BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy245
(566 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3ONI|A Chain A, Crystal Structure Of The Second Bromodomain Of Human Brd2
In Complex With The Inhibitor Jq1
Length = 114
Score = 182 bits (462), Expect = 4e-46, Method: Compositional matrix adjust.
Identities = 82/111 (73%), Positives = 98/111 (88%)
Query: 258 KLTESLKYCNEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMD 317
KL+E LK+CN ILKEL SKKH++YAWPFYKPVDA+ LGL+DYH+IIK PMDL TVK KM+
Sbjct: 4 KLSEQLKHCNGILKELLSKKHAAYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKME 63
Query: 318 AREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAKAPD 368
R+Y+ ++EFA DVRL+F+NCYKYNPPDHDVVAMA+KLQDVFE + AK PD
Sbjct: 64 NRDYRDAQEFAADVRLMFSNCYKYNPPDHDVVAMARKLQDVFEFRYAKMPD 114
Score = 83.2 bits (204), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 48/141 (34%), Positives = 68/141 (48%), Gaps = 41/141 (29%)
Query: 74 GRNTNQLAFISKNVLKPVMKHQHA---WPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYI 130
G+ + QL + +LK ++ +HA WPF++PVDA L L
Sbjct: 3 GKLSEQLKHCN-GILKELLSKKHAAYAWPFYKPVDASALGL------------------- 42
Query: 131 EYPILLAFALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNC 190
DYH +IKHPMDL T+K+++EN Y +E +D MF+NC
Sbjct: 43 ------------------HDYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNC 84
Query: 191 YVYNKPGEDVVVMAQTLEKLF 211
Y YN P DVV MA+ L+ +F
Sbjct: 85 YKYNPPDHDVVAMARKLQDVF 105
>pdb|2DVV|A Chain A, Crystal Structure Of The Second Bromodomain Of The Human
Brd2 Protein
pdb|2E3K|A Chain A, Crystal Structure Of The Human Brd2 Second Bromodomain In
Complexed With The Acetylated Histone H4 Peptide
pdb|2E3K|B Chain B, Crystal Structure Of The Human Brd2 Second Bromodomain In
Complexed With The Acetylated Histone H4 Peptide
pdb|2E3K|C Chain C, Crystal Structure Of The Human Brd2 Second Bromodomain In
Complexed With The Acetylated Histone H4 Peptide
pdb|2E3K|D Chain D, Crystal Structure Of The Human Brd2 Second Bromodomain In
Complexed With The Acetylated Histone H4 Peptide
Length = 112
Score = 178 bits (452), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 80/108 (74%), Positives = 95/108 (87%)
Query: 261 ESLKYCNEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDARE 320
E LK+CN ILKEL SKKH++YAWPFYKPVDA+ LGL+DYH+IIK PMDL TVK KM+ R+
Sbjct: 5 EQLKHCNGILKELLSKKHAAYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRD 64
Query: 321 YKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAKAPD 368
Y+ ++EFA DVRL+F+NCYKYNPPDHDVVAMA+KLQDVFE + AK PD
Sbjct: 65 YRDAQEFAADVRLMFSNCYKYNPPDHDVVAMARKLQDVFEFRYAKMPD 112
Score = 82.4 bits (202), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 48/141 (34%), Positives = 67/141 (47%), Gaps = 41/141 (29%)
Query: 74 GRNTNQLAFISKNVLKPVMKHQHA---WPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYI 130
G + QL + +LK ++ +HA WPF++PVDA L L
Sbjct: 1 GSHMEQLKHCN-GILKELLSKKHAAYAWPFYKPVDASALGL------------------- 40
Query: 131 EYPILLAFALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNC 190
DYH +IKHPMDL T+K+++EN Y +E +D MF+NC
Sbjct: 41 ------------------HDYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNC 82
Query: 191 YVYNKPGEDVVVMAQTLEKLF 211
Y YN P DVV MA+ L+ +F
Sbjct: 83 YKYNPPDHDVVAMARKLQDVF 103
>pdb|2G4A|A Chain A, Solution Structure Of A Bromodomain From Ring3 Protein
Length = 116
Score = 178 bits (451), Expect = 8e-45, Method: Compositional matrix adjust.
Identities = 80/108 (74%), Positives = 95/108 (87%)
Query: 261 ESLKYCNEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDARE 320
E LK+CN ILKEL SKKH++YAWPFYKPVDA+ LGL+DYH+IIK PMDL TVK KM+ R+
Sbjct: 1 EQLKHCNVILKELLSKKHAAYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRD 60
Query: 321 YKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAKAPD 368
Y+ ++EFA DVRL+F+NCYKYNPPDHDVVAMA+KLQDVFE + AK PD
Sbjct: 61 YRDAQEFAADVRLMFSNCYKYNPPDHDVVAMARKLQDVFEFRYAKMPD 108
Score = 81.3 bits (199), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 45/128 (35%), Positives = 62/128 (48%), Gaps = 40/128 (31%)
Query: 87 VLKPVMKHQHA---WPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYPILLAFALTVP 143
+LK ++ +HA WPF++PVDA L L
Sbjct: 9 ILKELLSKKHAAYAWPFYKPVDASALGL-------------------------------- 36
Query: 144 VLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVVM 203
DYH +IKHPMDL T+K+++EN Y +E +D MF+NCY YN P DVV M
Sbjct: 37 -----HDYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKYNPPDHDVVAM 91
Query: 204 AQTLEKLF 211
A+ L+ +F
Sbjct: 92 ARKLQDVF 99
>pdb|2OO1|A Chain A, Crystal Structure Of The Bromo Domain 2 Of Human
Bromodomain Containing Protein 3 (Brd3)
pdb|2OO1|B Chain B, Crystal Structure Of The Bromo Domain 2 Of Human
Bromodomain Containing Protein 3 (Brd3)
pdb|2OO1|C Chain C, Crystal Structure Of The Bromo Domain 2 Of Human
Bromodomain Containing Protein 3 (Brd3)
pdb|2OO1|D Chain D, Crystal Structure Of The Bromo Domain 2 Of Human
Bromodomain Containing Protein 3 (Brd3)
pdb|3S92|A Chain A, Crystal Structure Of The Second Bromodomain Of Human Brd3
In Complex With The Inhibitor Jq1
Length = 113
Score = 173 bits (439), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 77/110 (70%), Positives = 93/110 (84%)
Query: 258 KLTESLKYCNEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMD 317
KL+E L+YC+ IL+E+ SKKH++YAWPFYKPVDA L L+DYH+IIK PMDL TVK KMD
Sbjct: 4 KLSEHLRYCDSILREMLSKKHAAYAWPFYKPVDAEALELHDYHDIIKHPMDLSTVKRKMD 63
Query: 318 AREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAKAP 367
REY ++ FA DVRL+F+NCYKYNPPDH+VVAMA+KLQDVFE + AK P
Sbjct: 64 GREYPDAQGFAADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKMP 113
Score = 73.2 bits (178), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 42/146 (28%), Positives = 68/146 (46%), Gaps = 41/146 (28%)
Query: 74 GRNTNQLAFISKNVLKPVMKHQHA---WPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYI 130
G+ + L + ++L+ ++ +HA WPF++PVDA L L
Sbjct: 3 GKLSEHLRYCD-SILREMLSKKHAAYAWPFYKPVDAEALEL------------------- 42
Query: 131 EYPILLAFALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNC 190
DYH +IKHPMDL T+K++++ Y + +D MF+NC
Sbjct: 43 ------------------HDYHDIIKHPMDLSTVKRKMDGREYPDAQGFAADVRLMFSNC 84
Query: 191 YVYNKPGEDVVVMAQTLEKLFLTKVS 216
Y YN P +VV MA+ L+ +F + +
Sbjct: 85 YKYNPPDHEVVAMARKLQDVFEMRFA 110
>pdb|2OUO|A Chain A, Crystal Structure Of The Bromo Domain 2 In Human
Bromodomain Containing Protein 4 (Brd4)
pdb|2YEM|A Chain A, Crystal Structure Of The Second Bromodomain Of Human Brd4
With The Inhibitor Gw841819x
pdb|2YEM|B Chain B, Crystal Structure Of The Second Bromodomain Of Human Brd4
With The Inhibitor Gw841819x
Length = 130
Score = 172 bits (437), Expect = 4e-43, Method: Compositional matrix adjust.
Identities = 78/130 (60%), Positives = 103/130 (79%), Gaps = 4/130 (3%)
Query: 244 SVTSVGDQGSYAKP----KLTESLKYCNEILKELFSKKHSSYAWPFYKPVDAAWLGLNDY 299
S+ V D + P K++E LK C+ ILKE+F+KKH++YAWPFYKPVD LGL+DY
Sbjct: 1 SMKDVPDSQQHPAPEKSSKVSEQLKCCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDY 60
Query: 300 HEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVF 359
+IIK PMD+ T+K+K++AREY+ ++EF DVRL+F+NCYKYNPPDH+VVAMA+KLQDVF
Sbjct: 61 CDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVF 120
Query: 360 ETKIAKAPDD 369
E + AK PD+
Sbjct: 121 EMRFAKMPDE 130
Score = 71.2 bits (173), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 45/138 (32%), Positives = 61/138 (44%), Gaps = 41/138 (29%)
Query: 77 TNQLAFISKNVLKPVMKHQHA---WPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYP 133
+ QL S +LK + +HA WPF++PVD L L
Sbjct: 21 SEQLKCCS-GILKEMFAKKHAAYAWPFYKPVDVEALGL---------------------- 57
Query: 134 ILLAFALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVY 193
DY +IKHPMD+ TIK +LE Y +E +D MF+NCY Y
Sbjct: 58 ---------------HDYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKY 102
Query: 194 NKPGEDVVVMAQTLEKLF 211
N P +VV MA+ L+ +F
Sbjct: 103 NPPDHEVVAMARKLQDVF 120
>pdb|2LSP|B Chain B, Solution Structures Of Brd4 Second Bromodomain With
Nf-Kb-K310ac Peptide
Length = 128
Score = 172 bits (436), Expect = 5e-43, Method: Compositional matrix adjust.
Identities = 74/112 (66%), Positives = 97/112 (86%)
Query: 258 KLTESLKYCNEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMD 317
K++E LK C+ ILKE+F+KKH++YAWPFYKPVD LGL+DY +IIK PMD+ T+K+K++
Sbjct: 17 KVSEQLKCCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLE 76
Query: 318 AREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAKAPDD 369
AREY+ ++EF DVRL+F+NCYKYNPPDH+VVAMA+KLQDVFE + AK PD+
Sbjct: 77 AREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKMPDE 128
Score = 71.2 bits (173), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 45/143 (31%), Positives = 63/143 (44%), Gaps = 41/143 (28%)
Query: 77 TNQLAFISKNVLKPVMKHQHA---WPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYP 133
+ QL S +LK + +HA WPF++PVD L L
Sbjct: 19 SEQLKCCS-GILKEMFAKKHAAYAWPFYKPVDVEALGL---------------------- 55
Query: 134 ILLAFALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVY 193
DY +IKHPMD+ TIK +LE Y +E +D MF+NCY Y
Sbjct: 56 ---------------HDYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKY 100
Query: 194 NKPGEDVVVMAQTLEKLFLTKVS 216
N P +VV MA+ L+ +F + +
Sbjct: 101 NPPDHEVVAMARKLQDVFEMRFA 123
>pdb|3JVL|A Chain A, Crystal Structure Of Bromodomain 2 Of Mouse Brd4
pdb|3JVM|A Chain A, Crystal Structure Of Bromodomain 2 Of Mouse Brd4
Length = 120
Score = 172 bits (435), Expect = 6e-43, Method: Compositional matrix adjust.
Identities = 76/121 (62%), Positives = 100/121 (82%), Gaps = 4/121 (3%)
Query: 249 GDQGSYAKPKLTESLKYCNEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMD 308
G GS K++E LK C+ ILKE+F+KKH++YAWPFYKPVD LGL+DY +IIK PMD
Sbjct: 1 GAMGS----KISEQLKCCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMD 56
Query: 309 LGTVKAKMDAREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAKAPD 368
+ T+K+K+++REY+ ++EF DVRL+F+NCYKYNPPDH+VVAMA+KLQDVFE + AK PD
Sbjct: 57 MSTIKSKLESREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKMPD 116
Query: 369 D 369
+
Sbjct: 117 E 117
Score = 72.0 bits (175), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 45/143 (31%), Positives = 64/143 (44%), Gaps = 41/143 (28%)
Query: 77 TNQLAFISKNVLKPVMKHQHA---WPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYP 133
+ QL S +LK + +HA WPF++PVD L L
Sbjct: 8 SEQLKCCS-GILKEMFAKKHAAYAWPFYKPVDVEALGL---------------------- 44
Query: 134 ILLAFALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVY 193
DY +IKHPMD+ TIK +LE+ Y +E +D MF+NCY Y
Sbjct: 45 ---------------HDYCDIIKHPMDMSTIKSKLESREYRDAQEFGADVRLMFSNCYKY 89
Query: 194 NKPGEDVVVMAQTLEKLFLTKVS 216
N P +VV MA+ L+ +F + +
Sbjct: 90 NPPDHEVVAMARKLQDVFEMRFA 112
>pdb|2E7N|A Chain A, Solution Structure Of The Second Bromodomain From Human
Bromodomain-Containing Protein 3
Length = 117
Score = 171 bits (433), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 76/108 (70%), Positives = 92/108 (85%)
Query: 258 KLTESLKYCNEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMD 317
KL+E L+YC+ IL+E+ SKKH++YAWPFYKPVDA L L+DYH+IIK PMDL TVK KMD
Sbjct: 9 KLSEHLRYCDSILREMLSKKHAAYAWPFYKPVDAEALELHDYHDIIKHPMDLSTVKRKMD 68
Query: 318 AREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAK 365
REY ++ FA DVRL+F+NCYKYNPPDH+VVAMA+KLQDVFE + AK
Sbjct: 69 GREYPDAQGFAADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAK 116
Score = 72.0 bits (175), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 40/134 (29%), Positives = 63/134 (47%), Gaps = 40/134 (29%)
Query: 86 NVLKPVMKHQHA---WPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYPILLAFALTV 142
++L+ ++ +HA WPF++PVDA L L
Sbjct: 19 SILREMLSKKHAAYAWPFYKPVDAEALEL------------------------------- 47
Query: 143 PVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVV 202
DYH +IKHPMDL T+K++++ Y + +D MF+NCY YN P +VV
Sbjct: 48 ------HDYHDIIKHPMDLSTVKRKMDGREYPDAQGFAADVRLMFSNCYKYNPPDHEVVA 101
Query: 203 MAQTLEKLFLTKVS 216
MA+ L+ +F + +
Sbjct: 102 MARKLQDVFEMRFA 115
>pdb|2WP1|A Chain A, Structure Of Brdt Bromodomain 2 Bound To An Acetylated
Histone H3 Peptide
pdb|2WP1|B Chain B, Structure Of Brdt Bromodomain 2 Bound To An Acetylated
Histone H3 Peptide
Length = 126
Score = 170 bits (431), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 78/117 (66%), Positives = 96/117 (82%), Gaps = 1/117 (0%)
Query: 258 KLTESLKYCNEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMD 317
K+TE LK+C+EILKE+ +KKH YAWPFY PVDA LGL++Y++++K PMDLGT+K KMD
Sbjct: 11 KVTEQLKHCSEILKEMLAKKHLPYAWPFYNPVDADALGLHNYYDVVKNPMDLGTIKGKMD 70
Query: 318 AREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAKAPDDVPIVS 374
+EYK + EFA DVRL+F NCYKYNPPDH+VVAMA+ LQDVFE AK PD+ PI S
Sbjct: 71 NQEYKDAYEFAADVRLMFMNCYKYNPPDHEVVAMARTLQDVFELHFAKIPDE-PIES 126
Score = 73.6 bits (179), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 47/138 (34%), Positives = 65/138 (47%), Gaps = 41/138 (29%)
Query: 77 TNQLAFISKNVLKPVMKHQH---AWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYP 133
T QL S+ +LK ++ +H AWPF+ PVDA L L
Sbjct: 13 TEQLKHCSE-ILKEMLAKKHLPYAWPFYNPVDADALGL---------------------- 49
Query: 134 ILLAFALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVY 193
+Y+ V+K+PMDLGTIK +++N Y E +D MF NCY Y
Sbjct: 50 ---------------HNYYDVVKNPMDLGTIKGKMDNQEYKDAYEFAADVRLMFMNCYKY 94
Query: 194 NKPGEDVVVMAQTLEKLF 211
N P +VV MA+TL+ +F
Sbjct: 95 NPPDHEVVAMARTLQDVF 112
>pdb|2I8N|A Chain A, Solution Structure Of The Second Bromodomain Of Brd4
Length = 114
Score = 163 bits (413), Expect = 2e-40, Method: Composition-based stats.
Identities = 71/105 (67%), Positives = 91/105 (86%)
Query: 261 ESLKYCNEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDARE 320
E LK C+ ILKE+F+KKH++YAWPFYKPVD LGL+DY +IIK PMD+ T+K+K++ARE
Sbjct: 1 EQLKCCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEARE 60
Query: 321 YKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAK 365
Y+ ++EF DVRL+F+NCYKYNPPDH+VVAMA+KLQDVFE + AK
Sbjct: 61 YRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAK 105
Score = 69.3 bits (168), Expect = 5e-12, Method: Composition-based stats.
