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= 016116
(395 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 95.1 bits (235), Expect = 6e-20, Method: Composition-based stats.
Identities = 49/114 (42%), Positives = 71/114 (62%), Gaps = 7/114 (6%)
Query: 98 GRRMQELKRQFAAIFRQITQHK---WAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNK 154
G M++LK I +++ K +AWPF PVD LGLHDY+++I+ PMD ST+K K
Sbjct: 1 GSHMEQLK-HCNGILKELLSKKHAAYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRK 59
Query: 155 MDGKDGTGYRNVREIYADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEEKWLQL 208
M+ +D YR+ +E ADVRL+F N KYN DV MA+ L + FE ++ ++
Sbjct: 60 MENRD---YRDAQEFAADVRLMFSNCYKYNPPDHDVVAMARKLQDVFEFRYAKM 110
>pdb|3ONI|A Chain A, Crystal Structure Of The Second Bromodomain Of Human Brd2
In Complex With The Inhibitor Jq1
Length = 114
Score = 95.1 bits (235), Expect = 6e-20, Method: Compositional matrix adjust.
Identities = 43/89 (48%), Positives = 60/89 (67%), Gaps = 3/89 (3%)
Query: 120 WAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIYADVRLVFKN 179
+AWPF PVD LGLHDY+++I+ PMD ST+K KM+ +D YR+ +E ADVRL+F N
Sbjct: 27 YAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRD---YRDAQEFAADVRLMFSN 83
Query: 180 AMKYNDERDDVHVMAKSLLEKFEEKWLQL 208
KYN DV MA+ L + FE ++ ++
Sbjct: 84 CYKYNPPDHDVVAMARKLQDVFEFRYAKM 112
>pdb|2I8N|A Chain A, Solution Structure Of The Second Bromodomain Of Brd4
Length = 114
Score = 94.7 bits (234), Expect = 7e-20, Method: Compositional matrix adjust.
Identities = 44/90 (48%), Positives = 63/90 (70%), Gaps = 3/90 (3%)
Query: 120 WAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIYADVRLVFKN 179
+AWPF PVDVE LGLHDY ++I+ PMD STIK+K++ ++ YR+ +E ADVRL+F N
Sbjct: 21 YAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEARE---YRDAQEFGADVRLMFSN 77
Query: 180 AMKYNDERDDVHVMAKSLLEKFEEKWLQLL 209
KYN +V MA+ L + FE ++ ++L
Sbjct: 78 CYKYNPPDHEVVAMARKLQDVFEMRFAKML 107
>pdb|2G4A|A Chain A, Solution Structure Of A Bromodomain From Ring3 Protein
Length = 116
Score = 94.4 bits (233), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 43/89 (48%), Positives = 60/89 (67%), Gaps = 3/89 (3%)
Query: 120 WAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIYADVRLVFKN 179
+AWPF PVD LGLHDY+++I+ PMD ST+K KM+ +D YR+ +E ADVRL+F N
Sbjct: 21 YAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRD---YRDAQEFAADVRLMFSN 77
Query: 180 AMKYNDERDDVHVMAKSLLEKFEEKWLQL 208
KYN DV MA+ L + FE ++ ++
Sbjct: 78 CYKYNPPDHDVVAMARKLQDVFEFRYAKM 106
>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 = 94.4 bits (233), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 43/89 (48%), Positives = 62/89 (69%), Gaps = 3/89 (3%)
Query: 120 WAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIYADVRLVFKN 179
+AWPF PVDVE LGLHDY ++I+ PMD STIK+K++ ++ YR+ +E ADVRL+F N
Sbjct: 42 YAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEARE---YRDAQEFGADVRLMFSN 98
Query: 180 AMKYNDERDDVHVMAKSLLEKFEEKWLQL 208
KYN +V MA+ L + FE ++ ++
Sbjct: 99 CYKYNPPDHEVVAMARKLQDVFEMRFAKM 127
>pdb|2LSP|B Chain B, Solution Structures Of Brd4 Second Bromodomain With
Nf-Kb-K310ac Peptide
Length = 128
Score = 94.0 bits (232), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 43/89 (48%), Positives = 62/89 (69%), Gaps = 3/89 (3%)
Query: 120 WAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIYADVRLVFKN 179
+AWPF PVDVE LGLHDY ++I+ PMD STIK+K++ ++ YR+ +E ADVRL+F N
Sbjct: 40 YAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEARE---YRDAQEFGADVRLMFSN 96
Query: 180 AMKYNDERDDVHVMAKSLLEKFEEKWLQL 208
KYN +V MA+ L + FE ++ ++
Sbjct: 97 CYKYNPPDHEVVAMARKLQDVFEMRFAKM 125
>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 = 92.4 bits (228), Expect = 3e-19, Method: Composition-based stats.
Identities = 48/116 (41%), Positives = 74/116 (63%), Gaps = 6/116 (5%)
Query: 96 AAGRRMQELKRQFAAIFRQITQHK---WAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIK 152
A G ++ E + + I +++ K +AWPF PVDVE LGLHDY ++I+ PMD STIK
Sbjct: 2 AMGSKISEQLKCCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIK 61
Query: 153 NKMDGKDGTGYRNVREIYADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEEKWLQL 208
+K++ ++ YR+ +E ADVRL+F N KYN +V MA+ L + FE ++ ++
Sbjct: 62 SKLESRE---YRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKM 114
>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 = 90.1 bits (222), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 41/83 (49%), Positives = 57/83 (68%), Gaps = 3/83 (3%)
Query: 120 WAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIYADVRLVFKN 179
+AWPF +PVD + LGLH+YY+V++ PMD TIK KMD ++ Y++ E ADVRL+F N
Sbjct: 34 YAWPFYNPVDADALGLHNYYDVVKNPMDLGTIKGKMDNQE---YKDAYEFAADVRLMFMN 90
Query: 180 AMKYNDERDDVHVMAKSLLEKFE 202
KYN +V MA++L + FE
Sbjct: 91 CYKYNPPDHEVVAMARTLQDVFE 113
>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 = 89.7 bits (221), Expect = 3e-18, Method: Composition-based stats.
Identities = 46/112 (41%), Positives = 69/112 (61%), Gaps = 6/112 (5%)
Query: 100 RMQELKRQFAAIFRQITQHK---WAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMD 156
++ E R +I R++ K +AWPF PVD E L LHDY+++I+ PMD ST+K KMD
Sbjct: 4 KLSEHLRYCDSILREMLSKKHAAYAWPFYKPVDAEALELHDYHDIIKHPMDLSTVKRKMD 63
Query: 157 GKDGTGYRNVREIYADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEEKWLQL 208
G++ Y + + ADVRL+F N KYN +V MA+ L + FE ++ ++
Sbjct: 64 GRE---YPDAQGFAADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKM 112
>pdb|2E7N|A Chain A, Solution Structure Of The Second Bromodomain From Human
Bromodomain-Containing Protein 3
Length = 117
Score = 89.0 bits (219), Expect = 4e-18, Method: Composition-based stats.
