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 102
PTZ00018 136
PTZ00018, PTZ00018, histone H3; Provisional
4e-47 smart00428 105
smart00428, H3, Histone H3
5e-42 PLN00121 136
PLN00121, PLN00121, histone H3; Provisional
7e-42 pfam00125 75
pfam00125, Histone, Core histone H2A/H2B/H3/H4
2e-29 PLN00161 135
PLN00161, PLN00161, histone H3; Provisional
8e-28 PLN00160 97
PLN00160, PLN00160, histone H3; Provisional
2e-27 COG2036 91
COG2036, HHT1, Histones H3 and H4 [Chromatin struc
7e-25
>gnl|CDD|185400 PTZ00018, PTZ00018, histone H3; Provisional
Back Hide alignment and domain information
Score = 146 bits (371), Expect = 4e-47
Identities = 72/82 (87%), Positives = 76/82 (92%)
Query: 4 VARERFQKPMKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFE 63
VA ++ KSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAV+ALQEA+EAYLVGLFE
Sbjct: 47 VALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFE 106
Query: 64 DTNLCAIHAKRVTIMPKDIQLA 85
DTNLCAIHAKRVTIMPKDIQLA
Sbjct: 107 DTNLCAIHAKRVTIMPKDIQLA 128
>gnl|CDD|128705 smart00428, H3, Histone H3
Back Show alignment and domain information
Score = 132 bits (335), Expect = 5e-42
Identities = 68/84 (80%), Positives = 72/84 (85%), Gaps = 2/84 (2%)
Query: 4 VARERFQKPMKSTELLIRKLPFQRLVREIAQDFKT--DLRFQSSAVMALQEASEAYLVGL 61
VA +K KST+LLIRK PFQRLVREIAQ F T DLRFQSSA+MALQEA+EAYLVGL
Sbjct: 14 VALREIRKYQKSTDLLIRKAPFQRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGL 73
Query: 62 FEDTNLCAIHAKRVTIMPKDIQLA 85
FEDTNL AIHAKRVTIMPKDIQLA
Sbjct: 74 FEDTNLLAIHAKRVTIMPKDIQLA 97
>gnl|CDD|177733 PLN00121, PLN00121, histone H3; Provisional
Back Show alignment and domain information
Score = 133 bits (336), Expect = 7e-42
Identities = 73/82 (89%), Positives = 76/82 (92%)
Query: 4 VARERFQKPMKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFE 63
VA +K KSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAV+ALQEA+EAYLVGLFE
Sbjct: 47 VALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFE 106
Query: 64 DTNLCAIHAKRVTIMPKDIQLA 85
DTNLCAIHAKRVTIMPKDIQLA
Sbjct: 107 DTNLCAIHAKRVTIMPKDIQLA 128
>gnl|CDD|201020 pfam00125, Histone, Core histone H2A/H2B/H3/H4
Back Show alignment and domain information
Score = 99 bits (250), Expect = 2e-29
Identities = 40/72 (55%), Positives = 48/72 (66%)
Query: 15 STELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKR 74
S+ LLI KLPF R+VRE+ + F +LR S A +ALQEA E L + ED L A HAKR
Sbjct: 1 SSRLLILKLPFSRVVRELKEGFYAELRISSKAPVALQEALEDLLEEILEDAGLLARHAKR 60
Query: 75 VTIMPKDIQLAA 86
TI P+DIQLA
Sbjct: 61 KTITPRDIQLAV 72
>gnl|CDD|215082 PLN00161, PLN00161, histone H3; Provisional
Back Show alignment and domain information
Score = 97.8 bits (243), Expect = 8e-28
Identities = 54/83 (65%), Positives = 65/83 (78%), Gaps = 1/83 (1%)
Query: 4 VARERFQKPMKSTELLIRKLPFQRLVREIAQDFKTD-LRFQSSAVMALQEASEAYLVGLF 62
VA +K KSTELLIRKLPF RLVREI+ + + R+ + A++ALQEA+E +LV LF
Sbjct: 40 VALREIRKYQKSTELLIRKLPFARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLF 99
Query: 63 EDTNLCAIHAKRVTIMPKDIQLA 85
ED NLCAIHAKRVTIMPKD+QLA
Sbjct: 100 EDCNLCAIHAKRVTIMPKDMQLA 122
>gnl|CDD|165727 PLN00160, PLN00160, histone H3; Provisional
Back Show alignment and domain information
Score = 95.9 bits (238), Expect = 2e-27
Identities = 52/73 (71%), Positives = 63/73 (86%), Gaps = 1/73 (1%)
Query: 14 KSTELLIRKLPFQRLVREIAQDF-KTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHA 72
KST+LLIR+LPF RLVREI + + R+Q SA++ALQEA+EA+LVGLFED+NLCAIH
Sbjct: 16 KSTDLLIRRLPFARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHG 75
Query: 73 KRVTIMPKDIQLA 85
KRVTIMPKD+QLA
Sbjct: 76 KRVTIMPKDMQLA 88
>gnl|CDD|224947 COG2036, HHT1, Histones H3 and H4 [Chromatin structure and dynamics]
Back Show alignment and domain information
Score = 88.9 bits (221), Expect = 7e-25
Identities = 32/83 (38%), Positives = 48/83 (57%), Gaps = 5/83 (6%)
Query: 4 VARERFQKPMKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFE 63
V + ++ +ST+LL+ K P +R++R+ + R SSA+ LQEA E YL + E
Sbjct: 4 VGLKEIRRYQRSTDLLLPKAPVRRILRKAGAE-----RVSSSAIEELQEALEEYLEEIAE 58
Query: 64 DTNLCAIHAKRVTIMPKDIQLAA 86
D A HAKR T+ +DI+LA
Sbjct: 59 DAVELAEHAKRKTVKAEDIKLAL 81
Conserved Domains Detected by HHsearch
Original result of HHsearch against CDD database
ID Alignment Graph Length
Definition
Probability Query
102
PLN00160 97
histone H3; Provisional
100.0 PLN00161 135
histone H3; Provisional
100.0 smart00428 105
H3 Histone H3.
100.0 PTZ00018 136
histone H3; Provisional
100.0 PLN00121 136
histone H3; Provisional
100.0 KOG1745|consensus 137
100.0 COG2036 91
HHT1 Histones H3 and H4 [Chromatin structure and d
99.95 PF00125 75
Histone: Core histone H2A/H2B/H3/H4 histone h2a si
99.86 cd07981 72
TAF12 TATA Binding Protein (TBP) Associated Factor
99.45 PLN00035 103
histone H4; Provisional
99.35 cd00076 85
H4 Histone H4, one of the four histones, along wit
99.35 PTZ00015 102
histone H4; Provisional
99.29 smart00803 65
TAF TATA box binding protein associated factor. TA
99.27 smart00417 74
H4 Histone H4.
99.2 PF00808 65
CBFD_NFYB_HMF: Histone-like transcription factor (
98.83 cd07979 117
TAF9 TATA Binding Protein (TBP) Associated Factor
98.81 smart00576 77
BTP Bromodomain transcription factors and PHD doma
98.52 PF15630 76
CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C
98.47 cd00074 115
H2A Histone 2A; H2A is a subunit of the nucleosome
98.45 KOG0870|consensus 172
98.23 PF15511 414
CENP-T: Centromere kinetochore component CENP-T; P
98.16 cd08050 343
TAF6 TATA Binding Protein (TBP) Associated Factor
98.08 PF02969 66
TAF: TATA box binding protein associated factor (T
97.99 PF03847 68
TFIID_20kDa: Transcription initiation factor TFIID
97.91 PF02291 129
TFIID-31kDa: Transcription initiation factor IID,
97.67 KOG1142|consensus 258
97.5 KOG3467|consensus 103
96.76 KOG0869|consensus 168
96.74 PF07524 77
Bromo_TP: Bromodomain associated; InterPro: IPR006
96.69 KOG3334|consensus 148
96.25 smart00427 89
H2B Histone H2B.
95.92 PLN00158 116
histone H2B; Provisional
95.72 PLN00154 136
histone H2A; Provisional
95.55 PTZ00463 117
histone H2B; Provisional
95.54 smart00414 106
H2A Histone 2A.
95.48 KOG0871|consensus 156
95.37 PTZ00017 134
histone H2A; Provisional
95.16 COG5262 132
HTA1 Histone H2A [Chromatin structure and dynamics
95.08 PLN00156 139
histone H2AX; Provisional
94.3 PLN00157 132
histone H2A; Provisional
94.29 PLN00153 129
histone H2A; Provisional
94.04 KOG1756|consensus 131
94.04 PF02269 93
TFIID-18kDa: Transcription initiation factor IID,
93.76 PTZ00252 134
histone H2A; Provisional
93.04 KOG2549|consensus 576
92.51 COG5150 148
Class 2 transcription repressor NC2, beta subunit
91.89 KOG1744|consensus 127
90.75 COG5094 145
TAF9 Transcription initiation factor TFIID, subuni
90.61 cd07978 92
TAF13 The TATA Binding Protein (TBP) Associated Fa
87.93 cd08045 212
TAF4 TATA Binding Protein (TBP) Associated Factor
87.79 PF05236 264
TAF4: Transcription initiation factor TFIID compon
86.99 PF09123 138
DUF1931: Domain of unknown function (DUF1931); Int
85.6 KOG2389|consensus 353
84.52 KOG4336|consensus 323
84.25 KOG1757|consensus 131
82.71
>PLN00160 histone H3; Provisional
Back Hide alignment and domain information
Probab=100.00 E-value=5.1e-47 Score=258.90 Aligned_cols=90 Identities=59% Similarity=0.826 Sum_probs=87.1
Q ss_pred chhhhhhhcccccchhhcccchHHHHHHHHHhhcc-cccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCccc
Q psy1398 3 WVARERFQKPMKSTELLIRKLPFQRLVREIAQDFK-TDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKD 81 (102)
Q Consensus 3 ~valrEIr~yQkst~lLIpk~pF~RLVrEI~~~~~-~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kD 81 (102)
+|||+|||+|||||++||||+||+||||||++++. +++|||++|+.|||||+|+|||++|||+++||+||||||||++|
T Consensus 5 t~aLrEIR~yQkst~lLI~k~pF~RLVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD 84 (97)
T PLN00160 5 EKALKEIKMYQKSTDLLIRRLPFARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKD 84 (97)
T ss_pred cHHHHHHHHHccchhhhhccccHHHHHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhh
Confidence 68999999999999999999999999999999986 56999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhh
Q psy1398 82 IQLAAESVENA 92 (102)
Q Consensus 82 i~La~ri~~~~ 92 (102)
|+|+.+|+|+.
T Consensus 85 ~~L~~rirg~~ 95 (97)
T PLN00160 85 MQLARRIRGQT 95 (97)
T ss_pred HHHHHHhhccc
Confidence 99999999874
>PLN00161 histone H3; Provisional
Back Show alignment and domain information
Probab=100.00 E-value=3.9e-45 Score=261.73 Aligned_cols=90 Identities=60% Similarity=0.833 Sum_probs=86.9
Q ss_pred chhhhhhhcccccchhhcccchHHHHHHHHHhhcc-cccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCccc
Q psy1398 3 WVARERFQKPMKSTELLIRKLPFQRLVREIAQDFK-TDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKD 81 (102)
Q Consensus 3 ~valrEIr~yQkst~lLIpk~pF~RLVrEI~~~~~-~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kD 81 (102)
+|||+|||+||+||+|||||+||+||||||++++. +++|||++|+.|||||+|+|||++|||+|+||+||||||||++|
T Consensus 39 tvaLrEIR~yQkst~lLIpklPF~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kD 118 (135)
T PLN00161 39 TVALREIRKYQKSTELLIRKLPFARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKD 118 (135)
T ss_pred chHHHHHHHHccccccccccccHHHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhh
Confidence 68999999999999999999999999999999996 58999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhh
Q psy1398 82 IQLAAESVENA 92 (102)
Q Consensus 82 i~La~ri~~~~ 92 (102)
|+||.+|+|..