Identities = 42/128 (32%), Positives = 57/128 (44%), Gaps = 40/128 (31%)
Query: 87 VLKPVMKHQHA---WPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYPILLAFALTVP 143
+LK + +HA WPF++PVD L L
Sbjct: 9 ILKEMFAKKHAAYAWPFYKPVDVEALGL-------------------------------- 36
Query: 144 VLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVVM 203
DY +IKHPMD+ TIK +LE Y +E +D MF+NCY YN P +VV M
Sbjct: 37 -----HDYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAM 91
Query: 204 AQTLEKLF 211
A+ L+ +F
Sbjct: 92 ARKLQDVF 99
>pdb|2DWW|A Chain A, Crystal Structure Of Bromodomain-Containing Protein 4
Length = 114
Score = 161 bits (407), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 71/111 (63%), Positives = 91/111 (81%)
Query: 258 KLTESLKYCNEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMD 317
K++E LK C+ ILKE F+KKH++YAWPFYKPVD LGL+DY +IIK P D T+K+K++
Sbjct: 4 KISEQLKCCSGILKEXFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPXDXSTIKSKLE 63
Query: 318 AREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAKAPD 368
+REY+ ++EF DVRL F+NCYKYNPPDH+VVA A+KLQDVFE + AK PD
Sbjct: 64 SREYRDAQEFGADVRLXFSNCYKYNPPDHEVVAXARKLQDVFEXRFAKXPD 114
Score = 62.0 bits (149), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 42/138 (30%), Positives = 57/138 (41%), Gaps = 41/138 (29%)
Query: 77 TNQLAFISKNVLKPVMKHQHA---WPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYP 133
+ QL S +LK +HA WPF++PVD L L
Sbjct: 6 SEQLKCCS-GILKEXFAKKHAAYAWPFYKPVDVEALGL---------------------- 42
Query: 134 ILLAFALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVY 193
DY +IKHP D TIK +LE+ Y +E +D F+NCY Y
Sbjct: 43 ---------------HDYCDIIKHPXDXSTIKSKLESREYRDAQEFGADVRLXFSNCYKY 87
Query: 194 NKPGEDVVVMAQTLEKLF 211
N P +VV A+ L+ +F
Sbjct: 88 NPPDHEVVAXARKLQDVF 105
>pdb|2NXB|A Chain A, Crystal Structure Of Human Bromodomain Containing Protein
3 (Brd3)
pdb|2NXB|B Chain B, Crystal Structure Of Human Bromodomain Containing Protein
3 (Brd3)
pdb|3S91|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd3
In Complex With The Inhibitor Jq1
Length = 123
Score = 152 bits (385), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 74/143 (51%), Positives = 89/143 (62%), Gaps = 37/143 (25%)
Query: 74 GRNTNQLAFISKNVLKPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYP 133
GR TNQL ++ V+K + KHQ AWPF+QPVDAI LNLP
Sbjct: 12 GRKTNQLQYMQNVVVKTLWKHQFAWPFYQPVDAIKLNLP--------------------- 50
Query: 134 ILLAFALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVY 193
DYHK+IK+PMD+GTIKKRLEN YYWS E + DFNTMFTNCY+Y
Sbjct: 51 ----------------DYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIY 94
Query: 194 NKPGEDVVVMAQTLEKLFLTKVS 216
NKP +D+V+MAQ LEK+FL KV+
Sbjct: 95 NKPTDDIVLMAQALEKIFLQKVA 117
Score = 105 bits (261), Expect = 9e-23, Method: Compositional matrix adjust.
Identities = 52/111 (46%), Positives = 73/111 (65%), Gaps = 4/111 (3%)
Query: 260 TESLKYC-NEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDA 318
T L+Y N ++K L+ KH +AWPFY+PVDA L L DYH+IIK PMD+GT+K +++
Sbjct: 15 TNQLQYMQNVVVKTLW--KHQ-FAWPFYQPVDAIKLNLPDYHKIIKNPMDMGTIKKRLEN 71
Query: 319 REYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAKAPDD 369
Y S+ E D +FTNCY YN P D+V MA+ L+ +F K+A+ P +
Sbjct: 72 NYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQALEKIFLQKVAQMPQE 122
>pdb|2L5E|A Chain A, Complex Between Bd1 Of Brd3 And Gata-1 C-Tail
Length = 128
Score = 152 bits (384), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 74/143 (51%), Positives = 89/143 (62%), Gaps = 37/143 (25%)
Query: 74 GRNTNQLAFISKNVLKPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYP 133
GR TNQL ++ V+K + KHQ AWPF+QPVDAI LNLP
Sbjct: 14 GRKTNQLQYMQNVVVKTLWKHQFAWPFYQPVDAIKLNLP--------------------- 52
Query: 134 ILLAFALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVY 193
DYHK+IK+PMD+GTIKKRLEN YYWS E + DFNTMFTNCY+Y
Sbjct: 53 ----------------DYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIY 96
Query: 194 NKPGEDVVVMAQTLEKLFLTKVS 216
NKP +D+V+MAQ LEK+FL KV+
Sbjct: 97 NKPTDDIVLMAQALEKIFLQKVA 119
Score = 105 bits (261), Expect = 9e-23, Method: Compositional matrix adjust.
Identities = 52/111 (46%), Positives = 73/111 (65%), Gaps = 4/111 (3%)
Query: 260 TESLKYC-NEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDA 318
T L+Y N ++K L+ KH +AWPFY+PVDA L L DYH+IIK PMD+GT+K +++
Sbjct: 17 TNQLQYMQNVVVKTLW--KHQ-FAWPFYQPVDAIKLNLPDYHKIIKNPMDMGTIKKRLEN 73
Query: 319 REYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAKAPDD 369
Y S+ E D +FTNCY YN P D+V MA+ L+ +F K+A+ P +
Sbjct: 74 NYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQALEKIFLQKVAQMPQE 124
>pdb|2YW5|A Chain A, Solution Structure Of The Bromodomain From Human
Bromodomain Containing Protein 3
Length = 138
Score = 152 bits (383), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 74/143 (51%), Positives = 89/143 (62%), Gaps = 37/143 (25%)
Query: 74 GRNTNQLAFISKNVLKPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYP 133
GR TNQL ++ V+K + KHQ AWPF+QPVDAI LNLP
Sbjct: 16 GRKTNQLQYMQNVVVKTLWKHQFAWPFYQPVDAIKLNLP--------------------- 54
Query: 134 ILLAFALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVY 193
DYHK+IK+PMD+GTIKKRLEN YYWS E + DFNTMFTNCY+Y
Sbjct: 55 ----------------DYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIY 98
Query: 194 NKPGEDVVVMAQTLEKLFLTKVS 216
NKP +D+V+MAQ LEK+FL KV+
Sbjct: 99 NKPTDDIVLMAQALEKIFLQKVA 121
Score = 104 bits (260), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 52/111 (46%), Positives = 73/111 (65%), Gaps = 4/111 (3%)
Query: 260 TESLKYC-NEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDA 318
T L+Y N ++K L+ KH +AWPFY+PVDA L L DYH+IIK PMD+GT+K +++
Sbjct: 19 TNQLQYMQNVVVKTLW--KHQ-FAWPFYQPVDAIKLNLPDYHKIIKNPMDMGTIKKRLEN 75
Query: 319 REYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAKAPDD 369
Y S+ E D +FTNCY YN P D+V MA+ L+ +F K+A+ P +
Sbjct: 76 NYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQALEKIFLQKVAQMPQE 126
>pdb|4A9E|A Chain A, N-Terminal Bromodomain Of Human Brd2 With
3-Methyl-1,2,3,4- Tetrahydroquinazolin-2-One
pdb|4A9E|B Chain B, N-Terminal Bromodomain Of Human Brd2 With
3-Methyl-1,2,3,4- Tetrahydroquinazolin-2-One
pdb|4A9E|C Chain C, N-Terminal Bromodomain Of Human Brd2 With
3-Methyl-1,2,3,4- Tetrahydroquinazolin-2-One
pdb|4A9F|A Chain A, N-Terminal Bromodomain Of Human Brd2 With
1-Methylpyrrolidin-2-One
pdb|4A9F|B Chain B, N-Terminal Bromodomain Of Human Brd2 With
1-Methylpyrrolidin-2-One
pdb|4A9F|C Chain C, N-Terminal Bromodomain Of Human Brd2 With
1-Methylpyrrolidin-2-One
pdb|4A9H|A Chain A, N-Terminal Bromodomain Of Human Brd2 With
1-(2-Methyl-1,2,3, 4-Tetrahydroquinolin-1-Yl)ethan-1-One
pdb|4A9H|B Chain B, N-Terminal Bromodomain Of Human Brd2 With
1-(2-Methyl-1,2,3, 4-Tetrahydroquinolin-1-Yl)ethan-1-One
pdb|4A9H|C Chain C, N-Terminal Bromodomain Of Human Brd2 With
1-(2-Methyl-1,2,3, 4-Tetrahydroquinolin-1-Yl)ethan-1-One
pdb|4A9I|A Chain A, N-Terminal Bromodomain Of Human Brd2 With
3-Methyl-1,2,3,4- Tetrahydroquinazolin-2-One
pdb|4A9I|B Chain B, N-Terminal Bromodomain Of Human Brd2 With
3-Methyl-1,2,3,4- Tetrahydroquinazolin-2-One
pdb|4A9I|C Chain C, N-Terminal Bromodomain Of Human Brd2 With
3-Methyl-1,2,3,4- Tetrahydroquinazolin-2-One
pdb|4A9J|A Chain A, N-Terminal Bromodomain Of Human Brd2 With N-(4-
Hydroxyphenyl)acetamide
pdb|4A9J|B Chain B, N-Terminal Bromodomain Of Human Brd2 With N-(4-
Hydroxyphenyl)acetamide
pdb|4A9J|C Chain C, N-Terminal Bromodomain Of Human Brd2 With N-(4-
Hydroxyphenyl)acetamide
pdb|4A9M|A Chain A, N-Terminal Bromodomain Of Human Brd2 With
N-Cyclopentyl-5-(
3,5-Dimethyl-1,2-Oxazol-4-Yl)-2-Methylbenzene-1-
Sulfonamide
pdb|4A9M|B Chain B, N-Terminal Bromodomain Of Human Brd2 With
N-Cyclopentyl-5-(
3,5-Dimethyl-1,2-Oxazol-4-Yl)-2-Methylbenzene-1-
Sulfonamide
pdb|4A9M|C Chain C, N-Terminal Bromodomain Of Human Brd2 With
N-Cyclopentyl-5-(
3,5-Dimethyl-1,2-Oxazol-4-Yl)-2-Methylbenzene-1-
Sulfonamide
pdb|4A9N|A Chain A, N-Terminal Bromodomain Of Human Brd2 With
N-Cyclopropyl-5-(
3,5-Dimethyl-1,2-Oxazol-4-Yl)-2-Methylbenzene-1-
Sulfonamide
pdb|4A9N|B Chain B, N-Terminal Bromodomain Of Human Brd2 With
N-Cyclopropyl-5-(
3,5-Dimethyl-1,2-Oxazol-4-Yl)-2-Methylbenzene-1-
Sulfonamide
pdb|4A9N|C Chain C, N-Terminal Bromodomain Of Human Brd2 With
N-Cyclopropyl-5-(
3,5-Dimethyl-1,2-Oxazol-4-Yl)-2-Methylbenzene-1-
Sulfonamide
pdb|4A9O|A Chain A, N-Terminal Bromodomain Of Human Brd2 With 5
Ethyl-3-Methyl- 4-Phenyl-1,2-Oxazole
pdb|4A9O|B Chain B, N-Terminal Bromodomain Of Human Brd2 With 5
Ethyl-3-Methyl- 4-Phenyl-1,2-Oxazole
pdb|4A9O|C Chain C, N-Terminal Bromodomain Of Human Brd2 With 5
Ethyl-3-Methyl- 4-Phenyl-1,2-Oxazole
pdb|4ALH|A Chain A, N-Terminal Bromodomain Of Human Brd2 With 3,5 Dimethyl-4-
Phenyl-1,2-Oxazole
pdb|4ALH|B Chain B, N-Terminal Bromodomain Of Human Brd2 With 3,5 Dimethyl-4-
Phenyl-1,2-Oxazole
pdb|4ALH|C Chain C, N-Terminal Bromodomain Of Human Brd2 With 3,5 Dimethyl-4-
Phenyl-1,2-Oxazole
pdb|4ALG|A Chain A, N-Terminal Bromodomain Of Human Brd2 With Ibet-151
Length = 154
Score = 150 bits (378), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 72/144 (50%), Positives = 89/144 (61%), Gaps = 37/144 (25%)
Query: 74 GRNTNQLAFISKNVLKPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYP 133
GR TNQL ++ K V+K + KHQ AWPF QPVDA+ L LP
Sbjct: 27 GRVTNQLQYLHKVVMKALWKHQFAWPFRQPVDAVKLGLP--------------------- 65
Query: 134 ILLAFALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVY 193
DYHK+IK PMD+GTIK+RLEN YYW+ E + DFNTMFTNCY+Y
Sbjct: 66 ----------------DYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIY 109
Query: 194 NKPGEDVVVMAQTLEKLFLTKVSA 217
NKP +D+V+MAQTLEK+FL KV++
Sbjct: 110 NKPTDDIVLMAQTLEKIFLQKVAS 133
Score = 105 bits (261), Expect = 9e-23, Method: Compositional matrix adjust.
Identities = 47/112 (41%), Positives = 73/112 (65%), Gaps = 2/112 (1%)
Query: 258 KLTESLKYCNEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMD 317
++T L+Y ++++ + K +AWPF +PVDA LGL DYH+IIK+PMD+GT+K +++
Sbjct: 28 RVTNQLQYLHKVVMKALWK--HQFAWPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRLE 85
Query: 318 AREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAKAPDD 369
Y ++ E D +FTNCY YN P D+V MA+ L+ +F K+A P +
Sbjct: 86 NNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLEKIFLQKVASMPQE 137
>pdb|2YDW|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd2
With The Inhibitor Gw841819x
pdb|2YDW|B Chain B, Crystal Structure Of The First Bromodomain Of Human Brd2
With The Inhibitor Gw841819x
pdb|2YDW|C Chain C, Crystal Structure Of The First Bromodomain Of Human Brd2
With The Inhibitor Gw841819x
pdb|2YEK|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd2
With The Inhibitor Gsk525762 (Ibet)
pdb|2YEK|B Chain B, Crystal Structure Of The First Bromodomain Of Human Brd2
With The Inhibitor Gsk525762 (Ibet)
pdb|2YEK|C Chain C, Crystal Structure Of The First Bromodomain Of Human Brd2
With The Inhibitor Gsk525762 (Ibet)
pdb|4AKN|A Chain A, N-Terminal Bromodomain Of Human Brd2 With
Tbutyl-Phenyl-Amino-
Dimethyl-Oxazolyl-Quinoline-Carboxylic Acid
pdb|4AKN|B Chain B, N-Terminal Bromodomain Of Human Brd2 With
Tbutyl-Phenyl-Amino-
Dimethyl-Oxazolyl-Quinoline-Carboxylic Acid
pdb|4AKN|C Chain C, N-Terminal Bromodomain Of Human Brd2 With
Tbutyl-Phenyl-Amino-
Dimethyl-Oxazolyl-Quinoline-Carboxylic Acid
Length = 153
Score = 149 bits (377), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 72/144 (50%), Positives = 89/144 (61%), Gaps = 37/144 (25%)
Query: 74 GRNTNQLAFISKNVLKPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYP 133
GR TNQL ++ K V+K + KHQ AWPF QPVDA+ L LP
Sbjct: 27 GRVTNQLQYLHKVVMKALWKHQFAWPFRQPVDAVKLGLP--------------------- 65
Query: 134 ILLAFALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVY 193
DYHK+IK PMD+GTIK+RLEN YYW+ E + DFNTMFTNCY+Y
Sbjct: 66 ----------------DYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIY 109
Query: 194 NKPGEDVVVMAQTLEKLFLTKVSA 217
NKP +D+V+MAQTLEK+FL KV++
Sbjct: 110 NKPTDDIVLMAQTLEKIFLQKVAS 133
Score = 105 bits (261), Expect = 9e-23, Method: Compositional matrix adjust.
