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= 036733
(96 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 62.0 bits (149), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 35/81 (43%), Positives = 47/81 (58%), Gaps = 6/81 (7%)
Query: 16 VLELILNILQRKDTNEIFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLEQFEV 75
+L +L+ LQ KD IFA+PV KEV DY + IK PMDF TMR +L Y +L +FE
Sbjct: 17 LLRSVLDQLQDKDPARIFAQPVSLKEVPDYLDHIKHPMDFATMRKRLEAQGYKNLHEFE- 75
Query: 76 CSFFTL----CLKFWSIGILF 92
F L C+K+ + +F
Sbjct: 76 -EDFDLIIDNCMKYNARDTVF 95
>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 = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 32/79 (40%), Positives = 43/79 (54%), Gaps = 2/79 (2%)
Query: 16 VLELILNILQRKDTNEIFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLEQFE- 74
+L L LQ KDT IF+EPV EV DY + IK+PMDF TM+ L Y + + FE
Sbjct: 11 LLRKTLEQLQEKDTGNIFSEPVPLSEVPDYLDHIKKPMDFFTMKQNLEAYRYLNFDDFEE 70
Query: 75 -VCSFFTLCLKFWSIGILF 92
+ CLK+ + +F
Sbjct: 71 DFNLIVSNCLKYNAKDTIF 89
>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 = 52.4 bits (124), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 30/71 (42%), Positives = 40/71 (56%), Gaps = 1/71 (1%)
Query: 12 PEKRVLELILNILQRKDTNEIFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLE 71
P +++LE L LQRKD + FA PV Y IIK PMDFGTM+ K+ Y S+
Sbjct: 13 PIQQLLEHFLRQLQRKDPHGFFAFPVTDAIAPGYSMIIKHPMDFGTMKDKIVANEYKSVT 72
Query: 72 QFEVCSFFTLC 82
+F+ F +C
Sbjct: 73 EFK-ADFKLMC 82
>pdb|1E6I|A Chain A, Bromodomain From Gcn5 Complexed With Acetylated H4
Peptide
Length = 121
Score = 50.8 bits (120), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 26/62 (41%), Positives = 33/62 (53%)
Query: 12 PEKRVLELILNILQRKDTNEIFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLE 71
P ++ IL LQ F +PV+ +EV DYY+ IKEPMD TM KL Y +E
Sbjct: 13 PHDAAIQNILTELQNHAAAWPFLQPVNKEEVPDYYDFIKEPMDLSTMEIKLESNKYQKME 72
Query: 72 QF 73
F
Sbjct: 73 DF 74
>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 = 48.5 bits (114), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 41/68 (60%), Gaps = 2/68 (2%)
Query: 20 ILNILQRKDTNEIFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF--EVCS 77
+L++++ + F EPVD +YY+IIK PMD +M KL+ G+Y + E+F ++ +
Sbjct: 24 VLDVVKAHKDSWPFLEPVDESYAPNYYQIIKAPMDISSMEKKLNGGLYCTKEEFVNDMKT 83
Query: 78 FFTLCLKF 85
F C K+
Sbjct: 84 MFRNCRKY 91
>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 = 47.8 bits (112), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/68 (36%), Positives = 35/68 (51%), Gaps = 2/68 (2%)
Query: 17 LELILNILQRKDTNEIFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF--E 74
L+ +L LQ F EPVD + DYY +IKEPMD TM ++ Y L +F +
Sbjct: 18 LKRVLRSLQAHKMAWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVAD 77
Query: 75 VCSFFTLC 82
+ + F C
Sbjct: 78 MTAIFDNC 85
>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 = 47.8 bits (112), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/61 (45%), Positives = 37/61 (60%), Gaps = 1/61 (1%)
Query: 13 EKRVLELILNILQRKDTNEIFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLEQ 72
+K+ EL+ I Q +D+ E F +PVD E DY +II PMDFGT+R L G Y S +
Sbjct: 12 KKQCKELVNLIFQCEDS-EPFRQPVDLVEYPDYRDIIDTPMDFGTVRETLDAGNYDSPLE 70
Query: 73 F 73
F
Sbjct: 71 F 71
>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 = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 35/58 (60%)
Query: 16 VLELILNILQRKDTNEIFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF 73
+LE I+N ++ F PV+ K V+DYY+II PMD T+R + + +Y S E+F
Sbjct: 51 ILESIINDMRDLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEF 108
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 24/41 (58%)
Query: 33 FAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF 73
F PV+ K V DYY++I PMD T+R + + Y S E F
Sbjct: 191 FHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESF 231
>pdb|1EQF|A Chain A, Crystal Structure Of The Double Bromodomain Module From
Human Tafii250
Length = 280
Score = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 35/58 (60%)
Query: 16 VLELILNILQRKDTNEIFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF 73
+LE I+N ++ F PV+ K V+DYY+II PMD T+R + + +Y S E+F
Sbjct: 30 ILESIINDMRDLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEF 87
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 24/41 (58%)
Query: 33 FAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF 73
F PV+ K V DYY++I PMD T+R + + Y S E F
Sbjct: 170 FHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESF 210
>pdb|3QZT|A Chain A, Crystal Structure Of Bptf Bromo In Complex With Histone
H4k16ac - Form Ii
Length = 115
Score = 47.0 bits (110), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 25/68 (36%), Positives = 34/68 (50%), Gaps = 2/68 (2%)
Query: 17 LELILNILQRKDTNEIFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF--E 74
L+ +L LQ F EPVD + DYY +IKEPMD TM ++ Y L +F +
Sbjct: 18 LKRVLRSLQAHKMAWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVAD 77
Query: 75 VCSFFTLC 82
+ F C
Sbjct: 78 MTKIFDNC 85
>pdb|3UV5|A Chain A, Crystal Structure Of The Tandem Bromodomains Of Human
Transcription Initiation Factor Tfiid Subunit 1 (Taf1)
Length = 265
Score = 47.0 bits (110), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 35/58 (60%)
Query: 16 VLELILNILQRKDTNEIFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF 73
+LE I+N ++ F PV+ K V+DYY+II PMD T+R + + +Y S E+F
Sbjct: 18 ILESIINDMRDLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEF 75
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 24/41 (58%)
Query: 33 FAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF 73
F PV+ K V DYY++I PMD T+R + + Y S E F
Sbjct: 158 FHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESF 198
>pdb|3QZV|A Chain A, Crystal Structure Of Bptf Phd-Linker-Bromo In Complex With
Histone H4k12ac Peptide
Length = 174
Score = 47.0 bits (110), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/57 (40%), Positives = 30/57 (52%)
Query: 17 LELILNILQRKDTNEIFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF 73
L+ +L LQ F EPVD + DYY +IKEPMD TM ++ Y L +F
Sbjct: 77 LKRVLRSLQAHKMAWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEF 133
>pdb|3UV2|A Chain A, Crystal Structure Of The Bromodomain Of Human
Nucleosome-Remodeling Factor Subunit Bptf
Length = 126
Score = 47.0 bits (110), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/57 (40%), Positives = 30/57 (52%)
Query: 17 LELILNILQRKDTNEIFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF 73
L+ +L LQ F EPVD + DYY +IKEPMD TM ++ Y L +F
Sbjct: 25 LKRVLRSLQAHKMAWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEF 81
>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 = 47.0 bits (110), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/57 (40%), Positives = 30/57 (52%)
Query: 17 LELILNILQRKDTNEIFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF 73
L+ +L LQ F EPVD + DYY +IKEPMD TM ++ Y L +F
Sbjct: 77 LKRVLRSLQAHKMAWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEF 133
>pdb|3MB3|A Chain A, Crystal Structure Of The Second Bromodomain Of
Pleckstrin Homology Domain Interacting Protein (Phip)
Length = 135
Score = 46.6 bits (109), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 24/56 (42%), Positives = 34/56 (60%)
Query: 14 KRVLELILNILQRKDTNEIFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTS 69
K+ E +LN++ + + +E F +PVD E DY +II PMDF T+R L G Y S
Sbjct: 23 KKQCEELLNLIFQCEDSEPFRQPVDLLEYPDYRDIIDTPMDFATVRETLEAGNYES 78
>pdb|2I7K|A Chain A, Solution Structure Of The Bromodomain Of Human Brd7
Protein
Length = 117
Score = 46.2 bits (108), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 39/73 (53%), Gaps = 1/73 (1%)
Query: 10 QMPEKRVLELILNILQRKDTNEIFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTS 69
Q P + L ++ LQRKD + F+ PV Y IIK PMDF TM+ K+ Y S
Sbjct: 6 QTPLQEALNQLMRQLQRKDPSAFFSFPVTDFIAPGYSMIIKHPMDFSTMKEKIKNNDYQS 65
Query: 70 LEQFEVCSFFTLC 82
+E+ + +F +C
Sbjct: 66 IEELK-DNFKLMC 77