T Consensus 119 m~La~rirg~~ 129 (135)
T PLN00161 119 MQLARRIRGPI 129 (135)
T ss_pred HHHHHHhcccc
Confidence 99999999753
>smart00428 H3 Histone H3
Back Show alignment and domain information
Probab=100.00 E-value=8.9e-45 Score=250.81 Aligned_cols=89 Identities=76% Similarity=0.975 Sum_probs=87.0
Q ss_pred chhhhhhhcccccchhhcccchHHHHHHHHHhhccc--ccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcc
Q psy1398 3 WVARERFQKPMKSTELLIRKLPFQRLVREIAQDFKT--DLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPK 80 (102)
Q Consensus 3 ~valrEIr~yQkst~lLIpk~pF~RLVrEI~~~~~~--~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~k 80 (102)
+|||+|||+||+||++||||+||+||||||++++++ ++|||++|++||||++|+|++++||||++||+||||||||++
T Consensus 13 ~~aLrEIr~yQkst~lLI~k~pF~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~k 92 (105)
T smart00428 13 QVALREIRKYQKSTDLLIRKAPFQRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPK 92 (105)
T ss_pred chHHHHHHHHccCcccccccccHHHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHh
Confidence 689999999999999999999999999999999987 999999999999999999999999999999999999999999
Q ss_pred cHHHHHHHHHh
Q psy1398 81 DIQLAAESVEN 91 (102)
Q Consensus 81 Di~La~ri~~~ 91 (102)
||+||.+|+|+
T Consensus 93 Di~La~rir~~ 103 (105)
T smart00428 93 DIQLARRIRGE 103 (105)
T ss_pred hHHHHHHHhcc
Confidence 99999999985
>PTZ00018 histone H3; Provisional
Back Show alignment and domain information
Probab=100.00 E-value=6.1e-45 Score=261.19 Aligned_cols=89 Identities=81% Similarity=1.064 Sum_probs=87.2
Q ss_pred chhhhhhhcccccchhhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccH
Q psy1398 3 WVARERFQKPMKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDI 82 (102)
Q Consensus 3 ~valrEIr~yQkst~lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi 82 (102)
.|||+|||+||+||+|||||+||+||||||++++++++|||++|++|||||+|+|||++|||+|+||+||||||||++||
T Consensus 46 t~aLrEIr~yQkst~lLI~k~pF~RLVREI~~~~~~~~rf~~~al~aLQeaaE~yLv~lfed~~lca~HakRVTl~~kD~ 125 (136)
T PTZ00018 46 TVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDI 125 (136)
T ss_pred hhHHHHHHHHcccchhccccccHHHHHHHHHHHcCCcceeeHHHHHHHHHHHHHHHHHHhhhhHHHHHhhcceecchhhH
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHh
Q psy1398 83 QLAAESVEN 91 (102)
Q Consensus 83 ~La~ri~~~ 91 (102)
+|+.+|+|+
T Consensus 126 ~L~~rirg~ 134 (136)
T PTZ00018 126 QLARRIRGE 134 (136)
T ss_pred HHHHHhccc
Confidence 999999975
>PLN00121 histone H3; Provisional
Back Show alignment and domain information
Probab=100.00 E-value=8.1e-45 Score=260.55 Aligned_cols=89 Identities=82% Similarity=1.066 Sum_probs=87.2
Q ss_pred chhhhhhhcccccchhhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccH
Q psy1398 3 WVARERFQKPMKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDI 82 (102)
Q Consensus 3 ~valrEIr~yQkst~lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi 82 (102)
.|||+|||+||+||+|||||+||+||||||++++++++|||++|++|||||+|+|||++|||+++||+||||||||++||
T Consensus 46 t~aLrEIr~yQkst~lLI~k~pF~RLVREI~~~~~~~~Rf~~~Al~ALQeaaE~yLv~lfed~~lca~HakRVTl~~kD~ 125 (136)
T PLN00121 46 TVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDI 125 (136)
T ss_pred hHHHHHHHHhccccccccccccHHHHHHHHHHHhCccceeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcceecchhhH
Confidence 48999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHh
Q psy1398 83 QLAAESVEN 91 (102)
Q Consensus 83 ~La~ri~~~ 91 (102)
+|+.+|+|+
T Consensus 126 ~L~~rirg~ 134 (136)
T PLN00121 126 QLARRIRGE 134 (136)
T ss_pred HHHHHhccc
Confidence 999999975
>KOG1745|consensus
Back Show alignment and domain information
Probab=100.00 E-value=7.9e-44 Score=255.37 Aligned_cols=89 Identities=80% Similarity=1.048 Sum_probs=87.2
Q ss_pred chhhhhhhcccccchhhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccH
Q psy1398 3 WVARERFQKPMKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDI 82 (102)
Q Consensus 3 ~valrEIr~yQkst~lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi 82 (102)
.||++|||+|||||+|||+|+||+||||||+++|..++|||++|+.|||||+|+|||+||||+|+||+||||||||++||
T Consensus 47 ~~al~eirkyQkstdLlI~K~PFqRlvrei~q~f~~dLrfqs~Ai~ALQeA~EayLv~LfEdtnlcAihAkRVTimpkdi 126 (137)
T KOG1745|consen 47 TVALREIRKYQKSTDLLIRKLPFQRLVREIAQDFKTDLRFQSSAIAALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDI 126 (137)
T ss_pred hHHHHHHHHHHhhhHHHhhcCcHHHHhHHHHhcccccceehHHHHHHHHHHHHHHHHHhccccchhhhccceeEecccce
Confidence 48999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHh
Q psy1398 83 QLAAESVEN 91 (102)
Q Consensus 83 ~La~ri~~~ 91 (102)
|||++|+|.
T Consensus 127 QlArrirg~ 135 (137)
T KOG1745|consen 127 QLARRIRGE 135 (137)
T ss_pred ehhhhcccC
Confidence 999999985
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Back Show alignment and domain information
Probab=99.95 E-value=3.9e-28 Score=164.26 Aligned_cols=85 Identities=38% Similarity=0.465 Sum_probs=80.9
Q ss_pred chhhhhhhcccccchhhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccH
Q psy1398 3 WVARERFQKPMKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDI 82 (102)
Q Consensus 3 ~valrEIr~yQkst~lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi 82 (102)
.++++|+|+||+|+.++||++||+|++|+. ++.|||++|.++||+++|.|+.+++++|+.||.|+||+||+++||
T Consensus 3 ~~~~~~~r~~~~~~~~~Lp~apv~Ri~r~~-----~~~Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI 77 (91)
T COG2036 3 AVGLKEIRRYQRSTDLLLPKAPVRRILRKA-----GAERVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDI 77 (91)
T ss_pred cchHHHHHhhhhhhhhhcCchHHHHHHHHH-----hHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHH
Confidence 578999999999999999999999999999 555999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhh
Q psy1398 83 QLAAESVENA 92 (102)
Q Consensus 83 ~La~ri~~~~ 92 (102)
+|+.+.++..
T Consensus 78 ~la~~~~~~~ 87 (91)
T COG2036 78 KLALKRLGRR 87 (91)
T ss_pred HHHHHHhccc
Confidence 9999988754
>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=99.86 E-value=8e-22 Score=125.70 Aligned_cols=75 Identities=45% Similarity=0.612 Sum_probs=71.3
Q ss_pred cchhhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHH
Q psy1398 15 STELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESV 89 (102)
Q Consensus 15 st~lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~ 89 (102)
+|..+||+.||.|++|++..+....+||+++|+.+||.++|.+++++|++|+.+|.|+||+||+++||++|.+++
T Consensus 1 ~~~~~~~~~~~~r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r~~ 75 (75)
T PF00125_consen 1 RTRRLIPKFPFSRLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLAVRID 75 (75)
T ss_dssp HHSHSSSHHHHHHHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHHHT
T ss_pred CcccccCceEEeeeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHHHhcC
Confidence 467899999999999999998877799999999999999999999999999999999999999999999999874
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 ....
>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=99.45 E-value=2.7e-13 Score=87.47 Aligned_cols=64 Identities=28% Similarity=0.349 Sum_probs=56.7
Q ss_pred cccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHH
Q psy1398 20 IRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAE 87 (102)
Q Consensus 20 Ipk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~r 87 (102)
++|--.+.|++++ .+..|++++|.++||+.+|+|+.+++++|..+|.|+||+||+++||+|+.+
T Consensus 2 ~~k~~l~~lv~~i----d~~~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~ 65 (72)
T cd07981 2 LTKRKLQELLKEI----DPREQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLE 65 (72)
T ss_pred CcHHHHHHHHHhh----CCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 4555566777777 346999999999999999999999999999999999999999999999964
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
>PLN00035 histone H4; Provisional
Back Show alignment and domain information
Probab=99.35 E-value=1.7e-12 Score=89.76 Aligned_cols=67 Identities=21% Similarity=0.218 Sum_probs=64.3
Q ss_pred cccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHHHh
Q psy1398 20 IRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESVEN 91 (102)
Q Consensus 20 Ipk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~~~ 91 (102)
||++|..||+|.. +..|++.+|.+++.++.|.|+.++..||...|.||+|+||+.+|+.+|.+-.++
T Consensus 30 ipk~~IrRLARr~-----GvkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~Alkr~g~ 96 (103)
T PLN00035 30 ITKPAIRRLARRG-----GVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGR 96 (103)
T ss_pred CCHHHHHHHHHHc-----CcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHcCC
Confidence 9999999999998 899999999999999999999999999999999999999999999999876654
>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
Probab=99.35 E-value=1.3e-12 Score=87.40 Aligned_cols=68 Identities=24% Similarity=0.240 Sum_probs=64.4
Q ss_pred hhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHHH
Q psy1398 18 LLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESVE 90 (102)
Q Consensus 18 lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~~ 90 (102)
-=|||+|..||+|.- |..|++.++.+++.++.|.|+.++..||...|.||+|+||+..|+.++.+-.|
T Consensus 12 ~gi~k~~I~RLarr~-----GvkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr~g 79 (85)
T cd00076 12 KGITKPAIRRLARRG-----GVKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKRQG 79 (85)
T ss_pred ccCCHHHHHHHHHHc-----CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHCC
Confidence 349999999999988 89999999999999999999999999999999999999999999999987665
>PTZ00015 histone H4; Provisional
Back Show alignment and domain information
Probab=99.29 E-value=4.7e-12 Score=87.38 Aligned_cols=69 Identities=20% Similarity=0.186 Sum_probs=64.9
Q ss_pred hhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHHHh
Q psy1398 18 LLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESVEN 91 (102)
Q Consensus 18 lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~~~ 91 (102)
--||++|..||+|.. +..|++.++.+.+.++.|.|+.++..||..+|.||+|+||+.+|+.+|.+-.++
T Consensus 29 ~gI~k~~IrRLarr~-----GvkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~AlKr~g~ 97 (102)
T PTZ00015 29 RGITKGAIRRLARRG-----GVKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVYALKRQGR 97 (102)
T ss_pred cCCCHHHHHHHHHHc-----CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHhcCC
Confidence 349999999999988 999999999999999999999999999999999999999999999999876554
>smart00803 TAF TATA box binding protein associated factor
Back Show alignment and domain information
Probab=99.27 E-value=9.8e-12 Score=79.17 Aligned_cols=64 Identities=19% Similarity=0.194 Sum_probs=61.0
Q ss_pred hcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHH
Q psy1398 19 LIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAE 87 (102)
Q Consensus 19 LIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~r 87 (102)
.+|+.|..|+.+.. |-.|++++|..+|.+..|.++-++.++|..++.|+||.||+++||.+|.+
T Consensus 2 ~~p~~~i~ria~~~-----Gi~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk 65 (65)
T smart00803 2 WLPKETIKDVAESL-----GIGNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR 65 (65)
T ss_pred CCCHHHHHHHHHHC-----CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence 57999999999988 88999999999999999999999999999999999999999999999863
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.
