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= 009401
(535 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 92.8 bits (229), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 46/104 (44%), Positives = 61/104 (58%), Gaps = 3/104 (2%)
Query: 154 MKNCGQILTKLMKHK---LGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYD 210
+K+C +IL +++ K + F +PVD + LH+YYD++KNPMDLGT+K K+ Y
Sbjct: 16 LKHCSEILKEMLAKKHLPYAWPFYNPVDADALGLHNYYDVVKNPMDLGTIKGKMDNQEYK 75
Query: 211 SPASFAADVRLTFNNAMTYNPKDHEVHIIAEQFLARFEELFRPI 254
FAADVRL F N YNP DHEV +A FE F I
Sbjct: 76 DAYEFAADVRLMFMNCYKYNPPDHEVVAMARTLQDVFELHFAKI 119
>pdb|2LSP|B Chain B, Solution Structures Of Brd4 Second Bromodomain With
Nf-Kb-K310ac Peptide
Length = 128
Score = 90.5 bits (223), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 46/101 (45%), Positives = 57/101 (56%), Gaps = 3/101 (2%)
Query: 154 MKNCGQILTKLMKHK---LGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYD 210
+K C IL ++ K + F PVDV + LHDY DIIK+PMD+ T+KSKL Y
Sbjct: 22 LKCCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEAREYR 81
Query: 211 SPASFAADVRLTFNNAMTYNPKDHEVHIIAEQFLARFEELF 251
F ADVRL F+N YNP DHEV +A + FE F
Sbjct: 82 DAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRF 122
>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 = 90.1 bits (222), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 46/101 (45%), Positives = 57/101 (56%), Gaps = 3/101 (2%)
Query: 154 MKNCGQILTKLMKHK---LGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYD 210
+K C IL ++ K + F PVDV + LHDY DIIK+PMD+ T+KSKL Y
Sbjct: 24 LKCCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEAREYR 83
Query: 211 SPASFAADVRLTFNNAMTYNPKDHEVHIIAEQFLARFEELF 251
F ADVRL F+N YNP DHEV +A + FE F
Sbjct: 84 DAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRF 124
>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 = 89.7 bits (221), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 46/101 (45%), Positives = 57/101 (56%), Gaps = 3/101 (2%)
Query: 154 MKNCGQILTKLMKHK---LGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYD 210
+K C IL ++ K + F PVDV + LHDY DIIK+PMD+ T+KSKL Y
Sbjct: 11 LKCCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLESREYR 70
Query: 211 SPASFAADVRLTFNNAMTYNPKDHEVHIIAEQFLARFEELF 251
F ADVRL F+N YNP DHEV +A + FE F
Sbjct: 71 DAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRF 111
>pdb|3ONI|A Chain A, Crystal Structure Of The Second Bromodomain Of Human Brd2
In Complex With The Inhibitor Jq1
Length = 114
Score = 88.6 bits (218), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 48/104 (46%), Positives = 61/104 (58%), Gaps = 6/104 (5%)
Query: 151 GKL---MKNCGQILTKLMKHK---LGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKL 204
GKL +K+C IL +L+ K + F PVD + LHDY+DIIK+PMDL TVK K+
Sbjct: 3 GKLSEQLKHCNGILKELLSKKHAAYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKM 62
Query: 205 SKNLYDSPASFAADVRLTFNNAMTYNPKDHEVHIIAEQFLARFE 248
Y FAADVRL F+N YNP DH+V +A + FE
Sbjct: 63 ENRDYRDAQEFAADVRLMFSNCYKYNPPDHDVVAMARKLQDVFE 106
>pdb|2I8N|A Chain A, Solution Structure Of The Second Bromodomain Of Brd4
Length = 114
Score = 88.6 bits (218), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 46/101 (45%), Positives = 57/101 (56%), Gaps = 3/101 (2%)
Query: 154 MKNCGQILTKLMKHK---LGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYD 210
+K C IL ++ K + F PVDV + LHDY DIIK+PMD+ T+KSKL Y
Sbjct: 3 LKCCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEAREYR 62
Query: 211 SPASFAADVRLTFNNAMTYNPKDHEVHIIAEQFLARFEELF 251
F ADVRL F+N YNP DHEV +A + FE F
Sbjct: 63 DAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRF 103
>pdb|2G4A|A Chain A, Solution Structure Of A Bromodomain From Ring3 Protein
Length = 116
Score = 87.8 bits (216), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 45/98 (45%), Positives = 58/98 (59%), Gaps = 3/98 (3%)
Query: 154 MKNCGQILTKLMKHK---LGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYD 210
+K+C IL +L+ K + F PVD + LHDY+DIIK+PMDL TVK K+ Y
Sbjct: 3 LKHCNVILKELLSKKHAAYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRDYR 62
Query: 211 SPASFAADVRLTFNNAMTYNPKDHEVHIIAEQFLARFE 248
FAADVRL F+N YNP DH+V +A + FE
Sbjct: 63 DAQEFAADVRLMFSNCYKYNPPDHDVVAMARKLQDVFE 100
>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 = 87.8 bits (216), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 48/107 (44%), Positives = 61/107 (57%), Gaps = 6/107 (5%)
Query: 151 GKL---MKNCGQILTKLMKHK---LGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKL 204
GKL ++ C IL +++ K + F PVD + LHDY+DIIK+PMDL TVK K+
Sbjct: 3 GKLSEHLRYCDSILREMLSKKHAAYAWPFYKPVDAEALELHDYHDIIKHPMDLSTVKRKM 62
Query: 205 SKNLYDSPASFAADVRLTFNNAMTYNPKDHEVHIIAEQFLARFEELF 251
Y FAADVRL F+N YNP DHEV +A + FE F
Sbjct: 63 DGREYPDAQGFAADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRF 109
>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 = 87.8 bits (216), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 45/98 (45%), Positives = 58/98 (59%), Gaps = 3/98 (3%)
Query: 154 MKNCGQILTKLMKHK---LGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYD 210
+K+C IL +L+ K + F PVD + LHDY+DIIK+PMDL TVK K+ Y
Sbjct: 7 LKHCNGILKELLSKKHAAYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRDYR 66
Query: 211 SPASFAADVRLTFNNAMTYNPKDHEVHIIAEQFLARFE 248
FAADVRL F+N YNP DH+V +A + FE
Sbjct: 67 DAQEFAADVRLMFSNCYKYNPPDHDVVAMARKLQDVFE 104
>pdb|2E7N|A Chain A, Solution Structure Of The Second Bromodomain From Human
Bromodomain-Containing Protein 3
Length = 117
Score = 87.0 bits (214), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 45/101 (44%), Positives = 58/101 (57%), Gaps = 3/101 (2%)
Query: 154 MKNCGQILTKLMKHK---LGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYD 210
++ C IL +++ K + F PVD + LHDY+DIIK+PMDL TVK K+ Y
Sbjct: 14 LRYCDSILREMLSKKHAAYAWPFYKPVDAEALELHDYHDIIKHPMDLSTVKRKMDGREYP 73
Query: 211 SPASFAADVRLTFNNAMTYNPKDHEVHIIAEQFLARFEELF 251
FAADVRL F+N YNP DHEV +A + FE F
Sbjct: 74 DAQGFAADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRF 114
>pdb|2DWW|A Chain A, Crystal Structure Of Bromodomain-Containing Protein 4
Length = 114
Score = 79.7 bits (195), Expect = 4e-15, Method: Composition-based stats.
