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= psy5115
(171 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3QZV|A Chain A, Crystal Structure Of Bptf Phd-Linker-Bromo In Complex With
Histone H4k12ac Peptide
Length = 174
Score = 219 bits (557), Expect = 7e-58, Method: Compositional matrix adjust.
Identities = 93/155 (60%), Positives = 125/155 (80%)
Query: 10 EPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNNSSSNLANMKNLTPRDFESLR 69
E KFYI CD CQ+W+HGRCVGILQSEA+ IDEY+CP C ++ + + LT +D+E L+
Sbjct: 19 ESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQSTEDAMTVLTPLTEKDYEGLK 78
Query: 70 KLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMT 129
++++ +QAHK AWPF+EPVDP++APDYY V+KEPMDL T+E R+ ++ Y+KL+EF+ DMT
Sbjct: 79 RVLRSLQAHKMAWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMT 138
Query: 130 KIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILR 164
KIFDNCRYYNP +SPF++ A LE FFVQK+K +
Sbjct: 139 KIFDNCRYYNPSDSPFYQCAEVLESFFVQKLKGFK 173
>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 = 219 bits (557), Expect = 7e-58, Method: Compositional matrix adjust.
Identities = 93/155 (60%), Positives = 125/155 (80%)
Query: 10 EPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNNSSSNLANMKNLTPRDFESLR 69
E KFYI CD CQ+W+HGRCVGILQSEA+ IDEY+CP C ++ + + LT +D+E L+
Sbjct: 19 ESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQSTEDAMTVLTPLTEKDYEGLK 78
Query: 70 KLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMT 129
++++ +QAHK AWPF+EPVDP++APDYY V+KEPMDL T+E R+ ++ Y+KL+EF+ DMT
Sbjct: 79 RVLRSLQAHKMAWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMT 138
Query: 130 KIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILR 164
KIFDNCRYYNP +SPF++ A LE FFVQK+K +
Sbjct: 139 KIFDNCRYYNPSDSPFYQCAEVLESFFVQKLKGFK 173
>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 = 212 bits (540), Expect = 7e-56, Method: Compositional matrix adjust.
Identities = 91/155 (58%), Positives = 121/155 (78%)
Query: 10 EPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNNSSSNLANMKNLTPRDFESLR 69
E KFYI CD CQ+W+HGRCVGILQSEA+ IDEY+CP C ++ + LT +D+E L+
Sbjct: 19 ESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQSTEDAXTVLTPLTEKDYEGLK 78
Query: 70 KLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMT 129
++++ +QAHK AWPF+EPVDP++APDYY V+KEP DL T E R+ ++ Y+KL+EF+ D T
Sbjct: 79 RVLRSLQAHKXAWPFLEPVDPNDAPDYYGVIKEPXDLATXEERVQRRYYEKLTEFVADXT 138
Query: 130 KIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILR 164
KIFDNCRYYNP +SPF++ A LE FFVQK+K +
Sbjct: 139 KIFDNCRYYNPSDSPFYQCAEVLESFFVQKLKGFK 173
>pdb|3UV2|A Chain A, Crystal Structure Of The Bromodomain Of Human
Nucleosome-Remodeling Factor Subunit Bptf
Length = 126
Score = 154 bits (390), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 65/119 (54%), Positives = 93/119 (78%)
Query: 46 NCNNSSSNLANMKNLTPRDFESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMD 105
C ++ + + LT +D+E L+++++ +QAHK AWPF+EPVDP++APDYY V+KEPMD
Sbjct: 3 QCQSTEDAMTVLTPLTEKDYEGLKRVLRSLQAHKMAWPFLEPVDPNDAPDYYGVIKEPMD 62
Query: 106 LKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILR 164
L T+E R+ ++ Y+KL+EF+ DMTKIFDNCRYYNP +SPF++ A LE FFVQK+K +
Sbjct: 63 LATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQCAEVLESFFVQKLKGFK 121
>pdb|3QZT|A Chain A, Crystal Structure Of Bptf Bromo In Complex With Histone
H4k16ac - Form Ii
Length = 115
Score = 150 bits (379), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 64/105 (60%), Positives = 88/105 (83%)
Query: 60 LTPRDFESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYK 119
LT +D+E L+++++ +QAHK AWPF+EPVDP++APDYY V+KEPMDL T+E R+ ++ Y+
Sbjct: 10 LTEKDYEGLKRVLRSLQAHKMAWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYE 69
Query: 120 KLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILR 164
KL+EF+ DMTKIFDNCRYYNP +SPF++ A LE FFVQK+K +
Sbjct: 70 KLTEFVADMTKIFDNCRYYNPSDSPFYQCAEVLESFFVQKLKGFK 114
>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 = 148 bits (374), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 63/108 (58%), Positives = 88/108 (81%)
Query: 57 MKNLTPRDFESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQ 116
+ LT +D+E L+++++ +QAHK AWPF+EPVDP++APDYY V+KEPMDL T+E R+ ++
Sbjct: 7 LTPLTEKDYEGLKRVLRSLQAHKMAWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRR 66
Query: 117 RYKKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILR 164
Y+KL+EF+ DMT IFDNCRYYNP +SPF++ A LE FFVQK+K +
Sbjct: 67 YYEKLTEFVADMTAIFDNCRYYNPSDSPFYQCAEVLESFFVQKLKGFK 114
>pdb|1E6I|A Chain A, Bromodomain From Gcn5 Complexed With Acetylated H4 Peptide
Length = 121
Score = 107 bits (266), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 46/114 (40%), Positives = 78/114 (68%), Gaps = 1/114 (0%)
Query: 52 SNLANMKNLTPRDFESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIEL 111
+N+A P D +++ ++ ++Q H +AWPF++PV+ E PDYY+ +KEPMDL T+E+
Sbjct: 3 ANIAQRPKRGPHD-AAIQNILTELQNHAAAWPFLQPVNKEEVPDYYDFIKEPMDLSTMEI 61
Query: 112 RIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILRE 165
++ +Y+K+ +FI D +F+NCR YN + ++K+A++LE FF KVK + E
Sbjct: 62 KLESNKYQKMEDFIYDARLVFNNCRMYNGENTSYYKYANRLEKFFNNKVKEIPE 115
>pdb|3GG3|A Chain A, Crystal Structure Of The Bromodomain Of Human Pcaf
pdb|3GG3|B Chain B, Crystal Structure Of The Bromodomain Of Human Pcaf
Length = 119
Score = 104 bits (259), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 48/113 (42%), Positives = 75/113 (66%), Gaps = 4/113 (3%)
Query: 53 NLANMKNLTPRD----FESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKT 108
++ K+ PRD + +L+ +++Q+++H+SAWPFMEPV EAP YY V++ PMDLKT
Sbjct: 1 SMGKEKSKEPRDPDQLYSTLKSILQQVKSHQSAWPFMEPVKRTEAPGYYEVIRFPMDLKT 60
Query: 109 IELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVK 161
+ R+ + Y F+ D+ ++F NC+ YNP ES ++K A+ LE FF K+K
Sbjct: 61 MSERLKNRYYVSKKLFMADLQRVFTNCKEYNPPESEYYKCANILEKFFFSKIK 113
>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 = 102 bits (255), Expect = 9e-23, Method: Compositional matrix adjust.
Identities = 47/104 (45%), Positives = 71/104 (68%), Gaps = 4/104 (3%)
Query: 62 PRD----FESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQR 117
PRD + +L+ +++Q+++H+SAWPFMEPV EAP YY V++ PMDLKT+ R+ +
Sbjct: 8 PRDPDQLYSTLKSILQQVKSHQSAWPFMEPVKRTEAPGYYEVIRFPMDLKTMSERLKNRY 67
Query: 118 YKKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVK 161
Y F+ D+ ++F NC+ YNP ES ++K A+ LE FF K+K
Sbjct: 68 YVSKKLFMADLQRVFTNCKEYNPPESEYYKCANILEKFFFSKIK 111
>pdb|1F68|A Chain A, Nmr Solution Structure Of The Bromodomain From Human Gcn5
Length = 103
Score = 95.9 bits (237), Expect = 9e-21, Method: Compositional matrix adjust.
Identities = 44/97 (45%), Positives = 64/97 (65%)
Query: 65 FESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEF 124
+ +L+ L+ QI++H SAWPFMEPV EAPDYY V++ P+DLKT+ R+ + Y F
Sbjct: 5 YTTLKNLLAQIKSHPSAWPFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLF 64
Query: 125 IGDMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVK 161
+ D+ ++ NCR YNP +S + + A LE FF K+K
Sbjct: 65 VADLQRVIANCREYNPPDSEYCRCASALEKFFYFKLK 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 = 95.9 bits (237), Expect = 9e-21, Method: Compositional matrix adjust.