>smart00417 H4 Histone H4
Back Show alignment and domain information
Probab=99.20 E-value=1.4e-11 Score=80.65 Aligned_cols=62 Identities=21% Similarity=0.211 Sum_probs=59.0
Q ss_pred hhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHH
Q psy1398 18 LLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQL 84 (102)
Q Consensus 18 lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~L 84 (102)
--|||+|..||+|.- |..|+++++.+.+.++.|.|+.++..||..+|.||+|+||+..|+..
T Consensus 12 ~gI~k~~IrRLaRr~-----GvkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~~ 73 (74)
T smart00417 12 QGITKPAIRRLARRG-----GVKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVVY 73 (74)
T ss_pred cCCCHHHHHHHHHHc-----CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHhee
Confidence 349999999999988 99999999999999999999999999999999999999999999864
>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=98.83 E-value=8.9e-09 Score=64.29 Aligned_cols=62 Identities=26% Similarity=0.306 Sum_probs=53.5
Q ss_pred cccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHH
Q psy1398 20 IRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLA 85 (102)
Q Consensus 20 Ipk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La 85 (102)
+|.+...|++|+. .+..+++.+|..+++.++|.|+..|...|+..|.+.+|.||+.+|+.-|
T Consensus 3 lP~a~vkri~k~~----~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~~rkti~~~Dv~~A 64 (65)
T PF00808_consen 3 LPLARVKRIMKSD----PDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTITYEDVAKA 64 (65)
T ss_dssp S-HHHHHHHHHHT----STTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE-HHHHHHH
T ss_pred CChHHHHHHhccC----CCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHH
Confidence 6788888888876 3567899999999999999999999999999999999999999999866
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 ....
>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=98.81 E-value=2e-08 Score=70.28 Aligned_cols=65 Identities=20% Similarity=0.345 Sum_probs=58.4
Q ss_pred HHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHHHh
Q psy1398 26 QRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESVEN 91 (102)
Q Consensus 26 ~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~~~ 91 (102)
.++|..|..+. |..++++++...|-|.++.|..++..||...|.||||.||+.+|++||...+..
T Consensus 4 ~~~v~~iLk~~-Gv~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~r~~ 68 (117)
T cd07979 4 ARVIAAILKSM-GITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQSRVD 68 (117)
T ss_pred HHHHHHHHHHC-CCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhc
Confidence 46666676544 677999999999999999999999999999999999999999999999888776
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=98.52 E-value=3.4e-07 Score=59.31 Aligned_cols=51 Identities=27% Similarity=0.197 Sum_probs=48.2
Q ss_pred cccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHH
Q psy1398 38 TDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAES 88 (102)
Q Consensus 38 ~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri 88 (102)
|-.+++++|++.|.+..|.|+..+.+.+...|.|++|.++++.|+.++..-
T Consensus 20 Gf~~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~ 70 (77)
T smart00576 20 GFDSFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALEN 70 (77)
T ss_pred CccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 677999999999999999999999999999999999999999999998743
subdomain of archael histone-like transcription factors
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C
Back Show alignment and domain information
Probab=98.47 E-value=4.6e-07 Score=59.52 Aligned_cols=65 Identities=26% Similarity=0.245 Sum_probs=52.4
Q ss_pred chHHHHHHHHHhhc--ccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHH
Q psy1398 23 LPFQRLVREIAQDF--KTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAE 87 (102)
Q Consensus 23 ~pF~RLVrEI~~~~--~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~r 87 (102)
+.+..-|-+|+++- ..+..++++++.+|-|.+=.++..+.+|--..|.||||.||+++|+.|..|
T Consensus 5 aal~~~v~ki~ee~~~~~~~~~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~~dDV~Ll~R 71 (76)
T PF15630_consen 5 AALWYTVGKIVEEEAKEKGVEVSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTINMDDVKLLAR 71 (76)
T ss_dssp HHHHHHHHHHHHHCCCCTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHTT
T ss_pred HHHHHHHHHHHHHHHhccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHHHhh
Confidence 34444555666654 367899999999999999999999999999999999999999999999864
>cd00074 H2A Histone 2A; H2A is a subunit of the nucleosome
Back Show alignment and domain information
Probab=98.45 E-value=2.9e-07 Score=64.64 Aligned_cols=73 Identities=21% Similarity=0.203 Sum_probs=64.6
Q ss_pred hhhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHHHhhccc
Q psy1398 17 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESVENARLR 95 (102)
Q Consensus 17 ~lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~~~~~~~ 95 (102)
.|.+|-.++.|+.|+-. ...|++++|...|-...|.+..+++|.|...|.|.|+.+|+++|++++.+ .+..|+
T Consensus 18 gL~fPV~ri~R~Lk~~~----~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi~--nD~EL~ 90 (115)
T cd00074 18 GLQFPVGRIHRYLKKGR----YAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAVR--NDEELN 90 (115)
T ss_pred CccCcHHHHHHHHHcCc----cccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHHh--ccHHHH
Confidence 78999999999999731 57899999999999999999999999999999999999999999999954 444443
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.
>KOG0870|consensus
Back Show alignment and domain information
Probab=98.23 E-value=2e-06 Score=64.01 Aligned_cols=70 Identities=24% Similarity=0.320 Sum_probs=64.3
Q ss_pred chhhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHH
Q psy1398 16 TELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAE 87 (102)
Q Consensus 16 t~lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~r 87 (102)
.+|.+|++-..||||+...+. +.-++++|..|++.+|--|+.-|.-.|+..|.-.+|+|++++|+-=++.
T Consensus 7 ~dl~lP~AiI~rlvke~l~E~--~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~ 76 (172)
T KOG0870|consen 7 EDLNLPNAIITRLVKEVLPES--NVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALD 76 (172)
T ss_pred HHhhccHHHHHHHHHHhCccc--cccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHH
Confidence 368899999999999998865 5889999999999999999999999999999999999999999876654
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T
Back Show alignment and domain information
Probab=98.16 E-value=3.4e-06 Score=69.52 Aligned_cols=61 Identities=26% Similarity=0.293 Sum_probs=42.6
Q ss_pred ccchHHHHHHHHHhh-cccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCccc
Q psy1398 21 RKLPFQRLVREIAQD-FKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKD 81 (102)
Q Consensus 21 pk~pF~RLVrEI~~~-~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kD 81 (102)
|..+..+|+.-.++. +....+++++|+.+|.+++|-|.-+|-+|--..|.||||+||...|
T Consensus 353 P~~~vK~la~~~ak~s~~sK~kiskdal~aleqasdwfFeQl~dDL~aYA~HAgRKTIdesD 414 (414)
T PF15511_consen 353 PPGVVKKLAQHFAKSSGGSKMKISKDALEALEQASDWFFEQLGDDLEAYAKHAGRKTIDESD 414 (414)
T ss_dssp -HHHHHHHHHHHH-------S-B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHH
T ss_pred CccHHHHHHHHHHHhhcccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCCCC
Confidence 444444444444442 3367899999999999999999999999999999999999999877
>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=98.08 E-value=1e-05 Score=65.02 Aligned_cols=64 Identities=17% Similarity=0.163 Sum_probs=56.2
Q ss_pred HHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHHHhh
Q psy1398 28 LVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESVENA 92 (102)
Q Consensus 28 LVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~~~~ 92 (102)
.|+.|+... |..|.+.+|..+|.+-+|.++-++.++|..+|.|+||.|++++||++|.+.+.-.
T Consensus 4 ~i~~ia~~~-Gi~~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~~~n~e 67 (343)
T cd08050 4 SIKLIAESL-GIDSLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALRLRNVE 67 (343)
T ss_pred HHHHHHHHc-CCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHHhCCC
Confidence 456665543 5669999999999999999999999999999999999999999999999887543
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
>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=97.99 E-value=3.1e-05 Score=49.67 Aligned_cols=59 Identities=25% Similarity=0.287 Sum_probs=46.6
Q ss_pred HHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHH
Q psy1398 28 LVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAE 87 (102)
Q Consensus 28 LVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~r 87 (102)
-||.+++..+ -.-.+.++..+|.+-+|.-+-++.++|..++.|+||.+++++|+..|.|
T Consensus 8 svk~iAes~G-i~~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di~~ALr 66 (66)
T PF02969_consen 8 SVKDIAESLG-ISNLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLTTDDINSALR 66 (66)
T ss_dssp HHHHHHHHTT----B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHH-
T ss_pred HHHHHHHHcC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHhC
Confidence 4566666554 2357899999999999999999999999999999999999999998864
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.
>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=97.91 E-value=5.1e-05 Score=48.78 Aligned_cols=60 Identities=25% Similarity=0.309 Sum_probs=47.6
Q ss_pred hHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHH
Q psy1398 24 PFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAE 87 (102)
Q Consensus 24 pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~r 87 (102)
-++.||++| .+...+.+++-+.|.+.|++|+.+..+.|..+|.|.|--||.++|+++...
T Consensus 4 ~l~~Lv~~i----Dp~~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~tle~~Dv~~~Le 63 (68)
T PF03847_consen 4 KLQELVKQI----DPNEKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSSTLEVKDVQLHLE 63 (68)
T ss_dssp HHHHHHHCC-----SS----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHHH
T ss_pred HHHHHHHHc----CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHH
Confidence 355666666 568899999999999999999999999999999999999999999999863
; GO: 0006352 transcription initiation, DNA-dependent, 0005669 transcription factor TFIID complex; PDB: 1H3O_B.
>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=97.67 E-value=0.0002 Score=51.21 Aligned_cols=64 Identities=28% Similarity=0.348 Sum_probs=51.9
Q ss_pred HHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHHH
Q psy1398 26 QRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESVE 90 (102)
Q Consensus 26 ~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~~ 90 (102)
.|++..|..+.+ -..+++.++.-|-|.+=.|..++++||...|.||+|.+|..+|++||...+-
T Consensus 15 a~~i~~iL~~~G-v~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~~~DVrLAi~~r~ 78 (129)
T PF02291_consen 15 ARVIHLILKSMG-VTEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTIDADDVRLAIQSRL 78 (129)
T ss_dssp HHHHHHHHHHTT----B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHHHHT-
T ss_pred HHHHHHHHHHcC-CcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHH
Confidence 478888887775 3357999999999999999999999999999999999999999999976553
TAFII-31 protein is a transcriptional coactivator of the p53 protein [].; GO: 0006352 transcription initiation, DNA-dependent; PDB: 1TAF_A.
>KOG1142|consensus
Back Show alignment and domain information
Probab=97.50 E-value=0.00017 Score=56.87 Aligned_cols=72 Identities=19% Similarity=0.271 Sum_probs=64.2
Q ss_pred cccccchhhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHH
Q psy1398 11 KPMKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAA 86 (102)
Q Consensus 11 ~yQkst~lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ 86 (102)
.++-+++.++-|--...||++| .++....+++-+.|.|.|++|+.++-.-|-.+|+|.|--||.++||+|+.
T Consensus 146 ~~~~~~~~il~k~kl~dLvqqI----d~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhL 217 (258)
T KOG1142|consen 146 QDEPGNNPILSKRKLDDLVQQI----DGTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHL 217 (258)
T ss_pred cccCCCCccccccchhHHHHhh----cCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeee
Confidence 4556777788888888888888 46778889999999999999999999999999999999999999999986
>KOG3467|consensus
Back Show alignment and domain information
Probab=96.76 E-value=0.0041 Score=42.57 Aligned_cols=64 Identities=22% Similarity=0.217 Sum_probs=55.2
Q ss_pred ccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHH
Q psy1398 21 RKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESV 89 (102)
Q Consensus 21 pk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~ 89 (102)
-|....||.|-- +--|+..-..+....++..|+.+...+|...+.||||+||+.-|+--+.+-.