Identities = 47/112 (41%), Positives = 73/112 (65%), Gaps = 2/112 (1%)
Query: 258 KLTESLKYCNEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMD 317
++T L+Y ++++ + K +AWPF +PVDA LGL DYH+IIK+PMD+GT+K +++
Sbjct: 28 RVTNQLQYLHKVVMKALWK--HQFAWPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRLE 85
Query: 318 AREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAKAPDD 369
Y ++ E D +FTNCY YN P D+V MA+ L+ +F K+A P +
Sbjct: 86 NNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLEKIFLQKVASMPQE 137
>pdb|2OSS|A Chain A, Crystal Structure Of The Bromo Domain 1 In Human
Bromodomain Containing Protein 4 (Brd4)
pdb|3MXF|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With The Inhibitor Jq1
pdb|3P5O|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With Ibet Inhibitor
pdb|2YEL|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
With The Inhibitor Gw841819x
pdb|3SVF|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Dihydro-Quinazolin Ligand
pdb|3SVG|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A 3,5-Dimethylisoxazol Ligand
pdb|3ZYU|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With I-Bet151(Gsk1210151a)
pdb|3ZYU|B Chain B, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With I-Bet151(Gsk1210151a)
pdb|3U5J|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With Alprazolam
pdb|3U5K|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With Midazolam
pdb|3U5K|B Chain B, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With Midazolam
pdb|3U5K|C Chain C, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With Midazolam
pdb|3U5K|D Chain D, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With Midazolam
pdb|3U5L|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Benzo-Triazepine Ligand (Bzt-7)
pdb|4A9L|A Chain A, N-Terminal Bromodomain Of Human Brd4 With 1,3-Dimethyl-6-(
Morpholine-4-Sulfonyl)-1,2,3,
4-Tetrahydroquinazolin-2-One
pdb|3UVW|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Diacetylated Histone 4 Peptide
(H4k5ack8ac)
pdb|3UVY|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Diacetylated Histone 4 Peptide
(H4k16ack20ac)
pdb|3UVX|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Diacetylated Histone 4 Peptide
(H4k12ack16ac)
pdb|3UW9|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Diacetylated Histone 4 Peptide
(H4k8ack12ac)
pdb|3UW9|B Chain B, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Diacetylated Histone 4 Peptide
(H4k8ack12ac)
pdb|3UW9|C Chain C, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Diacetylated Histone 4 Peptide
(H4k8ack12ac)
pdb|3UW9|D Chain D, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Diacetylated Histone 4 Peptide
(H4k8ack12ac)
pdb|4E96|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With The Inhibitor Pfi-1
pdb|4F3I|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With Ms417 Inhibitor
pdb|4GPJ|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Isoxazolylbenzimidazole Ligand
pdb|4HBV|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Quinazolin Ligand
pdb|4HBX|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Quinazolin Ligand
pdb|4HBY|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Quinazolin Ligand
pdb|4J0R|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A 3,5-dimethylisoxazol Ligand
pdb|4J0S|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A 3,5-dimethylisoxazol Ligand
Length = 127
Score = 149 bits (375), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 72/142 (50%), Positives = 89/142 (62%), Gaps = 37/142 (26%)
Query: 75 RNTNQLAFISKNVLKPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYPI 134
R TNQL ++ + VLK + KHQ AWPF QPVDA+ LNLP
Sbjct: 17 RQTNQLQYLLRVVLKTLWKHQFAWPFQQPVDAVKLNLP---------------------- 54
Query: 135 LLAFALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYN 194
DY+K+IK PMD+GTIKKRLEN YYW+ +E I DFNTMFTNCY+YN
Sbjct: 55 ---------------DYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYN 99
Query: 195 KPGEDVVVMAQTLEKLFLTKVS 216
KPG+D+V+MA+ LEKLFL K++
Sbjct: 100 KPGDDIVLMAEALEKLFLQKIN 121
Score = 94.4 bits (233), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 46/101 (45%), Positives = 67/101 (66%), Gaps = 3/101 (2%)
Query: 269 ILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFA 328
+LK L+ KH +AWPF +PVDA L L DY++IIK PMD+GT+K +++ Y +++E
Sbjct: 29 VLKTLW--KHQ-FAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECI 85
Query: 329 DDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAKAPDD 369
D +FTNCY YN P D+V MA+ L+ +F KI + P +
Sbjct: 86 QDFNTMFTNCYIYNKPGDDIVLMAEALEKLFLQKINELPTE 126
>pdb|4DON|A Chain A, Brd4 Bromodomain 1 Complex With A Fragment
3,4-dihydro-3-methyl-2(1h)- Quinazolinon
Length = 145
Score = 149 bits (375), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 72/142 (50%), Positives = 89/142 (62%), Gaps = 37/142 (26%)
Query: 75 RNTNQLAFISKNVLKPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYPI 134
R TNQL ++ + VLK + KHQ AWPF QPVDA+ LNLP
Sbjct: 37 RQTNQLQYLLRVVLKTLWKHQFAWPFQQPVDAVKLNLP---------------------- 74
Query: 135 LLAFALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYN 194
DY+K+IK PMD+GTIKKRLEN YYW+ +E I DFNTMFTNCY+YN
Sbjct: 75 ---------------DYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYN 119
Query: 195 KPGEDVVVMAQTLEKLFLTKVS 216
KPG+D+V+MA+ LEKLFL K++
Sbjct: 120 KPGDDIVLMAEALEKLFLQKIN 141
Score = 94.7 bits (234), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 52/114 (45%), Positives = 73/114 (64%), Gaps = 5/114 (4%)
Query: 256 KPK-LTESLKYC-NEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVK 313
KPK T L+Y +LK L+ KH +AWPF +PVDA L L DY++IIK PMD+GT+K
Sbjct: 34 KPKRQTNQLQYLLRVVLKTLW--KHQ-FAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIK 90
Query: 314 AKMDAREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAKAP 367
+++ Y +++E D +FTNCY YN P D+V MA+ L+ +F KI + P
Sbjct: 91 KRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEALEKLFLQKINELP 144
>pdb|3JVJ|A Chain A, Crystal Structure Of The Bromodomain 1 In Mouse Brd4
pdb|3JVK|A Chain A, Crystal Structure Of Bromodomain 1 Of Mouse Brd4 In
Complex With Histone H3-K(Ac)14
pdb|3MUK|A Chain A, Crystal Structure Of Brd4 Bromodomain 1 With Propionylated
Histone H3- K(Prop)23
pdb|3MUL|A Chain A, Crystal Structure Of Brd4 Bromodomain 1 With Butyrylated
Histone H3- K(Buty)14
Length = 131
Score = 149 bits (375), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 72/142 (50%), Positives = 89/142 (62%), Gaps = 37/142 (26%)
Query: 75 RNTNQLAFISKNVLKPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYPI 134
R TNQL ++ + VLK + KHQ AWPF QPVDA+ LNLP
Sbjct: 21 RQTNQLQYLLRVVLKTLWKHQFAWPFQQPVDAVKLNLP---------------------- 58
Query: 135 LLAFALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYN 194
DY+K+IK PMD+GTIKKRLEN YYW+ +E I DFNTMFTNCY+YN
Sbjct: 59 ---------------DYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYN 103
Query: 195 KPGEDVVVMAQTLEKLFLTKVS 216
KPG+D+V+MA+ LEKLFL K++
Sbjct: 104 KPGDDIVLMAEALEKLFLQKIN 125
Score = 94.4 bits (233), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 52/116 (44%), Positives = 74/116 (63%), Gaps = 5/116 (4%)
Query: 256 KPK-LTESLKYC-NEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVK 313
KPK T L+Y +LK L+ KH +AWPF +PVDA L L DY++IIK PMD+GT+K
Sbjct: 18 KPKRQTNQLQYLLRVVLKTLW--KHQ-FAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIK 74
Query: 314 AKMDAREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAKAPDD 369
+++ Y +++E D +FTNCY YN P D+V MA+ L+ +F KI + P +
Sbjct: 75 KRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEALEKLFLQKINELPTE 130
>pdb|4HBW|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Quinazoline Ligand
Length = 127
Score = 149 bits (375), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 72/142 (50%), Positives = 89/142 (62%), Gaps = 37/142 (26%)
Query: 75 RNTNQLAFISKNVLKPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYPI 134
R TNQL ++ + VLK + KHQ AWPF QPVDA+ LNLP
Sbjct: 17 RETNQLQYLLRVVLKTLWKHQFAWPFQQPVDAVKLNLP---------------------- 54
Query: 135 LLAFALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYN 194
DY+K+IK PMD+GTIKKRLEN YYW+ +E I DFNTMFTNCY+YN
Sbjct: 55 ---------------DYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYN 99
Query: 195 KPGEDVVVMAQTLEKLFLTKVS 216
KPG+D+V+MA+ LEKLFL K++
Sbjct: 100 KPGDDIVLMAEALEKLFLQKIN 121
Score = 94.4 bits (233), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 46/101 (45%), Positives = 67/101 (66%), Gaps = 3/101 (2%)
Query: 269 ILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFA 328
+LK L+ KH +AWPF +PVDA L L DY++IIK PMD+GT+K +++ Y +++E
Sbjct: 29 VLKTLW--KHQ-FAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECI 85
Query: 329 DDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAKAPDD 369
D +FTNCY YN P D+V MA+ L+ +F KI + P +
Sbjct: 86 QDFNTMFTNCYIYNKPGDDIVLMAEALEKLFLQKINELPTE 126
>pdb|3AQA|A Chain A, Crystal Structure Of The Human Brd2 Bd1 Bromodomain In
Complex With A Brd2-Interactive Compound, Bic1
pdb|3AQA|B Chain B, Crystal Structure Of The Human Brd2 Bd1 Bromodomain In
Complex With A Brd2-Interactive Compound, Bic1
pdb|3AQA|C Chain C, Crystal Structure Of The Human Brd2 Bd1 Bromodomain In
Complex With A Brd2-Interactive Compound, Bic1
Length = 128
Score = 139 bits (350), Expect = 4e-33, Method: Compositional matrix adjust.
Identities = 69/144 (47%), Positives = 83/144 (57%), Gaps = 37/144 (25%)
Query: 74 GRNTNQLAFISKNVLKPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYP 133
GR TNQL ++ K V K + KHQ AWPF QPVDA+ L LP
Sbjct: 7 GRVTNQLQYLHKVVXKALWKHQFAWPFRQPVDAVKLGLP--------------------- 45
Query: 134 ILLAFALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVY 193
DYHK+IK P D GTIK+RLEN YYW+ E DFNT FTNCY+Y
Sbjct: 46 ----------------DYHKIIKQPXDXGTIKRRLENNYYWAASECXQDFNTXFTNCYIY 89
Query: 194 NKPGEDVVVMAQTLEKLFLTKVSA 217
NKP +D+V+ AQTLEK+FL KV++
Sbjct: 90 NKPTDDIVLXAQTLEKIFLQKVAS 113
Score = 98.6 bits (244), Expect = 9e-21, Method: Compositional matrix adjust.
Identities = 48/121 (39%), Positives = 72/121 (59%), Gaps = 4/121 (3%)
Query: 249 GDQGSYAKPKLTESLKYCNEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMD 308
G GS + +T L+Y ++++ + K +AWPF +PVDA LGL DYH+IIK+P D
Sbjct: 1 GSSGSSGR--VTNQLQYLHKVVXKALWKHQ--FAWPFRQPVDAVKLGLPDYHKIIKQPXD 56
Query: 309 LGTVKAKMDAREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAKAPD 368
GT+K +++ Y ++ E D FTNCY YN P D+V A+ L+ +F K+A P
Sbjct: 57 XGTIKRRLENNYYWAASECXQDFNTXFTNCYIYNKPTDDIVLXAQTLEKIFLQKVASXPQ 116
Query: 369 D 369
+
Sbjct: 117 E 117
>pdb|1X0J|A Chain A, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2
pdb|1X0J|B Chain B, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2
pdb|1X0J|C Chain C, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2
pdb|2DVQ|A Chain A, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2 Complexed With Acetylated Histone H4
Peptide
pdb|2DVQ|B Chain B, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2 Complexed With Acetylated Histone H4
Peptide
pdb|2DVQ|C Chain C, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2 Complexed With Acetylated Histone H4
Peptide
pdb|2DVR|A Chain A, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2 Complexed With Acetylated Histone H4
Peptide
pdb|2DVR|B Chain B, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2 Complexed With Acetylated Histone H4
Peptide
pdb|2DVR|C Chain C, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2 Complexed With Acetylated Histone H4
Peptide
pdb|2DVS|A Chain A, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2 Complexed With Acetylated Histone H4
Peptide
pdb|2DVS|B Chain B, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2 Complexed With Acetylated Histone H4
Peptide
pdb|2DVS|C Chain C, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2 Complexed With Acetylated Histone H4
Peptide
Length = 122
Score = 139 bits (349), Expect = 5e-33, Method: Compositional matrix adjust.
Identities = 69/152 (45%), Positives = 87/152 (57%), Gaps = 37/152 (24%)
Query: 74 GRNTNQLAFISKNVLKPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYP 133
GR TNQL ++ K V K + KHQ AWPF QPVDA+ L LP
Sbjct: 1 GRVTNQLQYLHKVVXKALWKHQFAWPFRQPVDAVKLGLP--------------------- 39
Query: 134 ILLAFALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVY 193
DYHK+IK P D GTIK+RLEN YYW+ E DFNT FTNCY+Y
Sbjct: 40 ----------------DYHKIIKQPXDXGTIKRRLENNYYWAASECXQDFNTXFTNCYIY 83
Query: 194 NKPGEDVVVMAQTLEKLFLTKVSARRESGRQI 225
NKP +D+V+ AQTLEK+FL KV++ + +++
Sbjct: 84 NKPTDDIVLXAQTLEKIFLQKVASXPQEEQEL 115
Score = 97.1 bits (240), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 45/112 (40%), Positives = 69/112 (61%), Gaps = 2/112 (1%)
Query: 258 KLTESLKYCNEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMD 317
++T L+Y ++++ + K +AWPF +PVDA LGL DYH+IIK+P D GT+K +++
Sbjct: 2 RVTNQLQYLHKVVXKALWK--HQFAWPFRQPVDAVKLGLPDYHKIIKQPXDXGTIKRRLE 59
Query: 318 AREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAKAPDD 369
Y ++ E D FTNCY YN P D+V A+ L+ +F K+A P +
Sbjct: 60 NNYYWAASECXQDFNTXFTNCYIYNKPTDDIVLXAQTLEKIFLQKVASXPQE 111
>pdb|2RFJ|A Chain A, Crystal Structure Of The Bromo Domain 1 In Human
Bromodomain Containing Protein, Testis Specific (Brdt)
pdb|2RFJ|B Chain B, Crystal Structure Of The Bromo Domain 1 In Human
Bromodomain Containing Protein, Testis Specific (Brdt)
pdb|2RFJ|C Chain C, Crystal Structure Of The Bromo Domain 1 In Human
Bromodomain Containing Protein, Testis Specific (Brdt)
pdb|4FLP|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brdt
In Complex With The Inhibitor Jq1
pdb|4FLP|B Chain B, Crystal Structure Of The First Bromodomain Of Human Brdt
In Complex With The Inhibitor Jq1
Length = 119
Score = 135 bits (341), Expect = 5e-32, Method: Compositional matrix adjust.
Identities = 68/143 (47%), Positives = 84/143 (58%), Gaps = 37/143 (25%)
Query: 74 GRNTNQLAFISKNVLKPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYP 133
GR TNQL ++ K VLK + KH +WPF +PVDA+ L LP
Sbjct: 8 GRLTNQLQYLQKVVLKDLWKHSFSWPFQRPVDAVKLQLP--------------------- 46
Query: 134 ILLAFALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVY 193
DY+ +IK+PMDL TIKKRLEN YY E I DFNTMF+NCY+Y
Sbjct: 47 ----------------DYYTIIKNPMDLNTIKKRLENKYYAKASECIEDFNTMFSNCYLY 90
Query: 194 NKPGEDVVVMAQTLEKLFLTKVS 216
NKPG+D+V+MAQ LEKLF+ K+S
Sbjct: 91 NKPGDDIVLMAQALEKLFMQKLS 113
Score = 97.8 bits (242), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 48/113 (42%), Positives = 75/113 (66%), Gaps = 4/113 (3%)
Query: 258 KLTESLKYCNEI-LKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKM 316
+LT L+Y ++ LK+L+ KHS ++WPF +PVDA L L DY+ IIK PMDL T+K ++
Sbjct: 9 RLTNQLQYLQKVVLKDLW--KHS-FSWPFQRPVDAVKLQLPDYYTIIKNPMDLNTIKKRL 65
Query: 317 DAREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAKAPDD 369
+ + Y + E +D +F+NCY YN P D+V MA+ L+ +F K+++ P +
Sbjct: 66 ENKYYAKASECIEDFNTMFSNCYLYNKPGDDIVLMAQALEKLFMQKLSQMPQE 118
>pdb|2WP2|A Chain A, Structure Of Brdt Bromodomain Bd1 Bound To A Diacetylated
Histone H4 Peptide.
pdb|2WP2|B Chain B, Structure Of Brdt Bromodomain Bd1 Bound To A Diacetylated
Histone H4 Peptide
Length = 120
Score = 135 bits (339), Expect = 7e-32, Method: Compositional matrix adjust.
