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCccc-HHHHHHHHHHcCcH
Confidence 357777663 5589999999999999999999999999999999999999 99999999999954
>KOG3334|consensus
Back Show alignment and domain information
Probab=97.68 E-value=0.00015 Score=53.15 Aligned_cols=62 Identities=18% Similarity=0.116 Sum_probs=53.5
Q ss_pred chhHHhhhcccccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhC
Q psy17761 21 PSVVWRVEVESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSR 83 (92)
Q Consensus 21 ~aIRrlar~GakRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g 83 (92)
.-.-+|+..|++=-..-+..-+-++.=-|-..|+.||--|++||++.||. ++||++|+....
T Consensus 18 ~i~~iL~s~GI~eyEprVi~qlLefa~rYtt~vL~DA~vys~HA~ka~i~-~eDVrlA~~~~~ 79 (148)
T KOG3334|consen 18 VIASILKSLGIQEYEPRVINQLLEFAYRYTTTVLDDAKVYSSHAKKATID-AEDVRLAIQMRV 79 (148)
T ss_pred HHHHHHHHcCccccChHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCc-HHHHHHHHHHHh
Confidence 33457788898877777777888888889999999999999999999999 999999998754
>PLN00161 histone H3; Provisional
Back Show alignment and domain information
Probab=97.51 E-value=0.00028 Score=51.05 Aligned_cols=55 Identities=18% Similarity=0.085 Sum_probs=50.0
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhCCCCc
Q psy17761 32 SVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSRPHPC 87 (92)
Q Consensus 32 kRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g~~~~ 87 (92)
=|+..++...+.++.|.||-++..|+...|-||+|-|+. .-|+.++.+--|..++
T Consensus 77 ~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm-~kDm~La~rirg~~~~ 131 (135)
T PLN00161 77 FRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIM-PKDMQLARRIRGPIYG 131 (135)
T ss_pred cEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccc-hhhHHHHHHhcccccc
Confidence 488899999999999999999999999999999999999 9999999866666554
>PLN00160 histone H3; Provisional
Back Show alignment and domain information
Probab=97.37 E-value=0.00045 Score=47.37 Aligned_cols=51 Identities=18% Similarity=0.123 Sum_probs=47.0
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhC
Q psy17761 32 SVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSR 83 (92)
Q Consensus 32 kRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g 83 (92)
=|+.+++...+.++.|.||-++..|+...|-||+|-|+. +-|+.++.+--|
T Consensus 43 ~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~-~kD~~L~~rirg 93 (97)
T PLN00160 43 YRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIM-PKDMQLARRIRG 93 (97)
T ss_pred cEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccc-hhhHHHHHHhhc
Confidence 589999999999999999999999999999999999999 999999874433
>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 []
Back Show alignment and domain information
Probab=97.36 E-value=0.00065 Score=43.53 Aligned_cols=51 Identities=16% Similarity=0.124 Sum_probs=43.0
Q ss_pred cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhh
Q psy17761 31 SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTS 82 (92)
Q Consensus 31 akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~ 82 (92)
-..+-+++.+-+-++..+|+++|+..|+.+|+|-+=.|+. ..||.+.|+|.
T Consensus 15 ~~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~tle-~~Dv~~~Ler~ 65 (68)
T PF03847_consen 15 NEKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSSTLE-VKDVQLHLERN 65 (68)
T ss_dssp S----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE--HHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCC-HHHHHHHHHhh
Confidence 5678899999999999999999999999999999999999 99999999984
; GO: 0006352 transcription initiation, DNA-dependent, 0005669 transcription factor TFIID complex; PDB: 1H3O_B.
>COG5094 TAF9 Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Back Show alignment and domain information
Probab=97.35 E-value=0.00073 Score=49.11 Aligned_cols=67 Identities=22% Similarity=0.229 Sum_probs=56.0
Q ss_pred CCCCCchhH----HhhhcccccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccc--cchhHHHHHHhh
Q psy17761 16 PVSGPPSVV----WRVEVESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGH--QRMDSRLRAKTS 82 (92)
Q Consensus 16 ~v~~~~aIR----rlar~GakRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt--~~~DV~~alkr~ 82 (92)
-||||-++| +|+..|++--+..+--.+-+..-.|-.++++||.-|++|+||-.+. .++||.+|+..+
T Consensus 10 sv~gPrDvrlihliL~Slgi~~ye~~VplQLl~FAhRYTq~vl~Dalvya~htgrg~~a~l~veDvrLA~at~ 82 (145)
T COG5094 10 SVSGPRDVRLIHLILRSLGIEEYEPKVPLQLLEFAHRYTQDVLEDALVYAKHTGRGHIATLGVEDVRLALATK 82 (145)
T ss_pred cccCCcchhHHHHHHHhcCchhhCccchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCcccHHHHHHHHHHH
Confidence 388988887 4577788888888877888888889999999999999999997666 159999999763
>PTZ00018 histone H3; Provisional
Back Show alignment and domain information
Probab=97.22 E-value=0.00076 Score=48.74 Aligned_cols=50 Identities=20% Similarity=0.129 Sum_probs=46.6
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhC
Q psy17761 33 VFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSR 83 (92)
Q Consensus 33 RIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g 83 (92)
|+..++.+.+.++.|.||-.+..|+...|-||+|-|+. .-|+.++.+--|
T Consensus 84 rf~~~al~aLQeaaE~yLv~lfed~~lca~HakRVTl~-~kD~~L~~rirg 133 (136)
T PTZ00018 84 RFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIM-PKDIQLARRIRG 133 (136)
T ss_pred eeeHHHHHHHHHHHHHHHHHHhhhhHHHHHhhcceecc-hhhHHHHHHhcc
Confidence 88999999999999999999999999999999999999 999999975444
>PLN00121 histone H3; Provisional
Back Show alignment and domain information
Probab=97.17 E-value=0.00093 Score=48.27 Aligned_cols=50 Identities=20% Similarity=0.129 Sum_probs=46.5
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhC
Q psy17761 33 VFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSR 83 (92)
Q Consensus 33 RIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g 83 (92)
|+..++...+.++.|.||-++..|+...|-||+|-|+. +-|+.++.+--|
T Consensus 84 Rf~~~Al~ALQeaaE~yLv~lfed~~lca~HakRVTl~-~kD~~L~~rirg 133 (136)
T PLN00121 84 RFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIM-PKDIQLARRIRG 133 (136)
T ss_pred eeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcceecc-hhhHHHHHHhcc
Confidence 89999999999999999999999999999999999999 999999984444
>KOG2549|consensus
Back Show alignment and domain information
Probab=97.08 E-value=0.0017 Score=55.88 Aligned_cols=66 Identities=15% Similarity=0.096 Sum_probs=60.0
Q ss_pred CchhHHhhhc-ccccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhCCCC
Q psy17761 20 PPSVVWRVEV-ESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSRPHP 86 (92)
Q Consensus 20 ~~aIRrlar~-GakRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g~~~ 86 (92)
+-+++-+|.. |.+=|+.++-..+..-++..+++|++||.++..|++|.+.+ .+||.+||+-.+.-|
T Consensus 14 ~Es~k~vAEslGi~nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLt-v~DV~~ALr~~nVep 80 (576)
T KOG2549|consen 14 KESVKVVAESLGITNLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLT-VDDVDYALRSLNVEP 80 (576)
T ss_pred HHHHHHHHHHhCccccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCc-HHHHHHHHhhccccc
Confidence 5677888887 89999999999999999999999999999999999999999 999999998765443
>KOG4336|consensus
Back Show alignment and domain information
Probab=96.95 E-value=0.0027 Score=51.45 Aligned_cols=62 Identities=13% Similarity=0.040 Sum_probs=57.1
Q ss_pred HhhhcccccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhCCCCc
Q psy17761 25 WRVEVESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSRPHPC 87 (92)
Q Consensus 25 rlar~GakRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g~~~~ 87 (92)
.|+..|..=||..+-+++.+.+..|+.+|.|.+-.||+|+||--.+ .-||.+.|.++|.+=-
T Consensus 14 Ll~~~gfd~is~~aletlvell~~yi~eigrq~~n~celagRT~pT-~~Dv~l~Li~mnI~v~ 75 (323)
T KOG4336|consen 14 LLKTKGFDSISNAALETLVELLQSYIREIGRQLHNYCELAGRTIPT-QGDVKLTLIEMNIKVS 75 (323)
T ss_pred HHHHhCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCc-HHHHHHHHHHhCCChh
Confidence 5677798899999999999999999999999999999999999888 9999999999997643
>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)
Back Show alignment and domain information
Probab=96.83 E-value=0.0017 Score=43.40 Aligned_cols=52 Identities=4% Similarity=-0.026 Sum_probs=22.9
Q ss_pred cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhC
Q psy17761 31 SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSR 83 (92)
Q Consensus 31 akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g 83 (92)
++.-+.+...-+-+++.+|+.+++..|..+|...|+++++ .+|+.+++++-.