Identities = 45/101 (44%), Positives = 53/101 (52%), Gaps = 3/101 (2%)
Query: 154 MKNCGQILTKLMKHK---LGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYD 210
+K C IL + K + F PVDV + LHDY DIIK+P D T+KSKL Y
Sbjct: 9 LKCCSGILKEXFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPXDXSTIKSKLESREYR 68
Query: 211 SPASFAADVRLTFNNAMTYNPKDHEVHIIAEQFLARFEELF 251
F ADVRL F+N YNP DHEV A + FE F
Sbjct: 69 DAQEFGADVRLXFSNCYKYNPPDHEVVAXARKLQDVFEXRF 109
>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 = 73.2 bits (178), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 35/86 (40%), Positives = 46/86 (53%)
Query: 173 FNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYNPK 232
F PVD + + DY+DI+KNPMDL T+K KL Y P + DV L FNNA YN K
Sbjct: 33 FRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNRK 92
Query: 233 DHEVHIIAEQFLARFEELFRPINEKL 258
V+ + FE+ P+ + L
Sbjct: 93 TSRVYKFCSKLAEVFEQEIDPVMQSL 118
>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 = 72.8 bits (177), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 35/86 (40%), Positives = 46/86 (53%)
Query: 173 FNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYNPK 232
F PVD + + DY+DI+KNPMDL T+K KL Y P + DV L FNNA YN K
Sbjct: 35 FRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNRK 94
Query: 233 DHEVHIIAEQFLARFEELFRPINEKL 258
V+ + FE+ P+ + L
Sbjct: 95 TSRVYKFCSKLAEVFEQEIDPVMQSL 120
>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 = 72.0 bits (175), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 36/95 (37%), Positives = 49/95 (51%), Gaps = 4/95 (4%)
Query: 160 ILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADV 219
+L L KH+ + F PVD V + L DYY IIK PMD+GT+K +L N Y + D
Sbjct: 29 VLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDF 88
Query: 220 RLTFNNAMTYNPKDHEVHIIAEQ----FLARFEEL 250
F N YN ++ ++AE FL + EL
Sbjct: 89 NTMFTNCYIYNKPGDDIVLMAEALEKLFLQKINEL 123
>pdb|4HBW|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Quinazoline Ligand
Length = 127
Score = 72.0 bits (175), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 36/95 (37%), Positives = 49/95 (51%), Gaps = 4/95 (4%)
Query: 160 ILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADV 219
+L L KH+ + F PVD V + L DYY IIK PMD+GT+K +L N Y + D
Sbjct: 29 VLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDF 88
Query: 220 RLTFNNAMTYNPKDHEVHIIAEQ----FLARFEEL 250
F N YN ++ ++AE FL + EL
Sbjct: 89 NTMFTNCYIYNKPGDDIVLMAEALEKLFLQKINEL 123
>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 = 72.0 bits (175), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 36/95 (37%), Positives = 49/95 (51%), Gaps = 4/95 (4%)
Query: 160 ILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADV 219
+L L KH+ + F PVD V + L DYY IIK PMD+GT+K +L N Y + D
Sbjct: 33 VLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDF 92
Query: 220 RLTFNNAMTYNPKDHEVHIIAEQ----FLARFEEL 250
F N YN ++ ++AE FL + EL
Sbjct: 93 NTMFTNCYIYNKPGDDIVLMAEALEKLFLQKINEL 127
>pdb|4DON|A Chain A, Brd4 Bromodomain 1 Complex With A Fragment
3,4-dihydro-3-methyl-2(1h)- Quinazolinon
Length = 145
Score = 71.2 bits (173), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 36/95 (37%), Positives = 49/95 (51%), Gaps = 4/95 (4%)
Query: 160 ILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADV 219
+L L KH+ + F PVD V + L DYY IIK PMD+GT+K +L N Y + D
Sbjct: 49 VLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDF 108
Query: 220 RLTFNNAMTYNPKDHEVHIIAEQ----FLARFEEL 250
F N YN ++ ++AE FL + EL
Sbjct: 109 NTMFTNCYIYNKPGDDIVLMAEALEKLFLQKINEL 143
>pdb|2YW5|A Chain A, Solution Structure Of The Bromodomain From Human
Bromodomain Containing Protein 3
Length = 138
Score = 71.2 bits (173), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 41/127 (32%), Positives = 67/127 (52%), Gaps = 6/127 (4%)
Query: 138 VSNELKKLNQQDNGKLMKNCGQILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDL 197
VSN K + + + M+N ++ L KH+ + F PVD + + L DY+ IIKNPMD+
Sbjct: 9 VSNPSKPGRKTNQLQYMQNV--VVKTLWKHQFAWPFYQPVDAIKLNLPDYHKIIKNPMDM 66
Query: 198 GTVKSKLSKNLYDSPASFAADVRLTFNNAMTYNPKDHEVHIIAEQFLARFEELFRPINEK 257
GT+K +L N Y S + D F N YN ++ ++A+ E++F +
Sbjct: 67 GTIKKRLENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQ----ALEKIFLQKVAQ 122
Query: 258 LMQEDVQ 264
+ QE+V+
Sbjct: 123 MPQEEVE 129
>pdb|2L5E|A Chain A, Complex Between Bd1 Of Brd3 And Gata-1 C-Tail
Length = 128
Score = 70.5 bits (171), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 41/127 (32%), Positives = 67/127 (52%), Gaps = 6/127 (4%)
Query: 138 VSNELKKLNQQDNGKLMKNCGQILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDL 197