>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 = 46.2 bits (108), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 32/82 (39%), Positives = 44/82 (53%), Gaps = 5/82 (6%)
Query: 9 PQMPEKRVLELILNILQRKDTNEI---FAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEG 65
P+ + + L L IL +T+E F PV+ K V Y ++IK+PMDF T+R KL G
Sbjct: 7 PKRDDSKDLALCSMILTEMETHEDAWPFLLPVNLKLVPGYKKVIKKPMDFSTIREKLSSG 66
Query: 66 MYTSLEQF--EVCSFFTLCLKF 85
Y +LE F +V F C F
Sbjct: 67 QYPNLETFALDVRLVFDNCETF 88
>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 = 45.8 bits (107), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 20/42 (47%), Positives = 29/42 (69%)
Query: 32 IFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF 73
IF++PVD +EV DY E+IKEPMD T+ K+ + Y + + F
Sbjct: 32 IFSKPVDIEEVSDYLEVIKEPMDLSTVITKIDKHNYLTAKDF 73
>pdb|4DON|A Chain A, Brd4 Bromodomain 1 Complex With A Fragment
3,4-dihydro-3-methyl-2(1h)- Quinazolinon
Length = 145
Score = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 46/91 (50%), Gaps = 10/91 (10%)
Query: 2 PSSVPSAPQMPEKR------VLELILNILQRKDTNEIFAEPVDTKEVE--DYYEIIKEPM 53
P S P P+++ +L ++L L + F +PVD ++ DYY+IIK PM
Sbjct: 25 PPPETSNPNKPKRQTNQLQYLLRVVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPM 84
Query: 54 DFGTMRAKLHEGMYTSLEQF--EVCSFFTLC 82
D GT++ +L Y + ++ + + FT C
Sbjct: 85 DMGTIKKRLENNYYWNAQECIQDFNTMFTNC 115
>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 = 43.9 bits (102), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 46/91 (50%), Gaps = 10/91 (10%)
Query: 2 PSSVPSAPQMPEKR------VLELILNILQRKDTNEIFAEPVDTKEVE--DYYEIIKEPM 53
P S P P+++ +L ++L L + F +PVD ++ DYY+IIK PM
Sbjct: 9 PPPETSNPNKPKRQTNQLQYLLRVVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPM 68
Query: 54 DFGTMRAKLHEGMYTSLEQF--EVCSFFTLC 82
D GT++ +L Y + ++ + + FT C
Sbjct: 69 DMGTIKKRLENNYYWNAQECIQDFNTMFTNC 99
>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 = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 46/91 (50%), Gaps = 10/91 (10%)
Query: 2 PSSVPSAPQMPEKR------VLELILNILQRKDTNEIFAEPVDTKEVE--DYYEIIKEPM 53
P S P P+++ +L ++L L + F +PVD ++ DYY+IIK PM
Sbjct: 5 PPPETSNPNKPKRQTNQLQYLLRVVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPM 64
Query: 54 DFGTMRAKLHEGMYTSLEQF--EVCSFFTLC 82
D GT++ +L Y + ++ + + FT C
Sbjct: 65 DMGTIKKRLENNYYWNAQECIQDFNTMFTNC 95
>pdb|2E7O|A Chain A, Solution Structure Of The Bromodomain From Human
Bromodomain Adjacent To Zinc Finger Domain 2b
Length = 112
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 23/57 (40%), Positives = 34/57 (59%)
Query: 19 LILNILQRKDTNEIFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLEQFEV 75
+IL ++ + F PV+ K V Y ++IK+PMDF T+R KL G Y +LE F +
Sbjct: 17 MILTEMETHEDAWPFLLPVNLKLVPGYKKVIKKPMDFSTIREKLSSGQYPNLETFAL 73
>pdb|4HBW|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Quinazoline Ligand
Length = 127
Score = 43.1 bits (100), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 45/91 (49%), Gaps = 10/91 (10%)
Query: 2 PSSVPSAPQMPEKR------VLELILNILQRKDTNEIFAEPVDTKEVE--DYYEIIKEPM 53
P S P P++ +L ++L L + F +PVD ++ DYY+IIK PM
Sbjct: 5 PPPETSNPNKPKRETNQLQYLLRVVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPM 64
Query: 54 DFGTMRAKLHEGMYTSLEQF--EVCSFFTLC 82
D GT++ +L Y + ++ + + FT C
Sbjct: 65 DMGTIKKRLENNYYWNAQECIQDFNTMFTNC 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 = 42.4 bits (98), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 28/57 (49%)
Query: 17 LELILNILQRKDTNEIFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF 73
L+ +L LQ F EPVD + DYY +IKEP D T ++ Y L +F
Sbjct: 77 LKRVLRSLQAHKXAWPFLEPVDPNDAPDYYGVIKEPXDLATXEERVQRRYYEKLTEF 133
>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 = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 35/63 (55%), Gaps = 3/63 (4%)
Query: 14 KRVLELILNILQRKDTNEI-FAEPVDTK--EVEDYYEIIKEPMDFGTMRAKLHEGMYTSL 70
++ L L L R+D + F +PVD + + DY++I+K PMD T++ KL G Y
Sbjct: 18 RQALMPTLEALYRQDPESLPFRQPVDPQLLGIPDYFDIVKSPMDLSTIKRKLDTGQYQEP 77
Query: 71 EQF 73
Q+
Sbjct: 78 WQY 80
