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= psy1228
(202 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 100 bits (250), Expect = 4e-22, Method: Compositional matrix adjust.
Identities = 51/115 (44%), Positives = 76/115 (66%), Gaps = 1/115 (0%)
Query: 83 KRRLYTLCKCLMDYRD-QDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEK 141
K+R+ L +++ R+ GR+ +FM PS K YP+YYK+I +P+D+ IE NI+N+K
Sbjct: 26 KQRMKILFNVVLEAREPGSGRRLCDLFMVKPSKKDYPDYYKIILEPMDLKIIEHNIRNDK 85
Query: 142 YRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERVAELGPLPSGEDF 196
Y ++ ++ D +LMF N R +NE GS +Y DA LEK+L E+ ELGPLP +D
Sbjct: 86 YAGEEGMIEDMKLMFRNARHYNEEGSQVYNDAHILEKLLKEKRKELGPLPDDDDM 140
>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 = 89.4 bits (220), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 45/110 (40%), Positives = 72/110 (65%), Gaps = 2/110 (1%)
Query: 73 RGKYLDNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQ 132
+ KY+ P++++L + + + +Y D+ GR+ +F+ LPS P+YY IK+P+DM +
Sbjct: 9 KSKYM--TPMQQKLNEVYEAVKNYTDKRGRRLSAIFLRLPSRSELPDYYLTIKKPMDMEK 66
Query: 133 IESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLE 182
I S++ KY+ D ++ DF +MF N +NEP SLIY+DA+ L KVLLE
Sbjct: 67 IRSHMMANKYQDIDSMVEDFVMMFNNACTYNEPESLIYKDALVLHKVLLE 116
>pdb|2YQD|A Chain A, Solution Structure Of The Fifth Bromodomain From Mouse
Polybromo-1
Length = 120
Score = 88.6 bits (218), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 43/102 (42%), Positives = 68/102 (66%)
Query: 81 PLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNE 140
P++++L + + + +Y D+ GR+ +F+ LPS P+YY IK+P+DM +I S++
Sbjct: 15 PMQQKLNEVYEAVKNYTDKRGRRLSAIFLRLPSRSELPDYYLTIKKPMDMEKIRSHMMAN 74
Query: 141 KYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLE 182
KY+ D ++ DF +MF N +NEP SLIY+DA+ L KVLLE
Sbjct: 75 KYQDIDSMVEDFVMMFNNACTYNEPESLIYKDALVLHKVLLE 116
>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 = 81.3 bits (199), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 38/99 (38%), Positives = 64/99 (64%)
Query: 82 LKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEK 141
L +++ + +++Y+D GRQ +F++LPS K PEYY++I++P+D +I+ I+N K
Sbjct: 14 LTKQMNAIIDTVINYKDSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHK 73
Query: 142 YRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVL 180
YRS ++ D L+ N + FN GS IYED++ L+ V
Sbjct: 74 YRSLGDLEKDVMLLCHNAQTFNLEGSQIYEDSIVLQSVF 112
>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 = 79.3 bits (194), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 39/99 (39%), Positives = 65/99 (65%), Gaps = 1/99 (1%)
Query: 82 LKRRLYTLCKCLMDYRDQD-GRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNE 140
L +++ + ++ Y+D GRQ +F++LPS K PEYY++I++P+D +I+ I+N
Sbjct: 13 LTKKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNH 72
Query: 141 KYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKV 179
KYRS +++ D L+ N + FN GSLIYED++ L+ V
Sbjct: 73 KYRSLNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSV 111
>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 = 79.3 bits (194), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 39/99 (39%), Positives = 65/99 (65%), Gaps = 1/99 (1%)
Query: 82 LKRRLYTLCKCLMDYRDQD-GRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNE 140
L +++ + ++ Y+D GRQ +F++LPS K PEYY++I++P+D +I+ I+N
Sbjct: 12 LTKKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNH 71
Query: 141 KYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKV 179
KYRS +++ D L+ N + FN GSLIYED++ L+ V
Sbjct: 72 KYRSLNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSV 110
>pdb|2H60|A Chain A, Solution Structure Of Human Brg1 Bromodomain
Length = 128
Score = 79.0 bits (193), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 39/99 (39%), Positives = 65/99 (65%), Gaps = 1/99 (1%)
Query: 82 LKRRLYTLCKCLMDYRDQD-GRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNE 140
L +++ + ++ Y+D GRQ +F++LPS K PEYY++I++P+D +I+ I+N
Sbjct: 8 LTKKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNH 67
Query: 141 KYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKV 179
KYRS +++ D L+ N + FN GSLIYED++ L+ V
Sbjct: 68 KYRSLNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSV 106
>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 = 77.0 bits (188), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 38/106 (35%), Positives = 62/106 (58%)
Query: 82 LKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEK 141
LK L L + ++ + GR +F +LPS YP+YY +IK+PID+ I IQN
Sbjct: 10 LKEILEQLLEAIVVATNPSGRLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGS 69
Query: 142 YRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERVAEL 187
Y+S + D L+ N + +NEPGS +++DA +++K+ + AE+
Sbjct: 70 YKSIHAMAKDIDLLAKNAKTYNEPGSQVFKDANSIKKIFYMKKAEI 115
>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 = 76.6 bits (187), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 38/106 (35%), Positives = 62/106 (58%)
Query: 82 LKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEK 141
LK L L + ++ + GR +F +LPS YP+YY +IK+PID+ I IQN
Sbjct: 9 LKEILEQLLEAIVVATNPSGRLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGS 68
Query: 142 YRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERVAEL 187
Y+S + D L+ N + +NEPGS +++DA +++K+ + AE+
Sbjct: 69 YKSIHAMAKDIDLLAKNAKTYNEPGSQVFKDANSIKKIFYMKKAEI 114