T Consensus 17 ~~~P~~eTv~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~-~eDl~F~lR~D~ 68 (93)
T PF02269_consen 17 VEEPLPETVDLVEDIVREYIIELCQEAMEVAQRRGSKKIK-VEDLLFLLRKDP 68 (93)
T ss_dssp -SS--HHHHHHHHHHHHHHHHHHHHHHHC------------------------
T ss_pred CCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCcCc-HHHHHHHHhcCH
Confidence 6666777777888889999999999999999999999999 999999997643
Determination of the crystal structure reveals an atypical histone fold [].; GO: 0006366 transcription from RNA polymerase II promoter; PDB: 1BH9_A 1BH8_A.
>KOG1142|consensus
Back Show alignment and domain information
Probab=96.74 E-value=0.0023 Score=50.50 Aligned_cols=66 Identities=12% Similarity=0.133 Sum_probs=55.2
Q ss_pred CCCCCchhHHhhhc--ccccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhh
Q psy17761 16 PVSGPPSVVWRVEV--ESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTS 82 (92)
Q Consensus 16 ~v~~~~aIRrlar~--GakRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~ 82 (92)
|+.++.-+.-|.+. |-+-|-+++-+-|-++..+|++.|+.-++.+|+|.+-.||. +-||.+.|||-
T Consensus 153 ~il~k~kl~dLvqqId~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlE-vrDIqLhLEr~ 220 (258)
T KOG1142|consen 153 PILSKRKLDDLVQQIDGTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVE-VRDIQLHLERN 220 (258)
T ss_pred ccccccchhHHHHhhcCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccc-hhheeeeeecc
Confidence 34445555555554 45677888999999999999999999999999999999999 99999999983
>smart00427 H2B Histone H2B
Back Show alignment and domain information
Probab=96.41 E-value=0.012 Score=39.97 Aligned_cols=49 Identities=10% Similarity=0.114 Sum_probs=45.3
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHh
Q psy17761 32 SVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKT 81 (92)
Q Consensus 32 kRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr 81 (92)
..||..+..-+...+.+.+|.|+.+|...+...+|+|++ ..+|..|.+-
T Consensus 18 ~giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~Tlt-sreIqtAvrl 66 (89)
T smart00427 18 TGISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLS-SREIQTAVRL 66 (89)
T ss_pred ccccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCC-HHHHHHHHHH
Confidence 478999999999999999999999999999999999999 9999988753
>smart00414 H2A Histone 2A
Back Show alignment and domain information
Probab=96.26 E-value=0.012 Score=40.63 Aligned_cols=58 Identities=12% Similarity=0.016 Sum_probs=50.3
Q ss_pred hHHhhhcc--cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHh
Q psy17761 23 VVWRVEVE--SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKT 81 (92)
Q Consensus 23 IRrlar~G--akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr 81 (92)
|.++-+.| ++|||+.+..-+..+||.+..+|+.-|..++...+++-|+ +.++.+|...
T Consensus 15 i~r~Lk~~~~~~Rv~~~A~VyLaAvLEYLtaEILeLagn~a~~~k~~rIt-p~hi~lAi~n 74 (106)
T smart00414 15 IHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRIT-PRHLQLAIRN 74 (106)
T ss_pred HHHHHHcCccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccc-hHHHhhhccC
Confidence 44444554 9999999888899999999999999999999999999999 9999988743
>PLN00158 histone H2B; Provisional
Back Show alignment and domain information
Probab=95.51 E-value=0.045 Score=38.84 Aligned_cols=49 Identities=10% Similarity=0.116 Sum_probs=44.3
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHh
Q psy17761 32 SVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKT 81 (92)
Q Consensus 32 kRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr 81 (92)
-.||..++.-+...+.+.+|.|+.+|...+.+.+|+|++ ..+|..|.+-
T Consensus 44 ~gIS~kaM~ImnSfvnDiferIA~EAs~La~~nkr~Tlt-srEIqtAvrL 92 (116)
T PLN00158 44 TGISSKAMSIMNSFINDIFEKIATEAGKLARYNKKPTVT-SREIQTAVRL 92 (116)
T ss_pred CCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCC-HHHHHHHHHH
Confidence 367888888899999999999999999999999999999 9999888753
>PTZ00463 histone H2B; Provisional
Back Show alignment and domain information
Probab=95.32 E-value=0.054 Score=38.49 Aligned_cols=49 Identities=10% Similarity=0.062 Sum_probs=44.4
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHh
Q psy17761 32 SVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKT 81 (92)
Q Consensus 32 kRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr 81 (92)
..||..++.-+...+.+.+|.|+.+|...+.+.+|+|++ ..||..|.+-
T Consensus 45 ~gIS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~Tlt-srEIQtAvrL 93 (117)
T PTZ00463 45 TGISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLS-SREIQTAIRL 93 (117)
T ss_pred CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCC-HHHHHHHHhh
Confidence 368888888999999999999999999999999999999 9999888753
>KOG0870|consensus
Back Show alignment and domain information
Probab=95.17 E-value=0.062 Score=40.37 Aligned_cols=60 Identities=10% Similarity=-0.068 Sum_probs=50.7
Q ss_pred hHHhhhcc-c---ccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhC
Q psy17761 23 VVWRVEVE-S---SVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSR 83 (92)
Q Consensus 23 IRrlar~G-a---kRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g 83 (92)
|+||.+.- - -=||.++-..+......|+-.+.--|-..|.-++|||++ +.||+-||...+
T Consensus 16 I~rlvke~l~E~~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~s-adDVl~aL~Eie 79 (172)
T KOG0870|consen 16 ITRLVKEVLPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTIS-ADDVLKALDEIE 79 (172)
T ss_pred HHHHHHHhCccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccc-HHHHHHHHHHhc
Confidence 45555543 2 347888889999999999999999999999999999999 999999998876
>PTZ00017 histone H2A; Provisional
Back Show alignment and domain information
Probab=95.16 E-value=0.045 Score=39.55 Aligned_cols=57 Identities=12% Similarity=0.012 Sum_probs=50.5
Q ss_pred hHHhhhcc--cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHH
Q psy17761 23 VVWRVEVE--SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAK 80 (92)
Q Consensus 23 IRrlar~G--akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alk 80 (92)
|.++-+.| ++||++.+..-+..+||.+..+|+.-|..++...+++-|+ +.++.+|+.
T Consensus 33 i~R~Lk~g~~a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~RIt-PrHi~lAI~ 91 (134)
T PTZ00017 33 VHRYLKKGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRIT-PRHIQLAIR 91 (134)
T ss_pred HHHHHhccchhccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCeec-HHHHHhhcc
Confidence 55555555 9999998888899999999999999999999999999999 999999874
>PLN00157 histone H2A; Provisional
Back Show alignment and domain information
Probab=94.30 E-value=0.092 Score=37.87 Aligned_cols=58 Identities=12% Similarity=0.040 Sum_probs=50.9
Q ss_pred hhHHhhhcc--cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHH
Q psy17761 22 SVVWRVEVE--SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAK 80 (92)
Q Consensus 22 aIRrlar~G--akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alk 80 (92)
=|.++-+.| ++|||+.+-.-+..+||....+|+.-|...+...+++-|+ +.++.+|+.