Identities = 69/143 (48%), Positives = 82/143 (57%), Gaps = 37/143 (25%)
Query: 74 GRNTNQLAFISKNVLKPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYP 133
GR TNQL F+ + VLK + KH +WPF QPVDA+ L LP
Sbjct: 9 GRLTNQLQFLQRVVLKALWKHGFSWPFQQPVDAVKLKLP--------------------- 47
Query: 134 ILLAFALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVY 193
DY+ +IK PMDL TIKKRLEN YY E I DFNTMF+NCY+Y
Sbjct: 48 ----------------DYYTIIKTPMDLNTIKKRLENKYYEKASECIEDFNTMFSNCYLY 91
Query: 194 NKPGEDVVVMAQTLEKLFLTKVS 216
NK G+D+VVMAQ LEKLF+ K+S
Sbjct: 92 NKTGDDIVVMAQALEKLFMQKLS 114
Score = 91.3 bits (225), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 45/113 (39%), Positives = 72/113 (63%), Gaps = 4/113 (3%)
Query: 258 KLTESLKYCNEI-LKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKM 316
+LT L++ + LK L+ KH ++WPF +PVDA L L DY+ IIK PMDL T+K ++
Sbjct: 10 RLTNQLQFLQRVVLKALW--KHG-FSWPFQQPVDAVKLKLPDYYTIIKTPMDLNTIKKRL 66
Query: 317 DAREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAKAPDD 369
+ + Y+ + E +D +F+NCY YN D+V MA+ L+ +F K+++ P +
Sbjct: 67 ENKYYEKASECIEDFNTMFSNCYLYNKTGDDIVVMAQALEKLFMQKLSQMPQE 119
>pdb|2JNS|A Chain A, Solution Structure Of The Bromodomain-Containing Protein 4
Et Domain
Length = 90
Score = 132 bits (332), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 65/78 (83%), Positives = 73/78 (93%), Gaps = 1/78 (1%)
Query: 488 ESSKPMSYFEKQELSLDINKLPGKKLGRVVHIIQSREPSLRDSNPDEIEIDFETLKPSTL 547
+ KPMSY EK++LSLDINKLPG+KLGRVVHIIQSREPSL++SNPDEIEIDFETLKPSTL
Sbjct: 13 DKCKPMSYEEKRQLSLDINKLPGEKLGRVVHIIQSREPSLKNSNPDEIEIDFETLKPSTL 72
Query: 548 RELEKYVATCLRKKPRKP 565
RELE+YV +CLRKK RKP
Sbjct: 73 RELERYVTSCLRKK-RKP 89
>pdb|3AAD|A Chain A, Structure Of The Histone Chaperone Cia/asf1-double
Bromodomain Complex Linking Histone Modifications And
Site-specific Histone Eviction
Length = 292
Score = 82.4 bits (202), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 56/216 (25%), Positives = 100/216 (46%), Gaps = 33/216 (15%)
Query: 147 ILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVVMAQT 206
+++DY+K+I PMDL T+++ + Y S +E + N YN P + ++Q+
Sbjct: 76 VVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQISQS 135
Query: 207 LEKLFLTKVSARRESGRQIKKPNR----GSDEGSFTTQLATSVTSVGDQGSYAKPKLTES 262
+ L K+ + + +++K D+ +F+ L VT Q A P
Sbjct: 136 MLDLCDEKLKEKEDKLARLEKAINPLLDDDDQVAFSFILDNIVT----QKMMAVPD---- 187
Query: 263 LKYCNEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYK 322
+WPF+ PV+ ++ DY+++I PMDL T++ + +Y+
Sbjct: 188 -------------------SWPFHHPVNKKFVP--DYYKVIVNPMDLETIRKNISKHKYQ 226
Query: 323 SSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDV 358
S + F DDV LI N KYN P+ A+++ +V
Sbjct: 227 SRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNV 262
Score = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 29/87 (33%), Positives = 51/87 (58%), Gaps = 2/87 (2%)
Query: 282 AWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKY 341
+PF+ PV+A + DY++II +PMDL T++ + R Y S +EF + + LI N Y
Sbjct: 65 TYPFHTPVNAKVVK--DYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATY 122
Query: 342 NPPDHDVVAMAKKLQDVFETKIAKAPD 368
N P H + +++ + D+ + K+ + D
Sbjct: 123 NGPKHSLTQISQSMLDLCDEKLKEKED 149
Score = 45.4 bits (106), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 38/78 (48%)
Query: 150 DYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVVMAQTLEK 209
DY+KVI +PMDL TI+K + Y S + + D N + N YN P AQ +
Sbjct: 202 DYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVN 261
Query: 210 LFLTKVSARRESGRQIKK 227
+ ++ E Q++K
Sbjct: 262 VCYQTLTEYDEHLTQLEK 279
>pdb|3UV5|A Chain A, Crystal Structure Of The Tandem Bromodomains Of Human
Transcription Initiation Factor Tfiid Subunit 1 (Taf1)
Length = 265
Score = 82.0 bits (201), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 56/216 (25%), Positives = 100/216 (46%), Gaps = 33/216 (15%)
Query: 147 ILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVVMAQT 206
+++DY+K+I PMDL T+++ + Y S +E + N YN P + ++Q+
Sbjct: 43 VVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQISQS 102
Query: 207 LEKLFLTKVSARRESGRQIKKPNR----GSDEGSFTTQLATSVTSVGDQGSYAKPKLTES 262
+ L K+ + + +++K D+ +F+ L VT Q A P
Sbjct: 103 MLDLCDEKLKEKEDKLARLEKAINPLLDDDDQVAFSFILDNIVT----QKMMAVPD---- 154
Query: 263 LKYCNEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYK 322
+WPF+ PV+ ++ DY+++I PMDL T++ + +Y+
Sbjct: 155 -------------------SWPFHHPVNKKFVP--DYYKVIVNPMDLETIRKNISKHKYQ 193
Query: 323 SSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDV 358
S + F DDV LI N KYN P+ A+++ +V
Sbjct: 194 SRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNV 229
Score = 60.1 bits (144), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 29/87 (33%), Positives = 51/87 (58%), Gaps = 2/87 (2%)
Query: 282 AWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKY 341
+PF+ PV+A + DY++II +PMDL T++ + R Y S +EF + + LI N Y
Sbjct: 32 TYPFHTPVNAKVVK--DYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATY 89
Query: 342 NPPDHDVVAMAKKLQDVFETKIAKAPD 368
N P H + +++ + D+ + K+ + D
Sbjct: 90 NGPKHSLTQISQSMLDLCDEKLKEKED 116
Score = 45.4 bits (106), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 38/149 (25%), Positives = 59/149 (39%), Gaps = 40/149 (26%)
Query: 80 LAFISKNVL-KPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYPILLAF 138
+FI N++ + +M +WPFH PV+ +F
Sbjct: 137 FSFILDNIVTQKMMAVPDSWPFHHPVNK----------KF-------------------- 166
Query: 139 ALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGE 198
VP DY+KVI +PMDL TI+K + Y S + + D N + N YN P
Sbjct: 167 ---VP------DYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPES 217
Query: 199 DVVVMAQTLEKLFLTKVSARRESGRQIKK 227
AQ + + ++ E Q++K
Sbjct: 218 QYTKTAQEIVNVCYQTLTEYDEHLTQLEK 246
>pdb|1EQF|A Chain A, Crystal Structure Of The Double Bromodomain Module From
Human Tafii250
Length = 280
Score = 82.0 bits (201), Expect = 8e-16, Method: Compositional matrix adjust.
Identities = 56/216 (25%), Positives = 100/216 (46%), Gaps = 33/216 (15%)
Query: 147 ILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVVMAQT 206
+++DY+K+I PMDL T+++ + Y S +E + N YN P + ++Q+
Sbjct: 55 VVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQISQS 114
Query: 207 LEKLFLTKVSARRESGRQIKKPNR----GSDEGSFTTQLATSVTSVGDQGSYAKPKLTES 262
+ L K+ + + +++K D+ +F+ L VT Q A P
Sbjct: 115 MLDLCDEKLKEKEDKLARLEKAINPLLDDDDQVAFSFILDNIVT----QKMMAVPD---- 166
Query: 263 LKYCNEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYK 322
+WPF+ PV+ ++ DY+++I PMDL T++ + +Y+
Sbjct: 167 -------------------SWPFHHPVNKKFVP--DYYKVIVNPMDLETIRKNISKHKYQ 205
Query: 323 SSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDV 358
S + F DDV LI N KYN P+ A+++ +V
Sbjct: 206 SRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNV 241
Score = 60.1 bits (144), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 29/87 (33%), Positives = 51/87 (58%), Gaps = 2/87 (2%)
Query: 282 AWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKY 341
+PF+ PV+A + DY++II +PMDL T++ + R Y S +EF + + LI N Y
Sbjct: 44 TYPFHTPVNAKVVK--DYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATY 101
Query: 342 NPPDHDVVAMAKKLQDVFETKIAKAPD 368
N P H + +++ + D+ + K+ + D
Sbjct: 102 NGPKHSLTQISQSMLDLCDEKLKEKED 128
Score = 45.4 bits (106), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 38/78 (48%)
Query: 150 DYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVVMAQTLEK 209
DY+KVI +PMDL TI+K + Y S + + D N + N YN P AQ +
Sbjct: 181 DYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVN 240
Query: 210 LFLTKVSARRESGRQIKK 227
+ ++ E Q++K
Sbjct: 241 VCYQTLTEYDEHLTQLEK 258
>pdb|3DWY|A Chain A, Crystal Structure Of The Bromodomain Of Human Crebbp
pdb|3DWY|B Chain B, Crystal Structure Of The Bromodomain Of Human Crebbp
pdb|3P1C|A Chain A, Crystal Structure Of The Bromodomain Of Human Crebbp In
Complex With Acetylated Lysine
pdb|3P1C|B Chain B, Crystal Structure Of The Bromodomain Of Human Crebbp In
Complex With Acetylated Lysine
pdb|3P1D|A Chain A, Crystal Structure Of The Bromodomain Of Human Crebbp In
Complex With N-Methyl-2-Pyrrolidone (Nmp)
pdb|3P1D|B Chain B, Crystal Structure Of The Bromodomain Of Human Crebbp In
Complex With N-Methyl-2-Pyrrolidone (Nmp)
pdb|3P1E|A Chain A, Crystal Structure Of The Bromodomain Of Human Crebbp In
Complex With Dimethyl Sulfoxide (Dmso)
pdb|3P1E|B Chain B, Crystal Structure Of The Bromodomain Of Human Crebbp In
Complex With Dimethyl Sulfoxide (Dmso)
pdb|3P1F|A Chain A, Crystal Structure Of The Bromodomain Of Human Crebbp In
Complex With A Hydroquinazolin Ligand
pdb|3P1F|B Chain B, Crystal Structure Of The Bromodomain Of Human Crebbp In
Complex With A Hydroquinazolin Ligand
pdb|3SVH|A Chain A, Crystal Structure Of The Bromdomain Of Human Crebbp In
Complex With A 3,5-Dimethylisoxazol Ligand
pdb|3SVH|B Chain B, Crystal Structure Of The Bromdomain Of Human Crebbp In
Complex With A 3,5-Dimethylisoxazol Ligand
pdb|4A9K|A Chain A, Bromodomain Of Human Crebbp With N-(4-Hydroxyphenyl)
Acetamide
pdb|4A9K|B Chain B, Bromodomain Of Human Crebbp With N-(4-Hydroxyphenyl)
Acetamide
Length = 119
Score = 75.1 bits (183), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 35/80 (43%), Positives = 49/80 (61%)
Query: 284 PFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKYNP 343
PF +PVD LG+ DY +I+K PMDL T+K K+D +Y+ ++ DDV L+F N + YN
Sbjct: 32 PFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNR 91
Query: 344 PDHDVVAMAKKLQDVFETKI 363
V KL +VFE +I
Sbjct: 92 KTSRVYKFCSKLAEVFEQEI 111
Score = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 29/96 (30%), Positives = 50/96 (52%), Gaps = 1/96 (1%)
Query: 127 SMYIEYPILLAFALTV-PVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNT 185
++Y + P L F V P L+ + DY ++K+PMDL TIK++L+ Y + + D
Sbjct: 22 ALYRQDPESLPFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWL 81
Query: 186 MFTNCYVYNKPGEDVVVMAQTLEKLFLTKVSARRES 221
MF N ++YN+ V L ++F ++ +S
Sbjct: 82 MFNNAWLYNRKTSRVYKFCSKLAEVFEQEIDPVMQS 117
>pdb|1JSP|B Chain B, Nmr Structure Of Cbp Bromodomain In Complex With P53
Peptide
pdb|2D82|A Chain A, Target Structure-Based Discovery Of Small Molecules That
Block Human P53 And Creb Binding Protein (Cbp)
Association
pdb|2RNY|A Chain A, Complex Structures Of Cbp Bromodomain With H4 Ack20
Peptide
pdb|2L84|A Chain A, Solution Nmr Structures Of Cbp Bromodomain With Small
Molecule J28
pdb|2L85|A Chain A, Solution Nmr Structures Of Cbp Bromodomain With Small
Molecule Of Hbs
Length = 121
Score = 75.1 bits (183), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 35/80 (43%), Positives = 49/80 (61%)
Query: 284 PFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKYNP 343
PF +PVD LG+ DY +I+K PMDL T+K K+D +Y+ ++ DDV L+F N + YN
Sbjct: 34 PFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNR 93
Query: 344 PDHDVVAMAKKLQDVFETKI 363
V KL +VFE +I
Sbjct: 94 KTSRVYKFCSKLAEVFEQEI 113
Score = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 29/96 (30%), Positives = 50/96 (52%), Gaps = 1/96 (1%)
Query: 127 SMYIEYPILLAFALTV-PVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNT 185
++Y + P L F V P L+ + DY ++K+PMDL TIK++L+ Y + + D
Sbjct: 24 ALYRQDPESLPFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWL 83
Query: 186 MFTNCYVYNKPGEDVVVMAQTLEKLFLTKVSARRES 221
MF N ++YN+ V L ++F ++ +S
Sbjct: 84 MFNNAWLYNRKTSRVYKFCSKLAEVFEQEIDPVMQS 119
>pdb|3I3J|A Chain A, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|B Chain B, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|C Chain C, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|D Chain D, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|E Chain E, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|F Chain F, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|G Chain G, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|H Chain H, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|I Chain I, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|J Chain J, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|K Chain K, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|L Chain L, Crystal Structure Of The Bromodomain Of Human Ep300
Length = 124
Score = 74.7 bits (182), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 34/80 (42%), Positives = 49/80 (61%)
Query: 284 PFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKYNP 343
PF +PVD LG+ DY +I+K PMDL T+K K+D +Y+ ++ DD+ L+F N + YN
Sbjct: 37 PFRQPVDPQLLGIPDYFDIVKSPMDLSTIKRKLDTGQYQEPWQYVDDIWLMFNNAWLYNR 96
Query: 344 PDHDVVAMAKKLQDVFETKI 363
V KL +VFE +I
Sbjct: 97 KTSRVYKYCSKLSEVFEQEI 116
Score = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 29/96 (30%), Positives = 49/96 (51%), Gaps = 1/96 (1%)
Query: 127 SMYIEYPILLAFALTV-PVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNT 185
++Y + P L F V P L+ + DY ++K PMDL TIK++L+ Y + + D
Sbjct: 27 ALYRQDPESLPFRQPVDPQLLGIPDYFDIVKSPMDLSTIKRKLDTGQYQEPWQYVDDIWL 86
Query: 186 MFTNCYVYNKPGEDVVVMAQTLEKLFLTKVSARRES 221
MF N ++YN+ V L ++F ++ +S
Sbjct: 87 MFNNAWLYNRKTSRVYKYCSKLSEVFEQEIDPVMQS 122
>pdb|3GG3|A Chain A, Crystal Structure Of The Bromodomain Of Human Pcaf
pdb|3GG3|B Chain B, Crystal Structure Of The Bromodomain Of Human Pcaf
Length = 119
Score = 70.9 bits (172), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 46/148 (31%), Positives = 67/148 (45%), Gaps = 42/148 (28%)
Query: 75 RNTNQLAFISKNVLKPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYPI 134