>pdb|3HMF|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 116
Score = 76.3 bits (186), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 38/106 (35%), Positives = 62/106 (58%)
Query: 82 LKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEK 141
LK L L + ++ + GR +F +LPS YP+YY +IK+PID+ I IQN
Sbjct: 7 LKEILEQLLEAIVVATNPSGRLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGS 66
Query: 142 YRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERVAEL 187
Y+S + D L+ N + +NEPGS +++DA +++K+ + AE+
Sbjct: 67 YKSIHAMAKDIDLLAKNAKTYNEPGSQVFKDANSIKKIFYMKKAEI 112
>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 = 70.5 bits (171), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 32/81 (39%), Positives = 50/81 (61%)
Query: 108 FMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGS 167
F LPS K YP+YY+ IK PI + QI + ++N++Y + D + D LMF N + +N P S
Sbjct: 44 FYHLPSKKKYPDYYQQIKMPISLQQIRTKLKNQEYETLDHLECDLNLMFENAKRYNVPNS 103
Query: 168 LIYEDAVNLEKVLLERVAELG 188
IY+ + L++V+ + EL
Sbjct: 104 AIYKRVLKLQQVMQAKKKELA 124
>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 = 64.7 bits (156), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 29/70 (41%), Positives = 44/70 (62%)
Query: 118 PEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLE 177
P+Y+K+IKQP+DM I+ ++N Y + E + DF MF NC +N+P I A LE
Sbjct: 65 PDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLE 124
Query: 178 KVLLERVAEL 187
K+ L++VA +
Sbjct: 125 KIFLQKVASM 134
>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 = 64.7 bits (156), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 29/70 (41%), Positives = 44/70 (62%)
Query: 118 PEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLE 177
P+Y+K+IKQP+DM I+ ++N Y + E + DF MF NC +N+P I A LE
Sbjct: 65 PDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLE 124
Query: 178 KVLLERVAEL 187
K+ L++VA +
Sbjct: 125 KIFLQKVASM 134
>pdb|4DON|A Chain A, Brd4 Bromodomain 1 Complex With A Fragment
3,4-dihydro-3-methyl-2(1h)- Quinazolinon
Length = 145
Score = 64.3 bits (155), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 30/70 (42%), Positives = 44/70 (62%)
Query: 118 PEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLE 177
P+YYK+IK P+DM I+ ++N Y + E + DF MF NC +N+PG I A LE
Sbjct: 74 PDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEALE 133
Query: 178 KVLLERVAEL 187
K+ L+++ EL
Sbjct: 134 KLFLQKINEL 143
>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 = 63.9 bits (154), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 30/70 (42%), Positives = 44/70 (62%)
Query: 118 PEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLE 177
P+YYK+IK P+DM I+ ++N Y + E + DF MF NC +N+PG I A LE
Sbjct: 58 PDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEALE 117
Query: 178 KVLLERVAEL 187
K+ L+++ EL
Sbjct: 118 KLFLQKINEL 127
>pdb|2YW5|A Chain A, Solution Structure Of The Bromodomain From Human
Bromodomain Containing Protein 3
Length = 138
Score = 63.9 bits (154), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 33/85 (38%), Positives = 48/85 (56%), Gaps = 8/85 (9%)
Query: 118 PEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLE 177
P+Y+K+IK P+DM I+ ++N Y S E + DF MF NC +N+P I A LE
Sbjct: 54 PDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQALE 113
Query: 178 KVLLERVAE--------LGPLPSGE 194
K+ L++VA+ L P P G+
Sbjct: 114 KIFLQKVAQMPQEEVELLPPAPKGK 138
>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 = 63.9 bits (154), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 30/70 (42%), Positives = 44/70 (62%)
Query: 118 PEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLE 177
P+YYK+IK P+DM I+ ++N Y + E + DF MF NC +N+PG I A LE
Sbjct: 54 PDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEALE 113
Query: 178 KVLLERVAEL 187
K+ L+++ EL
Sbjct: 114 KLFLQKINEL 123
>pdb|4HBW|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Quinazoline Ligand
Length = 127
Score = 63.5 bits (153), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 30/70 (42%), Positives = 44/70 (62%)
Query: 118 PEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLE 177
P+YYK+IK P+DM I+ ++N Y + E + DF MF NC +N+PG I A LE
Sbjct: 54 PDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEALE 113
Query: 178 KVLLERVAEL 187
K+ L+++ EL
Sbjct: 114 KLFLQKINEL 123
>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 = 63.5 bits (153), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 29/70 (41%), Positives = 44/70 (62%)
Query: 118 PEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLE 177
P+Y+K+IK P+DM I+ ++N Y S E + DF MF NC +N+P I A LE
Sbjct: 50 PDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQALE 109
Query: 178 KVLLERVAEL 187
K+ L++VA++
Sbjct: 110 KIFLQKVAQM 119
>pdb|2L5E|A Chain A, Complex Between Bd1 Of Brd3 And Gata-1 C-Tail
Length = 128
Score = 63.5 bits (153), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 29/70 (41%), Positives = 44/70 (62%)
Query: 118 PEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLE 177
P+Y+K+IK P+DM I+ ++N Y S E + DF MF NC +N+P I A LE
Sbjct: 52 PDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQALE 111
Query: 178 KVLLERVAEL 187
K+ L++VA++
Sbjct: 112 KIFLQKVAQM 121
>pdb|3IU5|A Chain A, Crystal Structure Of The First Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 116
Score = 62.8 bits (151), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 30/95 (31%), Positives = 56/95 (58%)