T Consensus 31 tKpaIRRlARr~-----GVkRi~G~~yeE~~~~~k~fl~n~i~~A~~yt~HAKRKTvT~~dvv~~LKR~ 94 (103)
T KOG3467|consen 31 TKPAIRRLARRG-----GVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQ 94 (103)
T ss_pred chHHHHHHHHhc-----CcchhchhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhceeeHHHHHHHHHHc
Confidence 367777888766 6678888888999999999999999999999999999999999997776533
>KOG0869|consensus
Back Show alignment and domain information
Probab=96.74 E-value=0.0035 Score=46.67 Aligned_cols=69 Identities=14% Similarity=0.192 Sum_probs=61.4
Q ss_pred chhhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHH
Q psy1398 16 TELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAE 87 (102)
Q Consensus 16 t~lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~r 87 (102)
.+-++|.+-..|+.|.+.- .+-+++++|-+..||.+-.|+-=+-..|..-+---||+||+.+|+-.|+-
T Consensus 29 qDr~LPIANV~RIMK~~lP---~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~ 97 (168)
T KOG0869|consen 29 QDRFLPIANVSRIMKKALP---ANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMS 97 (168)
T ss_pred hhhhccHHHHHHHHHhcCC---cccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHH
Confidence 3567899999999999854 77899999999999999999998888888888899999999999988864
>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=96.69 E-value=0.0062 Score=38.90 Aligned_cols=48 Identities=27% Similarity=0.204 Sum_probs=45.3
Q ss_pred cccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHH
Q psy1398 40 LRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAE 87 (102)
Q Consensus 40 ~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~r 87 (102)
-..+++|++.|-+.+..|+..+...+...|-|++|-...+.|+.++..
T Consensus 22 ~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~ 69 (77)
T PF07524_consen 22 DSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQALE 69 (77)
T ss_pred cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 478999999999999999999999999999999999999999998864
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 [, ].
>KOG3334|consensus
Back Show alignment and domain information
Probab=96.25 E-value=0.027 Score=41.35 Aligned_cols=65 Identities=22% Similarity=0.360 Sum_probs=53.2
Q ss_pred HHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHHHhh
Q psy1398 27 RLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESVENA 92 (102)
Q Consensus 27 RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~~~~ 92 (102)
+++..|..+++ -.-+....+.-|=|.+=.|.+.+++||...+.||++-||..+|++||...+.+.
T Consensus 17 ~~i~~iL~s~G-I~eyEprVi~qlLefa~rYtt~vL~DA~vys~HA~ka~i~~eDVrlA~~~~~~~ 81 (148)
T KOG3334|consen 17 RVIASILKSLG-IQEYEPRVINQLLEFAYRYTTTVLDDAKVYSSHAKKATIDAEDVRLAIQMRVDH 81 (148)
T ss_pred HHHHHHHHHcC-ccccChHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHhcc
Confidence 55666655554 334567778888899999999999999999999999999999999998776543
>smart00427 H2B Histone H2B
Back Show alignment and domain information
Probab=95.92 E-value=0.065 Score=36.32 Aligned_cols=61 Identities=15% Similarity=0.205 Sum_probs=50.3
Q ss_pred HHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHH
Q psy1398 29 VREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESV 89 (102)
Q Consensus 29 VrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~ 89 (102)
+..+......+..+++.|+..+--..-+..-.+..+|..++...||.||+.+|||-|.++.
T Consensus 7 i~kvLKqVhpd~giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~TltsreIqtAvrl~ 67 (89)
T smart00427 7 IYKVLKQVHPDTGISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLSSREIQTAVRLI 67 (89)
T ss_pred HHHHHHHhCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHHH
Confidence 3334334456778999999998888888888888889999999999999999999998864
>PLN00158 histone H2B; Provisional
Back Show alignment and domain information
Probab=95.72 E-value=0.074 Score=37.68 Aligned_cols=69 Identities=13% Similarity=0.197 Sum_probs=58.0
Q ss_pred ccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHH
Q psy1398 21 RKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESV 89 (102)
Q Consensus 21 pk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~ 89 (102)
++-.|..-+..+......+..+++.|+..+--...++...+..+|..++...+|.||..+|||-+.++.
T Consensus 25 r~esy~~YI~kVLKQVhPd~gIS~kaM~ImnSfvnDiferIA~EAs~La~~nkr~TltsrEIqtAvrLv 93 (116)
T PLN00158 25 KTETYKIYIYKVLKQVHPDTGISSKAMSIMNSFINDIFEKIATEAGKLARYNKKPTVTSREIQTAVRLI 93 (116)
T ss_pred ccccHHHHHHHHHHHhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHHh
Confidence 355666666666666677889999999998888888888888899999999999999999999998764
>PLN00154 histone H2A; Provisional
Back Show alignment and domain information
Probab=95.55 E-value=0.028 Score=40.80 Aligned_cols=74 Identities=18% Similarity=0.147 Sum_probs=62.7
Q ss_pred hhhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHHHhhccc
Q psy1398 17 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESVENARLR 95 (102)
Q Consensus 17 ~lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~~~~~~~ 95 (102)
.|.+|-....|+.|+-.. ...|+.++|..-|-.+.|....+++|-|...|...|+..|++++++||. +.+..|+
T Consensus 36 gL~FPVgRi~r~Lk~g~~---~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lAI--rnDeEL~ 109 (136)
T PLN00154 36 GLQFPVGRIHRQLKQRVS---AHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAI--RGDEELD 109 (136)
T ss_pred CccCchHHHHHHHHhhhh---hccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhhc--cCcHHHH
Confidence 677888888888888632 3579999999999999999999999999999999999999999999995 4444443
>PTZ00463 histone H2B; Provisional
Back Show alignment and domain information
Probab=95.54 E-value=0.084 Score=37.47 Aligned_cols=68 Identities=10% Similarity=0.102 Sum_probs=57.3
Q ss_pred cchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHH
Q psy1398 22 KLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESV 89 (102)
Q Consensus 22 k~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~ 89 (102)
+-.|..-+..+......+..+++.|+..+--...+....+..+|..++...+|.||..+|||-+.++.
T Consensus 27 ~esy~~YI~KVLKqVhPd~gIS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAvrLl 94 (117)
T PTZ00463 27 YDSYGLYIFKVLKQVHPDTGISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAIRLV 94 (117)
T ss_pred cchHHHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHhhc
Confidence 45566666666666677888999999998888888888888899999999999999999999998864
>smart00414 H2A Histone 2A
Back Show alignment and domain information
Probab=95.48 E-value=0.018 Score=39.89 Aligned_cols=72 Identities=24% Similarity=0.222 Sum_probs=60.6
Q ss_pred hhhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHHHhhcc
Q psy1398 17 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESVENARL 94 (102)
Q Consensus 17 ~lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~~~~~~ 94 (102)
+|.+|-.-|.|+.|+- ....|+.++|..-|-...|....+++|-|...|...|+..|+++|++++. +.+..|
T Consensus 7 gL~fPVgRi~r~Lk~~----~~~~Rv~~~A~VyLaAvLEYLtaEILeLagn~a~~~k~~rItp~hi~lAi--~nD~EL 78 (106)
T smart00414 7 GLQFPVGRIHRLLRKG----TYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAI--RNDEEL 78 (106)
T ss_pred CccCchHHHHHHHHcC----ccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchHHHhhhc--cCCHHH
Confidence 5777888888888765 23569999999999999999999999999999999999999999999994 444443
>KOG0871|consensus
Back Show alignment and domain information
Probab=95.37 E-value=0.05 Score=40.18 Aligned_cols=69 Identities=17% Similarity=0.267 Sum_probs=62.5
Q ss_pred cchhhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHH
Q psy1398 15 STELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAA 86 (102)
Q Consensus 15 st~lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ 86 (102)
.-++-+||+..+.+|+|+.. .+.||..+|-+.+++.+=.|+--+...||..+---.++||.++-+.=|.
T Consensus 8 dde~sLPkAtv~KmIke~lP---~d~rvakeareliincCvEFI~liSsEAneic~~e~KKTIa~EHV~KAL 76 (156)
T KOG0871|consen 8 DDELSLPKATVNKMIKEMLP---KDVRVAKEARELIINCCVEFINLISSEANEICNKEAKKTIAPEHVIKAL 76 (156)
T ss_pred cccccCcHHHHHHHHHHhCC---cccccchHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcccCCHHHHHHHH
Confidence 34677999999999999964 7899999999999999999999999999999999999999998876554
>PTZ00017 histone H2A; Provisional
Back Show alignment and domain information
Probab=95.16 E-value=0.023 Score=41.09 Aligned_cols=73 Identities=22% Similarity=0.194 Sum_probs=62.2
Q ss_pred hhhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHHHhhccc
Q psy1398 17 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESVENARLR 95 (102)
Q Consensus 17 ~lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~~~~~~~ 95 (102)
.|.+|-..+.|+.|+-. ...|+.+.|..-|-.+.|....+++|-|...|...|+..|++++++|+. +.+..|+
T Consensus 25 gL~FPVgRi~R~Lk~g~----~a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~RItPrHi~lAI--~nDeEL~ 97 (134)
T PTZ00017 25 GLQFPVGRVHRYLKKGR----YAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLAI--RNDEELN 97 (134)
T ss_pred CcccchHHHHHHHhccc----hhccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHhhc--cCcHHHH
Confidence 68888888888887642 4569999999999999999999999999999999999999999999994 4444443
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]
Back Show alignment and domain information
Probab=95.08 E-value=0.037 Score=39.64 Aligned_cols=72 Identities=22% Similarity=0.275 Sum_probs=58.4
Q ss_pred hhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHHHhhccc
Q psy1398 18 LLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESVENARLR 95 (102)
Q Consensus 18 lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~~~~~~~ 95 (102)
+..|--...|+.| .-....|+.++|..++-...|....++.|-|-..|.--|-+.|+|+-+||| ||++-.|+
T Consensus 25 l~fpvgrvkr~lk----~~~~~~Rig~~A~Vyl~AvleYL~aEilelAgNaA~d~kkkri~PrHlqlA--IrnD~EL~ 96 (132)
T COG5262 25 LIFPVGRVKRLLK----KGNYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIPRHLQLA--IRNDEELN 96 (132)
T ss_pred ccccHHHHHHHHH----cCccceeecCCcHHHHHHHHHHHHHHHHHHhhhhhhhcCcceechHHHHHH--hcCcHHHH
Confidence 4444444444444 334789999999999999999999999999999999999999999999999 66666554
>PLN00156 histone H2AX; Provisional
Back Show alignment and domain information
Probab=94.30 E-value=0.055 Score=39.36 Aligned_cols=73 Identities=23% Similarity=0.220 Sum_probs=60.7
Q ss_pred hhhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHHHhhccc
Q psy1398 17 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESVENARLR 95 (102)
Q Consensus 17 ~lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~~~~~~~ 95 (102)
.|.+|-..+.|+.|+- ....|+.+.|...|-...|....+++|-|...|...|+..|+++.++|+. +.+..|+
T Consensus 27 gL~FPVgRi~R~Lk~g----~ya~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi~lAI--rnDeEL~ 99 (139)
T PLN00156 27 GLQFPVGRIARFLKAG----KYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAV--RNDEELS 99 (139)
T ss_pred CcccchHHHHHHHhcC----ChhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHhhc--cCcHHHH
Confidence 5777777777777764 24579999999999999999999999999999999999999999999994 4444443
>PLN00157 histone H2A; Provisional
Back Show alignment and domain information
Probab=94.29 E-value=0.049 Score=39.29 Aligned_cols=73 Identities=23% Similarity=0.221 Sum_probs=61.4
Q ss_pred hhhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHHHhhccc
Q psy1398 17 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESVENARLR 95 (102)
Q Consensus 17 ~lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~~~~~~~ 95 (102)
.|.+|-..+.|+.|+- ....|+.+.|..-|-...|....+++|-|...|...|+..|++++++|+. +.+..|+
T Consensus 24 gL~FPVgRi~R~Lk~g----~~a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI--~nDeEL~ 96 (132)
T PLN00157 24 GLQFPVGRIARYLKAG----KYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRIVPRHIQLAV--RNDEELS 96 (132)
T ss_pred CcccchHHHHHHHhcC----chhhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHhhcc--cCcHHHH
Confidence 6778877788887763 24679999999999999999999999999999999999999999999994 4444443
>PLN00153 histone H2A; Provisional
Back Show alignment and domain information
Probab=94.04 E-value=0.065 Score=38.54 Aligned_cols=73 Identities=23% Similarity=0.210 Sum_probs=61.2
Q ss_pred hhhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHHHhhccc
Q psy1398 17 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESVENARLR 95 (102)
Q Consensus 17 ~lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~~~~~~~ 95 (102)
.|.+|-..+.|+.|+- ....|+.+.|..-|-...|....+++|-|...|...|+..|+++.++|+. +.+..|+
T Consensus 22 gL~FpVgRi~R~Lr~g----~~a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI--~nDeEL~ 94 (129)
T PLN00153 22 GLQFPVGRIARYLKKG----KYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVPRHIQLAI--RNDEELG 94 (129)
T ss_pred CcccchHHHHHHHhcC----chhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccChHHHHhhc--cCcHHHH
Confidence 6777777777877763 24679999999999999999999999999999999999999999999994 4444443
>KOG1756|consensus
Back Show alignment and domain information
Probab=94.04 E-value=0.079 Score=38.21 Aligned_cols=73 Identities=23% Similarity=0.240 Sum_probs=59.6
Q ss_pred hhhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHHHhhccc
Q psy1398 17 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESVENARLR 95 (102)
Q Consensus 17 ~lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~~~~~~~ 95 (102)
++..|---..|+.|+ -....|+..+|...|-...|....++.|.|-..|.-.++..|+++-++|| |+.+.+||
T Consensus 25 gl~fPvgri~r~Lr~----~~~~~ri~~gapV~laavLeYL~Aeile~agnaardnkk~ri~PrH~~lA--I~NDeEL~ 97 (131)
T KOG1756|consen 25 GLQFPVGRIHRLLRK----GRYAQRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRITPRHLQLA--IRNDEELN 97 (131)
T ss_pred ccccCHHHHHHHHHc----cchhhhccCCChHHHHHHHHHHHHHHHHHhHHHhhhcCccccChHHHHHH--HhCcHHHH
Confidence 455565556666666 23788999999999998889888999999999999999999999999999 55555554
>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=93.76 E-value=0.043 Score=36.84 Aligned_cols=59 Identities=14% Similarity=0.181 Sum_probs=29.6
Q ss_pred HHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHH
Q psy1398 29 VREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAE 87 (102)
Q Consensus 29 VrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~r 87 (102)
++++.-.|+....=.++.+..+.+..-.|++.+...|..+|.+.++.+|+++|+..+.|
T Consensus 7 I~~mMy~fGD~~~P~~eTv~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR 65 (93)
T PF02269_consen 7 IRQMMYGFGDVEEPLPETVDLVEDIVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLR 65 (93)
T ss_dssp CHHHHHCTTS-SS--HHHHHHHHHHHHHHHHHHHHHHHC--------------------
T ss_pred HHHHHHHcCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHh
Confidence 34455556655667788999999999999999999999999999999999999998865
Determination of the crystal structure reveals an atypical histone fold [].; GO: 0006366 transcription from RNA polymerase II promoter; PDB: 1BH9_A 1BH8_A.