>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 = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 35/63 (55%), Gaps = 3/63 (4%)
Query: 14 KRVLELILNILQRKDTNEI-FAEPVDTK--EVEDYYEIIKEPMDFGTMRAKLHEGMYTSL 70
++ L L L R+D + F +PVD + + DY++I+K PMD T++ KL G Y
Sbjct: 13 RQALMPTLEALYRQDPESLPFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQYQEP 72
Query: 71 EQF 73
Q+
Sbjct: 73 WQY 75
>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 = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 43/87 (49%), Gaps = 4/87 (4%)
Query: 3 SSVPSAPQMPEK--RVLELILNILQRKDTNEIFAEPVDTKEVEDYYEIIKEPMDFGTMRA 60
S + P+ P++ L+ IL ++ + F EPV E YYE+I+ PMD TM
Sbjct: 2 SHMSKEPRDPDQLYSTLKSILQQVKSHQSAWPFMEPVKRTEAPGYYEVIRFPMDLKTMSE 61
Query: 61 KLHEGMYTSLEQF--EVCSFFTLCLKF 85
+L Y S + F ++ FT C ++
Sbjct: 62 RLKNRYYVSKKLFMADLQRVFTNCKEY 88
>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 = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 35/63 (55%), Gaps = 3/63 (4%)
Query: 14 KRVLELILNILQRKDTNEI-FAEPVDTK--EVEDYYEIIKEPMDFGTMRAKLHEGMYTSL 70
++ L L L R+D + F +PVD + + DY++I+K PMD T++ KL G Y
Sbjct: 15 RQALMPTLEALYRQDPESLPFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQYQEP 74
Query: 71 EQF 73
Q+
Sbjct: 75 WQY 77
>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 = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 35/63 (55%), Gaps = 3/63 (4%)
Query: 13 EKRVLELILNILQRKDTNEIFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHE--GMYTSL 70
+KR E +L L + + F +PV V DYY+IIK PMD T++ +L E MY+
Sbjct: 82 DKRKCERLLLFLYCHEMSLAFQDPVPLT-VPDYYKIIKNPMDLSTIKKRLQEDYSMYSKP 140
Query: 71 EQF 73
E F
Sbjct: 141 EDF 143
>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 = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 30/78 (38%), Positives = 41/78 (52%), Gaps = 7/78 (8%)
Query: 13 EKRVLELILNILQRKDTNEIFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHE--GMYTSL 70
+KR E +L L + + F +PV V DYY+IIK PMD T++ +L E MY+
Sbjct: 21 DKRKCERLLLFLYCHEMSLAFQDPVPLT-VPDYYKIIKNPMDLSTIKKRLQEDYSMYSKP 79
Query: 71 EQFEVCSF---FTLCLKF 85
E F V F F C +F
Sbjct: 80 EDF-VADFRLIFQNCAEF 96
>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 = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 36/72 (50%), Gaps = 2/72 (2%)
Query: 16 VLELILNILQRKDTNEIFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF-- 73
L+ IL ++ + F EPV E YYE+I+ PMD TM +L Y S + F
Sbjct: 19 TLKSILQQVKSHQSAWPFMEPVKRTEAPGYYEVIRFPMDLKTMSERLKNRYYVSKKLFMA 78
Query: 74 EVCSFFTLCLKF 85
++ FT C ++
Sbjct: 79 DLQRVFTNCKEY 90
>pdb|2L5E|A Chain A, Complex Between Bd1 Of Brd3 And Gata-1 C-Tail
Length = 128
Score = 39.3 bits (90), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 42/86 (48%), Gaps = 10/86 (11%)
Query: 7 SAPQMPEKRVLEL------ILNILQRKDTNEIFAEPVDTKEVE--DYYEIIKEPMDFGTM 58
S P P ++ +L ++ L + F +PVD ++ DY++IIK PMD GT+
Sbjct: 8 SNPSKPGRKTNQLQYMQNVVVKTLWKHQFAWPFYQPVDAIKLNLPDYHKIIKNPMDMGTI 67
Query: 59 RAKLHEGMYTSLEQF--EVCSFFTLC 82
+ +L Y S + + + FT C
Sbjct: 68 KKRLENNYYWSASECMQDFNTMFTNC 93
>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 = 39.3 bits (90), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 24/41 (58%)
Query: 33 FAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF 73
F PV+ K V DYY++I PMD T+R + + Y S E F
Sbjct: 51 FHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESF 91
>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 = 39.3 bits (90), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 42/86 (48%), Gaps = 10/86 (11%)
Query: 7 SAPQMPEKRVLEL------ILNILQRKDTNEIFAEPVDTKEVE--DYYEIIKEPMDFGTM 58
S P P ++ +L ++ L + F +PVD ++ DY++IIK PMD GT+
Sbjct: 6 SNPSKPGRKTNQLQYMQNVVVKTLWKHQFAWPFYQPVDAIKLNLPDYHKIIKNPMDMGTI 65
Query: 59 RAKLHEGMYTSLEQF--EVCSFFTLC 82
+ +L Y S + + + FT C
Sbjct: 66 KKRLENNYYWSASECMQDFNTMFTNC 91
>pdb|2YW5|A Chain A, Solution Structure Of The Bromodomain From Human
Bromodomain Containing Protein 3
Length = 138
Score = 39.3 bits (90), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 42/86 (48%), Gaps = 10/86 (11%)