VSN K + + + M+N ++ L KH+ + F PVD + + L DY+ IIKNPMD+
Sbjct: 7 VSNPSKPGRKTNQLQYMQNV--VVKTLWKHQFAWPFYQPVDAIKLNLPDYHKIIKNPMDM 64
Query: 198 GTVKSKLSKNLYDSPASFAADVRLTFNNAMTYNPKDHEVHIIAEQFLARFEELFRPINEK 257
GT+K +L N Y S + D F N YN ++ ++A+ E++F +
Sbjct: 65 GTIKKRLENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQ----ALEKIFLQKVAQ 120
Query: 258 LMQEDVQ 264
+ QE+V+
Sbjct: 121 MPQEEVE 127
>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 = 70.5 bits (171), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 37/106 (34%), Positives = 57/106 (53%), Gaps = 2/106 (1%)
Query: 136 PFVSNELKKLNQQDNGKLMKNCGQILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPM 195
P VSN K + + + M+N ++ L KH+ + F PVD + + L DY+ IIKNPM
Sbjct: 3 PEVSNPSKPGRKTNQLQYMQNV--VVKTLWKHQFAWPFYQPVDAIKLNLPDYHKIIKNPM 60
Query: 196 DLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYNPKDHEVHIIAE 241
D+GT+K +L N Y S + D F N YN ++ ++A+
Sbjct: 61 DMGTIKKRLENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQ 106
>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 = 70.5 bits (171), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 33/86 (38%), Positives = 46/86 (53%)
Query: 173 FNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYNPK 232
F PVD + + DY+DI+K+PMDL T+K KL Y P + D+ L FNNA YN K
Sbjct: 38 FRQPVDPQLLGIPDYFDIVKSPMDLSTIKRKLDTGQYQEPWQYVDDIWLMFNNAWLYNRK 97
Query: 233 DHEVHIIAEQFLARFEELFRPINEKL 258
V+ + FE+ P+ + L
Sbjct: 98 TSRVYKYCSKLSEVFEQEIDPVMQSL 123
>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 = 70.1 bits (170), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 38/100 (38%), Positives = 53/100 (53%), Gaps = 5/100 (5%)
Query: 155 KNCGQILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKN--LYDSP 212
+ C ++L L H++ F PV + + DYY IIKNPMDL T+K +L ++ +Y P
Sbjct: 23 RKCERLLLFLYCHEMSLAFQDPV---PLTVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKP 79
Query: 213 ASFAADVRLTFNNAMTYNPKDHEVHIIAEQFLARFEELFR 252
F AD RL F N +N D EV + FEEL +
Sbjct: 80 EDFVADFRLIFQNCAEFNEPDSEVANAGIKLENYFEELLK 119
>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 = 69.7 bits (169), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 38/100 (38%), Positives = 53/100 (53%), Gaps = 5/100 (5%)
Query: 155 KNCGQILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKN--LYDSP 212
+ C ++L L H++ F PV + + DYY IIKNPMDL T+K +L ++ +Y P
Sbjct: 84 RKCERLLLFLYCHEMSLAFQDPV---PLTVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKP 140
Query: 213 ASFAADVRLTFNNAMTYNPKDHEVHIIAEQFLARFEELFR 252
F AD RL F N +N D EV + FEEL +
Sbjct: 141 EDFVADFRLIFQNCAEFNEPDSEVANAGIKLENYFEELLK 180
>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 = 68.6 bits (166), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 38/102 (37%), Positives = 55/102 (53%), Gaps = 3/102 (2%)
Query: 155 KNCGQILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPAS 214
K C +++ + + + F PVD+V DY DII PMD GTV+ L YDSP
Sbjct: 13 KQCKELVNLIFQCEDSEPFRQPVDLVEYP--DYRDIIDTPMDFGTVRETLDAGNYDSPLE 70
Query: 215 FAADVRLTFNNAMTYNP-KDHEVHIIAEQFLARFEELFRPIN 255
F D+RL F+NA Y P K +++ + + A FEE + I+
Sbjct: 71 FCKDIRLIFSNAKAYTPNKRSKIYSMTLRLSALFEEKMKKIS 112
>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 = 67.4 bits (163), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 38/111 (34%), Positives = 54/111 (48%), Gaps = 8/111 (7%)
Query: 145 LNQQDNGKLMKNCGQ----ILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTV 200
+N + NG+L +L L KH + F PVD V + L DYY IIKNPMDL T+
Sbjct: 2 MNTKKNGRLTNQLQYLQKVVLKDLWKHSFSWPFQRPVDAVKLQLPDYYTIIKNPMDLNTI 61
Query: 201 KSKLSKNLYDSPASFAADVRLTFNNAMTYNPKDHEVHIIAEQFLARFEELF 251
K +L Y + D F+N YN ++ ++A+ E+LF
Sbjct: 62 KKRLENKYYAKASECIEDFNTMFSNCYLYNKPGDDIVLMAQ----ALEKLF 108
>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 = 67.0 bits (162), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 29/82 (35%), Positives = 45/82 (54%)
Query: 160 ILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADV 219
++ L KH+ + F PVD V + L DY+ IIK PMD+GT+K +L N Y + + D
Sbjct: 40 VMKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDF 99
Query: 220 RLTFNNAMTYNPKDHEVHIIAE 241
F N YN ++ ++A+
Sbjct: 100 NTMFTNCYIYNKPTDDIVLMAQ 121
>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 = 67.0 bits (162), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 29/82 (35%), Positives = 45/82 (54%)
Query: 160 ILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADV 219
++ L KH+ + F PVD V + L DY+ IIK PMD+GT+K +L N Y + + D
Sbjct: 40 VMKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDF 99