R+ +QL K++L+ V HQ AWPF +PV +
Sbjct: 11 RDPDQLYSTLKSILQQVKSHQSAWPFMEPVKRTE-------------------------- 44
Query: 135 LLAFALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYN 194
P Y++VI+ PMDL T+ +RL+N YY S K ++D +FTNC YN
Sbjct: 45 -------AP------GYYEVIRFPMDLKTMSERLKNRYYVSKKLFMADLQRVFTNCKEYN 91
Query: 195 KPGEDVVVMAQTLEKLFLTKVSARRESG 222
P + A LEK F +K+ +E+G
Sbjct: 92 PPESEYYKCANILEKFFFSKI---KEAG 116
Score = 69.3 bits (168), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 37/91 (40%), Positives = 53/91 (58%), Gaps = 3/91 (3%)
Query: 276 KKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIF 335
K H S AWPF +PV Y+E+I+ PMDL T+ ++ R Y S K F D++ +F
Sbjct: 28 KSHQS-AWPFMEPVKRT--EAPGYYEVIRFPMDLKTMSERLKNRYYVSKKLFMADLQRVF 84
Query: 336 TNCYKYNPPDHDVVAMAKKLQDVFETKIAKA 366
TNC +YNPP+ + A L+ F +KI +A
Sbjct: 85 TNCKEYNPPESEYYKCANILEKFFFSKIKEA 115
>pdb|1E6I|A Chain A, Bromodomain From Gcn5 Complexed With Acetylated H4 Peptide
Length = 121
Score = 70.9 bits (172), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 36/100 (36%), Positives = 61/100 (61%), Gaps = 5/100 (5%)
Query: 269 ILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFA 328
IL EL + H++ AWPF +PV+ + DY++ IK+PMDL T++ K+++ +Y+ ++F
Sbjct: 21 ILTEL--QNHAA-AWPFLQPVNKEEVP--DYYDFIKEPMDLSTMEIKLESNKYQKMEDFI 75
Query: 329 DDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAKAPD 368
D RL+F NC YN + A +L+ F K+ + P+
Sbjct: 76 YDARLVFNNCRMYNGENTSYYKYANRLEKFFNNKVKEIPE 115
Score = 52.8 bits (125), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 38/131 (29%), Positives = 52/131 (39%), Gaps = 39/131 (29%)
Query: 85 KNVLKPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYPILLAFALTVPV 144
+N+L + H AWPF QPV+ + VP
Sbjct: 19 QNILTELQNHAAAWPFLQPVNKEE---------------------------------VP- 44
Query: 145 LIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVVMA 204
DY+ IK PMDL T++ +LE+ Y ++ I D +F NC +YN A
Sbjct: 45 -----DYYDFIKEPMDLSTMEIKLESNKYQKMEDFIYDARLVFNNCRMYNGENTSYYKYA 99
Query: 205 QTLEKLFLTKV 215
LEK F KV
Sbjct: 100 NRLEKFFNNKV 110
>pdb|3Q2E|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Bromodomain And Wd Repeat-Containing Protein 1 Isoform A
(Wdr9)
Length = 123
Score = 70.5 bits (171), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 42/110 (38%), Positives = 58/110 (52%), Gaps = 6/110 (5%)
Query: 264 KYCNEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKS 323
K C E++ +F + S PF +PVD + DY +II PMD GTV+ +DA Y S
Sbjct: 13 KQCKELVNLIFQCEDSE---PFRQPVDL--VEYPDYRDIIDTPMDFGTVRETLDAGNYDS 67
Query: 324 SKEFADDVRLIFTNCYKYNPPDHD-VVAMAKKLQDVFETKIAKAPDDVPI 372
EF D+RLIF+N Y P + +M +L +FE K+ K D I
Sbjct: 68 PLEFCKDIRLIFSNAKAYTPNKRSKIYSMTLRLSALFEEKMKKISSDFKI 117
Score = 36.6 bits (83), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 35/149 (23%), Positives = 58/149 (38%), Gaps = 45/149 (30%)
Query: 84 SKNVLKPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYPILLAFALTVP 143
K ++ + + + + PF QPVD + EYP
Sbjct: 15 CKELVNLIFQCEDSEPFRQPVDLV-----------------------EYP---------- 41
Query: 144 VLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVY--NKPGEDVV 201
DY +I PMD GT+++ L+ Y S E D +F+N Y NK + +
Sbjct: 42 ------DYRDIIDTPMDFGTVRETLDAGNYDSPLEFCKDIRLIFSNAKAYTPNKRSK-IY 94
Query: 202 VMAQTLEKLF---LTKVSARRESGRQIKK 227
M L LF + K+S+ + G++ +
Sbjct: 95 SMTLRLSALFEEKMKKISSDFKIGQKFNE 123
>pdb|1N72|A Chain A, Structure And Ligand Of A Histone Acetyltransferase
Bromodomain
pdb|1JM4|B Chain B, Nmr Structure Of PCAF BROMODOMAIN IN COMPLEX WITH HIV-1
Tat Peptide
pdb|1WUG|A Chain A, Complex Structure Of Pcaf Bromodomain With Small Chemical
Ligand Np1
pdb|1WUM|A Chain A, Complex Structure Of Pcaf Bromodomain With Small Chemical
Ligand Np2
pdb|1ZS5|A Chain A, Structure-Based Evaluation Of Selective And Non-Selective
Small Molecules That Block Hiv-1 Tat And Pcaf
Association
pdb|2RNW|A Chain A, The Structural Basis For Site-Specific Lysine-Acetylated
Histone Recognition By The Bromodomains Of The Human
Transcriptional Co-Activators Pcaf And Cbp
pdb|2RNX|A Chain A, The Structural Basis For Site-Specific Lysine-Acetylated
Histone Recognition By The Bromodomains Of The Human
Transcriptional Co-Activators Pcaf And Cbp
Length = 118
Score = 70.5 bits (171), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 45/148 (30%), Positives = 66/148 (44%), Gaps = 42/148 (28%)
Query: 75 RNTNQLAFISKNVLKPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYPI 134
R+ +QL K++L+ V HQ AWPF +PV +
Sbjct: 9 RDPDQLYSTLKSILQQVKSHQSAWPFMEPVKRTEA------------------------- 43
Query: 135 LLAFALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYN 194
Y++VI+ PMDL T+ +RL+N YY S K ++D +FTNC YN
Sbjct: 44 --------------PGYYEVIRFPMDLKTMSERLKNRYYVSKKLFMADLQRVFTNCKEYN 89
Query: 195 KPGEDVVVMAQTLEKLFLTKVSARRESG 222
P + A LEK F +K+ +E+G
Sbjct: 90 PPESEYYKCANILEKFFFSKI---KEAG 114
Score = 68.9 bits (167), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 37/91 (40%), Positives = 53/91 (58%), Gaps = 3/91 (3%)
Query: 276 KKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIF 335
K H S AWPF +PV Y+E+I+ PMDL T+ ++ R Y S K F D++ +F
Sbjct: 26 KSHQS-AWPFMEPVKRT--EAPGYYEVIRFPMDLKTMSERLKNRYYVSKKLFMADLQRVF 82
Query: 336 TNCYKYNPPDHDVVAMAKKLQDVFETKIAKA 366
TNC +YNPP+ + A L+ F +KI +A
Sbjct: 83 TNCKEYNPPESEYYKCANILEKFFFSKIKEA 113
>pdb|3G0L|A Chain A, Crystal Structure Of Human Bromodomain Adjacent To Zinc
Finger Domain 2b (Baz2b)
pdb|3Q2F|A Chain A, Crystal Structure Of The Bromodomain Of Human Baz2b In
Complex With A Triazolo Ligand
pdb|4IR3|A Chain A, Crystal Structure Of The Bromodomain Of Human Baz2b In
Complex With 1-
[7-amino-1-(pyrimidin-2-yl)indolizin-3-yl]ethanone
(gsk2833282a)
pdb|4IR4|A Chain A, Crystal Structure Of The Bromodomain Of Human Baz2b In
Complex With 1-
[7-(morpholin-4-yl)-1-(pyridin-2-yl)indolizin-3-
yl]ethanone (gsk2834113a)
pdb|4IR5|A Chain A, Crystal Structure Of The Bromodomain Of Human Baz2b In
Complex With 1-
{1-[2-(hydroxymethyl)phenyl]-7-phenoxyindolizin-3-
yl}ethanone (gsk2847449a)
pdb|4IR6|A Chain A, Crystal Structure Of The Bromodomain Of Human Baz2b In
Complex With 1-
{1-[2-(methylsulfonyl)phenyl]-7-phenoxyindolizin-3-
yl}ethanone (gsk2838097a)
Length = 117
Score = 69.3 bits (168), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 42/112 (37%), Positives = 62/112 (55%), Gaps = 7/112 (6%)
Query: 253 SYAKPKLTES--LKYCNEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLG 310
S KPK +S L C+ IL E+ + H AWPF PV+ + Y ++IKKPMD
Sbjct: 3 SVKKPKRDDSKDLALCSMILTEM--ETHED-AWPFLLPVNLKLVP--GYKKVIKKPMDFS 57
Query: 311 TVKAKMDAREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETK 362
T++ K+ + +Y + + FA DVRL+F NC +N D D+ ++ FE K
Sbjct: 58 TIREKLSSGQYPNLETFALDVRLVFDNCETFNEDDSDIGRAGHNMRKYFEKK 109
Score = 42.7 bits (99), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 39/76 (51%), Gaps = 1/76 (1%)
Query: 137 AFALTVPV-LIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNK 195
A+ +PV L ++ Y KVIK PMD TI+++L + Y + + D +F NC +N+
Sbjct: 31 AWPFLLPVNLKLVPGYKKVIKKPMDFSTIREKLSSGQYPNLETFALDVRLVFDNCETFNE 90
Query: 196 PGEDVVVMAQTLEKLF 211
D+ + K F
Sbjct: 91 DDSDIGRAGHNMRKYF 106
>pdb|2E7O|A Chain A, Solution Structure Of The Bromodomain From Human
Bromodomain Adjacent To Zinc Finger Domain 2b
Length = 112
Score = 67.0 bits (162), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 37/100 (37%), Positives = 56/100 (56%), Gaps = 5/100 (5%)
Query: 263 LKYCNEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYK 322
L C+ IL E+ + H AWPF PV+ + Y ++IKKPMD T++ K+ + +Y
Sbjct: 12 LALCSMILTEM--ETHED-AWPFLLPVNLKLVP--GYKKVIKKPMDFSTIREKLSSGQYP 66
Query: 323 SSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETK 362
+ + FA DVRL+F NC +N D D+ ++ FE K
Sbjct: 67 NLETFALDVRLVFDNCETFNEDDSDIGRAGHNMRKYFEKK 106
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 39/76 (51%), Gaps = 1/76 (1%)
Query: 137 AFALTVPV-LIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNK 195
A+ +PV L ++ Y KVIK PMD TI+++L + Y + + D +F NC +N+
Sbjct: 28 AWPFLLPVNLKLVPGYKKVIKKPMDFSTIREKLSSGQYPNLETFALDVRLVFDNCETFNE 87
Query: 196 PGEDVVVMAQTLEKLF 211
D+ + K F
Sbjct: 88 DDSDIGRAGHNMRKYF 103
>pdb|3QZS|A Chain A, Crystal Structure Of Bptf Bromo In Complex With Histone
H4k16ac - Form I
pdb|3QZS|B Chain B, Crystal Structure Of Bptf Bromo In Complex With Histone
H4k16ac - Form I
Length = 115
Score = 66.6 bits (161), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 40/115 (34%), Positives = 58/115 (50%), Gaps = 5/115 (4%)
Query: 249 GDQGSYAKPKLTESLKYCNEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMD 308
G GS P + + +L+ L + K AWPF +PVD DY+ +IK+PMD
Sbjct: 1 GPLGSVLTPLTEKDYEGLKRVLRSLQAHKM---AWPFLEPVDPN--DAPDYYGVIKEPMD 55
Query: 309 LGTVKAKMDAREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKI 363
L T++ ++ R Y+ EF D+ IF NC YNP D A+ L+ F K+
Sbjct: 56 LATMEERVQRRYYEKLTEFVADMTAIFDNCRYYNPSDSPFYQCAEVLESFFVQKL 110
Score = 60.5 bits (145), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 37/133 (27%), Positives = 53/133 (39%), Gaps = 39/133 (29%)
Query: 85 KNVLKPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYPILLAFALTVPV 144
K VL+ + H+ AWPF +PVD D
Sbjct: 19 KRVLRSLQAHKMAWPFLEPVDPNDA----------------------------------- 43
Query: 145 LIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVVMA 204
DY+ VIK PMDL T+++R++ YY E ++D +F NC YN A
Sbjct: 44 ----PDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTAIFDNCRYYNPSDSPFYQCA 99
Query: 205 QTLEKLFLTKVSA 217
+ LE F+ K+
Sbjct: 100 EVLESFFVQKLKG 112
>pdb|3MB3|A Chain A, Crystal Structure Of The Second Bromodomain Of Pleckstrin
Homology Domain Interacting Protein (Phip)
Length = 135
Score = 65.9 bits (159), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 40/107 (37%), Positives = 55/107 (51%), Gaps = 6/107 (5%)
Query: 264 KYCNEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKS 323
K C E+L +F + S PF +PVD L DY +II PMD TV+ ++A Y+S
Sbjct: 24 KQCEELLNLIFQCEDSE---PFRQPVD--LLEYPDYRDIIDTPMDFATVRETLEAGNYES 78
Query: 324 SKEFADDVRLIFTNCYKYNPPDHD-VVAMAKKLQDVFETKIAKAPDD 369
E DVRLIF+N Y P + +M+ +L FE I+ D
Sbjct: 79 PMELCKDVRLIFSNSKAYTPSKRSRIYSMSLRLSAFFEEHISSVLSD 125
Score = 34.7 bits (78), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 30/69 (43%), Gaps = 1/69 (1%)
Query: 150 DYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGED-VVVMAQTLE 208
DY +I PMD T+++ LE Y S E D +F+N Y + M+ L
Sbjct: 53 DYRDIIDTPMDFATVRETLEAGNYESPMELCKDVRLIFSNSKAYTPSKRSRIYSMSLRLS 112
Query: 209 KLFLTKVSA 217
F +S+
Sbjct: 113 AFFEEHISS 121
>pdb|3QZT|A Chain A, Crystal Structure Of Bptf Bromo In Complex With Histone
H4k16ac - Form Ii
Length = 115
Score = 65.9 bits (159), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 40/115 (34%), Positives = 58/115 (50%), Gaps = 5/115 (4%)
Query: 249 GDQGSYAKPKLTESLKYCNEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMD 308
G GS P + + +L+ L + K AWPF +PVD DY+ +IK+PMD
Sbjct: 1 GPLGSVLTPLTEKDYEGLKRVLRSLQAHKM---AWPFLEPVDPN--DAPDYYGVIKEPMD 55
Query: 309 LGTVKAKMDAREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKI 363
L T++ ++ R Y+ EF D+ IF NC YNP D A+ L+ F K+
Sbjct: 56 LATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQCAEVLESFFVQKL 110
Score = 59.7 bits (143), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 37/133 (27%), Positives = 53/133 (39%), Gaps = 39/133 (29%)
Query: 85 KNVLKPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYPILLAFALTVPV 144
K VL+ + H+ AWPF +PVD D
Sbjct: 19 KRVLRSLQAHKMAWPFLEPVDPNDA----------------------------------- 43
Query: 145 LIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVVMA 204
DY+ VIK PMDL T+++R++ YY E ++D +F NC YN A
Sbjct: 44 ----PDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQCA 99
Query: 205 QTLEKLFLTKVSA 217
+ LE F+ K+
Sbjct: 100 EVLESFFVQKLKG 112
>pdb|1F68|A Chain A, Nmr Solution Structure Of The Bromodomain From Human Gcn5
Length = 103
Score = 65.5 bits (158), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 36/96 (37%), Positives = 55/96 (57%), Gaps = 5/96 (5%)
Query: 270 LKELFS--KKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEF 327
LK L + K H S AWPF +PV + DY+E+I+ P+DL T+ ++ +R Y + K F
Sbjct: 8 LKNLLAQIKSHPS-AWPFMEPVKKS--EAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLF 64
Query: 328 ADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKI 363
D++ + NC +YNPPD + A L+ F K+
Sbjct: 65 VADLQRVIANCREYNPPDSEYCRCASALEKFFYFKL 100
Score = 57.0 bits (136), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 37/138 (26%), Positives = 55/138 (39%), Gaps = 39/138 (28%)
Query: 78 NQLAFISKNVLKPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYPILLA 137
+QL KN+L + H AWPF +PV +
Sbjct: 2 DQLYTTLKNLLAQIKSHPSAWPFMEPVKKSEA---------------------------- 33
Query: 138 FALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPG 197
DY++VI+ P+DL T+ +RL + YY + K ++D + NC YN P
Sbjct: 34 -----------PDYYEVIRFPIDLKTMTERLRSRYYVTRKLFVADLQRVIANCREYNPPD 82
Query: 198 EDVVVMAQTLEKLFLTKV 215
+ A LEK F K+
Sbjct: 83 SEYCRCASALEKFFYFKL 100
>pdb|3D7C|A Chain A, Crystal Structure Of The Bromodomain Of Human Gcn5, The
General Control Of Amino-Acid Synthesis Protein 5-Like 2
pdb|3D7C|B Chain B, Crystal Structure Of The Bromodomain Of Human Gcn5, The
General Control Of Amino-Acid Synthesis Protein 5-Like 2
Length = 112
Score = 65.1 bits (157), Expect = 9e-11, Method: Compositional matrix adjust.