>PTZ00252 histone H2A; Provisional
Back Show alignment and domain information
Probab=93.04 E-value=0.15 Score=37.01 Aligned_cols=73 Identities=19% Similarity=0.199 Sum_probs=58.7
Q ss_pred hhhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhh--cCccccCcccHHHHHHHHHhhcc
Q psy1398 17 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIH--AKRVTIMPKDIQLAAESVENARL 94 (102)
Q Consensus 17 ~lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~H--akRvTi~~kDi~La~ri~~~~~~ 94 (102)
.|.+|-..+.|+.|+- ....|+.+.|..-|-...|....+++|-|...|.. .|+..|+++.++|+.+ .+..|
T Consensus 23 GL~FPVgRi~R~Lr~g----~ya~RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~kk~RItPrHi~lAIr--NDeEL 96 (134)
T PTZ00252 23 GLIFPVGRVGSLLRRG----QYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPKRLTPRTVTLAVR--HDDDL 96 (134)
T ss_pred CccCchHHHHHHHHcC----CcccccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccccHHHHHhhcc--ChHHH
Confidence 6777777777777765 24679999999999999999999999999998864 5778899999999954 44444
Q ss_pred c
Q psy1398 95 R 95 (102)
Q Consensus 95 ~ 95 (102)
+
T Consensus 97 ~ 97 (134)
T PTZ00252 97 G 97 (134)
T ss_pred H
Confidence 3
>KOG2549|consensus
Back Show alignment and domain information
Probab=92.51 E-value=0.41 Score=41.71 Aligned_cols=53 Identities=21% Similarity=0.303 Sum_probs=48.4
Q ss_pred cccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHHH
Q psy1398 38 TDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESVE 90 (102)
Q Consensus 38 ~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~~ 90 (102)
|-..+..+|..+|-+-.|.-+-++.++|.+++.|+||-+++++|+.-|.+.+.
T Consensus 25 Gi~nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~ALr~~n 77 (576)
T KOG2549|consen 25 GITNLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYALRSLN 77 (576)
T ss_pred CccccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHHHhhcc
Confidence 55668899999999999999999999999999999999999999998887653
>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Back Show alignment and domain information
Probab=91.89 E-value=0.57 Score=34.08 Aligned_cols=69 Identities=22% Similarity=0.203 Sum_probs=61.3
Q ss_pred cchhhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHH
Q psy1398 15 STELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAA 86 (102)
Q Consensus 15 st~lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ 86 (102)
+.++-+||+-.+..|-+|.. .++-|+.+|-+-+++++=.|+--+--.|+.++-.-+.+||-.+-+-=|.
T Consensus 7 dDe~sLPKATVqKMvS~iLp---~dl~ftKearei~in~cieFi~~lsseAne~ce~EaKKTIa~EHviKAL 75 (148)
T COG5150 7 DDENSLPKATVQKMVSSILP---KDLVFTKEAREIFINACIEFINMLSSEANEACEEEAKKTIAYEHVIKAL 75 (148)
T ss_pred cccccCcHHHHHHHHHHhcc---ccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHH
Confidence 44677899999999999965 8899999999999999999999999999999999999999988765443
>KOG1744|consensus
Back Show alignment and domain information
Probab=90.75 E-value=0.78 Score=32.98 Aligned_cols=64 Identities=20% Similarity=0.208 Sum_probs=50.8
Q ss_pred HHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHHHh
Q psy1398 28 LVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESVEN 91 (102)
Q Consensus 28 LVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~~~ 91 (102)
-|..+......+.-+++.|+..+--..-+++-.+...|..+|..-||-||..++|+.+.++.--
T Consensus 42 yv~kvlk~Vhpd~gis~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta~rLllP 105 (127)
T KOG1744|consen 42 YVYKVLKQVHPDLGISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTAVRLLLP 105 (127)
T ss_pred ehhhhhhcccCCCCcCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHHHHHhCc
Confidence 3333433334456699999998888777788888889999999999999999999999987643
>COG5094 TAF9 Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Back Show alignment and domain information
Probab=90.61 E-value=0.94 Score=32.88 Aligned_cols=60 Identities=25% Similarity=0.357 Sum_probs=44.0
Q ss_pred HHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCc---ccHHHHHH
Q psy1398 27 RLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMP---KDIQLAAE 87 (102)
Q Consensus 27 RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~---kDi~La~r 87 (102)
||+.=|..+.+ -.........-|-+.|-.|..++.+||...|.|++|-.+.. +|++||.-
T Consensus 18 rlihliL~Slg-i~~ye~~VplQLl~FAhRYTq~vl~Dalvya~htgrg~~a~l~veDvrLA~a 80 (145)
T COG5094 18 RLIHLILRSLG-IEEYEPKVPLQLLEFAHRYTQDVLEDALVYAKHTGRGHIATLGVEDVRLALA 80 (145)
T ss_pred hHHHHHHHhcC-chhhCccchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCcccHHHHHHHHH
Confidence 55555544333 23344555666778899999999999999999999876555 99999853
>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=87.93 E-value=3.9 Score=27.45 Aligned_cols=62 Identities=16% Similarity=0.235 Sum_probs=47.2
Q ss_pred HHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHH
Q psy1398 25 FQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAE 87 (102)
Q Consensus 25 F~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~r 87 (102)
|..=++...--|+..-.=..+.+..+-+..-.|+.++.-.|..+|. .+|-.++++|+..+.|
T Consensus 4 f~~ei~~mmy~~GD~~~P~~eTv~llE~iv~~~i~~l~~~a~~~A~-~r~~k~~~eD~~FliR 65 (92)
T cd07978 4 FTKEIRQMMYGFGDVQNPLPETVDLLEDIVVEYIIELCHKAAEVAQ-RRRGKVKVEDLIFLLR 65 (92)
T ss_pred cHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHHHh
Confidence 3333444554555444556788899999999999999999999998 5666669999998864
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
>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=87.79 E-value=2 Score=32.32 Aligned_cols=56 Identities=18% Similarity=0.210 Sum_probs=49.9
Q ss_pred hhhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcC
Q psy1398 17 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAK 73 (102)
Q Consensus 17 ~lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~Hak 73 (102)
..++...|+.+-++.|+...+-. -+..+.+..|..|+|.+|-.+.++...++.|-.
T Consensus 42 ~~fl~~~~l~~~~~~i~~~~g~~-~~~~d~~~lis~a~e~rlr~li~k~~~~s~hR~ 97 (212)
T cd08045 42 PSFLNPSPLAKKIRKIAKKHGLK-EVDEDVLDLISLALEERLRNLLEKLIEVSEHRV 97 (212)
T ss_pred hhccCHHHHHHHHHHHHHHcCCC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 46788899999999998876643 789999999999999999999999999999963
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
>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
Back Show alignment and domain information
Probab=86.99 E-value=1.1 Score=34.67 Aligned_cols=58 Identities=21% Similarity=0.265 Sum_probs=38.9
Q ss_pred hhhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCcc
Q psy1398 17 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRV 75 (102)
Q Consensus 17 ~lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRv 75 (102)
.+++...|+++-+++|+..++ ...+.++.+..|--|+|.+|-+|.+++...|.|....
T Consensus 41 ~~fL~~~~L~~~i~~i~~~~g-~~~~~~d~l~llS~A~e~rLr~lie~~~~~s~hR~~~ 98 (264)
T PF05236_consen 41 EPFLNPSPLQKRIQKIAKKHG-LKSVDEDVLELLSLATEERLRNLIEKAIVLSRHRRDS 98 (264)
T ss_dssp ---S-HHHHHHHHHHHHHCTT---EE-TCHHHHHHHHHHHHHHHHHHHHH---------
T ss_pred ccccCHHHHHHHHHHHHHHcC-CcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 466788889999999987665 5678999999999999999999999999999995443
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.
>PF09123 DUF1931: Domain of unknown function (DUF1931); InterPro: IPR015207 This entry represents a set of hypothetical bacterial proteins containing a core of six alpha-helices, where one central helix is surrounded by the other five
Back Show alignment and domain information
Probab=85.60 E-value=2.2 Score=31.09 Aligned_cols=64 Identities=23% Similarity=0.283 Sum_probs=48.4
Q ss_pred HHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHHHhhc
Q psy1398 25 FQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESVENAR 93 (102)
Q Consensus 25 F~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~~~~~ 93 (102)
|+|+.|+. ..+=+.++=+.-+-+..|.-+..||.-|+..|..-+|-+|.+.|+.+...+.+.++
T Consensus 1 fe~lFR~a-----a~LdvdK~d~~r~~d~V~~Kl~DLl~va~~~Ak~ngRdvI~~~DLPITkGlqesi~ 64 (138)
T PF09123_consen 1 FERLFRKA-----AGLDVDKNDAKRYSDFVEKKLYDLLLVAQENAKANGRDVIEPRDLPITKGLQESIR 64 (138)
T ss_dssp HHHHHHHH-----HS----HHHHHHHHHHHHHHHHHCCCCHHHHHHHTT-SEE-GGGS---HHHHHHHH
T ss_pred ChHHHHHH-----hccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeeccccCCccHHHHHHHH
Confidence 67888877 34556677788888999999999999999999999999999999999988877665
The exact function of this family has not, as yet, been determined []. ; PDB: 1WWS_A 1WWI_A 1R4V_A.