Query: 220 RLTFNNAMTYNPKDHEVHIIAE 241
F N YN ++ ++A+
Sbjct: 100 NTMFTNCYIYNKPTDDIVLMAQ 121
>pdb|3FKM|X Chain X, Plasmodium Falciparum Bromodomain-Containing Protein
Pf10_0328
Length = 166
Score = 67.0 bits (162), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 33/89 (37%), Positives = 46/89 (51%)
Query: 159 QILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAAD 218
Q++ L K++ G+IF VD DYYD+IKNP +K+KL K Y P+ F D
Sbjct: 28 QLILSLSKYEGGHIFEKLVDAKKQNCPDYYDVIKNPXSFSCIKTKLKKGQYAYPSEFVKD 87
Query: 219 VRLTFNNAMTYNPKDHEVHIIAEQFLARF 247
V+L F+N YN + V I + F
Sbjct: 88 VQLIFDNCSLYNTSNSVVAITGKNIETYF 116
>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 = 66.2 bits (160), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 33/92 (35%), Positives = 47/92 (51%), Gaps = 4/92 (4%)
Query: 160 ILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADV 219
+L L KH + F PVD V + L DYY IIK PMDL T+K +L Y+ + D
Sbjct: 22 VLKALWKHGFSWPFQQPVDAVKLKLPDYYTIIKTPMDLNTIKKRLENKYYEKASECIEDF 81
Query: 220 RLTFNNAMTYNPKDHEVHIIAEQFLARFEELF 251
F+N YN ++ ++A+ E+LF
Sbjct: 82 NTMFSNCYLYNKTGDDIVVMAQ----ALEKLF 109
>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 = 62.8 bits (151), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 35/110 (31%), Positives = 61/110 (55%), Gaps = 6/110 (5%)
Query: 147 QQDNGKLMKNCGQILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSK 206
++D+ K + C ILT++ H+ + F PV++ + Y +IK PMD T++ KLS
Sbjct: 8 KRDDSKDLALCSMILTEMETHEDAWPFLLPVNL--KLVPGYKKVIKKPMDFSTIREKLSS 65
Query: 207 NLYDSPASFAADVRLTFNNAMTYNPKDHEV----HIIAEQFLARFEELFR 252
Y + +FA DVRL F+N T+N D ++ H + + F ++ + F+
Sbjct: 66 GQYPNLETFALDVRLVFDNCETFNEDDSDIGRAGHNMRKYFEKKWTDTFK 115
>pdb|3MB3|A Chain A, Crystal Structure Of The Second Bromodomain Of Pleckstrin
Homology Domain Interacting Protein (Phip)
Length = 135
Score = 61.6 bits (148), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 34/96 (35%), Positives = 50/96 (52%), Gaps = 3/96 (3%)
Query: 155 KNCGQILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPAS 214
K C ++L + + + F PVD++ DY DII PMD TV+ L Y+SP
Sbjct: 24 KQCEELLNLIFQCEDSEPFRQPVDLLEYP--DYRDIIDTPMDFATVRETLEAGNYESPME 81
Query: 215 FAADVRLTFNNAMTYNP-KDHEVHIIAEQFLARFEE 249
DVRL F+N+ Y P K ++ ++ + A FEE
Sbjct: 82 LCKDVRLIFSNSKAYTPSKRSRIYSMSLRLSAFFEE 117
>pdb|3QZV|A Chain A, Crystal Structure Of Bptf Phd-Linker-Bromo In Complex With
Histone H4k12ac Peptide
Length = 174
Score = 61.2 bits (147), Expect = 2e-09, Method: Composition-based stats.
Identities = 30/83 (36%), Positives = 44/83 (53%), Gaps = 2/83 (2%)
Query: 159 QILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAAD 218
++L L HK+ + F PVD DYY +IK PMDL T++ ++ + Y+ F AD
Sbjct: 79 RVLRSLQAHKMAWPFLEPVDPNDAP--DYYGVIKEPMDLATMEERVQRRYYEKLTEFVAD 136
Query: 219 VRLTFNNAMTYNPKDHEVHIIAE 241
+ F+N YNP D + AE
Sbjct: 137 MTKIFDNCRYYNPSDSPFYQCAE 159
>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 = 60.8 bits (146), Expect = 2e-09, Method: Composition-based stats.
Identities = 30/83 (36%), Positives = 44/83 (53%), Gaps = 2/83 (2%)
Query: 159 QILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAAD 218
++L L HK+ + F PVD DYY +IK PMDL T++ ++ + Y+ F AD
Sbjct: 79 RVLRSLQAHKMAWPFLEPVDPNDAP--DYYGVIKEPMDLATMEERVQRRYYEKLTEFVAD 136
Query: 219 VRLTFNNAMTYNPKDHEVHIIAE 241
+ F+N YNP D + AE
Sbjct: 137 MTKIFDNCRYYNPSDSPFYQCAE 159
>pdb|3UV2|A Chain A, Crystal Structure Of The Bromodomain Of Human
Nucleosome-Remodeling Factor Subunit Bptf
Length = 126
Score = 60.8 bits (146), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 30/83 (36%), Positives = 44/83 (53%), Gaps = 2/83 (2%)
Query: 159 QILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAAD 218
++L L HK+ + F PVD DYY +IK PMDL T++ ++ + Y+ F AD
Sbjct: 27 RVLRSLQAHKMAWPFLEPVDPNDAP--DYYGVIKEPMDLATMEERVQRRYYEKLTEFVAD 84
Query: 219 VRLTFNNAMTYNPKDHEVHIIAE 241
+ F+N YNP D + AE
Sbjct: 85 MTKIFDNCRYYNPSDSPFYQCAE 107
>pdb|1E6I|A Chain A, Bromodomain From Gcn5 Complexed With Acetylated H4 Peptide
Length = 121
Score = 59.7 bits (143), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 35/92 (38%), Positives = 47/92 (51%), Gaps = 6/92 (6%)
Query: 160 ILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADV 219
ILT+L H + F PV+ + DYYD IK PMDL T++ KL N Y F D
Sbjct: 21 ILTELQNHAAAWPFLQPVN--KEEVPDYYDFIKEPMDLSTMEIKLESNKYQKMEDFIYDA 78
Query: 220 RLTFNNAMTYNPKDHEVHIIAEQFLARFEELF 251
RL FNN YN ++ + ++ R E+ F
Sbjct: 79 RLVFNNCRMYNGENTSYY----KYANRLEKFF 106
>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 = 59.3 bits (142), Expect = 5e-09, Method: Composition-based stats.