Query: 7 SAPQMPEKRVLEL------ILNILQRKDTNEIFAEPVDTKEVE--DYYEIIKEPMDFGTM 58
S P P ++ +L ++ L + F +PVD ++ DY++IIK PMD GT+
Sbjct: 10 SNPSKPGRKTNQLQYMQNVVVKTLWKHQFAWPFYQPVDAIKLNLPDYHKIIKNPMDMGTI 69
Query: 59 RAKLHEGMYTSLEQF--EVCSFFTLC 82
+ +L Y S + + + FT C
Sbjct: 70 KKRLENNYYWSASECMQDFNTMFTNC 95
>pdb|2G4A|A Chain A, Solution Structure Of A Bromodomain From Ring3 Protein
Length = 116
Score = 39.3 bits (90), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 32/57 (56%), Gaps = 4/57 (7%)
Query: 33 FAEPVDTKEV--EDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF--EVCSFFTLCLKF 85
F +PVD + DY++IIK PMD T++ K+ Y ++F +V F+ C K+
Sbjct: 25 FYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKY 81
>pdb|3ONI|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Brd2 In Complex With The Inhibitor Jq1
Length = 114
Score = 39.3 bits (90), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 32/57 (56%), Gaps = 4/57 (7%)
Query: 33 FAEPVDTKEV--EDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF--EVCSFFTLCLKF 85
F +PVD + DY++IIK PMD T++ K+ Y ++F +V F+ C K+
Sbjct: 31 FYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKY 87
>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 = 39.3 bits (90), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 32/57 (56%), Gaps = 4/57 (7%)
Query: 33 FAEPVDTKEV--EDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF--EVCSFFTLCLKF 85
F +PVD + DY++IIK PMD T++ K+ Y ++F +V F+ C K+
Sbjct: 29 FYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKY 85
>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 = 39.3 bits (90), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 33/57 (57%), Gaps = 4/57 (7%)
Query: 33 FAEPVDTK--EVEDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF--EVCSFFTLCLKF 85
F +PVD + E+ DY++IIK PMD T++ K+ Y + F +V F+ C K+
Sbjct: 31 FYKPVDAEALELHDYHDIIKHPMDLSTVKRKMDGREYPDAQGFAADVRLMFSNCYKY 87
>pdb|3UVD|A Chain A, Crystal Structure Of The Bromodomain Of Human
Transcription Activator Brg1 (Smarca4) In Complex With
N-Methyl-2-Pyrrolidone
Length = 124
Score = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 44/75 (58%), Gaps = 7/75 (9%)
Query: 6 PSAPQMPEKRVLELILNILQRKDTN------EIFAEPVDTKEVEDYYEIIKEPMDFGTMR 59
P+ P + K++ +++ +++ KD++ E+F + KE+ +YYE+I++P+DF ++
Sbjct: 8 PNPPNLT-KKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIK 66
Query: 60 AKLHEGMYTSLEQFE 74
++ Y SL E
Sbjct: 67 ERIRNHKYRSLNDLE 81
>pdb|2H60|A Chain A, Solution Structure Of Human Brg1 Bromodomain
Length = 128
Score = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 44/75 (58%), Gaps = 7/75 (9%)
Query: 6 PSAPQMPEKRVLELILNILQRKDTN------EIFAEPVDTKEVEDYYEIIKEPMDFGTMR 59
P+ P + K++ +++ +++ KD++ E+F + KE+ +YYE+I++P+DF ++
Sbjct: 3 PNPPNLT-KKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIK 61
Query: 60 AKLHEGMYTSLEQFE 74
++ Y SL E
Sbjct: 62 ERIRNHKYRSLNDLE 76
>pdb|2E7N|A Chain A, Solution Structure Of The Second Bromodomain From Human
Bromodomain-Containing Protein 3
Length = 117
Score = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 33/57 (57%), Gaps = 4/57 (7%)
Query: 33 FAEPVDTK--EVEDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF--EVCSFFTLCLKF 85
F +PVD + E+ DY++IIK PMD T++ K+ Y + F +V F+ C K+
Sbjct: 36 FYKPVDAEALELHDYHDIIKHPMDLSTVKRKMDGREYPDAQGFAADVRLMFSNCYKY 92
>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 = 9e-04, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 43/74 (58%), Gaps = 6/74 (8%)
Query: 6 PSAPQMPEKRVLELILNILQRKDTN-----EIFAEPVDTKEVEDYYEIIKEPMDFGTMRA 60
P+ P++ K++ +I ++ KD++ E+F + KE+ +YYE+I++P+DF ++
Sbjct: 9 PNPPKL-TKQMNAIIDTVINYKDSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKE 67
Query: 61 KLHEGMYTSLEQFE 74
++ Y SL E
Sbjct: 68 RIRNHKYRSLGDLE 81
>pdb|2GRC|A Chain A, 1.5 A Structure Of Bromodomain From Human Brg1 Protein,
A Central Atpase Of SwiSNF REMODELING COMPLEX
Length = 129
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 44/75 (58%), Gaps = 7/75 (9%)