T Consensus 31 Ri~R~Lk~g~~a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RIt-PrHi~lAI~ 90 (132)
T PLN00157 31 RIARYLKAGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRIV-PRHIQLAVR 90 (132)
T ss_pred HHHHHHhcCchhhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCcccc-HHHHhhccc
Confidence 455666666 9999999888899999999999999999999999999999 999888874
>KOG1745|consensus
Back Show alignment and domain information
Probab=93.59 E-value=0.061 Score=39.11 Aligned_cols=52 Identities=19% Similarity=0.146 Sum_probs=48.1
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhCCC
Q psy17761 33 VFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSRPH 85 (92)
Q Consensus 33 RIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g~~ 85 (92)
|+-+++...+.++.|.||-.+-.|+--.|-||+|-||. +-|+-+|.+--|.|
T Consensus 85 rfqs~Ai~ALQeA~EayLv~LfEdtnlcAihAkRVTim-pkdiQlArrirg~~ 136 (137)
T KOG1745|consen 85 RFQSSAIAALQEAAEAYLVGLFEDTNLCAIHAKRVTIM-PKDIQLARRIRGER 136 (137)
T ss_pred eehHHHHHHHHHHHHHHHHHhccccchhhhccceeEec-ccceehhhhcccCC
Confidence 88899999999999999999999999999999999999 99999998765543
>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
Back Show alignment and domain information
Probab=93.47 E-value=0.33 Score=32.59 Aligned_cols=49 Identities=6% Similarity=-0.052 Sum_probs=39.1
Q ss_pred cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHh
Q psy17761 31 SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKT 81 (92)
Q Consensus 31 akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr 81 (92)
+..=+.+...-+-+++.+|+.+++..|...|. .+|.=++ .+|+.+++++
T Consensus 18 ~~~P~~eTv~llE~iv~~~i~~l~~~a~~~A~-~r~~k~~-~eD~~FliR~ 66 (92)
T cd07978 18 VQNPLPETVDLLEDIVVEYIIELCHKAAEVAQ-RRRGKVK-VEDLIFLLRK 66 (92)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-cCCCCCC-HHHHHHHHhc
Confidence 55556666677778888999999999999998 5555568 9999999954
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
>PLN00156 histone H2AX; Provisional
Back Show alignment and domain information
Probab=93.47 E-value=0.2 Score=36.44 Aligned_cols=65 Identities=17% Similarity=0.135 Sum_probs=52.9
Q ss_pred CccCCCCCCchhHHhhhcc--cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHH
Q psy17761 12 GLRTPVSGPPSVVWRVEVE--SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAK 80 (92)
Q Consensus 12 g~~~~v~~~~aIRrlar~G--akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alk 80 (92)
||--||+ =|.++-+.| ++||++.+..-+..+||....+|+.-|..-+...+++-|+ +..+.+|.+
T Consensus 27 gL~FPVg---Ri~R~Lk~g~ya~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RIt-PrHi~lAIr 93 (139)
T PLN00156 27 GLQFPVG---RIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIV-PRHIQLAVR 93 (139)
T ss_pred CcccchH---HHHHHHhcCChhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCc-HHHHHhhcc
Confidence 4555532 244444555 9999999888899999999999999999999999999999 999888874
>PLN00153 histone H2A; Provisional
Back Show alignment and domain information
Probab=93.44 E-value=0.19 Score=36.12 Aligned_cols=65 Identities=17% Similarity=0.121 Sum_probs=53.2
Q ss_pred CccCCCCCCchhHHhhhcc--cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHH
Q psy17761 12 GLRTPVSGPPSVVWRVEVE--SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAK 80 (92)
Q Consensus 12 g~~~~v~~~~aIRrlar~G--akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alk 80 (92)
||--|| +=|.++-+.| ++||++.+-.-+..+||....+|+.-|...+...+++-|+ +..+.+|.+
T Consensus 22 gL~FpV---gRi~R~Lr~g~~a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RIt-PrHi~lAI~ 88 (129)
T PLN00153 22 GLQFPV---GRIARYLKKGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIV-PRHIQLAIR 88 (129)
T ss_pred Ccccch---HHHHHHHhcCchhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccC-hHHHHhhcc
Confidence 455553 2355555665 9999998888899999999999999999999999999999 998888874
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Back Show alignment and domain information
Probab=93.10 E-value=0.25 Score=41.23 Aligned_cols=64 Identities=16% Similarity=0.068 Sum_probs=55.3
Q ss_pred hhHHhhhc-ccccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhCCCC
Q psy17761 22 SVVWRVEV-ESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSRPHP 86 (92)
Q Consensus 22 aIRrlar~-GakRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g~~~ 86 (92)
.+.-.|.. |..-|..|+...+.-=+|..+.+|+.+|+.+--|.+|.-.+ ..||-+||+..+-.|
T Consensus 10 t~KdvAeslGi~Ni~Dd~l~alamDlEYRI~ev~qea~KFmvhSKRtvLt-~dDis~ALr~lNVeP 74 (450)
T COG5095 10 TLKDVAESLGISNIDDDALRALAMDLEYRIKEVCQEASKFMVHSKRTVLT-IDDISYALRSLNVEP 74 (450)
T ss_pred HHHHHHHHcCCcccccHHHHHHHHhHHHHHHHHHHHHHHHhhcccceeee-HHhHHHHHHhcCCCc
Confidence 44445554 78889999999999999999999999999999999999888 999999998875444
>KOG3423|consensus
Back Show alignment and domain information
Probab=93.05 E-value=0.4 Score=36.22 Aligned_cols=61 Identities=5% Similarity=-0.068 Sum_probs=47.0
Q ss_pred HhhhcccccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcC-------------CcccccchhHHHHHHhhCCC
Q psy17761 25 WRVEVESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAK-------------RQTGHQRMDSRLRAKTSRPH 85 (92)
Q Consensus 25 rlar~GakRIS~~iy~elr~vLe~fle~IirdavtyaeHA~-------------RKTVt~~~DV~~alkr~g~~ 85 (92)
.|.++|+.-.-.-+..-+.-+-..|+.+|+.||..|++-.. ||.+-+.+|..-||+..|.|
T Consensus 95 yL~~aGf~~~D~rv~RLvsLaAQKfvSDIa~DA~Q~~k~r~~~~~~~~k~~~kdkK~tLtmeDL~~AL~EyGin 168 (176)
T KOG3423|consen 95 YLKKAGFQTSDPRVKRLVSLAAQKFVSDIANDALQHSKIRTKTAIGKDKKQAKDKKYTLTMEDLSPALAEYGIN 168 (176)
T ss_pred HHHhcCCCcCcHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccccccccccceeeeHHHHHHHHHHhCcc
Confidence 58899976555555555666778999999999999987543 34333499999999999976
>KOG0871|consensus
Back Show alignment and domain information
Probab=92.36 E-value=0.37 Score=35.79 Aligned_cols=70 Identities=10% Similarity=-0.110 Sum_probs=59.0
Q ss_pred CCCC-chhHHhhhcccc---cchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhCCCCc
Q psy17761 17 VSGP-PSVVWRVEVESS---VFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSRPHPC 87 (92)
Q Consensus 17 v~~~-~aIRrlar~Gak---RIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g~~~~ 87 (92)
+++| ..|-.+.+--.. ||..++-+-+...--+|+--|..+|-..|+-..+|||. .+-|.-||+.+|.+-+
T Consensus 11 ~sLPkAtv~KmIke~lP~d~rvakeareliincCvEFI~liSsEAneic~~e~KKTIa-~EHV~KALe~LgF~eY 84 (156)
T KOG0871|consen 11 LSLPKATVNKMIKEMLPKDVRVAKEARELIINCCVEFINLISSEANEICNKEAKKTIA-PEHVIKALENLGFGEY 84 (156)
T ss_pred ccCcHHHHHHHHHHhCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcccCC-HHHHHHHHHHcchHHH
Confidence 3554 556666665432 88889999999999999999999999999999999999 9999999999997643
>PLN00154 histone H2A; Provisional
Back Show alignment and domain information
Probab=92.34 E-value=0.36 Score=35.07 Aligned_cols=58 Identities=10% Similarity=0.040 Sum_probs=50.3
Q ss_pred hhHHhhhcc---cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHH
Q psy17761 22 SVVWRVEVE---SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAK 80 (92)
Q Consensus 22 aIRrlar~G---akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alk 80 (92)
=|.++-+.| ..|||..+-.-+..+||....+|++-|..++...+++-|+ +.++.+|.+
T Consensus 43 Ri~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RIt-PrHi~lAIr 103 (136)
T PLN00154 43 RIHRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRIT-PRHLQLAIR 103 (136)
T ss_pred HHHHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceec-HHHhhhhcc
Confidence 355556665 5799999888899999999999999999999999999999 999988874
>KOG2389|consensus
Back Show alignment and domain information
Probab=91.67 E-value=0.37 Score=39.72 Aligned_cols=49 Identities=20% Similarity=0.201 Sum_probs=44.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhCCC
Q psy17761 36 GLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSRPH 85 (92)
Q Consensus 36 ~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g~~ 85 (92)
..+-+-|.+++..|+.++.+.|-.|+++|+|--.. .-||+.||+-++.+
T Consensus 49 ~sale~Ltd~~~qyvQ~lgk~a~~~~n~anR~epn-l~Div~Al~dls~s 97 (353)
T KOG2389|consen 49 NSALETLTDVLQQYVQNLGKTAHRYSNLANRTEPN-LFDIVLALQDLSAS 97 (353)
T ss_pred cHHHHHHHHHHHHHHHHHHhhhhhhhhhcCCCCcc-HHHHHHHHHHhhhh
Confidence 34678899999999999999999999999999888 99999999988754
>KOG1744|consensus
Back Show alignment and domain information
Probab=91.60 E-value=0.61 Score=33.58 Aligned_cols=48 Identities=10% Similarity=0.075 Sum_probs=42.8
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHh
Q psy17761 33 VFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKT 81 (92)
Q Consensus 33 RIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr 81 (92)
-||..+..-++..+.+++|.|+-+|-.++++-+|.||+ ..++..+.+-
T Consensus 55 gis~~a~~vmnsf~ndife~iA~ea~rla~y~krstis-Sreiqta~rL 102 (127)
T KOG1744|consen 55 GISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTIS-SREIQTAVRL 102 (127)
T ss_pred CcCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCccc-HHHHHHHHHH
Confidence 37888889999999999999999999999999999999 8888877643
>PTZ00252 histone H2A; Provisional
Back Show alignment and domain information
Probab=91.49 E-value=0.55 Score=34.07 Aligned_cols=66 Identities=15% Similarity=0.059 Sum_probs=50.3
Q ss_pred CCccCCCCCCchhHHhhhcc--cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhh--cCCcccccchhHHHHHH
Q psy17761 11 HGLRTPVSGPPSVVWRVEVE--SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRH--AKRQTGHQRMDSRLRAK 80 (92)
Q Consensus 11 hg~~~~v~~~~aIRrlar~G--akRIS~~iy~elr~vLe~fle~IirdavtyaeH--A~RKTVt~~~DV~~alk 80 (92)
=||-.||+ =|.++-+.| ++||++.+-.-+..+||....+|+.-|..-+.. .+++-|+ +..+.+|.+
T Consensus 22 AGL~FPVg---Ri~R~Lr~g~ya~RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~kk~RIt-PrHi~lAIr 91 (134)
T PTZ00252 22 AGLIFPVG---RVGSLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPKRLT-PRTVTLAVR 91 (134)
T ss_pred cCccCchH---HHHHHHHcCCcccccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccCCccccc-HHHHHhhcc
Confidence 35666642 244444555 999998877779999999999999999998854 4667788 888888874
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]
Back Show alignment and domain information
Probab=89.30 E-value=0.59 Score=37.09 Aligned_cols=60 Identities=13% Similarity=0.095 Sum_probs=53.4
Q ss_pred hhHHhhhc--ccccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhh
Q psy17761 22 SVVWRVEV--ESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTS 82 (92)
Q Consensus 22 aIRrlar~--GakRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~ 82 (92)
-|+++-+- +||=||+.+---..++-|.|++++--.|-..||..+|.|.. .+|+-.|+++.