>KOG2389|consensus
Back Show alignment and domain information
Probab=84.52 E-value=2.4 Score=35.12 Aligned_cols=50 Identities=24% Similarity=0.148 Sum_probs=45.8
Q ss_pred cccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHH
Q psy1398 38 TDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAE 87 (102)
Q Consensus 38 ~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~r 87 (102)
+---++.+|++-|+..+-.|+-++-+.|-..+-|++|+-....|+-++..
T Consensus 43 g~~~~~~sale~Ltd~~~qyvQ~lgk~a~~~~n~anR~epnl~Div~Al~ 92 (353)
T KOG2389|consen 43 GYSSTQNSALETLTDVLQQYVQNLGKTAHRYSNLANRTEPNLFDIVLALQ 92 (353)
T ss_pred CCcccccHHHHHHHHHHHHHHHHHHhhhhhhhhhcCCCCccHHHHHHHHH
Confidence 34467888999999999999999999999999999999999999999864
>KOG4336|consensus
Back Show alignment and domain information
Probab=84.25 E-value=2.4 Score=34.66 Aligned_cols=48 Identities=17% Similarity=0.151 Sum_probs=44.2
Q ss_pred ccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHH
Q psy1398 41 RFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAES 88 (102)
Q Consensus 41 R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri 88 (102)
-++..|++.|-++.-.|+-++|+.+-..+.|+||--.+..|+.|...-
T Consensus 22 ~is~~aletlvell~~yi~eigrq~~n~celagRT~pT~~Dv~l~Li~ 69 (323)
T KOG4336|consen 22 SISNAALETLVELLQSYIREIGRQLHNYCELAGRTIPTQGDVKLTLIE 69 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHHH
Confidence 377889999999999999999999999999999999999999999754
>KOG1757|consensus
Back Show alignment and domain information
Probab=82.71 E-value=1.8 Score=30.89 Aligned_cols=70 Identities=20% Similarity=0.224 Sum_probs=57.0
Q ss_pred chHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHHHhhcc
Q psy1398 23 LPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESVENARL 94 (102)
Q Consensus 23 ~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~~~~~~ 94 (102)
.|..|+-|..-+.....-|+...|..-.-...|....+.+|-|...+.--|=+.|+++-.||+ |||+..|
T Consensus 31 FpVgRihr~LK~r~t~h~rVGataavy~aaileYLTaEVLeLAgNasKdLKvKRitprHlqLA--iRGDeEL 100 (131)
T KOG1757|consen 31 FPVGRIHRHLKTRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLA--IRGDEEL 100 (131)
T ss_pred cchHHHHHHHHHhcccccccchHHHHHHHHHHHHHHHHHHHHcccccccceeeeccchhheee--ecCcHHH
Confidence 577788887777667788999988888888888888889999999888888888999999998 5555444
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 102
d1tzyc_ 95
a.22.1.1 (C:) Histone H3 {Chicken (Gallus gallus),
7e-40 d1f1ea_ 151
a.22.1.2 (A:) Archaeal histone {Archaeon Methanopy
8e-10 d1ku5a_ 66
a.22.1.2 (A:) Archaeal histone {Archaeon (Pyrococc
2e-06 d1htaa_ 68
a.22.1.2 (A:) Archaeal histone {Archaeon Methanoth
8e-05 d1n1ja_ 87
a.22.1.3 (A:) Nuclear transcription factor Y subun
1e-04 d1q9ca_ 172
a.22.1.3 (A:) Histone domain of Son of sevenless p
2e-04 d1jfib_ 135
a.22.1.3 (B:) Negative cofactor 2, NC2, beta chain
0.001
>d1tzyc_ a.22.1.1 (C:) Histone H3 {Chicken (Gallus gallus), erythrocytes [TaxId: 9031]} Length = 95
Back Hide 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]
Score = 125 bits (316), Expect = 7e-40
Identities = 72/72 (100%), Positives = 72/72 (100%)
Query: 14 KSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAK 73
KSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAK
Sbjct: 16 KSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAK 75
Query: 74 RVTIMPKDIQLA 85
RVTIMPKDIQLA
Sbjct: 76 RVTIMPKDIQLA 87
>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 = 50.2 bits (120), Expect = 8e-10
Identities = 13/76 (17%), Positives = 24/76 (31%), Gaps = 5/76 (6%)
Query: 10 QKPMKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCA 69
+ L + +R+++ R S AV + L E A
Sbjct: 70 EGVEDYDGELFGRATVRRILKR-----AGIERASSDAVDLYNKLICRATEELGEKAAEYA 124
Query: 70 IHAKRVTIMPKDIQLA 85
R T+ +D++ A
Sbjct: 125 DEDGRKTVQGEDVEKA 140
>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 = 39.7 bits (93), Expect = 2e-06
Identities = 20/66 (30%), Positives = 29/66 (43%), Gaps = 2/66 (3%)
Query: 23 LPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDI 82
LP + R I + R A L E E Y + + + A HA R T+ +DI
Sbjct: 3 LPIAPVDRLIRKA--GAERVSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVEDI 60
Query: 83 QLAAES 88
+LA +S
Sbjct: 61 KLAIKS 66
>d1htaa_ a.22.1.2 (A:) Archaeal histone {Archaeon Methanothermus fervidus, histone A [TaxId: 2180]} Length = 68
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]
Score = 35.5 bits (82), Expect = 8e-05
Identities = 15/47 (31%), Positives = 22/47 (46%)
Query: 41 RFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAE 87
R A +AL + E + + A HA R TI +DI+LA +
Sbjct: 20 RVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDIELARK 66
>d1n1ja_ a.22.1.3 (A:) Nuclear transcription factor Y subunit beta (Nf-Yb3) {Human (Homo sapiens) [TaxId: 9606]} Length = 87
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]
Score = 35.6 bits (82), Expect = 1e-04
Identities = 13/68 (19%), Positives = 25/68 (36%)
Query: 23 LPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDI 82
LP + R + + A +QE ++ + + + KR TI +DI
Sbjct: 3 LPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDI 62
Query: 83 QLAAESVE 90
A ++
Sbjct: 63 LFAMSTLG 70
>d1q9ca_ a.22.1.3 (A:) Histone domain of Son of sevenless protein {Human (Homo sapiens) [TaxId: 9606]} Length = 172
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]
Score = 35.9 bits (83), Expect = 2e-04
Identities = 10/81 (12%), Positives = 27/81 (33%), Gaps = 5/81 (6%)
Query: 5 ARERFQKPMKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFED 64
A+ +K + L + L++E+ + + + E + +
Sbjct: 85 AQSAIEKRKRRNPLSLPVEKIHPLLKEVLGY-----KIDHQVSVYIVAVLEYISADILKL 139
Query: 65 TNLCAIHAKRVTIMPKDIQLA 85
+ + I +DI++A
Sbjct: 140 AGNYVRNIRHYEITKQDIKVA 160
>d1jfib_ a.22.1.3 (B:) Negative cofactor 2, NC2, beta chain {Human (Homo sapiens) [TaxId: 9606]} Length = 135
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]
Score = 33.7 bits (77), Expect = 0.001
Identities = 10/68 (14%), Positives = 30/68 (44%), Gaps = 1/68 (1%)
Query: 23 LPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDI 82
+P + ++ ++ ++R + A + ++ + + N +++ TI P+ +
Sbjct: 5 IPRAA-INKMIKETLPNVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISPEHV 63
Query: 83 QLAAESVE 90
A ES+
Sbjct: 64 IQALESLG 71
Homologous Domains Detected by HHsearch
Original result of HHsearch against SCOP70(version1.75) database
ID Alignment Graph Length
Definition
Probability Query 102
d1tzyc_ 95
Histone H3 {Chicken (Gallus gallus), erythrocytes
100.0 d1f1ea_ 151
Archaeal histone {Archaeon Methanopyrus kandleri [
99.48 d1htaa_ 68
Archaeal histone {Archaeon Methanothermus fervidus
99.43 d1ku5a_ 66
Archaeal histone {Archaeon (Pyrococcus horikoshii)
99.35 d2huec1 82
Histone H4 {African clawed frog (Xenopus laevis) [
99.11 d1n1ja_ 87
Nuclear transcription factor Y subunit beta (Nf-Yb
99.01 d1f1ea_ 151
Archaeal histone {Archaeon Methanopyrus kandleri [
98.93 d1q9ca_ 172
Histone domain of Son of sevenless protein {Human
98.75 d1jfib_ 135
Negative cofactor 2, NC2, beta chain {Human (Homo
98.65 d2bykb1 89
Chrac-14 {Fruit fly (Drosophila melanogaster) [Tax
98.54 d1n1jb_ 78
Nuclear transcription factor Y subunit gamma (Nf-Y
98.45 d1jfia_ 66
Negative cofactor 2, NC2, alpha chain {Human (Homo
98.27 d1h3ob_ 74
TAF(II)-20, (TAF(II)-15, hTAF12), histone fold dom
98.04 d1tafa_ 68
TAF(II)42 {Fruit fly (Drosophila melanogaster) [Ta
97.86 d1tafb_ 70
TAF(II)62 {Fruit fly (Drosophila melanogaster) [Ta
97.86 d1tzyb_ 92
Histone H2B {Chicken (Gallus gallus), erythrocytes
97.32 d1u35c1 106
macro-H2A.1, histone domain {Human (Homo sapiens)
97.15 d1f66c_ 103
Histone H2A {Human (Homo sapiens), variant H2A.Z [
97.0 d1tzya_ 106
Histone H2A {Chicken (Gallus gallus), erythrocytes
96.98 d2byka1 72
Chrac-16 {Fruit fly (Drosophila melanogaster) [Tax
96.11 d1wwia1 148
Hypothetical protein TTHA1479 {Thermus thermophilu
87.44 d1r4va_ 151
Hypothetical protein Aq_328 {Aquifex aeolicus [Tax
80.7
>d1tzyc_ a.22.1.1 (C:) Histone H3 {Chicken (Gallus gallus), erythrocytes [TaxId: 9031]}
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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=100.00 E-value=1.2e-46 Score=253.66 Aligned_cols=89 Identities=83% Similarity=1.074 Sum_probs=87.6
Q ss_pred chhhhhhhcccccchhhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccH
Q psy1398 3 WVARERFQKPMKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDI 82 (102)
Q Consensus 3 ~valrEIr~yQkst~lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi 82 (102)
+|||+|||+||+||++||||+||+||||||++++++++|||++|+++|||++|+|||++|+|||+||+|+||||||++||
T Consensus 5 t~ALrEIRk~Qkst~lLIpk~pF~RLVRei~~~~~~~~r~~~~Al~aLQea~E~yLv~lfeda~~~a~HakRvTl~~kD~ 84 (95)
T d1tzyc_ 5 TVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDI 84 (95)
T ss_dssp HHHHHHHHHHHHCCSCCSCHHHHHHHHHHHHHHHCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHH
T ss_pred hHHHHHHHHHhCCcccccccccHHHHHHHHHHhcCCCCEeeHHHHHHHHHHHHHHHHHHHHHhHHHHHhcCCCcCCHHHH
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHh
Q psy1398 83 QLAAESVEN 91 (102)
Q Consensus 83 ~La~ri~~~ 91 (102)
+||++|||+
T Consensus 85 ~LarrirG~ 93 (95)
T d1tzyc_ 85 QLARRIRGE 93 (95)
T ss_dssp HHHHHHHTC
T ss_pred HHHHHHhcc
Confidence 999999986
>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=99.48 E-value=2.2e-14 Score=100.84 Aligned_cols=72 Identities=18% Similarity=0.049 Sum_probs=66.9
Q ss_pred ccccchhhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHH
Q psy1398 12 PMKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAES 88 (102)
Q Consensus 12 yQkst~lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri 88 (102)
.++..++++|++|+.|+.|+. +..|++++|..+|++++|.|+..++++|+.+|.|+||+||+++|+++|...