Identities = 44/97 (45%), Positives = 64/97 (65%)
Query: 65 FESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEF 124
+ +L+ L+ QI++H SAWPFMEPV EAPDYY V++ P+DLKT+ R+ + Y F
Sbjct: 9 YTTLKNLLAQIKSHPSAWPFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLF 68
Query: 125 IGDMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVK 161
+ D+ ++ NCR YNP +S + + A LE FF K+K
Sbjct: 69 VADLQRVIANCREYNPPDSEYCRCASALEKFFYFKLK 105
>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 = 87.0 bits (214), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 38/93 (40%), Positives = 58/93 (62%)
Query: 64 DFESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSE 123
DF ++ K++ ++AHK +WPF+EPVD AP+YY ++K PMD+ ++E ++ Y E
Sbjct: 17 DFTAMYKVLDVVKAHKDSWPFLEPVDESYAPNYYQIIKAPMDISSMEKKLNGGLYCTKEE 76
Query: 124 FIGDMTKIFDNCRYYNPRESPFFKHAHQLEMFF 156
F+ DM +F NCR YN S + K + LE F
Sbjct: 77 FVNDMKTMFRNCRKYNGESSEYTKMSDNLERCF 109
>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 = 75.9 bits (185), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 38/94 (40%), Positives = 53/94 (56%), Gaps = 2/94 (2%)
Query: 69 RKLMKQIQAHKSAWPFMEPVDP--HEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIG 126
R ++K + H +WPF +PVD + PDYY ++K PMDL TI+ R+ + Y+K SE I
Sbjct: 20 RVVLKALWKHGFSWPFQQPVDAVKLKLPDYYTIIKTPMDLNTIKKRLENKYYEKASECIE 79
Query: 127 DMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKV 160
D +F NC YN A LE F+QK+
Sbjct: 80 DFNTMFSNCYLYNKTGDDIVVMAQALEKLFMQKL 113
>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 = 73.2 bits (178), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 37/92 (40%), Positives = 50/92 (54%), Gaps = 2/92 (2%)
Query: 71 LMKQIQAHKSAWPFMEPVDP--HEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDM 128
++K + H +WPF PVD + PDYY ++K PMDL TI+ R+ + Y K SE I D
Sbjct: 21 VLKDLWKHSFSWPFQRPVDAVKLQLPDYYTIIKNPMDLNTIKKRLENKYYAKASECIEDF 80
Query: 129 TKIFDNCRYYNPRESPFFKHAHQLEMFFVQKV 160
+F NC YN A LE F+QK+
Sbjct: 81 NTMFSNCYLYNKPGDDIVLMAQALEKLFMQKL 112
>pdb|4DON|A Chain A, Brd4 Bromodomain 1 Complex With A Fragment
3,4-dihydro-3-methyl-2(1h)- Quinazolinon
Length = 145
Score = 71.6 bits (174), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 38/98 (38%), Positives = 52/98 (53%), Gaps = 2/98 (2%)
Query: 68 LRKLMKQIQAHKSAWPFMEPVDPHEA--PDYYNVVKEPMDLKTIELRIAQQRYKKLSEFI 125
LR ++K + H+ AWPF +PVD + PDYY ++K PMD+ TI+ R+ Y E I
Sbjct: 46 LRVVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECI 105
Query: 126 GDMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKIL 163
D +F NC YN A LE F+QK+ L
Sbjct: 106 QDFNTMFTNCYIYNKPGDDIVLMAEALEKLFLQKINEL 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 = 71.6 bits (174), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 38/98 (38%), Positives = 52/98 (53%), Gaps = 2/98 (2%)
Query: 68 LRKLMKQIQAHKSAWPFMEPVDPHEA--PDYYNVVKEPMDLKTIELRIAQQRYKKLSEFI 125
LR ++K + H+ AWPF +PVD + PDYY ++K PMD+ TI+ R+ Y E I
Sbjct: 30 LRVVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECI 89
Query: 126 GDMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKIL 163
D +F NC YN A LE F+QK+ L
Sbjct: 90 QDFNTMFTNCYIYNKPGDDIVLMAEALEKLFLQKINEL 127
>pdb|4HBW|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Quinazoline Ligand
Length = 127
Score = 71.2 bits (173), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 38/98 (38%), Positives = 52/98 (53%), Gaps = 2/98 (2%)
Query: 68 LRKLMKQIQAHKSAWPFMEPVDPHEA--PDYYNVVKEPMDLKTIELRIAQQRYKKLSEFI 125
LR ++K + H+ AWPF +PVD + PDYY ++K PMD+ TI+ R+ Y E I
Sbjct: 26 LRVVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECI 85
Query: 126 GDMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKIL 163
D +F NC YN A LE F+QK+ L
Sbjct: 86 QDFNTMFTNCYIYNKPGDDIVLMAEALEKLFLQKINEL 123
>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 = 71.2 bits (173), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 29/89 (32%), Positives = 51/89 (57%)
Query: 71 LMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTK 130
++ +++ H+ AWPF+ PV+ P Y V+K+PMD TI +++ +Y L F D+
Sbjct: 21 ILTEMETHEDAWPFLLPVNLKLVPGYKKVIKKPMDFSTIREKLSSGQYPNLETFALDVRL 80
Query: 131 IFDNCRYYNPRESPFFKHAHQLEMFFVQK 159
+FDNC +N +S + H + +F +K
Sbjct: 81 VFDNCETFNEDDSDIGRAGHNMRKYFEKK 109
>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 = 71.2 bits (173), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 38/98 (38%), Positives = 52/98 (53%), Gaps = 2/98 (2%)
Query: 68 LRKLMKQIQAHKSAWPFMEPVDPHEA--PDYYNVVKEPMDLKTIELRIAQQRYKKLSEFI 125
LR ++K + H+ AWPF +PVD + PDYY ++K PMD+ TI+ R+ Y E I
Sbjct: 26 LRVVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECI 85
Query: 126 GDMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKIL 163
D +F NC YN A LE F+QK+ L
Sbjct: 86 QDFNTMFTNCYIYNKPGDDIVLMAEALEKLFLQKINEL 123
>pdb|2E7O|A Chain A, Solution Structure Of The Bromodomain From Human
Bromodomain Adjacent To Zinc Finger Domain 2b
Length = 112
Score = 70.9 bits (172), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 30/97 (30%), Positives = 53/97 (54%)
Query: 63 RDFESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLS 122
+D ++ +++ H+ AWPF+ PV+ P Y V+K+PMD TI +++ +Y L
Sbjct: 10 KDLALCSMILTEMETHEDAWPFLLPVNLKLVPGYKKVIKKPMDFSTIREKLSSGQYPNLE 69
Query: 123 EFIGDMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQK 159
F D+ +FDNC +N +S + H + +F +K
Sbjct: 70 TFALDVRLVFDNCETFNEDDSDIGRAGHNMRKYFEKK 106
>pdb|2L5E|A Chain A, Complex Between Bd1 Of Brd3 And Gata-1 C-Tail
Length = 128
Score = 70.5 bits (171), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 38/102 (37%), Positives = 56/102 (54%), Gaps = 2/102 (1%)
Query: 71 LMKQIQAHKSAWPFMEPVDPHEA--PDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDM 128
++K + H+ AWPF +PVD + PDY+ ++K PMD+ TI+ R+ Y SE + D
Sbjct: 27 VVKTLWKHQFAWPFYQPVDAIKLNLPDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDF 86
Query: 129 TKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILREKLVEL 170
+F NC YN A LE F+QKV + ++ VEL
Sbjct: 87 NTMFTNCYIYNKPTDDIVLMAQALEKIFLQKVAQMPQEEVEL 128
>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 = 70.5 bits (171), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 38/102 (37%), Positives = 56/102 (54%), Gaps = 2/102 (1%)
Query: 71 LMKQIQAHKSAWPFMEPVDPHEA--PDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDM 128
+MK + H+ AWPF +PVD + PDY+ ++K+PMD+ TI+ R+ Y SE + D
Sbjct: 40 VMKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDF 99
Query: 129 TKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILREKLVEL 170
+F NC YN A LE F+QKV + ++ EL
Sbjct: 100 NTMFTNCYIYNKPTDDIVLMAQTLEKIFLQKVASMPQEEQEL 141
>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 = 70.5 bits (171), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 38/102 (37%), Positives = 56/102 (54%), Gaps = 2/102 (1%)
Query: 71 LMKQIQAHKSAWPFMEPVDPHEA--PDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDM 128
+MK + H+ AWPF +PVD + PDY+ ++K+PMD+ TI+ R+ Y SE + D
Sbjct: 40 VMKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDF 99
Query: 129 TKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILREKLVEL 170
+F NC YN A LE F+QKV + ++ EL
Sbjct: 100 NTMFTNCYIYNKPTDDIVLMAQTLEKIFLQKVASMPQEEQEL 141
>pdb|2FUI|A Chain A, Nmr Solution Structure Of Phd Finger Fragment Of Human
Bptf In Free State
pdb|2FUU|A Chain A, Nmr Solution Structure Of The Phd Domain From The Human