T Consensus 114 RIkkvMKtdedVkMisaEaPvlFak~~EiFI~ELTmRAW~~ae~NkRRtLQ-ksDia~Av~kS 175 (286)
T COG5208 114 RIKKVMKTDEDVKMISAEAPVLFAKITEIFIEELTMRAWINAEENKRRTLQ-KSDIAAAVKKS 175 (286)
T ss_pred HHHHHHhcccchhheecccchHHHHHHHHHHHHHHHHHHHHHhHhhhhHHH-HHHHHHHHHHH
Confidence 35555555 49999999988899999999999999999999999999999 99999999885
>KOG1756|consensus
Back Show alignment and domain information
Probab=87.83 E-value=1.7 Score=31.56 Aligned_cols=66 Identities=15% Similarity=0.106 Sum_probs=53.8
Q ss_pred CCccCCCCCCchhHHhhhcc--cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHH
Q psy17761 11 HGLRTPVSGPPSVVWRVEVE--SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAK 80 (92)
Q Consensus 11 hg~~~~v~~~~aIRrlar~G--akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alk 80 (92)
-||-.||+ .|-++-+.| +.|||.++-.-+..+|+....+|..-|-..+.-.+++-|+ +.-+.+|+.
T Consensus 24 agl~fPvg---ri~r~Lr~~~~~~ri~~gapV~laavLeYL~Aeile~agnaardnkk~ri~-PrH~~lAI~ 91 (131)
T KOG1756|consen 24 AGLQFPVG---RIHRLLRKGRYAQRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIT-PRHLQLAIR 91 (131)
T ss_pred cccccCHH---HHHHHHHccchhhhccCCChHHHHHHHHHHHHHHHHHhHHHhhhcCccccC-hHHHHHHHh
Confidence 35666744 565665656 9999999888899999999899999888888888888899 888888875
>KOG1657|consensus
Back Show alignment and domain information
Probab=87.72 E-value=1 Score=34.97 Aligned_cols=61 Identities=10% Similarity=0.022 Sum_probs=56.0
Q ss_pred chhHHhhhcc--cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhh
Q psy17761 21 PSVVWRVEVE--SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTS 82 (92)
Q Consensus 21 ~aIRrlar~G--akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~ 82 (92)
..|+++.+.- +.-|+.++---+.++.|.|++.+--.+-.+|+-.+|+|+. ..|+--++.+.
T Consensus 78 aRiKkimK~dedv~mI~~Eapvl~aka~E~Fi~elt~~sw~~Tee~~rrtl~-~sdia~av~~s 140 (236)
T KOG1657|consen 78 ARIKKIMKSDEDVSMITAEAPVLFAKACELFITELTLRSWVHTEENKRRTLQ-KSDIAAAVTQS 140 (236)
T ss_pred hhccccccccccccccchhHHHHHHHHHHHHHHHHHHHhhhhhcccccccch-HHHHHHHhccC
Confidence 6788888885 9999999999999999999999999999999999999999 99999888765
>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
Back Show alignment and domain information
Probab=84.89 E-value=4.3 Score=30.17 Aligned_cols=57 Identities=11% Similarity=0.040 Sum_probs=44.6
Q ss_pred HHhhhcccccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhc------CCcccccchhHHHHHHh
Q psy17761 24 VWRVEVESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHA------KRQTGHQRMDSRLRAKT 81 (92)
Q Consensus 24 Rrlar~GakRIS~~iy~elr~vLe~fle~IirdavtyaeHA------~RKTVt~~~DV~~alkr 81 (92)
++.+..|.+-|++++++-+-.+++.+|..|+.+++..++|- ...++- .+||.--|+.
T Consensus 56 ~i~~~~g~~~~~~d~~~lis~a~e~rlr~li~k~~~~s~hR~~~~~~~~r~~~-~sdvr~qL~~ 118 (212)
T cd08045 56 KIAKKHGLKEVDEDVLDLISLALEERLRNLLEKLIEVSEHRVDSEKEDERYEI-TSDVRKQLRF 118 (212)
T ss_pred HHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCceee-cchHHHHHHH
Confidence 44555577799999999999999999999999999999994 223444 5677665544
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
>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
Back Show alignment and domain information
Probab=83.62 E-value=6.3 Score=26.07 Aligned_cols=62 Identities=8% Similarity=0.050 Sum_probs=51.5
Q ss_pred CchhHHhhhcc-cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCC---cccccchhHHHHHHhh
Q psy17761 20 PPSVVWRVEVE-SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKR---QTGHQRMDSRLRAKTS 82 (92)
Q Consensus 20 ~~aIRrlar~G-akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~R---KTVt~~~DV~~alkr~ 82 (92)
++.|+++...= -..+|.++...+.++.|.|+-+|+..|.+..+.-+. +=+. +..+..|.+++
T Consensus 19 k~~iKr~~~~~~~~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~-P~HireA~rrl 84 (85)
T cd08048 19 KAAIKRLIQSVTGQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQ-PRHLREAYRRL 84 (85)
T ss_pred HHHHHHHHHHHcCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCC-cHHHHHHHHHh
Confidence 46788887763 478999999999999999999999999988877554 5666 88888888775
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
>PF09415 CENP-X: CENP-S associating Centromere protein X; InterPro: IPR018552 Centromere protein X (CENP-X) is a component of the CENP-S complex
Back Show alignment and domain information
Probab=83.08 E-value=2.4 Score=27.35 Aligned_cols=48 Identities=4% Similarity=-0.042 Sum_probs=38.5
Q ss_pred cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcc-cccchhHHHHH
Q psy17761 31 SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQT-GHQRMDSRLRA 79 (92)
Q Consensus 31 akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKT-Vt~~~DV~~al 79 (92)
-.|||+++-.-+.++++.|..+-+.-|+.-++-.+-.+ |. .+|+.-.+
T Consensus 17 ~tkIs~dal~l~~eyl~iFV~EAv~Ra~~~a~~e~~~~~le-~e~LEki~ 65 (72)
T PF09415_consen 17 KTKISKDALKLSAEYLRIFVREAVARAAEQAEAEGDEGFLE-VEHLEKIL 65 (72)
T ss_dssp T-EE-CCCHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSEE--HHHHHHHC
T ss_pred CCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCC-HHHHHHHH
Confidence 56999999999999999999999999998888888888 88 88876543
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.