Query: 87 YTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQD 146
+ L + DY+D+ GR +F+ P + P+YY+V+ QPID+ +I+ ++ E+Y +
Sbjct: 11 HELYNTIRDYKDEQGRLLCELFIRAPKRRNQPDYYEVVSQPIDLMKIQQKLKMEEYDDVN 70
Query: 147 EILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLL 181
+ +DF+L+F N + + +P S Y+ A L + L
Sbjct: 71 LLTADFQLLFNNAKSYYKPDSPEYKAACKLWDLYL 105
>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 = 61.2 bits (147), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 31/87 (35%), Positives = 48/87 (55%), Gaps = 2/87 (2%)
Query: 105 MLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNE--KYRSQDEILSDFRLMFGNCREF 162
M + + P P+YYK+IK P+D+ I+ +Q + Y ++ ++DFRL+F NC EF
Sbjct: 37 MSLAFQDPVPLTVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCAEF 96
Query: 163 NEPGSLIYEDAVNLEKVLLERVAELGP 189
NEP S + + LE E + L P
Sbjct: 97 NEPDSEVANAGIKLENYFEELLKNLYP 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 = 60.8 bits (146), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 31/87 (35%), Positives = 48/87 (55%), Gaps = 2/87 (2%)
Query: 105 MLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNE--KYRSQDEILSDFRLMFGNCREF 162
M + + P P+YYK+IK P+D+ I+ +Q + Y ++ ++DFRL+F NC EF
Sbjct: 98 MSLAFQDPVPLTVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCAEF 157
Query: 163 NEPGSLIYEDAVNLEKVLLERVAELGP 189
NEP S + + LE E + L P
Sbjct: 158 NEPDSEVANAGIKLENYFEELLKNLYP 184
>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 = 59.3 bits (142), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 44/70 (62%)
Query: 118 PEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLE 177
P+YY +IK P+D+ I+ ++N+ Y E + DF MF NC +N+PG I A LE
Sbjct: 46 PDYYTIIKNPMDLNTIKKRLENKYYAKASECIEDFNTMFSNCYLYNKPGDDIVLMAQALE 105
Query: 178 KVLLERVAEL 187
K+ +++++++
Sbjct: 106 KLFMQKLSQM 115
>pdb|3AQA|A Chain A, Crystal Structure Of The Human Brd2 Bd1 Bromodomain In
Complex With A Brd2-Interactive Compound, Bic1
pdb|3AQA|B Chain B, Crystal Structure Of The Human Brd2 Bd1 Bromodomain In
Complex With A Brd2-Interactive Compound, Bic1
pdb|3AQA|C Chain C, Crystal Structure Of The Human Brd2 Bd1 Bromodomain In
Complex With A Brd2-Interactive Compound, Bic1
Length = 128
Score = 57.4 bits (137), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 39/68 (57%)
Query: 118 PEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLE 177
P+Y+K+IKQP D I+ ++N Y + E DF F NC +N+P I A LE
Sbjct: 45 PDYHKIIKQPXDXGTIKRRLENNYYWAASECXQDFNTXFTNCYIYNKPTDDIVLXAQTLE 104
Query: 178 KVLLERVA 185
K+ L++VA
Sbjct: 105 KIFLQKVA 112
>pdb|1X0J|A Chain A, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2
pdb|1X0J|B Chain B, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2
pdb|1X0J|C Chain C, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2
pdb|2DVQ|A Chain A, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2 Complexed With Acetylated Histone H4
Peptide
pdb|2DVQ|B Chain B, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2 Complexed With Acetylated Histone H4
Peptide
pdb|2DVQ|C Chain C, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2 Complexed With Acetylated Histone H4
Peptide
pdb|2DVR|A Chain A, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2 Complexed With Acetylated Histone H4
Peptide
pdb|2DVR|B Chain B, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2 Complexed With Acetylated Histone H4
Peptide
pdb|2DVR|C Chain C, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2 Complexed With Acetylated Histone H4
Peptide
pdb|2DVS|A Chain A, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2 Complexed With Acetylated Histone H4
Peptide
pdb|2DVS|B Chain B, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2 Complexed With Acetylated Histone H4
Peptide
pdb|2DVS|C Chain C, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2 Complexed With Acetylated Histone H4
Peptide
Length = 122
Score = 57.0 bits (136), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 39/68 (57%)
Query: 118 PEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLE 177
P+Y+K+IKQP D I+ ++N Y + E DF F NC +N+P I A LE
Sbjct: 39 PDYHKIIKQPXDXGTIKRRLENNYYWAASECXQDFNTXFTNCYIYNKPTDDIVLXAQTLE 98
Query: 178 KVLLERVA 185
K+ L++VA
Sbjct: 99 KIFLQKVA 106
>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 = 56.2 bits (134), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 43/70 (61%)
Query: 118 PEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLE 177
P+YY +IK P+D+ I+ ++N+ Y E + DF MF NC +N+ G I A LE
Sbjct: 47 PDYYTIIKTPMDLNTIKKRLENKYYEKASECIEDFNTMFSNCYLYNKTGDDIVVMAQALE 106
Query: 178 KVLLERVAEL 187
K+ +++++++
Sbjct: 107 KLFMQKLSQM 116
>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 = 56.2 bits (134), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 34/116 (29%), Positives = 59/116 (50%), Gaps = 3/116 (2%)
Query: 74 GKYLDNKPLK-RRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQ 132
G ++ +P +LY+ K ++ + Q FME P YY+VI+ P+D+
Sbjct: 1 GSHMSKEPRDPDQLYSTLKSIL--QQVKSHQSAWPFMEPVKRTEAPGYYEVIRFPMDLKT 58
Query: 133 IESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERVAELG 188
+ ++N Y S+ ++D + +F NC+E+N P S Y+ A LEK ++ E G
Sbjct: 59 MSERLKNRYYVSKKLFMADLQRVFTNCKEYNPPESEYYKCANILEKFFFSKIKEAG 114
>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 = 55.8 bits (133), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 32/104 (30%), Positives = 54/104 (51%), Gaps = 2/104 (1%)