Bptf In Complex With H3(1-15)k4me3 Peptide
Length = 62
Score = 70.1 bits (170), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 29/41 (70%), Positives = 35/41 (85%)
Query: 10 EPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNNS 50
E KFYI CD CQ+W+HGRCVGILQSEA+ IDEY+CP C ++
Sbjct: 19 ESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQST 59
>pdb|2YW5|A Chain A, Solution Structure Of The Bromodomain From Human
Bromodomain Containing Protein 3
Length = 138
Score = 70.1 bits (170), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 38/102 (37%), Positives = 56/102 (54%), Gaps = 2/102 (1%)
Query: 71 LMKQIQAHKSAWPFMEPVDPHEA--PDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDM 128
++K + H+ AWPF +PVD + PDY+ ++K PMD+ TI+ R+ Y SE + D
Sbjct: 29 VVKTLWKHQFAWPFYQPVDAIKLNLPDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDF 88
Query: 129 TKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILREKLVEL 170
+F NC YN A LE F+QKV + ++ VEL
Sbjct: 89 NTMFTNCYIYNKPTDDIVLMAQALEKIFLQKVAQMPQEEVEL 130
>pdb|3O33|A Chain A, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O33|B Chain B, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O33|C Chain C, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O33|D Chain D, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O34|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(13-32)k23ac Peptide
pdb|3O35|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(23-31)k27ac Peptide
pdb|3O35|B Chain B, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(23-31)k27ac Peptide
pdb|3O36|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H4(14-19)k16ac Peptide
pdb|3O36|B Chain B, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H4(14-19)k16ac Peptide
pdb|3O37|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
pdb|3O37|B Chain B, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
pdb|3O37|C Chain C, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
pdb|3O37|D Chain D, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
Length = 184
Score = 69.3 bits (168), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 50/169 (29%), Positives = 75/169 (44%), Gaps = 23/169 (13%)
Query: 15 ICCDTCQDWFHGRC-VGILQSEADNIDEYICPNC-----------------NNSSSNLAN 56
+CC+ C FH C V L + E+IC C N+
Sbjct: 17 LCCEKCPKVFHLSCHVPTLTNFPSG--EWICTFCRDLSKPEVEYDCDAPSHNSEKKKTEG 74
Query: 57 MKNLTPRDFESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQ- 115
+ LTP D +L+ + H+ + F +PV P PDYY ++K PMDL TI+ R+ +
Sbjct: 75 LVKLTPIDKRKCERLLLFLYCHEMSLAFQDPV-PLTVPDYYKIIKNPMDLSTIKKRLQED 133
Query: 116 -QRYKKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKIL 163
Y K +F+ D IF NC +N +S +LE +F + +K L
Sbjct: 134 YSMYSKPEDFVADFRLIFQNCAEFNEPDSEVANAGIKLENYFEELLKNL 182
>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 = 69.3 bits (168), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 35/85 (41%), Positives = 48/85 (56%)
Query: 68 LRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGD 127
LR ++ Q+Q A F +PV E PDY + +K PMD T+ R+ Q YK L EF D
Sbjct: 18 LRSVLDQLQDKDPARIFAQPVSLKEVPDYLDHIKHPMDFATMRKRLEAQGYKNLHEFEED 77
Query: 128 MTKIFDNCRYYNPRESPFFKHAHQL 152
I DNC YN R++ F++ A +L
Sbjct: 78 FDLIIDNCMKYNARDTVFYRAAVRL 102
>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 = 67.0 bits (162), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 35/92 (38%), Positives = 50/92 (54%), Gaps = 2/92 (2%)
Query: 71 LMKQIQAHKSAWPFMEPVDPHEA--PDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDM 128
++K + H+ AWPF +PVD + PDY+ ++K PMD+ TI+ R+ Y SE + D
Sbjct: 25 VVKTLWKHQFAWPFYQPVDAIKLNLPDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDF 84
Query: 129 TKIFDNCRYYNPRESPFFKHAHQLEMFFVQKV 160
+F NC YN A LE F+QKV
Sbjct: 85 NTMFTNCYIYNKPTDDIVLMAQALEKIFLQKV 116
>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 = 63.5 bits (153), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 33/101 (32%), Positives = 53/101 (52%)
Query: 71 LMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTK 130
+ +++ A +WPF PV+ PDYY V+ PMDL+TI I++ +Y+ F+ D+
Sbjct: 38 VTQKMMAVPDSWPFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNL 97
Query: 131 IFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILREKLVELK 171
I N YN ES + K A ++ Q + E L +L+
Sbjct: 98 ILANSVKYNGPESQYTKTAQEIVNVCYQTLTEYDEHLTQLE 138
>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 = 62.8 bits (151), Expect = 9e-11, Method: Compositional matrix adjust.
Identities = 38/121 (31%), Positives = 61/121 (50%), Gaps = 9/121 (7%)
Query: 22 DWFHGRCVGILQSEADNIDEYICPNCNNSSSNLANMKNLTPRDFESLRKLMKQIQAHKSA 81
DW C I + E EY C N +S + L+P D +L+ + H+ +
Sbjct: 45 DWICTFCRDIGKPEV----EYDCDNLQHSKKG-KTAQGLSPVDQRKCERLLLYLYCHELS 99
Query: 82 WPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQ---QRYKKLSEFIGDMTKIFDNCRYY 138
F EPV P P+YY ++K+PMDL T++ ++ + Q Y+ +F+ D+ IF NC +
Sbjct: 100 IEFQEPV-PASIPNYYKIIKKPMDLSTVKKKLQKKHSQHYQIPDDFVADVRLIFKNCERF 158
Query: 139 N 139
N
Sbjct: 159 N 159
>pdb|1EQF|A Chain A, Crystal Structure Of The Double Bromodomain Module From
Human Tafii250
Length = 280
Score = 62.8 bits (151), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 33/101 (32%), Positives = 53/101 (52%)
Query: 71 LMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTK 130
+ +++ A +WPF PV+ PDYY V+ PMDL+TI I++ +Y+ F+ D+
Sbjct: 157 VTQKMMAVPDSWPFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNL 216
Query: 131 IFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILREKLVELK 171
I N YN ES + K A ++ Q + E L +L+
Sbjct: 217 ILANSVKYNGPESQYTKTAQEIVNVCYQTLTEYDEHLTQLE 257
Score = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/104 (24%), Positives = 48/104 (46%)
Query: 68 LRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGD 127
L ++ ++ + +PF PV+ DYY ++ PMDL+T+ + ++ Y EF
Sbjct: 31 LESIINDMRDLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREH 90
Query: 128 MTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILREKLVELK 171
+ I N YN + + + + +K+K +KL L+
Sbjct: 91 LELIVKNSATYNGPKHSLTQISQSMLDLCDEKLKEKEDKLARLE 134
>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 = 62.8 bits (151), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 34/92 (36%), Positives = 46/92 (50%), Gaps = 2/92 (2%)
Query: 71 LMKQIQAHKSAWPFMEPVDPHEA--PDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDM 128
+ K + H+ AWPF +PVD + PDY+ ++K+P D TI+ R+ Y SE D
Sbjct: 20 VXKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPXDXGTIKRRLENNYYWAASECXQDF 79
Query: 129 TKIFDNCRYYNPRESPFFKHAHQLEMFFVQKV 160
F NC YN A LE F+QKV
Sbjct: 80 NTXFTNCYIYNKPTDDIVLXAQTLEKIFLQKV 111
>pdb|3UV5|A Chain A, Crystal Structure Of The Tandem Bromodomains Of Human
Transcription Initiation Factor Tfiid Subunit 1 (Taf1)
Length = 265
Score = 62.4 bits (150), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 33/101 (32%), Positives = 53/101 (52%)
Query: 71 LMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTK 130
+ +++ A +WPF PV+ PDYY V+ PMDL+TI I++ +Y+ F+ D+
Sbjct: 145 VTQKMMAVPDSWPFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNL 204
Query: 131 IFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILREKLVELK 171
I N YN ES + K A ++ Q + E L +L+
Sbjct: 205 ILANSVKYNGPESQYTKTAQEIVNVCYQTLTEYDEHLTQLE 245
Score = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/104 (24%), Positives = 48/104 (46%)