>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
Back Show alignment and domain information
Probab=82.31 E-value=4.6 Score=24.79 Aligned_cols=39 Identities=8% Similarity=0.033 Sum_probs=27.8
Q ss_pred HhhhcccccchhhHHHHHHHHHHHHHHHHHHHHHhhhhh
Q psy17761 25 WRVEVESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRH 63 (92)
Q Consensus 25 rlar~GakRIS~~iy~elr~vLe~fle~IirdavtyaeH 63 (92)
.|.++|++=--.-+..-+.-+...|+++|+.||..|++.
T Consensus 11 yL~~~G~~~~D~rv~RLvSLaaQKFisdI~~dA~q~~k~ 49 (51)
T PF03540_consen 11 YLERSGFQTSDPRVKRLVSLAAQKFISDIANDAMQYCKI 49 (51)
T ss_pred HHHHCCCCCCCHhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 577778553233344445666789999999999999875
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
>KOG1659|consensus
Back Show alignment and domain information
Probab=81.01 E-value=5.1 Score=31.37 Aligned_cols=57 Identities=11% Similarity=0.099 Sum_probs=46.8
Q ss_pred hHHhhhcc--cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHH
Q psy17761 23 VVWRVEVE--SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAK 80 (92)
Q Consensus 23 IRrlar~G--akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alk 80 (92)
|.++-..- +-+|+..+-.-+-++||-|++.++..+...|.--+-|||+ ++=++.+..
T Consensus 19 iKKIMQ~dEdIGKvaqavPViisralElFl~~l~~~t~~~t~~~~aKt~s-~~hlkq~v~ 77 (224)
T KOG1659|consen 19 IKKIMQSDEDIGKVAQAVPVIISRALELFLESLLQKTLEITRSRGAKTVS-SSHLKQAVE 77 (224)
T ss_pred HHHHHhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCccccC-HHHHHHHHh
Confidence 44444443 7788888888899999999999999999999999999999 877666653
Homologous Structure Domains
Structure Domains Detected by RPS-BLAST
Original result of RPS-BLAST against SCOP70(version1.75) database
ID Alignment Graph Length
Definition
E-value Query 92
d2huec1 82
a.22.1.1 (C:20-101) Histone H4 {African clawed fro
5e-08 d1f1ea_ 151
a.22.1.2 (A:) Archaeal histone {Archaeon Methanopy
3e-04 d1ku5a_ 66
a.22.1.2 (A:) Archaeal histone {Archaeon (Pyrococc
0.001
>d2huec1 a.22.1.1 (C:20-101) Histone H4 {African clawed frog (Xenopus laevis) [TaxId: 8355]} Length = 82
Back Hide information, alignment and structure
class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Nucleosome core histones
domain: Histone H4
species: African clawed frog (Xenopus laevis) [TaxId: 8355]
Score = 44.0 bits (104), Expect = 5e-08
Identities = 29/35 (82%), Positives = 31/35 (88%)
Query: 34 FAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQT 68
+GLIYEETRGVLKV LENVIRDAVTY HAKR+T
Sbjct: 27 ISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKT 61
>d1f1ea_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanopyrus kandleri [TaxId: 2320]} Length = 151
Back Show information, alignment and structure
class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Archaeal histone
domain: Archaeal histone
species: Archaeon Methanopyrus kandleri [TaxId: 2320]
Score = 35.1 bits (81), Expect = 3e-04
Identities = 9/52 (17%), Positives = 15/52 (28%), Gaps = 1/52 (1%)
Query: 35 AGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSRPHP 86
+ + ++ E + A Y R+T Q D S P
Sbjct: 98 SSDAVDLYNKLICRATEELGEKAAEYADEDGRKT-VQGEDVEKAITYSMPKG 148
>d1ku5a_ a.22.1.2 (A:) Archaeal histone {Archaeon (Pyrococcus horikoshii) [TaxId: 53953]} Length = 66
Back Show information, alignment and structure
class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Archaeal histone
domain: Archaeal histone
species: Archaeon (Pyrococcus horikoshii) [TaxId: 53953]
Score = 32.4 bits (74), Expect = 0.001
Identities = 11/51 (21%), Positives = 22/51 (43%), Gaps = 2/51 (3%)
Query: 20 PPSVVWRV--EVESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQT 68
P + V R+ + + + + L+ + + AV + RHA R+T
Sbjct: 4 PIAPVDRLIRKAGAERVSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKT 54
Homologous Domains Detected by HHsearch
Original result of HHsearch against SCOP70(version1.75) database
ID Alignment Graph Length
Definition
Probability Query 92
d2huec1 82
Histone H4 {African clawed frog (Xenopus laevis) [
99.89 d1htaa_ 68
Archaeal histone {Archaeon Methanothermus fervidus
99.65 d1ku5a_ 66
Archaeal histone {Archaeon (Pyrococcus horikoshii)
99.61 d1f1ea_ 151
Archaeal histone {Archaeon Methanopyrus kandleri [
99.36 d1f1ea_ 151
Archaeal histone {Archaeon Methanopyrus kandleri [
99.19 d1q9ca_ 172
Histone domain of Son of sevenless protein {Human
98.86 d1n1ja_ 87
Nuclear transcription factor Y subunit beta (Nf-Yb
98.57 d1tafb_ 70
TAF(II)62 {Fruit fly (Drosophila melanogaster) [Ta
98.57 d1tafa_ 68
TAF(II)42 {Fruit fly (Drosophila melanogaster) [Ta
98.56 d1jfib_ 135
Negative cofactor 2, NC2, beta chain {Human (Homo
98.46 d1jfia_ 66
Negative cofactor 2, NC2, alpha chain {Human (Homo
98.43 d1n1jb_ 78
Nuclear transcription factor Y subunit gamma (Nf-Y
98.38 d2bykb1 89
Chrac-14 {Fruit fly (Drosophila melanogaster) [Tax
98.21 d1tzyc_ 95
Histone H3 {Chicken (Gallus gallus), erythrocytes
98.1 d2byka1 72
Chrac-16 {Fruit fly (Drosophila melanogaster) [Tax
97.35 d1h3ob_ 74
TAF(II)-20, (TAF(II)-15, hTAF12), histone fold dom
97.09 d1tzyb_ 92
Histone H2B {Chicken (Gallus gallus), erythrocytes
97.0 d1f66c_ 103
Histone H2A {Human (Homo sapiens), variant H2A.Z [
96.72 d1u35c1 106
macro-H2A.1, histone domain {Human (Homo sapiens)
96.29 d1tzya_ 106
Histone H2A {Chicken (Gallus gallus), erythrocytes
96.24 d1fnna2 276
CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T
84.2
>d2huec1 a.22.1.1 (C:20-101) Histone H4 {African clawed frog (Xenopus laevis) [TaxId: 8355]}
Back Hide information, alignment and structure
class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Nucleosome core histones
domain: Histone H4
species: African clawed frog (Xenopus laevis) [TaxId: 8355]
Probab=99.89 E-value=7.5e-24 Score=136.98 Aligned_cols=73 Identities=49% Similarity=0.658 Sum_probs=65.9
Q ss_pred ccCCCCC--CchhHHhhhcc-cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhCCCCc
Q psy17761 13 LRTPVSG--PPSVVWRVEVE-SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSRPHPC 87 (92)
Q Consensus 13 ~~~~v~~--~~aIRrlar~G-akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g~~~~ 87 (92)
++.++.| +|+|++|++++ ++|||+++|+++++++++|+++|++||+.|++||+||||+ ++||.+||||+| +|+
T Consensus 3 ~~d~i~gI~k~~i~Riar~~Gv~ris~d~~~~l~~~l~~~l~~i~~~a~~~~~hakRKTvt-~~DV~~Alkr~g-~pl 78 (82)
T d2huec1 3 LRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVT-AMDVVYALKRQG-RTL 78 (82)
T ss_dssp GGGGCCSSCHHHHHHHHHHTTCCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEEC-HHHHHHHTTTTC-EEE
T ss_pred hhhhhcCcCHHHHHHHHHHcCcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCC-HHHHHHHHHhcC-CCC
Confidence 3455566 38999999985 9999999999999999999999999999999999999999 999999999988 353
>d1htaa_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanothermus fervidus, histone A [TaxId: 2180]}
Back Show information, alignment and structure
class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Archaeal histone
domain: Archaeal histone
species: Archaeon Methanothermus fervidus, histone A [TaxId: 2180]
Probab=99.65 E-value=1.3e-16 Score=97.88 Aligned_cols=61 Identities=20% Similarity=0.135 Sum_probs=57.3
Q ss_pred chhHHhhhcc-cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhh
Q psy17761 21 PSVVWRVEVE-SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTS 82 (92)
Q Consensus 21 ~aIRrlar~G-akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~ 82 (92)
..|++|.+.+ +.|||.++++++.++++.|+..|+.+|.+||+|++||||+ .+||..|||++
T Consensus 7 a~I~ri~k~~~~~ris~ea~~~l~~~~e~fi~~l~~~a~~~a~~~kRkTi~-~~DV~~Alk~~ 68 (68)
T d1htaa_ 7 APIGRIIKNAGAERVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIK-AEDIELARKMF 68 (68)
T ss_dssp HHHHHHHHHTTCSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSCC-HHHHHHHHHTC
T ss_pred HHHHHHHHHCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCC-HHHHHHHHHhC