Identities = 36/99 (36%), Positives = 56/99 (56%), Gaps = 5/99 (5%)
Query: 270 LKELFS--KKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEF 327
LK L + K H S AWPF +PV + DY+E+I+ P+DL T+ ++ +R Y + K F
Sbjct: 12 LKNLLAQIKSHPS-AWPFMEPVKKS--EAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLF 68
Query: 328 ADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAKA 366
D++ + NC +YNPPD + A L+ F K+ +
Sbjct: 69 VADLQRVIANCREYNPPDSEYCRCASALEKFFYFKLKEG 107
Score = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 39/138 (28%), Positives = 56/138 (40%), Gaps = 39/138 (28%)
Query: 78 NQLAFISKNVLKPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYPILLA 137
+QL KN+L + H AWPF +PV E P
Sbjct: 6 DQLYTTLKNLLAQIKSHPSAWPFMEPVKKS-----------------------EAP---- 38
Query: 138 FALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPG 197
DY++VI+ P+DL T+ +RL + YY + K ++D + NC YN P
Sbjct: 39 ------------DYYEVIRFPIDLKTMTERLRSRYYVTRKLFVADLQRVIANCREYNPPD 86
Query: 198 EDVVVMAQTLEKLFLTKV 215
+ A LEK F K+
Sbjct: 87 SEYCRCASALEKFFYFKL 104
>pdb|3UV2|A Chain A, Crystal Structure Of The Bromodomain Of Human
Nucleosome-Remodeling Factor Subunit Bptf
Length = 126
Score = 64.3 bits (155), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 33/82 (40%), Positives = 46/82 (56%), Gaps = 2/82 (2%)
Query: 282 AWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKY 341
AWPF +PVD DY+ +IK+PMDL T++ ++ R Y+ EF D+ IF NC Y
Sbjct: 38 AWPFLEPVDPN--DAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYY 95
Query: 342 NPPDHDVVAMAKKLQDVFETKI 363
NP D A+ L+ F K+
Sbjct: 96 NPSDSPFYQCAEVLESFFVQKL 117
Score = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 39/137 (28%), Positives = 56/137 (40%), Gaps = 39/137 (28%)
Query: 85 KNVLKPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYPILLAFALTVPV 144
K VL+ + H+ AWPF +PVD D P
Sbjct: 26 KRVLRSLQAHKMAWPFLEPVDPND---------------------------------AP- 51
Query: 145 LIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVVMA 204
DY+ VIK PMDL T+++R++ YY E ++D +F NC YN A
Sbjct: 52 -----DYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQCA 106
Query: 205 QTLEKLFLTKVSARRES 221
+ LE F+ K+ + S
Sbjct: 107 EVLESFFVQKLKGFKAS 123
>pdb|2RI7|A Chain A, Crystal Structure Of Phd Finger-Linker-Bromodomain Y17e
Mutant From Human Bptf In The H3(1-9)k4me2 Bound State
Length = 174
Score = 63.9 bits (154), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 33/82 (40%), Positives = 46/82 (56%), Gaps = 2/82 (2%)
Query: 282 AWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKY 341
AWPF +PVD DY+ +IK+PMDL T++ ++ R Y+ EF D+ IF NC Y
Sbjct: 90 AWPFLEPVDPN--DAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYY 147
Query: 342 NPPDHDVVAMAKKLQDVFETKI 363
NP D A+ L+ F K+
Sbjct: 148 NPSDSPFYQCAEVLESFFVQKL 169
Score = 59.3 bits (142), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 37/133 (27%), Positives = 53/133 (39%), Gaps = 39/133 (29%)
Query: 85 KNVLKPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYPILLAFALTVPV 144
K VL+ + H+ AWPF +PVD D
Sbjct: 78 KRVLRSLQAHKMAWPFLEPVDPNDA----------------------------------- 102
Query: 145 LIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVVMA 204
DY+ VIK PMDL T+++R++ YY E ++D +F NC YN A
Sbjct: 103 ----PDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQCA 158
Query: 205 QTLEKLFLTKVSA 217
+ LE F+ K+
Sbjct: 159 EVLESFFVQKLKG 171
>pdb|3QZV|A Chain A, Crystal Structure Of Bptf Phd-Linker-Bromo In Complex With
Histone H4k12ac Peptide
Length = 174
Score = 63.9 bits (154), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 33/82 (40%), Positives = 46/82 (56%), Gaps = 2/82 (2%)
Query: 282 AWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKY 341
AWPF +PVD DY+ +IK+PMDL T++ ++ R Y+ EF D+ IF NC Y
Sbjct: 90 AWPFLEPVDPN--DAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYY 147
Query: 342 NPPDHDVVAMAKKLQDVFETKI 363
NP D A+ L+ F K+
Sbjct: 148 NPSDSPFYQCAEVLESFFVQKL 169
Score = 58.9 bits (141), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 37/133 (27%), Positives = 53/133 (39%), Gaps = 39/133 (29%)
Query: 85 KNVLKPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYPILLAFALTVPV 144
K VL+ + H+ AWPF +PVD D
Sbjct: 78 KRVLRSLQAHKMAWPFLEPVDPNDA----------------------------------- 102
Query: 145 LIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVVMA 204
DY+ VIK PMDL T+++R++ YY E ++D +F NC YN A
Sbjct: 103 ----PDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQCA 158
Query: 205 QTLEKLFLTKVSA 217
+ LE F+ K+
Sbjct: 159 EVLESFFVQKLKG 171
>pdb|3NXB|A Chain A, Crystal Structure Of The Bromodomain Of Human Cecr2
pdb|3NXB|B Chain B, Crystal Structure Of The Bromodomain Of Human Cecr2
Length = 116
Score = 63.5 bits (153), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 51/84 (60%), Gaps = 2/84 (2%)
Query: 282 AWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKY 341
+WPF +PVD ++ +Y++IIK PMD+ +++ K++ Y + +EF +D++ +F NC KY
Sbjct: 34 SWPFLEPVDESYAP--NYYQIIKAPMDISSMEKKLNGGLYCTKEEFVNDMKTMFRNCRKY 91
Query: 342 NPPDHDVVAMAKKLQDVFETKIAK 365
N + M+ L+ F + K
Sbjct: 92 NGESSEYTKMSDNLERCFHRAMMK 115
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 33/125 (26%), Positives = 54/125 (43%), Gaps = 39/125 (31%)
Query: 87 VLKPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYPILLAFALTVPVLI 146
VL V H+ +WPF +PVD ++A
Sbjct: 24 VLDVVKAHKDSWPFLEPVDE------------------------------SYA------- 46
Query: 147 ILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVVMAQT 206
+Y+++IK PMD+ +++K+L Y + +E ++D TMF NC YN + M+
Sbjct: 47 --PNYYQIIKAPMDISSMEKKLNGGLYCTKEEFVNDMKTMFRNCRKYNGESSEYTKMSDN 104
Query: 207 LEKLF 211
LE+ F
Sbjct: 105 LERCF 109
>pdb|2YYN|A Chain A, Crystal Sturcture Of Human Bromodomain Protein
pdb|2YYN|B Chain B, Crystal Sturcture Of Human Bromodomain Protein
pdb|2YYN|C Chain C, Crystal Sturcture Of Human Bromodomain Protein
pdb|2YYN|D Chain D, Crystal Sturcture Of Human Bromodomain Protein
Length = 135
Score = 62.4 bits (150), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 31/73 (42%), Positives = 44/73 (60%), Gaps = 2/73 (2%)
Query: 290 DAAWLGLNDYHEIIKKPMDLGTVKAKM--DAREYKSSKEFADDVRLIFTNCYKYNPPDHD 347
D L + DY++IIK PMDL T+K ++ D Y ++F D RLIF NC ++N PD +
Sbjct: 43 DPVPLTVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCAEFNEPDSE 102
Query: 348 VVAMAKKLQDVFE 360
V KL++ FE
Sbjct: 103 VANAGIKLENYFE 115
Score = 62.0 bits (149), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 31/78 (39%), Positives = 47/78 (60%), Gaps = 2/78 (2%)
Query: 136 LAFALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFY--YWSGKEAISDFNTMFTNCYVY 193
++ A PV + + DY+K+IK+PMDL TIKKRL+ Y Y ++ ++DF +F NC +
Sbjct: 37 MSLAFQDPVPLTVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCAEF 96
Query: 194 NKPGEDVVVMAQTLEKLF 211
N+P +V LE F
Sbjct: 97 NEPDSEVANAGIKLENYF 114
>pdb|3O33|A Chain A, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O33|B Chain B, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O33|C Chain C, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O33|D Chain D, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O34|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(13-32)k23ac Peptide
pdb|3O35|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(23-31)k27ac Peptide
pdb|3O35|B Chain B, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(23-31)k27ac Peptide
pdb|3O36|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H4(14-19)k16ac Peptide
pdb|3O36|B Chain B, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H4(14-19)k16ac Peptide
pdb|3O37|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
pdb|3O37|B Chain B, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
pdb|3O37|C Chain C, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
pdb|3O37|D Chain D, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
Length = 184
Score = 61.6 bits (148), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 30/69 (43%), Positives = 43/69 (62%), Gaps = 2/69 (2%)
Query: 294 LGLNDYHEIIKKPMDLGTVKAKM--DAREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAM 351
L + DY++IIK PMDL T+K ++ D Y ++F D RLIF NC ++N PD +V
Sbjct: 108 LTVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCAEFNEPDSEVANA 167
Query: 352 AKKLQDVFE 360
KL++ FE
Sbjct: 168 GIKLENYFE 176
Score = 61.2 bits (147), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 31/78 (39%), Positives = 47/78 (60%), Gaps = 2/78 (2%)
Query: 136 LAFALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFY--YWSGKEAISDFNTMFTNCYVY 193
++ A PV + + DY+K+IK+PMDL TIKKRL+ Y Y ++ ++DF +F NC +
Sbjct: 98 MSLAFQDPVPLTVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCAEF 157
Query: 194 NKPGEDVVVMAQTLEKLF 211
N+P +V LE F
Sbjct: 158 NEPDSEVANAGIKLENYF 175
>pdb|2F6J|A Chain A, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me3 Bound State
pdb|2F6J|B Chain B, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me3 Bound State
pdb|2F6J|C Chain C, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me3 Bound State
pdb|2F6N|A Chain A, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The Free Form
pdb|2F6N|B Chain B, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The Free Form
pdb|2FSA|A Chain A, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me2 Bound State
pdb|2FSA|B Chain B, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me2 Bound State
pdb|2FSA|C Chain C, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me2 Bound State
Length = 174
Score = 61.6 bits (148), Expect = 1e-09, Method: Composition-based stats.
Identities = 38/117 (32%), Positives = 55/117 (47%), Gaps = 5/117 (4%)
Query: 247 SVGDQGSYAKPKLTESLKYCNEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKP 306
S D + P + + +L+ L + K AWPF +PVD DY+ +IK+P
Sbjct: 58 STEDAXTVLTPLTEKDYEGLKRVLRSLQAHK---XAWPFLEPVDPN--DAPDYYGVIKEP 112
Query: 307 MDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKI 363
DL T + ++ R Y+ EF D IF NC YNP D A+ L+ F K+
Sbjct: 113 XDLATXEERVQRRYYEKLTEFVADXTKIFDNCRYYNPSDSPFYQCAEVLESFFVQKL 169
Score = 55.8 bits (133), Expect = 7e-08, Method: Composition-based stats.
Identities = 36/131 (27%), Positives = 51/131 (38%), Gaps = 39/131 (29%)
Query: 85 KNVLKPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYPILLAFALTVPV 144
K VL+ + H+ AWPF +PVD D
Sbjct: 78 KRVLRSLQAHKXAWPFLEPVDPNDA----------------------------------- 102
Query: 145 LIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVVMA 204
DY+ VIK P DL T ++R++ YY E ++D +F NC YN A
Sbjct: 103 ----PDYYGVIKEPXDLATXEERVQRRYYEKLTEFVADXTKIFDNCRYYNPSDSPFYQCA 158
Query: 205 QTLEKLFLTKV 215
+ LE F+ K+
Sbjct: 159 EVLESFFVQKL 169
>pdb|3UV4|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Transcription Initiation Factor Tfiid Subunit 1 (Taf1)
pdb|3UV4|B Chain B, Crystal Structure Of The Second Bromodomain Of Human
Transcription Initiation Factor Tfiid Subunit 1 (Taf1)
Length = 158
Score = 61.2 bits (147), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 28/77 (36%), Positives = 47/77 (61%), Gaps = 2/77 (2%)
Query: 282 AWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKY 341
+WPF+ PV+ ++ DY+++I PMDL T++ + +Y+S + F DDV LI N KY
Sbjct: 48 SWPFHHPVNKKFVP--DYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKY 105
Query: 342 NPPDHDVVAMAKKLQDV 358
N P+ A+++ +V
Sbjct: 106 NGPESQYTKTAQEIVNV 122
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 38/149 (25%), Positives = 59/149 (39%), Gaps = 40/149 (26%)
Query: 80 LAFISKNVL-KPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYPILLAF 138
+FI N++ + +M +WPFH PV+ +F
Sbjct: 30 FSFILDNIVTQKMMAVPDSWPFHHPVNK----------KF-------------------- 59
Query: 139 ALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGE 198
VP DY+KVI +PMDL TI+K + Y S + + D N + N YN P
Sbjct: 60 ---VP------DYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPES 110
Query: 199 DVVVMAQTLEKLFLTKVSARRESGRQIKK 227
AQ + + ++ E Q++K
Sbjct: 111 QYTKTAQEIVNVCYQTLTEYDEHLTQLEK 139
>pdb|3HMH|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Tbp-Associated Factor Rna Polymerase 1-Like (Taf1l)
Length = 155
Score = 58.5 bits (140), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 47/77 (61%), Gaps = 2/77 (2%)
Query: 282 AWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKY 341
+WPF+ PV+ ++ DY+++I P+DL T++ + +Y+S + F DDV LI N KY
Sbjct: 45 SWPFHHPVNKKFVP--DYYKMIVNPVDLETIRKNISKHKYQSRESFLDDVNLILANSVKY 102
Query: 342 NPPDHDVVAMAKKLQDV 358
N P+ A+++ ++
Sbjct: 103 NGPESQYTKTAQEIVNI 119
Score = 42.0 bits (97), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 36/149 (24%), Positives = 59/149 (39%), Gaps = 40/149 (26%)
Query: 80 LAFISKNVL-KPVMKHQHAWPFHQPVDAIDLNLPFLIFRFLVFQHWVLSMYIEYPILLAF 138
+FI N++ + +M +WPFH PV+ +F
Sbjct: 27 FSFILDNIVTQKMMAVPDSWPFHHPVNK----------KF-------------------- 56
Query: 139 ALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGE 198
VP DY+K+I +P+DL TI+K + Y S + + D N + N YN P
Sbjct: 57 ---VP------DYYKMIVNPVDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPES 107
Query: 199 DVVVMAQTLEKLFLTKVSARRESGRQIKK 227
AQ + + ++ E Q++K
Sbjct: 108 QYTKTAQEIVNICYQTITEYDEHLTQLEK 136
>pdb|3LXJ|A Chain A, Crystal Structure Of The Bromodomain Of Human Aaa Domain
Containing 2b (Atad2b)
pdb|3LXJ|B Chain B, Crystal Structure Of The Bromodomain Of Human Aaa Domain
Containing 2b (Atad2b)
pdb|3LXJ|C Chain C, Crystal Structure Of The Bromodomain Of Human Aaa Domain
Containing 2b (Atad2b)
pdb|3LXJ|D Chain D, Crystal Structure Of The Bromodomain Of Human Aaa Domain
Containing 2b (Atad2b)
Length = 136
Score = 56.6 bits (135), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 28/59 (47%), Positives = 38/59 (64%), Gaps = 2/59 (3%)
Query: 285 FYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKYNP 343
F KPVD + DY E+IK+PMDL TV K+D Y ++K+F D+ LI +N +YNP
Sbjct: 33 FSKPVDIEEVS--DYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDIDLICSNALEYNP 89
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 33/57 (57%), Gaps = 3/57 (5%)
Query: 148 LQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYN---KPGEDVV 201
+ DY +VIK PMDL T+ +++ Y + K+ + D + + +N YN PG+ ++
Sbjct: 42 VSDYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDIDLICSNALEYNPDKDPGDKII 98
>pdb|3HME|A Chain A, Crystal Structure Of Human Bromodomain Containing 9
Isoform 1 (Brd9)
pdb|3HME|B Chain B, Crystal Structure Of Human Bromodomain Containing 9
Isoform 1 (Brd9)
Length = 123
Score = 55.8 bits (133), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 34/78 (43%), Positives = 42/78 (53%), Gaps = 6/78 (7%)
Query: 278 HSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTN 337
H +A+P DA G Y IIK PMD GT+K K+ A EYKS EF D +L+ N
Sbjct: 31 HGFFAFPV---TDAIAPG---YSMIIKHPMDFGTMKDKIVANEYKSVTEFKADFKLMCDN 84
Query: 338 CYKYNPPDHDVVAMAKKL 355
YN PD +AKK+
Sbjct: 85 AMTYNRPDTVYYKLAKKI 102
Score = 42.7 bits (99), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 26/46 (56%)
Query: 151 YHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKP 196
Y +IKHPMD GT+K ++ Y S E +DF M N YN+P
Sbjct: 46 YSMIIKHPMDFGTMKDKIVANEYKSVTEFKADFKLMCDNAMTYNRP 91
>pdb|3FKM|X Chain X, Plasmodium Falciparum Bromodomain-Containing Protein
Pf10_0328
Length = 166
Score = 54.3 bits (129), Expect = 2e-07, Method: Composition-based stats.
Identities = 27/79 (34%), Positives = 39/79 (49%)
Query: 285 FYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKYNPP 344
F K VDA DY+++IK P +K K+ +Y EF DV+LIF NC YN
Sbjct: 42 FEKLVDAKKQNCPDYYDVIKNPXSFSCIKTKLKKGQYAYPSEFVKDVQLIFDNCSLYNTS 101
Query: 345 DHDVVAMAKKLQDVFETKI 363
+ V K ++ F ++
Sbjct: 102 NSVVAITGKNIETYFNNQL 120
Score = 42.7 bits (99), Expect = 5e-04, Method: Composition-based stats.
Identities = 20/62 (32%), Positives = 30/62 (48%)
Query: 150 DYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVVMAQTLEK 209
DY+ VIK+P IK +L+ Y E + D +F NC +YN V + + +E
Sbjct: 55 DYYDVIKNPXSFSCIKTKLKKGQYAYPSEFVKDVQLIFDNCSLYNTSNSVVAITGKNIET 114
Query: 210 LF 211
F
Sbjct: 115 YF 116
>pdb|2DKW|A Chain A, Solution Structure Of The Bromodomain Of Human Protein
Kiaa1240
Length = 131
Score = 53.1 bits (126), Expect = 4e-07, Method: Composition-based stats.