Identities = 46/112 (41%), Positives = 69/112 (61%), Gaps = 6/112 (5%)
Query: 100 RMQELKRQFAAIFRQITQHK---WAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMD 156
++ E R +I R++ K +AWPF PVD E L LHDY+++I+ PMD ST+K KMD
Sbjct: 9 KLSEHLRYCDSILREMLSKKHAAYAWPFYKPVDAEALELHDYHDIIKHPMDLSTVKRKMD 68
Query: 157 GKDGTGYRNVREIYADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEEKWLQL 208
G++ Y + + ADVRL+F N KYN +V MA+ L + FE ++ ++
Sbjct: 69 GRE---YPDAQGFAADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKM 117
>pdb|2DWW|A Chain A, Crystal Structure Of Bromodomain-Containing Protein 4
Length = 114
Score = 84.3 bits (207), Expect = 1e-16, Method: Composition-based stats.
Identities = 41/86 (47%), Positives = 57/86 (66%), Gaps = 3/86 (3%)
Query: 120 WAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIYADVRLVFKN 179
+AWPF PVDVE LGLHDY ++I+ P D STIK+K++ ++ YR+ +E ADVRL F N
Sbjct: 27 YAWPFYKPVDVEALGLHDYCDIIKHPXDXSTIKSKLESRE---YRDAQEFGADVRLXFSN 83
Query: 180 AMKYNDERDDVHVMAKSLLEKFEEKW 205
KYN +V A+ L + FE ++
Sbjct: 84 CYKYNPPDHEVVAXARKLQDVFEXRF 109
>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 = 78.2 bits (191), Expect = 8e-15, Method: Compositional matrix adjust.
Identities = 37/106 (34%), Positives = 60/106 (56%), Gaps = 3/106 (2%)
Query: 99 RRMQELKRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGK 158
R+ +L+ + + + +H++AWPF PVD L L DYY++I+ PMD TIK ++
Sbjct: 21 RQTNQLQYLLRVVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRL--- 77
Query: 159 DGTGYRNVREIYADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEEK 204
+ Y N +E D +F N YN DD+ +MA++L + F +K
Sbjct: 78 ENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEALEKLFLQK 123
>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 = 77.8 bits (190), Expect = 9e-15, Method: Compositional matrix adjust.
Identities = 37/106 (34%), Positives = 60/106 (56%), Gaps = 3/106 (2%)
Query: 99 RRMQELKRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGK 158
R+ +L+ + + + +H++AWPF PVD L L DYY++I+ PMD TIK ++
Sbjct: 17 RQTNQLQYLLRVVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRL--- 73
Query: 159 DGTGYRNVREIYADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEEK 204
+ Y N +E D +F N YN DD+ +MA++L + F +K
Sbjct: 74 ENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEALEKLFLQK 119
>pdb|4DON|A Chain A, Brd4 Bromodomain 1 Complex With A Fragment
3,4-dihydro-3-methyl-2(1h)- Quinazolinon
Length = 145
Score = 77.8 bits (190), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 37/106 (34%), Positives = 60/106 (56%), Gaps = 3/106 (2%)
Query: 99 RRMQELKRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGK 158
R+ +L+ + + + +H++AWPF PVD L L DYY++I+ PMD TIK ++
Sbjct: 37 RQTNQLQYLLRVVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRL--- 93
Query: 159 DGTGYRNVREIYADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEEK 204
+ Y N +E D +F N YN DD+ +MA++L + F +K
Sbjct: 94 ENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEALEKLFLQK 139
>pdb|4HBW|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Quinazoline Ligand
Length = 127
Score = 77.4 bits (189), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 37/106 (34%), Positives = 59/106 (55%), Gaps = 3/106 (2%)
Query: 99 RRMQELKRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGK 158
R +L+ + + + +H++AWPF PVD L L DYY++I+ PMD TIK ++
Sbjct: 17 RETNQLQYLLRVVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRL--- 73
Query: 159 DGTGYRNVREIYADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEEK 204
+ Y N +E D +F N YN DD+ +MA++L + F +K
Sbjct: 74 ENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEALEKLFLQK 119
>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 = 76.3 bits (186), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 39/112 (34%), Positives = 61/112 (54%), Gaps = 3/112 (2%)
Query: 97 AGRRMQELKRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMD 156
+GR +L+ + + + +H ++WPF PVD L L DYY +I+ PMD +TIK +++
Sbjct: 8 SGRLTNQLQFLQRVVLKALWKHGFSWPFQQPVDAVKLKLPDYYTIIKTPMDLNTIKKRLE 67
Query: 157 GKDGTGYRNVREIYADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEEKWLQL 208
K Y E D +F N YN DD+ VMA++L + F +K Q+
Sbjct: 68 NK---YYEKASECIEDFNTMFSNCYLYNKTGDDIVVMAQALEKLFMQKLSQM 116
>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 = 75.5 bits (184), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 37/107 (34%), Positives = 60/107 (56%), Gaps = 3/107 (2%)
Query: 98 GRRMQELKRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDG 157
GR +L+ + + + +H++AWPF PVD LGL DY+++I++PMD TIK ++
Sbjct: 27 GRVTNQLQYLHKVVMKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRL-- 84
Query: 158 KDGTGYRNVREIYADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEEK 204
+ Y E D +F N YN DD+ +MA++L + F +K
Sbjct: 85 -ENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLEKIFLQK 130
>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 = 75.5 bits (184), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 37/107 (34%), Positives = 60/107 (56%), Gaps = 3/107 (2%)
Query: 98 GRRMQELKRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDG 157
GR +L+ + + + +H++AWPF PVD LGL DY+++I++PMD TIK ++
Sbjct: 27 GRVTNQLQYLHKVVMKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRL-- 84
Query: 158 KDGTGYRNVREIYADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEEK 204
+ Y E D +F N YN DD+ +MA++L + F +K
Sbjct: 85 -ENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLEKIFLQK 130
>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 = 75.5 bits (184), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 38/111 (34%), Positives = 60/111 (54%), Gaps = 3/111 (2%)
Query: 98 GRRMQELKRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDG 157
GR +L+ + + + +H ++WPF PVD L L DYY +I+ PMD +TIK +++
Sbjct: 8 GRLTNQLQYLQKVVLKDLWKHSFSWPFQRPVDAVKLQLPDYYTIIKNPMDLNTIKKRLEN 67
Query: 158 KDGTGYRNVREIYADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEEKWLQL 208
K Y E D +F N YN DD+ +MA++L + F +K Q+
Sbjct: 68 K---YYAKASECIEDFNTMFSNCYLYNKPGDDIVLMAQALEKLFMQKLSQM 115
>pdb|2YW5|A Chain A, Solution Structure Of The Bromodomain From Human
Bromodomain Containing Protein 3
Length = 138
Score = 75.1 bits (183), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 37/112 (33%), Positives = 62/112 (55%), Gaps = 3/112 (2%)
Query: 97 AGRRMQELKRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMD 156
GR+ +L+ + + + +H++AWPF PVD L L DY+++I+ PMD TIK ++
Sbjct: 15 PGRKTNQLQYMQNVVVKTLWKHQFAWPFYQPVDAIKLNLPDYHKIIKNPMDMGTIKKRL- 73
Query: 157 GKDGTGYRNVREIYADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEEKWLQL 208
+ Y + E D +F N YN DD+ +MA++L + F +K Q+
Sbjct: 74 --ENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQALEKIFLQKVAQM 123
>pdb|2L5E|A Chain A, Complex Between Bd1 Of Brd3 And Gata-1 C-Tail
Length = 128
Score = 75.1 bits (183), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 37/112 (33%), Positives = 62/112 (55%), Gaps = 3/112 (2%)
Query: 97 AGRRMQELKRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMD 156
GR+ +L+ + + + +H++AWPF PVD L L DY+++I+ PMD TIK ++
Sbjct: 13 PGRKTNQLQYMQNVVVKTLWKHQFAWPFYQPVDAIKLNLPDYHKIIKNPMDMGTIKKRL- 71
Query: 157 GKDGTGYRNVREIYADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEEKWLQL 208
+ Y + E D +F N YN DD+ +MA++L + F +K Q+
Sbjct: 72 --ENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQALEKIFLQKVAQM 121
>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 = 75.1 bits (183), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 37/112 (33%), Positives = 62/112 (55%), Gaps = 3/112 (2%)
Query: 97 AGRRMQELKRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMD 156
GR+ +L+ + + + +H++AWPF PVD L L DY+++I+ PMD TIK ++
Sbjct: 11 PGRKTNQLQYMQNVVVKTLWKHQFAWPFYQPVDAIKLNLPDYHKIIKNPMDMGTIKKRL- 69
Query: 157 GKDGTGYRNVREIYADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEEKWLQL 208
+ Y + E D +F N YN DD+ +MA++L + F +K Q+
Sbjct: 70 --ENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQALEKIFLQKVAQM 119
>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 = 67.4 bits (163), Expect = 1e-11, Method: Composition-based stats.