Query: 85 RLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRS 144
+LY+ K ++ + Q FME P YY+VI+ P+D+ + ++N Y S
Sbjct: 15 QLYSTLKSIL--QQVKSHQSAWPFMEPVKRTEAPGYYEVIRFPMDLKTMSERLKNRYYVS 72
Query: 145 QDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERVAELG 188
+ ++D + +F NC+E+N P S Y+ A LEK ++ E G
Sbjct: 73 KKLFMADLQRVFTNCKEYNPPESEYYKCANILEKFFFSKIKEAG 116
>pdb|1E6I|A Chain A, Bromodomain From Gcn5 Complexed With Acetylated H4 Peptide
Length = 121
Score = 55.1 bits (131), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 43/70 (61%)
Query: 118 PEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLE 177
P+YY IK+P+D+ +E +++ KY+ ++ + D RL+F NCR +N + Y+ A LE
Sbjct: 44 PDYYDFIKEPMDLSTMEIKLESNKYQKMEDFIYDARLVFNNCRMYNGENTSYYKYANRLE 103
Query: 178 KVLLERVAEL 187
K +V E+
Sbjct: 104 KFFNNKVKEI 113
>pdb|2G4A|A Chain A, Solution Structure Of A Bromodomain From Ring3 Protein
Length = 116
Score = 53.9 bits (128), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 40/72 (55%)
Query: 119 EYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEK 178
+Y+ +IK P+D+ ++ ++N YR E +D RLMF NC ++N P + A L+
Sbjct: 38 DYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKYNPPDHDVVAMARKLQD 97
Query: 179 VLLERVAELGPL 190
V R A++ L
Sbjct: 98 VFEFRYAKMPDL 109
>pdb|3ONI|A Chain A, Crystal Structure Of The Second Bromodomain Of Human Brd2
In Complex With The Inhibitor Jq1
Length = 114
Score = 53.9 bits (128), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 39/69 (56%)
Query: 119 EYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEK 178
+Y+ +IK P+D+ ++ ++N YR E +D RLMF NC ++N P + A L+
Sbjct: 44 DYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKYNPPDHDVVAMARKLQD 103
Query: 179 VLLERVAEL 187
V R A++
Sbjct: 104 VFEFRYAKM 112
>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 = 53.9 bits (128), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 39/69 (56%)
Query: 119 EYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEK 178
+Y+ +IK P+D+ ++ ++N YR E +D RLMF NC ++N P + A L+
Sbjct: 42 DYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKYNPPDHDVVAMARKLQD 101
Query: 179 VLLERVAEL 187
V R A++
Sbjct: 102 VFEFRYAKM 110
>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 = 53.9 bits (128), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 41/73 (56%)
Query: 119 EYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEK 178
+Y +IK P+DM I+S +++ +YR E +D RLMF NC ++N P + A L+
Sbjct: 46 DYCDIIKHPMDMSTIKSKLESREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQD 105
Query: 179 VLLERVAELGPLP 191
V R A++ P
Sbjct: 106 VFEMRFAKMPDEP 118
>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 = 53.1 bits (126), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 33/117 (28%), Positives = 55/117 (47%), Gaps = 16/117 (13%)
Query: 76 YLDNKPLKRRLYTLCKCLMDYRDQDGRQPML----------------MFMELPSAKIYPE 119
YL N +K +L L+D ++ Q +L FMEL PE
Sbjct: 186 YLINSEVKAKLLHYLNKLVDATEKKINQALLGASSPKNLDDKVKLSEPFMELVDKDELPE 245
Query: 120 YYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNL 176
YY+++ P+ + ++ N++ +Y + + D L+F N FN+P +LIY+DA L
Sbjct: 246 YYEIVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIFNDPSALIYKDATTL 302
Score = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 43/72 (59%), Gaps = 7/72 (9%)
Query: 108 FMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQD---EILSDFRLMFGNCREFNE 164
F++LPS K +P+YY I+QP+ + +I+S Y +D L D L+ NC+ +NE
Sbjct: 101 FIKLPSRKFHPQYYYKIQQPMSINEIKS----RDYEYEDGPSNFLLDVELLTKNCQAYNE 156
Query: 165 PGSLIYEDAVNL 176
SLI ++++ +
Sbjct: 157 YDSLIVKNSMQV 168
>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 = 52.8 bits (125), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 119 EYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEK 178
+Y +IK P+DM I+S ++ +YR E +D RLMF NC ++N P + A L+
Sbjct: 59 DYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQD 118
Query: 179 VLLERVAEL 187
V R A++
Sbjct: 119 VFEMRFAKM 127
>pdb|2R0V|A Chain A, Structure Of The Rsc4 Tandem Bromodomain Acetylated At K25
pdb|2R0V|B Chain B, Structure Of The Rsc4 Tandem Bromodomain Acetylated At K25
pdb|2R0V|C Chain C, Structure Of The Rsc4 Tandem Bromodomain Acetylated At K25
Length = 346
Score = 52.8 bits (125), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 33/120 (27%), Positives = 56/120 (46%), Gaps = 16/120 (13%)
Query: 73 RGKYLDNKPLKRRLYTLCKCLMDYRDQDGRQPML----------------MFMELPSAKI 116
+ YL N +K +L L+D ++ Q +L FMEL
Sbjct: 168 KRNYLINSEVKAKLLHYLNKLVDATEKKINQALLGASSPKNLDDKVKLSEPFMELVDKDE 227
Query: 117 YPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNL 176
PEYY+++ P+ + ++ N++ +Y + + D L+F N FN+P +LIY+DA L
Sbjct: 228 LPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIFNDPSALIYKDATTL 287
Score = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 43/72 (59%), Gaps = 7/72 (9%)
Query: 108 FMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQD---EILSDFRLMFGNCREFNE 164
F++LPS K +P+YY I+QP+ + +I+S Y +D L D L+ NC+ +NE
Sbjct: 86 FIKLPSRKFHPQYYYKIQQPMSINEIKS----RDYEYEDGPSNFLLDVELLTKNCQAYNE 141
Query: 165 PGSLIYEDAVNL 176
SLI ++++ +
Sbjct: 142 YDSLIVKNSMQV 153
>pdb|2I8N|A Chain A, Solution Structure Of The Second Bromodomain Of Brd4
Length = 114
Score = 52.8 bits (125), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 119 EYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEK 178