Confidence 6787777774 9999999999999999999999999999999999999999 99999999974
>d1ku5a_ a.22.1.2 (A:) Archaeal histone {Archaeon (Pyrococcus horikoshii) [TaxId: 53953]}
Back Show information, alignment and structure
class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Archaeal histone
domain: Archaeal histone
species: Archaeon (Pyrococcus horikoshii) [TaxId: 53953]
Probab=99.61 E-value=6.4e-16 Score=94.50 Aligned_cols=59 Identities=20% Similarity=0.177 Sum_probs=56.0
Q ss_pred chhHHhhhcc-cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHH
Q psy17761 21 PSVVWRVEVE-SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAK 80 (92)
Q Consensus 21 ~aIRrlar~G-akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alk 80 (92)
..|++|.+.+ .+|||+++++++.++++.|++.+.++|.+||+|++||||+ .+||..||+
T Consensus 6 a~I~rI~k~~~~~ris~ea~~~l~~a~e~Fi~~l~~~a~~~a~~~~RKTI~-~~Dv~~Al~ 65 (66)
T d1ku5a_ 6 APVDRLIRKAGAERVSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVK-VEDIKLAIK 65 (66)
T ss_dssp HHHHHHHHHTTCSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEEC-HHHHHHHHT
T ss_pred HHHHHHHHhCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCC-HHHHHHHHh
Confidence 6788888876 9999999999999999999999999999999999999999 999999996
>d1f1ea_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanopyrus kandleri [TaxId: 2320]}
Back Show information, alignment and structure
class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Archaeal histone
domain: Archaeal histone
species: Archaeon Methanopyrus kandleri [TaxId: 2320]
Probab=99.36 E-value=5.3e-13 Score=92.74 Aligned_cols=63 Identities=13% Similarity=-0.004 Sum_probs=57.4
Q ss_pred CchhHHhhhc-ccccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhC
Q psy17761 20 PPSVVWRVEV-ESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSR 83 (92)
Q Consensus 20 ~~aIRrlar~-GakRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g 83 (92)
+..|++|.+. |++|||.++++.+.++++.|+.+|+++|..||.|++||||+ .+||.+|+...=
T Consensus 82 ~a~IkRi~k~~g~~ris~dA~~~l~~~~E~fi~~l~~~A~~~a~~~kRkTI~-~~DI~~Av~~~~ 145 (151)
T d1f1ea_ 82 RATVRRILKRAGIERASSDAVDLYNKLICRATEELGEKAAEYADEDGRKTVQ-GEDVEKAITYSM 145 (151)
T ss_dssp HHHHHHHHHHTTCCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEEC-HHHHHHHHHHHS
T ss_pred HHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCC-HHHHHHHHHHcC
Confidence 4677666665 69999999999999999999999999999999999999999 999999998753
>d1f1ea_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanopyrus kandleri [TaxId: 2320]}
Back Show information, alignment and structure
class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Archaeal histone
domain: Archaeal histone
species: Archaeon Methanopyrus kandleri [TaxId: 2320]
Probab=99.19 E-value=1.7e-11 Score=85.03 Aligned_cols=62 Identities=8% Similarity=-0.023 Sum_probs=56.3
Q ss_pred chhHHhhh--cccccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhC
Q psy17761 21 PSVVWRVE--VESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSR 83 (92)
Q Consensus 21 ~aIRrlar--~GakRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g 83 (92)
.+|.++.+ .|..|||.++++++.+++++|++.|+.+|+.+++|++||||+ ++||..+++..|
T Consensus 5 a~I~rilk~~~~~~ris~da~~~l~~~~~~~~~~Ia~eA~~l~~~~~rKTi~-~edi~~a~~~~~ 68 (151)
T d1f1ea_ 5 AAIERIFRQGIGERRLSQDAKDTIYDFVPTMAEYVANAAKSVLDASGKKTLM-EEHLKALADVLM 68 (151)
T ss_dssp HHHHHHHHTTSTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEEC-HHHHHHHHHHHT
T ss_pred cHHHHHHHHhCCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCC-HHHHHHHHHhcc
Confidence 45555555 379999999999999999999999999999999999999999 999999998877
>d1q9ca_ a.22.1.3 (A:) Histone domain of Son of sevenless protein {Human (Homo sapiens) [TaxId: 9606]}
Back Show information, alignment and structure
class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: Histone domain of Son of sevenless protein
species: Human (Homo sapiens) [TaxId: 9606]
Probab=98.86 E-value=1.7e-09 Score=77.36 Aligned_cols=57 Identities=14% Similarity=0.075 Sum_probs=53.2
Q ss_pred hHHhhhcccccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHH
Q psy17761 23 VVWRVEVESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAK 80 (92)
Q Consensus 23 IRrlar~GakRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alk 80 (92)
=|+|++.++.|||+++...+..+||.+.++|++.|..||+|++||||+ ++||.+|++
T Consensus 106 ~rlLk~~~a~RVs~~A~vyLaavLEyl~aeILelAgn~a~~~krkrIt-p~dI~lAi~ 162 (172)
T d1q9ca_ 106 HPLLKEVLGYKIDHQVSVYIVAVLEYISADILKLAGNYVRNIRHYEIT-KQDIKVAMC 162 (172)
T ss_dssp HHHHHHHHSSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSBCC-HHHHHHHHH
T ss_pred HHHHHhccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCceec-HHHHHHHHh
Confidence 366666679999999999999999999999999999999999999999 999999985
>d1n1ja_ a.22.1.3 (A:) Nuclear transcription factor Y subunit beta (Nf-Yb3) {Human (Homo sapiens) [TaxId: 9606]}
Back Show information, alignment and structure
class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: Nuclear transcription factor Y subunit beta (Nf-Yb3)
species: Human (Homo sapiens) [TaxId: 9606]
Probab=98.57 E-value=1.3e-07 Score=59.54 Aligned_cols=63 Identities=14% Similarity=0.045 Sum_probs=57.6
Q ss_pred chhHHhhh-c--ccccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhCC
Q psy17761 21 PSVVWRVE-V--ESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSRP 84 (92)
Q Consensus 21 ~aIRrlar-~--GakRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g~ 84 (92)
.-|+++.+ . +..+||.++...+.++.+.|+..+..+|...|...+||||+ .+||..|++..|.
T Consensus 6 a~v~ri~K~~~p~~~~is~ea~~~i~~a~e~Fi~~lt~~A~~~a~~~~rKTI~-~~dv~~Al~~~~~ 71 (87)
T d1n1ja_ 6 ANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTIN-GEDILFAMSTLGF 71 (87)
T ss_dssp HHHHHHHHHTSCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBC-HHHHHHHHHHTTC
T ss_pred hHHHHHHHHhCCccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHcCc
Confidence 45677776 3 48899999999999999999999999999999999999999 9999999999885
>d1tafb_ a.22.1.3 (B:) TAF(II)62 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}
Back Show information, alignment and structure
class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: TAF(II)62
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]
Probab=98.57 E-value=8.2e-08 Score=60.14 Aligned_cols=60 Identities=22% Similarity=0.210 Sum_probs=57.2
Q ss_pred CchhHHhhhc-ccccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHH
Q psy17761 20 PPSVVWRVEV-ESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAK 80 (92)
Q Consensus 20 ~~aIRrlar~-GakRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alk 80 (92)
+-+|+-++.. |+.-+++++...+..=.+..+.+|+.+|+.+-.|++|++.+ ++||-.|||
T Consensus 9 ~esik~iAeS~Gi~~l~de~a~~LA~DveYRl~eiiQeA~KFMrhskR~~Lt-t~Did~ALk 69 (70)
T d1tafb_ 9 AESMKVIAESIGVGSLSDDAAKELAEDVSIKLKRIVQDAAKFMNHAKRQKLS-VRDIDMSLK 69 (70)
T ss_dssp HHHHHHHHHHTTCCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBC-HHHHHHHHC
T ss_pred HHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCcCc-HHHHHHHHc
Confidence 4688889988 89999999999999999999999999999999999999999 999999996
>d1tafa_ a.22.1.3 (A:) TAF(II)42 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}
Back Show information, alignment and structure
class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: TAF(II)42
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]
Probab=98.56 E-value=9.7e-08 Score=59.46 Aligned_cols=57 Identities=18% Similarity=0.207 Sum_probs=51.8
Q ss_pred HHhhhcccccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHh
Q psy17761 24 VWRVEVESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKT 81 (92)
Q Consensus 24 Rrlar~GakRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr 81 (92)
-+|+..|+.--.+-+-.-+-+..-.|...|+.||..|++||||++|+ ++||.+|.+.