Query: 6 PSAPQMPEKRVLELILNILQRKDTN------EIFAEPVDTKEVEDYYEIIKEPMDFGTMR 59
P+ P + K++ +++ +++ KD++ E+F + KE+ +YYE+I++P+DF ++
Sbjct: 7 PNPPNLT-KKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIK 65
Query: 60 AKLHEGMYTSLEQFE 74
++ Y SL E
Sbjct: 66 ERIRNHKYRSLNDLE 80
>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 = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 4/57 (7%)
Query: 33 FAEPVDTKEV--EDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF--EVCSFFTLCLKF 85
F PVD + +YY+++K PMD GT++ K+ Y +F +V F C K+
Sbjct: 38 FYNPVDADALGLHNYYDVVKNPMDLGTIKGKMDNQEYKDAYEFAADVRLMFMNCYKY 94
>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 = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 32/54 (59%), Gaps = 4/54 (7%)
Query: 33 FAEPVDTKEVE--DYYEIIKEPMDFGTMRAKLHEGMYTSLEQF--EVCSFFTLC 82
F +PVD ++ DY++IIK+PMD GT++ +L Y + + + + FT C
Sbjct: 53 FRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNC 106
>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 = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 32/54 (59%), Gaps = 4/54 (7%)
Query: 33 FAEPVDTKEVE--DYYEIIKEPMDFGTMRAKLHEGMYTSLEQF--EVCSFFTLC 82
F +PVD ++ DY++IIK+PMD GT++ +L Y + + + + FT C
Sbjct: 53 FRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNC 106
>pdb|1F68|A Chain A, Nmr Solution Structure Of The Bromodomain From Human
Gcn5
Length = 103
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 23/41 (56%)
Query: 33 FAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF 73
F EPV E DYYE+I+ P+D TM +L Y + + F
Sbjct: 24 FMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLF 64
>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 = 37.7 bits (86), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 23/41 (56%)
Query: 33 FAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF 73
F EPV E DYYE+I+ P+D TM +L Y + + F
Sbjct: 28 FMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLF 68
>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 = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 33/57 (57%), Gaps = 4/57 (7%)
Query: 33 FAEPVDTKEV--EDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF--EVCSFFTLCLKF 85
F +PVD + + DY +IIK PMD T+++KL Y ++F +V F+ C K+
Sbjct: 46 FYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKY 102
>pdb|2LSP|B Chain B, Solution Structures Of Brd4 Second Bromodomain With
Nf-Kb-K310ac Peptide
Length = 128
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 33/57 (57%), Gaps = 4/57 (7%)
Query: 33 FAEPVDTKEV--EDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF--EVCSFFTLCLKF 85
F +PVD + + DY +IIK PMD T+++KL Y ++F +V F+ C K+
Sbjct: 44 FYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKY 100
>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 = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 33/57 (57%), Gaps = 4/57 (7%)
Query: 33 FAEPVDTKEV--EDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF--EVCSFFTLCLKF 85
F +PVD + + DY +IIK PMD T+++KL Y ++F +V F+ C K+
Sbjct: 33 FYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLESREYRDAQEFGADVRLMFSNCYKY 89
>pdb|2I8N|A Chain A, Solution Structure Of The Second Bromodomain Of Brd4
Length = 114
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 33/57 (57%), Gaps = 4/57 (7%)
Query: 33 FAEPVDTKEV--EDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF--EVCSFFTLCLKF 85
F +PVD + + DY +IIK PMD T+++KL Y ++F +V F+ C K+
Sbjct: 25 FYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKY 81
>pdb|3HMH|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Tbp-Associated Factor Rna Polymerase 1-Like (Taf1l)
Length = 155
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 24/41 (58%)
Query: 33 FAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF 73
F PV+ K V DYY++I P+D T+R + + Y S E F
Sbjct: 48 FHHPVNKKFVPDYYKMIVNPVDLETIRKNISKHKYQSRESF 88
>pdb|3DAI|A Chain A, Crystal Structure Of The Bromodomain Of The Human Atad2
Length = 130
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 27/42 (64%)