Query: 68 LRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGD 127
L ++ ++ + +PF PV+ DYY ++ PMDL+T+ + ++ Y EF
Sbjct: 19 LESIINDMRDLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREH 78
Query: 128 MTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILREKLVELK 171
+ I N YN + + + + +K+K +KL L+
Sbjct: 79 LELIVKNSATYNGPKHSLTQISQSMLDLCDEKLKEKEDKLARLE 122
>pdb|2YYN|A Chain A, Crystal Sturcture Of Human Bromodomain Protein
pdb|2YYN|B Chain B, Crystal Sturcture Of Human Bromodomain Protein
pdb|2YYN|C Chain C, Crystal Sturcture Of Human Bromodomain Protein
pdb|2YYN|D Chain D, Crystal Sturcture Of Human Bromodomain Protein
Length = 135
Score = 62.4 bits (150), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 37/110 (33%), Positives = 57/110 (51%), Gaps = 3/110 (2%)
Query: 56 NMKNLTPRDFESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQ 115
+ LTP D +L+ + H+ + F +PV P PDYY ++K PMDL TI+ R+ +
Sbjct: 13 GLVKLTPIDKRKCERLLLFLYCHEMSLAFQDPV-PLTVPDYYKIIKNPMDLSTIKKRLQE 71
Query: 116 --QRYKKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKIL 163
Y K +F+ D IF NC +N +S +LE +F + +K L
Sbjct: 72 DYSMYSKPEDFVADFRLIFQNCAEFNEPDSEVANAGIKLENYFEELLKNL 121
>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 = 62.4 bits (150), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 34/92 (36%), Positives = 46/92 (50%), Gaps = 2/92 (2%)
Query: 71 LMKQIQAHKSAWPFMEPVDPHEA--PDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDM 128
+ K + H+ AWPF +PVD + PDY+ ++K+P D TI+ R+ Y SE D
Sbjct: 14 VXKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPXDXGTIKRRLENNYYWAASECXQDF 73
Query: 129 TKIFDNCRYYNPRESPFFKHAHQLEMFFVQKV 160
F NC YN A LE F+QKV
Sbjct: 74 NTXFTNCYIYNKPTDDIVLXAQTLEKIFLQKV 105
>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 = 62.0 bits (149), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 33/101 (32%), Positives = 53/101 (52%)
Query: 71 LMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTK 130
+ +++ A +WPF PV+ PDYY V+ PMDL+TI I++ +Y+ F+ D+
Sbjct: 178 VTQKMMAVPDSWPFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNL 237
Query: 131 IFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILREKLVELK 171
I N YN ES + K A ++ Q + E L +L+
Sbjct: 238 ILANSVKYNGPESQYTKTAQEIVNVCYQTLTEYDEHLTQLE 278
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/104 (24%), Positives = 48/104 (46%)
Query: 68 LRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGD 127
L ++ ++ + +PF PV+ DYY ++ PMDL+T+ + ++ Y EF
Sbjct: 52 LESIINDMRDLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREH 111
Query: 128 MTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILREKLVELK 171
+ I N YN + + + + +K+K +KL L+
Sbjct: 112 LELIVKNSATYNGPKHSLTQISQSMLDLCDEKLKEKEDKLARLE 155
>pdb|3HMH|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Tbp-Associated Factor Rna Polymerase 1-Like (Taf1l)
Length = 155
Score = 61.2 bits (147), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 31/101 (30%), Positives = 53/101 (52%)
Query: 71 LMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTK 130
+ +++ A +WPF PV+ PDYY ++ P+DL+TI I++ +Y+ F+ D+
Sbjct: 35 VTQKMMAVPDSWPFHHPVNKKFVPDYYKMIVNPVDLETIRKNISKHKYQSRESFLDDVNL 94
Query: 131 IFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILREKLVELK 171
I N YN ES + K A ++ Q + E L +L+
Sbjct: 95 ILANSVKYNGPESQYTKTAQEIVNICYQTITEYDEHLTQLE 135
>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 = 61.2 bits (147), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 36/92 (39%), Positives = 50/92 (54%), Gaps = 5/92 (5%)
Query: 70 KLMKQIQAHKS---AWPFMEPVDPHEAP--DYYNVVKEPMDLKTIELRIAQQRYKKLSEF 124
+++K++ A K AWPF PVD +YY+VVK PMDL TI+ ++ Q YK EF
Sbjct: 21 EILKEMLAKKHLPYAWPFYNPVDADALGLHNYYDVVKNPMDLGTIKGKMDNQEYKDAYEF 80
Query: 125 IGDMTKIFDNCRYYNPRESPFFKHAHQLEMFF 156
D+ +F NC YNP + A L+ F
Sbjct: 81 AADVRLMFMNCYKYNPPDHEVVAMARTLQDVF 112
>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 = 60.5 bits (145), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 35/109 (32%), Positives = 63/109 (57%), Gaps = 7/109 (6%)
Query: 66 ESLRK-LMKQIQA----HKSAWPFMEPVDPH--EAPDYYNVVKEPMDLKTIELRIAQQRY 118
E LR+ LM ++A + PF +PVDP PDY+++VK PMDL TI+ ++ +Y
Sbjct: 15 EELRQALMPTLEALYRQDPESLPFRQPVDPQLLGIPDYFDIVKSPMDLSTIKRKLDTGQY 74
Query: 119 KKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILREKL 167
++ +++ D+ +F+N YN + S +K+ +L F Q++ + + L
Sbjct: 75 QEPWQYVDDIWLMFNNAWLYNRKTSRVYKYCSKLSEVFEQEIDPVMQSL 123
>pdb|3ONI|A Chain A, Crystal Structure Of The Second Bromodomain Of Human Brd2
In Complex With The Inhibitor Jq1
Length = 114
Score = 60.1 bits (144), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 31/91 (34%), Positives = 51/91 (56%), Gaps = 3/91 (3%)
Query: 68 LRKLMKQIQAHKSAWPFMEPVDPHEAP--DYYNVVKEPMDLKTIELRIAQQRYKKLSEFI 125
L++L+ + A AWPF +PVD DY++++K PMDL T++ ++ + Y+ EF
Sbjct: 16 LKELLSKKHA-AYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRDYRDAQEFA 74
Query: 126 GDMTKIFDNCRYYNPRESPFFKHAHQLEMFF 156
D+ +F NC YNP + A +L+ F
Sbjct: 75 ADVRLMFSNCYKYNPPDHDVVAMARKLQDVF 105
>pdb|2DVV|A Chain A, Crystal Structure Of The Second Bromodomain Of The Human
Brd2 Protein
pdb|2E3K|A Chain A, Crystal Structure Of The Human Brd2 Second Bromodomain In
Complexed With The Acetylated Histone H4 Peptide
pdb|2E3K|B Chain B, Crystal Structure Of The Human Brd2 Second Bromodomain In
Complexed With The Acetylated Histone H4 Peptide
pdb|2E3K|C Chain C, Crystal Structure Of The Human Brd2 Second Bromodomain In
Complexed With The Acetylated Histone H4 Peptide
pdb|2E3K|D Chain D, Crystal Structure Of The Human Brd2 Second Bromodomain In
Complexed With The Acetylated Histone H4 Peptide
Length = 112
Score = 60.1 bits (144), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 31/91 (34%), Positives = 51/91 (56%), Gaps = 3/91 (3%)
Query: 68 LRKLMKQIQAHKSAWPFMEPVDPHEAP--DYYNVVKEPMDLKTIELRIAQQRYKKLSEFI 125
L++L+ + A AWPF +PVD DY++++K PMDL T++ ++ + Y+ EF
Sbjct: 14 LKELLSKKHA-AYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRDYRDAQEFA 72
Query: 126 GDMTKIFDNCRYYNPRESPFFKHAHQLEMFF 156
D+ +F NC YNP + A +L+ F
Sbjct: 73 ADVRLMFSNCYKYNPPDHDVVAMARKLQDVF 103
>pdb|2G4A|A Chain A, Solution Structure Of A Bromodomain From Ring3 Protein
Length = 116
Score = 60.1 bits (144), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 31/91 (34%), Positives = 51/91 (56%), Gaps = 3/91 (3%)
Query: 68 LRKLMKQIQAHKSAWPFMEPVDPHEAP--DYYNVVKEPMDLKTIELRIAQQRYKKLSEFI 125
L++L+ + A AWPF +PVD DY++++K PMDL T++ ++ + Y+ EF
Sbjct: 10 LKELLSKKHA-AYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRDYRDAQEFA 68
Query: 126 GDMTKIFDNCRYYNPRESPFFKHAHQLEMFF 156
D+ +F NC YNP + A +L+ F
Sbjct: 69 ADVRLMFSNCYKYNPPDHDVVAMARKLQDVF 99
>pdb|3KV5|D Chain D, Structure Of Kiaa1718, Human Jumonji Demethylase, In
Complex With N-Oxalylglycine
pdb|3KV5|A Chain A, Structure Of Kiaa1718, Human Jumonji Demethylase, In
Complex With N-Oxalylglycine
pdb|3KV6|A Chain A, Structure Of Kiaa1718, Human Jumonji Demethylase, In
Complex With Alpha-Ketoglutarate
pdb|3KV6|D Chain D, Structure Of Kiaa1718, Human Jumonji Demethylase, In
Complex With Alpha-Ketoglutarate
Length = 488
Score = 60.1 bits (144), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 28/68 (41%), Positives = 39/68 (57%), Gaps = 2/68 (2%)
Query: 12 KFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN--NSSSNLANMKNLTPRDFESLR 69
+F I CD C+DWFHG CVG+ + A +ID Y CPNC + SS + +N D+ +