T Consensus 9 ~iL~~~GV~~yeprV~~qlLef~yRYtt~VL~DA~vys~HA~k~~id-~dDVkLAi~~ 65 (68)
T d1tafa_ 9 SILKELNVQEYEPRVVNQLLEFTFRYVTSILDDAKVYANHARKKTID-LDDVRLATEV 65 (68)
T ss_dssp HHHHHTTCCCBCTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBC-HHHHHHHHHH
T ss_pred HHHHHcCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCC-HHHHHHHHHh
Confidence 36788899888888888899999999999999999999999999999 9999999853
>d1jfib_ a.22.1.3 (B:) Negative cofactor 2, NC2, beta chain {Human (Homo sapiens) [TaxId: 9606]}
Back Show information, alignment and structure
class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: Negative cofactor 2, NC2, beta chain
species: Human (Homo sapiens) [TaxId: 9606]
Probab=98.46 E-value=2.6e-07 Score=62.59 Aligned_cols=68 Identities=7% Similarity=-0.063 Sum_probs=60.1
Q ss_pred CCCC-chhHHhhhcc--cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhCCC
Q psy17761 17 VSGP-PSVVWRVEVE--SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSRPH 85 (92)
Q Consensus 17 v~~~-~aIRrlar~G--akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g~~ 85 (92)
+++| .-|++|.+.- ..+||.++...+..+.+.|+..|...|...|...+||||+ .+||.-||+..|..
T Consensus 3 l~LP~a~I~kI~K~~~~~~~is~dA~~~i~~a~~~Fi~~lt~~A~~~a~~~~RkTi~-~~Dv~~Al~~~~f~ 73 (135)
T d1jfib_ 3 LTIPRAAINKMIKETLPNVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTIS-PEHVIQALESLGFG 73 (135)
T ss_dssp CCCCHHHHHHHHHHHSTTCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBC-HHHHHHHHHHHTTG
T ss_pred ccccHHHHHHHHhhCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccc-HHHHHHHHHHcCcH
Confidence 3566 4566666664 7899999999999999999999999999999999999999 99999999999853
>d1jfia_ a.22.1.3 (A:) Negative cofactor 2, NC2, alpha chain {Human (Homo sapiens) [TaxId: 9606]}
Back Show information, alignment and structure
class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: Negative cofactor 2, NC2, alpha chain
species: Human (Homo sapiens) [TaxId: 9606]
Probab=98.43 E-value=9.7e-08 Score=57.50 Aligned_cols=57 Identities=11% Similarity=0.086 Sum_probs=48.6
Q ss_pred hhHHhhhcc--cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHH
Q psy17761 22 SVVWRVEVE--SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRA 79 (92)
Q Consensus 22 aIRrlar~G--akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~al 79 (92)
-|+++.+.. +.+||.++...+..++|.|+..+..+|...|+..+||||+ ..|+..|+
T Consensus 7 rVkkimk~~~~~~~is~~A~~~~~~a~E~Fi~~l~~~A~~~a~~~krktI~-~~dl~~ai 65 (66)
T d1jfia_ 7 RIKKIMQTDEEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNAKTMT-TSHLKQCI 65 (66)
T ss_dssp HHHHHHTTSTTCCCBCTTHHHHHHHHHHHHHHHHHHHHHHHHHTC---CBC-HHHHHTTC
T ss_pred HHHHHHhcCCccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCC-HHHHHHHh
Confidence 366666665 9999999999999999999999999999999999999999 99998764
>d1n1jb_ a.22.1.3 (B:) Nuclear transcription factor Y subunit gamma (Nf-Yc2) {Human (Homo sapiens) [TaxId: 9606]}
Back Show information, alignment and structure
class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: Nuclear transcription factor Y subunit gamma (Nf-Yc2)
species: Human (Homo sapiens) [TaxId: 9606]
Probab=98.38 E-value=4.3e-07 Score=55.75 Aligned_cols=60 Identities=10% Similarity=0.038 Sum_probs=54.8
Q ss_pred hhHHhhhcc--cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhh
Q psy17761 22 SVVWRVEVE--SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTS 82 (92)
Q Consensus 22 aIRrlar~G--akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~ 82 (92)
-|++|.+.. +.+||.++...+..+.+.|+..+...|...|+..+||||+ .+|+..|++..
T Consensus 5 rVkrImK~~~~~~~is~ea~~~i~~a~E~Fi~~l~~~A~~~a~~~~rkti~-~~dl~~av~~~ 66 (78)
T d1n1jb_ 5 RIKKIMKLDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQ-RNDIAMAITKF 66 (78)
T ss_dssp HHHHHHTTSTTCCCBCTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEEC-HHHHHHHHTTC
T ss_pred HHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCC-HHHHHHHHhcC
Confidence 466777654 8999999999999999999999999999999999999999 99999999754
>d2bykb1 a.22.1.3 (B:11-99) Chrac-14 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}
Back Show information, alignment and structure
class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: Chrac-14
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]
Probab=98.21 E-value=2.3e-06 Score=53.91 Aligned_cols=63 Identities=10% Similarity=-0.051 Sum_probs=56.7
Q ss_pred hhHHhhh-c--ccccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhCCC
Q psy17761 22 SVVWRVE-V--ESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSRPH 85 (92)
Q Consensus 22 aIRrlar-~--GakRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g~~ 85 (92)
-|++|.+ . ...+||.++...+..+.+.|+..+..+|...|...+||||+ .+||..||+..|..
T Consensus 4 ~i~ri~K~~~p~~~~iskeA~~~i~~aae~FI~~lt~~A~~~a~~~~rKtI~-~~dv~~Al~~~~f~ 69 (89)
T d2bykb1 4 VIGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTIT-AKDILQTLTELDFE 69 (89)
T ss_dssp HHHHHHHHHSCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSCC-HHHHHHHHHHTTCT
T ss_pred HHHHHHHHhCcccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccC-HHHHHHHHHHCCcH
Confidence 4566665 3 37899999999999999999999999999999999999999 99999999998854
>d1tzyc_ a.22.1.1 (C:) Histone H3 {Chicken (Gallus gallus), erythrocytes [TaxId: 9031]}
Back Show information, alignment and structure
class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Nucleosome core histones
domain: Histone H3
species: Chicken (Gallus gallus), erythrocytes [TaxId: 9031]
Probab=98.10 E-value=3.1e-06 Score=55.01 Aligned_cols=52 Identities=19% Similarity=0.107 Sum_probs=48.9
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhhCC
Q psy17761 32 SVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSRP 84 (92)
Q Consensus 32 kRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~g~ 84 (92)
-|+++++.+.+.++.|.||-++..||..+|-||+|.|+. ..|+.++.+--|-
T Consensus 42 ~r~~~~Al~aLQea~E~yLv~lfeda~~~a~HakRvTl~-~kD~~LarrirG~ 93 (95)
T d1tzyc_ 42 LRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIM-PKDIQLARRIRGE 93 (95)
T ss_dssp CEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEEC-HHHHHHHHHHHTC
T ss_pred CEeeHHHHHHHHHHHHHHHHHHHHHhHHHHHhcCCCcCC-HHHHHHHHHHhcc
Confidence 499999999999999999999999999999999999999 9999999876663
>d2byka1 a.22.1.3 (A:29-100) Chrac-16 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}
Back Show information, alignment and structure
class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: Chrac-16
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]
Probab=97.35 E-value=0.00024 Score=43.07 Aligned_cols=52 Identities=4% Similarity=-0.031 Sum_probs=47.1
Q ss_pred cccchhhHHHHHHHHHHHHHHHHHHHHHhhh-hhcCCcccccchhHHHHHHhhC
Q psy17761 31 SSVFAGLIYEETRGVLKVVLENVIRDAVTYP-RHAKRQTGHQRMDSRLRAKTSR 83 (92)
Q Consensus 31 akRIS~~iy~elr~vLe~fle~Iirdavtya-eHA~RKTVt~~~DV~~alkr~g 83 (92)
+..||.++.--+..+.|-|++.++.+|..++ ++.+|||++ ..|+..+.+...