+Y +IK P+DM I+S ++ +YR E +D RLMF NC ++N P + A L+
Sbjct: 38 DYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQD 97
Query: 179 VLLERVAEL 187
V R A++
Sbjct: 98 VFEMRFAKM 106
>pdb|2LSP|B Chain B, Solution Structures Of Brd4 Second Bromodomain With
Nf-Kb-K310ac Peptide
Length = 128
Score = 52.8 bits (125), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 119 EYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEK 178
+Y +IK P+DM I+S ++ +YR E +D RLMF NC ++N P + A L+
Sbjct: 57 DYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQD 116
Query: 179 VLLERVAEL 187
V R A++
Sbjct: 117 VFEMRFAKM 125
>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 = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 41/77 (53%)
Query: 108 FMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGS 167
F+E P+YY VIK+P+D+ +E +Q Y E ++D +F NCR +N S
Sbjct: 34 FLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTAIFDNCRYYNPSDS 93
Query: 168 LIYEDAVNLEKVLLERV 184
Y+ A LE ++++
Sbjct: 94 PFYQCAEVLESFFVQKL 110
>pdb|3QZT|A Chain A, Crystal Structure Of Bptf Bromo In Complex With Histone
H4k16ac - Form Ii
Length = 115
Score = 51.6 bits (122), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 41/77 (53%)
Query: 108 FMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGS 167
F+E P+YY VIK+P+D+ +E +Q Y E ++D +F NCR +N S
Sbjct: 34 FLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDS 93
Query: 168 LIYEDAVNLEKVLLERV 184
Y+ A LE ++++
Sbjct: 94 PFYQCAEVLESFFVQKL 110
>pdb|3UV2|A Chain A, Crystal Structure Of The Bromodomain Of Human
Nucleosome-Remodeling Factor Subunit Bptf
Length = 126
Score = 51.6 bits (122), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 41/77 (53%)
Query: 108 FMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGS 167
F+E P+YY VIK+P+D+ +E +Q Y E ++D +F NCR +N S
Sbjct: 41 FLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDS 100
Query: 168 LIYEDAVNLEKVLLERV 184
Y+ A LE ++++
Sbjct: 101 PFYQCAEVLESFFVQKL 117
>pdb|3QZV|A Chain A, Crystal Structure Of Bptf Phd-Linker-Bromo In Complex With
Histone H4k12ac Peptide
Length = 174
Score = 51.2 bits (121), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 41/77 (53%)
Query: 108 FMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGS 167
F+E P+YY VIK+P+D+ +E +Q Y E ++D +F NCR +N S
Sbjct: 93 FLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDS 152
Query: 168 LIYEDAVNLEKVLLERV 184
Y+ A LE ++++
Sbjct: 153 PFYQCAEVLESFFVQKL 169
>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 = 51.2 bits (121), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 41/77 (53%)
Query: 108 FMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGS 167
F+E P+YY VIK+P+D+ +E +Q Y E ++D +F NCR +N S
Sbjct: 93 FLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDS 152
Query: 168 LIYEDAVNLEKVLLERV 184
Y+ A LE ++++
Sbjct: 153 PFYQCAEVLESFFVQKL 169
>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 = 50.1 bits (118), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 35/125 (28%), Positives = 54/125 (43%), Gaps = 10/125 (8%)
Query: 60 KVASTSKSPRALTRGKYLDNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPE 119
+ ST + LT D + LKR L +L + F+E P+
Sbjct: 55 QCQSTEDAXTVLTPLTEKDYEGLKRVLRSL----------QAHKXAWPFLEPVDPNDAPD 104
Query: 120 YYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKV 179
YY VIK+P D+ E +Q Y E ++D +F NCR +N S Y+ A LE
Sbjct: 105 YYGVIKEPXDLATXEERVQRRYYEKLTEFVADXTKIFDNCRYYNPSDSPFYQCAEVLESF 164
Query: 180 LLERV 184
++++
Sbjct: 165 FVQKL 169
>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 = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 39/72 (54%)
Query: 120 YYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKV 179
YY V+K P+D+ I+ + N++Y+ E +D RLMF NC ++N P + A L+ V
Sbjct: 52 YYDVVKNPMDLGTIKGKMDNQEYKDAYEFAADVRLMFMNCYKYNPPDHEVVAMARTLQDV 111
Query: 180 LLERVAELGPLP 191
A++ P
Sbjct: 112 FELHFAKIPDEP 123
>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 = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 48/88 (54%), Gaps = 6/88 (6%)
Query: 106 LMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQ---NEKYRSQDEILSDFRLMFGNCREF 162
+ F E A I P YYK+IK+P+D+ ++ +Q ++ Y+ D+ ++D RL+F NC F
Sbjct: 100 IEFQEPVPASI-PNYYKIIKKPMDLSTVKKKLQKKHSQHYQIPDDFVADVRLIFKNCERF 158
Query: 163 NEPGSL--IYEDAVNLEKVLLERVAELG 188
NE + +Y D + VA+ G
Sbjct: 159 NEMMKVVQVYADTQEINLKADSEVAQAG 186
>pdb|2R0S|A Chain A, Crystal Structure Of The Rsc4 Tandem Bromodomain
Length = 285
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 32/120 (26%), Positives = 54/120 (45%), Gaps = 16/120 (13%)
Query: 73 RGKYLDNKPLKRRLYTLCKCLMDYRDQDGRQPML----------------MFMELPSAKI 116
+ YL N +K +L L+D ++ Q +L F EL
Sbjct: 127 KRNYLINSEVKAKLLHYLNKLVDATEKKINQALLGASSPKNLDDKVKLSEPFXELVDKDE 186
Query: 117 YPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNL 176
PEYY+++ P + ++ N++ +Y + + D L+F N FN+P +LIY+DA L
Sbjct: 187 LPEYYEIVHSPXALSIVKQNLEIGQYSKIYDFIIDXLLVFQNAHIFNDPSALIYKDATTL 246
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 40/69 (57%), Gaps = 7/69 (10%)
Query: 108 FMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQD---EILSDFRLMFGNCREFNE 164
F++LPS K +P+YY I+QP + +I+S Y +D L D L+ NC+ +NE
Sbjct: 45 FIKLPSRKFHPQYYYKIQQPXSINEIKS----RDYEYEDGPSNFLLDVELLTKNCQAYNE 100
Query: 165 PGSLIYEDA 173