Sbjct: 50 RFMIECDICKDWFHGSCVGVEEHHAVDIDLYHCPNCAVLHGSSLMKKRRNWHRHDYTEID 109
Query: 70 KLMKQIQA 77
K +QA
Sbjct: 110 DGSKPVQA 117
>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 = 59.7 bits (143), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 33/98 (33%), Positives = 52/98 (53%), Gaps = 3/98 (3%)
Query: 68 LRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGD 127
LRK ++Q+Q + F EPV E PDY + +K+PMD T++ + RY +F D
Sbjct: 12 LRKTLEQLQEKDTGNIFSEPVPLSEVPDYLDHIKKPMDFFTMKQNLEAYRYLNFDDFEED 71
Query: 128 MTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILRE 165
I NC YN +++ F++ A +L Q +LR+
Sbjct: 72 FNLIVSNCLKYNAKDTIFYRAAVRLRE---QGGAVLRQ 106
>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 = 58.5 bits (140), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 35/109 (32%), Positives = 62/109 (56%), Gaps = 7/109 (6%)
Query: 66 ESLRK-LMKQIQA----HKSAWPFMEPVDPH--EAPDYYNVVKEPMDLKTIELRIAQQRY 118
E LR+ LM ++A + PF +PVDP PDY+++VK PMDL TI+ ++ +Y
Sbjct: 10 EELRQALMPTLEALYRQDPESLPFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQY 69
Query: 119 KKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILREKL 167
++ +++ D+ +F+N YN + S +K +L F Q++ + + L
Sbjct: 70 QEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLAEVFEQEIDPVMQSL 118
>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 = 58.5 bits (140), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 31/91 (34%), Positives = 50/91 (54%), Gaps = 3/91 (3%)
Query: 68 LRKLMKQIQAHKSAWPFMEPVDPH--EAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFI 125
LR+++ + A AWPF +PVD E DY++++K PMDL T++ ++ + Y F
Sbjct: 16 LREMLSKKHA-AYAWPFYKPVDAEALELHDYHDIIKHPMDLSTVKRKMDGREYPDAQGFA 74
Query: 126 GDMTKIFDNCRYYNPRESPFFKHAHQLEMFF 156
D+ +F NC YNP + A +L+ F
Sbjct: 75 ADVRLMFSNCYKYNPPDHEVVAMARKLQDVF 105
>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 = 58.5 bits (140), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 35/109 (32%), Positives = 62/109 (56%), Gaps = 7/109 (6%)
Query: 66 ESLRK-LMKQIQA----HKSAWPFMEPVDPH--EAPDYYNVVKEPMDLKTIELRIAQQRY 118
E LR+ LM ++A + PF +PVDP PDY+++VK PMDL TI+ ++ +Y
Sbjct: 12 EELRQALMPTLEALYRQDPESLPFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQY 71
Query: 119 KKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILREKL 167
++ +++ D+ +F+N YN + S +K +L F Q++ + + L
Sbjct: 72 QEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLAEVFEQEIDPVMQSL 120
>pdb|2E7N|A Chain A, Solution Structure Of The Second Bromodomain From Human
Bromodomain-Containing Protein 3
Length = 117
Score = 58.5 bits (140), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 31/91 (34%), Positives = 50/91 (54%), Gaps = 3/91 (3%)
Query: 68 LRKLMKQIQAHKSAWPFMEPVDPH--EAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFI 125
LR+++ + A AWPF +PVD E DY++++K PMDL T++ ++ + Y F
Sbjct: 21 LREMLSKKHA-AYAWPFYKPVDAEALELHDYHDIIKHPMDLSTVKRKMDGREYPDAQGFA 79
Query: 126 GDMTKIFDNCRYYNPRESPFFKHAHQLEMFF 156
D+ +F NC YNP + A +L+ F
Sbjct: 80 ADVRLMFSNCYKYNPPDHEVVAMARKLQDVF 110
>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 = 58.2 bits (139), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 35/87 (40%), Positives = 44/87 (50%), Gaps = 7/87 (8%)
Query: 84 FMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRES 143
FM + PDYY ++ EPMDLK IE I +Y I DM +F N R+YN S
Sbjct: 52 FMVKPSKKDYPDYYKIILEPMDLKIIEHNIRNDKYAGEEGMIEDMKLMFRNARHYNEEGS 111
Query: 144 PFFKHAHQLEMFFVQKVKILREKLVEL 170
+ AH LE K+L+EK EL
Sbjct: 112 QVYNDAHILE-------KLLKEKRKEL 131
>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 = 57.4 bits (137), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 43/78 (55%), Gaps = 2/78 (2%)
Query: 81 AWPFMEPVDPHEAP--DYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYY 138
AWPF +PVD DY +++K PMD+ TI+ ++ + Y+ EF D+ +F NC Y
Sbjct: 30 AWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLESREYRDAQEFGADVRLMFSNCYKY 89
Query: 139 NPRESPFFKHAHQLEMFF 156
NP + A +L+ F
Sbjct: 90 NPPDHEVVAMARKLQDVF 107
>pdb|2I8N|A Chain A, Solution Structure Of The Second Bromodomain Of Brd4
Length = 114
Score = 57.4 bits (137), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 43/78 (55%), Gaps = 2/78 (2%)
Query: 81 AWPFMEPVDPHEAP--DYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYY 138
AWPF +PVD DY +++K PMD+ TI+ ++ + Y+ EF D+ +F NC Y
Sbjct: 22 AWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKY 81
Query: 139 NPRESPFFKHAHQLEMFF 156
NP + A +L+ F
Sbjct: 82 NPPDHEVVAMARKLQDVF 99
>pdb|3KV4|A Chain A, Structure Of Phf8 In Complex With Histone H3
Length = 447
Score = 57.4 bits (137), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 22/36 (61%), Positives = 27/36 (75%)
Query: 12 KFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNC 47
+F I CD CQDWFHG CVG+ + +A +ID Y CPNC
Sbjct: 18 RFMIECDMCQDWFHGSCVGVEEEKAADIDLYHCPNC 53
>pdb|3DAI|A Chain A, Crystal Structure Of The Bromodomain Of The Human Atad2
Length = 130
Score = 57.0 bits (136), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 42/77 (54%)
Query: 68 LRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGD 127
LR + ++ K F +PVDP E PDY V+K+PMDL ++ +I +Y + +++ D
Sbjct: 15 LRNVTHRLAIDKRFRVFTKPVDPDEVPDYVTVIKQPMDLSSVISKIDLHKYLTVKDYLRD 74
Query: 128 MTKIFDNCRYYNPRESP 144
+ I N YNP P
Sbjct: 75 IDLICSNALEYNPDRDP 91
>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 = 57.0 bits (136), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 29/77 (37%), Positives = 41/77 (53%)
Query: 68 LRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGD 127
LR + K++ K F +PVD E DY V+KEPMDL T+ +I + Y +F+ D
Sbjct: 17 LRDVTKRLATDKRFNIFSKPVDIEEVSDYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKD 76
Query: 128 MTKIFDNCRYYNPRESP 144
+ I N YNP + P
Sbjct: 77 IDLICSNALEYNPDKDP 93
>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 = 57.0 bits (136), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 43/78 (55%), Gaps = 2/78 (2%)
Query: 81 AWPFMEPVDPHEAP--DYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYY 138
AWPF +PVD DY +++K PMD+ TI+ ++ + Y+ EF D+ +F NC Y
Sbjct: 43 AWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKY 102
Query: 139 NPRESPFFKHAHQLEMFF 156
NP + A +L+ F
Sbjct: 103 NPPDHEVVAMARKLQDVF 120
>pdb|2LSP|B Chain B, Solution Structures Of Brd4 Second Bromodomain With
Nf-Kb-K310ac Peptide
Length = 128
Score = 57.0 bits (136), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 43/78 (55%), Gaps = 2/78 (2%)
Query: 81 AWPFMEPVDPHEAP--DYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYY 138
AWPF +PVD DY +++K PMD+ TI+ ++ + Y+ EF D+ +F NC Y
Sbjct: 41 AWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKY 100
Query: 139 NPRESPFFKHAHQLEMFF 156
NP + A +L+ F
Sbjct: 101 NPPDHEVVAMARKLQDVF 118
>pdb|3KQI|A Chain A, Crystal Structure Of Phf2 Phd Domain Complexed With
H3k4me3 Peptide
Length = 75
Score = 55.1 bits (131), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 24/50 (48%), Positives = 30/50 (60%)
Query: 12 KFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNNSSSNLANMKNLT 61
+F I CD C+DWFHG CVG+ + EA +ID Y CPNC + K T
Sbjct: 23 RFMIECDACKDWFHGSCVGVEEEEAPDIDIYHCPNCEKTHGKSTLKKKRT 72
>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 = 55.1 bits (131), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 42/78 (53%)
Query: 79 KSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYY 138