Identities = 35/109 (32%), Positives = 59/109 (54%), Gaps = 3/109 (2%)
Query: 96 AAGRRMQELKRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKM 155
++GR +L+ + + + +H++AWPF PVD LGL DY+++I++P D TIK ++
Sbjct: 5 SSGRVTNQLQYLHKVVXKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPXDXGTIKRRL 64
Query: 156 DGKDGTGYRNVREIYADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEEK 204
+ Y E D F N YN DD+ + A++L + F +K
Sbjct: 65 ---ENNYYWAASECXQDFNTXFTNCYIYNKPTDDIVLXAQTLEKIFLQK 110
>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 = 66.6 bits (161), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 35/97 (36%), Positives = 57/97 (58%), Gaps = 5/97 (5%)
Query: 109 AAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYRNVRE 168
+ I ++ H+ AWPF+ PV+++ + Y +VI+KPMDFSTI+ K+ Y N+
Sbjct: 19 SMILTEMETHEDAWPFLLPVNLKLVP--GYKKVIKKPMDFSTIREKLSSGQ---YPNLET 73
Query: 169 IYADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEEKW 205
DVRLVF N +N++ D+ ++ + FE+KW
Sbjct: 74 FALDVRLVFDNCETFNEDDSDIGRAGHNMRKYFEKKW 110
>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 = 66.2 bits (160), Expect = 3e-11, Method: Composition-based stats.
Identities = 35/107 (32%), Positives = 57/107 (53%), Gaps = 3/107 (2%)
Query: 98 GRRMQELKRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDG 157
GR +L+ + + + +H++AWPF PVD LGL DY+++I++P D TIK ++
Sbjct: 1 GRVTNQLQYLHKVVXKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPXDXGTIKRRL-- 58
Query: 158 KDGTGYRNVREIYADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEEK 204
+ Y E D F N YN DD+ + A++L + F +K
Sbjct: 59 -ENNYYWAASECXQDFNTXFTNCYIYNKPTDDIVLXAQTLEKIFLQK 104
>pdb|2E7O|A Chain A, Solution Structure Of The Bromodomain From Human
Bromodomain Adjacent To Zinc Finger Domain 2b
Length = 112
Score = 65.9 bits (159), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 35/97 (36%), Positives = 57/97 (58%), Gaps = 5/97 (5%)
Query: 109 AAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYRNVRE 168
+ I ++ H+ AWPF+ PV+++ + Y +VI+KPMDFSTI+ K+ Y N+
Sbjct: 16 SMILTEMETHEDAWPFLLPVNLKLVP--GYKKVIKKPMDFSTIREKLSSGQ---YPNLET 70
Query: 169 IYADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEEKW 205
DVRLVF N +N++ D+ ++ + FE+KW
Sbjct: 71 FALDVRLVFDNCETFNEDDSDIGRAGHNMRKYFEKKW 107
>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 = 65.1 bits (157), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 39/103 (37%), Positives = 57/103 (55%), Gaps = 8/103 (7%)
Query: 102 QELKRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGT 161
Q L A++RQ + + PF PVD + LG+ DY+++++ PMD STIK K+D T
Sbjct: 14 QALMPTLEALYRQDPE---SLPFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLD----T 66
Query: 162 G-YRNVREIYADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEE 203
G Y+ + DV L+F NA YN + V+ L E FE+
Sbjct: 67 GQYQEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLAEVFEQ 109
>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 = 65.1 bits (157), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 39/103 (37%), Positives = 57/103 (55%), Gaps = 8/103 (7%)
Query: 102 QELKRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGT 161
Q L A++RQ + + PF PVD + LG+ DY+++++ PMD STIK K+D T
Sbjct: 16 QALMPTLEALYRQDPE---SLPFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLD----T 68
Query: 162 G-YRNVREIYADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEE 203
G Y+ + DV L+F NA YN + V+ L E FE+
Sbjct: 69 GQYQEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLAEVFEQ 111
>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 = 64.7 bits (156), Expect = 9e-11, Method: Compositional matrix adjust.