Identities = 27/59 (45%), Positives = 37/59 (62%), Gaps = 7/59 (11%)
Query: 285 FYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKYNP 343
F KPV +DY E+IK+PMDL TV K+D Y ++K+F D+ LI +N +YNP
Sbjct: 33 FSKPV-------SDYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDIDLICSNALEYNP 84
Score = 39.3 bits (90), Expect = 0.007, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 33/57 (57%), Gaps = 3/57 (5%)
Query: 148 LQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYN---KPGEDVV 201
+ DY +VIK PMDL T+ +++ Y + K+ + D + + +N YN PG+ ++
Sbjct: 37 VSDYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDIDLICSNALEYNPDKDPGDKII 93
>pdb|3U5M|A Chain A, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|B Chain B, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|C Chain C, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|D Chain D, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|E Chain E, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|F Chain F, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|G Chain G, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|H Chain H, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|I Chain I, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|J Chain J, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|K Chain K, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|L Chain L, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5N|A Chain A, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-20) K9me3k14ac Histone Peptide
pdb|3U5N|B Chain B, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-20) K9me3k14ac Histone Peptide
pdb|3U5O|A Chain A, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|B Chain B, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|C Chain C, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|D Chain D, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|E Chain E, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|F Chain F, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|G Chain G, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|H Chain H, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5P|A Chain A, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|B Chain B, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|C Chain C, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|D Chain D, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|E Chain E, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|F Chain F, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|G Chain G, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|H Chain H, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
Length = 207
Score = 52.0 bits (123), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 32/80 (40%), Positives = 48/80 (60%), Gaps = 9/80 (11%)
Query: 266 CNEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMD---AREYK 322
C +L L+ + S F +PV A+ + +Y++IIKKPMDL TVK K+ ++ Y+
Sbjct: 86 CERLLLYLYCHELS---IEFQEPVPAS---IPNYYKIIKKPMDLSTVKKKLQKKHSQHYQ 139
Query: 323 SSKEFADDVRLIFTNCYKYN 342
+F DVRLIF NC ++N
Sbjct: 140 IPDDFVADVRLIFKNCERFN 159
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 29/86 (33%), Positives = 48/86 (55%), Gaps = 4/86 (4%)
Query: 126 LSMYIEYPILLAFALTVPVLIILQDYHKVIKHPMDLGTIKKRLE---NFYYWSGKEAISD 182
L +Y+ Y L+ PV + +Y+K+IK PMDL T+KK+L+ + +Y + ++D
Sbjct: 89 LLLYL-YCHELSIEFQEPVPASIPNYYKIIKKPMDLSTVKKKLQKKHSQHYQIPDDFVAD 147
Query: 183 FNTMFTNCYVYNKPGEDVVVMAQTLE 208
+F NC +N+ + V V A T E
Sbjct: 148 VRLIFKNCERFNEMMKVVQVYADTQE 173
>pdb|3RCW|A Chain A, Crystal Structure Of The Bromodomain Of Human Brd1
pdb|3RCW|B Chain B, Crystal Structure Of The Bromodomain Of Human Brd1
pdb|3RCW|C Chain C, Crystal Structure Of The Bromodomain Of Human Brd1
pdb|3RCW|D Chain D, Crystal Structure Of The Bromodomain Of Human Brd1
pdb|3RCW|E Chain E, Crystal Structure Of The Bromodomain Of Human Brd1
pdb|3RCW|F Chain F, Crystal Structure Of The Bromodomain Of Human Brd1
pdb|3RCW|G Chain G, Crystal Structure Of The Bromodomain Of Human Brd1
pdb|3RCW|H Chain H, Crystal Structure Of The Bromodomain Of Human Brd1
Length = 135
Score = 51.6 bits (122), Expect = 1e-06, Method: Composition-based stats.
Identities = 25/60 (41%), Positives = 36/60 (60%)
Query: 298 DYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQD 357
DY + IK PMD T++ +++A+ YK+ EF +D LI NC KYN D A +L+D
Sbjct: 45 DYLDHIKHPMDFATMRKRLEAQGYKNLHEFEEDFDLIIDNCMKYNARDTVFYRAAVRLRD 104
Score = 42.4 bits (98), Expect = 8e-04, Method: Composition-based stats.
Identities = 21/45 (46%), Positives = 26/45 (57%)
Query: 150 DYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYN 194
DY IKHPMD T++KRLE Y + E DF+ + NC YN
Sbjct: 45 DYLDHIKHPMDFATMRKRLEAQGYKNLHEFEEDFDLIIDNCMKYN 89
>pdb|2KTB|B Chain B, Solution Structure Of The Second Bromodomain Of Human
Polybr Complex With An Acetylated Peptide From Histone 3
Length = 121
Score = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/65 (36%), Positives = 37/65 (56%)
Query: 150 DYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVVMAQTLEK 209
DY+ +IK P+DL TI +R++N Y S D + + N YN+PG V A +++K
Sbjct: 47 DYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKTYNEPGSQVFKDANSIKK 106
Query: 210 LFLTK 214
+F K
Sbjct: 107 IFYMK 111
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 30/97 (30%), Positives = 45/97 (46%), Gaps = 13/97 (13%)
Query: 269 ILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFA 328
++ ELF K S +P DY+ IIK+P+DL T+ ++ YKS A
Sbjct: 31 LISELFQKLPSKVQYP-------------DYYAIIKEPIDLKTIAQRIQNGSYKSIHAMA 77
Query: 329 DDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAK 365
D+ L+ N YN P V A ++ +F K A+
Sbjct: 78 KDIDLLAKNAKTYNEPGSQVFKDANSIKKIFYMKKAE 114
>pdb|3HMF|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 116
Score = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/65 (36%), Positives = 37/65 (56%)
Query: 150 DYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVVMAQTLEK 209
DY+ +IK P+DL TI +R++N Y S D + + N YN+PG V A +++K
Sbjct: 44 DYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKTYNEPGSQVFKDANSIKK 103
Query: 210 LFLTK 214
+F K
Sbjct: 104 IFYMK 108
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 30/97 (30%), Positives = 45/97 (46%), Gaps = 13/97 (13%)
Query: 269 ILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFA 328
++ ELF K S +P DY+ IIK+P+DL T+ ++ YKS A
Sbjct: 28 LISELFQKLPSKVQYP-------------DYYAIIKEPIDLKTIAQRIQNGSYKSIHAMA 74
Query: 329 DDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAK 365
D+ L+ N YN P V A ++ +F K A+
Sbjct: 75 KDIDLLAKNAKTYNEPGSQVFKDANSIKKIFYMKKAE 111
>pdb|3LJW|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Polybromo
pdb|3LJW|B Chain B, Crystal Structure Of The Second Bromodomain Of Human
Polybromo
Length = 120
Score = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/65 (36%), Positives = 37/65 (56%)
Query: 150 DYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVVMAQTLEK 209
DY+ +IK P+DL TI +R++N Y S D + + N YN+PG V A +++K
Sbjct: 46 DYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKTYNEPGSQVFKDANSIKK 105
Query: 210 LFLTK 214
+F K
Sbjct: 106 IFYMK 110
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 30/97 (30%), Positives = 45/97 (46%), Gaps = 13/97 (13%)
Query: 269 ILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFA 328
++ ELF K S +P DY+ IIK+P+DL T+ ++ YKS A
Sbjct: 30 LISELFQKLPSKVQYP-------------DYYAIIKEPIDLKTIAQRIQNGSYKSIHAMA 76
Query: 329 DDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAK 365
D+ L+ N YN P V A ++ +F K A+
Sbjct: 77 KDIDLLAKNAKTYNEPGSQVFKDANSIKKIFYMKKAE 113
>pdb|2D9E|A Chain A, Solution Structure Of The Bromodomain Of Peregrin
pdb|2RS9|B Chain B, Solution Structure Of The Bromodomain Of Human Brpf1 In
Complex With Histone H4k5ac Peptide
Length = 121
Score = 49.7 bits (117), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 24/60 (40%), Positives = 35/60 (58%)
Query: 298 DYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQD 357
DY + IKKPMD T+K ++A Y + +F +D LI +NC KYN D A +L++
Sbjct: 39 DYLDHIKKPMDFFTMKQNLEAYRYLNFDDFEEDFNLIVSNCLKYNAKDTIFYRAAVRLRE 98
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 42/86 (48%), Gaps = 3/86 (3%)
Query: 150 DYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVVMAQTLEK 209
DY IK PMD T+K+ LE + Y + + DFN + +NC YN +D + + +
Sbjct: 39 DYLDHIKKPMDFFTMKQNLEAYRYLNFDDFEEDFNLIVSNCLKYN--AKDTIFYRAAV-R 95
Query: 210 LFLTKVSARRESGRQIKKPNRGSDEG 235
L + R++ RQ +K G G
Sbjct: 96 LREQGGAVLRQARRQAEKMGSGPSSG 121
>pdb|3DAI|A Chain A, Crystal Structure Of The Bromodomain Of The Human Atad2
Length = 130
Score = 49.3 bits (116), Expect = 6e-06, Method: Composition-based stats.
Identities = 25/59 (42%), Positives = 38/59 (64%), Gaps = 2/59 (3%)
Query: 285 FYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKYNP 343
F KPVD + DY +IK+PMDL +V +K+D +Y + K++ D+ LI +N +YNP
Sbjct: 31 FTKPVDPD--EVPDYVTVIKQPMDLSSVISKIDLHKYLTVKDYLRDIDLICSNALEYNP 87
Score = 33.9 bits (76), Expect = 0.28, Method: Composition-based stats.
Identities = 17/55 (30%), Positives = 31/55 (56%), Gaps = 3/55 (5%)
Query: 150 DYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYN---KPGEDVV 201
DY VIK PMDL ++ +++ Y + K+ + D + + +N YN PG+ ++
Sbjct: 42 DYVTVIKQPMDLSSVISKIDLHKYLTVKDYLRDIDLICSNALEYNPDRDPGDRLI 96
>pdb|3TLP|A Chain A, Crystal Structure Of The Fourth Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
pdb|3TLP|B Chain B, Crystal Structure Of The Fourth Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 150
Score = 48.9 bits (115), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 29/73 (39%), Positives = 36/73 (49%), Gaps = 3/73 (4%)
Query: 150 DYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVVMAQTLEK 209
DY+K+I PMDL I+ + N Y + I D MF N YN+ G V A LEK
Sbjct: 63 DYYKIILEPMDLKIIEHNIRNDKYAGEEGMIEDMKLMFRNARHYNEEGSQVYNDAHILEK 122
Query: 210 LFLTKVSARRESG 222
L K R+E G
Sbjct: 123 LLKEK---RKELG 132
Score = 38.9 bits (89), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 40/80 (50%), Gaps = 3/80 (3%)
Query: 298 DYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQD 357
DY++II +PMDL ++ + +Y + +D++L+F N YN V A L+
Sbjct: 63 DYYKIILEPMDLKIIEHNIRNDKYAGEEGMIEDMKLMFRNARHYNEEGSQVYNDAHILEK 122
Query: 358 VFETK---IAKAPDDVPIVS 374
+ + K + PDD + S
Sbjct: 123 LLKEKRKELGPLPDDDDMAS 142
>pdb|2I7K|A Chain A, Solution Structure Of The Bromodomain Of Human Brd7
Protein
Length = 117
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/46 (45%), Positives = 30/46 (65%)
Query: 151 YHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKP 196
Y +IKHPMD T+K++++N Y S +E +F M TN +YNKP
Sbjct: 41 YSMIIKHPMDFSTMKEKIKNNDYQSIEELKDNFKLMCTNAMIYNKP 86
Score = 47.0 bits (110), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/57 (42%), Positives = 33/57 (57%)
Query: 299 YHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKL 355
Y IIK PMD T+K K+ +Y+S +E D+ +L+ TN YN P+ AKKL
Sbjct: 41 YSMIIKHPMDFSTMKEKIKNNDYQSIEELKDNFKLMCTNAMIYNKPETIYYKAAKKL 97
>pdb|3K2J|A Chain A, Crystal Structure Of The 3rd Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
pdb|3K2J|B Chain B, Crystal Structure Of The 3rd Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 130
Score = 45.8 bits (107), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 36/65 (55%)
Query: 298 DYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQD 357
DY++ IK P+ L ++ K+ +EY++ D+ L+F N +YN P+ + KLQ
Sbjct: 55 DYYQQIKMPISLQQIRTKLKNQEYETLDHLECDLNLMFENAKRYNVPNSAIYKRVLKLQQ 114
Query: 358 VFETK 362
V + K
Sbjct: 115 VMQAK 119
Score = 36.6 bits (83), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 35/73 (47%), Gaps = 2/73 (2%)
Query: 150 DYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVVMAQTLEK 209
DY++ IK P+ L I+ +L+N Y + D N MF N YN P + L++
Sbjct: 55 DYYQQIKMPISLQQIRTKLKNQEYETLDHLECDLNLMFENAKRYNVPNSAIYKRVLKLQQ 114
Query: 210 LFLTKVS--ARRE 220
+ K ARR+
Sbjct: 115 VMQAKKKELARRD 127
>pdb|2R0V|A Chain A, Structure Of The Rsc4 Tandem Bromodomain Acetylated At K25
pdb|2R0V|B Chain B, Structure Of The Rsc4 Tandem Bromodomain Acetylated At K25
pdb|2R0V|C Chain C, Structure Of The Rsc4 Tandem Bromodomain Acetylated At K25
Length = 346
Score = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 49/224 (21%), Positives = 92/224 (41%), Gaps = 33/224 (14%)
Query: 151 YHKVIKHPMDLGTIKKRLENFYYWSG-KEAISDFNTMFTNCYVYNKPGEDVVVMAQTLEK 209
Y+ I+ PM + IK R ++ Y G + D + NC YN+ D +++ +++
Sbjct: 98 YYYKIQQPMSINEIKSR--DYEYEDGPSNFLLDVELLTKNCQAYNE--YDSLIVKNSMQV 153
Query: 210 LFLTKVSARRESGRQIKKPNRGSDEG-----SFTTQLATSVTSVGDQ---GSYAKPKLTE 261
+ L + + + +K+ + E + +L + +Q G+ + L +
Sbjct: 154 VMLIEFEVLK--AKNLKRNYLINSEVKAKLLHYLNKLVDATEKKINQALLGASSPKNLDD 211
Query: 262 SLKYCNEILKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREY 321
+K PF + VD L +Y+EI+ PM L VK ++ +Y
Sbjct: 212 KVKLSE----------------PFMELVDKDELP--EYYEIVHSPMALSIVKQNLEIGQY 253
Query: 322 KSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAK 365
+F D+ L+F N + +N P + A L + F I K
Sbjct: 254 SKIYDFIIDMLLVFQNAHIFNDPSALIYKDATTLTNYFNYLIQK 297
Score = 35.0 bits (79), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 32/64 (50%)
Query: 148 LQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVVMAQTL 207
L +Y++++ PM L +K+ LE Y + I D +F N +++N P + A TL
Sbjct: 228 LPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIFNDPSALIYKDATTL 287
Query: 208 EKLF 211
F
Sbjct: 288 TNYF 291
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 36/69 (52%), Gaps = 3/69 (4%)
Query: 299 YHEIIKKPMDLGTVKAKMDAREYKSS-KEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQD 357
Y+ I++PM + +K++ EY+ F DV L+ NC YN D +V + ++
Sbjct: 98 YYYKIQQPMSINEIKSR--DYEYEDGPSNFLLDVELLTKNCQAYNEYDSLIVKNSMQVVM 155
Query: 358 VFETKIAKA 366
+ E ++ KA
Sbjct: 156 LIEFEVLKA 164
>pdb|2R10|A Chain A, Structure Of An Acetylated Rsc4 Tandem Bromodomain Histone
Chimera
pdb|2R10|B Chain B, Structure Of An Acetylated Rsc4 Tandem Bromodomain Histone
Chimera
Length = 361
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 52/216 (24%), Positives = 95/216 (43%), Gaps = 17/216 (7%)
Query: 151 YHKVIKHPMDLGTIKKRLENFYYWSG-KEAISDFNTMFTNCYVYNKPGEDVVVMAQTLEK 209
Y+ I+ PM + IK R ++ Y G + D + NC YN+ D +++ +++
Sbjct: 113 YYYKIQQPMSINEIKSR--DYEYEDGPSNFLLDVELLTKNCQAYNE--YDSLIVKNSMQV 168