K + PFME VD E P+YY +V PM L ++ + +Y K+ +FI DM +F N +
Sbjct: 214 KLSEPFMELVDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIF 273
Query: 139 NPRESPFFKHAHQLEMFF 156
N + +K A L +F
Sbjct: 274 NDPSALIYKDATTLTNYF 291
Score = 30.0 bits (66), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 38/74 (51%), Gaps = 4/74 (5%)
Query: 94 PDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQLE 153
P YY +++PM + I+ R + S F+ D+ + NC+ YN +S K++ Q+
Sbjct: 96 PQYYYKIQQPMSINEIKSRDYEYE-DGPSNFLLDVELLTKNCQAYNEYDSLIVKNSMQVV 154
Query: 154 M---FFVQKVKILR 164
M F V K K L+
Sbjct: 155 MLIEFEVLKAKNLK 168
>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 = 55.1 bits (131), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 42/78 (53%)
Query: 79 KSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYY 138
K + PFME VD E P+YY +V PM L ++ + +Y K+ +FI DM +F N +
Sbjct: 229 KLSEPFMELVDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIF 288
Query: 139 NPRESPFFKHAHQLEMFF 156
N + +K A L +F
Sbjct: 289 NDPSALIYKDATTLTNYF 306
Score = 30.4 bits (67), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 38/74 (51%), Gaps = 4/74 (5%)
Query: 94 PDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQLE 153
P YY +++PM + I+ R + S F+ D+ + NC+ YN +S K++ Q+
Sbjct: 111 PQYYYKIQQPMSINEIKSRDYEYE-DGPSNFLLDVELLTKNCQAYNEYDSLIVKNSMQVV 169
Query: 154 M---FFVQKVKILR 164
M F V K K L+
Sbjct: 170 MLIEFEVLKAKNLK 183
>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 = 55.1 bits (131), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 27/70 (38%), Positives = 42/70 (60%), Gaps = 1/70 (1%)
Query: 94 PDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQL- 152
PDYY ++KEP+DLKTI RI YK + D+ + N + YN S FK A+ +
Sbjct: 46 PDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKTYNEPGSQVFKDANSIK 105
Query: 153 EMFFVQKVKI 162
++F+++K +I
Sbjct: 106 KIFYMKKAEI 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 = 54.7 bits (130), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 27/70 (38%), Positives = 42/70 (60%), Gaps = 1/70 (1%)
Query: 94 PDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQL- 152
PDYY ++KEP+DLKTI RI YK + D+ + N + YN S FK A+ +
Sbjct: 45 PDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKTYNEPGSQVFKDANSIK 104
Query: 153 EMFFVQKVKI 162
++F+++K +I
Sbjct: 105 KIFYMKKAEI 114
>pdb|3HMF|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 116
Score = 54.7 bits (130), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 27/70 (38%), Positives = 42/70 (60%), Gaps = 1/70 (1%)
Query: 94 PDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQL- 152
PDYY ++KEP+DLKTI RI YK + D+ + N + YN S FK A+ +
Sbjct: 43 PDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKTYNEPGSQVFKDANSIK 102
Query: 153 EMFFVQKVKI 162
++F+++K +I
Sbjct: 103 KIFYMKKAEI 112
>pdb|1WE9|A Chain A, Solution Structure Of Phd Domain In Nucleic Acid Binding
Protein-like Np_197993
Length = 64
Score = 53.9 bits (128), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 21/41 (51%), Positives = 31/41 (75%)
Query: 12 KFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNNSSS 52
+F+ICCD C+ WFHG+CV I + A++I +Y CP+C+N S
Sbjct: 20 EFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNKSG 60
>pdb|2DWW|A Chain A, Crystal Structure Of Bromodomain-Containing Protein 4
Length = 114
Score = 53.5 bits (127), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 40/78 (51%), Gaps = 2/78 (2%)
Query: 81 AWPFMEPVDPHEAP--DYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYY 138
AWPF +PVD DY +++K P D TI+ ++ + Y+ EF D+ F NC Y
Sbjct: 28 AWPFYKPVDVEALGLHDYCDIIKHPXDXSTIKSKLESREYRDAQEFGADVRLXFSNCYKY 87
Query: 139 NPRESPFFKHAHQLEMFF 156
NP + A +L+ F
Sbjct: 88 NPPDHEVVAXARKLQDVF 105
>pdb|3FKM|X Chain X, Plasmodium Falciparum Bromodomain-Containing Protein
Pf10_0328
Length = 166
Score = 52.8 bits (125), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 45/90 (50%), Gaps = 2/90 (2%)
Query: 69 RKLMKQIQAHKSAWPFMEPVDPHEA--PDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIG 126
+L+ + ++ F + VD + PDYY+V+K P I+ ++ + +Y SEF+
Sbjct: 27 NQLILSLSKYEGGHIFEKLVDAKKQNCPDYYDVIKNPXSFSCIKTKLKKGQYAYPSEFVK 86
Query: 127 DMTKIFDNCRYYNPRESPFFKHAHQLEMFF 156
D+ IFDNC YN S +E +F
Sbjct: 87 DVQLIFDNCSLYNTSNSVVAITGKNIETYF 116
>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 = 52.0 bits (123), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 29/94 (30%), Positives = 47/94 (50%), Gaps = 1/94 (1%)
Query: 69 RKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDM 128
++L+ I + + PF +PVD E PDY +++ PMD T+ + Y EF D+
Sbjct: 16 KELVNLIFQCEDSEPFRQPVDLVEYPDYRDIIDTPMDFGTVRETLDAGNYDSPLEFCKDI 75
Query: 129 TKIFDNCRYYNP-RESPFFKHAHQLEMFFVQKVK 161
IF N + Y P + S + +L F +K+K
Sbjct: 76 RLIFSNAKAYTPNKRSKIYSMTLRLSALFEEKMK 109
>pdb|1WEM|A Chain A, Solution Structure Of Phd Domain In Death Inducer-
Obliterator 1(Dio-1)
Length = 76
Score = 50.8 bits (120), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 21/40 (52%), Positives = 28/40 (70%), Gaps = 4/40 (10%)
Query: 12 KFYICCDTCQDWFHGRCVGILQSEA----DNIDEYICPNC 47
+F ICCD C++WFHG CVGI ++ N ++YICPNC
Sbjct: 28 RFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNC 67
>pdb|3MB3|A Chain A, Crystal Structure Of The Second Bromodomain Of Pleckstrin
Homology Domain Interacting Protein (Phip)
Length = 135
Score = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 40/79 (50%), Gaps = 1/79 (1%)
Query: 83 PFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNP-R 141
PF +PVD E PDY +++ PMD T+ + Y+ E D+ IF N + Y P +
Sbjct: 41 PFRQPVDLLEYPDYRDIIDTPMDFATVRETLEAGNYESPMELCKDVRLIFSNSKAYTPSK 100
Query: 142 ESPFFKHAHQLEMFFVQKV 160
S + + +L FF + +
Sbjct: 101 RSRIYSMSLRLSAFFEEHI 119
>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 = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 43/85 (50%)
Query: 68 LRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGD 127
L ++Q+Q F PV AP Y ++K PMD T++ +I YK ++EF D
Sbjct: 18 LEHFLRQLQRKDPHGFFAFPVTDAIAPGYSMIIKHPMDFGTMKDKIVANEYKSVTEFKAD 77
Query: 128 MTKIFDNCRYYNPRESPFFKHAHQL 152
+ DN YN ++ ++K A ++
Sbjct: 78 FKLMCDNAMTYNRPDTVYYKLAKKI 102
>pdb|2I7K|A Chain A, Solution Structure Of The Bromodomain Of Human Brd7
Protein
Length = 117
Score = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 31/104 (29%), Positives = 53/104 (50%), Gaps = 3/104 (2%)
Query: 66 ESLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFI 125
E+L +LM+Q+Q + F PV AP Y ++K PMD T++ +I Y+ + E
Sbjct: 11 EALNQLMRQLQRKDPSAFFSFPVTDFIAPGYSMIIKHPMDFSTMKEKIKNNDYQSIEELK 70
Query: 126 GDMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVKILREKLVE 169
+ + N YN E+ ++K A +L +KIL ++ +E
Sbjct: 71 DNFKLMCTNAMIYNKPETIYYKAAKKL---LHSGMKILSQERLE 111
>pdb|2DKW|A Chain A, Solution Structure Of The Bromodomain Of Human Protein
Kiaa1240
Length = 131
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 39/77 (50%), Gaps = 5/77 (6%)
Query: 68 LRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGD 127
LR + K++ K F +PV DY V+KEPMDL T+ +I + Y +F+ D
Sbjct: 17 LRDVTKRLATDKRFNIFSKPV-----SDYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKD 71
Query: 128 MTKIFDNCRYYNPRESP 144
+ I N YNP + P
Sbjct: 72 IDLICSNALEYNPDKDP 88
>pdb|2R0Y|A Chain A, Structure Of The Rsc4 Tandem Bromodomain In Complex With
An Acetylated H3 Peptide
Length = 311
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 39/78 (50%)