SLI +++
Sbjct: 101 YDSLIVKNS 109
>pdb|1EQF|A Chain A, Crystal Structure Of The Double Bromodomain Module From
Human Tafii250
Length = 280
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 40/79 (50%)
Query: 108 FMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGS 167
F + K P+YYKVI P+D+ I NI KY+S++ L D L+ N ++N P S
Sbjct: 170 FHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPES 229
Query: 168 LIYEDAVNLEKVLLERVAE 186
+ A + V + + E
Sbjct: 230 QYTKTAQEIVNVCYQTLTE 248
Score = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 37/77 (48%), Gaps = 3/77 (3%)
Query: 89 LCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEI 148
L + D RD P F +AK+ +YYK+I +P+D+ + N++ Y S++E
Sbjct: 31 LESIINDMRDLPNTYP---FHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEF 87
Query: 149 LSDFRLMFGNCREFNEP 165
L+ N +N P
Sbjct: 88 REHLELIVKNSATYNGP 104
>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 = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 40/79 (50%)
Query: 108 FMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGS 167
F + K P+YYKVI P+D+ I NI KY+S++ L D L+ N ++N P S
Sbjct: 191 FHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPES 250
Query: 168 LIYEDAVNLEKVLLERVAE 186
+ A + V + + E
Sbjct: 251 QYTKTAQEIVNVCYQTLTE 269
Score = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 37/77 (48%), Gaps = 3/77 (3%)
Query: 89 LCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEI 148
L + D RD P F +AK+ +YYK+I +P+D+ + N++ Y S++E
Sbjct: 52 LESIINDMRDLPNTYP---FHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEF 108
Query: 149 LSDFRLMFGNCREFNEP 165
L+ N +N P
Sbjct: 109 REHLELIVKNSATYNGP 125
>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 = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 41/73 (56%)
Query: 108 FMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGS 167
F+E P YY++IK P+D+ +E + Y +++E ++D + MF NCR++N S
Sbjct: 37 FLEPVDESYAPNYYQIIKAPMDISSMEKKLNGGLYCTKEEFVNDMKTMFRNCRKYNGESS 96
Query: 168 LIYEDAVNLEKVL 180
+ + NLE+
Sbjct: 97 EYTKMSDNLERCF 109
>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 = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 40/79 (50%)
Query: 108 FMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGS 167
F + K P+YYKVI P+D+ I NI KY+S++ L D L+ N ++N P S
Sbjct: 51 FHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPES 110
Query: 168 LIYEDAVNLEKVLLERVAE 186
+ A + V + + E
Sbjct: 111 QYTKTAQEIVNVCYQTLTE 129
>pdb|2R0Y|A Chain A, Structure Of The Rsc4 Tandem Bromodomain In Complex With
An Acetylated H3 Peptide
Length = 311
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 32/120 (26%), Positives = 54/120 (45%), Gaps = 16/120 (13%)
Query: 73 RGKYLDNKPLKRRLYTLCKCLMDYRDQDGRQPML----------------MFMELPSAKI 116
+ YL N +K +L L+D ++ Q +L F EL
Sbjct: 133 KRNYLINSEVKAKLLHYLNKLVDATEKKINQALLGASSPKNLDDKVKLSEPFXELVDKDE 192
Query: 117 YPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNL 176
PEYY+++ P + ++ N++ +Y + + D L+F N FN+P +LIY+DA L
Sbjct: 193 LPEYYEIVHSPXALSIVKQNLEIGQYSKIYDFIIDXLLVFQNAHIFNDPSALIYKDATTL 252
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 40/69 (57%), Gaps = 7/69 (10%)
Query: 108 FMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQD---EILSDFRLMFGNCREFNE 164
F++LPS K +P+YY I+QP + +I+S Y +D L D L+ NC+ +NE
Sbjct: 51 FIKLPSRKFHPQYYYKIQQPXSINEIKS----RDYEYEDGPSNFLLDVELLTKNCQAYNE 106
Query: 165 PGSLIYEDA 173
SLI +++
Sbjct: 107 YDSLIVKNS 115
>pdb|3UV5|A Chain A, Crystal Structure Of The Tandem Bromodomains Of Human
Transcription Initiation Factor Tfiid Subunit 1 (Taf1)
Length = 265
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 33/60 (55%)
Query: 108 FMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGS 167
F + K P+YYKVI P+D+ I NI KY+S++ L D L+ N ++N P S
Sbjct: 158 FHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPES 217
Score = 37.7 bits (86), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 37/77 (48%), Gaps = 3/77 (3%)
Query: 89 LCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEI 148
L + D RD P F +AK+ +YYK+I +P+D+ + N++ Y S++E
Sbjct: 19 LESIINDMRDLPNTYP---FHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEF 75
Query: 149 LSDFRLMFGNCREFNEP 165
L+ N +N P
Sbjct: 76 REHLELIVKNSATYNGP 92
>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 = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 30/99 (30%), Positives = 46/99 (46%)
Query: 80 KPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQN 139
KP + L C M + + + F+ + K+ P Y KVIK+P+D I + +
Sbjct: 6 KPKRDDSKDLALCSMILTEMETHEDAWPFLLPVNLKLVPGYKKVIKKPMDFSTIREKLSS 65
Query: 140 EKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEK 178
+Y + + D RL+F NC FNE S I N+ K
Sbjct: 66 GQYPNLETFALDVRLVFDNCETFNEDDSDIGRAGHNMRK 104
>pdb|3HMH|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Tbp-Associated Factor Rna Polymerase 1-Like (Taf1l)
Length = 155
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 40/79 (50%)
Query: 108 FMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGS 167
F + K P+YYK+I P+D+ I NI KY+S++ L D L+ N ++N P S
Sbjct: 48 FHHPVNKKFVPDYYKMIVNPVDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPES 107
Query: 168 LIYEDAVNLEKVLLERVAE 186
+ A + + + + E
Sbjct: 108 QYTKTAQEIVNICYQTITE 126
>pdb|2DWW|A Chain A, Crystal Structure Of Bromodomain-Containing Protein 4
Length = 114