T Consensus 72 ~~~~~~~~fp~a~IkRi~k~~-----g~~ris~dA~~~l~~~~E~fi~~l~~~A~~~a~~~kRkTI~~~DI~~Av~~ 143 (151)
T d1f1ea_ 72 VEDYDGELFGRATVRRILKRA-----GIERASSDAVDLYNKLICRATEELGEKAAEYADEDGRKTVQGEDVEKAITY 143 (151)
T ss_dssp STTCCSCCCCHHHHHHHHHHT-----TCCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHH
T ss_pred ccccccCccCHHHHHHHHHcC-----CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHH
Confidence 345678999999999999975 789999999999999999999999999999999999999999999999764
>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=99.43 E-value=1.1e-13 Score=85.21 Aligned_cols=63 Identities=27% Similarity=0.313 Sum_probs=60.1
Q ss_pred cccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHH
Q psy1398 20 IRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAE 87 (102)
Q Consensus 20 Ipk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~r 87 (102)
+|++++.|++|+. +..|++.+|.+++++++|.|+..+.++|+.+|.|+||+||+++|+..|.+
T Consensus 4 LP~a~I~ri~k~~-----~~~ris~ea~~~l~~~~e~fi~~l~~~a~~~a~~~kRkTi~~~DV~~Alk 66 (68)
T d1htaa_ 4 LPIAPIGRIIKNA-----GAERVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDIELARK 66 (68)
T ss_dssp SCHHHHHHHHHHT-----TCSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHH
T ss_pred CcHHHHHHHHHHC-----CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHH
Confidence 7999999999985 77899999999999999999999999999999999999999999999875
>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=99.35 E-value=5e-13 Score=82.04 Aligned_cols=63 Identities=30% Similarity=0.372 Sum_probs=59.3
Q ss_pred cccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHH
Q psy1398 20 IRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAE 87 (102)
Q Consensus 20 Ipk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~r 87 (102)
+|+++..|++|+- ++.|++.+|.+++++++|.|+..+.++|+.+|.|+||+||+.+|+..|.+
T Consensus 3 LP~a~I~rI~k~~-----~~~ris~ea~~~l~~a~e~Fi~~l~~~a~~~a~~~~RKTI~~~Dv~~Al~ 65 (66)
T d1ku5a_ 3 LPIAPVDRLIRKA-----GAERVSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVEDIKLAIK 65 (66)
T ss_dssp SCHHHHHHHHHHT-----TCSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHT
T ss_pred CCHHHHHHHHHhC-----cccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHh
Confidence 6999999999975 67899999999999999999999999999999999999999999998863
>d2huec1 a.22.1.1 (C:20-101) Histone H4 {African clawed frog (Xenopus laevis) [TaxId: 8355]}
Back Show 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=99.11 E-value=3.7e-11 Score=77.01 Aligned_cols=64 Identities=23% Similarity=0.224 Sum_probs=61.4
Q ss_pred hcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHH
Q psy1398 19 LIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAE 87 (102)
Q Consensus 19 LIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~r 87 (102)
-|||.+..||.+.. |..|+++++.++|.+..|.++-++..+|..+|.|+||+||+.+|+.+|++
T Consensus 9 gI~k~~i~Riar~~-----Gv~ris~d~~~~l~~~l~~~l~~i~~~a~~~~~hakRKTvt~~DV~~Alk 72 (82)
T d2huec1 9 GITKPAIRRLARRG-----GVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALK 72 (82)
T ss_dssp SSCHHHHHHHHHHT-----TCCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHTT
T ss_pred CcCHHHHHHHHHHc-----CcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHH
Confidence 48999999999987 88999999999999999999999999999999999999999999999986
>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=99.01 E-value=2.5e-10 Score=73.10 Aligned_cols=69 Identities=16% Similarity=0.212 Sum_probs=62.5
Q ss_pred hhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHH
Q psy1398 18 LLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESV 89 (102)
Q Consensus 18 lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~ 89 (102)
|++|++...|++|+... +..+++.+|..+++.++|.|+..+.+.|+.+|...+|+||.++|+.-|..-.
T Consensus 1 l~LP~a~v~ri~K~~~p---~~~~is~ea~~~i~~a~e~Fi~~lt~~A~~~a~~~~rKTI~~~dv~~Al~~~ 69 (87)
T d1n1ja_ 1 IYLPIANVARIMKNAIP---QTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILFAMSTL 69 (87)
T ss_dssp CCCCHHHHHHHHHHTSC---TTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHT
T ss_pred CCCcHhHHHHHHHHhCC---ccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHc
Confidence 57899999999998743 5789999999999999999999999999999999999999999998886543
>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=98.93 E-value=5.4e-10 Score=77.99 Aligned_cols=67 Identities=12% Similarity=0.128 Sum_probs=63.0
Q ss_pred cccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHHH
Q psy1398 20 IRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESVE 90 (102)
Q Consensus 20 Ipk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~~ 90 (102)
+|++|..|++|++. ++.|++.+|.+.|++..+.+...+..+|+.++.|+||+||+++|++.+.+..+
T Consensus 2 lP~a~I~rilk~~~----~~~ris~da~~~l~~~~~~~~~~Ia~eA~~l~~~~~rKTi~~edi~~a~~~~~ 68 (151)
T d1f1ea_ 2 LPKAAIERIFRQGI----GERRLSQDAKDTIYDFVPTMAEYVANAAKSVLDASGKKTLMEEHLKALADVLM 68 (151)
T ss_dssp CCHHHHHHHHHTTS----TTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHHHHT
T ss_pred CCccHHHHHHHHhC----CccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHhcc
Confidence 69999999999874 67899999999999999999999999999999999999999999999987765
>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=98.75 E-value=8.2e-09 Score=74.04 Aligned_cols=74 Identities=12% Similarity=0.164 Sum_probs=62.4
Q ss_pred hhcccccchhhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHH
Q psy1398 9 FQKPMKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAE 87 (102)
Q Consensus 9 Ir~yQkst~lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~r 87 (102)
|....+-.+|.+|-.++.|+.|+. +..|++++|-..|-.+.|.+..+++|.|...|.|+||+||+++||++|.+
T Consensus 89 ~~srs~ragL~fPV~rv~rlLk~~-----~a~RVs~~A~vyLaavLEyl~aeILelAgn~a~~~krkrItp~dI~lAi~ 162 (172)
T d1q9ca_ 89 IEKRKRRNPLSLPVEKIHPLLKEV-----LGYKIDHQVSVYIVAVLEYISADILKLAGNYVRNIRHYEITKQDIKVAMC 162 (172)
T ss_dssp HC--------CCCHHHHHHHHHHH-----HSSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSBCCHHHHHHHHH
T ss_pred HhccccccCceecHHHHHHHHHhc-----cccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCceecHHHHHHHHh
Confidence 444455567999999999999997 67899999999999999999999999999999999999999999999954
>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=98.65 E-value=2.7e-08 Score=68.19 Aligned_cols=70 Identities=17% Similarity=0.299 Sum_probs=63.7
Q ss_pred hhhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHHH
Q psy1398 17 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESVE 90 (102)
Q Consensus 17 ~lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~~ 90 (102)
++.+|++...|++++.. ...+++.+|..++++++|.|+..|...|+..|...+|.||+++|+.-|..-.|
T Consensus 2 dl~LP~a~I~kI~K~~~----~~~~is~dA~~~i~~a~~~Fi~~lt~~A~~~a~~~~RkTi~~~Dv~~Al~~~~ 71 (135)
T d1jfib_ 2 DLTIPRAAINKMIKETL----PNVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISPEHVIQALESLG 71 (135)
T ss_dssp CCCCCHHHHHHHHHHHS----TTCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHHT
T ss_pred cccccHHHHHHHHhhCC----ccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcC
Confidence 57899999999999974 25799999999999999999999999999999999999999999998876443
>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=98.54 E-value=1.1e-07 Score=60.74 Aligned_cols=64 Identities=19% Similarity=0.196 Sum_probs=58.0
Q ss_pred ccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHH
Q psy1398 21 RKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAE 87 (102)
Q Consensus 21 pk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~r 87 (102)
|++...|++|+... .+.+++.+|..+++.++|.|+..|.+.|+..|.-.+|.||..+|+.-|..
T Consensus 1 P~a~i~ri~K~~~p---~~~~iskeA~~~i~~aae~FI~~lt~~A~~~a~~~~rKtI~~~dv~~Al~ 64 (89)
T d2bykb1 1 PNAVIGRLIKEALP---ESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTITAKDILQTLT 64 (89)
T ss_dssp CCSHHHHHHHHHSC---TTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHH
T ss_pred CccHHHHHHHHhCc---ccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccCHHHHHHHHH
Confidence 77888899988743 57899999999999999999999999999999999999999999977754
>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=98.45 E-value=3.1e-07 Score=56.94 Aligned_cols=63 Identities=19% Similarity=0.254 Sum_probs=53.2
Q ss_pred hHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHH
Q psy1398 24 PFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAE 87 (102)
Q Consensus 24 pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~r 87 (102)
|..|+ +.|.+......+++.+|..+++.++|.|+..|.+.|+..|...||.||+.+|+..+..
T Consensus 2 P~srV-krImK~~~~~~~is~ea~~~i~~a~E~Fi~~l~~~A~~~a~~~~rkti~~~dl~~av~ 64 (78)
T d1n1jb_ 2 PLARI-KKIMKLDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDIAMAIT 64 (78)
T ss_dssp CHHHH-HHHHTTSTTCCCBCTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHT
T ss_pred CHHHH-HHHHhcCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHh
Confidence 44443 4444444466899999999999999999999999999999999999999999998854
>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=98.27 E-value=5.3e-07 Score=54.52 Aligned_cols=63 Identities=14% Similarity=0.220 Sum_probs=49.9
Q ss_pred cchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHH
Q psy1398 22 KLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLA 85 (102)
Q Consensus 22 k~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La 85 (102)
+.|..|+ +.|.+.-.+..+++.+|...+..++|.|+..|.+.|+..|...||+||+++|+..|
T Consensus 2 ~fP~srV-kkimk~~~~~~~is~~A~~~~~~a~E~Fi~~l~~~A~~~a~~~krktI~~~dl~~a 64 (66)
T d1jfia_ 2 RFPPARI-KKIMQTDEEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNAKTMTTSHLKQC 64 (66)
T ss_dssp CCCHHHH-HHHHTTSTTCCCBCTTHHHHHHHHHHHHHHHHHHHHHHHHHTC---CBCHHHHHTT
T ss_pred CCChHHH-HHHHhcCCccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHH
Confidence 3455553 44544445667999999999999999999999999999999999999999999765
>d1h3ob_ a.22.1.3 (B:) TAF(II)-20, (TAF(II)-15, hTAF12), histone fold domain {Human (Homo sapiens) [TaxId: 9606]}
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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=98.04 E-value=9.2e-06 Score=50.80 Aligned_cols=64 Identities=23% Similarity=0.329 Sum_probs=58.3
Q ss_pred hcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHH
Q psy1398 19 LIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAA 86 (102)
Q Consensus 19 LIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ 86 (102)
++-|--.+.||++|. +...+.+++-+.|.+.|.+|+.+..+.|..+|.|.|-.||.++|++|..