Identities = 38/103 (36%), Positives = 57/103 (55%), Gaps = 8/103 (7%)
Query: 102 QELKRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGT 161
Q L A++RQ + + PF PVD + LG+ DY+++++ PMD STIK K+D T
Sbjct: 19 QALMPTLEALYRQDPE---SLPFRQPVDPQLLGIPDYFDIVKSPMDLSTIKRKLD----T 71
Query: 162 G-YRNVREIYADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEE 203
G Y+ + D+ L+F NA YN + V+ L E FE+
Sbjct: 72 GQYQEPWQYVDDIWLMFNNAWLYNRKTSRVYKYCSKLSEVFEQ 114
>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 = 60.8 bits (146), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 37/112 (33%), Positives = 61/112 (54%), Gaps = 8/112 (7%)
Query: 93 REEAAGRRMQELKRQFAAIFRQ---ITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFS 149
REE + + EL F A+++ + HK +WPF+ PVD E +YY++I+ PMD S
Sbjct: 3 REEKKTKDLFELDDDFTAMYKVLDVVKAHKDSWPFLEPVD-ESYA-PNYYQIIKAPMDIS 60
Query: 150 TIKNKMDGKDGTGYRNVREIYADVRLVFKNAMKYNDERDDVHVMAKSLLEKF 201
+++ K+ +G Y E D++ +F+N KYN E + M+ +L F
Sbjct: 61 SMEKKL---NGGLYCTKEEFVNDMKTMFRNCRKYNGESSEYTKMSDNLERCF 109
>pdb|1E6I|A Chain A, Bromodomain From Gcn5 Complexed With Acetylated H4 Peptide
Length = 121
Score = 60.1 bits (144), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 35/101 (34%), Positives = 55/101 (54%), Gaps = 6/101 (5%)
Query: 111 IFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIY 170
I ++ H AWPF+ PV+ E + DYY+ I++PMD ST++ K++ Y+ + +
Sbjct: 21 ILTELQNHAAAWPFLQPVNKEEVP--DYYDFIKEPMDLSTMEIKLES---NKYQKMEDFI 75
Query: 171 ADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEEKWLQLLPK 211
D RLVF N YN E + A LEKF ++ +P+
Sbjct: 76 YDARLVFNNCRMYNGENTSYYKYANR-LEKFFNNKVKEIPE 115
>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 = 57.8 bits (138), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 35/100 (35%), Positives = 53/100 (53%), Gaps = 8/100 (8%)
Query: 103 ELKRQFAAIFRQITQHKWAWPFMHPVD-VEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGT 161
+L +I +Q+ H+ AWPFM PV E G YYEVI PMD T+ ++ +
Sbjct: 15 QLYSTLKSILQQVKSHQSAWPFMEPVKRTEAPG---YYEVIRFPMDLKTMSERLKNR--- 68
Query: 162 GYRNVREIYADVRLVFKNAMKYNDERDDVHVMAKSLLEKF 201
Y + + AD++ VF N +YN + + A ++LEKF
Sbjct: 69 YYVSKKLFMADLQRVFTNCKEYNPPESEYYKCA-NILEKF 107
>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 = 57.4 bits (137), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 35/100 (35%), Positives = 53/100 (53%), Gaps = 8/100 (8%)
Query: 103 ELKRQFAAIFRQITQHKWAWPFMHPVD-VEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGT 161
+L +I +Q+ H+ AWPFM PV E G YYEVI PMD T+ ++ +
Sbjct: 13 QLYSTLKSILQQVKSHQSAWPFMEPVKRTEAPG---YYEVIRFPMDLKTMSERLKNR--- 66
Query: 162 GYRNVREIYADVRLVFKNAMKYNDERDDVHVMAKSLLEKF 201
Y + + AD++ VF N +YN + + A ++LEKF
Sbjct: 67 YYVSKKLFMADLQRVFTNCKEYNPPESEYYKCA-NILEKF 105
>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 = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 46/160 (28%), Positives = 74/160 (46%), Gaps = 13/160 (8%)
Query: 49 DVEQFYLTKDNNQP-NTSKSISI--AKEKLKDRHVASIEKQQQDAFHREEAAGRRMQE-L 104
D +FY+ D Q + + I ++ +L D +V + +DA + E L
Sbjct: 18 DESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQSTEDAMTVLTPLTEKDYEGL 77
Query: 105 KRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYR 164
KR + R + HK AWPF+ PVD DYY VI++PMD +T++ ++ + Y
Sbjct: 78 KR----VLRSLQAHKMAWPFLEPVDPNDAP--DYYGVIKEPMDLATMEERVQRR---YYE 128
Query: 165 NVREIYADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEEK 204
+ E AD+ +F N YN + A+ L F +K
Sbjct: 129 KLTEFVADMTKIFDNCRYYNPSDSPFYQCAEVLESFFVQK 168
>pdb|3QZV|A Chain A, Crystal Structure Of Bptf Phd-Linker-Bromo In Complex With
Histone H4k12ac Peptide
Length = 174
Score = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 46/160 (28%), Positives = 74/160 (46%), Gaps = 13/160 (8%)
Query: 49 DVEQFYLTKDNNQP-NTSKSISI--AKEKLKDRHVASIEKQQQDAFHREEAAGRRMQE-L 104
D +FY+ D Q + + I ++ +L D +V + +DA + E L
Sbjct: 18 DESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQSTEDAMTVLTPLTEKDYEGL 77
Query: 105 KRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYR 164
KR + R + HK AWPF+ PVD DYY VI++PMD +T++ ++ + Y
Sbjct: 78 KR----VLRSLQAHKMAWPFLEPVDPNDAP--DYYGVIKEPMDLATMEERVQRR---YYE 128
Query: 165 NVREIYADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEEK 204
+ E AD+ +F N YN + A+ L F +K
Sbjct: 129 KLTEFVADMTKIFDNCRYYNPSDSPFYQCAEVLESFFVQK 168
>pdb|3UV2|A Chain A, Crystal Structure Of The Bromodomain Of Human
Nucleosome-Remodeling Factor Subunit Bptf
Length = 126
Score = 56.6 bits (135), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 31/94 (32%), Positives = 48/94 (51%), Gaps = 5/94 (5%)
Query: 111 IFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIY 170
+ R + HK AWPF+ PVD DYY VI++PMD +T++ ++ + Y + E
Sbjct: 28 VLRSLQAHKMAWPFLEPVDPNDAP--DYYGVIKEPMDLATMEERVQRR---YYEKLTEFV 82
Query: 171 ADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEEK 204
AD+ +F N YN + A+ L F +K
Sbjct: 83 ADMTKIFDNCRYYNPSDSPFYQCAEVLESFFVQK 116
>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 = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 31/94 (32%), Positives = 48/94 (51%), Gaps = 5/94 (5%)
Query: 111 IFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIY 170
+ R + HK AWPF+ PVD DYY VI++PMD +T++ ++ + Y + E
Sbjct: 21 VLRSLQAHKMAWPFLEPVDPNDAP--DYYGVIKEPMDLATMEERVQRR---YYEKLTEFV 75
Query: 171 ADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEEK 204
AD+ +F N YN + A+ L F +K
Sbjct: 76 ADMTAIFDNCRYYNPSDSPFYQCAEVLESFFVQK 109
>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 = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 30/92 (32%), Positives = 50/92 (54%), Gaps = 3/92 (3%)
Query: 105 KRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYR 164
+R+ + + H+ + F PV + +YY++I+KPMD ST+K K+ K Y+
Sbjct: 83 QRKCERLLLYLYCHELSIEFQEPVPA---SIPNYYKIIKKPMDLSTVKKKLQKKHSQHYQ 139
Query: 165 NVREIYADVRLVFKNAMKYNDERDDVHVMAKS 196
+ ADVRL+FKN ++N+ V V A +
Sbjct: 140 IPDDFVADVRLIFKNCERFNEMMKVVQVYADT 171
>pdb|3MB3|A Chain A, Crystal Structure Of The Second Bromodomain Of Pleckstrin
Homology Domain Interacting Protein (Phip)
Length = 135
Score = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 36/112 (32%), Positives = 58/112 (51%), Gaps = 6/112 (5%)
Query: 93 REEAAGRRMQELKRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIK 152