Score = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 36/68 (52%)
Query: 119 EYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEK 178
+Y +IK P D I+S +++ +YR E +D RL F NC ++N P + A L+
Sbjct: 44 DYCDIIKHPXDXSTIKSKLESREYRDAQEFGADVRLXFSNCYKYNPPDHEVVAXARKLQD 103
Query: 179 VLLERVAE 186
V R A+
Sbjct: 104 VFEXRFAK 111
>pdb|2E7O|A Chain A, Solution Structure Of The Bromodomain From Human
Bromodomain Adjacent To Zinc Finger Domain 2b
Length = 112
Score = 48.1 bits (113), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 28/90 (31%), Positives = 43/90 (47%)
Query: 89 LCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEI 148
L C M + + + F+ + K+ P Y KVIK+P+D I + + +Y + +
Sbjct: 12 LALCSMILTEMETHEDAWPFLLPVNLKLVPGYKKVIKKPMDFSTIREKLSSGQYPNLETF 71
Query: 149 LSDFRLMFGNCREFNEPGSLIYEDAVNLEK 178
D RL+F NC FNE S I N+ K
Sbjct: 72 ALDVRLVFDNCETFNEDDSDIGRAGHNMRK 101
>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 = 47.4 bits (111), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 33/105 (31%), Positives = 52/105 (49%), Gaps = 4/105 (3%)
Query: 85 RLYTLCKCLMDYRDQDGRQPMLM-FMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYR 143
+LYT K L+ Q P FME P+YY+VI+ PID+ + +++ Y
Sbjct: 7 QLYTTLKNLLA---QIKSHPSAWPFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYV 63
Query: 144 SQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERVAELG 188
++ ++D + + NCRE+N P S A LEK ++ E G
Sbjct: 64 TRKLFVADLQRVIANCREYNPPDSEYCRCASALEKFFYFKLKEGG 108
>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 = 47.4 bits (111), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 28/93 (30%), Positives = 44/93 (47%), Gaps = 1/93 (1%)
Query: 85 RLYTLCKCLMDYRDQ-DGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYR 143
RL L L DQ + P +F + S K P+Y IK P+D + ++ + Y+
Sbjct: 10 RLTPLTVLLRSVLDQLQDKDPARIFAQPVSLKEVPDYLDHIKHPMDFATMRKRLEAQGYK 69
Query: 144 SQDEILSDFRLMFGNCREFNEPGSLIYEDAVNL 176
+ E DF L+ NC ++N ++ Y AV L
Sbjct: 70 NLHEFEEDFDLIIDNCMKYNARDTVFYRAAVRL 102
>pdb|1F68|A Chain A, Nmr Solution Structure Of The Bromodomain From Human Gcn5
Length = 103
Score = 46.6 bits (109), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 32/103 (31%), Positives = 51/103 (49%), Gaps = 4/103 (3%)
Query: 85 RLYTLCKCLMDYRDQDGRQPMLM-FMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYR 143
+LYT K L+ Q P FME P+YY+VI+ PID+ + +++ Y
Sbjct: 3 QLYTTLKNLLA---QIKSHPSAWPFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYV 59
Query: 144 SQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERVAE 186
++ ++D + + NCRE+N P S A LEK ++ E
Sbjct: 60 TRKLFVADLQRVIANCREYNPPDSEYCRCASALEKFFYFKLKE 102
>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 = 46.2 bits (108), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 36/69 (52%)
Query: 119 EYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEK 178
+Y+ +IK P+D+ ++ + +Y +D RLMF NC ++N P + A L+
Sbjct: 44 DYHDIIKHPMDLSTVKRKMDGREYPDAQGFAADVRLMFSNCYKYNPPDHEVVAMARKLQD 103
Query: 179 VLLERVAEL 187
V R A++
Sbjct: 104 VFEMRFAKM 112
>pdb|2E7N|A Chain A, Solution Structure Of The Second Bromodomain From Human
Bromodomain-Containing Protein 3
Length = 117
Score = 45.8 bits (107), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 36/69 (52%)
Query: 119 EYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEK 178
+Y+ +IK P+D+ ++ + +Y +D RLMF NC ++N P + A L+
Sbjct: 49 DYHDIIKHPMDLSTVKRKMDGREYPDAQGFAADVRLMFSNCYKYNPPDHEVVAMARKLQD 108
Query: 179 VLLERVAEL 187
V R A++
Sbjct: 109 VFEMRFAKM 117
>pdb|2I7K|A Chain A, Solution Structure Of The Bromodomain Of Human Brd7
Protein
Length = 117
Score = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 36/61 (59%)
Query: 116 IYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVN 175
I P Y +IK P+D ++ I+N Y+S +E+ +F+LM N +N+P ++ Y+ A
Sbjct: 37 IAPGYSMIIKHPMDFSTMKEKIKNNDYQSIEELKDNFKLMCTNAMIYNKPETIYYKAAKK 96
Query: 176 L 176
L
Sbjct: 97 L 97
>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 = 43.5 bits (101), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 32/58 (55%)
Query: 116 IYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDA 173
I P Y +IK P+D ++ I +Y+S E +DF+LM N +N P ++ Y+ A
Sbjct: 42 IAPGYSMIIKHPMDFGTMKDKIVANEYKSVTEFKADFKLMCDNAMTYNRPDTVYYKLA 99
>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 = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 34/59 (57%)
Query: 118 PEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNL 176
P+Y IK+P+D ++ N++ +Y + D+ DF L+ NC ++N ++ Y AV L
Sbjct: 38 PDYLDHIKKPMDFFTMKQNLEAYRYLNFDDFEEDFNLIVSNCLKYNAKDTIFYRAAVRL 96
>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 = 40.0 bits (92), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 35/67 (52%)
Query: 118 PEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLE 177
P+Y+ ++K P+D+ I+ + +Y+ + + D LMF N +N S +Y+ L
Sbjct: 50 PDYFDIVKSPMDLSTIKRKLDTGQYQEPWQYVDDIWLMFNNAWLYNRKTSRVYKYCSKLS 109
Query: 178 KVLLERV 184
+V + +
Sbjct: 110 EVFEQEI 116
>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 = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 35/67 (52%)
Query: 118 PEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLE 177
P+Y+ ++K P+D+ I+ + +Y+ + + D LMF N +N S +Y+ L
Sbjct: 47 PDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLA 106
Query: 178 KVLLERV 184
+V + +
Sbjct: 107 EVFEQEI 113
>pdb|3FKM|X Chain X, Plasmodium Falciparum Bromodomain-Containing Protein