Query: 210 LFLTKVSARRESGRQIKKPNRGSDEGSFTTQLATSVTSVGDQGSYAKPKLTESLKYCNEI 269
+ L + + + +K+ + E +L + + D + K+ ++L +
Sbjct: 169 VMLIEFEVLK--AKNLKRNYLINSE--VKAKLLHYLNKLVDA---TEKKINQALLGASSP 221
Query: 270 LKELFSKKHSSYAWPFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFAD 329
K L K S PF + VD L +Y+EI+ PM L VK ++ +Y +F
Sbjct: 222 -KNLDDKVKLS--EPFMELVDKDELP--EYYEIVHSPMALSIVKQNLEIGQYSKIYDFII 276
Query: 330 DVRLIFTNCYKYNPPDHDVVAMAKKLQDVFETKIAK 365
D+ L+F N + +N P + A L + F I K
Sbjct: 277 DMLLVFQNAHIFNDPSALIYKDATTLTNYFNYLIQK 312
Score = 35.0 bits (79), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 32/64 (50%)
Query: 148 LQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVVMAQTL 207
L +Y++++ PM L +K+ LE Y + I D +F N +++N P + A TL
Sbjct: 243 LPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIFNDPSALIYKDATTL 302
Query: 208 EKLF 211
F
Sbjct: 303 TNYF 306
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 36/69 (52%), Gaps = 3/69 (4%)
Query: 299 YHEIIKKPMDLGTVKAKMDAREYKSS-KEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQD 357
Y+ I++PM + +K++ EY+ F DV L+ NC YN D +V + ++
Sbjct: 113 YYYKIQQPMSINEIKSR--DYEYEDGPSNFLLDVELLTKNCQAYNEYDSLIVKNSMQVVM 170
Query: 358 VFETKIAKA 366
+ E ++ KA
Sbjct: 171 LIEFEVLKA 179
>pdb|3IU5|A Chain A, Crystal Structure Of The First Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 116
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 32/62 (51%)
Query: 298 DYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQD 357
DY+E++ +P+DL ++ K+ EY D +L+F N Y PD A KL D
Sbjct: 43 DYYEVVSQPIDLMKIQQKLKMEEYDDVNLLTADFQLLFNNAKSYYKPDSPEYKAACKLWD 102
Query: 358 VF 359
++
Sbjct: 103 LY 104
Score = 33.5 bits (75), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 31/63 (49%)
Query: 150 DYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVVMAQTLEK 209
DY++V+ P+DL I+++L+ Y +DF +F N Y KP A L
Sbjct: 43 DYYEVVSQPIDLMKIQQKLKMEEYDDVNLLTADFQLLFNNAKSYYKPDSPEYKAACKLWD 102
Query: 210 LFL 212
L+L
Sbjct: 103 LYL 105
>pdb|3G0J|A Chain A, Crystal Structure Of The Fifth Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
pdb|3G0J|B Chain B, Crystal Structure Of The Fifth Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
pdb|3MB4|A Chain A, Crystal Structure Of The Fifth Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1) With Nmp
pdb|3MB4|B Chain B, Crystal Structure Of The Fifth Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1) With Nmp
Length = 124
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 35/78 (44%)
Query: 135 LLAFALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYN 194
L A L +P L DY+ IK PMD+ I+ + Y + DF MF N YN
Sbjct: 38 LSAIFLRLPSRSELPDYYLTIKKPMDMEKIRSHMMANKYQDIDSMVEDFVMMFNNACTYN 97
Query: 195 KPGEDVVVMAQTLEKLFL 212
+P + A L K+ L
Sbjct: 98 EPESLIYKDALVLHKVLL 115
Score = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%)
Query: 296 LNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKYNPPD 345
L DY+ IKKPMD+ +++ M A +Y+ +D ++F N YN P+
Sbjct: 51 LPDYYLTIKKPMDMEKIRSHMMANKYQDIDSMVEDFVMMFNNACTYNEPE 100
>pdb|2YQD|A Chain A, Solution Structure Of The Fifth Bromodomain From Mouse
Polybromo-1
Length = 120
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%)
Query: 296 LNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKYNPPD 345
L DY+ IKKPMD+ +++ M A +Y+ +D ++F N YN P+
Sbjct: 51 LPDYYLTIKKPMDMEKIRSHMMANKYQDIDSMVEDFVMMFNNACTYNEPE 100
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 35/78 (44%)
Query: 135 LLAFALTVPVLIILQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYN 194
L A L +P L DY+ IK PMD+ I+ + Y + DF MF N YN
Sbjct: 38 LSAIFLRLPSRSELPDYYLTIKKPMDMEKIRSHMMANKYQDIDSMVEDFVMMFNNACTYN 97
Query: 195 KPGEDVVVMAQTLEKLFL 212
+P + A L K+ L
Sbjct: 98 EPESLIYKDALVLHKVLL 115
>pdb|2DAT|A Chain A, Solution Structure Of The Bromodomain Of Human SwiSNF
Related Matrix Associated Actin Dependent Regulator Of
Cromatin Subfamily A Member 2
Length = 123
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 37/72 (51%)
Query: 296 LNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKL 355
L +Y+E+I+KP+D +K ++ +Y+S + DV L+ N +N + + L
Sbjct: 49 LPEYYELIRKPVDFKKIKERIRNHKYRSLGDLEKDVMLLCHNAQTFNLEGSQIYEDSIVL 108
Query: 356 QDVFETKIAKAP 367
Q VF++ P
Sbjct: 109 QSVFKSARQSGP 120
Score = 34.7 bits (78), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 37/75 (49%), Gaps = 4/75 (5%)
Query: 148 LQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVVMAQTL 207
L +Y+++I+ P+D IK+R+ N Y S + D + N +N G + + L
Sbjct: 49 LPEYYELIRKPVDFKKIKERIRNHKYRSLGDLEKDVMLLCHNAQTFNLEGSQIYEDSIVL 108
Query: 208 EKLFLTKVSARRESG 222
+ +F + R+SG
Sbjct: 109 QSVF----KSARQSG 119
>pdb|2R0S|A Chain A, Crystal Structure Of The Rsc4 Tandem Bromodomain
Length = 285
Score = 38.5 bits (88), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 38/82 (46%), Gaps = 2/82 (2%)
Query: 284 PFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKYNP 343
PF + VD L +Y+EI+ P L VK ++ +Y +F D L+F N + +N
Sbjct: 177 PFXELVDKDELP--EYYEIVHSPXALSIVKQNLEIGQYSKIYDFIIDXLLVFQNAHIFND 234
Query: 344 PDHDVVAMAKKLQDVFETKIAK 365
P + A L + F I K
Sbjct: 235 PSALIYKDATTLTNYFNYLIQK 256
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 31/64 (48%)
Query: 148 LQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVVMAQTL 207
L +Y++++ P L +K+ LE Y + I D +F N +++N P + A TL
Sbjct: 187 LPEYYEIVHSPXALSIVKQNLEIGQYSKIYDFIIDXLLVFQNAHIFNDPSALIYKDATTL 246
Query: 208 EKLF 211
F
Sbjct: 247 TNYF 250
Score = 29.3 bits (64), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 35/69 (50%), Gaps = 3/69 (4%)
Query: 299 YHEIIKKPMDLGTVKAKMDAREYKSS-KEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQD 357
Y+ I++P + +K++ EY+ F DV L+ NC YN D +V + ++
Sbjct: 57 YYYKIQQPXSINEIKSR--DYEYEDGPSNFLLDVELLTKNCQAYNEYDSLIVKNSXQVVX 114
Query: 358 VFETKIAKA 366
+ E ++ KA
Sbjct: 115 LIEFEVLKA 123
>pdb|2H60|A Chain A, Solution Structure Of Human Brg1 Bromodomain
Length = 128
Score = 38.5 bits (88), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 40/78 (51%), Gaps = 3/78 (3%)
Query: 296 LNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKL 355
L +Y+E+I+KP+D +K ++ +Y+S + DV L+ N +N + + L
Sbjct: 44 LPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVL 103
Query: 356 QDVFET---KIAKAPDDV 370
Q VF + KI K D +
Sbjct: 104 QSVFTSVRQKIEKEDDSL 121
Score = 33.9 bits (76), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 31/60 (51%), Gaps = 4/60 (6%)
Query: 148 LQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPG----EDVVVM 203
L +Y+++I+ P+D IK+R+ N Y S + D + N +N G ED +V+
Sbjct: 44 LPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVL 103
>pdb|2R0Y|A Chain A, Structure Of The Rsc4 Tandem Bromodomain In Complex With
An Acetylated H3 Peptide
Length = 311
Score = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 38/82 (46%), Gaps = 2/82 (2%)
Query: 284 PFYKPVDAAWLGLNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKYNP 343
PF + VD L +Y+EI+ P L VK ++ +Y +F D L+F N + +N
Sbjct: 183 PFXELVDKDELP--EYYEIVHSPXALSIVKQNLEIGQYSKIYDFIIDXLLVFQNAHIFND 240
Query: 344 PDHDVVAMAKKLQDVFETKIAK 365
P + A L + F I K
Sbjct: 241 PSALIYKDATTLTNYFNYLIQK 262
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 31/64 (48%)
Query: 148 LQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPGEDVVVMAQTL 207
L +Y++++ P L +K+ LE Y + I D +F N +++N P + A TL
Sbjct: 193 LPEYYEIVHSPXALSIVKQNLEIGQYSKIYDFIIDXLLVFQNAHIFNDPSALIYKDATTL 252
Query: 208 EKLF 211
F
Sbjct: 253 TNYF 256
Score = 29.3 bits (64), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 35/69 (50%), Gaps = 3/69 (4%)
Query: 299 YHEIIKKPMDLGTVKAKMDAREYKSS-KEFADDVRLIFTNCYKYNPPDHDVVAMAKKLQD 357
Y+ I++P + +K++ EY+ F DV L+ NC YN D +V + ++
Sbjct: 63 YYYKIQQPXSINEIKSR--DYEYEDGPSNFLLDVELLTKNCQAYNEYDSLIVKNSXQVVX 120
Query: 358 VFETKIAKA 366
+ E ++ KA
Sbjct: 121 LIEFEVLKA 129
>pdb|2GRC|A Chain A, 1.5 A Structure Of Bromodomain From Human Brg1 Protein, A
Central Atpase Of SwiSNF REMODELING COMPLEX
Length = 129
Score = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 39/76 (51%), Gaps = 3/76 (3%)
Query: 296 LNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKL 355
L +Y+E+I+KP+D +K ++ +Y+S + DV L+ N +N + + L
Sbjct: 48 LPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVL 107
Query: 356 QDVFET---KIAKAPD 368
Q VF + KI K D
Sbjct: 108 QSVFTSVRQKIEKEDD 123
Score = 34.3 bits (77), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 31/60 (51%), Gaps = 4/60 (6%)
Query: 148 LQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPG----EDVVVM 203
L +Y+++I+ P+D IK+R+ N Y S + D + N +N G ED +V+
Sbjct: 48 LPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVL 107
>pdb|3UVD|A Chain A, Crystal Structure Of The Bromodomain Of Human
Transcription Activator Brg1 (Smarca4) In Complex With
N-Methyl-2-Pyrrolidone
Length = 124
Score = 38.1 bits (87), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 39/76 (51%), Gaps = 3/76 (3%)
Query: 296 LNDYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKKL 355
L +Y+E+I+KP+D +K ++ +Y+S + DV L+ N +N + + L
Sbjct: 49 LPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVL 108
Query: 356 QDVFET---KIAKAPD 368
Q VF + KI K D
Sbjct: 109 QSVFTSVRQKIEKEDD 124
Score = 34.3 bits (77), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 31/60 (51%), Gaps = 4/60 (6%)
Query: 148 LQDYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVYNKPG----EDVVVM 203
L +Y+++I+ P+D IK+R+ N Y S + D + N +N G ED +V+
Sbjct: 49 LPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVL 108
>pdb|4EIP|A Chain A, Native And K252c Bound Rebc-10x
pdb|4EIP|B Chain B, Native And K252c Bound Rebc-10x
pdb|4EIQ|A Chain A, Chromopyrrolic Acid-Soaked Rebc-10x With Bound
7-Carboxy-K252c
pdb|4EIQ|B Chain B, Chromopyrrolic Acid-Soaked Rebc-10x With Bound
7-Carboxy-K252c
Length = 549
Score = 34.7 bits (78), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 35/76 (46%), Gaps = 2/76 (2%)
Query: 240 QLATSVTSVGDQGSYAKPKLTESLKYCNEILKEL-FSKKHSSYAWPFYKPVDAAWLGLND 298
Q+ V GD G+ PK++ E+ + +K+ + WP P+DAAW+
Sbjct: 49 QVGHLVVDAGD-GTITHPKVSTIGPRSMELFRRWGVAKQIRTAGWPGDHPLDAAWVTRVG 107
Query: 299 YHEIIKKPMDLGTVKA 314
HE+ + P+ +A
Sbjct: 108 GHEVYRIPLGTADTRA 123
>pdb|3MQM|A Chain A, Crystal Structure Of The Bromodomain Of Human Ash1l
pdb|3MQM|B Chain B, Crystal Structure Of The Bromodomain Of Human Ash1l
Length = 126
Score = 33.9 bits (76), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 32/60 (53%), Gaps = 4/60 (6%)
Query: 298 DYHEIIKKPMDLGTVKAKMDAREYKSSKEFADDVRLIFTNCYKY----NPPDHDVVAMAK 353
DY+E I P+DL T++ ++ YK+ + F D+ +F N KY +P DV + K
Sbjct: 47 DYYEKISDPLDLITIEKQILTGYYKTVEAFDADMLKVFRNAEKYYGRKSPVGRDVCRLRK 106
Score = 29.6 bits (65), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 39/80 (48%), Gaps = 11/80 (13%)
Query: 150 DYHKVIKHPMDLGTIKKRLENFYYWSGKEAISDFNTMFTNCYVY----NKPGEDVVVMAQ 205
DY++ I P+DL TI+K++ YY + + +D +F N Y + G DV
Sbjct: 47 DYYEKISDPLDLITIEKQILTGYYKTVEAFDADMLKVFRNAEKYYGRKSPVGRDVC---- 102
Query: 206 TLEKLFLTKVSARRESGRQI 225
L K + +AR E+ QI
Sbjct: 103 RLRKAYY---NARHEASAQI 119
>pdb|3LQH|A Chain A, Crystal Structure Of Mll1 Phd3-Bromo In The Free Form
pdb|3LQI|A Chain A, Crystal Structure Of Mll1 Phd3-Bromo Complexed With
H3(1-9)k4me2 Peptide
pdb|3LQI|B Chain B, Crystal Structure Of Mll1 Phd3-Bromo Complexed With
H3(1-9)k4me2 Peptide
pdb|3LQI|C Chain C, Crystal Structure Of Mll1 Phd3-Bromo Complexed With
H3(1-9)k4me2 Peptide
pdb|3LQJ|A Chain A, Crystal Structure Of Mll1 Phd3-Bromo Complexed With
H3(1-9)k4me3 Peptide
pdb|3LQJ|B Chain B, Crystal Structure Of Mll1 Phd3-Bromo Complexed With
H3(1-9)k4me3 Peptide
Length = 183
Score = 32.7 bits (73), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 19/28 (67%)
Query: 304 KKPMDLGTVKAKMDAREYKSSKEFADDV 331
++P+DL VK KMD Y S EF+DD+
Sbjct: 102 QQPLDLEGVKRKMDQGNYTSVLEFSDDI 129
>pdb|4AXG|A Chain A, Structure Of Eif4e-Cup Complex
pdb|4AXG|B Chain B, Structure Of Eif4e-Cup Complex
Length = 248
Score = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 37/76 (48%), Gaps = 7/76 (9%)
Query: 412 LISLQDQVTPKPATAAQRKKPPTTPLSAPQPASSVKKPARPPAKT--PVKRKA---PPMP 466
++ L+ + T P+T R +PPT+ +AP A V KP P +T P A P
Sbjct: 1 MVVLETEKTSAPSTEQGRPEPPTSA-AAPAEAKDV-KPKEDPQETGEPAGNTATTTAPAG 58
Query: 467 NKSVSAQHTQPAPVMN 482
+ +V +H P+MN
Sbjct: 59 DDAVRTEHLYKHPLMN 74
>pdb|1OW1|A Chain A, Crystal Structure Of The Spoc Domain Of The Human
Transcriptional Corepressor, Sharp
Length = 195
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 28/44 (63%), Gaps = 1/44 (2%)
Query: 198 EDVVVMAQTLEKLFLTKVSARRESGRQIKKPNRGSDEGSFTTQL 241
EDVV ++L+ F+T + A++ +G I PN GS++ ++ Q+
Sbjct: 117 EDVVSQTESLKAAFITYLQAKQAAGI-INVPNPGSNQPAYVLQI 159
>pdb|2RO1|A Chain A, Nmr Solution Structures Of Human Kap1 Phd
Finger-Bromodomain
Length = 189
Score = 30.0 bits (66), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 48/196 (24%), Positives = 76/196 (38%), Gaps = 31/196 (15%)
Query: 188 TNCYVYNKPGEDVVVMAQTLEKLF--------LTKVSARRESGRQIKK-PNRGSDEGSFT 238
T C V KPG+ +VM E F L V S P+ ++GS +
Sbjct: 3 TICRVCQKPGD--LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLPDLKEEDGSLS 60
Query: 239 TQLATSVTSVGDQGSYAKPKLT-ESLKYCNEILKELFSKKHSSYAWPFYKPVDAAWLGLN 297
A S V KL+ + + C +L LF + P ++ + L+
Sbjct: 61 LDGADSTGVVA--------KLSPANQRKCERVLLALFCHEPCR---PLHQLATDSTFSLD 109
Query: 298 DYHEIIKKPMDLGTVKAKMDAR---EYKSSKEFADDVRLIFTNCYKYNPPDHDVVAMAKK 354
+DL ++A++ + Y S +EFA DV +F K DV ++
Sbjct: 110 QP----GGTLDLTLIRARLQEKLSPPYSSPQEFAQDVGRMFKQFNKLTEDKADVQSII-G 164
Query: 355 LQDVFETKIAKAPDDV 370
LQ FET++ +A D
Sbjct: 165 LQRFFETRMNEAFGDT 180
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.316 0.132 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,765,556
Number of Sequences: 62578
Number of extensions: 621826
Number of successful extensions: 1572
Number of sequences better than 100.0: 93
Number of HSP's better than 100.0 without gapping: 79
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 1336
Number of HSP's gapped (non-prelim): 235
length of query: 566
length of database: 14,973,337
effective HSP length: 104
effective length of query: 462
effective length of database: 8,465,225
effective search space: 3910933950
effective search space used: 3910933950
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 54 (25.4 bits)