Identities = 30/83 (36%), Positives = 44/83 (53%), Gaps = 2/83 (2%)
Query: 159 QILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAAD 218
++L L HK+ + F PVD DYY +IK PMDL T++ ++ + Y+ F AD
Sbjct: 20 RVLRSLQAHKMAWPFLEPVDPNDAP--DYYGVIKEPMDLATMEERVQRRYYEKLTEFVAD 77
Query: 219 VRLTFNNAMTYNPKDHEVHIIAE 241
+ F+N YNP D + AE
Sbjct: 78 MTAIFDNCRYYNPSDSPFYQCAE 100
>pdb|2E7O|A Chain A, Solution Structure Of The Bromodomain From Human
Bromodomain Adjacent To Zinc Finger Domain 2b
Length = 112
Score = 58.9 bits (141), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 33/100 (33%), Positives = 55/100 (55%), Gaps = 6/100 (6%)
Query: 157 CGQILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFA 216
C ILT++ H+ + F PV++ + Y +IK PMD T++ KLS Y + +FA
Sbjct: 15 CSMILTEMETHEDAWPFLLPVNL--KLVPGYKKVIKKPMDFSTIREKLSSGQYPNLETFA 72
Query: 217 ADVRLTFNNAMTYNPKDHEV----HIIAEQFLARFEELFR 252
DVRL F+N T+N D ++ H + + F ++ + F+
Sbjct: 73 LDVRLVFDNCETFNEDDSDIGRAGHNMRKYFEKKWTDTFK 112
>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 = 58.5 bits (140), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 36/90 (40%), Positives = 46/90 (51%), Gaps = 6/90 (6%)
Query: 155 KNCGQILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSK---NLYDS 211
+ C ++L L H+L F PV ++ +YY IIK PMDL TVK KL K Y
Sbjct: 84 RKCERLLLYLYCHELSIEFQEPVPA---SIPNYYKIIKKPMDLSTVKKKLQKKHSQHYQI 140
Query: 212 PASFAADVRLTFNNAMTYNPKDHEVHIIAE 241
P F ADVRL F N +N V + A+
Sbjct: 141 PDDFVADVRLIFKNCERFNEMMKVVQVYAD 170
>pdb|3QZT|A Chain A, Crystal Structure Of Bptf Bromo In Complex With Histone
H4k16ac - Form Ii
Length = 115
Score = 58.5 bits (140), Expect = 9e-09, Method: Composition-based stats.
Identities = 30/83 (36%), Positives = 44/83 (53%), Gaps = 2/83 (2%)
Query: 159 QILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAAD 218
++L L HK+ + F PVD DYY +IK PMDL T++ ++ + Y+ F AD
Sbjct: 20 RVLRSLQAHKMAWPFLEPVDPNDAP--DYYGVIKEPMDLATMEERVQRRYYEKLTEFVAD 77
Query: 219 VRLTFNNAMTYNPKDHEVHIIAE 241
+ F+N YNP D + AE
Sbjct: 78 MTKIFDNCRYYNPSDSPFYQCAE 100
>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 = 57.4 bits (137), Expect = 2e-08, Method: Composition-based stats.
Identities = 28/78 (35%), Positives = 40/78 (51%)
Query: 164 LMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTF 223
L KH+ + F PVD V + L DY+ IIK P D GT+K +L N Y + + D F
Sbjct: 24 LWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPXDXGTIKRRLENNYYWAASECXQDFNTXF 83
Query: 224 NNAMTYNPKDHEVHIIAE 241
N YN ++ + A+
Sbjct: 84 TNCYIYNKPTDDIVLXAQ 101
>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 = 57.0 bits (136), Expect = 2e-08, Method: Composition-based stats.
Identities = 28/78 (35%), Positives = 40/78 (51%)
Query: 164 LMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTF 223
L KH+ + F PVD V + L DY+ IIK P D GT+K +L N Y + + D F
Sbjct: 18 LWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPXDXGTIKRRLENNYYWAASECXQDFNTXF 77
Query: 224 NNAMTYNPKDHEVHIIAE 241
N YN ++ + A+
Sbjct: 78 TNCYIYNKPTDDIVLXAQ 95
>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 = 55.5 bits (132), Expect = 7e-08, Method: Composition-based stats.
Identities = 29/83 (34%), Positives = 40/83 (48%), Gaps = 2/83 (2%)
Query: 159 QILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAAD 218
++L L HK + F PVD DYY +IK P DL T + ++ + Y+ F AD
Sbjct: 79 RVLRSLQAHKXAWPFLEPVDPNDAP--DYYGVIKEPXDLATXEERVQRRYYEKLTEFVAD 136
Query: 219 VRLTFNNAMTYNPKDHEVHIIAE 241
F+N YNP D + AE
Sbjct: 137 XTKIFDNCRYYNPSDSPFYQCAE 159
>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 = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 27/58 (46%), Positives = 36/58 (62%)
Query: 187 YYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYNPKDHEVHIIAEQFL 244
Y IIK+PMD GT+K K+ N Y S F AD +L +NAMTYN D + +A++ L
Sbjct: 46 YSMIIKHPMDFGTMKDKIVANEYKSVTEFKADFKLMCDNAMTYNRPDTVYYKLAKKIL 103
>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 = 52.8 bits (125), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 34/103 (33%), Positives = 52/103 (50%), Gaps = 3/103 (2%)
Query: 170 GYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTY 229
Y F++PV+ + DYY II PMDL T++ + K LY S F + L N+ TY
Sbjct: 65 TYPFHTPVN--AKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATY 122
Query: 230 NPKDHEVHIIAEQFLARFEELFRPINEKLMQ-EDVQERVLDDE 271
N H + I++ L +E + +KL + E +LDD+
Sbjct: 123 NGPKHSLTQISQSMLDLCDEKLKEKEDKLARLEKAINPLLDDD 165
Score = 49.3 bits (116), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 40/75 (53%)
Query: 186 DYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYNPKDHEVHIIAEQFLA 245
DYY +I NPMDL T++ +SK+ Y S SF DV L N++ YN + + A++ +
Sbjct: 202 DYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVN 261
Query: 246 RFEELFRPINEKLMQ 260
+ +E L Q
Sbjct: 262 VCYQTLTEYDEHLTQ 276
>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 = 52.4 bits (124), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 31/106 (29%), Positives = 51/106 (48%), Gaps = 6/106 (5%)
Query: 148 QDNGKLMKNCGQILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKN 207
+D +L IL ++ H+ + F PV YY++I+ PMDL T+ +L
Sbjct: 11 RDPDQLYSTLKSILQQVKSHQSAWPFMEPVKRTEAP--GYYEVIRFPMDLKTMSERLKNR 68
Query: 208 LYDSPASFAADVRLTFNNAMTYNPKDHEVH----IIAEQFLARFEE 249
Y S F AD++ F N YNP + E + I+ + F ++ +E
Sbjct: 69 YYVSKKLFMADLQRVFTNCKEYNPPESEYYKCANILEKFFFSKIKE 114
>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 = 52.0 bits (123), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 31/106 (29%), Positives = 51/106 (48%), Gaps = 6/106 (5%)
Query: 148 QDNGKLMKNCGQILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKN 207
+D +L IL ++ H+ + F PV YY++I+ PMDL T+ +L
Sbjct: 9 RDPDQLYSTLKSILQQVKSHQSAWPFMEPVKRTEAP--GYYEVIRFPMDLKTMSERLKNR 66
Query: 208 LYDSPASFAADVRLTFNNAMTYNPKDHEVH----IIAEQFLARFEE 249
Y S F AD++ F N YNP + E + I+ + F ++ +E
Sbjct: 67 YYVSKKLFMADLQRVFTNCKEYNPPESEYYKCANILEKFFFSKIKE 112
>pdb|1EQF|A Chain A, Crystal Structure Of The Double Bromodomain Module From
Human Tafii250
Length = 280
Score = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 34/103 (33%), Positives = 52/103 (50%), Gaps = 3/103 (2%)
Query: 170 GYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTY 229
Y F++PV+ + DYY II PMDL T++ + K LY S F + L N+ TY
Sbjct: 44 TYPFHTPVN--AKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATY 101
Query: 230 NPKDHEVHIIAEQFLARFEELFRPINEKLMQ-EDVQERVLDDE 271
N H + I++ L +E + +KL + E +LDD+
Sbjct: 102 NGPKHSLTQISQSMLDLCDEKLKEKEDKLARLEKAINPLLDDD 144
Score = 48.9 bits (115), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 40/75 (53%)
Query: 186 DYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYNPKDHEVHIIAEQFLA 245
DYY +I NPMDL T++ +SK+ Y S SF DV L N++ YN + + A++ +
Sbjct: 181 DYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVN 240
Query: 246 RFEELFRPINEKLMQ 260
+ +E L Q
Sbjct: 241 VCYQTLTEYDEHLTQ 255
>pdb|3UV5|A Chain A, Crystal Structure Of The Tandem Bromodomains Of Human
Transcription Initiation Factor Tfiid Subunit 1 (Taf1)
Length = 265
Score = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 34/103 (33%), Positives = 52/103 (50%), Gaps = 3/103 (2%)
Query: 170 GYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTY 229
Y F++PV+ + DYY II PMDL T++ + K LY S F + L N+ TY
Sbjct: 32 TYPFHTPVN--AKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATY 89
Query: 230 NPKDHEVHIIAEQFLARFEELFRPINEKLMQ-EDVQERVLDDE 271
N H + I++ L +E + +KL + E +LDD+
Sbjct: 90 NGPKHSLTQISQSMLDLCDEKLKEKEDKLARLEKAINPLLDDD 132
Score = 48.9 bits (115), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 40/75 (53%)
Query: 186 DYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYNPKDHEVHIIAEQFLA 245
DYY +I NPMDL T++ +SK+ Y S SF DV L N++ YN + + A++ +
Sbjct: 169 DYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVN 228
Query: 246 RFEELFRPINEKLMQ 260
+ +E L Q
Sbjct: 229 VCYQTLTEYDEHLTQ 243
>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 = 51.2 bits (121), Expect = 2e-06, Method: Composition-based stats.
Identities = 37/113 (32%), Positives = 54/113 (47%), Gaps = 18/113 (15%)
Query: 160 ILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADV 219
+ +L K IF+ PVD+ ++ DY ++IK PMDL TV +K+ K+ Y + F D+
Sbjct: 20 VTKRLATDKRFNIFSKPVDIEEVS--DYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDI 77
Query: 220 RLTFNNAMTYNP----------------KDHEVHIIAEQFLARFEELFRPINE 256
L +NA+ YNP KD IIA + F +L I E
Sbjct: 78 DLICSNALEYNPDKDPGDKIIRHRACTLKDTAHAIIAAELDPEFNKLCEEIKE 130
>pdb|2DKW|A Chain A, Solution Structure Of The Bromodomain Of Human Protein
Kiaa1240
Length = 131
Score = 48.5 bits (114), Expect = 1e-05, Method: Composition-based stats.
Identities = 36/113 (31%), Positives = 50/113 (44%), Gaps = 23/113 (20%)
Query: 160 ILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADV 219
+ +L K IF+ PV DY ++IK PMDL TV +K+ K+ Y + F D+
Sbjct: 20 VTKRLATDKRFNIFSKPVS-------DYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDI 72
Query: 220 RLTFNNAMTYNP----------------KDHEVHIIAEQFLARFEELFRPINE 256
L +NA+ YNP KD IIA + F +L I E
Sbjct: 73 DLICSNALEYNPDKDPGDKIIRHRACTLKDTAHAIIAAELDPEFNKLCEEIKE 125
>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 = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 40/75 (53%)
Query: 186 DYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYNPKDHEVHIIAEQFLA 245
DYY +I NPMDL T++ +SK+ Y S SF DV L N++ YN + + A++ +
Sbjct: 62 DYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVN 121
Query: 246 RFEELFRPINEKLMQ 260
+ +E L Q
Sbjct: 122 VCYQTLTEYDEHLTQ 136
>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 = 45.8 bits (107), Expect = 6e-05, Method: Composition-based stats.
Identities = 26/90 (28%), Positives = 42/90 (46%), Gaps = 2/90 (2%)
Query: 146 NQQDNGKLMKNCGQILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLS 205
+ +D +L +L ++ H + F PV DYY++I+ P+DL T+ +L
Sbjct: 1 SMEDPDQLYTTLKNLLAQIKSHPSAWPFMEPVK--KSEAPDYYEVIRFPIDLKTMTERLR 58
Query: 206 KNLYDSPASFAADVRLTFNNAMTYNPKDHE 235
Y + F AD++ N YNP D E
Sbjct: 59 SRYYVTRKLFVADLQRVIANCREYNPPDSE 88
>pdb|3HMH|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Tbp-Associated Factor Rna Polymerase 1-Like (Taf1l)
Length = 155
Score = 45.4 bits (106), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 40/75 (53%)
Query: 186 DYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYNPKDHEVHIIAEQFLA 245
DYY +I NP+DL T++ +SK+ Y S SF DV L N++ YN + + A++ +
Sbjct: 59 DYYKMIVNPVDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVN 118
Query: 246 RFEELFRPINEKLMQ 260
+ +E L Q
Sbjct: 119 ICYQTITEYDEHLTQ 133
>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 = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 40/77 (51%), Gaps = 2/77 (2%)
Query: 159 QILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAAD 218
++L + HK + F PVD +YY IIK PMD+ +++ KL+ LY + F D
Sbjct: 23 KVLDVVKAHKDSWPFLEPVDESYAP--NYYQIIKAPMDISSMEKKLNGGLYCTKEEFVND 80
Query: 219 VRLTFNNAMTYNPKDHE 235
++ F N YN + E
Sbjct: 81 MKTMFRNCRKYNGESSE 97
>pdb|3DAI|A Chain A, Crystal Structure Of The Bromodomain Of The Human Atad2
Length = 130
Score = 44.7 bits (104), Expect = 1e-04, Method: Composition-based stats.