Query: 32 IFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF 73
+F +PVD EV DY +IK+PMD ++ +K+ Y +++ +
Sbjct: 30 VFTKPVDPDEVPDYVTVIKQPMDLSSVISKIDLHKYLTVKDY 71
>pdb|3FKM|X Chain X, Plasmodium Falciparum Bromodomain-Containing Protein
Pf10_0328
Length = 166
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 33/58 (56%), Gaps = 3/58 (5%)
Query: 18 ELILNILQRKDTNEIFAEPVDTKEVE--DYYEIIKEPMDFGTMRAKLHEGMYTSLEQF 73
+LIL+ L + + IF + VD K+ DYY++IK P F ++ KL +G Y +F
Sbjct: 28 QLILS-LSKYEGGHIFEKLVDAKKQNCPDYYDVIKNPXSFSCIKTKLKKGQYAYPSEF 84
>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 = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 22/38 (57%), Gaps = 2/38 (5%)
Query: 33 FAEPVDTKEVE--DYYEIIKEPMDFGTMRAKLHEGMYT 68
F PVD +++ DYY IIK PMD T++ +L Y
Sbjct: 34 FQRPVDAVKLQLPDYYTIIKNPMDLNTIKKRLENKYYA 71
>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 = 35.8 bits (81), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 29/51 (56%), Gaps = 2/51 (3%)
Query: 19 LILNILQRKDTNEIFAEPVDTKEVE--DYYEIIKEPMDFGTMRAKLHEGMY 67
++L L + + F +PVD +++ DYY IIK PMD T++ +L Y
Sbjct: 21 VVLKALWKHGFSWPFQQPVDAVKLKLPDYYTIIKTPMDLNTIKKRLENKYY 71
>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 = 35.0 bits (79), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 31/54 (57%), Gaps = 4/54 (7%)
Query: 33 FAEPVDTKEVE--DYYEIIKEPMDFGTMRAKLHEGMYTSLEQF--EVCSFFTLC 82
F +PVD ++ DY++IIK+P D GT++ +L Y + + + + FT C
Sbjct: 33 FRQPVDAVKLGLPDYHKIIKQPXDXGTIKRRLENNYYWAASECXQDFNTXFTNC 86
>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 = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 31/54 (57%), Gaps = 4/54 (7%)
Query: 33 FAEPVDTKEVE--DYYEIIKEPMDFGTMRAKLHEGMYTSLEQF--EVCSFFTLC 82
F +PVD ++ DY++IIK+P D GT++ +L Y + + + + FT C
Sbjct: 27 FRQPVDAVKLGLPDYHKIIKQPXDXGTIKRRLENNYYWAASECXQDFNTXFTNC 80
>pdb|2DKW|A Chain A, Solution Structure Of The Bromodomain Of Human Protein
Kiaa1240
Length = 131
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 39/71 (54%), Gaps = 4/71 (5%)
Query: 3 SSVPSAPQMPEKRVLELILNILQRKDTNEIFAEPVDTKEVEDYYEIIKEPMDFGTMRAKL 62
SS S + E R+ + ++ +R T++ F + +K V DY E+IKEPMD T+ K+
Sbjct: 2 SSGSSGNTLRELRLF--LRDVTKRLATDKRFN--IFSKPVSDYLEVIKEPMDLSTVITKI 57
Query: 63 HEGMYTSLEQF 73
+ Y + + F
Sbjct: 58 DKHNYLTAKDF 68
>pdb|2DWW|A Chain A, Crystal Structure Of Bromodomain-Containing Protein 4
Length = 114
Score = 35.0 bits (79), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 32/57 (56%), Gaps = 4/57 (7%)
Query: 33 FAEPVDTKEV--EDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF--EVCSFFTLCLKF 85
F +PVD + + DY +IIK P D T+++KL Y ++F +V F+ C K+
Sbjct: 31 FYKPVDVEALGLHDYCDIIKHPXDXSTIKSKLESREYRDAQEFGADVRLXFSNCYKY 87
>pdb|3HMF|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 116
Score = 34.3 bits (77), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 18/28 (64%)
Query: 44 DYYEIIKEPMDFGTMRAKLHEGMYTSLE 71
DYY IIKEP+D T+ ++ G Y S+
Sbjct: 44 DYYAIIKEPIDLKTIAQRIQNGSYKSIH 71
>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 = 34.3 bits (77), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 18/28 (64%)
Query: 44 DYYEIIKEPMDFGTMRAKLHEGMYTSLE 71
DYY IIKEP+D T+ ++ G Y S+
Sbjct: 47 DYYAIIKEPIDLKTIAQRIQNGSYKSIH 74
>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 = 34.3 bits (77), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 18/28 (64%)
Query: 44 DYYEIIKEPMDFGTMRAKLHEGMYTSLE 71
DYY IIKEP+D T+ ++ G Y S+
Sbjct: 46 DYYAIIKEPIDLKTIAQRIQNGSYKSIH 73
>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 = 33.9 bits (76), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 34/67 (50%), Gaps = 6/67 (8%)
Query: 13 EKRVLELIL------NILQRKDTNEIFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGM 66
EK++ + +L N+ + +E F E VD E+ +YYEI+ PM ++ L G
Sbjct: 208 EKKINQALLGASSPKNLDDKVKLSEPFMELVDKDELPEYYEIVHSPMALSIVKQNLEIGQ 267
Query: 67 YTSLEQF 73
Y+ + F
Sbjct: 268 YSKIYDF 274
>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 = 33.9 bits (76), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 34/67 (50%), Gaps = 6/67 (8%)