R A +Q K+Q + I Q + + PF PVD+ L DY ++I+ PMDF+T++
Sbjct: 11 RNRAQSYDIQAWKKQCEELLNLIFQCEDSEPFRQPVDL--LEYPDYRDIIDTPMDFATVR 68
Query: 153 NKMDGKDGTGYRNVREIYADVRLVFKNAMKYN-DERDDVHVMAKSLLEKFEE 203
+ + Y + E+ DVRL+F N+ Y +R ++ M+ L FEE
Sbjct: 69 ETL---EAGNYESPMELCKDVRLIFSNSKAYTPSKRSRIYSMSLRLSAFFEE 117
>pdb|3QZT|A Chain A, Crystal Structure Of Bptf Bromo In Complex With Histone
H4k16ac - Form Ii
Length = 115
Score = 55.5 bits (132), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 31/94 (32%), Positives = 48/94 (51%), Gaps = 5/94 (5%)
Query: 111 IFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIY 170
+ R + HK AWPF+ PVD DYY VI++PMD +T++ ++ + Y + E
Sbjct: 21 VLRSLQAHKMAWPFLEPVDPNDAP--DYYGVIKEPMDLATMEERVQRR---YYEKLTEFV 75
Query: 171 ADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEEK 204
AD+ +F N YN + A+ L F +K
Sbjct: 76 ADMTKIFDNCRYYNPSDSPFYQCAEVLESFFVQK 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 = 55.5 bits (132), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 34/106 (32%), Positives = 54/106 (50%), Gaps = 4/106 (3%)
Query: 105 KRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYR 164
KR+ + + H+ + F PV L + DYY++I+ PMD STIK ++ +D + Y
Sbjct: 22 KRKCERLLLFLYCHEMSLAFQDPV---PLTVPDYYKIIKNPMDLSTIKKRLQ-EDYSMYS 77
Query: 165 NVREIYADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEEKWLQLLP 210
+ AD RL+F+N ++N+ +V L FEE L P
Sbjct: 78 KPEDFVADFRLIFQNCAEFNEPDSEVANAGIKLENYFEELLKNLYP 123
>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 = 55.5 bits (132), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 34/106 (32%), Positives = 54/106 (50%), Gaps = 4/106 (3%)
Query: 105 KRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYR 164
KR+ + + H+ + F PV L + DYY++I+ PMD STIK ++ +D + Y
Sbjct: 83 KRKCERLLLFLYCHEMSLAFQDPV---PLTVPDYYKIIKNPMDLSTIKKRLQ-EDYSMYS 138
Query: 165 NVREIYADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEEKWLQLLP 210
+ AD RL+F+N ++N+ +V L FEE L P
Sbjct: 139 KPEDFVADFRLIFQNCAEFNEPDSEVANAGIKLENYFEELLKNLYP 184
>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 = 55.5 bits (132), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 34/101 (33%), Positives = 54/101 (53%), Gaps = 6/101 (5%)
Query: 105 KRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYR 164
K+Q + I Q + + PF PVD+ + DY ++I+ PMDF T++ +D + Y
Sbjct: 12 KKQCKELVNLIFQCEDSEPFRQPVDL--VEYPDYRDIIDTPMDFGTVRETLDAGN---YD 66
Query: 165 NVREIYADVRLVFKNAMKYN-DERDDVHVMAKSLLEKFEEK 204
+ E D+RL+F NA Y ++R ++ M L FEEK
Sbjct: 67 SPLEFCKDIRLIFSNAKAYTPNKRSKIYSMTLRLSALFEEK 107
>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 = 52.8 bits (125), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 49/88 (55%), Gaps = 5/88 (5%)
Query: 101 MQELKRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDG 160
++EL+ + +++ K F PVD+E + DY EVI++PMD ST+ K+D
Sbjct: 10 LRELRLFLRDVTKRLATDKRFNIFSKPVDIEEVS--DYLEVIKEPMDLSTVITKIDKH-- 65
Query: 161 TGYRNVREIYADVRLVFKNAMKYNDERD 188
Y ++ D+ L+ NA++YN ++D
Sbjct: 66 -NYLTAKDFLKDIDLICSNALEYNPDKD 92
>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 = 52.0 bits (123), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 45/94 (47%), Gaps = 5/94 (5%)
Query: 111 IFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIY 170
+ R + HK AWPF+ PVD DYY VI++P D +T + ++ + Y + E
Sbjct: 80 VLRSLQAHKXAWPFLEPVDPNDAP--DYYGVIKEPXDLATXEERVQRR---YYEKLTEFV 134
Query: 171 ADVRLVFKNAMKYNDERDDVHVMAKSLLEKFEEK 204
AD +F N YN + A+ L F +K
Sbjct: 135 ADXTKIFDNCRYYNPSDSPFYQCAEVLESFFVQK 168
>pdb|1F68|A Chain A, Nmr Solution Structure Of The Bromodomain From Human Gcn5
Length = 103
Score = 50.4 bits (119), Expect = 2e-06, Method: Composition-based stats.
Identities = 34/100 (34%), Positives = 48/100 (48%), Gaps = 8/100 (8%)
Query: 103 ELKRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTG 162
+L + QI H AWPFM PV DYYEVI P+D T+ ++ +
Sbjct: 3 QLYTTLKNLLAQIKSHPSAWPFMEPVKKSEAP--DYYEVIRFPIDLKTMTERLRSR---- 56
Query: 163 YRNVREIY-ADVRLVFKNAMKYNDERDDVHVMAKSLLEKF 201
Y R+++ AD++ V N +YN D + S LEKF
Sbjct: 57 YYVTRKLFVADLQRVIANCREYNPP-DSEYCRCASALEKF 95
>pdb|3UV5|A Chain A, Crystal Structure Of The Tandem Bromodomains Of Human
Transcription Initiation Factor Tfiid Subunit 1 (Taf1)
Length = 265
Score = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 34/107 (31%), Positives = 52/107 (48%), Gaps = 12/107 (11%)
Query: 85 KQQQDAFHREEAAGRRMQELKRQ--FAAIFRQITQHKW-----AWPFMHPVDVEGLGLHD 137
K+++D R E A + + Q F+ I I K +WPF HPV+ + + D
Sbjct: 112 KEKEDKLARLEKAINPLLDDDDQVAFSFILDNIVTQKMMAVPDSWPFHHPVNKKFVP--D 169
Query: 138 YYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIYADVRLVFKNAMKYN 184
YY+VI PMD TI+ + Y++ DV L+ N++KYN
Sbjct: 170 YYKVIVNPMDLETIRKNISKH---KYQSRESFLDDVNLILANSVKYN 213
Score = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 46/84 (54%), Gaps = 5/84 (5%)
Query: 121 AWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIYADVRLVFKNA 180
+PF PV+ + + DYY++I +PMD T++ + + Y + E + L+ KN+
Sbjct: 32 TYPFHTPVNAKVVK--DYYKIITRPMDLQTLRENVRKR---LYPSREEFREHLELIVKNS 86
Query: 181 MKYNDERDDVHVMAKSLLEKFEEK 204
YN + + +++S+L+ +EK
Sbjct: 87 ATYNGPKHSLTQISQSMLDLCDEK 110
>pdb|1EQF|A Chain A, Crystal Structure Of The Double Bromodomain Module From
Human Tafii250
Length = 280
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 34/107 (31%), Positives = 52/107 (48%), Gaps = 12/107 (11%)
Query: 85 KQQQDAFHREEAAGRRMQELKRQ--FAAIFRQITQHKW-----AWPFMHPVDVEGLGLHD 137
K+++D R E A + + Q F+ I I K +WPF HPV+ + + D
Sbjct: 124 KEKEDKLARLEKAINPLLDDDDQVAFSFILDNIVTQKMMAVPDSWPFHHPVNKKFVP--D 181
Query: 138 YYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIYADVRLVFKNAMKYN 184
YY+VI PMD TI+ + Y++ DV L+ N++KYN
Sbjct: 182 YYKVIVNPMDLETIRKNISKH---KYQSRESFLDDVNLILANSVKYN 225
Score = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 46/84 (54%), Gaps = 5/84 (5%)
Query: 121 AWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIYADVRLVFKNA 180
+PF PV+ + + DYY++I +PMD T++ + + Y + E + L+ KN+
Sbjct: 44 TYPFHTPVNAKVVK--DYYKIITRPMDLQTLRENVRKR---LYPSREEFREHLELIVKNS 98
Query: 181 MKYNDERDDVHVMAKSLLEKFEEK 204
YN + + +++S+L+ +EK
Sbjct: 99 ATYNGPKHSLTQISQSMLDLCDEK 122
>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 = 50.1 bits (118), Expect = 2e-06, Method: Composition-based stats.