Identities = 32/101 (31%), Positives = 46/101 (45%), Gaps = 18/101 (17%)
Query: 172 IFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYNP 231
+F PVD + DY +IK PMDL +V SK+ + Y + + D+ L +NA+ YNP
Sbjct: 30 VFTKPVD--PDEVPDYVTVIKQPMDLSSVISKIDLHKYLTVKDYLRDIDLICSNALEYNP 87
Query: 232 ----------------KDHEVHIIAEQFLARFEELFRPINE 256
+D II E+ FE+L I E
Sbjct: 88 DRDPGDRLIRHRACALRDTAYAIIKEELDEDFEQLCEEIQE 128
>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 = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 36/74 (48%), Gaps = 2/74 (2%)
Query: 160 ILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADV 219
+L +L IF PV + + DY D IK+PMD T++ +L Y + F D
Sbjct: 21 VLDQLQDKDPARIFAQPVSLKEVP--DYLDHIKHPMDFATMRKRLEAQGYKNLHEFEEDF 78
Query: 220 RLTFNNAMTYNPKD 233
L +N M YN +D
Sbjct: 79 DLIIDNCMKYNARD 92
>pdb|1F68|A Chain A, Nmr Solution Structure Of The Bromodomain From Human Gcn5
Length = 103
Score = 44.3 bits (103), Expect = 2e-04, Method: Composition-based stats.
Identities = 25/84 (29%), Positives = 39/84 (46%), Gaps = 2/84 (2%)
Query: 152 KLMKNCGQILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDS 211
+L +L ++ H + F PV DYY++I+ P+DL T+ +L Y +
Sbjct: 3 QLYTTLKNLLAQIKSHPSAWPFMEPVK--KSEAPDYYEVIRFPIDLKTMTERLRSRYYVT 60
Query: 212 PASFAADVRLTFNNAMTYNPKDHE 235
F AD++ N YNP D E
Sbjct: 61 RKLFVADLQRVIANCREYNPPDSE 84
>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 = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/47 (44%), Positives = 26/47 (55%)
Query: 184 LHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYN 230
L DYY IK PMD+ ++S + N Y S D + FNNA TYN
Sbjct: 51 LPDYYLTIKKPMDMEKIRSHMMANKYQDIDSMVEDFVMMFNNACTYN 97
>pdb|2YQD|A Chain A, Solution Structure Of The Fifth Bromodomain From Mouse
Polybromo-1
Length = 120
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/47 (44%), Positives = 26/47 (55%)
Query: 184 LHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYN 230
L DYY IK PMD+ ++S + N Y S D + FNNA TYN
Sbjct: 51 LPDYYLTIKKPMDMEKIRSHMMANKYQDIDSMVEDFVMMFNNACTYN 97
>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 = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 26/45 (57%)
Query: 186 DYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYN 230
DYY IIK P+DL T+ ++ Y S + A D+ L NA TYN
Sbjct: 46 DYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKTYN 90
>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 = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 26/45 (57%)
Query: 186 DYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYN 230
DYY IIK P+DL T+ ++ Y S + A D+ L NA TYN
Sbjct: 47 DYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKTYN 91
>pdb|3HMF|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 116
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 26/45 (57%)
Query: 186 DYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYN 230
DYY IIK P+DL T+ ++ Y S + A D+ L NA TYN
Sbjct: 44 DYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKTYN 88
>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 = 42.4 bits (98), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 27/75 (36%), Positives = 37/75 (49%), Gaps = 2/75 (2%)
Query: 159 QILTKLMKHKLGYIFNSPVDVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAAD 218
+ L +L + G IF+ PV + + DY D IK PMD T+K L Y + F D
Sbjct: 14 KTLEQLQEKDTGNIFSEPVPLS--EVPDYLDHIKKPMDFFTMKQNLEAYRYLNFDDFEED 71
Query: 219 VRLTFNNAMTYNPKD 233
L +N + YN KD
Sbjct: 72 FNLIVSNCLKYNAKD 86
>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 = 8e-04, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 27/48 (56%)
Query: 186 DYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYNPKD 233
DYY+++ P+DL ++ KL YD AD +L FNNA +Y D
Sbjct: 43 DYYEVVSQPIDLMKIQQKLKMEEYDDVNLLTADFQLLFNNAKSYYKPD 90
>pdb|2I7K|A Chain A, Solution Structure Of The Bromodomain Of Human Brd7
Protein
Length = 117
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 38/79 (48%), Gaps = 4/79 (5%)
Query: 153 LMKNCGQILTKLMKHKLGYIFNSPV-DVVGMALHDYYDIIKNPMDLGTVKSKLSKNLYDS 211
L + Q++ +L + F+ PV D + Y IIK+PMD T+K K+ N Y S
Sbjct: 9 LQEALNQLMRQLQRKDPSAFFSFPVTDFIAPG---YSMIIKHPMDFSTMKEKIKNNDYQS 65
Query: 212 PASFAADVRLTFNNAMTYN 230
+ +L NAM YN
Sbjct: 66 IEELKDNFKLMCTNAMIYN 84
>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 = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 42/82 (51%), Gaps = 4/82 (4%)
Query: 184 LHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYNPKDHEVHIIAEQF 243
L +YY++I+ P+D +K ++ + Y S DV L NA T+N E +I E
Sbjct: 48 LPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFN---LEGSLIYEDS 104
Query: 244 LARFEELFRPINEKLMQEDVQE 265
+ + +F + +K+ +ED E
Sbjct: 105 IV-LQSVFTSVRQKIEKEDDSE 125
>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 = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 41/79 (51%), Gaps = 4/79 (5%)
Query: 184 LHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYNPKDHEVHIIAEQF 243
L +YY++I+ P+D +K ++ + Y S DV L NA T+N E +I E
Sbjct: 49 LPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFN---LEGSLIYEDS 105
Query: 244 LARFEELFRPINEKLMQED 262
+ + +F + +K+ +ED
Sbjct: 106 IV-LQSVFTSVRQKIEKED 123
>pdb|2H60|A Chain A, Solution Structure Of Human Brg1 Bromodomain
Length = 128
Score = 38.9 bits (89), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 41/79 (51%), Gaps = 4/79 (5%)
Query: 184 LHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYNPKDHEVHIIAEQF 243
L +YY++I+ P+D +K ++ + Y S DV L NA T+N E +I E
Sbjct: 44 LPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFN---LEGSLIYEDS 100