Query: 79 KSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYY 138
K + PF E VD E P+YY +V P L ++ + +Y K+ +FI D +F N +
Sbjct: 179 KLSEPFXELVDKDELPEYYEIVHSPXALSIVKQNLEIGQYSKIYDFIIDXLLVFQNAHIF 238
Query: 139 NPRESPFFKHAHQLEMFF 156
N + +K A L +F
Sbjct: 239 NDPSALIYKDATTLTNYF 256
>pdb|2R0S|A Chain A, Crystal Structure Of The Rsc4 Tandem Bromodomain
Length = 285
Score = 48.1 bits (113), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 39/78 (50%)
Query: 79 KSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYY 138
K + PF E VD E P+YY +V P L ++ + +Y K+ +FI D +F N +
Sbjct: 173 KLSEPFXELVDKDELPEYYEIVHSPXALSIVKQNLEIGQYSKIYDFIIDXLLVFQNAHIF 232
Query: 139 NPRESPFFKHAHQLEMFF 156
N + +K A L +F
Sbjct: 233 NDPSALIYKDATTLTNYF 250
>pdb|1WEP|A Chain A, Solution Structure Of Phd Domain In Phf8
Length = 79
Score = 47.8 bits (112), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 21/35 (60%), Positives = 24/35 (68%)
Query: 13 FYICCDTCQDWFHGRCVGILQSEADNIDEYICPNC 47
F I C CQDWFHG CVGI + A +ID Y CP+C
Sbjct: 26 FMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDC 60
>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 = 46.6 bits (109), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 37/76 (48%)
Query: 81 AWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNP 140
A P + + DYY + +P+DL TIE +I YK + F DM K+F N Y
Sbjct: 33 AAPLLNLPPKKKNADYYEKISDPLDLITIEKQILTGYYKTVEAFDADMLKVFRNAEKYYG 92
Query: 141 RESPFFKHAHQLEMFF 156
R+SP + +L +
Sbjct: 93 RKSPVGRDVCRLRKAY 108
>pdb|3K2J|A Chain A, Crystal Structure Of The 3rd Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
pdb|3K2J|B Chain B, Crystal Structure Of The 3rd Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 130
Score = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 40/88 (45%)
Query: 76 QAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNC 135
Q A PF + PDYY +K P+ L+ I ++ Q Y+ L D+ +F+N
Sbjct: 36 QGQLIAEPFYHLPSKKKYPDYYQQIKMPISLQQIRTKLKNQEYETLDHLECDLNLMFENA 95
Query: 136 RYYNPRESPFFKHAHQLEMFFVQKVKIL 163
+ YN S +K +L+ K K L
Sbjct: 96 KRYNVPNSAIYKRVLKLQQVMQAKKKEL 123
>pdb|3G0J|A Chain A, Crystal Structure Of The Fifth Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
pdb|3G0J|B Chain B, Crystal Structure Of The Fifth Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
pdb|3MB4|A Chain A, Crystal Structure Of The Fifth Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1) With Nmp
pdb|3MB4|B Chain B, Crystal Structure Of The Fifth Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1) With Nmp
Length = 124
Score = 43.9 bits (102), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 35/67 (52%)
Query: 92 EAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQ 151
E PDYY +K+PMD++ I + +Y+ + + D +F+N YN ES +K A
Sbjct: 50 ELPDYYLTIKKPMDMEKIRSHMMANKYQDIDSMVEDFVMMFNNACTYNEPESLIYKDALV 109
Query: 152 LEMFFVQ 158
L ++
Sbjct: 110 LHKVLLE 116
>pdb|2YQD|A Chain A, Solution Structure Of The Fifth Bromodomain From Mouse
Polybromo-1
Length = 120
Score = 43.5 bits (101), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 32/58 (55%)
Query: 92 EAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPFFKHA 149
E PDYY +K+PMD++ I + +Y+ + + D +F+N YN ES +K A
Sbjct: 50 ELPDYYLTIKKPMDMEKIRSHMMANKYQDIDSMVEDFVMMFNNACTYNEPESLIYKDA 107
>pdb|3IU5|A Chain A, Crystal Structure Of The First Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 116
Score = 43.1 bits (100), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 34/59 (57%)
Query: 94 PDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQL 152
PDYY VV +P+DL I+ ++ + Y ++ D +F+N + Y +SP +K A +L
Sbjct: 42 PDYYEVVSQPIDLMKIQQKLKMEEYDDVNLLTADFQLLFNNAKSYYKPDSPEYKAACKL 100
>pdb|3N9L|A Chain A, Cekdm7a From C.Elegans, Complex With H3k4me3 Peptide And
Nog
pdb|3N9M|A Chain A, Cekdm7a From C.Elegans, Alone
pdb|3N9M|C Chain C, Cekdm7a From C.Elegans, Alone
pdb|3N9N|A Chain A, Cekdm7a From C.Elegans, Complex With H3k4me3k9me2 Peptide
And Nog
pdb|3N9O|A Chain A, Cekdm7a From C.Elegans, Complex With H3k4me3 Peptide,
H3k9me2 Peptide And Nog
pdb|3N9P|A Chain A, Cekdm7a From C.Elegans, Complex With H3k4me3k27me2 Peptide
And Nog
pdb|3N9Q|A Chain A, Cekdm7a From C.Elegans, Complex With H3k4me3 Peptide,
H3k27me2 Peptide And Nog
pdb|3PUQ|A Chain A, Cekdm7a From C.Elegans, Complex With Alpha-Kg
pdb|3PUQ|C Chain C, Cekdm7a From C.Elegans, Complex With Alpha-Kg
pdb|3PUR|A Chain A, Cekdm7a From C.Elegans, Complex With D-2-Hg
pdb|3PUR|C Chain C, Cekdm7a From C.Elegans, Complex With D-2-Hg
Length = 528
Score = 40.0 bits (92), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 27/52 (51%)
Query: 14 YICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNNSSSNLANMKNLTPRDF 65
+I CD+CQ W+H C G+ Q E +++ CP C + + K + P +
Sbjct: 58 WIGCDSCQTWYHFLCSGLEQFEYYLYEKFFCPKCVPHTGHSIRYKVVAPHRY 109
>pdb|2DAT|A Chain A, Solution Structure Of The Bromodomain Of Human SwiSNF
Related Matrix Associated Actin Dependent Regulator Of
Cromatin Subfamily A Member 2
Length = 123
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 36/65 (55%)
Query: 92 EAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQ 151
E P+YY ++++P+D K I+ RI +Y+ L + D+ + N + +N S ++ +
Sbjct: 48 ELPEYYELIRKPVDFKKIKERIRNHKYRSLGDLEKDVMLLCHNAQTFNLEGSQIYEDSIV 107
Query: 152 LEMFF 156
L+ F
Sbjct: 108 LQSVF 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 = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 37/66 (56%)
Query: 92 EAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQ 151
E P+YY ++++P+D K I+ RI +Y+ L++ D+ + N + +N S ++ +
Sbjct: 48 ELPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFNLEGSLIYEDSIV 107
Query: 152 LEMFFV 157
L+ F
Sbjct: 108 LQSVFT 113
>pdb|2H60|A Chain A, Solution Structure Of Human Brg1 Bromodomain
Length = 128
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 37/66 (56%)
Query: 92 EAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQ 151
E P+YY ++++P+D K I+ RI +Y+ L++ D+ + N + +N S ++ +
Sbjct: 43 ELPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFNLEGSLIYEDSIV 102
Query: 152 LEMFFV 157
L+ F
Sbjct: 103 LQSVFT 108
>pdb|2GRC|A Chain A, 1.5 A Structure Of Bromodomain From Human Brg1 Protein, A
Central Atpase Of SwiSNF REMODELING COMPLEX
Length = 129
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 37/66 (56%)
Query: 92 EAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPFFKHAHQ 151
E P+YY ++++P+D K I+ RI +Y+ L++ D+ + N + +N S ++ +
Sbjct: 47 ELPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFNLEGSLIYEDSIV 106
Query: 152 LEMFFV 157
L+ F
Sbjct: 107 LQSVFT 112
>pdb|2K16|A Chain A, Solution Structure Of The Free Taf3 Phd Domain
pdb|2K17|A Chain A, Solution Structure Of The Taf3 Phd Domain In Complex
With A H3k4me3 Peptide
Length = 75
Score = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 22/35 (62%), Gaps = 1/35 (2%)
Query: 15 ICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNN 49
I CD C DW+H CVGI+ + + + ++ CP C N
Sbjct: 34 IGCDDCDDWYHWPCVGIMAAPPEEM-QWFCPKCAN 67
>pdb|2KGG|A Chain A, Solution Structure Of Jarid1a C-Terminal Phd Finger
pdb|2KGI|A Chain A, Solution Structure Of Jarid1a C-Terminal Phd Finger In
Complex With H3(1-9)k4me3
pdb|3GL6|A Chain A, Crystal Structure Of Jarid1a-Phd3 Complexed With H3(1-9)
K4me3 Peptide
Length = 52
Score = 35.4 bits (80), Expect = 0.015, Method: Composition-based stats.