Identities = 34/100 (34%), Positives = 48/100 (48%), Gaps = 8/100 (8%)
Query: 103 ELKRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTG 162
+L + QI H AWPFM PV DYYEVI P+D T+ ++ +
Sbjct: 7 QLYTTLKNLLAQIKSHPSAWPFMEPVKKSEAP--DYYEVIRFPIDLKTMTERLRSR---- 60
Query: 163 YRNVREIY-ADVRLVFKNAMKYNDERDDVHVMAKSLLEKF 201
Y R+++ AD++ V N +YN D + S LEKF
Sbjct: 61 YYVTRKLFVADLQRVIANCREYNPP-DSEYCRCASALEKF 99
>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 = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 34/107 (31%), Positives = 52/107 (48%), Gaps = 12/107 (11%)
Query: 85 KQQQDAFHREEAAGRRMQELKRQ--FAAIFRQITQHKW-----AWPFMHPVDVEGLGLHD 137
K+++D R E A + + Q F+ I I K +WPF HPV+ + + D
Sbjct: 145 KEKEDKLARLEKAINPLLDDDDQVAFSFILDNIVTQKMMAVPDSWPFHHPVNKKFVP--D 202
Query: 138 YYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIYADVRLVFKNAMKYN 184
YY+VI PMD TI+ + Y++ DV L+ N++KYN
Sbjct: 203 YYKVIVNPMDLETIRKNISKH---KYQSRESFLDDVNLILANSVKYN 246
Score = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 46/84 (54%), Gaps = 5/84 (5%)
Query: 121 AWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIYADVRLVFKNA 180
+PF PV+ + + DYY++I +PMD T++ + + Y + E + L+ KN+
Sbjct: 65 TYPFHTPVNAKVVK--DYYKIITRPMDLQTLRENVRKR---LYPSREEFREHLELIVKNS 119
Query: 181 MKYNDERDDVHVMAKSLLEKFEEK 204
YN + + +++S+L+ +EK
Sbjct: 120 ATYNGPKHSLTQISQSMLDLCDEK 143
>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 = 48.5 bits (114), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 30/95 (31%), Positives = 49/95 (51%), Gaps = 6/95 (6%)
Query: 100 RMQELKRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKD 159
R+ L ++ Q+ A F PV ++ + DY + I+ PMDF+T++ +++ +
Sbjct: 10 RLTPLTVLLRSVLDQLQDKDPARIFAQPVSLKEVP--DYLDHIKHPMDFATMRKRLEAQ- 66
Query: 160 GTGYRNVREIYADVRLVFKNAMKYNDERDDVHVMA 194
GY+N+ E D L+ N MKYN RD V A
Sbjct: 67 --GYKNLHEFEEDFDLIIDNCMKYN-ARDTVFYRA 98
>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 = 6e-06, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 46/96 (47%), Gaps = 10/96 (10%)
Query: 94 EEAAGRRMQELKRQFAAIFRQITQHKW-----AWPFMHPVDVEGLGLHDYYEVIEKPMDF 148
E + M + + F+ I I K +WPF HPV+ + + DYY+VI PMD
Sbjct: 16 ENLYFQSMDDDQVAFSFILDNIVTQKMMAVPDSWPFHHPVNKKFVP--DYYKVIVNPMDL 73
Query: 149 STIKNKMDGKDGTGYRNVREIYADVRLVFKNAMKYN 184
TI+ + Y++ DV L+ N++KYN
Sbjct: 74 ETIRKNISKH---KYQSRESFLDDVNLILANSVKYN 106
>pdb|3HMH|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Tbp-Associated Factor Rna Polymerase 1-Like (Taf1l)
Length = 155
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 44/89 (49%), Gaps = 10/89 (11%)
Query: 101 MQELKRQFAAIFRQITQHKW-----AWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKM 155
Q ++ F+ I I K +WPF HPV+ + + DYY++I P+D TI+ +
Sbjct: 20 FQSMQVAFSFILDNIVTQKMMAVPDSWPFHHPVNKKFVP--DYYKMIVNPVDLETIRKNI 77
Query: 156 DGKDGTGYRNVREIYADVRLVFKNAMKYN 184
Y++ DV L+ N++KYN
Sbjct: 78 SKH---KYQSRESFLDDVNLILANSVKYN 103
>pdb|2DKW|A Chain A, Solution Structure Of The Bromodomain Of Human Protein
Kiaa1240
Length = 131
Score = 45.8 bits (107), Expect = 4e-05, Method: Composition-based stats.
Identities = 27/93 (29%), Positives = 49/93 (52%), Gaps = 10/93 (10%)
Query: 96 AAGRRMQELKRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKM 155
++G ++EL+ + +++ K F PV DY EVI++PMD ST+ K+
Sbjct: 5 SSGNTLRELRLFLRDVTKRLATDKRFNIFSKPVS-------DYLEVIKEPMDLSTVITKI 57
Query: 156 DGKDGTGYRNVREIYADVRLVFKNAMKYNDERD 188
D + Y ++ D+ L+ NA++YN ++D
Sbjct: 58 DKHN---YLTAKDFLKDIDLICSNALEYNPDKD 87
>pdb|2I7K|A Chain A, Solution Structure Of The Bromodomain Of Human Brd7
Protein
Length = 117
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 32/105 (30%), Positives = 54/105 (51%), Gaps = 16/105 (15%)
Query: 94 EEAAGRRMQELKRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKN 153
+EA + M++L+R+ + F +++P D G Y +I+ PMDFST+K
Sbjct: 10 QEALNQLMRQLQRKDPSAF-------FSFPV---TDFIAPG---YSMIIKHPMDFSTMKE 56
Query: 154 KMDGKDGTGYRNVREIYADVRLVFKNAMKYNDERDDVHVMAKSLL 198
K+ D Y+++ E+ + +L+ NAM YN + AK LL
Sbjct: 57 KIKNND---YQSIEELKDNFKLMCTNAMIYNKPETIYYKAAKKLL 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 = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 36/62 (58%), Gaps = 3/62 (4%)
Query: 138 YYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIYADVRLVFKNAMKYNDERDDVHVMAKSL 197
Y +I+ PMDF T+K+K+ + Y++V E AD +L+ NAM YN + +AK +
Sbjct: 46 YSMIIKHPMDFGTMKDKIVANE---YKSVTEFKADFKLMCDNAMTYNRPDTVYYKLAKKI 102
Query: 198 LE 199
L
Sbjct: 103 LH 104
>pdb|3FKM|X Chain X, Plasmodium Falciparum Bromodomain-Containing Protein
Pf10_0328
Length = 166
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 37/78 (47%), Gaps = 3/78 (3%)
Query: 124 FMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIYADVRLVFKNAMKY 183
F VD + DYY+VI+ P FS IK K+ K G Y E DV+L+F N Y
Sbjct: 42 FEKLVDAKKQNCPDYYDVIKNPXSFSCIKTKL--KKGQ-YAYPSEFVKDVQLIFDNCSLY 98
Query: 184 NDERDDVHVMAKSLLEKF 201
N V + K++ F
Sbjct: 99 NTSNSVVAITGKNIETYF 116
>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 = 41.6 bits (96), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 33/115 (28%), Positives = 54/115 (46%), Gaps = 28/115 (24%)
Query: 93 REEAAGRRMQELKRQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIK 152
RE +GRR+ +L + K +P DYY++I +PMD I+
Sbjct: 40 REPGSGRRLCDL--------FMVKPSKKDYP-------------DYYKIILEPMDLKIIE 78
Query: 153 NKMDGKDGTGYRNVREIYADVRLVFKNAMKYNDE----RDDVHVMAKSLLEKFEE 203
+ + G + E D++L+F+NA YN+E +D H++ K L EK +E
Sbjct: 79 HNIRNDKYAGEEGMIE---DMKLMFRNARHYNEEGSQVYNDAHILEKLLKEKRKE 130
>pdb|3DAI|A Chain A, Crystal Structure Of The Bromodomain Of The Human Atad2
Length = 130
Score = 41.6 bits (96), Expect = 9e-04, Method: Composition-based stats.