Query: 244 LARFEELFRPINEKLMQED 262
+ + +F + +K+ +ED
Sbjct: 101 IV-LQSVFTSVRQKIEKED 118
>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 = 38.9 bits (89), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 27/52 (51%)
Query: 186 DYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYNPKDHEVH 237
DYY II PMDL ++ + + Y D++L F NA YN + +V+
Sbjct: 63 DYYKIILEPMDLKIIEHNIRNDKYAGEEGMIEDMKLMFRNARHYNEEGSQVY 114
>pdb|2JNS|A Chain A, Solution Structure Of The Bromodomain-Containing Protein 4
Et Domain
Length = 90
Score = 38.5 bits (88), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 35/64 (54%), Gaps = 1/64 (1%)
Query: 356 MSMEEKHKLGIGLQSLPQEKMEQVIHILKKRNGNLRQXX-XXXXXXXXXXXTETLWELDR 414
MS EEK +L + + LP EK+ +V+HI++ R +L+ TL EL+R
Sbjct: 18 MSYEEKRQLSLDINKLPGEKLGRVVHIIQSREPSLKNSNPDEIEIDFETLKPSTLRELER 77
Query: 415 FVTN 418
+VT+
Sbjct: 78 YVTS 81
>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 = 38.5 bits (88), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 31/54 (57%)
Query: 184 LHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYNPKDHEVH 237
L +YY++I+ P+D +K ++ + Y S DV L +NA T+N + +++
Sbjct: 49 LPEYYELIRKPVDFKKIKERIRNHKYRSLGDLEKDVMLLCHNAQTFNLEGSQIY 102
>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 = 37.0 bits (84), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 24/45 (53%)
Query: 186 DYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYN 230
DYY IK P+ L +++KL Y++ D+ L F NA YN
Sbjct: 55 DYYQQIKMPISLQQIRTKLKNQEYETLDHLECDLNLMFENAKRYN 99
>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 = 36.2 bits (82), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 24/47 (51%)
Query: 184 LHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYN 230
L +YY+I+ +PM L VK L Y F D+ L F NA +N
Sbjct: 243 LPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIFN 289
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 187 YYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYNPKD 233
YY I+ PM + +KS+ D P++F DV L N YN D
Sbjct: 113 YYYKIQQPMSINEIKSR-DYEYEDGPSNFLLDVELLTKNCQAYNEYD 158
>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 = 36.2 bits (82), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 24/47 (51%)
Query: 184 LHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYN 230
L +YY+I+ +PM L VK L Y F D+ L F NA +N
Sbjct: 228 LPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIFN 274
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 187 YYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYNPKD 233
YY I+ PM + +KS+ D P++F DV L N YN D
Sbjct: 98 YYYKIQQPMSINEIKSR-DYEYEDGPSNFLLDVELLTKNCQAYNEYD 143
>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 = 35.8 bits (81), Expect = 0.060, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 26/44 (59%)
Query: 186 DYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTY 229
DYY+ I +P+DL T++ ++ Y + +F AD+ F NA Y
Sbjct: 47 DYYEKISDPLDLITIEKQILTGYYKTVEAFDADMLKVFRNAEKY 90
>pdb|2R0S|A Chain A, Crystal Structure Of The Rsc4 Tandem Bromodomain
Length = 285
Score = 32.7 bits (73), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 22/47 (46%)
Query: 184 LHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYN 230
L +YY+I+ +P L VK L Y F D L F NA +N
Sbjct: 187 LPEYYEIVHSPXALSIVKQNLEIGQYSKIYDFIIDXLLVFQNAHIFN 233
>pdb|2R0Y|A Chain A, Structure Of The Rsc4 Tandem Bromodomain In Complex With
An Acetylated H3 Peptide
Length = 311
Score = 32.3 bits (72), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 22/47 (46%)
Query: 184 LHDYYDIIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYN 230
L +YY+I+ +P L VK L Y F D L F NA +N
Sbjct: 193 LPEYYEIVHSPXALSIVKQNLEIGQYSKIYDFIIDXLLVFQNAHIFN 239
>pdb|2ZKR|GG Chain g, Structure Of A Mammalian Ribosomal 60s Subunit Within An
80s Complex Obtained By Docking Homology Models Of The
Rna And Proteins Into An 8.7 A Cryo-Em Map
Length = 317
Score = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 35/72 (48%), Gaps = 4/72 (5%)
Query: 190 IIKNPMDLGTVKSKLSKNLYDSPASFAADVRLTFNNAMTYNPKDHEVHIIAEQFL-ARFE 248
+IK +G ++ L L SP SF ++ F+N YNP EV I E+ L +RF
Sbjct: 160 LIKTGDKVGASEATLLNMLNISPFSFGLVIQQVFDNGSIYNP---EVLDITEETLHSRFL 216
Query: 249 ELFRPINEKLMQ 260
E R + +Q
Sbjct: 217 EGVRNVASVCLQ 228
>pdb|4II2|C Chain C, Crystal Structure Of Ubiquitin Activating Enzyme 1 (uba1)
In Complex With The Ub E2 Ubc4, Ubiquitin, And Atp/mg
Length = 163
Score = 30.4 bits (67), Expect = 2.4, Method: Composition-based stats.
Identities = 25/74 (33%), Positives = 30/74 (40%), Gaps = 6/74 (8%)
Query: 28 KAPNPNPKKRNFHPEINNGCQI------DDVSPAVTQSAASDDASSINRRPNNDHLLVGN 81
K P N R +HP IN+ I D SPA+T S SS+ PN D LV
Sbjct: 63 KPPKVNFTTRIYHPNINSNGSICLDILRDQWSPALTISKVLLSISSLLTDPNPDDPLVPE 122
Query: 82 YVSFNVASYSKKEL 95
S+ EL
Sbjct: 123 IAHVYKTDRSRYEL 136
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
0.314 0.131 0.374
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,816,210
Number of Sequences: 62578
Number of extensions: 474557
Number of successful extensions: 983
Number of sequences better than 100.0: 83
Number of HSP's better than 100.0 without gapping: 77
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 890
Number of HSP's gapped (non-prelim): 90
length of query: 535
length of database: 14,973,337
effective HSP length: 103
effective length of query: 432
effective length of database: 8,527,803
effective search space: 3684010896
effective search space used: 3684010896
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 54 (25.4 bits)