Identities = 16/35 (45%), Positives = 23/35 (65%), Gaps = 2/35 (5%)
Query: 14 YICCDT-CQDWFHGRCVGILQSEADNIDEYICPNC 47
++ CD C +WFH CVG+ A+N ++YIC NC
Sbjct: 18 WVQCDGGCDEWFHQVCVGVSPEMAEN-EDYICINC 51
>pdb|3IU6|A Chain A, Crystal Structure Of The Sixth Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 147
Score = 32.7 bits (73), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 34/69 (49%), Gaps = 2/69 (2%)
Query: 90 PHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIGDMTKIFDNCRYYNPRESPFFKHA 149
P P++ N K P+ I + RY++L F M ++ + R N +S ++ A
Sbjct: 38 PAVDPNFPN--KPPLTFDIIRKNVENNRYRRLDLFQEHMFEVLERARRMNRTDSEIYEDA 95
Query: 150 HQLEMFFVQ 158
+L+ FF++
Sbjct: 96 VELQQFFIK 104
>pdb|3LQH|A Chain A, Crystal Structure Of Mll1 Phd3-Bromo In The Free Form
pdb|3LQI|A Chain A, Crystal Structure Of Mll1 Phd3-Bromo Complexed With
H3(1-9)k4me2 Peptide
pdb|3LQI|B Chain B, Crystal Structure Of Mll1 Phd3-Bromo Complexed With
H3(1-9)k4me2 Peptide
pdb|3LQI|C Chain C, Crystal Structure Of Mll1 Phd3-Bromo Complexed With
H3(1-9)k4me2 Peptide
pdb|3LQJ|A Chain A, Crystal Structure Of Mll1 Phd3-Bromo Complexed With
H3(1-9)k4me3 Peptide
pdb|3LQJ|B Chain B, Crystal Structure Of Mll1 Phd3-Bromo Complexed With
H3(1-9)k4me3 Peptide
Length = 183
Score = 29.6 bits (65), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 31/155 (20%), Positives = 64/155 (41%), Gaps = 26/155 (16%)
Query: 17 CDTCQDWFHGRCVG-------ILQSEADNIDEYICPNCNN---SSSNLANMKNLTPRDFE 66
C C W H +C IL + +++ Y C NC + LA K L
Sbjct: 24 CGKCDRWVHSKCENLSDEMYEILSNLPESV-AYTCVNCTERHPAEWRLALEKELQI---- 78
Query: 67 SLRKLMKQIQAHKSAWPFMEPVDPHEAPDYYNVVKEPMDLKTIELRIAQQRYKKLSEFIG 126
SL++++ + ++ + Y ++P+DL+ ++ ++ Q Y + EF
Sbjct: 79 SLKQVLTALLNSRTTSHLLR---------YRQ--QQPLDLEGVKRKMDQGNYTSVLEFSD 127
Query: 127 DMTKIFDNCRYYNPRESPFFKHAHQLEMFFVQKVK 161
D+ KI + + K ++ FF+++++
Sbjct: 128 DIVKIIQAAINSDGGQPEIKKANSMVKSFFIRQME 162
>pdb|2LV9|A Chain A, Solution Nmr Structure Of The Phd Domain Of Human Mll5,
Northeast Structural Genomics Consortium Target Hr6512a
Length = 98
Score = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%), Gaps = 2/38 (5%)
Query: 10 EPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNC 47
+ + ICCD C W H C+GI + D Y+C C
Sbjct: 38 DDGYMICCDKCSVWQHIDCMGIDRQHI--PDTYLCERC 73
>pdb|3ASK|A Chain A, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|B Chain B, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|C Chain C, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|D Chain D, Structure Of Uhrf1 In Complex With Histone Tail
Length = 226
Score = 28.9 bits (63), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 20/42 (47%)
Query: 10 EPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNNSS 51
+P + CD C FH C+ S + DE+ CP C N +
Sbjct: 185 DPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRNDA 226
>pdb|4GY5|A Chain A, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|B Chain B, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|C Chain C, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|D Chain D, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
Length = 241
Score = 28.5 bits (62), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 19/40 (47%)
Query: 10 EPKFYICCDTCQDWFHGRCVGILQSEADNIDEYICPNCNN 49
+P + CD C FH C+ S + DE+ CP C N
Sbjct: 201 DPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN 240
>pdb|1JS8|A Chain A, Structure Of A Functional Unit From Octopus Hemocyanin
pdb|1JS8|B Chain B, Structure Of A Functional Unit From Octopus Hemocyanin
Length = 394
Score = 28.1 bits (61), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 56 NMKNLTPRDFESLRKLMKQIQAHKSAWPFMEPVDPHEAP 94
N+ +LTP D + LR M ++QA S + + H P
Sbjct: 6 NVNSLTPSDIKELRDAMAKVQADTSDNGYQKIASYHGIP 44
>pdb|3FWY|A Chain A, Crystal Structure Of The L Protein Of Rhodobacter
Sphaeroides Light- Independent Protochlorophyllide
Reductase (Bchl) With Mgadp Bound: A Homologue Of The
Nitrogenase Fe Protein
pdb|3FWY|B Chain B, Crystal Structure Of The L Protein Of Rhodobacter
Sphaeroides Light- Independent Protochlorophyllide
Reductase (Bchl) With Mgadp Bound: A Homologue Of The
Nitrogenase Fe Protein
Length = 314
Score = 28.1 bits (61), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 18/32 (56%)
Query: 64 DFESLRKLMKQIQAHKSAWPFMEPVDPHEAPD 95
D + L + I+ +S W ++P+DPH PD
Sbjct: 273 DQDVLAARAEYIRLAESLWRGLDPIDPHSLPD 304
>pdb|1WEE|A Chain A, Solution Structure Of Phd Domain In Phd Finger Family
Protein
Length = 72
Score = 27.7 bits (60), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 17 CDTCQDWFHGRCVGILQSEA 36
CD C W H RC+GI ++A
Sbjct: 34 CDGCGVWHHTRCIGINNADA 53
>pdb|1GZJ|A Chain A, Structure Of Thermoascus Aurantiacus Family 5
Endoglucanase
pdb|1GZJ|B Chain B, Structure Of Thermoascus Aurantiacus Family 5
Endoglucanase
Length = 304
Score = 27.3 bits (59), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 88 VDPHEAPDYYN-VVKEPMDLKTIELRIAQQ 116
VDPH YYN ++ P D +T +A Q
Sbjct: 89 VDPHNYGRYYNSIISSPSDFQTFWKTVASQ 118
>pdb|1MM2|A Chain A, Solution Structure Of The 2nd Phd Domain From Mi2b
pdb|2L75|A Chain A, Solution Structure Of Chd4-Phd2 In Complex With H3k9me3
Length = 61
Score = 26.9 bits (58), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 15 ICCDTCQDWFHGRCVGILQSEADNIDEYICPNCN 48
+CCDTC +H C+ E N E++CP C
Sbjct: 22 LCCDTCPSSYHIHCLNPPLPEIPN-GEWLCPRCT 54
>pdb|1H1N|A Chain A, Atomic Resolution Structure Of The Major Endoglucanase
From Thermoascus Aurantiacus
pdb|1H1N|B Chain B, Atomic Resolution Structure Of The Major Endoglucanase
From Thermoascus Aurantiacus
Length = 305
Score = 26.9 bits (58), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 88 VDPHEAPDYYN-VVKEPMDLKTIELRIAQQ 116
VDPH YYN ++ P D +T +A Q
Sbjct: 90 VDPHNYGRYYNSIISSPSDFETFWKTVASQ 119
>pdb|2XB1|A Chain A, Crystal Structure Of The Human Pygo2 Phd Finger In
Complex With The B9l Hd1 Domain
pdb|2XB1|C Chain C, Crystal Structure Of The Human Pygo2 Phd Finger In
Complex With The B9l Hd1 Domain
Length = 105
Score = 26.6 bits (57), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 15 ICCDTCQDWFHGRCVGILQS 34
+C +CQ WFH C G+ +S
Sbjct: 21 LCEASCQKWFHRECTGMTES 40
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
0.324 0.138 0.435
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,188,355
Number of Sequences: 62578
Number of extensions: 196314
Number of successful extensions: 688
Number of sequences better than 100.0: 119
Number of HSP's better than 100.0 without gapping: 107
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 538
Number of HSP's gapped (non-prelim): 126
length of query: 171
length of database: 14,973,337
effective HSP length: 92
effective length of query: 79
effective length of database: 9,216,161
effective search space: 728076719
effective search space used: 728076719
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 48 (23.1 bits)