Identities = 24/65 (36%), Positives = 39/65 (60%), Gaps = 5/65 (7%)
Query: 124 FMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIYADVRLVFKNAMKY 183
F PVD + + DY VI++PMD S++ +K+D Y V++ D+ L+ NA++Y
Sbjct: 31 FTKPVDPDEVP--DYVTVIKQPMDLSSVISKIDLHK---YLTVKDYLRDIDLICSNALEY 85
Query: 184 NDERD 188
N +RD
Sbjct: 86 NPDRD 90
>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 = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 44/84 (52%), Gaps = 7/84 (8%)
Query: 119 KWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMD-GKDGTGYRNVREIYADVRLVF 177
K + PFM VD + L +YYE++ PM S +K ++ G+ Y + + D+ LVF
Sbjct: 229 KLSEPFMELVDKDELP--EYYEIVHSPMALSIVKQNLEIGQ----YSKIYDFIIDMLLVF 282
Query: 178 KNAMKYNDERDDVHVMAKSLLEKF 201
+NA +ND ++ A +L F
Sbjct: 283 QNAHIFNDPSALIYKDATTLTNYF 306
>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 = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 44/84 (52%), Gaps = 7/84 (8%)
Query: 119 KWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMD-GKDGTGYRNVREIYADVRLVF 177
K + PFM VD + L +YYE++ PM S +K ++ G+ Y + + D+ LVF
Sbjct: 214 KLSEPFMELVDKDELP--EYYEIVHSPMALSIVKQNLEIGQ----YSKIYDFIIDMLLVF 267
Query: 178 KNAMKYNDERDDVHVMAKSLLEKF 201
+NA +ND ++ A +L F
Sbjct: 268 QNAHIFNDPSALIYKDATTLTNYF 291
>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 = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 40/81 (49%), Gaps = 17/81 (20%)
Query: 106 RQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYRN 165
RQ + +F Q+ K L +YYE+I KP+DF IK ++ YR+
Sbjct: 33 RQLSEVFIQLPSRK--------------ELPEYYELIRKPVDFKKIKERIRNH---KYRS 75
Query: 166 VREIYADVRLVFKNAMKYNDE 186
+ ++ DV L+ +NA +N E
Sbjct: 76 LNDLEKDVMLLCQNAQTFNLE 96
>pdb|2H60|A Chain A, Solution Structure Of Human Brg1 Bromodomain
Length = 128
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 40/81 (49%), Gaps = 17/81 (20%)
Query: 106 RQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYRN 165
RQ + +F Q+ K L +YYE+I KP+DF IK ++ YR+
Sbjct: 29 RQLSEVFIQLPSRK--------------ELPEYYELIRKPVDFKKIKERIRNH---KYRS 71
Query: 166 VREIYADVRLVFKNAMKYNDE 186
+ ++ DV L+ +NA +N E
Sbjct: 72 LNDLEKDVMLLCQNAQTFNLE 92
>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 = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 40/81 (49%), Gaps = 17/81 (20%)
Query: 106 RQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYRN 165
RQ + +F Q+ K L +YYE+I KP+DF IK ++ YR+
Sbjct: 34 RQLSEVFIQLPSRK--------------ELPEYYELIRKPVDFKKIKERIRNH---KYRS 76
Query: 166 VREIYADVRLVFKNAMKYNDE 186
+ ++ DV L+ +NA +N E
Sbjct: 77 LNDLEKDVMLLCQNAQTFNLE 97
>pdb|2JNS|A Chain A, Solution Structure Of The Bromodomain-Containing Protein 4
Et Domain
Length = 90
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 37/71 (52%), Gaps = 1/71 (1%)
Query: 266 KCRKMSTEEKKNLGTALTRLSPEDLCKALEIVAENNPSF-HATAQEVDLDMDAQSELTLW 324
KC+ MS EEK+ L + +L E L + + I+ PS ++ E+++D + TL
Sbjct: 14 KCKPMSYEEKRQLSLDINKLPGEKLGRVVHIIQSREPSLKNSNPDEIEIDFETLKPSTLR 73
Query: 325 RLKVFVQESLK 335
L+ +V L+
Sbjct: 74 ELERYVTSCLR 84
>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 = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 41/86 (47%), Gaps = 17/86 (19%)
Query: 106 RQFAAIFRQITQHKWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYRN 165
RQ + +F Q+ K L +YYE+I KP+DF IK ++ YR+
Sbjct: 34 RQLSEVFIQLPSRKE--------------LPEYYELIRKPVDFKKIKERIRNHK---YRS 76
Query: 166 VREIYADVRLVFKNAMKYNDERDDVH 191
+ ++ DV L+ NA +N E ++
Sbjct: 77 LGDLEKDVMLLCHNAQTFNLEGSQIY 102
>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 = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 39/65 (60%), Gaps = 3/65 (4%)
Query: 137 DYYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIYADVRLVFKNAMKYNDERDDVHVMAKS 196
DYY +I++P+D TI ++ ++G+ Y+++ + D+ L+ KNA YN+ V A S
Sbjct: 47 DYYAIIKEPIDLKTIAQRI--QNGS-YKSIHAMAKDIDLLAKNAKTYNEPGSQVFKDANS 103
Query: 197 LLEKF 201
+ + F
Sbjct: 104 IKKIF 108
>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 = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 39/65 (60%), Gaps = 3/65 (4%)
Query: 137 DYYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIYADVRLVFKNAMKYNDERDDVHVMAKS 196
DYY +I++P+D TI ++ ++G+ Y+++ + D+ L+ KNA YN+ V A S
Sbjct: 46 DYYAIIKEPIDLKTIAQRI--QNGS-YKSIHAMAKDIDLLAKNAKTYNEPGSQVFKDANS 102
Query: 197 LLEKF 201
+ + F
Sbjct: 103 IKKIF 107
>pdb|3HMF|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 116
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 40/68 (58%), Gaps = 3/68 (4%)
Query: 137 DYYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIYADVRLVFKNAMKYNDERDDVHVMAKS 196
DYY +I++P+D TI ++ ++G+ Y+++ + D+ L+ KNA YN+ V A S
Sbjct: 44 DYYAIIKEPIDLKTIAQRI--QNGS-YKSIHAMAKDIDLLAKNAKTYNEPGSQVFKDANS 100
Query: 197 LLEKFEEK 204
+ + F K
Sbjct: 101 IKKIFYMK 108
>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 = 37.4 bits (85), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 35/69 (50%), Gaps = 7/69 (10%)
Query: 135 LHDYYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIYADVRLVFKNAMKYNDERD----DV 190
L DYY I+KPMD I++ M Y+++ + D ++F NA YN+ D
Sbjct: 51 LPDYYLTIKKPMDMEKIRSHM---MANKYQDIDSMVEDFVMMFNNACTYNEPESLIYKDA 107
Query: 191 HVMAKSLLE 199
V+ K LLE
Sbjct: 108 LVLHKVLLE 116
>pdb|2YQD|A Chain A, Solution Structure Of The Fifth Bromodomain From Mouse