T Consensus 3 il~K~~L~eLv~~id----p~~~ld~~vee~ll~iADdFV~~V~~~ac~lAKhR~s~~le~kDvql~L 66 (74)
T d1h3ob_ 3 VLTKKKLQDLVREVD----PNEQLDEDVEEMLLQIADDFIESVVTAACQLARHRKSSTLEVKDVQLHL 66 (74)
T ss_dssp SSCHHHHHHHHHHHC----SSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCEECHHHHHHHH
T ss_pred cccHHHHHHHHHHhC----CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCcHHHHHHHH
Confidence 456777888999983 5778999999999999999999999999999999999999999999985
>d1tafa_ a.22.1.3 (A:) TAF(II)42 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}
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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=97.86 E-value=3.5e-05 Score=47.45 Aligned_cols=62 Identities=24% Similarity=0.412 Sum_probs=53.9
Q ss_pred HHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHH
Q psy1398 26 QRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAES 88 (102)
Q Consensus 26 ~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri 88 (102)
.|++..|..+.+ =.-|++....-|=|.+=.|..++++||...+.|||+.+|..+|++||...
T Consensus 4 a~~i~~iL~~~G-V~~yeprV~~qlLef~yRYtt~VL~DA~vys~HA~k~~id~dDVkLAi~~ 65 (68)
T d1tafa_ 4 AQVIMSILKELN-VQEYEPRVVNQLLEFTFRYVTSILDDAKVYANHARKKTIDLDDVRLATEV 65 (68)
T ss_dssp HHHHHHHHHHTT-CCCBCTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHH
T ss_pred HHHHHHHHHHcC-CccccHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHh
Confidence 367788877664 44678888999999999999999999999999999999999999999654
>d1tafb_ a.22.1.3 (B:) TAF(II)62 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}
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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=97.86 E-value=2e-05 Score=48.85 Aligned_cols=59 Identities=22% Similarity=0.251 Sum_probs=51.1
Q ss_pred HHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHH
Q psy1398 28 LVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAE 87 (102)
Q Consensus 28 LVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~r 87 (102)
-||.|++..+ -...+.++..+|-+-+|.-+-++.++|.+++.|+||.+++..||.-|.|
T Consensus 11 sik~iAeS~G-i~~l~de~a~~LA~DveYRl~eiiQeA~KFMrhskR~~Ltt~Did~ALk 69 (70)
T d1tafb_ 11 SMKVIAESIG-VGSLSDDAAKELAEDVSIKLKRIVQDAAKFMNHAKRQKLSVRDIDMSLK 69 (70)
T ss_dssp HHHHHHHHTT-CCCBCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHC
T ss_pred HHHHHHHHcC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCcCcHHHHHHHHc
Confidence 3566666544 3357899999999999999999999999999999999999999998875
>d1tzyb_ a.22.1.1 (B:) Histone H2B {Chicken (Gallus gallus), erythrocytes [TaxId: 9031]}
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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=97.32 E-value=0.00044 Score=44.44 Aligned_cols=66 Identities=18% Similarity=0.207 Sum_probs=55.4
Q ss_pred hHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHH
Q psy1398 24 PFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESV 89 (102)
Q Consensus 24 pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~ 89 (102)
.|.--+..+..+...+..+++.|+..+--...++.-.+..+|..+|.+.||.||..+|||-|.++.
T Consensus 4 sy~~Yi~kVLKqVhp~~giS~kam~imnsfvndiferIa~EA~~La~~~kr~TitsreIqtAvrL~ 69 (92)
T d1tzyb_ 4 SYSIYVYKVLKQVHPDTGISSKAMGIMNSFVNDIFERIAGEASRLAHYNKRSTITSREIQTAVRLL 69 (92)
T ss_dssp CCHHHHHHHHHHHCTTCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHHHH
T ss_pred hHHHHHHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHHH
Confidence 344344444444457899999999999999999999999999999999999999999999998863
>d1u35c1 a.22.1.1 (C:814-919) macro-H2A.1, histone domain {Human (Homo sapiens) [TaxId: 9606]}
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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=97.15 E-value=0.00048 Score=45.25 Aligned_cols=72 Identities=17% Similarity=0.196 Sum_probs=62.4
Q ss_pred hhhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHHHhhcc
Q psy1398 17 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESVENARL 94 (102)
Q Consensus 17 ~lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~~~~~~ 94 (102)
+|.+|-.-+.|+.|+- ....|++++|-.-|-.+.|....+++|.|...|...|+..|+++|++|+. +.+..|
T Consensus 9 gL~FpV~ri~r~Lk~~----~~~~rv~~~apVylaAVLEYL~aEILELAgn~a~~~k~~rItprhi~lai--rnD~EL 80 (106)
T d1u35c1 9 GVIFPVGRMLRYIKKG----HPKYRIGVGAPVYMAAVLEYLTAEILELAVNAARDNKKGRVTPRHILLAV--ANDEEL 80 (106)
T ss_dssp TCSSCHHHHHHHHHHH----STTSEECTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHH--HHSHHH
T ss_pred CcccCHHHHHHHHhCC----CCccccCCCCchhHHHHHHHHHHHHHHHHHHHHHHcCCCeeecchhhhcc--cCHHHH
Confidence 6778888888888874 25789999999999999999999999999999999999999999999995 444443
>d1f66c_ a.22.1.1 (C:) Histone H2A {Human (Homo sapiens), variant H2A.Z [TaxId: 9606]}
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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=97.00 E-value=0.00047 Score=44.95 Aligned_cols=68 Identities=18% Similarity=0.137 Sum_probs=59.1
Q ss_pred hhhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHH
Q psy1398 17 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAE 87 (102)
Q Consensus 17 ~lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~r 87 (102)
+|.+|-..|.|+.|+-.. ...|+++.|-.-|-...|....+++|.|...+.-.|+..|+++|++++.+
T Consensus 9 gL~FpVgrv~r~L~~~~~---~~~rv~~~A~VyLaAvLEYL~aEILelagn~a~~~~~~rItpr~l~lai~ 76 (103)
T d1f66c_ 9 GLQFPVGRIHRHLKSRTT---SHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIR 76 (103)
T ss_dssp TCSSCHHHHHHHHHHTSC---SSCEECTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCSEECHHHHHHHHH
T ss_pred CcccChHHHHHHHhccCc---cceecCCCceeeHHHHHHHHHHHHHHHhhhhhccCCCCeeechhhhcccc
Confidence 577888888888887521 23579999999999999999999999999999999999999999999954
>d1tzya_ a.22.1.1 (A:) Histone H2A {Chicken (Gallus gallus), erythrocytes [TaxId: 9031]}
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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=96.98 E-value=0.00066 Score=44.58 Aligned_cols=67 Identities=24% Similarity=0.239 Sum_probs=59.5
Q ss_pred hhhcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHH
Q psy1398 17 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAE 87 (102)
Q Consensus 17 ~lLIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~r 87 (102)
+|.+|-.-+.|+.|+- ....|+.++|-.-|-.+.|....+++|.|...|...|+..|+++|++|+.+
T Consensus 10 gL~FpV~rv~r~Lk~~----~~~~rv~~~apVylaAVLEYLtaEiLELAgn~a~~~k~~rItPrhi~lAir 76 (106)
T d1tzya_ 10 GLQFPVGRVHRLLRKG----NYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAIR 76 (106)
T ss_dssp TCSSCHHHHHHHHHHT----TSSSEECTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECHHHHHHHHH
T ss_pred CccCChHHHHHHHHcC----ccccccCCCchHHHHHHHHHHHHHHHHHhhHHHHhcCCceecchhhhhccc
Confidence 6777888888888873 256799999999999999999999999999999999999999999999954
>d2byka1 a.22.1.3 (A:29-100) Chrac-16 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}
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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=96.11 E-value=0.0061 Score=36.74 Aligned_cols=47 Identities=4% Similarity=0.039 Sum_probs=42.1
Q ss_pred ccchHHHHHHHHHHHHHHHHHhHhHHHHh-hhcCccccCcccHHHHHH
Q psy1398 41 RFQSSAVMALQEASEAYLVGLFEDTNLCA-IHAKRVTIMPKDIQLAAE 87 (102)
Q Consensus 41 R~~~~Al~aLQeaaE~~lv~lfe~a~~~A-~HakRvTi~~kDi~La~r 87 (102)
.++.+|..++..|+|-|+..|-+.|..++ .+.+|.||..+|+.-+..
T Consensus 9 ~is~ea~~lvskAtElFi~~L~~~a~~~a~~~~~~ktl~~~dl~~aV~ 56 (72)
T d2byka1 9 LITNEVLFLMTKCTELFVRHLAGAAYTEEFGQRPGEALKYEHLSQVVN 56 (72)
T ss_dssp CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCSCEECHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCccccHHHHHHHHc
Confidence 67899999999999999999999998887 577789999999988753
>d1wwia1 a.22.1.4 (A:1-148) Hypothetical protein TTHA1479 {Thermus thermophilus [TaxId: 274]}
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class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Bacterial histone-fold protein
domain: Hypothetical protein TTHA1479
species: Thermus thermophilus [TaxId: 274]
Probab=87.44 E-value=0.31 Score=33.12 Aligned_cols=70 Identities=21% Similarity=0.251 Sum_probs=61.3
Q ss_pred hcccchHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHHHhhc
Q psy1398 19 LIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESVENAR 93 (102)
Q Consensus 19 LIpk~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~~~~~ 93 (102)
+||-.-|+|+.|+.+ ++=+.++-++-+-+..|.-+-.||.-|+..|.--+|-.|.+.|+.+...+.+.++
T Consensus 2 ~m~~~k~e~~FR~aa-----~LdvdK~d~~r~~d~V~~Kl~DLllva~~~A~~n~RdvI~~~DLPITkGl~esi~ 71 (148)
T d1wwia1 2 LMKVAEFERLFRQAA-----GLDVDKNDLKRVSDFLRNKLYDLLAVAERNAKYNGRDLIFEPDLPIAKGLQETLQ 71 (148)
T ss_dssp CSCHHHHHHHHHHHH-----CCCCCGGGHHHHHHHHHHHHHHHHHHHHHHHHHTTCSEECGGGSCCCHHHHHHHH
T ss_pred CCcHHHHHHHHHHHh-----ccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeeccccCCccHHHHHHHH
Confidence 577788999999984 4666777788889999999999999999999999999999999988887777665
>d1r4va_ a.22.1.4 (A:) Hypothetical protein Aq_328 {Aquifex aeolicus [TaxId: 63363]}
Back Show information, alignment and structure
class: All alpha proteins
fold: Histone-fold
superfamily: Histone-fold
family: Bacterial histone-fold protein
domain: Hypothetical protein Aq 328
species: Aquifex aeolicus [TaxId: 63363]
Probab=80.70 E-value=0.99 Score=30.57 Aligned_cols=66 Identities=17% Similarity=0.156 Sum_probs=57.3
Q ss_pred chHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHhHhHHHHhhhcCccccCcccHHHHHHHHHhhc
Q psy1398 23 LPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAAESVENAR 93 (102)
Q Consensus 23 ~pF~RLVrEI~~~~~~~~R~~~~Al~aLQeaaE~~lv~lfe~a~~~A~HakRvTi~~kDi~La~ri~~~~~ 93 (102)
.-|+++.|+. .++=+.++=++-+-+..|.-+-.||.-|+..|..-+|-+|...|+.+...+.+.++
T Consensus 10 ~k~e~lFR~a-----agLdvdK~d~~r~~d~V~~Kl~DLl~va~~~A~~n~RdvI~~~DLPITkGl~esi~ 75 (151)
T d1r4va_ 10 DKLDHYFRTE-----LDIDLTDETIELLLNSVKAAFGKLFYGAEQRARWNGRDFIALADLNITKALEEHIK 75 (151)
T ss_dssp HHHHHHHHHH-----HCCCCCHHHHHHHHHHHHHHHHHTTTTHHHHHHHTTCSEECGGGSCCCHHHHHHHH
T ss_pred HHHHHHHHHH-----hccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeeccccCCccHHHHHHHH
Confidence 3588999988 45666788888899999999999999999999999999999999988877777655