Pf10_0328
Length = 166
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 38/73 (52%), Gaps = 2/73 (2%)
Query: 107 MFMELPSAKIY--PEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNE 164
+F +L AK P+YY VIK P I++ ++ +Y E + D +L+F NC +N
Sbjct: 41 IFEKLVDAKKQNCPDYYDVIKNPXSFSCIKTKLKKGQYAYPSEFVKDVQLIFDNCSLYNT 100
Query: 165 PGSLIYEDAVNLE 177
S++ N+E
Sbjct: 101 SNSVVAITGKNIE 113
>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 = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 35/67 (52%)
Query: 118 PEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLE 177
P+Y+ ++K P+D+ I+ + +Y+ + + D LMF N +N S +Y+ L
Sbjct: 45 PDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLA 104
Query: 178 KVLLERV 184
+V + +
Sbjct: 105 EVFEQEI 111
>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 = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/91 (24%), Positives = 40/91 (43%)
Query: 89 LCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEI 148
+C ++ Y+D + + LP K +YY+ I P+D+ IE I Y++ +
Sbjct: 17 ICDGIISYKDSSRQALAAPLLNLPPKKKNADYYEKISDPLDLITIEKQILTGYYKTVEAF 76
Query: 149 LSDFRLMFGNCREFNEPGSLIYEDAVNLEKV 179
+D +F N ++ S + D L K
Sbjct: 77 DADMLKVFRNAEKYYGRKSPVGRDVCRLRKA 107
>pdb|3DAI|A Chain A, Crystal Structure Of The Bromodomain Of The Human Atad2
Length = 130
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 29/53 (54%), Gaps = 3/53 (5%)
Query: 118 PEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFN---EPGS 167
P+Y VIKQP+D+ + S I KY + + L D L+ N E+N +PG
Sbjct: 41 PDYVTVIKQPMDLSSVISKIDLHKYLTVKDYLRDIDLICSNALEYNPDRDPGD 93
>pdb|3IU6|A Chain A, Crystal Structure Of The Sixth Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 147
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 28/102 (27%), Positives = 47/102 (46%), Gaps = 4/102 (3%)
Query: 86 LYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQ 145
++ L +M ++D +GR E+P+ + P + K P+ I N++N +YR
Sbjct: 12 IHNLFVSVMSHQDDEGRXYSDSLAEIPA--VDPNFPN--KPPLTFDIIRKNVENNRYRRL 67
Query: 146 DEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERVAEL 187
D + R N S IYEDAV L++ ++ EL
Sbjct: 68 DLFQEHMFEVLERARRMNRTDSEIYEDAVELQQFFIKIRDEL 109
>pdb|3MB3|A Chain A, Crystal Structure Of The Second Bromodomain Of Pleckstrin
Homology Domain Interacting Protein (Phip)
Length = 135
Score = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 34/72 (47%), Gaps = 1/72 (1%)
Query: 117 YPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPG-SLIYEDAVN 175
YP+Y +I P+D + ++ Y S E+ D RL+F N + + S IY ++
Sbjct: 51 YPDYRDIIDTPMDFATVRETLEAGNYESPMELCKDVRLIFSNSKAYTPSKRSRIYSMSLR 110
Query: 176 LEKVLLERVAEL 187
L E ++ +
Sbjct: 111 LSAFFEEHISSV 122
>pdb|2DKW|A Chain A, Solution Structure Of The Bromodomain Of Human Protein
Kiaa1240
Length = 131
Score = 36.6 bits (83), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 40/81 (49%), Gaps = 5/81 (6%)
Query: 114 AKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFN---EPGS-LI 169
+K +Y +VIK+P+D+ + + I Y + + L D L+ N E+N +PG +I
Sbjct: 34 SKPVSDYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDIDLICSNALEYNPDKDPGDKII 93
Query: 170 YEDAVNLEKVLLERV-AELGP 189
A L+ + AEL P
Sbjct: 94 RHRACTLKDTAHAIIAAELDP 114
>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 = 35.0 bits (79), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 29/54 (53%), Gaps = 3/54 (5%)
Query: 119 EYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFN---EPGSLI 169
+Y +VIK+P+D+ + + I Y + + L D L+ N E+N +PG I
Sbjct: 44 DYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDIDLICSNALEYNPDKDPGDKI 97
>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 = 34.3 bits (77), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 33/73 (45%), Gaps = 1/73 (1%)
Query: 117 YPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFN-EPGSLIYEDAVN 175
YP+Y +I P+D + + Y S E D RL+F N + + S IY +
Sbjct: 40 YPDYRDIIDTPMDFGTVRETLDAGNYDSPLEFCKDIRLIFSNAKAYTPNKRSKIYSMTLR 99
Query: 176 LEKVLLERVAELG 188
L + E++ ++
Sbjct: 100 LSALFEEKMKKIS 112
>pdb|3H75|A Chain A, Crystal Structure Of A Periplasmic Sugar-Binding Protein
From The Pseudomonas Fluorescens
Length = 350
Score = 26.9 bits (58), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 25/112 (22%), Positives = 48/112 (42%), Gaps = 5/112 (4%)
Query: 96 YRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYR---SQDEILSDF 152
Y ++D + + EL + P+Y ++ + QI Q + + D
Sbjct: 41 YAERDPQNTLQQARELFQGRDKPDYLXLVNEQYVAPQILRLSQGSGIKLFIVNSPLTLDQ 100
Query: 153 RLMFGNCRE--FNEPGSLIYEDAVNLEKVLLERVAELGPLPSGEDFFILLFT 202
R + G R+ + GS + +D + L E + +LGP+P+G +L F+
Sbjct: 101 RELIGQSRQNYSDWIGSXVGDDEEAGYRXLKELLHKLGPVPAGHGIELLAFS 152
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
0.323 0.140 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,512,247
Number of Sequences: 62578
Number of extensions: 196608
Number of successful extensions: 459
Number of sequences better than 100.0: 89
Number of HSP's better than 100.0 without gapping: 83
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 362
Number of HSP's gapped (non-prelim): 96
length of query: 202
length of database: 14,973,337
effective HSP length: 94
effective length of query: 108
effective length of database: 9,091,005
effective search space: 981828540
effective search space used: 981828540
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 49 (23.5 bits)