Polybromo-1
Length = 120
Score = 37.0 bits (84), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 35/69 (50%), Gaps = 7/69 (10%)
Query: 135 LHDYYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIYADVRLVFKNAMKYNDERD----DV 190
L DYY I+KPMD I++ M Y+++ + D ++F NA YN+ D
Sbjct: 51 LPDYYLTIKKPMDMEKIRSHM---MANKYQDIDSMVEDFVMMFNNACTYNEPESLIYKDA 107
Query: 191 HVMAKSLLE 199
V+ K LLE
Sbjct: 108 LVLHKVLLE 116
>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 = 36.2 bits (82), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 26/48 (54%), Gaps = 3/48 (6%)
Query: 137 DYYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIYADVRLVFKNAMKYN 184
DY + I+KPMDF T+K ++ Y N + D L+ N +KYN
Sbjct: 39 DYLDHIKKPMDFFTMKQNLEAYR---YLNFDDFEEDFNLIVSNCLKYN 83
>pdb|3IU5|A Chain A, Crystal Structure Of The First Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 116
Score = 35.4 bits (80), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 29/47 (61%), Gaps = 3/47 (6%)
Query: 137 DYYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIYADVRLVFKNAMKY 183
DYYEV+ +P+D I+ K+ ++ Y +V + AD +L+F NA Y
Sbjct: 43 DYYEVVSQPIDLMKIQQKLKMEE---YDDVNLLTADFQLLFNNAKSY 86
>pdb|2R0S|A Chain A, Crystal Structure Of The Rsc4 Tandem Bromodomain
Length = 285
Score = 34.7 bits (78), Expect = 0.100, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 41/84 (48%), Gaps = 7/84 (8%)
Query: 119 KWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMD-GKDGTGYRNVREIYADVRLVF 177
K + PF VD + L +YYE++ P S +K ++ G+ Y + + D LVF
Sbjct: 173 KLSEPFXELVDKDELP--EYYEIVHSPXALSIVKQNLEIGQ----YSKIYDFIIDXLLVF 226
Query: 178 KNAMKYNDERDDVHVMAKSLLEKF 201
+NA +ND ++ A +L F
Sbjct: 227 QNAHIFNDPSALIYKDATTLTNYF 250
>pdb|2R0Y|A Chain A, Structure Of The Rsc4 Tandem Bromodomain In Complex With
An Acetylated H3 Peptide
Length = 311
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 41/84 (48%), Gaps = 7/84 (8%)
Query: 119 KWAWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMD-GKDGTGYRNVREIYADVRLVF 177
K + PF VD + L +YYE++ P S +K ++ G+ Y + + D LVF
Sbjct: 179 KLSEPFXELVDKDELP--EYYEIVHSPXALSIVKQNLEIGQ----YSKIYDFIIDXLLVF 232
Query: 178 KNAMKYNDERDDVHVMAKSLLEKF 201
+NA +ND ++ A +L F
Sbjct: 233 QNAHIFNDPSALIYKDATTLTNYF 256
>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 = 34.3 bits (77), Expect = 0.12, Method: Composition-based stats.
Identities = 22/55 (40%), Positives = 30/55 (54%), Gaps = 5/55 (9%)
Query: 137 DYYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIY-ADVRLVFKNAMKYNDERDDV 190
DYYE I P+D TI+ ++ TGY E + AD+ VF+NA KY + V
Sbjct: 47 DYYEKISDPLDLITIEKQIL----TGYYKTVEAFDADMLKVFRNAEKYYGRKSPV 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 = 33.5 bits (75), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 33/64 (51%), Gaps = 5/64 (7%)
Query: 121 AWPFMHPVDVEGLGLHDYYEVIEKPMDFSTIKNKMDGKDGTGYRNVREIYADVRLVFKNA 180
A PF H + DYY+ I+ P+ I+ K+ ++ Y + + D+ L+F+NA
Sbjct: 41 AEPFYHLPSKKKYP--DYYQQIKMPISLQQIRTKLKNQE---YETLDHLECDLNLMFENA 95
Query: 181 MKYN 184
+YN
Sbjct: 96 KRYN 99
>pdb|3AHR|A Chain A, Inactive Human Ero1
Length = 465
Score = 28.1 bits (61), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 25/48 (52%), Gaps = 5/48 (10%)
Query: 266 KCRKMSTEEKKNLGTALTRLSPEDLCKALEIVAENNPS--FHATAQEV 311
KCR + + LGTAL L E K + + E+ PS FH T QE+
Sbjct: 393 KCRLWGKLQTQGLGTALKILFSE---KLIANMPESGPSYEFHLTRQEI 437
>pdb|3AHQ|A Chain A, Hyperactive Human Ero1
Length = 465
Score = 28.1 bits (61), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 25/48 (52%), Gaps = 5/48 (10%)
Query: 266 KCRKMSTEEKKNLGTALTRLSPEDLCKALEIVAENNPS--FHATAQEV 311
KCR + + LGTAL L E K + + E+ PS FH T QE+
Sbjct: 393 KCRLWGKLQTQGLGTALKILFSE---KLIANMPESGPSYEFHLTRQEI 437
>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex
pdb|4AI6|B Chain B, Dynein Motor Domain - Adp Complex
pdb|4AKG|A Chain A, Dynein Motor Domain - Atp Complex
pdb|4AKG|B Chain B, Dynein Motor Domain - Atp Complex
pdb|4AKH|A Chain A, Dynein Motor Domain - Amppnp Complex
pdb|4AKH|B Chain B, Dynein Motor Domain - Amppnp Complex
pdb|4AKI|A Chain A, Dynein Motor Domain - Luac Derivative
pdb|4AKI|B Chain B, Dynein Motor Domain - Luac Derivative
Length = 2695
Score = 28.1 bits (61), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 25/48 (52%), Gaps = 2/48 (4%)
Query: 8 NQDLGNVGLGKAEGDTVEVEGLNKTIDDILQKVTQLEQK--LNDVEQF 53
NQ NVGL K ++V LNKT+ L K E++ LN +QF
Sbjct: 1869 NQRFVNVGLEKLNESVLKVNELNKTLSISLVKSLTFEKERWLNTTKQF 1916
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 0.130 0.363
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,781,149
Number of Sequences: 62578
Number of extensions: 361190
Number of successful extensions: 1154
Number of sequences better than 100.0: 93
Number of HSP's better than 100.0 without gapping: 61
Number of HSP's successfully gapped in prelim test: 32
Number of HSP's that attempted gapping in prelim test: 998
Number of HSP's gapped (non-prelim): 102
length of query: 395
length of database: 14,973,337
effective HSP length: 101
effective length of query: 294
effective length of database: 8,652,959
effective search space: 2543969946
effective search space used: 2543969946
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 52 (24.6 bits)