Query: 13 EKRVLELIL------NILQRKDTNEIFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGM 66
EK++ + +L N+ + +E F E VD E+ +YYEI+ PM ++ L G
Sbjct: 193 EKKINQALLGASSPKNLDDKVKLSEPFMELVDKDELPEYYEIVHSPMALSIVKQNLEIGQ 252
Query: 67 YTSLEQF 73
Y+ + F
Sbjct: 253 YSKIYDF 259
>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 = 33.1 bits (74), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 40/78 (51%), Gaps = 6/78 (7%)
Query: 13 EKRVLELILNILQRKDTNEIFAEPVDTKEVEDYYEIIKEPMDFGTMRAKL---HEGMYTS 69
++R E +L L + + F EPV + +YY+IIK+PMD T++ KL H Y
Sbjct: 82 DQRKCERLLLYLYCHELSIEFQEPV-PASIPNYYKIIKKPMDLSTVKKKLQKKHSQHYQI 140
Query: 70 LEQF--EVCSFFTLCLKF 85
+ F +V F C +F
Sbjct: 141 PDDFVADVRLIFKNCERF 158
>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 = 32.0 bits (71), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 34/63 (53%), Gaps = 5/63 (7%)
Query: 18 ELILNILQRKDTN-EIFAEPV----DTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLEQ 72
E+ I+ KD++ + A P+ K+ DYYE I +P+D T+ ++ G Y ++E
Sbjct: 16 EICDGIISYKDSSRQALAAPLLNLPPKKKNADYYEKISDPLDLITIEKQILTGYYKTVEA 75
Query: 73 FEV 75
F+
Sbjct: 76 FDA 78
>pdb|2R0S|A Chain A, Crystal Structure Of The Rsc4 Tandem Bromodomain
Length = 285
Score = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 33/67 (49%), Gaps = 6/67 (8%)
Query: 13 EKRVLELIL------NILQRKDTNEIFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGM 66
EK++ + +L N+ + +E F E VD E+ +YYEI+ P ++ L G
Sbjct: 152 EKKINQALLGASSPKNLDDKVKLSEPFXELVDKDELPEYYEIVHSPXALSIVKQNLEIGQ 211
Query: 67 YTSLEQF 73
Y+ + F
Sbjct: 212 YSKIYDF 218
>pdb|2R0Y|A Chain A, Structure Of The Rsc4 Tandem Bromodomain In Complex With
An Acetylated H3 Peptide
Length = 311
Score = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 33/67 (49%), Gaps = 6/67 (8%)
Query: 13 EKRVLELIL------NILQRKDTNEIFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGM 66
EK++ + +L N+ + +E F E VD E+ +YYEI+ P ++ L G
Sbjct: 158 EKKINQALLGASSPKNLDDKVKLSEPFXELVDKDELPEYYEIVHSPXALSIVKQNLEIGQ 217
Query: 67 YTSLEQF 73
Y+ + F
Sbjct: 218 YSKIYDF 224
>pdb|2YQD|A Chain A, Solution Structure Of The Fifth Bromodomain From Mouse
Polybromo-1
Length = 120
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 20/40 (50%)
Query: 32 IFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLE 71
IF E+ DYY IK+PMD +R+ + Y ++
Sbjct: 41 IFLRLPSRSELPDYYLTIKKPMDMEKIRSHMMANKYQDID 80
>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 = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 20/42 (47%)
Query: 32 IFAEPVDTKEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLEQF 73
IF E+ DYY IK+PMD +R+ + Y ++
Sbjct: 41 IFLRLPSRSELPDYYLTIKKPMDMEKIRSHMMANKYQDIDSM 82
>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 = 25.8 bits (55), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 16/32 (50%)
Query: 40 KEVEDYYEIIKEPMDFGTMRAKLHEGMYTSLE 71
K+ DYY+II EPMD + + Y E
Sbjct: 59 KDYPDYYKIILEPMDLKIIEHNIRNDKYAGEE 90
>pdb|3IU5|A Chain A, Crystal Structure Of The First Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 116
Score = 25.8 bits (55), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 10/32 (31%), Positives = 18/32 (56%)
Query: 31 EIFAEPVDTKEVEDYYEIIKEPMDFGTMRAKL 62
E+F + DYYE++ +P+D ++ KL
Sbjct: 30 ELFIRAPKRRNQPDYYEVVSQPIDLMKIQQKL 61
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
0.322 0.139 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,894,353
Number of Sequences: 62578
Number of extensions: 105377
Number of successful extensions: 311
Number of sequences better than 100.0: 78
Number of HSP's better than 100.0 without gapping: 76
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 232
Number of HSP's gapped (non-prelim): 81
length of query: 96
length of database: 14,973,337
effective HSP length: 62
effective length of query: 34
effective length of database: 11,093,501
effective search space: 377179034
effective search space used: 377179034
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)