T Consensus 7 v~~is~ea~~lvskAtElFi~~L~~~a~~~a~~~~~~ktl~-~~dl~~aV~~~~ 59 (72)
T d2byka1 7 TGLITNEVLFLMTKCTELFVRHLAGAAYTEEFGQRPGEALK-YEHLSQVVNKNK 59 (72)
T ss_dssp CSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSCEEC-HHHHHHHHHTCS
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccc-HHHHHHHHccCc
Confidence 7889999999999999999999999998887 677789999 999999987654
>d1h3ob_ a.22.1.3 (B:) TAF(II)-20, (TAF(II)-15, hTAF12), histone fold domain {Human (Homo sapiens) [TaxId: 9606]}
Back Show information, alignment and structure
class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: TBP-associated factors, TAFs
domain: TAF(II)-20, (TAF(II)-15, hTAF12), histone fold domain
species: Human (Homo sapiens) [TaxId: 9606]
Probab=97.09 E-value=0.00067 Score=42.06 Aligned_cols=65 Identities=18% Similarity=0.111 Sum_probs=55.7
Q ss_pred CCCCchhHHhhhc--ccccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHhh
Q psy17761 17 VSGPPSVVWRVEV--ESSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTS 82 (92)
Q Consensus 17 v~~~~aIRrlar~--GakRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr~ 82 (92)
|..+..+.-|.+. +-..+.+++-+-+-++..+|+++++..|+..|+|-+=+|+. +-||.+.|+|.
T Consensus 3 il~K~~L~eLv~~idp~~~ld~~vee~ll~iADdFV~~V~~~ac~lAKhR~s~~le-~kDvql~LeR~ 69 (74)
T d1h3ob_ 3 VLTKKKLQDLVREVDPNEQLDEDVEEMLLQIADDFIESVVTAACQLARHRKSSTLE-VKDVQLHLERQ 69 (74)
T ss_dssp SSCHHHHHHHHHHHCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCEEC-HHHHHHHHHHH
T ss_pred cccHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCc-HHHHHHHHHhh
Confidence 3445555555555 36678999999999999999999999999999999999999 99999999984
>d1tzyb_ a.22.1.1 (B:) Histone H2B {Chicken (Gallus gallus), erythrocytes [TaxId: 9031]}
Back Show information, alignment and structure
class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Nucleosome core histones
domain: Histone H2B
species: Chicken (Gallus gallus), erythrocytes [TaxId: 9031]
Probab=97.00 E-value=0.00067 Score=43.55 Aligned_cols=50 Identities=10% Similarity=0.089 Sum_probs=46.8
Q ss_pred cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHh
Q psy17761 31 SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKT 81 (92)
Q Consensus 31 akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr 81 (92)
-..||..+..-+...+.+.+|.|+.+|...+.+.+|+|++ ..||..|++-
T Consensus 19 ~~giS~kam~imnsfvndiferIa~EA~~La~~~kr~Tit-sreIqtAvrL 68 (92)
T d1tzyb_ 19 DTGISSKAMGIMNSFVNDIFERIAGEASRLAHYNKRSTIT-SREIQTAVRL 68 (92)
T ss_dssp TCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEEC-HHHHHHHHHH
T ss_pred CCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCc-HHHHHHHHHH
Confidence 4689999999999999999999999999999999999999 9999998864
>d1f66c_ a.22.1.1 (C:) Histone H2A {Human (Homo sapiens), variant H2A.Z [TaxId: 9606]}
Back Show information, alignment and structure
class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Nucleosome core histones
domain: Histone H2A
species: Human (Homo sapiens), variant H2A.Z [TaxId: 9606]
Probab=96.72 E-value=0.0021 Score=41.62 Aligned_cols=57 Identities=11% Similarity=-0.027 Sum_probs=49.9
Q ss_pred HHhhhcc-cc-cchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHHh
Q psy17761 24 VWRVEVE-SS-VFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKT 81 (92)
Q Consensus 24 Rrlar~G-ak-RIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alkr 81 (92)
|+|++.. ++ ||++.+---+..+||....+|+.-|..++.-.+++.|+ +.|+.+|.+.
T Consensus 19 r~L~~~~~~~~rv~~~A~VyLaAvLEYL~aEILelagn~a~~~~~~rIt-pr~l~lai~n 77 (103)
T d1f66c_ 19 RHLKSRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRIT-PRHLQLAIRG 77 (103)
T ss_dssp HHHHHTSCSSCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEEC-HHHHHHHHHH
T ss_pred HHHhccCccceecCCCceeeHHHHHHHHHHHHHHHhhhhhccCCCCeee-chhhhccccC
Confidence 5666555 76 59988888899999999999999999999999999999 9999999863
>d1u35c1 a.22.1.1 (C:814-919) macro-H2A.1, histone domain {Human (Homo sapiens) [TaxId: 9606]}
Back Show information, alignment and structure
class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Nucleosome core histones
domain: macro-H2A.1, histone domain
species: Human (Homo sapiens) [TaxId: 9606]
Probab=96.29 E-value=0.0044 Score=40.37 Aligned_cols=57 Identities=12% Similarity=0.008 Sum_probs=50.7
Q ss_pred hHHhhhcc--cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHH
Q psy17761 23 VVWRVEVE--SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAK 80 (92)
Q Consensus 23 IRrlar~G--akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alk 80 (92)
|.++-+.| ++|||+.+---+..+||....+|+.-|-.+|...+++-|+ ..|+.+|++
T Consensus 17 i~r~Lk~~~~~~rv~~~apVylaAVLEYL~aEILELAgn~a~~~k~~rIt-prhi~lair 75 (106)
T d1u35c1 17 MLRYIKKGHPKYRIGVGAPVYMAAVLEYLTAEILELAVNAARDNKKGRVT-PRHILLAVA 75 (106)
T ss_dssp HHHHHHHHSTTSEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEEC-HHHHHHHHH
T ss_pred HHHHHhCCCCccccCCCCchhHHHHHHHHHHHHHHHHHHHHHHcCCCeee-cchhhhccc
Confidence 44555555 9999999888899999999999999999999999999999 999999874
>d1tzya_ a.22.1.1 (A:) Histone H2A {Chicken (Gallus gallus), erythrocytes [TaxId: 9031]}
Back Show information, alignment and structure
class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Nucleosome core histones
domain: Histone H2A
species: Chicken (Gallus gallus), erythrocytes [TaxId: 9031]
Probab=96.24 E-value=0.0062 Score=39.67 Aligned_cols=57 Identities=12% Similarity=-0.006 Sum_probs=51.4
Q ss_pred hHHhhhcc--cccchhhHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcccccchhHHHHHH
Q psy17761 23 VVWRVEVE--SSVFAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAK 80 (92)
Q Consensus 23 IRrlar~G--akRIS~~iy~elr~vLe~fle~IirdavtyaeHA~RKTVt~~~DV~~alk 80 (92)
|.++-+.| ++||+..+---+..+||....+|++-|-.+|...+++-|+ ..|+.+|++
T Consensus 18 v~r~Lk~~~~~~rv~~~apVylaAVLEYLtaEiLELAgn~a~~~k~~rIt-Prhi~lAir 76 (106)
T d1tzya_ 18 VHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRII-PRHLQLAIR 76 (106)
T ss_dssp HHHHHHHTTSSSEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEEC-HHHHHHHHH
T ss_pred HHHHHHcCccccccCCCchHHHHHHHHHHHHHHHHHhhHHHHhcCCceec-chhhhhccc
Confidence 55566666 8999999888899999999999999999999999999999 999999884
>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]
Probab=84.20 E-value=0.52 Score=30.26 Aligned_cols=31 Identities=13% Similarity=0.099 Sum_probs=26.7
Q ss_pred HHHHHHHHhhhhhcCCcccccchhHHHHHHhh
Q psy17761 51 ENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTS 82 (92)
Q Consensus 51 e~IirdavtyaeHA~RKTVt~~~DV~~alkr~ 82 (92)
.++++.|+..|...++++|+ .+||..|+++.
T Consensus 243 ~~ll~~a~~~A~~~~~~~I~-~edv~~A~~~~ 273 (276)
T d1fnna2 243 IDILYRSAYAAQQNGRKHIA-PEDVRKSSKEV 273 (276)
T ss_dssp HHHHHHHHHHHHHTTCSSCC-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCCCcC-HHHHHHHHHHH
Confidence 45677888899989999999 99999999874
